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 composition-based statistics: 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 >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 = 260 bits (664), Expect = 2e-67, 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|220929165|ref|YP_002506074.1| pseudouridine synthase [Clostridium cellulolyticum H10] gi|219999493|gb|ACL76094.1| pseudouridine synthase [Clostridium cellulolyticum H10] Length = 235 Score = 219 bits (558), Expect = 5e-55, Method: Composition-based stats. Identities = 82/230 (35%), Positives = 121/230 (52%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K IA AG+ASRR E MI Q RV VN +++ V + D + VDG P++ E Sbjct: 3 GIRLQKFIAHAGVASRRTAEEMIKQGRVAVNNTVVQDMGFTVSNDDFVTVDGKPVKIEEE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP+G V+T D GR TV D + R+ VGRLD +T GL+LLTNDG Sbjct: 63 KVYIMLHKPVGYVSTSQDQFGRPTVVDLVKDAGKRLYPVGRLDYDTSGLILLTNDGDFTY 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY G +++++ + G+ I+ + + ++G N V + Sbjct: 123 RLTHPKHEINKVYEAVISGFPEKNEIKSFESGLKIENYQTSPAEFVVLEKQGINTLVRIT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++K+ E KV L RI GP L L G R +S + L+ Sbjct: 183 IHEGKNRQVRKMCEAIGHKVLTLKRIQIGPIALDNLPVGKWRHLSLRELK 232 >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 = 217 bits (553), Expect = 2e-54, Method: Composition-based stats. Identities = 141/341 (41%), Positives = 187/341 (54%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++KV++RAGIASRRE ERMI +V VNG ++ A+NV + D I VDG P+ Sbjct: 15 PEGDRIAKVLSRAGIASRREAERMIELGQVAVNGKVITSPALNVTAKDRITVDGKPVAAP 74 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E RLWLY+KP GLVT+ +D GR T++D +P RV++VGRLD+N+EGLLLLTNDG L Sbjct: 75 EPARLWLYYKPEGLVTSDNDEKGRETIYDQMPEDLPRVMAVGRLDLNSEGLLLLTNDGEL 134 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 R LELPST WLR YRVR G L L+ GI ++G + M V +D +G+NAW+T Sbjct: 135 KRRLELPSTGWLRKYRVRIKGNPTDPDLEPLRAGITVEGERFQPMLVVIDRIQGANAWLT 194 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 VGLREGKNREI++ N VNRLIRISYGPF+LG L G EV K+LR+QLG Sbjct: 195 VGLREGKNREIRRAMFALNLTVNRLIRISYGPFRLGDLQPGEVAEVRGKVLRDQLGFDPR 254 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E + + + + + K S + + +A + Sbjct: 255 AEDEELSTSGKPAPKKPATRTLAPRTPAKPGAKPGAKPSRGVAKPAAEAPVARAKPVKPG 314 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 G S + R E + +P P +R Sbjct: 315 PGWAKAQPGGKSGPGPKATSRNEGAKPAPRSPGRRPPAGPR 355 >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 = 216 bits (551), Expect = 3e-54, Method: Composition-based stats. Identities = 81/229 (35%), Positives = 118/229 (51%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A AG+ASRR+ E MI Q RV VN +++E V D + VDG P+ E Sbjct: 4 IRLQKYLAHAGVASRRKAEEMIKQGRVAVNNVIIENMGATVTCNDVVTVDGKPVTTEEAK 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP+G V+T D GR V D + R+ VGRLD +T GL+LLTNDG Sbjct: 64 VYIMLNKPVGYVSTSKDQFGRPAVIDLVKDAGKRLYPVGRLDYDTSGLILLTNDGDFTYR 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY G D++++ + G+ I + + +KG N V + + Sbjct: 124 LTHPKHEVNKVYEAVISGFPDKNEITRFETGLKIDDYQTSPAEFEVLNKKGINTLVRITI 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNR+++K+ E KV L RI GP L L G R +S ++ Sbjct: 184 HEGKNRQVRKMCEAIGHKVLTLKRIQIGPIALENLPEGKWRHLSDNEVK 232 >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 = 216 bits (549), Expect = 5e-54, Method: Composition-based stats. Identities = 164/377 (43%), Positives = 217/377 (57%), Gaps = 29/377 (7%) 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 PHLLEEAQVNLDAPIYSS------------------------ETLVRDRPNIISEVPDDF 282 L+ +A + DAPI + R ++ + Sbjct: 241 ERLIMQANADFDAPILKPFSNSPVIAEKQSQKDVSVANDGWVFSSERVIRRRSNDGSVEH 300 Query: 283 TRMKKNSSQKNGLSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQ--REENHRR 337 R + + ++K K R R+ +NVWMA G E++H Sbjct: 301 DRARLRAKSHENMNKGKSEEGKAERFLPRSRRANVWMAPGARPQSARRKPSYNEEKSHDH 360 Query: 338 SPSFPSKRSLRRTSAKK 354 K+S R K+ Sbjct: 361 KGDTADKKSFYRGKEKR 377 >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 = 215 bits (548), Expect = 6e-54, Method: Composition-based stats. Identities = 173/377 (45%), Positives = 216/377 (57%), 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 PHLLEEAQVNLDAPIYSSETLVRDRPNI----------------------ISEVPDDFTR 284 L+ +A N DAPI S + R Sbjct: 241 ERLIMQANANFDAPILKSFSNSVVVAEKQNHKDLAITNDGWIFSSIGDVQRRRRGGFSER 300 Query: 285 MKKNSSQKNGL---SKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSG--QREENHR 336 + S K G ++K R R+ SNVWMA G + H Sbjct: 301 SRARLSTKPGEKFMRQEKSEGGKAERFLPRSRRSNVWMAPGARPQSTRKKSFYSEDTPHD 360 Query: 337 RSPSFPSKRSLRRTSAK 353 + KRSL R K Sbjct: 361 YKSNLAGKRSLHRGKEK 377 >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 = 214 bits (544), Expect = 2e-53, Method: Composition-based stats. Identities = 164/376 (43%), Positives = 217/376 (57%), Gaps = 29/376 (7%) 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 PHLLEEAQVNLDAPIYSS------------------------ETLVRDRPNIISEVPDDF 282 L+ +A + DAPI + R + + Sbjct: 241 ERLIMQANADFDAPILKPFSNSAVVAEKQSQKDLSVANDGWVFSSERAIRRRPRDGSVEH 300 Query: 283 TRMKKNSSQKNGLSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSG--QREENHRR 337 +R + ++ + K+K R R+ +NVWMA G E++H Sbjct: 301 SRARLSTKSHENVKKEKSEEGKAERFLPRSRRANVWMAPGARPQSTRRKPSYSEEKSHDH 360 Query: 338 SPSFPSKRSLRRTSAK 353 ++S R K Sbjct: 361 KSDLDGRKSFHRGKEK 376 >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 = 213 bits (541), Expect = 5e-53, Method: Composition-based stats. Identities = 82/234 (35%), Positives = 119/234 (50%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K +A G+ASRR+ E +I+Q RVKVNG + + V D +EVDG ++ + Sbjct: 2 KEMRLQKYLAECGVASRRKAEELISQGRVKVNGETVTQMGKKVSQNDVVEVDGKLVKMEK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +KP+G +++ D GR TV D + I R+ VGRLD +T GLLLLTNDG A Sbjct: 62 RKVYIALNKPVGYISSVKDQFGRKTVMDLVKDIKERIFPVGRLDYDTSGLLLLTNDGDFA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY G +D + K G+ I + G V + Sbjct: 122 YRLTHPKHEIKKVYEADLLGVPSKDDIMRFKNGLWIDDYFTSPADFEILKSDGKTTKVRI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EGKNR+++K+ V RL RIS G LG L GS R ++++ + L Sbjct: 182 TIHEGKNRQVRKMCNKIGCPVIRLKRISIGEVSLGDLKEGSWRNLTEREINSFL 235 >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 = 212 bits (539), Expect = 7e-53, Method: Composition-based stats. Identities = 176/378 (46%), Positives = 218/378 (57%), 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 PHLLEEAQVNLDAPIYSSETLVR-------------DRPNIISEVPDDFTRMKKNSSQKN 293 L+ +A + DAPI + IS D R ++ SS + Sbjct: 241 ERLIMQANADFDAPILKPFSNTAVVAEKRSHKDLTVANDGWISSHGGDLRRRQRKSSAER 300 Query: 294 GL------------SKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQREEN--HR 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|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 = 212 bits (539), Expect = 7e-53, 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 KSRSGDPAK-QRSGAPPRTRSGDPVKARTDGPARARADGPGKPRGSGPR 348 >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 = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 144/347 (41%), Positives = 193/347 (55%), Gaps = 2/347 (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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + R + ++ G ++ ++ A P Sbjct: 241 LDPHADGEARPARGRKPEGAARPARSEGAAR--PARAEGGARPARAEGAARSERTARPPR 298 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 +G S + + H + + + R++ K Sbjct: 299 GAAAEGPARAGRGAGSEGAAGPAKGRSPHGAARRAGAPKDSARSAGK 345 >gi|319408053|emb|CBI81707.1| Pseudouridine synthase [Bartonella schoenbuchensis R1] Length = 486 Score = 210 bits (535), Expect = 2e-52, Method: Composition-based stats. Identities = 165/375 (44%), Positives = 219/375 (58%), 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 REQLGPHLLEEAQVNLD-----APIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 R+QLG L+ +A + D S ++ + + DD + N ++ S Sbjct: 269 RDQLGERLIAQANADFDSPILKPFSNSVVSVKKQNSKKLFVAGDDEVVSRVNGTRHEKQS 328 Query: 297 K--QKKLATPVHR--------------RNLASNVWMAKGIHSSFLSDS--GQREENHRRS 338 + + A + R+ SNVWMA G H RS Sbjct: 329 GFCEGRRARLNTKSDEQSMGKTKNLSLRSRHSNVWMAPGARPQVERKKFCYNEGSYHNRS 388 Query: 339 PSFPSKRSLRRTSAK 353 + K+ R K Sbjct: 389 SDYVGKKFSGREKEK 403 >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 = 209 bits (532), Expect = 5e-52, Method: Composition-based stats. Identities = 144/346 (41%), Positives = 196/346 (56%) 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 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + ++ S G + + + + + Sbjct: 357 SGKASAGKPGAGKPSGTKSFGSKPASGAGARKTGGPSGGKSAPGAR 402 >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 = 208 bits (530), Expect = 9e-52, Method: Composition-based stats. Identities = 70/344 (20%), Positives = 131/344 (38%), Gaps = 10/344 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG L V D + +D PLR Sbjct: 2 STPTEKRLNKYISETGFCSRREADKLIEQGRVTINGQLP-EMGTKVSDDDEVCIDDKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E+ +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKEKPVYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + D + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKAITADFIKQMSSGVRILDTVTLPCKVT----QETKFS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +++ + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTEAEVAEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + S + ++ ++N G + + P Sbjct: 235 EASSGTEEASRVDSQGQRIRKATDAKLFDSREENQPSKARRNPKTFRGHNADEFRHAPNS 294 Query: 307 RRN-LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 ++ S + + +H P+ K + R Sbjct: 295 KKGKTRSERPDSSRADNRADRKPKSTGFHHSGKPASAGKPAAAR 338 >gi|315179378|gb|ADT86292.1| pseudouridine synthase family 1 protein [Vibrio furnissii NCTC 11218] Length = 347 Score = 208 bits (529), Expect = 1e-51, Method: Composition-based stats. Identities = 70/344 (20%), Positives = 131/344 (38%), Gaps = 10/344 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG L V D + +D PLR Sbjct: 2 STPTEKRLNKYISETGFCSRREADKLIEQGRVTINGQLP-EMGTKVSDDDEVCIDDKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E+ +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKEKPVYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + D + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKAITADFIKQMSSGVRILDTVTLPCKVT----QETKFS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +++ + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTEAEVAEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + S + ++ ++N G + + P Sbjct: 235 EASSGTEEASRVDSQGQRIRKATDAKLFDSREENQPSKARRNPKTFRGHNADEFRHAPNS 294 Query: 307 RRN-LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 ++ S + + +H P+ K + R Sbjct: 295 KKGKTRSERPDSSRADNRTDRKPKSTGFHHSGKPASAGKPAAAR 338 >gi|221638684|ref|YP_002524946.1| Pseudouridine synthase [Rhodobacter sphaeroides KD131] gi|221159465|gb|ACM00445.1| Pseudouridine synthase [Rhodobacter sphaeroides KD131] Length = 491 Score = 208 bits (529), Expect = 1e-51, Method: Composition-based stats. Identities = 141/349 (40%), Positives = 186/349 (53%), Gaps = 1/349 (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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS-KQKKLATPV 305 + + R + + ++ + P Sbjct: 241 LDPHADGEARPAKGRKPEGAARPARSESAARRARAEGGARSEKPARSPRGAAAEGPTRPA 300 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + +G + ++ R R A + Sbjct: 301 RGAGSEGSAGATRGRSPQGAAPKAGAPKDGARFAGKGPAEGARPARASR 349 >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 = 208 bits (528), Expect = 1e-51, Method: Composition-based stats. Identities = 138/340 (40%), Positives = 186/340 (54%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ + R++KV++RAG+ASRRE ERMI RV+VNG ++ A+NV D I Sbjct: 13 QNTDTDASTSKGDRIAKVLSRAGVASRREAERMIEAGRVRVNGEQIDSPALNVTPEDKIT 72 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VD P+ E R+WLYHKP GLVTT D GR T+FD+LP RV+++GRLD+N+EGL Sbjct: 73 VDNTPVGAPEPPRMWLYHKPAGLVTTARDEKGRETIFDDLPEDMPRVMTIGRLDLNSEGL 132 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGG+ R LELPST WLR YR R +G+ + L L++GI ++G + M VTLD Sbjct: 133 LLLTNDGGVKRKLELPSTGWLRRYRARVNGRPTDEMLEPLRRGITVEGENFLPMDVTLDR 192 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 Q+G+NAW+T+GLREG+NREI++ E VNRLIR SYGPFQLG L G E+ +KI+ Sbjct: 193 QQGANAWLTIGLREGRNREIRRAMEAVGLTVNRLIRTSYGPFQLGELKTGEVEELRRKIV 252 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+QLG L + + P R + + K Sbjct: 253 RDQLGLELEDPTGTAVKKPTAVRRPPRRKPGGFGGAGQPGMPVQRGEDDEPPPRRGGGKA 312 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 + A G + + R P Sbjct: 313 KNAPRGKAAAGRTADKPGARPGSRTGGKPAGKPGSRGPKP 352 >gi|303242311|ref|ZP_07328797.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] gi|302590150|gb|EFL59912.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] Length = 237 Score = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 80/230 (34%), Positives = 122/230 (53%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K IA G+ASRR+ E +I Q VKVNGI++ + V S+D +EV+G ++ Sbjct: 2 EMTRLQKYIADCGVASRRKAEELIQQGSVKVNGIVVSEMGIKVSSSDRVEVNGSVIKPES 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L +KP G VTT D R TV D L + RV VGRLD T GLL+LTNDG Sbjct: 62 KKVYILLNKPSGYVTTVKDQFRRPTVIDLLKGVDERVFPVGRLDYETTGLLVLTNDGDFT 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y+ G +D+++ + G+ I+ ++ + + K + V Sbjct: 122 HKMTHPRHEIEKTYQATIAGTPTKDEIHSFESGLEIEDYVTSPAKLKIISTKERTCVIEV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+NR+++K+ E V L RIS G LG L GS RE+++ + Sbjct: 182 TIHEGRNRQVRKMCEAIGHPVLALKRISLGKVTLGNLPEGSWRELTRDEV 231 >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 = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 149/342 (43%), Positives = 186/342 (54%), Gaps = 3/342 (0%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R++KVIARAG ASRRE ERMIA+ RV VNG +++ A+NV D I VD Sbjct: 1 MDNKTPPGDRIAKVIARAGRASRREAERMIAEGRVAVNGTVIDSPALNVTDKDRITVDDT 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL E RLWLYHK GLVTT D GR T++D+LP RV+SVGRLD+N+EGLLLLT Sbjct: 61 PLDGPEEARLWLYHKSTGLVTTTKDEQGRPTIYDDLPDDLPRVMSVGRLDLNSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGL R LELPST WLR YRVR +G+ L L+ G+ + G + M V+LD Q+G+ Sbjct: 121 NDGGLKRRLELPSTGWLRRYRVRINGRPTDPMLQPLRDGLTVDGQTFQPMIVSLDRQQGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+TVGLREGKNREI++ VNRLIRISYGPFQLG + G +EV +KILR+QL Sbjct: 181 NAWLTVGLREGKNREIRRAMADLGLSVNRLIRISYGPFQLGQMKPGEVQEVRRKILRDQL 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ--KNGLSKQKKLAT 303 G L E + + R S P K Sbjct: 241 GLGLDAEPEAEAKPKPGLQPRTRKSRAAPTSAKPVPARSGAGGGKSVTGGPARKSTSPGA 300 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 ++ A + R PS P + Sbjct: 301 KPAGKSGPKPGGRAGPAKGKPTRSAPSRP-GAGHGPSKPRRG 341 >gi|257877013|ref|ZP_05656666.1| pseudouridine synthase [Enterococcus casseliflavus EC20] gi|257811179|gb|EEV39999.1| pseudouridine synthase [Enterococcus casseliflavus EC20] Length = 257 Score = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 63/247 (25%), Positives = 107/247 (43%), Gaps = 4/247 (1%) 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 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ + L + T + + + + VGRLD +TEG LL+ Sbjct: 71 EPIAYQSQFYYLLNKPAGVISATVDSYEETVLDLFSEEAFREDLFPVGRLDKDTEGFLLI 130 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDGGLA L P + Y + G + + + KGI + G ++ + Sbjct: 131 TNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKIFAKGIKLDGEWTLPAELQILNVDE 190 Query: 185 S--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + L EGK ++K++ +V L RI G L L G RE++ + L Sbjct: 191 DEMRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELTSEEL 250 Query: 242 REQLGPH 248 + Sbjct: 251 AKLQERR 257 >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 = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 67/345 (19%), Positives = 120/345 (34%), Gaps = 12/345 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R++K I+ G SRRE +R+I Q RV +NG + V+ D + VD P+ Sbjct: 2 SQDAKRLNKFISETGFCSRREADRLIEQGRVTINGKVP-EMGTKVLPGDDVCVDDKPISA 60 Query: 70 AERT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 VTDKPVYIALNKPTGITCTTERDI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +V K + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKPITEQFIKKMSSGVDILDTTTLPCKV----SKETKFS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGQWRYLSDDEIGEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + + R+ D + S + ++ Sbjct: 235 ESSSGTEDASK----VDARGRNIRKATDAKLFDSREENQESKARRNQKQRTFKGKNAEEF 290 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A N +G S S + P + Sbjct: 291 RHAPNSKKGRGGKSDSKSKPSTNKGKSVYKPKSDKPAQRPSNKPR 335 >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 = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 63/240 (26%), Positives = 108/240 (45%), Gaps = 4/240 (1%) 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 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ + L + T + + + + VGRLD +TEG LL+ Sbjct: 64 EPIVYQSQFYYLLNKPAGVISATVDSYEETVLDLFSEEAFREDLFPVGRLDKDTEGFLLI 123 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--Q 182 TNDGGLA L P + Y + G + + KGI + G ++ + + Sbjct: 124 TNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKTFAKGIKLDGEWTLPAELQILNVDE 183 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + + L EGK ++K++ +V L RI G L L G RE++ + L Sbjct: 184 DETRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELTPEEL 243 >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 = 207 bits (526), Expect = 2e-51, Method: Composition-based stats. Identities = 179/372 (48%), Positives = 233/372 (62%), 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 EEAQVNLDAP-----------------------IYSSETLVRDRPNIISEVPDDFTRMKK 287 +++ N DAP E R ++ + + Sbjct: 284 ADSKANFDAPIYNDQPAAAEPEAEPADHDKAEWGSKREKAEDKRERALARLDTRRDDGRP 343 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR-----EENHRRSPSFP 342 + ++ +++ A P RRN +SNVWMA G + + RR+P+ Sbjct: 344 SERGRSRGKPEERPARPPVRRNRSSNVWMAPGARPTVEKKPKAAEDDLSPKGARRAPAEG 403 Query: 343 SKRSLRRTSAKK 354 +R + +A K Sbjct: 404 KRRDRPKDAAAK 415 Score = 37.5 bits (85), Expect = 3.3, Method: Composition-based stats. Identities = 18/131 (13%), Positives = 27/131 (20%), Gaps = 12/131 (9%) Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 E K + L P A + + + + G Sbjct: 381 EKKPKAAEDDLSPKGARRAPAEGKRRDRPKDAAAKAGGFDAERQGKAGKSAGRKDAAGAG 440 Query: 295 LSKQKKL------------ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 ++++ P R N V A SS R SF Sbjct: 441 GFERRRPLESAERKSRDHGDRPPRRPNGERAVRPADDRTSSEGRKESARPPRGDGKKSFA 500 Query: 343 SKRSLRRTSAK 353 R K Sbjct: 501 GDRPRASAGGK 511 >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 = 207 bits (526), Expect = 3e-51, Method: Composition-based stats. Identities = 179/372 (48%), Positives = 233/372 (62%), 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 EEAQVNLDAP-----------------------IYSSETLVRDRPNIISEVPDDFTRMKK 287 +++ N DAP E R ++ + + Sbjct: 284 ADSKANFDAPIYNDQPAAAEPEAEPADHGKAEWGSKREKAEDKRERALARLDTRRDDGRP 343 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR-----EENHRRSPSFP 342 + ++ +++ A P RRN +SNVWMA G + + RR+P+ Sbjct: 344 SERGRSRGKPEERPARPPVRRNRSSNVWMAPGARPTVEKKPKAAEDDLSPKGARRAPAEG 403 Query: 343 SKRSLRRTSAKK 354 +R + +A K Sbjct: 404 KRRDRPKDAAAK 415 Score = 37.5 bits (85), Expect = 3.4, Method: Composition-based stats. Identities = 18/131 (13%), Positives = 27/131 (20%), Gaps = 12/131 (9%) Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 E K + L P A + + + + G Sbjct: 381 EKKPKAAEDDLSPKGARRAPAEGKRRDRPKDAAAKAGGFDAERQGKAGKSAGRKDAAGAG 440 Query: 295 LSKQKKL------------ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 ++++ P R N V A SS R SF Sbjct: 441 GFERRRPLESAERKSRDHGDRPPRRPNGERAVRPADDRTSSEGRKESARPPRGDGKKSFA 500 Query: 343 SKRSLRRTSAK 353 R K Sbjct: 501 GDRPRASAGGK 511 >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 = 206 bits (525), Expect = 3e-51, Method: Composition-based stats. Identities = 138/319 (43%), Positives = 173/319 (54%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R++KV+ARAGIASRRE ER+IA+ RV VNG ++ A+NV D I DG P+ Sbjct: 4 NTTPPGDRIAKVLARAGIASRREAERLIAEGRVAVNGKTVDSPALNVTEADKITFDGTPI 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E RLW YHKP+GLVTT D GR TVFD LP+ RV+SVGRLD+N+EGLLLLTND Sbjct: 64 AEPEPPRLWRYHKPVGLVTTAKDEKGRETVFDALPADLPRVMSVGRLDLNSEGLLLLTND 123 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + R LELP+T WLR YRVR G +D L L+ GI ++G + M+ LD +G+NA Sbjct: 124 GEIKRRLELPTTGWLRRYRVRVKGAPTEDDLAPLRAGIEVEGERFKPMEARLDRLQGANA 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREG+NREI++ VNRLIRISYGPF+LG L G E+ +ILREQLG Sbjct: 184 WLTLGLREGRNREIRRAMGALGLVVNRLIRISYGPFRLGELKPGEVEEIKGRILREQLGL 243 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 E A K G K Sbjct: 244 ESPEPPVGTAQARPKRGPGRKPGATPGGKPTGKPSRAPNARPGAKPGGKPGAKPDPKPGA 303 Query: 308 RNLASNVWMAKGIHSSFLS 326 R ++ Sbjct: 304 RAGSARRKAPARPRPERGR 322 >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 = 206 bits (524), Expect = 4e-51, Method: Composition-based stats. Identities = 146/345 (42%), Positives = 198/345 (57%), Gaps = 3/345 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++KV++RAG+ASRRE ERMIA+ RVKVNG ++ A+NV D I VDG PL +AE Sbjct: 40 GDRIAKVLSRAGVASRREAERMIAEGRVKVNGTKIDSPALNVTERDRIIVDGKPLPQAEA 99 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 RLWLY+KP GLVT++SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ R Sbjct: 100 PRLWLYNKPTGLVTSNSDEKGRRTIFDELPEDLPRVMTVGRLDLNSEGLLLLTNDGGIKR 159 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELPST WLR YRVR +G+ + L+KG+VI+G + M V LD Q+G+NAW+T+G Sbjct: 160 RLELPSTGWLRRYRVRINGRPKDEDFEPLRKGMVIEGERFQPMTVALDRQQGANAWLTIG 219 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREI++ E + VNRL+R+SYGPFQLG+L G E+ +++R+QLG + Sbjct: 220 LREGKNREIRRALEDIGFNVNRLLRLSYGPFQLGSLKLGEVEELRPRVVRDQLGLEAEDM 279 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + P + + + K + A R Sbjct: 280 EETPAARPTRGRPGAKPGQKPSGKPGSKTAPKSGGMTFGKPKGKPTGRPADESTGRPTGK 339 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR---SLRRTSAKK 354 + G S N + S + R R ++ K Sbjct: 340 SSGKPGGKPSGKPGTRSAGSFNDKPGGSGAASRNGKPGPRGASSK 384 >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 = 206 bits (524), Expect = 4e-51, Method: Composition-based stats. Identities = 146/341 (42%), Positives = 189/341 (55%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E P+R++KV+ARAG+ASRR+ E MI + RV +NG L AV V D I VDG PL Sbjct: 34 SETAEPERIAKVMARAGVASRRDAEAMILEGRVSLNGETLTTPAVTVGPGDRIVVDGEPL 93 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ERTRLW++HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTND Sbjct: 94 PVRERTRLWIFHKPRGVVTTARDPEGRQTVFDILPEDLPRVVAIGRLDINTEGLLLLTND 153 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLA+V+ P T WLR YRVR +G VDQ L+ L+ G+ I G+ YG ++ ++D Q+G N Sbjct: 154 GGLAKVIAHPETGWLRRYRVRAYGDVDQAALDRLRGGVTIDGMEYGPVEASIDRQQGDNV 213 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G EV K+L+EQLG Sbjct: 214 WLTLGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTKVLKEQLGR 273 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L E+A V+ +P+ + + + Sbjct: 274 SLAEQAGVDFTSPVREPIAPFGSPKPPAPAAGRTGAPGRDRPRGERPDRSARPDRGERLD 333 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 R F R R Sbjct: 334 RGERPARPGRDPARPQFARPPAPGARPERDRKPATGPALRR 374 >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 = 206 bits (523), Expect = 6e-51, Method: Composition-based stats. Identities = 62/240 (25%), Positives = 108/240 (45%), Gaps = 4/240 (1%) 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 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ + L + T + + + + VGRLD +TEG LL+ Sbjct: 71 EPIAYQSQFYYLLNKPAGVISATVDSYEETVLDLFSEEAFREDLFPVGRLDKDTEGFLLI 130 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--Q 182 TNDGGLA L P + Y + G + + + KGI + G ++ + + Sbjct: 131 TNDGGLAHQLLSPKKHVEKEYYAQVEGIMTAEDQKIFAKGIKLDGEWTLPAELQILNVDE 190 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + + L EGK ++K++ +V L RI G L L G RE++ + + Sbjct: 191 EEMRSEIKLILHEGKFHQVKRMVHAVGKEVVYLKRIRMGGLSLPDDLALGEYRELTSEEM 250 >gi|27262400|gb|AAN87481.1| Ribosomal large subunit pseudouridine synthase B [Heliobacillus mobilis] Length = 253 Score = 205 bits (522), Expect = 6e-51, Method: Composition-based stats. Identities = 89/255 (34%), Positives = 138/255 (54%), Gaps = 4/255 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK+ V T +R+ KV+A G+ASRRE E I RV+VNG ++ + V D Sbjct: 1 MKE---VLSTTTAERLQKVLAAHGLASRREAEDWIRAGRVQVNGTVVTELGLRVEEGKDV 57 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I+VDG PL ER + +L +KP G VTT DP+GR TV D L + +R+ VGRLD +TE Sbjct: 58 IQVDGKPLTVRERHQYFLLYKPRGFVTTRKDPEGRPTVIDLLKDVPARIYPVGRLDQDTE 117 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG LA L P + Y R G V + +G++++ +V + Sbjct: 118 GLLLLTNDGELAYRLTHPKYGVEKTYHARMRGNVPDPVIKAFAEGVMLEDGLTAPAKVKV 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++G W+ + + EG+NR+++++ + + V L R+S+GP + L G+ R + + Sbjct: 178 LDREGGATWIELTIHEGRNRQVRRMGDAVGYPVVHLTRVSFGPLTISGLKPGAYRPLKPQ 237 Query: 240 ILREQLGPHLLEEAQ 254 +R + + Sbjct: 238 EVRALQRAAECKADR 252 >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 = 205 bits (522), Expect = 6e-51, 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|212638876|ref|YP_002315396.1| Pseudouridine synthase [Anoxybacillus flavithermus WK1] gi|212560356|gb|ACJ33411.1| Pseudouridine synthase [Anoxybacillus flavithermus WK1] Length = 255 Score = 205 bits (522), Expect = 7e-51, Method: Composition-based stats. Identities = 78/246 (31%), Positives = 126/246 (51%), Gaps = 3/246 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + E +R+ KVIA AG+ASRR+ E++I + +VKVNG ++ V V D IEVDG Sbjct: 3 KLYSEVNEMERLQKVIAHAGVASRRKAEQLIVEGKVKVNGKVVTELGVKVSPQDRIEVDG 62 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 +PL + E LY + + + GR V D + R+ +GRLD +T GLLLL Sbjct: 63 IPLEREEPVYYLLYKPRGVISSVKDE-KGRKVVTDFFKHVNKRIYPIGRLDYDTSGLLLL 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG A +L P + +VY + G ++K+ L+KG++++ + + + Sbjct: 122 TNDGEFANILMHPRYEIEKVYIAKVKGIPAREKVKQLEKGVMLEDGVTAPAKAKVLSIDK 181 Query: 185 SNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE V +L R Y L L G RE+S ++ Sbjct: 182 RKQTAIVELRIHEGRNRQVRRMFEAIGHPVLKLKRERYAFLDLKGLNPGDYRELSPHEVK 241 Query: 243 EQLGPH 248 + Sbjct: 242 QLRALA 247 >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 = 205 bits (522), Expect = 8e-51, Method: Composition-based stats. Identities = 170/378 (44%), Positives = 225/378 (59%), 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 REQLGPHLLEEAQVNLDAPIYSSET-----LVRDRPNIISEVPDDFTRMKKNSSQK---- 292 R+QLG L+ +A N DAPI + + + +S+ D++ + Q+ Sbjct: 273 RDQLGERLIMQANANFDAPILKPFSNSAVVVKQQSNKKLSQANDEWISSSGHHKQRNKKD 332 Query: 293 ------NGLSKQKKLATPVHRRNL--------ASNVWMAKGIHSSFLSDSG--QREENHR 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|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 = 205 bits (521), Expect = 8e-51, Method: Composition-based stats. Identities = 69/345 (20%), Positives = 128/345 (37%), Gaps = 12/345 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +R+I Q RV +NG + V S D + VD P+ Sbjct: 2 SQDTGKRLNKFISETGFCSRREADRLIEQGRVTINGKIP-EMGTKVQSGDDVRVDDKPIA 60 Query: 69 K-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +++ +KP G+ T + R+ +GRLD ++GL+ LTND Sbjct: 61 AASDKPIYIALNKPTGITCTTERDI--PGNIVDFVGHKKRIFPIGRLDKPSDGLIFLTND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y VR + D + + G+ I +V +K + Sbjct: 119 GDIVNKILRAGNNHEKEYVVRVDKPISDDFIKKMSSGVNILDTVTLPCKV----EKETKY 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 175 SFRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLTDAEVAEILAM 234 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + R E + R + G + + Sbjct: 235 CEDSSGTEEASKMDAKGKRIRRATDAKLFDSREENQESKARRNQKQRTFKGRNADEFRHA 294 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 P ++ S+ + + + P+ P +L Sbjct: 295 PNSKKGRNSDKQSEPKGKPAKGKTFYKPASDKAPRPAKPKGGTLS 339 >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 = 205 bits (521), Expect = 9e-51, Method: Composition-based stats. Identities = 69/359 (19%), Positives = 135/359 (37%), Gaps = 19/359 (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 + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSKEKPIYIALNKPTGITCTTERDI--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTN 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 PH-------LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 + +++ + D + + + G + + Sbjct: 234 MCEGSVSTEDASKMNAKGQRIRKATDAKLFDSREENQTSTARRNQNENRTRTYRGNNADE 293 Query: 300 KLATPVHRRNLASNVWMAKG-----IHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P +R S+ + G +S S + R+ + + R Sbjct: 294 FRHAPNSKRGRNSSNGESGGNTENWKSNSRSERSNSDRNSSDRTRTDRNNNDRRSGKPA 352 >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 = 205 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 145/346 (41%), Positives = 193/346 (55%), Gaps = 1/346 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 R++KV++RAG+ASRRE ERMIA RV+VNG +++ A+NV+ D I VDG Sbjct: 39 SSGPDGDRIAKVLSRAGLASRREAERMIADGRVEVNGKVIDSPALNVVVGKDRIVVDGKQ 98 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + E RLWLYHKP GLVTT SD R T+FD+LP RV++VGRLD+N+EGLLLLTN Sbjct: 99 VEEPEPPRLWLYHKPAGLVTTTSDELDRKTIFDDLPEDLPRVMTVGRLDLNSEGLLLLTN 158 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DGG+ R LELPST WLR YRVR +G+ L+KG+VI+G + M VTLD Q+G+N Sbjct: 159 DGGIKRQLELPSTGWLRRYRVRINGRPQDSDFEPLRKGLVIEGEKFQPMIVTLDRQQGAN 218 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 AW+TVGLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG Sbjct: 219 AWLTVGLREGKNREIRRAMEDIGFSVNRLLRLSYGPFQLGQLKPGEVEELRPRVVRDQLG 278 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 EE Q + P + D + + + G A Sbjct: 279 LAAPEEEQDSPKRPGTRQRPMRGKPGTRPGSGQSDRGTDSRAGAGRTGRPGSAPNAKGTG 338 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + G R + S P + + Sbjct: 339 KGTGKPLSKAGGKSMGKPTGRPGARSSDKAAGNSGPKGNARPSGKS 384 >gi|319406590|emb|CBI80232.1| Pseudouridine synthase [Bartonella sp. 1-1C] Length = 493 Score = 205 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 167/381 (43%), Positives = 213/381 (55%), 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 EQLGPHLLEEAQVNLDAPIYSSETLVRD-------------------------RPNIISE 277 +QLG L+ +A + DAPI + Sbjct: 271 DQLGERLIVQANADFDAPILKPFSNSAVVAKQNITKSSVIEDSWIVSSKENLLYGRKSRF 330 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHR--RNLASNVWMAKGIHSSFLSDSGQREENH 335 + R+ K K K R+ SNVWMA G + ++ Sbjct: 331 LGHSQVRLSKKIDTKLRAKDHNKGGKEERAFLRSRCSNVWMAPGACPQIARKKSSSDADN 390 Query: 336 --RRSPSFPSKRSLRRTSAKK 354 R ++ KRS R K+ Sbjct: 391 HYDRKSNWVGKRSTDRGKEKR 411 >gi|319403673|emb|CBI77258.1| Pseudouridine synthase [Bartonella rochalimae ATCC BAA-1498] Length = 492 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 170/382 (44%), Positives = 219/382 (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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD--------------------- 280 R+QLG L+ +A + DAPI + P Sbjct: 269 RDQLGERLIMQANADFDAPILKPFSNSAVSEKQNITKPPVIKDNWIVSSKENLSYGKKSR 328 Query: 281 ----DFTRMKKNSSQKNGLSKQKKLATPVHR--RNLASNVWMAKGIHSSFLSDSGQREEN 334 R+ K +K +Q K R+ SNVWMA G + + + Sbjct: 329 FLGHSQVRLSKKIDEKLRGKEQNKGGKEERAFLRSRCSNVWMAPGACPKIVRKKSYSDTD 388 Query: 335 H--RRSPSFPSKRSLRRTSAKK 354 + R ++ KRS R K+ Sbjct: 389 NYYDRKSNWVGKRSTDRGKEKR 410 >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 = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 150/332 (45%), Positives = 201/332 (60%), Gaps = 2/332 (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 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK--KNSSQKNGLSKQKKLATPV 305 L+ + + DAP+ ++ I + + + + L+ QK P Sbjct: 253 KLISASGADFDAPLAATAPKNNPVGEKIEKARPNKRGTNTPRKADPLERLTTQKPTQKPG 312 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 + + + + G R + RR Sbjct: 313 TKPSDGRGRGAKDKSSNKPGNKQGGRGADRRR 344 >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 = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 140/345 (40%), Positives = 181/345 (52%), Gaps = 1/345 (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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + Sbjct: 241 LDPHADGEARPARGRKPEGAARAEGAARSERTARPPRGAAAEGPT-RPARAAGSEGSAGA 299 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 R + K + + P+ + R S Sbjct: 300 TRGRSPQGAAPKAGAPKDGARFAGKGPAEGARPARSAATDPARAS 344 Score = 39.8 bits (91), Expect = 0.67, Method: Composition-based stats. Identities = 13/108 (12%), Positives = 26/108 (24%), Gaps = 3/108 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R G A + + P +R + + + + Sbjct: 303 RSPQGAAPKAGAPKDGARFAGKGPAEGARPARSAATDPARASRPASTETTGRTRTAEGRG 362 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 R+ + A F S S + R P+ + + R Sbjct: 363 KPAAAGRSGKTEAADAPRA---FRSRSAEAPAKGPRGPAKAAGPARSR 407 >gi|254711457|ref|ZP_05173268.1| hypothetical protein BpinB_14632 [Brucella pinnipedialis B2/94] Length = 611 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 222/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G+ ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAK 446 Score = 37.1 bits (84), Expect = 3.7, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >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 = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 164/348 (47%), Positives = 220/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 446 Score = 37.1 bits (84), Expect = 3.7, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >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 = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 446 Score = 36.3 bits (82), Expect = 6.6, Method: Composition-based stats. Identities = 10/116 (8%), Positives = 23/116 (19%), Gaps = 4/116 (3%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + + D ++ + G K+++ Sbjct: 450 DLQMRPRRYSDEERGGEEGGERRYKRPEGRFEREGGRPDNREKREKYEKHEGAGKERRPG 509 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK----RSLRRTSAKK 354 + + F + R F RS R S + Sbjct: 510 KRERAELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 565 >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 = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 446 Score = 37.1 bits (84), Expect = 3.8, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >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 = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 150/402 (37%), Positives = 191/402 (47%), Gaps = 54/402 (13%) 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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEV--------PDDFTRMKKNSSQKNGLSKQ 298 EE A + PD+ K + + G Sbjct: 241 LDPREEDGRPPKAARPPRGAGAASGRSHPGARPSGSKPLPPDEARGGSKGAPRGRGAGAA 300 Query: 299 KKLATPVHRR----------------------------------------------NLAS 312 K A P RR Sbjct: 301 PKSAGPARRRDALPDAAIDARPSGPRARPAAGAAKAPSGRAFGGARPTSSRPTGTPAGTP 360 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R P+ R +++ K Sbjct: 361 AATGPAKAGGRRPPGPAPRGTGPGTGPASGGPRQGPKSAPAK 402 Score = 35.9 bits (81), Expect = 8.5, Method: Composition-based stats. Identities = 8/88 (9%), Positives = 17/88 (19%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P P + + K+ +K + P Sbjct: 351 RPTGTPAGTPAATGPAKAGGRRPPGPAPRGTGPGTGPASGGPRQGPKSAPAKAPRRTGPD 410 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREE 333 R + A+ + + E Sbjct: 411 EGRGGPAGAGSARTGKPAASAPRKPPSE 438 >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 = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 143/328 (43%), Positives = 181/328 (55%), Gaps = 1/328 (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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ-KKLATPV 305 + + + + G + A P Sbjct: 241 LDPHADGEARPARGRKPEGAARAEGAARSERAARPPRGAAAEGPARAGRGAGSEGAAGPA 300 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREE 333 R+ A S S E Sbjct: 301 KGRSPHGAAPRAGAPKDSARSAGKGAAE 328 >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 = 203 bits (517), Expect = 2e-50, Method: Composition-based stats. Identities = 97/351 (27%), Positives = 163/351 (46%), Gaps = 10/351 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+IA G+ASRR+ E +I RV +NG +++ V DH++VDG LR A+ Sbjct: 3 VRLQKLIAGTGLASRRKAEELITSGRVTINGSVVKELGTKVDPARDHVKVDGKHLRAAQP 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +++T DP+GR TV D L + RV VGRLD ++EGL+LLTN G LA+ Sbjct: 63 YVYLILNKPKNVMSTLDDPEGRPTVKDLLHGVTVRVFPVGRLDFDSEGLMLLTNHGDLAQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y ++ G +D K+ L++G+ ++ +V ++ SN+W+ V Sbjct: 123 ALLHPRYHVPKTYLIKVKGVLDDAKIEALERGVKLEDGFTAPAKVKKVSRAESNSWLEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGPHL 249 + EG+ ++K++ E V +L+R+ GP LG L R ++ + LRE + + Sbjct: 183 IHEGRKHQVKRMVEAVGHSVIKLVRVRMGPLLLGDLAPREYRFLTDREANRLRELVEDRV 242 Query: 250 LEEAQVNLDAPIYSSE-TLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + LDA + + P+ R K+ + G Q+ LA R Sbjct: 243 ARAERPELDASGKPTRWMPPTEPAPPRPPKPERSGRGPKSQRSERGPRSQRSLAGSKPSR 302 Query: 309 NLASNVWMAKGIHSSFLSDSG-----QREENHRRSPSFPSKRSLRRTSAKK 354 + N + F + + + + S S +K Sbjct: 303 SGRGNTRRPMSPGAKFRRPAKGVGFQRTQAGPIPQGADRGPGSRPTGSDQK 353 >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 = 203 bits (517), Expect = 3e-50, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 446 Score = 37.1 bits (84), Expect = 3.7, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >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 = 203 bits (517), Expect = 3e-50, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 125/245 (51%), Gaps = 3/245 (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+ + + + + + + R+ VGRLD +T GLLLLTNDG Sbjct: 62 PEKIYILFHKPTGVITSVSDEKGRKVVTDYFPGLNL-RIFPVGRLDYDTSGLLLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 A + P + + Y + G + ++++ L+KGI+++ +V ++ + Sbjct: 121 FANQMTHPKYKMKKKYVAKLKGFLLREQVKQLEKGIMLEDGKTAPALVKVKSQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++F F +V +L RI YGP L L AG RE++ ++ Sbjct: 181 LVEITIYEGRNRQVRRMFAHFGHEVVKLSRIEYGPLTLKGLNAGDARELTPHEVKTLRNM 240 Query: 248 HLLEE 252 L + Sbjct: 241 ALNKS 245 >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 = 203 bits (516), Expect = 3e-50, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 446 Score = 37.1 bits (84), Expect = 4.5, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >gi|256158081|ref|ZP_05455999.1| hypothetical protein BcetM4_04490 [Brucella ceti M490/95/1] Length = 611 Score = 203 bits (516), Expect = 3e-50, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRTPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G+ ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAK 446 Score = 37.5 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >gi|256111893|ref|ZP_05452849.1| hypothetical protein Bmelb3E_04410 [Brucella melitensis bv. 3 str. Ether] Length = 611 Score = 203 bits (516), Expect = 3e-50, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 446 Score = 35.9 bits (81), Expect = 9.9, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGSEGCKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >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 = 203 bits (515), Expect = 4e-50, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 433 Score = 37.1 bits (84), Expect = 4.6, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 439 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 498 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 499 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 549 >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 = 203 bits (515), Expect = 4e-50, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 220/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 433 Score = 37.1 bits (84), Expect = 4.4, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 439 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 498 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 499 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 549 >gi|304406989|ref|ZP_07388643.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] gi|304343976|gb|EFM09816.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] Length = 445 Score = 203 bits (515), Expect = 4e-50, Method: Composition-based stats. Identities = 96/356 (26%), Positives = 153/356 (42%), Gaps = 15/356 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 +R+ K++A+AGIASRR+ E +I +V+VNG+ + D I V G P+ + Sbjct: 3 KLERLQKILAQAGIASRRKCEELIISGQVEVNGVPVTTLGAKADPEEDVITVGGKPI-VS 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + +KP G++T+ SDP GR V D L I RV +GRLD +TEGLLLLTNDG Sbjct: 62 ENKLYIMLNKPKGVITSASDPQGRKVVSDFLTGIKQRVYPIGRLDYDTEGLLLLTNDGEF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAW 188 A +L P + Y G DKL+ L+KGI ++ +V + S + Sbjct: 122 ANLLTHPKHHVPKTYWATVKGVPHGDKLDKLRKGIELEDGMTSPAEVEYQDIEPSDKEST 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + + EG+NR+++++F+ V RL R+ +G L L G R + ++E L Sbjct: 182 IRITIYEGRNRQVRRMFDAIGHPVIRLKRVKFGELGLQNLKRGGWRPLKPHEVQELLQEA 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 E + + + + + N ++ G +K Sbjct: 242 AKAEGKSSYVPSGKPATKPEWKPKPKPKHLTASGDKNHSNGQKEGGSETGRKPFRSKQAS 301 Query: 309 NLASNVWMAKGIHSSF-----------LSDSGQREENHRRSPSFPSKRSLRRTSAK 353 N A+ KG S + + S + RS + AK Sbjct: 302 NAAATTGSRKGKRSRQSYAESVLGAAAATQGKGKPSAGVSSSTRAGSRSAGKGPAK 357 >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 = 203 bits (515), Expect = 4e-50, Method: Composition-based stats. Identities = 177/369 (47%), Positives = 228/369 (61%), 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 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK------------- 297 E++ N DAP+Y+ + +R P+ + + 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 Score = 38.2 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 11/110 (10%), Positives = 21/110 (19%), Gaps = 3/110 (2%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + + D S+ VR + + + + Sbjct: 445 RAPRPPVKRADEDGDWISASEPVRRKDEARDGGFERRRPFDSGERKSRDHGDRPPRREGS 504 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR---SLRRTSA 352 R A + R ++ R R R A Sbjct: 505 ERPRGERPARAAGDSRAFSEKPRTSRSKDDRPQGREGGDRPFGDRPRGKA 554 Score = 37.5 bits (85), Expect = 2.9, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 28/111 (25%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +K+ R + G A+ + D ++ R V S+ + Sbjct: 410 TKRYGRTKDGAATKTSAKFDPDRKARPAKADARPDRAPRPPVKRADEDGDWISASEPVRR 469 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 K + RR + H E P+ + S Sbjct: 470 KDEARDGGFERRRPFDSGERKSRDHGDRPPRREGSERPRGERPARAAGDSR 520 >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 = 203 bits (515), Expect = 5e-50, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G+ ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGVRPKGEKETAKPARVEHQQPHRSAK 446 Score = 37.5 bits (85), Expect = 3.6, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >gi|256043125|ref|ZP_05446067.1| hypothetical protein Bmelb1R_01497 [Brucella melitensis bv. 1 str. Rev.1] Length = 611 Score = 202 bits (514), Expect = 5e-50, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 339 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 398 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 399 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 446 Score = 37.5 bits (85), Expect = 3.0, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 452 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 511 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 512 ELRNAEGQTTERGKGGSEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 562 >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 = 202 bits (514), Expect = 5e-50, Method: Composition-based stats. Identities = 141/342 (41%), Positives = 193/342 (56%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV + D I VDG PL Sbjct: 57 PSQDGDRIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVTNLDRIVVDGNPLP 116 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +AE RLWLY+KP GLVTT SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDG Sbjct: 117 EAEAPRLWLYYKPNGLVTTTSDEKGRKTIFDALPEDLPRVMTVGRLDLNSEGLLLLTNDG 176 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 G+ R LELPST WLR YRVR +G+ + ++L+KG+VI G + M ++LD Q+G+NAW Sbjct: 177 GVKRQLELPSTGWLRRYRVRINGRPQDHEFDVLRKGVVIDGERFQPMTISLDRQQGANAW 236 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GLREGKNREI++ E + VNRL+RISYGPFQLGTL G E+ +++R+QLG Sbjct: 237 LTIGLREGKNREIRRAMEEVGYPVNRLLRISYGPFQLGTLKEGEVEELRPRVVRDQLGLA 296 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 E P + + + Sbjct: 297 APEGDGEAKKKPTRPGRGPRNPGAKTAGKGIGAPNARPTGKGAVKAPEGRVFSGKTFSGK 356 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 SG + ++ ++ S + Sbjct: 357 TTGKTAGKPAAHKGQGGKPSGPKSFGTKQGGGSGARGSGKPN 398 >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 = 202 bits (514), Expect = 6e-50, Method: Composition-based stats. Identities = 66/340 (19%), Positives = 119/340 (35%), Gaps = 11/340 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V+ D + VDG P+ E+ Sbjct: 8 RLNKYISETGFCSRREADKLIEQGRVTINGKQP-EMGTKVLPGDDVCVDGKPVAAKEKPV 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERNI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVT----QETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVTEILAMCEGSVGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 + + E R + G + + P ++ Sbjct: 241 EEASRVDAKGRRIRKATDAKLFDSREENQTSTARRNQKQRTFKGNNADEFRHAPNSKKAQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 Q + R +K R Sbjct: 301 QRKQQDGDKPRFEKTKRPEQAGKAKRYDNPNAAKPVKRTG 340 >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 = 202 bits (513), Expect = 7e-50, Method: Composition-based stats. Identities = 164/348 (47%), Positives = 219/348 (62%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 433 Score = 37.1 bits (84), Expect = 4.5, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 439 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 498 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 499 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 549 >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 = 202 bits (513), Expect = 7e-50, Method: Composition-based stats. Identities = 71/362 (19%), Positives = 129/362 (35%), Gaps = 19/362 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K+ + P R++K I+ G SRRE +++I Q RV +NG VM D + V Sbjct: 8 NKDQLDPQNKPVRLNKFISDTGYCSRREADKLIDQGRVTINGTQP-EMGTKVMPDDEVLV 66 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 D PLR ER +KP G+ T + R+ +GRLD ++GL+ Sbjct: 67 DDKPLRAKERPIYIALNKPTGVTCTTERHV--KDNIVDFIGHRKRIFPIGRLDKPSDGLI 124 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LTNDG + + + Y VR Q+ + L + G+ I + Sbjct: 125 FLTNDGDIVNKILRAGNSHEKEYVVRVSHQITPEFLEKMASGVEILDTVTLPC----IVK 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 K ++ + L +G NR+I+++ E + V +L R+ + L G R ++ + Sbjct: 181 KETDYSFRITLTQGLNRQIRRMCEALGYDVYKLRRVRIMNITIDGLPNGKWRYLTDAEIA 240 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI------------ISEVPDDFTRMKKNSS 290 E + + + E + Sbjct: 241 EINTLISQSSGTEEASKVDAEGQAIAKATDAKLFDSRQQAAEERQRERERGMRDATYKTF 300 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + G + + T ++ S A+ S + + + + R + + Sbjct: 301 KAKGEFTRTRRNTDRDDKSTDSRNGSARHGDSRPSQSRDHQSFRDQSARDSQAPRGNKPS 360 Query: 351 SA 352 S Sbjct: 361 SG 362 >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 = 201 bits (512), Expect = 9e-50, Method: Composition-based stats. Identities = 144/320 (45%), Positives = 193/320 (60%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + T R++KV++RAG+ASRRE ERMIA+ R+ VNG +++ A+NV + I V Sbjct: 58 NDKVDHPPSTGDRIAKVLSRAGVASRREAERMIAEGRISVNGTVIDSPALNVTGQERILV 117 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG PL +AE RLWLYHKP GLVTT+ D GR T+FD+LP RV++VGRLD+N+EGLL Sbjct: 118 DGAPLPQAEAPRLWLYHKPSGLVTTNRDEKGRKTIFDDLPETLPRVMTVGRLDLNSEGLL 177 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDGG+ R LELPST WLR YRVR +G+ ++ L+KG+VI G + M V LD Q Sbjct: 178 LLTNDGGIKRKLELPSTGWLRRYRVRINGRPKEEDFAPLRKGLVIDGERFQPMIVDLDRQ 237 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G+NAW+TVGLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ ++LR Sbjct: 238 QGANAWLTVGLREGKNREIRRAMEDIGYNVNRLLRVSYGPFQLGDLKPGEVEELRPRVLR 297 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 +QLG E S + R K +S+ + K Sbjct: 298 DQLGLEAETEESTPKPRAQRSRGPAPSKGKSDAVRAGAKPGRGKPLASRNSSEGAAKAGG 357 Query: 303 TPVHRRNLASNVWMAKGIHS 322 P ++ + K Sbjct: 358 KPRQGQSRKKPSPIGKNPRR 377 >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 = 201 bits (512), Expect = 9e-50, Method: Composition-based stats. Identities = 76/344 (22%), Positives = 127/344 (36%), 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 + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHQKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +VT K + + L Sbjct: 125 LRAGNSHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVT----KETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL----L 250 +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEVAEILAMCEGSVGT 240 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EEA + + E D R + + G + + P ++ Sbjct: 241 EEASKTDSGGRNIRKATDAKLFDSREENQDSTARRNQKTRTFRGNNADEFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 D G R +RS + K Sbjct: 301 Q---------KRRQRDDEGGRPAKEHYKAKPQGERSRPQGEHGK 335 >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 = 201 bits (512), Expect = 9e-50, Method: Composition-based stats. Identities = 144/345 (41%), Positives = 195/345 (56%), Gaps = 3/345 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E +R++KV+A AGIASRRE ER+I + RV VNG +L A VM+ D + VDG + Sbjct: 12 EEEGGERIAKVLAHAGIASRREAERLIEKGRVSVNGEILRTPAFKVMAGDDVRVDGESIG 71 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + TR+W YHKP+GL+TTHSDP GR TVF LP RVISVGRLD+N+EGLLLLTNDG Sbjct: 72 QRPPTRVWRYHKPVGLLTTHSDPQGRDTVFQTLPQDMGRVISVGRLDLNSEGLLLLTNDG 131 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LARVLELPST W R YRVR +G L L+ G V+ G+ YG ++VT+D + G+N W Sbjct: 132 ELARVLELPSTGWTRRYRVRAYGNASDKALAELENGTVVDGVVYGPVEVTVDRRTGANVW 191 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TVG++EGKNRE++KV + VNRL+R++YGPFQLG+L G E +LR+QLG Sbjct: 192 LTVGIKEGKNREVRKVLQSVGLTVNRLMRVAYGPFQLGSLKRGEISESKLSVLRDQLGKL 251 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + P+ ET D ++ R + S K P + Sbjct: 252 YPLDTD---GLPLKPGETAKPDTRTGTAKAKPKANRPHQKSGGKPRAGLDADSIMPAGGK 308 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + W ++ S +R + +S + Sbjct: 309 SKTAKGWAKAKPKANEKPKSSKRSDPKGSGGKASKGKSDADRRRR 353 >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 = 201 bits (512), Expect = 9e-50, 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|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 = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 140/331 (42%), Positives = 191/331 (57%), Gaps = 9/331 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++KV++RAG+ASRRE ERMIA+ RV VNG ++ A+NV + D I +DG PL +A Sbjct: 34 PEGDRIAKVLSRAGVASRREAERMIAEGRVSVNGKKIDSPALNVTARDRISIDGQPLPEA 93 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E R+WLY+KPIGLVT++SD GR T+FD LP RV++VGRLD+N+EGLLLLTNDGG+ Sbjct: 94 EGPRMWLYYKPIGLVTSNSDEKGRKTIFDELPEDMPRVMTVGRLDLNSEGLLLLTNDGGI 153 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 R LELP+T WLR YRVR +G+ + L+KG+VI+G + M V+LD Q+G+NAW+T Sbjct: 154 KRKLELPATGWLRRYRVRINGRPKDEDFAPLRKGLVIEGERFQPMTVSLDRQQGANAWLT 213 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 VGLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG Sbjct: 214 VGLREGKNREIRRAMEDIGFSVNRLLRVSYGPFQLGNLKPGEVEELRPRVVRDQLGLAEE 273 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EE + + + KQ Sbjct: 274 EEIPAARPTRARGGKPAGKPMGKPAGKPMGKPAGKPAGKQAAQPSGKQGNPGRTA----- 328 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 A + G + ++P Sbjct: 329 ----GKAPPARGTRPDQRGGGKRPAGKNPRR 355 >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 = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 72/350 (20%), Positives = 130/350 (37%), Gaps = 16/350 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + +R++K I+ G SRRE +R+I Q RV +NG + V+ D + VD P+ Sbjct: 2 SQDSAKRLNKFISETGFCSRREADRLIEQGRVTINGRVP-EMGTKVLPGDDVRVDDKPIS 60 Query: 69 KAERT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A +KP G+ T + R+ +GRLD ++GL+ LTND Sbjct: 61 AATDKPVYIALNKPTGITCTTERDI--PGNIVDFVGHKKRIFPIGRLDKPSDGLIFLTND 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y VR V D +N + G+ I VT +T+ Sbjct: 119 GDIVNKILRAGNNHEKEYVVRVDKPVSDDFINKMSSGVNILDTVTLPCTVTRETK----F 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 175 SFRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLTDAEVAEILAM 234 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + + E + R + G + + Sbjct: 235 CEDSSGTEEASKVDGKGKRIRKATDAKLYDSREENQNSTARRNQKQRTFKGRNADEFRHA 294 Query: 304 PVHRRNLASNV--WMAKGIHSSFLS--DSGQREENHRRSPSFPSKRSLRR 349 P ++ + AKG + + + + P SL++ Sbjct: 295 PNSKKGRNNGGKHGEAKGKPNKGKTFFKPNSEQSSRPSKPKSGGTLSLKK 344 >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 = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKAEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.4, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 66/341 (19%), Positives = 125/341 (36%), Gaps = 14/341 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V+ D + VDG P+ E+ Sbjct: 8 RLNKYISETGFCSRREADKLIEQGRVTINGKQP-EMGTKVLPGDDVCVDGKPVAAKEKPV 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERNI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVT----QETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVTEILAMCEGSVGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR-- 308 + + E R + G + + P ++ Sbjct: 241 EEASRVDAKGRRIRKATDAKLFDSREENQTSTARRNQKQRTFKGNNADEFRHAPNSKKAQ 300 Query: 309 -NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + +G+ + + + P KR+ Sbjct: 301 QRKQQDGDKPRFEKPKRQEQAGKAKRYDNPNAAKPVKRTGG 341 >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 = 201 bits (511), Expect = 1e-49, Method: Composition-based stats. Identities = 70/362 (19%), Positives = 133/362 (36%), Gaps = 23/362 (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 + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSKEKPIYIALNKPTGITCTTERDI--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTN 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 PH-------LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 + +++ + D + + G + + Sbjct: 234 MCEGSVSTEDASKINAKGQRIRKATDAKLFDSREENQASTARRNPKENRTRTYRGNNADE 293 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFL---------SDSGQREENHRRSPSFPSKRSLRRT 350 P +R S+ KG S ++ R+ + R Sbjct: 294 FRHAPNSKRGRNSSNGENKGQSKGNTENWKSNSRSERSNSDNKSSDRNRAGRGNADHRGG 353 Query: 351 SA 352 Sbjct: 354 KP 355 >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 = 201 bits (511), Expect = 1e-49, Method: Composition-based stats. Identities = 66/341 (19%), Positives = 125/341 (36%), Gaps = 14/341 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG V+ D + VDG P+ E+ Sbjct: 8 RLNKYISETGFCSRREADKLIEQGRVTINGKQP-EMGTKVLPGDDVCVDGKPVAAKEKPV 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNHHEKEYVVRVDKPITPEFIKAMSSGVNILDTVTLPCKVT----QETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVTEILAMCEGSVGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR-- 308 + + E R + G + + P ++ Sbjct: 241 EEASRVDAKGRRIRKATDAKLFDSREENQTSTARRNQKQRTFKGNNADEFRHAPNSKKAQ 300 Query: 309 -NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + +G+ + + + P KR+ Sbjct: 301 QRKQQDGDKPRFEKPKRQEQAGKAKRYDNPNAAKPVKRTGG 341 >gi|189425784|ref|YP_001952961.1| pseudouridine synthase [Geobacter lovleyi SZ] gi|189422043|gb|ACD96441.1| pseudouridine synthase [Geobacter lovleyi SZ] Length = 274 Score = 201 bits (511), Expect = 1e-49, Method: Composition-based stats. Identities = 96/268 (35%), Positives = 138/268 (51%), Gaps = 1/268 (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 AQVNLDAPIYSSETLVRDRPNIISEVPD 280 + + AP+ SS T P Sbjct: 243 REQRMAAPVKSSTTPQSQTPGKRPPRRK 270 >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 = 201 bits (511), Expect = 1e-49, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 121/241 (50%), Gaps = 1/241 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E++I + VKVNG +++ V +D +EVD VP+ K Sbjct: 2 SERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVKELGTKVTESDEVEVDEVPISKEVP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY ++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 62 VYYLLYKPRG-VITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + D + L+ GI I G + T+ ++ V++ Sbjct: 121 HLTHPKYEVDKTYVAKVKGTITNDDMKKLRTGIHIDGRKTASAKATIIRNNNNSTIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+N ++KK+F V +L R SYG L L G R + + E + Sbjct: 181 IHEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYRRLKPHEVEELKKMSQDRK 240 Query: 253 A 253 Sbjct: 241 R 241 >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 = 201 bits (511), Expect = 1e-49, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 190/334 (56%), Gaps = 1/334 (0%) 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+ + + ++ + Sbjct: 276 VDFTSPVREPIAPFGSPKGARKTAAATAQAPQGRGEGRPARGERPAWGERPMWGERPARG 335 Query: 315 WMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 F G R R Sbjct: 336 GRDP-ARPQFGRAPGPGTRPERSRTPEAGPAPRR 368 >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 = 201 bits (511), Expect = 1e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 433 Score = 36.7 bits (83), Expect = 5.5, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 439 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 498 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 499 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 549 >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 = 201 bits (510), Expect = 1e-49, Method: Composition-based stats. Identities = 79/351 (22%), Positives = 134/351 (38%), Gaps = 14/351 (3%) 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 + V R+ +GRLD ++G Sbjct: 60 LIDDKPLRSKERPIYIALNKPTGITCTTERHIEGNIVDFI--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 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN------- 293 + E + + + + R +K + +K Sbjct: 234 IGEINRLIAQSSGTEEASKVDAEGRKIAKATDAKLYDHRQQEARNEKRAQEKAFKTYSGT 293 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 G ++ +RRN S + + R + PSF K Sbjct: 294 GEFTRRPGGQRQNRRNEESGESRQQRSQGRNDNRRPARTSDRDSKPSFGGK 344 >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 = 201 bits (510), Expect = 2e-49, Method: Composition-based stats. Identities = 137/318 (43%), Positives = 188/318 (59%) 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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + A + ++ + + + KL T ++ Sbjct: 250 AEQFAPAEVRPSKGAATGSTGKWTGGKPVGRKAGDKPPAKPERTKPGGTKPKLKTFREKK 309 Query: 309 NLASNVWMAKGIHSSFLS 326 + A Sbjct: 310 ADTAGKRKAPNADRRRRP 327 >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 = 201 bits (510), Expect = 2e-49, Method: Composition-based stats. Identities = 72/344 (20%), Positives = 122/344 (35%), 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 + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +VT K + + L Sbjct: 125 LRAGNSHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVT----KETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVAEILAMCDGSVGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 + + E D +R + G + P ++ Sbjct: 241 EEASRVDSKGRNIRKATDAKLYDSREENQDSVSRRNQKPRTYRGNNADDFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 D G R +RS + K Sbjct: 301 Q---------KRRQRDDEGGRPAKEHYKAKPQGERSRPQGEHGK 335 >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 = 201 bits (510), Expect = 2e-49, Method: Composition-based stats. Identities = 68/343 (19%), Positives = 124/343 (36%), Gaps = 11/343 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +R+I Q RV +NG V+ D + VDG P+ E+ Sbjct: 8 RLNKYISETGFCSRREADRLIEQGRVTINGQQP-EMGTKVLPGDDVCVDGNPVAAKEKPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +V +K + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKV----EKETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDDEVAEILAMCEGSVGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 + + E R + + G + + P ++ Sbjct: 241 EEASKTDSRGRNIRKATDAKLYDSREENQGSTARRNQKTRTFRGNNADEFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 +G + + + R K + ++ Sbjct: 301 QRRQRDDEGGRPAKEHYKAKPQGERSRPQGEHGKSHRKPDASS 343 >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 = 201 bits (510), Expect = 2e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 220/348 (63%), Gaps = 12/348 (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 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSVK 416 Score = 37.1 bits (84), Expect = 4.4, Method: Composition-based stats. Identities = 14/111 (12%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P + + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRYSDEERGGEEGGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 118/230 (51%), Gaps = 3/230 (1%) 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 Y + T + R+ V D RV VGRLD +T G L +TNDG A + Sbjct: 63 YYLFYKPEKCVCTMSDE-HDRTCVADYFADSNERVYPVGRLDYDTTGALFMTNDGEFANL 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|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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 132/240 (55%), Gaps = 2/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + + Y + G + D + L+ G+VI G + + ++ + + V++ Sbjct: 123 MMHPRYKVDKTYVAKVEGLITPDSIKKLRNGVVIDGKPTSRARAKILSRDAKKNTSIVSL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+ ++KK+F+ KV +L R +YG L L +G RE+S +RE L + Sbjct: 183 TIHEGRYHQVKKMFDAVGHKVQKLSRTTYGTLTLDGLTSGEYRELSHNEVRELLKLINNK 242 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 76/344 (22%), Positives = 127/344 (36%), 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 + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHQKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +VT K + + L Sbjct: 125 LRAGNSHEKEYVVRVDKPITVEFLKQMSSGVKILDTVTLPCKVT----KETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL----L 250 +G NR+I+++ E ++V +L R+ L + G R +S + + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDEEVAEILAMCEGSVGT 240 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EEA + + E D R + + G + + P ++ Sbjct: 241 EEASKTDSRGRNIRKATDAKLFDSREENQDSTARRNQKTRTFRGNNADQFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 D G R +RS + K Sbjct: 301 Q---------KRRQCDDEGGRPAKEHYKAKPQGERSRPQGEHGK 335 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 222/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G+ ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.4, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRSNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.3, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >gi|254706249|ref|ZP_05168077.1| RNA pseudouridylate synthase family protein [Brucella pinnipedialis M163/99/10] Length = 581 Score = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 222/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G+ ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.4, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 128/237 (54%), Gaps = 3/237 (1%) 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 Y ++++ D GR V D I R+ VGRLD +T G+LLLTNDG A + Sbjct: 62 YYLFYKPRG-VISSVKDDKGRKVVTDFFKDIDKRIYPVGRLDYDTSGILLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + +VY + +++L L+KGI+++ +V L ++ A + + Sbjct: 121 LMHPRYEIEKVYIAKVKKIPTREQLKQLEKGIMLEDGMTAPAKVKLLSHDKQKQTAIIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++FE V +L R Y L L G RE++ +++ Sbjct: 181 RIHEGRNRQVRRMFEAIGCNVMKLKRERYAFLDLKGLNPGEYRELTPHEVKQLRALA 237 >gi|239827574|ref|YP_002950198.1| pseudouridine synthase [Geobacillus sp. WCH70] gi|239807867|gb|ACS24932.1| pseudouridine synthase [Geobacillus sp. WCH70] Length = 243 Score = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 77/237 (32%), Positives = 129/237 (54%), Gaps = 3/237 (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 Y ++++ D GR V D + R+ +GRLD +T G+LLLTNDG A + Sbjct: 62 YYLFYKPRG-VISSVKDDKGRKVVTDFFKDVDKRIYPIGRLDYDTSGILLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + +VY + G +++L L++GI+++ +V L ++ A + + Sbjct: 121 LMHPRYEIEKVYIAKVKGIPTREQLKQLERGIMLEDGMTAPAKVKLLSHNKQKQTAIIEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++FE KV +L R Y L L G R+++ +++ Sbjct: 181 RIHEGRNRQVRRMFEAIGCKVMKLKRERYAFLDLKGLNPGEYRKLTPHEVKQLRALA 237 >gi|295112967|emb|CBL31604.1| ribosomal large subunit pseudouridine synthase B [Enterococcus sp. 7L76] Length = 238 Score = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 121/237 (51%), Gaps = 3/237 (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 Y +++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 YYLFYKPKG-VISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLLNQA 237 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 68/331 (20%), Positives = 120/331 (36%), Gaps = 12/331 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +R+I Q RV +NG V D + VDG P+ E+ Sbjct: 8 RLNKFISETGFCSRREADRLIEQGRVTINGQQP-EMGTKVQPGDDVCVDGNPVAAKEKPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +V +K + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKV----EKETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDNEVSEILAMCEGSVGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 + + E D R + + G + + P ++ Sbjct: 241 EEASKRDAKGRNIRKATDAKLYDSRDENQDSTARRNQTARTFRGNNADEFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 +G + + + R Sbjct: 301 QRRQRDNEGGRPASDHYR-AKPQGERSKSHG 330 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 76/349 (21%), Positives = 138/349 (39%), Gaps = 21/349 (6%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + + R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG Sbjct: 11 DYMSQPTEK-RLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDG 68 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PLR ER +KP G+ T + R+ +GRLD ++GL+ L Sbjct: 69 KPLRSKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFL 126 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG + + + Y VR + + + + G+ I +VT + Sbjct: 127 TNDGDIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QE 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E Sbjct: 183 TQYSFRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEI 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L S +T+ R S + ++ ++N +G + Q+ Sbjct: 243 LAMCEDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRH 302 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 P ++ S S + +P SLR++ Sbjct: 303 APNSKK-----------AQRRPSSPSSNTASGSKPTPRTGGTLSLRKSK 340 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 68/343 (19%), Positives = 124/343 (36%), Gaps = 11/343 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +R+I Q RV +NG V+ D + VDG P+ E+ Sbjct: 8 RLNKYISETGFCSRREADRLIEQGRVTINGQQP-EMGTKVLPGDDVCVDGSPVAAKEKPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +V +K + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKV----EKETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDDEVAEILAMCEGSVGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 + + E R + + G + + P ++ Sbjct: 241 EEASKTDSRGRNIRKATDAKLYDSREENQGSTARRNQKTRTFLGNNADEFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 +G + + + R K + ++ Sbjct: 301 QRRQRDDEGGRPAKEHYKAKPQGERSRPQGEHGKSQRKPDASS 343 >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 = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 77/345 (22%), Positives = 137/345 (39%), Gaps = 20/345 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 14 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 73 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 131 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 187 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 246 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 247 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 306 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ S S + +P SLR++ Sbjct: 307 KK-----------AQRRPSSPSSNTASGSKPTPRTGGTLSLRKSK 340 >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 = 200 bits (509), Expect = 3e-49, Method: Composition-based stats. Identities = 77/345 (22%), Positives = 136/345 (39%), Gaps = 20/345 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 14 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 73 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 131 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 187 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDTEVSEILAMC 246 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 247 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 306 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ S S + +P SLR++ Sbjct: 307 KK-----------AQRRPSSPSSNTASGSKPTPRTGGTLSLRKSK 340 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 326 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 385 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 386 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 433 Score = 37.5 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 439 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 498 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 499 ELRNAEGQTTERGKGGSEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 549 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 132/240 (55%), Gaps = 2/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + + Y + G + D + L+ G+VI G + + ++ + + V++ Sbjct: 123 MMHPRYKVDKTYVAKVEGLITPDSIKKLRNGVVIDGKPTSRARAKIISRDAKKNTSIVSL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+ ++KK+F+ KV +L R +YG L L +G RE+S +RE L + Sbjct: 183 TIHEGRYHQVKKMFDAVGHKVQKLSRTTYGTLTLDGLTSGEYRELSHNEVRELLKLINNK 242 >gi|328473478|gb|EGF44326.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus 10329] Length = 371 Score = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 67/343 (19%), Positives = 123/343 (35%), Gaps = 13/343 (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 + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +VT K + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITDEFLKQMSSGVRILDTVTLPCKVT----KETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL----L 250 +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVAEILAMCDGSVGT 240 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EEA + + E R + + G + + P ++ Sbjct: 241 EEASKTDSRGRNIRKATDAKLFDSREENQGSTARRNQKTRTFRGNNADEFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + R P + + + Sbjct: 301 QKRRQRDDENSRPAKEHYKAKPQGERAKP--QGEHGRPQNKPQ 341 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 6.1, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 121/241 (50%), Gaps = 1/241 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E++I + VKVNG +++ V +D +EVD VP+ K Sbjct: 2 SERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVKELGTKVTESDEVEVDEVPISKEVP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY ++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 62 VYYLLYKPRG-VITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + D + L+ GI I G + T+ ++ V++ Sbjct: 121 HLTHPKYEVDKTYVAKVKGTITNDDMKRLRTGIHIDGRKTASAKATVIRNNNNSTIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+N ++KK+F V +L R SYG L L G R + + E + Sbjct: 181 IHEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYRRLKPHEVEELKKMSQDRK 240 Query: 253 A 253 Sbjct: 241 R 241 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 73/334 (21%), Positives = 130/334 (38%), Gaps = 9/334 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 14 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 73 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 131 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 187 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 246 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 247 EDSSGTEEASRVAQSGDTIKRATDAKLFDSRETNKESKARRNPKTYHGKNAQEFRHAPNS 306 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 ++ + S R Sbjct: 307 KKAQRRPSSTSSNTASGSKPTPRTGGTLSLRKSK 340 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 77/345 (22%), Positives = 137/345 (39%), Gaps = 20/345 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 14 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTDQDEVCIDGKPLR 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 73 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 131 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 187 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 246 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 247 EDSSGTEEASRVAQSGDTIKRATDAKLFDSRETNKESKARRNPKTYHGKNAQEFRHAPNS 306 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ S S + +P SLR++ Sbjct: 307 KK-----------AQRRPSSPSSNTASGSKPTPRTGGTLSLRKSK 340 >gi|319898380|ref|YP_004158473.1| Pseudouridine synthase [Bartonella clarridgeiae 73] gi|319402344|emb|CBI75883.1| Pseudouridine synthase [Bartonella clarridgeiae 73] Length = 496 Score = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 163/382 (42%), Positives = 211/382 (55%), Gaps = 29/382 (7%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + + E +R++K +ARAG+ASRR+ E MI R+ VNG ++ NV +D I Sbjct: 29 QSEKKMSEKSESERIAKRLARAGVASRRDAEMMIFAGRIVVNGAIIATPVFNVTRSDVIT 88 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL ERTRLWLYHKP+G VTT+ DP GR TVFDNLP RV+SVGRLD+NTEGL Sbjct: 89 VDGKPLPPIERTRLWLYHKPVGFVTTNRDPQGRPTVFDNLPKDMPRVLSVGRLDMNTEGL 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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM----------KKNSSQ 291 R+QLG L+ +A + +API + S P + + Sbjct: 269 RDQLGERLILQANADFNAPIIKPFSNSAVIEKQNSTKPPVMKNSWIVSRKESILRGKKGR 328 Query: 292 KNGLS--------------KQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQREEN 334 G S K + + R R+ SNVWMA G + Sbjct: 329 FPGHSQVRLSKKFDEKLRVKDQNKSGKEERVFLRSRCSNVWMAPGACPQIARKKPSSVAD 388 Query: 335 HRRSPSFP--SKRSLRRTSAKK 354 + KR R K+ Sbjct: 389 NHYGRKINWVGKRFTDRGKEKR 410 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 240/333 (72%), Positives = 281/333 (84%), Gaps = 1/333 (0%) 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 + + D K S+ +G +K+K Sbjct: 248 LREQLGANLLKEARVNLEGLVYSSETPIRDHSKMKVKSDDISKTKNKK-SKVHGFNKKKH 306 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREE 333 + P+ RRN +SNVWMA+GIHSS + ++ Sbjct: 307 VDFPIQRRNRSSNVWMAQGIHSSLPYEKQGEKD 339 >gi|315172332|gb|EFU16349.1| conserved hypothetical protein [Enterococcus faecalis TX1346] Length = 238 Score = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 121/237 (51%), Gaps = 3/237 (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 Y +++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 YYLFYKPRG-VISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLVKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLLNQA 237 >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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 77/230 (33%), Positives = 123/230 (53%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A GIASRR+ E I Q RVKVNG +++ + D IE D +R+ E+ Sbjct: 2 VRLQKYLAECGIASRRKCEEYILQGRVKVNGKVVKELGTKIDPDVDIIEFDDKIVRREEK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ DP GR TV +L + R+ VGRLD +T GLLLLTNDG LA Sbjct: 62 KVYIMLYKPAGYITSVKDPFGRPTV-LDLVKVKERIYPVGRLDFDTSGLLLLTNDGELAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G ++++ + G++I G ++ + K + V + Sbjct: 121 ILMHPKHEIVKTYVAKIKGIPTKEEMERFENGLIIDGRKTAKAKIRILNVKNGTSVVEIQ 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR++KK+ + V L R G +L L G R +++ +R Sbjct: 181 IHEGRNRQVKKMCKAIGHPVIALKRTKIGELELKGLKPGEWRYLTEDEIR 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 = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 121/237 (51%), Gaps = 3/237 (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 Y +++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 YYLFYKPRG-VISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLLNQA 237 >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 = 200 bits (507), Expect = 3e-49, Method: Composition-based stats. Identities = 73/334 (21%), Positives = 130/334 (38%), Gaps = 9/334 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 14 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 73 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 131 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 187 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 246 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 247 EDSSGTEEASRVAQSGDTIKRATDAKLFDSRESNKESKARRNPKTYHGKNAQEFRHAPNS 306 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 ++ + S R Sbjct: 307 KKAQRRPSSTSSNTASGSKPTPRTGGTLSLRKSK 340 >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 = 200 bits (507), Expect = 3e-49, Method: Composition-based stats. Identities = 71/357 (19%), Positives = 127/357 (35%), Gaps = 19/357 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K+ + P R++K I+ G SRRE +++I Q RV +NG VM D + V Sbjct: 8 NKDQLDTQNKPVRLNKFISDTGYCSRREADKLIDQGRVTINGTQP-EMGTKVMPDDEVLV 66 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 D PLR ER +KP G+ T + R+ +GRLD ++GL+ Sbjct: 67 DDKPLRAKERPIYIALNKPTGVTCTTERHV--KDNIVDFIGHRKRIFPIGRLDKPSDGLI 124 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LTNDG + + + Y VR Q+ + L + G+ I V + Sbjct: 125 FLTNDGDIVNKILRAGNSHEKEYVVRVDHQITPEFLEKMASGVEILDTVTLPCTV----K 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 K ++ + L +G NR+I+++ E + V +L R+ + L G R ++ + Sbjct: 181 KETDYSFRITLTQGLNRQIRRMCEALGYDVYKLRRVRIMNITIDGLPNGKWRYLTDAEIS 240 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI------------ISEVPDDFTRMKKNSS 290 E + + + E + Sbjct: 241 EINTLISQSSGTEEASKVDAEGQAISKATDAKLFDSRQQAAEERQRERERGMRDATYKTF 300 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + G + + T + ++ + S S + ++P S Sbjct: 301 KAKGEFTRTRRTTERDDKTGSARNGDNRPSQSRDRQSSRDQSTRDSQAPHGNKPSSG 357 >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 = 200 bits (507), Expect = 3e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 6.2, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 200 bits (507), Expect = 3e-49, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 >gi|254702620|ref|ZP_05164448.1| hypothetical protein Bsuib36_01462 [Brucella suis bv. 3 str. 686] Length = 581 Score = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.4, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRTPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G+ ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.2, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 73/334 (21%), Positives = 130/334 (38%), Gaps = 9/334 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 14 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 73 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 131 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 187 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 246 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 247 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 306 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 ++ + S R Sbjct: 307 KKAQRRPSSTSSNTASGSKPTPRTGGTLSLRKSK 340 >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 = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 158/350 (45%), Positives = 204/350 (58%), 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 EAQVNLDAP-----IYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 A + +AP ++ + + + ++ + G + P Sbjct: 325 AAGADFEAPVLTQAEPDKPLKKKENIQKSRAGGEWMSAREGAAATRTGGRRSASDEAPER 384 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF---PSKRSLRRTSAK 353 RR A N + R + F R R + Sbjct: 385 RRKGAGNPPETRRPSGKSQDRPQDRPQKVSPRSRFRLTSEPRPRSRAPER 434 >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 = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 71/335 (21%), Positives = 121/335 (36%), Gaps = 13/335 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R++K I+ G SRRE +R+I Q RV +NG + V D + VD P+ A Sbjct: 8 RLNKFISETGFCSRREADRLIEQGRVTINGQVP-EMGTKVQLGDDVRVDDKPIAAATDKP 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T + R+ +GRLD ++GL+ LTNDG + Sbjct: 67 VYIALNKPTGITCTTERDI--PGNIVDFVGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + D + + G+ I VT K + + L Sbjct: 125 ILRAGNSHEKEYVVRVDKPISDDFIKKMSSGVNILDTITLPCTVT----KETKYSFRIVL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 181 TQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLSDSEVTEILAMCEDSSG 240 Query: 254 QVNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + + R E + R + G + + P ++ Sbjct: 241 TEEASKMDNKGKRIRRATDAKLFDSREENQESKARRNQKQRTFKGRNADEFRHAPNSKKG 300 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHR-RSPSFPS 343 + S S + + + PS P Sbjct: 301 RHGDKQSEFKGKPSGKGKSFHKPASDNGQRPSKPK 335 >gi|319405144|emb|CBI78750.1| Pseudouridine synthase [Bartonella sp. AR 15-3] Length = 459 Score = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 167/377 (44%), Positives = 214/377 (56%), 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 PHLLEEAQVNLDAP--------------IYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 L+ +A N DAP + +++D I S+ + + +K S Sbjct: 241 ERLILQANANFDAPILKPFSNSTVVEKQNSTKAPVIKDSWIISSKESLLYGKKRKFSGHS 300 Query: 293 NG----------LSKQKKLATPVHR---RNLASNVWMAKGIHSSFLSDSGQREEN--HRR 337 K + R R+ SNVWMA G N H R Sbjct: 301 QAQLSKKIDEKLRGKDQNKGGKEERAFLRSRCSNVWMAPGACPQITRKKSSSNANNHHDR 360 Query: 338 SPSFPSKRSLRRTSAKK 354 ++ K+S R K+ Sbjct: 361 KSNWIDKKSTDRGKEKR 377 >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 = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 64/324 (19%), Positives = 122/324 (37%), Gaps = 9/324 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG L V D + +DG P+ E+ Sbjct: 8 RLNKYISETGFCSRREADKLIEQGRVTINGQLPP-MGSKVTEHDQVCIDGKPVGYKEKPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHNKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + + G+ I +V + + + L Sbjct: 125 LRAGNNHEKEYVVRVNKPISAEFIRQMSAGVNILDTVTLPCKVV----QETQYSFRIILT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R ++ + E L + Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGQWRYLTDAEVNEILAMCESSVST 240 Query: 255 VNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S + + + S + T + G + P ++ Sbjct: 241 EEASKTDSSGKQIRKATDAKLFDSRLAQSKTTSETPHKTYQGRQAHEFRHAPNSKKGREQ 300 Query: 313 NVWMAKGIHSSFLSDSGQREENHR 336 + + S +R + Sbjct: 301 RQQHGDVKRNDNTARSARRNPTRK 324 >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 = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 120/241 (49%), Gaps = 1/241 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E++I + VKVNG ++ V +D +EVD VP+ K Sbjct: 2 SERLQKVMAHAGVASRRKAEKLIVEGHVKVNGKVVRELGTKVTESDEVEVDEVPISKEVP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY ++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 62 VYYLLYKPRG-VITAVTDDKHRKTVIDLLSEVTERIYPVGRLDYDTSGLLLLTNDGDLDN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + D + L+ GI I G + T+ ++ V++ Sbjct: 121 HLTHPKYEVDKTYVAKVKGTITNDDMKKLRTGIHIDGRKTASAKATVIRNNNNSTIVSLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+N ++KK+F V +L R SYG L L G R + + E + Sbjct: 181 IHEGRNHQVKKMFLALGHPVEKLSRQSYGFLNLDGLQPGDYRRLKPHEVEELKKMSQDRK 240 Query: 253 A 253 Sbjct: 241 R 241 >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 = 200 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 122/237 (51%), Gaps = 3/237 (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 Y +++ SD GR V D + R+ VGRLD +T GLLLLTNDG ++ Sbjct: 62 YYLFYKPRG-VISAVSDDKGRKVVTDYFTDVTERIYPVGRLDYDTSGLLLLTNDGSFSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + +VY + G + +L L KGI I G + + + V + Sbjct: 121 LTHPKHEVDKVYVAKIKGVPTKRELLPLAKGIRIDGKRTAPANFQILSADIKTGSSVVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+F+ + V +L R YG L L G R+++KK + + L Sbjct: 181 TIHEGRNHQVKKMFQAVGFPVQKLKRERYGELTLQGLRPGQYRDLTKKEISQLLNQA 237 >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 = 199 bits (506), Expect = 5e-49, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.7, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 199 bits (506), Expect = 5e-49, Method: Composition-based stats. Identities = 76/365 (20%), Positives = 135/365 (36%), Gaps = 22/365 (6%) 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 + V R+ +GRLD ++G Sbjct: 60 LIDDKPLRSKERPIYIALNKPTGITCTTERHIEGNIVDFI--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 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS----------- 289 + E + + + + R +K + Sbjct: 234 IGEINRLIAQSSGTEEASKVDAEGRKIAKATDAKLYDHRQQEARNEKRAQEKAFKTYSGT 293 Query: 290 ----SQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + G + ++ R + + +D + N R P+ S R Sbjct: 294 GEFTRRPGGQRQNRRNEEGGESRQQRGQGRNDRNSNGRNSNDRNGQGRNDNRRPARTSDR 353 Query: 346 SLRRT 350 + + Sbjct: 354 DSKPS 358 >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 = 199 bits (505), Expect = 6e-49, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G+ ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGVRPKGEKETAKPARVEHQQPHRSAK 416 Score = 36.7 bits (83), Expect = 5.2, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 199 bits (505), Expect = 7e-49, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 37.1 bits (84), Expect = 4.4, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGSEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 199 bits (505), Expect = 7e-49, Method: Composition-based stats. Identities = 66/343 (19%), Positives = 122/343 (35%), Gaps = 13/343 (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 + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDI--PGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + L + G+ I +VT K + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITDEFLKQMSSGVRILDTVTLPCKVT----KETKFSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL----L 250 +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLTDDEVAEILAMCDGSVGT 240 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EEA + + E R + + G + + P ++ Sbjct: 241 EEASKTDSRGRNIRKATDAKLFDSREENQGSTARRNQKTRTFRGNNADEFRHAPNSKKGQ 300 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + P + + + Sbjct: 301 QKRRQRDDESSRPAKEHYKAKTQGEHAKP--QGEHGRPQNKPQ 341 >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 = 199 bits (505), Expect = 7e-49, Method: Composition-based stats. Identities = 78/345 (22%), Positives = 136/345 (39%), Gaps = 20/345 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 2 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 235 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 294 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ S S R +P SLR++ Sbjct: 295 KK-----------AQRRPSSPSSNTASGSRPTPRTGGTLSLRKSK 328 >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 = 199 bits (505), Expect = 7e-49, Method: Composition-based stats. Identities = 73/253 (28%), Positives = 118/253 (46%), Gaps = 4/253 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 N +R+ K++A AG+ASRR+ E +I +V+VNG + + D I V+G P+ Sbjct: 5 TNANMERLQKILAAAGVASRRKCEELILSGKVQVNGETVTTLGTKADPSVDVITVEGKPI 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ L + + V D L I RV VGRLD +TEGLLLLTND Sbjct: 65 GAEKKLYLMFNKPKGVITSASDPQGR-KIVTDYLKGIKERVYPVGRLDYDTEGLLLLTND 123 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGS 185 G A +L P + Y G L+ LK+G++++ +V + Sbjct: 124 GEFAHLLTHPKHHVPKTYLATVKGVPHGTALDKLKQGVMLEDGMTAPAEVEYYDIDPEEK 183 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 A +++ + EG+NR+++++F+ + V RL RIS+G LG L G R ++K+ + Sbjct: 184 YATISITIHEGRNRQVRRMFDAISHPVTRLKRISFGDLVLGNLKRGLYRHLTKEEVDSLY 243 Query: 246 GPHLLEEAQVNLD 258 Sbjct: 244 KLARTTTPPTPKR 256 >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 = 199 bits (505), Expect = 7e-49, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 309 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 368 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 369 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 416 Score = 37.1 bits (84), Expect = 4.1, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 422 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 481 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 482 ELRNAEGQTTERGKGGSEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 532 >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 = 199 bits (505), Expect = 7e-49, Method: Composition-based stats. Identities = 69/241 (28%), Positives = 119/241 (49%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +I Q +V+VNG ++ V D I V+G PL + Sbjct: 2 ERLQKAIAASGYTSRRKAEDLIVQGKVEVNGKVVTELGTKVKQGDLITVEGKPLVGENKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T + R + D + R+ VGRLD +T GL++++NDG A + Sbjct: 62 YYVFYKPKGCVCTLDDE-FDRPIITDYFTEVKERIYPVGRLDFDTTGLIIMSNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 + P + ++Y V G + LN L+KG+ ++G+ ++ + + + + + Sbjct: 121 IMHPRSHLEKIYEVSIKGLITGPTLNKLEKGVYLEGVKTLPCKIKVVDKDTEHKTTMLKI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EGKNR++KK+FE V RL R+S G L L G R + + +++ + Sbjct: 181 KLVEGKNRQVKKMFESVGHPVKRLHRVSIGGINLKGLTPGRYRILKPQEVKDLKKLVNTD 240 Query: 252 E 252 + Sbjct: 241 K 241 >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 = 198 bits (504), Expect = 7e-49, Method: Composition-based stats. Identities = 69/345 (20%), Positives = 119/345 (34%), Gaps = 17/345 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R++K I+ G SRRE +R+I Q RV +NG + VM D + VD P+ Sbjct: 8 RLNKFISETGFCSRREADRLIEQGRVTINGQVP-EMGTKVMPGDDVRVDDKPINAVTDKP 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G+ T + R+ +GRLD ++GL+ LTNDG + Sbjct: 67 VYIALNKPTGITCTTERDI--PGNIVDFVGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNK 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + D + + G+ I +VT K + + L Sbjct: 125 ILRAGNNHEKEYVVRVDKPISDDFIKKMSSGVNILDTITLPCKVT----KETKFSFRIVL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E ++V +L R+ L + G R ++ + E L Sbjct: 181 TQGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLTDAEVAEILAMCEGSSN 240 Query: 254 QVNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + + + E D R + G + + P ++ Sbjct: 241 TEEASKIDAKGKRIRKATDAKLFDSREENQDSTARRNQKQRTFKGRNADEFRHAPNSKKG 300 Query: 310 LASNVWMAKGIHSSFL-----SDSGQREENHRRSPSFPSKRSLRR 349 S P SL++ Sbjct: 301 RHSGKQSEFKGKPGGNKGKTFHKPASENSQRPSKPKRGGTLSLKK 345 >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 = 198 bits (504), Expect = 8e-49, Method: Composition-based stats. Identities = 77/345 (22%), Positives = 137/345 (39%), Gaps = 20/345 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 2 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 235 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 294 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ S S + +P SLR++ Sbjct: 295 KK-----------AQRRPSSPSSNTASGSKPTPRTGGTLSLRKSK 328 >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 = 198 bits (504), Expect = 9e-49, Method: Composition-based stats. Identities = 72/231 (31%), Positives = 119/231 (51%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +A AG+ASRR+ E++I Q RVKVNG ++ + D +EVDG + K + Sbjct: 2 ERLQKYMAHAGVASRRKSEKIITQGRVKVNGKIVTELGTKIDPDKDIVEVDGRVISKEKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + TV + + R+ VGRLD +T GLL+LTNDG L Sbjct: 62 VYILLNKPVGYITSVSDPHGR-KTVTGLIKGVSQRIYPVGRLDYDTSGLLILTNDGELTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VL PS + YRV G + L L+ G+ ++ +V+ +K N + Sbjct: 121 VLTHPSHMVEKTYRVEVKGFPSDEVLKKLETGVKLKDGLTAPARVSAVKRKEKNTIFNLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+++++ + + V L RI++GP L L G R +++K ++ Sbjct: 181 IHEGRNRQVRRMCDKIGFPVVNLKRIAFGPLNLKGLKTGQYRFLTEKEVKA 231 >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 = 198 bits (504), Expect = 9e-49, 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|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 = 198 bits (504), Expect = 9e-49, Method: Composition-based stats. Identities = 68/326 (20%), Positives = 120/326 (36%), Gaps = 17/326 (5%) 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 + R+ +GRLD ++GL+LLTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHKKRIFPIGRLDKPSDGLILLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + ++ + G+ I +V + + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITKKFVDQMSSGVEILDTKTLPCKVI----QETKFSFRITLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLSDHEVTEILSMCESSSNT 240 Query: 255 VNLDAPIYS----SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN- 309 + E R + G + + P ++ Sbjct: 241 EEASQRDAKGTQIKSATDAKLFDSREENKASTARRNQKQRTFKGRNADEFRHAPNSKKRH 300 Query: 310 -----LASNVWMAKGIHSSFLSDSGQ 330 +N K S S Sbjct: 301 HGNKLDKNNTARPKNDKSFSKSKPTA 326 >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 = 198 bits (504), Expect = 9e-49, Method: Composition-based stats. Identities = 77/345 (22%), Positives = 136/345 (39%), Gaps = 20/345 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 2 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTEQDEVCIDGKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 235 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 294 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ S S + +P SLR++ Sbjct: 295 KK-----------AQRRPSSPSSNTASGSKPTPRTGGTLSLRKSK 328 >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 = 198 bits (503), Expect = 1e-48, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 400 >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 = 198 bits (503), Expect = 1e-48, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 220/348 (63%), Gaps = 12/348 (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 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P K Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSVK 400 Score = 36.7 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 14/111 (12%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P + + + R PD+ + +K+ K+ Sbjct: 406 QMRPRRYSDEERGGEEGGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 465 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 466 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 516 >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 = 198 bits (503), Expect = 1e-48, Method: Composition-based stats. Identities = 70/354 (19%), Positives = 127/354 (35%), Gaps = 15/354 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRR+ +R I Q V +NG V++ D + V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVFINGKRASV-GDQVVAGDTVRVNGQIIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + + S R+ +GRLD +++GL+ LTN+G Sbjct: 62 QDADDFVFIVLNKPVGIVSTTESSEKNNIVDFVSHGVRIFPIGRLDKDSQGLIFLTNNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + D + L G+ I G VT K S Sbjct: 122 LVNKVLRAGNNHEKEYLVTVNKPITDDFIAGLAGGVPILGTMTKKCPVT----KVSPTVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ K L L Sbjct: 178 NITLVQGLNRQIRRMCEYFGYEVVKLERTRIMNVSLKGIPVGEWRDLTPKELSVLLKSIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRP----------NIISEVPDDFTRMKKNSSQKNGLSKQK 299 ++ + A + R + K+ K Sbjct: 238 DSSSEASAPAKKSRNAPRKNTRTDGSSKPKVSSKPKAPSKPMGAAKGNTKHPKDDARKPA 297 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + R S G G + + + + + S R S + Sbjct: 298 GSKSKDRRPFGDSKKPAGNGAGKRPTGKPGGSPKGNGKPTTNGKRPSAGRGSQR 351 >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 = 198 bits (503), Expect = 1e-48, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 353 REEKTEKVEPRRRSNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 400 Score = 36.3 bits (82), Expect = 7.0, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 406 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 465 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 466 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 516 >gi|296133130|ref|YP_003640377.1| pseudouridine synthase [Thermincola sp. JR] gi|296031708|gb|ADG82476.1| pseudouridine synthase [Thermincola potens JR] Length = 244 Score = 198 bits (503), Expect = 1e-48, Method: Composition-based stats. Identities = 82/231 (35%), Positives = 130/231 (56%), Gaps = 1/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 QR+ K +A AG+ASRR+ E +IA +VKVNG ++ V + D +EV G+ + Sbjct: 2 ERQRLQKFMAHAGVASRRKCEELIAAGKVKVNGKVVTEMGYTVDPSVDRVEVAGLGIIVH 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ L +KP G++++ SD GR TV D + + +R+ VGRLD +TEGL+LLTNDG L Sbjct: 62 EKKEYILLYKPAGVLSSASDDRGRKTVVDLIKNAKTRLYPVGRLDYDTEGLILLTNDGRL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 +L P + + YR G +DKL L+ GI+++ +V + Q N V Sbjct: 122 TNLLIHPRYKVDKTYRAVVQGIPGEDKLAALRNGIMLEDGPTYPARVKMLKQINGNGLVE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+NR+++++F+ V +L R +G +LG L G R +S + Sbjct: 182 ITIHEGRNRQVRRMFDAIGHPVLKLKRTRFGFLELGNLQPGQYRALSAAEV 232 >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 = 198 bits (503), Expect = 1e-48, Method: Composition-based stats. Identities = 91/234 (38%), Positives = 133/234 (56%), Gaps = 1/234 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+ R+++++ E V RL R YG ++G L G RE+S + Sbjct: 183 IHEGRYRQVRRMCEAVGLTVVRLKRSRYGFLEIGELKPGQYRELSSTEVERLQQ 236 >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 = 198 bits (502), Expect = 1e-48, Method: Composition-based stats. Identities = 77/345 (22%), Positives = 137/345 (39%), Gaps = 20/345 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 2 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTDQDEVCIDGKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 235 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 294 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ S S + +P SLR++ Sbjct: 295 KK-----------AQRRPSSPSSNTASGSKPTPRTGGTLSLRKSK 328 >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 = 198 bits (502), Expect = 1e-48, Method: Composition-based stats. Identities = 69/342 (20%), Positives = 135/342 (39%), Gaps = 9/342 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + +R++K I+ G SRRE +++I QQRV +NG + V+S D++E+DG P Sbjct: 1 MPNAAEGKRLNKYISETGFCSRREADKLIEQQRVTINGKIP-EMGTKVLSGDNVEIDGKP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R E+ +KP G+ T + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSKEKPVYIALNKPTGITCTTERDV--PGNIVDFVGHHKRIFPIGRLDKPSDGLIFLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y VR V +D L + G+ I +V ++ + Sbjct: 118 DGDIVNKILRAGNNHEKEYVVRVDKPVTRDFLKKMGSGVAILDTVTLPCRV----EQETK 173 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E ++V +L R+ + + G R ++ + + E Sbjct: 174 FSFRITLTQGLNRQIRRMCEALGFEVLKLRRVRIMNISIDGIPNGKWRYLTDQEVAEIHR 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + + + R + +G + +P Sbjct: 234 LCEGSVSTEEASRKDAKGRHITKATDAKLHDARAEAKR--EKMKTFSGHGADEFRRSPNK 291 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + + ++ + S PSK R Sbjct: 292 NKRHKQEQGRSDKARNHHGKTQNRKPVAAKPDSSKPSKPRTR 333 >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 = 198 bits (502), Expect = 1e-48, Method: Composition-based stats. Identities = 70/241 (29%), Positives = 121/241 (50%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA +G SRR+ E +I Q +V+VNG ++ V D + V+G P+ + Sbjct: 2 ERLQKVIAASGYTSRRKAEDLIVQGKVEVNGQVVRELGTKVKKGDIVTVEGKPIVGENKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T + R V D + R+ VGRLD +T GL++++NDG A + Sbjct: 62 YYVFYKPKGCVCTLDDE-FDRPIVTDYFTDVKERIYPVGRLDFDTTGLIIMSNDGEFANM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 + P + ++Y V G ++ LN L+KGI ++G+ ++ + + + + + Sbjct: 121 IMHPRSHLEKIYEVSVKGLINGQTLNKLEKGIYLEGVKTLPCKIKVVNKDIEHKTTMLKI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EGKNR++KK+FE V RL R+S G L L G R + + +++ + Sbjct: 181 KLVEGKNRQVKKMFESVGHPVKRLHRVSIGCVNLKGLTPGKYRILKPQEVKDLKKLVNGK 240 Query: 252 E 252 + Sbjct: 241 K 241 >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 = 198 bits (502), Expect = 1e-48, Method: Composition-based stats. Identities = 89/238 (37%), Positives = 129/238 (54%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR E +I RV VNG ++ + V+ D IEVDG PL E Sbjct: 3 ERLQKVMARAGVASRRHCEALIQAGRVTVNGQVVTQLGTKVVPGKDVIEVDGRPLGTPET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G V+T DP GR V D L RV VGRLD +TEGLLLLTNDG LA Sbjct: 63 KVYVMLNKPKGYVSTLYDPQGRPKVIDLLGDEVAQRVYPVGRLDFDTEGLLLLTNDGDLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-WVT 190 L PS + Y V+ G KL L++GI ++ +V + + N+ ++ Sbjct: 123 HGLMHPSRMVKKTYIVKVRGVPGPAKLRALQEGIELEDGPTAPAEVKMLDVRPPNSATLS 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + EG+NR+++++F +V L R + GP +LG L G R ++ + + + Sbjct: 183 VRIHEGRNRQVRRMFAALGHEVIHLRRTTLGPLKLGDLSVGEWRYLTDQEVADLYRAA 240 >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 = 198 bits (502), Expect = 1e-48, Method: Composition-based stats. Identities = 81/234 (34%), Positives = 119/234 (50%), Gaps = 1/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +IA+ VKVNG +++ V D ++VD VP+ K Sbjct: 4 ERLQKVIAHAGVASRRKAEELIAKGHVKVNGEVVKELGTKVTPNDEVKVDEVPISKEAPV 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY ++T +D R TV D L + R+ VGRLD +T GLLLLTNDG L Sbjct: 64 YYLLYKPRG-VITAVTDDKHRKTVVDILEEVPERIYPVGRLDYDTSGLLLLTNDGDLDNK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y + G V D L L+ G+VI+ + L ++ V + + Sbjct: 123 LTHPKYEVEKTYVAKVKGIVTNDDLKHLRTGVVIEHRKTAKAKTKLIRTNKDSSIVQLTI 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EG+N ++K +FE + V +L R +YG L L G R + + E Sbjct: 183 HEGRNHQVKNMFEKIGYPVEKLSRETYGFLTLKGLQPGDYRPLKPHEVEELKEL 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 = 198 bits (502), Expect = 1e-48, Method: Composition-based stats. Identities = 69/230 (30%), Positives = 119/230 (51%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +IA+ RVKVNG ++ V D IEVDG + K ++ Sbjct: 2 ERLQKVMAHAGVASRRKSEEIIAEGRVKVNGEIVTEMGFKVDPKKDEIEVDGEVIAKEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + T + ++ D +P + RV GRLD ++ GLL+LTNDG L Sbjct: 62 VYLLLHKPEGYITTVSDPKERQTV-MDLIPDLKQRVYPAGRLDYDSSGLLILTNDGDLCY 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|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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 400 Score = 36.3 bits (82), Expect = 7.1, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 406 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 465 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 466 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 516 >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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 145/348 (41%), Positives = 196/348 (56%), Gaps = 3/348 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 + R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV+ D I VDG P+ Sbjct: 47 DGPEGDRIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVVLGKDRIVVDGNPM 106 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E RLW+YHKP GLVTT +D R T+FD LP RV++VGRLD+N+EGLLLLTND Sbjct: 107 QDPEPPRLWMYHKPSGLVTTTNDELDRRTIFDALPEDMPRVMTVGRLDLNSEGLLLLTND 166 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GG+ R LELPST WLR YRVR +G+ L++G+VI+G + M V LD Q+G+NA Sbjct: 167 GGIKRQLELPSTGWLRRYRVRINGRPKDTDFEPLRQGLVIEGERFQPMTVALDRQQGANA 226 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG Sbjct: 227 WLTIGLREGKNREIRRAIEDIGFTVNRLLRLSYGPFQLGNLKPGEVEELRPRVVRDQLGL 286 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD--DFTRMKKNSSQKNGLSKQKKLATPV 305 E + PD + S K Sbjct: 287 AAPETEEDEKPKRPVRQRPGAGKPGTKPGAKPDFKSGGKPGGKPSGKPSGRSFGSADRSS 346 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + S A F S + +S P+ R+ RTS + Sbjct: 347 EKPGDRSGARPAGKPGGKFASKGKPSDRFAGKSEGKPTGRTADRTSDR 394 >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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 148/340 (43%), Positives = 195/340 (57%), Gaps = 3/340 (0%) 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 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLL 124 TRL+L+HKP GLVTT+ DP+GR TVFD L + +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 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 LGP L A V+ + + S + T Sbjct: 324 LGPSLAAAAGVDWTRHDEDAAEPAAPERARKTPSKTRTEGKSVTKSHGAAPRPSSRTFTK 383 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 R AK S S R E+ R + + Sbjct: 384 DKPREDEHPARTAKPAPRSRKHISLLRAEDENRKGAPRKR 423 >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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 69/344 (20%), Positives = 131/344 (38%), Gaps = 10/344 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + + R++K I+ +G+ SRR +R I Q V +NG + V D + V+G + Sbjct: 2 SDSTTRLNKYISESGLCSRRAADRYIEQGNVYINGKKAKV-GDKVFFGDIVTVNGQTIDP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L + T + G + + RV +GRLD +++GL+ LTN+G Sbjct: 61 KEVENSVLIAYNKPVGITSTTEAGVKGNIVDHVNHSERVFPIGRLDKDSQGLIFLTNNGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + KG+ + G+ +V K S Sbjct: 121 LVNKILRAGNNHEKEYVVTVNKPLTDQFITGMAKGVPVLGVMTKKCKVV----KESPLIF 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R+ L + G RE++ + L Sbjct: 177 KITLIQGLNRQIRRMCEYFGYEVTKLERVRIMNIPLKGIPLGEWRELTPEELTGIFNMVA 236 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 A+ + S + + + V + + + G + RR Sbjct: 237 KSSAEADATPKRVSKKPKTPKEEDFLENVTPGRSSGRNAKPKSKGKAAPA-----SVRRE 291 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 K + + PSKR ++ T + Sbjct: 292 DRPAGGKGKSGPKTSAAFKTTGAAGDWNKSGGPSKRPVKPTKGR 335 >gi|257869547|ref|ZP_05649200.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257803711|gb|EEV32533.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 238 Score = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 79/232 (34%), Positives = 123/232 (53%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I RV VNG +++ V V + D +EVDGVP+ + Sbjct: 2 ERLQKVIAHAGITSRRKAEELIVAGRVSVNGQIVKELGVQVSAKDRVEVDGVPIEQESPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY +++ +D R V D + R+ +GRLD +T GLLLLTNDG L++ Sbjct: 62 YYMLYKPRG-VISAVTDDKKRKVVLDFFTEVPERLYPIGRLDYDTSGLLLLTNDGDLSQK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 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|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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 74/231 (32%), Positives = 117/231 (50%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+++AG+ASRR+ E +I RV+VNG ++ V D I+VDG +++ + Sbjct: 2 ERLQKVMSQAGVASRRKSEDIITAGRVEVNGEVVTELGTKVDPEQDTIKVDGQQIKREKL 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + T + TV D + + V VGRLD +TEGLLLLTNDG L Sbjct: 62 VYLLLNKPQGYITTVDDPHNR-RTVIDLIQDVSQAVHPVGRLDKDTEGLLLLTNDGDLTY 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|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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 81/238 (34%), Positives = 126/238 (52%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR+ E +I Q RVKVNG ++ V D IEVD VP+ Sbjct: 2 ERLQKVIAHAGVASRRKAEELIGQGRVKVNGKVVRELGTKVGPNDKIEVDEVPVESEAPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY +++ +D GR TV D P + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFMLYKPRG-VISAANDDKGRKTVVDFFPHVEERIYPIGRLDYDTSGLLLLTNDGEFANQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 L P + +VY + G ++K+ L++G++++ + + + S V + Sbjct: 121 LMHPKFEVDKVYVAKIKGIPSREKIRQLQRGVMLEDGKTAPARAKVLSIDKSKQTAIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EGKNR+++++F+ V +L R YGP L L AG RE++ +++ Sbjct: 181 TIHEGKNRQVRRMFDAIGHSVLKLKRERYGPLDLRGLNAGEARELTAHEVKQLYSMSQ 238 >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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 77/339 (22%), Positives = 137/339 (40%), Gaps = 16/339 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQPEV-GSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVT----QETQYSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILAMCEDSSGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S +++ R S + ++ ++N +G + Q+ P ++ Sbjct: 241 EEASRVAQSGDSIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQR- 299 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 300 ------HPKSSPSNSSTASKPASRPTPRTGGTLSLRKSK 332 >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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 77/339 (22%), Positives = 137/339 (40%), Gaps = 16/339 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQPEV-GSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + + L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNDILAMCEDSSGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S +T+ R 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|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 = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 166/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 400 Score = 35.9 bits (81), Expect = 8.4, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 406 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 465 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 466 ELRNAEGQTTERGKGGFEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 516 >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 = 197 bits (500), Expect = 2e-48, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 122/230 (53%), Gaps = 2/230 (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 +L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVM-DLVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ E V L R G L L G R +++K + Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGELSLEGLKPGEWRYLTQKEID 230 >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 = 197 bits (500), Expect = 2e-48, Method: Composition-based stats. Identities = 80/230 (34%), Positives = 122/230 (53%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L SI RV +GRLD +T GLLLLTNDG LA Sbjct: 62 NIYIMLNKPVGYITTVKDQFDRPSVI-DLVSIDDRVYPIGRLDYDTSGLLLLTNDGDLAN 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|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 = 197 bits (500), Expect = 3e-48, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 122/230 (53%), Gaps = 2/230 (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 +L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVM-DLVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ E V L R G L L G R +++K + Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQKEID 230 >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 = 197 bits (500), Expect = 3e-48, Method: Composition-based stats. Identities = 77/339 (22%), Positives = 138/339 (40%), Gaps = 16/339 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQPEV-GSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + S R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFISHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVT----QETQYSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILAMCEDSSGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S +++ R + + ++ ++N +G + Q+ P ++ Sbjct: 241 EEASRVAQSGDSIKRATDAKLFDNREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQR- 299 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 300 ------HPKSSPSNSSTASKPASRPTPRTGGTLSLRKSK 332 >gi|196248745|ref|ZP_03147445.1| pseudouridine synthase [Geobacillus sp. G11MC16] gi|196211621|gb|EDY06380.1| pseudouridine synthase [Geobacillus sp. G11MC16] Length = 243 Score = 197 bits (500), Expect = 3e-48, Method: Composition-based stats. Identities = 83/231 (35%), Positives = 125/231 (54%), Gaps = 3/231 (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 LY + + + GR V D I R+ +GRLD +T GLLLLTNDG A + Sbjct: 62 YYLLYKPRGVISSVKDE-KGRKVVTDFFKDIHQRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 L P + +VY + G +++L L+KG++++ +V L + 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|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 = 197 bits (500), Expect = 3e-48, Method: Composition-based stats. Identities = 77/339 (22%), Positives = 137/339 (40%), Gaps = 16/339 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQPEV-GSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVT----QETQYSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILAMCEDSSGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S +++ R S + ++ ++N +G + Q+ P ++ Sbjct: 241 EEASRVAQSGDSIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQR- 299 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 300 ------HPKSSPSNSSTASKPAPRPTPRTGGTLSLRKSK 332 >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 = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 67/353 (18%), Positives = 127/353 (35%), Gaps = 16/353 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++K I+ +G+ SRRE +R I Q V +NG V D ++V+G + E Sbjct: 5 TSIRINKYISESGLCSRREADRFIDQGSVFINGKRAGT-GDQVSPGDLVKVNGQIIEPQE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + + +R+ +GRLD +++GL+ LTN+G L Sbjct: 64 AEDLIFIALNKPVGIVSTTESSEPANIVSFVKHGARIFPIGRLDKDSQGLIFLTNNGDLV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V + + Q ++ + G+ I G +V K S + Sbjct: 124 NKILRAANNHEKEYLVTVNKPITQAFIDGMSGGVPILGQVTKKCKVV----KESTYVFNI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E F ++V RL RI L L G R++++K L+ + Sbjct: 180 TLVQGLNRQIRRMAEHFGYEVTRLERIRIMNVSLKGLALGDWRDLTQKELQTLVKLTEDS 239 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + + ++ + + Sbjct: 240 DTTNPPAKNPRKPKPQGNRHSGNRESGNRRSDTRDGKNNGGARRGGRPSAPGKGKPGSSK 299 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSP----------SFPSKRSLRRTSAKK 354 + S + N + +P P+ RS + + K+ Sbjct: 300 PSNSKPGSSRP-GSSKPPHSKGNGKPAPKGKTGTGGKGRAPAGRSAPKPAGKR 351 >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 = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 147/341 (43%), Positives = 201/341 (58%), Gaps = 2/341 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E +R++K +ARAGIASRR+ E MI RV VNG L A NV D I +DG P+ Sbjct: 81 ETPPGERIAKAMARAGIASRRDAETMIVAGRVSVNGETLTSPARNVTENDRILIDGEPMP 140 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER+RLW++HKP G+VTT DP+GR TVFD LP RV++VGRLDINTEGLLLLTNDG Sbjct: 141 SRERSRLWIFHKPRGVVTTARDPEGRQTVFDVLPEDLPRVVAVGRLDINTEGLLLLTNDG 200 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GLA+V+ P T WLR YRVR HG DQ +L+ L KG+ I G+ YG ++ TLD +G N W Sbjct: 201 GLAKVIAHPDTGWLRRYRVRAHGDTDQAQLDRLAKGVTIDGMEYGPVEATLDRVQGDNVW 260 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G EV ++L++QLG Sbjct: 261 LTLGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEVRTRVLKDQLGKS 320 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 L E+A V+ D+P+ + + ++ + + + Sbjct: 321 LAEQAGVDFDSPVREPIAPFGGTRPADRDAKSAQPAPARRNAARPAPAPRVSTGGAGP-- 378 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 S+ W + + +R + R + + ++R R Sbjct: 379 GPRSSTWRDEDAAKPRGTRVPRRGADPRTAQAAAAERGRER 419 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 17/140 (12%), Positives = 33/140 (23%), Gaps = 7/140 (5%) Query: 217 RISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 R G + AG R V +++ P + + + P Sbjct: 417 RERVGSIR-----AGERRVVVERLSATPAEPAPVAKPKRRFADRGAPERQERPAGPRNER 471 Query: 277 EVPDDFTRMKKNSSQKNGLSK-QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENH 335 + R S + ++ RR +G G + Sbjct: 472 RGDERPRRETARSDAPRDERRFDERGGKSGGRRERTFEAGPTEGTSRKPGGFRGSKPAGA 531 Query: 336 RRSPSFPSKR-SLRRTSAKK 354 P+F + R + Sbjct: 532 GGKPAFGGPKTGAPRPGGSR 551 >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 = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 70/344 (20%), Positives = 131/344 (38%), Gaps = 5/344 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + Sbjct: 4 DESMRLNKYISESGICSRREADRFIEQGNVFINGKRAGV-GDQVFAGDLVKVNGQVIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + G + + +R+ +GRLD +++GL+ LTN G L Sbjct: 63 EADSLVFIVLNKPVGIVSTTEAGEKDNIVDFVNHSTRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +V +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGAVTKKCKV----KKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L RI L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLTDDELIELFKLIED 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 ++V ++ ++ K + + + + P + Sbjct: 239 SSSEVKPAKGGQAAAGQGGKPKASAAQAGKPAPGKKPRRDDDHEIGGRPNVPGPSAFESK 298 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + A G + +G+ N P+ R+ + KK Sbjct: 299 SPAGKGAAGKGGAAKGSAGKGAPNKGAKPAAGKPRAGQGGRQKK 342 >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 = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 82/236 (34%), Positives = 122/236 (51%), Gaps = 3/236 (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 +++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLYKPKG-VISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 L P + +VY + G + L L KGI I+G + + + +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLTKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLLNH 236 >gi|256752042|ref|ZP_05492910.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] gi|256749052|gb|EEU62088.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] Length = 236 Score = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 122/230 (53%), Gaps = 2/230 (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 +L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIILNKPTGYITSVKDQFGRPTVM-DLVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ E V L R G L L G R +++K + Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQKEID 230 >gi|150395641|ref|YP_001326108.1| pseudouridine synthase [Sinorhizobium medicae WSM419] gi|150027156|gb|ABR59273.1| pseudouridine synthase [Sinorhizobium medicae WSM419] Length = 576 Score = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 180/371 (48%), Positives = 236/371 (63%), Gaps = 29/371 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 PQR+SK+++RAG+ASRR+VERMI + RV +NG++L+ VN D IEVDG P+R Sbjct: 45 EQPQRISKILSRAGVASRRDVERMIMEGRVSLNGLVLDTPVVNATLADRIEVDGHPIRGI 104 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWLYHKP GLVTT++DP+GR TVF+NLP RV+S+GRLDINTEGLLLLTNDGGL Sbjct: 105 ERTRLWLYHKPGGLVTTNADPEGRPTVFENLPEDLPRVLSIGRLDINTEGLLLLTNDGGL 164 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 ARVLELPST WLR YRVR HG++DQ L+ LK+GI ++G+ YG ++ TLD +GSN W+T Sbjct: 165 ARVLELPSTGWLRRYRVRAHGEIDQAALDRLKEGIAVEGVLYGAIEATLDRVQGSNVWIT 224 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNREIK V VNRLIRISYGPFQLG L G +E+ + LREQLGP L+ Sbjct: 225 MGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGELPIGQVQEIRGRTLREQLGPRLI 284 Query: 251 EEAQVNLDAPIYSSETLVR------------------------DRPNIISEVPDDFTRMK 286 +A+ N DAPIY+ ++ R ++ + + Sbjct: 285 ADAKANFDAPIYNDQSTAAEPEAEPVADHGKAEWGSKREKAGDKRERALARLDTRRDDGR 344 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR-----EENHRRSPSF 341 N ++ +++ A P RRN +SNVWMA G + ++ RR+P+ Sbjct: 345 PNDRGRSRGKAEERPARPPLRRNRSSNVWMAPGARPTVEKKPKAAEDELSPKSTRRAPAD 404 Query: 342 PSKRSLRRTSA 352 +R + A Sbjct: 405 VKRRDRAKDPA 415 Score = 36.3 bits (82), Expect = 6.4, Method: Composition-based stats. Identities = 15/122 (12%), Positives = 26/122 (21%), Gaps = 3/122 (2%) Query: 235 EVSKKILREQ---LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E+S K R + + A + E + + + ++ Sbjct: 392 ELSPKSTRRAPADVKRRDRAKDPATAKAAGFDEERKGKAGKSAGRKDAAGGFERRRPLEG 451 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S+ P + A SS R F R Sbjct: 452 AERKSRDHGDRPPRRPEGERAARDPADDRASSGGRKETARPPRGDGKKRFADDRPRANAG 511 Query: 352 AK 353 K Sbjct: 512 GK 513 >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 = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 79/353 (22%), Positives = 143/353 (40%), Gaps = 41/353 (11%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N + R++K I+ +G SRRE +++I QRV +NG++ V+S D + Sbjct: 1 MNTSNTSNTTVSSIRLNKFISDSGFCSRREADKLIDSQRVTINGVIP-ELGTKVLSGDEV 59 Query: 61 EVDGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 VDG ++ YHKP+G+ T + + R+ +GRLD Sbjct: 60 RVDGNLIKASAENKSDRVYLAYHKPVGITCTTERHVKGNIIDAI--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------------SDAVEGSTKTALKTDQKIAANVTDKNA----------PKT 271 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + + + H R + S V AK +R+ + +P+ PS+ + Sbjct: 272 EPTRSSKRSHHRGIKSQVGEAKHG--------SRRQATNNTAPATPSRGRKPK 316 >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 = 196 bits (499), Expect = 3e-48, Method: Composition-based stats. Identities = 154/321 (47%), Positives = 196/321 (61%), Gaps = 1/321 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 F +R++KV+ARAG+ SRRE E IA RV+VNG L+ A+ V + D + VDG PL Sbjct: 10 SSAFEGERIAKVMARAGLCSRREAETWIAAGRVEVNGKKLDTPAITVGAKDKVLVDGNPL 69 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ERTRLWLYHKP GLVTT+ DP+GR TVFD LP RV++VGRLDINTEGLLLLTND Sbjct: 70 PTRERTRLWLYHKPRGLVTTNKDPEGRKTVFDRLPKDLPRVLTVGRLDINTEGLLLLTND 129 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLARVLELP+T WLR YRVR G+V Q L+ L G+ I G+ YG ++ +LD ++G N Sbjct: 130 GGLARVLELPATGWLRRYRVRAFGKVTQADLDTLADGVAIDGVLYGGIEASLDKEQGDNV 189 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TVGLREGKNRE+K+V E VNRLIR+S+GPFQL + G RE+ ++LR+QLG Sbjct: 190 WLTVGLREGKNREVKRVLEHLGLSVNRLIRLSFGPFQLQDIAEGEVREIRGRVLRDQLGD 249 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L EEA + DAPI ++ ++P V + P R Sbjct: 250 KLAEEAGADFDAPI-LNQPKQDEQPKKKKSVGQKGGGSEARWMSSRDGEAAVNRKKPGTR 308 Query: 308 RNLASNVWMAKGIHSSFLSDS 328 A + + Sbjct: 309 DKGAKSYRDQQRPSRDQRPSR 329 >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 = 196 bits (499), Expect = 4e-48, Method: Composition-based stats. Identities = 82/236 (34%), Positives = 122/236 (51%), Gaps = 3/236 (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 +++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLYKPKG-VISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 L P + +VY + G + L L KGI I+G + + + +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLLNH 236 >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 = 196 bits (499), Expect = 4e-48, Method: Composition-based stats. Identities = 137/270 (50%), Positives = 178/270 (65%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + R++KV+ARAGIASRRE ERMI RV VNG ++ A+NV +D I VDG Sbjct: 22 MSNTPPPGDRIAKVLARAGIASRREAERMIEAGRVTVNGKTIDSPALNVTPSDRITVDGK 81 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ + E RLWLYHKP GLVTT+ D GR T+FDNLP RV+SVGRLD+N+EGLLLLT Sbjct: 82 PVAEPEPARLWLYHKPTGLVTTNRDEKGRPTIFDNLPEDMPRVMSVGRLDLNSEGLLLLT 141 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + R LELPST WLR YRVR +G+ + L++G+VI+G + M VTLD Q+G+ Sbjct: 142 NDGTIKRKLELPSTGWLRKYRVRINGRPKDEDFAPLRQGLVIEGERFQPMTVTLDRQQGA 201 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++LR+QL Sbjct: 202 NAWLTIGLREGKNREIRRAIEDIGFTVNRLLRVSYGPFQLGNLKPGEVEEIRRRVLRDQL 261 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNII 275 G ++ R + Sbjct: 262 GLGPEDKPTPAKRPARPQRSRKPAGRKSRG 291 >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 = 196 bits (498), Expect = 4e-48, Method: Composition-based stats. Identities = 165/348 (47%), Positives = 221/348 (63%), Gaps = 12/348 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK------------NSSQKNGLS 296 L+EE+ + DAP+ + + + E+ + + +S+ + Sbjct: 293 LIEESGADFDAPVLNEFSNAAVQGRTRREMEEGELPQEGERRRAPREREWISSTGERRRG 352 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 +++K RR +NVWMA G ++ + + P +K Sbjct: 353 REEKTEKVEPRRRGNANVWMAPGARPKGEKEAAKPARVEHQQPHRSAK 400 Score = 36.7 bits (83), Expect = 5.7, Method: Composition-based stats. Identities = 15/111 (13%), Positives = 27/111 (24%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 Q+ P E + + R PD+ + +K+ K+ Sbjct: 406 QMRPRRFSEEERGGEESGERRYKRPEGRFEREGGRPDNREKYEKHEGAGKERRPGKRERA 465 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G G R + RS R S + Sbjct: 466 ELRNAEGQTTERGKGGSEGRKPGKPGGPRSEGRFGGADRDTRSGPRGSGPR 516 >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 = 196 bits (498), Expect = 4e-48, Method: Composition-based stats. Identities = 69/327 (21%), Positives = 136/327 (41%), Gaps = 10/327 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R++K I+ G SRRE ++ I Q RV VNG V V +TD + VDG P Sbjct: 15 LSDMTELKRLNKFISETGFCSRREADKYIEQGRVSVNGN-APEMGVKVAATDVVLVDGKP 73 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L+ + Y+KP+G+ T + V + R+ +GRLD +EGL+ LTN Sbjct: 74 LKTPPKRVYIAYNKPVGITCTTERKIQSNIVKAV--NYPDRIFPIGRLDRPSEGLIFLTN 131 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + Y V +++ ++ + GI I +VT + + Sbjct: 132 EGDIVNKILRAGNNHEKEYVVTVDKPLNRQFVSKMANGIPILDTVTKKCKVT----QTAP 187 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E+ ++V L R L L G R +S + + Sbjct: 188 KEFKIILTQGLNRQIRRMCEYLGYEVVTLKRTRIMNVTLKGLKVGQWRHLSDVEMAQI-- 245 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + ++ + + +++ + ++ + ++ K + P Sbjct: 246 NDSIADSGKTQEHSLDTNKQVDKNAVISPKRDFQGENPRRNKQKERGDEQKNNRTNAPYQ 305 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREE 333 +R+ + V K ++ S + Sbjct: 306 KRST-TYVGKPKTAKANSASSNKAGAR 331 >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 = 196 bits (498), Expect = 4e-48, Method: Composition-based stats. Identities = 82/236 (34%), Positives = 122/236 (51%), Gaps = 3/236 (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 +++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLYKPKG-VISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 L P + +VY + G + L L KGI I+G + + + +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLLNH 236 >gi|322420558|ref|YP_004199781.1| pseudouridine synthase [Geobacter sp. M18] gi|320126945|gb|ADW14505.1| pseudouridine synthase [Geobacter sp. M18] Length = 262 Score = 196 bits (498), Expect = 4e-48, Method: Composition-based stats. Identities = 86/260 (33%), Positives = 134/260 (51%), Gaps = 1/260 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++AGIASRRE E +IA+ RV VNG ++ D 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ R+++++ E V RL R Y +G + G R ++ + + + Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRSRYDFLVIGEMKPGDFRHLTADEVAKLRRKTVPSG 242 Query: 253 AQVNLDAPIYSSETLVRDRP 272 + R Sbjct: 243 TGRGPRKTGVVARRKTAPRR 262 >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 = 196 bits (498), Expect = 4e-48, Method: Composition-based stats. Identities = 73/252 (28%), Positives = 124/252 (49%), Gaps = 3/252 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ R++K +A AG+ASRR+ E +I +V VN + + V + D +E Sbjct: 7 QNNKPYLTKVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVE 66 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V+GV + E L + + D ++ D +P + R+ VGRLD +T GL Sbjct: 67 VNGVAVYNEEPVYYLLNKPRGYISSVSDDKGRQTV-MDLMPQVKERIYPVGRLDWDTSGL 125 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG ++ PS +VY + GQ +++ L L G+ I+G + + Sbjct: 126 LLLTNDGEFTNMMTHPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIK 185 Query: 182 QK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q+ +++ V++ + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 186 QEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 245 Query: 240 ILREQLGPHLLE 251 + + + + Sbjct: 246 EVSQLINAAQGK 257 >gi|257876560|ref|ZP_05656213.1| pseudouridine synthase [Enterococcus casseliflavus EC20] gi|257810726|gb|EEV39546.1| pseudouridine synthase [Enterococcus casseliflavus EC20] Length = 240 Score = 196 bits (497), Expect = 5e-48, Method: Composition-based stats. Identities = 82/234 (35%), Positives = 127/234 (54%), Gaps = 3/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + + Sbjct: 2 KMERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVSSKDVVEVDGVPIEQEQ 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 Y +++ +D R V D + RV VGRLD +T GLLLLTNDG L+ Sbjct: 62 HVYYLFYKPRG-VISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGELS 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 + L P + +VY + G D+ +L L KGI I+G + + + + + V Sbjct: 121 QTLMHPKHEVDKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTTQSSIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EG+N ++K + + V +L R +YGP L L G RE++KK + + Sbjct: 181 QLTIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELTKKEVSQ 234 >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 = 196 bits (497), Expect = 5e-48, Method: Composition-based stats. Identities = 92/281 (32%), Positives = 143/281 (50%), Gaps = 1/281 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR+++++ E +KV RL R G +LG+L +G R ++KK LRE L++ Sbjct: 183 IHEGRNRQVRRMCEHIGYKVLRLRRTRIGTLELGSLKSGEVRALTKKELRELASLVGLKQ 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 ++ + + + S++ Sbjct: 243 NYNDMQLTTEVQKKKPSPCGRVGRIKGKVSEQKSNRSAKSK 283 >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 = 196 bits (497), Expect = 5e-48, Method: Composition-based stats. Identities = 127/274 (46%), Positives = 166/274 (60%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 N + P R++K +ARAG+ SRRE ER IA RV VNG LL+ A V D + V Sbjct: 27 TSNTAETRDGPMRIAKAMARAGLCSRREAERWIADGRVSVNGKLLKTPACEVGPKDKVIV 86 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG PL A +LW YHKP G+VTTHSDP GR TVF+ LP RVIS+GRLD NTEGLL Sbjct: 87 DGKPLPAASTPQLWRYHKPKGVVTTHSDPQGRPTVFEKLPPEMPRVISIGRLDFNTEGLL 146 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLT DG LAR ELP+ W+R YRVR G+V L LK G+ I G+ YG ++ ++DT Sbjct: 147 LLTTDGALARHFELPANGWVRRYRVRAKGRVTPADLAKLKDGVEIDGVSYGPIEASVDTV 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G+N+W+++ +REGKNRE++ V + VNRLIR+S+GPFQL L G+ V +++L Sbjct: 207 QGANSWLSISIREGKNREVRNVLAYLGLTVNRLIRVSFGPFQLLDLAPGAVEAVRRRVLV 266 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 QLGP ++ + Sbjct: 267 AQLGPKAAASLGLSESQEERKERHARGKAASGSR 300 >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 = 196 bits (497), Expect = 6e-48, Method: Composition-based stats. Identities = 58/241 (24%), Positives = 115/241 (47%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK K ++ + P R++K ++ AG+ SRRE + I + V+VNG ++ + D + Sbjct: 1 MKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQEGVVQVNGQIVTELGTKITRQDTV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P++ + + L + T+ + + + + R+ VGRLD NT G Sbjct: 61 LFKDQPVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 121 VLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVSIEDMEKIANGLELEDGEIHADAISYA 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 181 SED-DKSQVGIEIHSGRNRIVRRIFESLGYHVVKLDRVYFAGLTKKNLGRGKWRYLNERE 239 Query: 241 L 241 + Sbjct: 240 V 240 >gi|167629967|ref|YP_001680466.1| pseudouridine synthase [Heliobacterium modesticaldum Ice1] gi|167592707|gb|ABZ84455.1| pseudouridine synthase [Heliobacterium modesticaldum Ice1] Length = 333 Score = 196 bits (497), Expect = 6e-48, Method: Composition-based stats. Identities = 96/331 (29%), Positives = 146/331 (44%), Gaps = 5/331 (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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR----MKKNSSQKNGLSKQKKLATP 304 ++EA + + R ++ + + Sbjct: 242 GMKEATAHGRDERRQTARPSRTAATAKVASAHKDAGKGVFKGLKGLREASNGGDGRGKSA 301 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENH 335 +R + +G + + Sbjct: 302 SGKRFDSGVHGKCQGKNDGGPWSRPAGPRSR 332 >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 = 196 bits (497), Expect = 6e-48, Method: Composition-based stats. Identities = 82/236 (34%), Positives = 122/236 (51%), Gaps = 3/236 (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 +++ +D GR V D LP + R+ VGRLD +T G+LLLTNDG A+ Sbjct: 62 YYLLYKPKG-VISAVADDKGRKVVTDLLPMVKERIYPVGRLDYDTSGILLLTNDGDFAQR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 L P + +VY + G + L L KGI I+G + + + +++ V + Sbjct: 121 LTHPKHEVDKVYVAKVKGIATKSMLAPLAKGIKIEGRKTSPAKFQILSVDPKTNHSIVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+N ++K + + V +L R YG L L G RE++KK + L Sbjct: 181 TIHEGRNHQVKNMLQAVGLPVQKLKREKYGDLTLQGLRPGDYRELNKKEVSSLLNH 236 >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 = 196 bits (497), Expect = 6e-48, Method: Composition-based stats. Identities = 75/356 (21%), Positives = 136/356 (38%), Gaps = 10/356 (2%) 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 + V R+ +GRLD ++G Sbjct: 60 LIDDKPLRSKERPIYIALNKPTGITCTTERHIEGNIVDFI--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 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL---SK 297 + E + + + + R +K + +K Sbjct: 234 IAEIHRLISQSSGTEEASKVDGEGRKIEKATDAKLYDHRQQEARNEKRAQEKKFKTYSGT 293 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + P +R N +G + R + + + + + RR ++ Sbjct: 294 GEFTRRPGGQRQNRRNEEGGEGRQQRGQRNGQGRNDRNSQDRNGNERNDNRRQDSR 349 >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 = 196 bits (497), Expect = 6e-48, Method: Composition-based stats. Identities = 82/234 (35%), Positives = 128/234 (54%), Gaps = 3/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + + Sbjct: 2 KMERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVSSKDVVEVDGVPIEQEQ 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 Y +++ +D R V D + RV VGRLD +T GLLLLTNDG L+ Sbjct: 62 HVYYLFYKPRG-VISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGELS 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWV 189 + L P + +VY + G D+ +L L KGI I+G + + + + ++ V Sbjct: 121 QTLMHPKHEVDKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTAQSSIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EG+N ++K + + V +L R +YGP L L G RE++KK + + Sbjct: 181 QLTIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELTKKEVSQ 234 >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 = 196 bits (497), Expect = 6e-48, Method: Composition-based stats. Identities = 74/339 (21%), Positives = 134/339 (39%), Gaps = 16/339 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG E V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGAQPEV-GSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + V +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDVQGNIVDFIGHHKRI--FPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILAMCEDSSGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S +++ R S + ++ ++N +G + Q+ P ++ Sbjct: 241 EEASRVAQSGDSIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNSKKAQRR 300 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 + ++ R +P SLR++ Sbjct: 301 PTSSSSNSSTASKPTP-------RPTPRTGGTLSLRKSK 332 >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 = 195 bits (496), Expect = 6e-48, Method: Composition-based stats. Identities = 76/235 (32%), Positives = 114/235 (48%), Gaps = 3/235 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KV+A AGIASRR+ E++I + RVKVNG ++ V D IEVD VP+ + Sbjct: 3 RLQKVLAHAGIASRRKAEQIILEGRVKVNGEIINELGRQVSKQDKIEVDNVPIYQEAPVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 Y + + D ++ L S RV VGRLD +T GLL++TNDG L + L Sbjct: 63 YLFYKPRGIITSVSDDKKRKTVADYFLHSN-ERVYPVGRLDYDTTGLLIVTNDGSLTQQL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTVG 192 PS + +VY + G + L L KGI I+G + + + V + Sbjct: 122 THPSHEIDKVYVAKVKGIALRKTLLPLTKGIKIKGRKTAPANFQILSVDTKKQTSLVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+N ++K + + + V +L R G L L G R ++KK + L Sbjct: 182 IHEGRNHQVKDMLDTVGYPVQKLKRERIGDLTLEGLHPGEYRRLTKKEIHALLNH 236 >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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 55/244 (22%), Positives = 104/244 (42%), Gaps = 5/244 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ G SR +V+++I + VKVN +++ + ++ D +E++ + E Sbjct: 1 MRLDKFLSNQGFGSRSQVQKLIKKGFVKVNDEIVKDPSYHIDPMKDKVELEDEEILYKEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + I S++ VGRLDI+TEGLL+LT DG Sbjct: 61 HYFMLNKPAGYITATEDEEYPTVLDLFSDLPIASKLFPVGRLDIDTEGLLILTTDGQFGH 120 Query: 133 VLELPSTQWLRVYRVRFH---GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y +D + + + +V + + + Sbjct: 121 RLSHPKWNIEKEYYAIVEGDISNIDFSESENKGIYLKKEKYQTKPFKVKVLNTSKDKSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + L EGK +K++ + + V L RI G +L LL G RE+++K +++ Sbjct: 181 LITLTEGKYHIVKRIMQELGYPVLYLKRIRIGNLKLDEDLLPGEFRELTEKEIKDLKKLI 240 Query: 249 LLEE 252 + + Sbjct: 241 KMND 244 >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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 70/228 (30%), Positives = 119/228 (52%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +ARAG+A+RR+ E++I RVKVNG +++ V D +EVDG ++ + Sbjct: 2 ERLQKYLARAGVAARRDAEQLILAGRVKVNGKVVKELGFKVSDRDVVEVDGRIVKPEKLV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y + T + + + RV VGRLD+NTEGLL+LTNDG LA Sbjct: 62 YILMYKPAGYITTVDDPFGRPTVLSLLAGKVKERVFPVGRLDMNTEGLLILTNDGDLAMA 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P Q + Y G ++ KL L++G++++ +V +G N+W+ + + Sbjct: 122 LTHPKHQVPKTYLALVRGTPNRAKLKELERGVLLEDGYTAPAKVNFKKPEGKNSWIEITI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+ R+++++F+ V +LIR L GS R ++ + Sbjct: 182 HEGRKRQVRRMFKKIGHPVLKLIRTRIAFLTGYGLKKGSFRYLTPAEV 229 >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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 72/231 (31%), Positives = 119/231 (51%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+++ ++ G+ SRR+ +++I + RVKVNG ++ V + D +EVDG ++ + Sbjct: 3 VRLNRYLSMCGVTSRRKADKLIEEGRVKVNGEVVRDLGVKIDPEVDRVEVDGKEVKPPRK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L L 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EG+ +K+ F V +L RI+ G +LG L G RE+S++ LR+ Sbjct: 183 FHEGRKHIVKRFLASFGHPVIKLKRIALGTLKLGKLPPGKWRELSQRELRQ 233 >gi|292558985|gb|ADE31986.1| Pseudouridine synthase, Rsu [Streptococcus suis GZ1] Length = 245 Score = 195 bits (496), Expect = 7e-48, 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 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|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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 80/244 (32%), Positives = 130/244 (53%), Gaps = 3/244 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ KVIA+AGIASRR+ E +I Q +VKVNG ++ V D +EV+ +PL K E Sbjct: 2 EMERLQKVIAQAGIASRRKAEELIQQGKVKVNGKVVTELGTKVTPQDKVEVNNIPLEKEE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 LY + + D GR V D P I R+ +GRLD +T G+LL+TNDG A Sbjct: 62 PIYFLLYKPTGVISSVS-DDKGRKVVTDFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 +L P + + Y + G + +K+ +L+KG+V++ +V + + A V Sbjct: 121 NILMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVVLEDGKTAPARVKILSWDKRKEMAIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EG+NR+++++FE KV +L R Y ++G+L G RE+S +++ Sbjct: 181 QLTIHEGRNRQVRRMFEALGCKVMKLKRERYAFLEVGSLRPGDARELSPHEVKQLRALAS 240 Query: 250 LEEA 253 + Sbjct: 241 TKPR 244 >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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 82/231 (35%), Positives = 128/231 (55%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIARAGIASRR+ E +I Q RVKVNG +++ V V D +EVDG+P+ + E Sbjct: 2 ERLQKVIARAGIASRRKAEELILQGRVKVNGRVVKELGVKVGPRDDVEVDGIPIEREEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY ++++ D GR V D + R+ +GRLD +T GLLLLTNDG A + Sbjct: 62 YYLLYKPRG-VISSVKDDRGRKVVTDFFKDLDKRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 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|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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 89/230 (38%), Positives = 127/230 (55%), Gaps = 1/230 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++++ E V RL RI GP L L G R +++ L+ Sbjct: 183 IHEGRNRQVRRMCEHIGHPVLRLKRIRVGPLVLEGLKPGQFRPLTEVELK 232 >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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 89/230 (38%), Positives = 127/230 (55%), Gaps = 1/230 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+ R+++++ E V RL R YG ++G L G R ++ + Sbjct: 183 IHEGRYRQVRRMCEAVGLTVVRLKRSRYGFLEIGELKPGEYRLLTPAEVE 232 >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 = 195 bits (495), Expect = 9e-48, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 131/241 (54%), Gaps = 3/241 (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 +++ SD GR V D I R+ VGRLD +T G+L+LTNDG A + Sbjct: 62 YFLLYKPRG-VISAVSDDKGRKVVTDFFEGIKQRIYPVGRLDYDTSGILILTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 L PS + +VY + G ++ + L++G+V++ + L + V + Sbjct: 121 LMHPSNEIEKVYVAKIKGIPSKEGMRSLQRGVVLEDGKTAPAKTKLLSMDKKKQTAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE V +L R YG L L AG RE++ +++ + + Sbjct: 181 SIHEGRNRQVRRMFEAIGHPVLKLKRERYGYLTLQGLSAGDARELTAHEVKQLRALAMKK 240 Query: 252 E 252 + Sbjct: 241 K 241 >gi|163791509|ref|ZP_02185915.1| RluB [Carnobacterium sp. AT7] gi|159873232|gb|EDP67330.1| RluB [Carnobacterium sp. AT7] Length = 244 Score = 195 bits (495), Expect = 9e-48, 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|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 = 195 bits (495), Expect = 1e-47, Method: Composition-based stats. Identities = 73/247 (29%), Positives = 133/247 (53%), Gaps = 3/247 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + +V+VNG + V +D + V+G+PL + Sbjct: 2 SQQLERLQKRIANSGYTSRRKAETLIEEGKVQVNGKTVTELGTKVRPSDEVTVEGIPLEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR V D + +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKLYILFYKP-AQVITSVSDDRGRKVVTDYFDDLVTRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + + Y + G + ++++ L+KGI ++ +V + ++ + + Sbjct: 121 FTNLMTHPRYKIPKTYVAKIEGYILREQVKQLEKGIQLEDGLTQPAKVKVKKQNKEKNTS 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F + V +L R+S+GP L L AG R +S ++ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGFSVQKLSRVSFGPLTLKGLGAGEGRVLSPHEVKSLRHL 240 Query: 248 HLLEEAQ 254 + Q Sbjct: 241 AENGQQQ 247 >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 = 195 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 84/267 (31%), Positives = 135/267 (50%), Gaps = 4/267 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE E +IA RV VNG ++ D 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ R+++++ E V RL R Y ++G + G R ++ + + + Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRARYDFLEIGDMKPGEYRHLAPEEV---TRLNRKMA 239 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVP 279 P + R Sbjct: 240 PVGTGRGPRKTGVVARRGSTGTGRRTR 266 >gi|300070794|gb|ADJ60194.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. cremoris NZ9000] Length = 239 Score = 195 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 73/240 (30%), Positives = 122/240 (50%), Gaps = 3/240 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 1 MRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAVYNEEPV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D ++ D +P + R+ VGRLD +T GLLLLTNDG + Sbjct: 61 YYLLNKPRGYISSVSDDKGRQTV-MDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + PS +VY + GQ +++ L L G+ I+G + + Q+ +++ V++ Sbjct: 120 MTHPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F V +L RI YG L L G R +SKK + + + + Sbjct: 180 TIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKKEVSQLINAAQGK 239 >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 = 195 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 71/372 (19%), Positives = 137/372 (36%), Gaps = 31/372 (8%) 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 + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSREKPIYIALNKPTGITCTTERDI--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTN 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 PH-------LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 + +++ + D + + + G + + Sbjct: 234 MCEGSVSTEDASKMNAKGQRIRKATDAKLFDSREENQTSTARRNQNENRTRTYRGNNADE 293 Query: 300 KLATPVHRRNLASNVWMAKGIH-----------------SSFLSDSGQREENHRRSPSFP 342 P +R S+ + G + + +N+ R P Sbjct: 294 FRHAPNSKRGRNSSNGESGGGGNTENWKSNSRSERSNSDKNRSDRNRTDRDNNERRSGKP 353 Query: 343 SKRSLRRTSAKK 354 + RS K Sbjct: 354 TNRSPDSNRPNK 365 >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 = 195 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 128/238 (53%), Gaps = 3/238 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ Sbjct: 1 MIMSKELERLQKRIANSGYTSRRKAETLITEGKVKVNGEVVTELGTKVKPSDQVEVEGIK 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E L+HKP ++T+ SD GR+ V D + +R+ VGRLD +T G+LLLTN Sbjct: 61 ME-QEDKIYILFHKPAQVITSVSDDHGRTVVTDYFKDLDTRIYPVGRLDYDTSGVLLLTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKG 184 DG ++ P + Y + G + ++++ L+ GI ++ ++ + Sbjct: 120 DGEFTNLMTHPRYHIPKTYVAKLKGYLMREEVKTLEAGIELEDGLTQPATVKIKRQDKDK 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V + + EG+NR+++++FE F VN+L RI +G L L AG R ++ ++ Sbjct: 180 NTTLVEITISEGRNRQVRRMFEHFGHSVNKLTRIQFGSLNLKGLNAGEGRVLTPHEVK 237 >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 = 195 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 71/372 (19%), Positives = 137/372 (36%), Gaps = 31/372 (8%) 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 + R+ +GRLD ++GL+ LTN Sbjct: 60 VRSREKPIYIALNKPTGITCTTERDI--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTN 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 PH-------LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 + +++ + D + + + G + + Sbjct: 234 MCEGSVSTEDASKMNAKGQRIRKATDAKLFDSREENQTSTARRNQNENRARTYRGNNADE 293 Query: 300 KLATPVHRRNLASNVWMAKGIH-----------------SSFLSDSGQREENHRRSPSFP 342 P +R S+ + G + + +N+ R P Sbjct: 294 FRHAPNSKRGRNSSNGESSGGGNTENWKSNSRSERSNSDKNRSDRNRTDRDNNERRSGKP 353 Query: 343 SKRSLRRTSAKK 354 + RS K Sbjct: 354 TNRSQDSNRPNK 365 >gi|327484742|gb|AEA79149.1| Ribosomal large subunit pseudouridine synthase F LSU Psi2604 [Vibrio cholerae LMA3894-4] Length = 328 Score = 195 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 73/334 (21%), Positives = 129/334 (38%), Gaps = 9/334 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 2 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTINGLQPEV-GSKVTEQDEVCIDGKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSDAEVSEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 235 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 294 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 ++ + S R Sbjct: 295 KKAQRRPSSSSSNTASGSKPTPRTGGTLSLRKSK 328 >gi|295099584|emb|CBK88673.1| ribosomal large subunit pseudouridine synthase B [Eubacterium cylindroides T2-87] Length = 241 Score = 194 bits (493), Expect = 1e-47, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 114/232 (49%), Gaps = 4/232 (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 + + +++ D D R+ + I RV +VGRLD +T G+LLLTNDG Sbjct: 62 YYVINKTKGCICSSNDDRDRRTVLDYL--DIPQRVYTVGRLDYDTSGVLLLTNDGDFCNQ 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + Y V G + QD + LL+KG+ + +V + + + Sbjct: 120 MIHPRYHLPKTYVVNLQGTLTQDDIRLLRKGLKTNIGDFQPAKVKIISNDVTRDRTIFEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGKN ++K + E +V +L R+ +G ++ L G R + +++ Sbjct: 180 TIMEGKNHQVKNMMEALGHQVRKLHRVRFGSIEVNDLKPGEYRRLKPYEVKQ 231 >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 = 194 bits (493), Expect = 1e-47, Method: Composition-based stats. Identities = 165/353 (46%), Positives = 214/353 (60%), Gaps = 12/353 (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 QLGPHLLEEAQVNLDAP------------IYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 QLG L+EE+ + DAP E R +S Sbjct: 292 QLGDKLIEESGADFDAPVLNEFSNAAVQGRTRREMEEGQPEQDGETRRAPREREWISSRP 351 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + ++ K RR +NVWMA G + + + P +K Sbjct: 352 ERRRGREDKTEKVEPRRRGNANVWMAPGARPKGEKAAAKPPRVEHQVPHRSAK 404 Score = 36.3 bits (82), Expect = 8.2, Method: Composition-based stats. Identities = 13/96 (13%), Positives = 18/96 (18%) Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + R RP R + + K+ + Sbjct: 432 NKRPEGRFDKDSRPQRPRPEGNRSEEGRPERREPREDGRKERRPGKRERAELRDAEGRVG 491 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 G G R S S RS R Sbjct: 492 ERGKGGFEGRKSGKPGAPRGEGRFSASDRDTRSGPR 527 Score = 35.9 bits (81), Expect = 8.4, Method: Composition-based stats. Identities = 9/113 (7%), Positives = 29/113 (25%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + V + S +M+ + + +++ Sbjct: 368 RRGNANVWMAPGARPKGEKAAAKPPRVEHQVPHRSAKFSGDLQMRPRRAGEEEQGREEGG 427 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 ++R ++ + + RR P ++ R ++ Sbjct: 428 ERRYNKRPEGRFDKDSRPQRPRPEGNRSEEGRPERREPREDGRKERRPGKRER 480 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 75/339 (22%), Positives = 137/339 (40%), Gaps = 16/339 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR ER Sbjct: 8 RLNKFISETGFCSRREADKLIEQGRVTLNGVQPEV-GSKVTEQDEVCIDGKPLRSKERPI 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP G+ T + R+ +GRLD ++GL+ LTNDG + + Sbjct: 67 YIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDGDIVNKI 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + + + + G+ I +VT + + + L Sbjct: 125 LRAGNNHEKEYVVRVDKPITPEFIRQMASGVNILDTVTLPCKVT----QETQYSFRIVLT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 181 QGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVNEILAMCEDSSGT 240 Query: 255 VNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 S +++ R + + ++ ++N +G + Q+ ++ Sbjct: 241 EEASRVAQSGDSIKRATDAKLFDNREANKESKARRNPKTYHGKNAQEFRHALNSKKAQR- 299 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 SS + S + R +P SLR++ Sbjct: 300 ------HPKSSPSNSSTASKPASRPTPRTGGTLSLRKSK 332 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 61/255 (23%), Positives = 103/255 (40%), Gaps = 5/255 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K EN R++K I+ GI SRRE + +I ++RV +NGI V STD +++ Sbjct: 4 NKINHNENSDSMRINKFISEKGICSRREADTLIQEKRVTINGITA-ELGSRVKSTDEVKL 62 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG L + E+ + + + + R+ +GRLD ++EGL+ Sbjct: 63 DGKLLTEKEKDDKVYIALNKPVGIICTTEKKIKNNIVDFVNYPKRIFHIGRLDKDSEGLI 122 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LTNDG + + + Y V + L + G+ I +V Sbjct: 123 FLTNDGDIVNKILRAGNNHEKEYIVTVDKCITNSFLKEMASGVSILNTVTKPCKVY---- 178 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 K + + L +G NR+I+++ E + V +L RI L + G R +S L+ Sbjct: 179 KEGSHIFRIILTQGLNRQIRRMCEALGYNVLKLKRIRIMNVTLKDIPVGKWRYLSPSELK 238 Query: 243 EQLGPHLLEEAQVNL 257 Sbjct: 239 TINKLTSTSIKTEEA 253 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 78/233 (33%), Positives = 114/233 (48%), Gaps = 3/233 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA+AGI SRR+ E I RVKVNG+++ V S D IEVD VP+ + Sbjct: 3 RLQKVIAQAGITSRRKAEVYILDGRVKVNGVVVNELGTKVSSKDTIEVDNVPISQEGSVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 Y +++ SD R V D + R+ +GRLD NT GLLLLTNDG +++L Sbjct: 63 YLFYKPRG-VISAVSDDKKRKVVTDFFTEVSERIYPIGRLDYNTSGLLLLTNDGEFSQLL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVG 192 P + + Y + G L L +G+ +G Y + + + + V + Sbjct: 122 THPKNEIEKKYVAKVKGVALPHALKPLTRGLKYKGEKYAPAKYDILSTDTRAETSIVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EGKN ++K + E V +L R YG LG L G R + KK + + Sbjct: 182 IHEGKNHQVKNMLEAVGLPVQKLKREQYGNLTLGNLKPGEYRPLLKKEINQFF 234 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 80/244 (32%), Positives = 132/244 (54%), Gaps = 3/244 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 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 + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKKDISKLHTLAVTK 239 Query: 252 EAQV 255 + Sbjct: 240 PVKK 243 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 140/308 (45%), Positives = 187/308 (60%), Gaps = 1/308 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++KV+ARAG+ASRRE E++I RV VNG + A+NV D I VDG PL + E Sbjct: 22 GDRIAKVLARAGVASRREAEKIIEAGRVTVNGKTILTPALNVTDKDRIVVDGKPLAEPEP 81 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R+WLY+KPIGLVT+ D GR TVFD LP RV+SVGRLDIN+EGLLLLTNDG L R Sbjct: 82 PRIWLYYKPIGLVTSERDEKGRETVFDTLPDDMPRVVSVGRLDINSEGLLLLTNDGELKR 141 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +ELPST WLR YRVR +G + + KL+ L+ GI I G+ Y ++V D Q+G+NAW+T+G Sbjct: 142 KMELPSTGWLRRYRVRINGSLSEAKLDELRAGIQIDGVHYAPVEVKFDRQQGANAWLTMG 201 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREI+K+ E VNRL+RISYGPFQLGTL G EV ++I+R+Q+G + Sbjct: 202 LREGKNREIRKLMEAMGVVVNRLLRISYGPFQLGTLKPGKVEEVKQRIVRDQMGLRETPK 261 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + A + ++ D + + K ++ + P + Sbjct: 262 PTMVGKAAEKGKRPPPKRGTAASAKRFTDPEKRN-SDPTKRNTGAVERNSGPTSGHSAGR 320 Query: 313 NVWMAKGI 320 + Sbjct: 321 SAGKPPRK 328 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 80/244 (32%), Positives = 132/244 (54%), Gaps = 3/244 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 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 + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGNLDLTGLRPGEYRKLNKKDISKLHTLAVTK 239 Query: 252 EAQV 255 + Sbjct: 240 PVKK 243 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 156/349 (44%), Positives = 211/349 (60%), Gaps = 2/349 (0%) 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 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G L EEA + DAPI+ ++ + +K Q L+ ++ + Sbjct: 291 GDALAEEAGADFDAPIFHMPKQEEEKKRPGPRGGSRDSSSEKG--QGKWLTAREGKSATD 348 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 ++ S+ K ++ + R + + ++ Sbjct: 349 RKKAARSDDGGPKQGKRRNEGPRREKVSPRSKFRMTSEPRFRKDYNEER 397 >gi|253699802|ref|YP_003020991.1| pseudouridine synthase [Geobacter sp. M21] gi|251774652|gb|ACT17233.1| pseudouridine synthase [Geobacter sp. M21] Length = 266 Score = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 84/267 (31%), Positives = 135/267 (50%), Gaps = 4/267 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++AG+ASRRE E +IA RV VNG ++ D 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ R+++++ E V RL R Y ++G + G R ++ + + + Sbjct: 183 IHEGRYRQVRRMCEAVGLNVVRLKRARYDFLEIGDMKPGEYRHLAPEEV---TRLNRKMA 239 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVP 279 P + R Sbjct: 240 PVGTGRGPRKTGVVARRGSTGPGRRTR 266 >gi|12724251|gb|AAK05373.1|AE006360_2 pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] Length = 257 Score = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 72/250 (28%), Positives = 121/250 (48%), Gaps = 3/250 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + R++K +A AG+ASRR+ E +I +V VN + + V + D +E Sbjct: 7 QKNKPYLTKVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVE 66 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V+GV + E L + + D ++ D +P + R+ VGRLD +T GL Sbjct: 67 VNGVAVYNEEPVYYLLNKPRGYISSVSDDKGRQTV-MDLMPQVKERIYPVGRLDWDTSGL 125 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG ++ P +VY + GQ +++ L L G+ I+G + + Sbjct: 126 LLLTNDGEFTNMMTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIK 185 Query: 182 QK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q+ +++ V++ + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 186 QEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGSLTLDGLPTGQFRRLSKK 245 Query: 240 ILREQLGPHL 249 + + + Sbjct: 246 EVSQLINAAQ 255 >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 = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 76/242 (31%), Positives = 129/242 (53%), Gaps = 3/242 (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 + + D GR V D I R+ +GRLD +T G+LL+TNDG A + Sbjct: 62 YFLLYKPTGVISSVS-DDKGRKVVTDFFQDIPQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L+KG++++ +V + + + V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVILEDGKTSPARVKIISWDKRKEMSIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEAIGCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 127/234 (54%), Gaps = 3/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ KVIA AGI SRR+ E +I + RV+VNG +++ V V S D +EVDGVP+ + Sbjct: 2 KMERLQKVIAHAGITSRRKAEGLITEGRVRVNGQVIKELGVQVGSKDVVEVDGVPIEQEP 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 Y +++ +D R V D + RV VGRLD +T GLLLLTNDG L+ Sbjct: 62 HVYYLFYKPRG-VISAVTDDKKRKVVLDYFAEVPERVYPVGRLDYDTSGLLLLTNDGELS 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWV 189 + L P + +VY + G D+ +L L KGI I+G + + + + ++ V Sbjct: 121 QTLMHPKHEVEKVYVAKVKGIADKKQLLPLTKGIRIEGRKTAPARFEILSTDQTAQSSIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EG+N ++K + + V +L R +YGP L L G RE+SKK + + Sbjct: 181 QLTIHEGRNHQVKNMLKAVGLPVQKLKRENYGPLDLKGLRPGEYRELSKKEVSQ 234 >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 = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 69/243 (28%), Positives = 115/243 (47%), Gaps = 4/243 (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 + L T+ D ++ + R+ SVGRLD +T G+LLLTNDG Sbjct: 62 YYIMNKPKGCLCTSSDDKGRKTVLDY--MPKNERIFSVGRLDYDTSGVLLLTNDGEFCNH 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + Y V G + +D + L+KG+ + Y +V + + + + Sbjct: 120 MIHPRYHLEKTYVVNLQGILSEDDIKQLRKGLKTKTEKYQPAKVFVLQKDLTRNRTQFEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EGKN ++K + +V RL R+ + + L AG R + +++ + Sbjct: 180 TISEGKNHQVKNMMLALGHEVRRLHRVKFAFLDVKDLRAGEYRRLKPYEIKQLNRLAMEG 239 Query: 252 EAQ 254 E + Sbjct: 240 ENK 242 >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 = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 77/244 (31%), Positives = 129/244 (52%), Gaps = 3/244 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGVTIDGKKTKPATYEILKVDVEKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G + L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKKEISQLHNLAVTK 239 Query: 252 EAQV 255 + Sbjct: 240 SKKA 243 >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 = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 85/240 (35%), Positives = 124/240 (51%), Gaps = 3/240 (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 +V+T +D GR TV D + ++ RV VGRLD +T GLLLLTNDG LA Sbjct: 62 YIMLYKPRG-VVSTANDDKGRKTVVDLVENVSQRVYPVGRLDYDTSGLLLLTNDGELANR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTV 191 L P + + Y R G D + L++GI + G Y + + + A +++ Sbjct: 121 LTHPRYEVEKTYIARVTGVPTNDAMKQLRQGITVDGETYAPAKSKVLSAADDRKTAIISL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EGKN ++KK+ V +L R YG L L AG R++ + ++E L Sbjct: 181 TIHEGKNHQVKKMLAAVGCPVEKLKREQYGFLTLKGLNAGEARQLKPEEVKELRRLTHLA 240 >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 = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 79/269 (29%), Positives = 125/269 (46%), Gaps = 12/269 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK- 69 TPQR+ K++A+ G+ASRR+VE I R++VNG ++ D +EVDG + Sbjct: 3 TPQRLQKLLAQQGLASRRQVEAWILAGRIRVNGKVVTELGFKADPERDRVEVDGRVIPFG 62 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTN 126 R L L+ L T ++ + P ++ VGRLD ++ G LLLTN Sbjct: 63 DPARYVLLLHKPLGVLSTCKDPWGRKTVLDLLPPPWNRQIRLYPVGRLDADSSGALLLTN 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT----- 181 DG L L P ++YRV+ G+ + L + G+ ++G +V Sbjct: 123 DGDLTLKLTHPRYHLPKIYRVQVQGRPSRATLQQWRDGVNLEGYTTLPAEVEFCPAPNFG 182 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q +++W+ V L EG+NR+I++V E V RL R + GP LG L AG R + + Sbjct: 183 YRQDANSSWLRVVLFEGRNRQIRRVAEQLGHPVLRLHREAIGPLHLGNLKAGQFRLLEPQ 242 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLV 268 ++ L P ++ + S Sbjct: 243 EVQALLAPLAGTDSLALFRSASLHSFRPS 271 >gi|326406814|gb|ADZ63885.1| ribosomal large subunit pseudouridine synthase B [Lactococcus lactis subsp. lactis CV56] Length = 257 Score = 193 bits (491), Expect = 2e-47, Method: Composition-based stats. Identities = 72/250 (28%), Positives = 121/250 (48%), Gaps = 3/250 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + R++K +A AG+ASRR+ E +I +V VN + + V + D +E Sbjct: 7 QKNKPYLTKVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVE 66 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V+GV + E L + + D ++ D +P + R+ VGRLD +T GL Sbjct: 67 VNGVAVYNEEPVYYLLNKPRGYISSVSDDKGRQTV-MDLMPQVKERIYPVGRLDWDTSGL 125 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG ++ P +VY + GQ +++ L L G+ I+G + + Sbjct: 126 LLLTNDGEFTNMMTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIK 185 Query: 182 QK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q+ +++ V++ + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 186 QEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 245 Query: 240 ILREQLGPHL 249 + + + Sbjct: 246 EVSQLINAAQ 255 >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 = 193 bits (491), Expect = 3e-47, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 130/237 (54%), Gaps = 4/237 (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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG+NR+++++FE + V RL RISYG L L G R ++ + + L Sbjct: 181 ITIHEGRNRQVRRMFEAISHPVLRLKRISYGDLLLQNLKRGLYRHLTADEINQLLQM 237 >gi|30024033|ref|NP_267431.2| pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] Length = 239 Score = 193 bits (491), Expect = 3e-47, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 120/238 (50%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 1 MRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDIVEVNGVAVYNEEPV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D ++ D +P + R+ VGRLD +T GLLLLTNDG + Sbjct: 61 YYLLNKPRGYISSVSDDKGRQTV-MDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P +VY + GQ +++ L L G+ I+G + + Q+ +++ V++ Sbjct: 120 MTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+N ++KK+F V +L RI YG L L G R +SKK + + + Sbjct: 180 TIHEGQNHQVKKMFAAAGLPVQKLSRIQYGSLTLDGLPTGQFRRLSKKEVSQLINAAQ 237 >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 = 193 bits (491), Expect = 3e-47, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 123/240 (51%), Gaps = 1/240 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 ++EG+NR+++++ E V L R+ +GP L L G R + + + + + Sbjct: 183 IKEGRNRQVRRMLEAVGHPVVSLKRVRFGPLTLSGLQEGRWRRLEPREIEQLRRAAGAKR 242 >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 = 193 bits (491), Expect = 3e-47, Method: Composition-based stats. Identities = 76/254 (29%), Positives = 123/254 (48%), Gaps = 2/254 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E++I +V VN ++ V + IEV+GVPL++ ++ Sbjct: 2 ERLQKVIAQAGIASRRKAEQLILDGKVTVNDKVVRELGTKVTGKEKIEVEGVPLQREKKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+ + T + R+ + + RV VGRLD +T G+LL+TNDG A Sbjct: 62 YYVLHKPRGYVSTVSDELGRRTVLDFFADRVSERVYPVGRLDYDTSGVLLMTNDGEFANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 + PS + +VY R G V + L KGI I G TL + N + V + Sbjct: 122 MMHPSGEIDKVYLARVKGIVLPENLKPFGKGIEIDGYKTKPASATLVSVDKKNQSSLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+ ++KK+F+ + V +L R +G + L AG R ++ ++ L Sbjct: 182 TIHEGRYHQVKKMFDAIGFPVKKLRREQFGTIDVQGLAAGEFRPLTPHEVKTLLTAANST 241 Query: 252 EAQVNLDAPIYSSE 265 + + L Sbjct: 242 QVKKKLKFNKMRQF 255 >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 = 193 bits (491), Expect = 3e-47, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 122/240 (50%), Gaps = 3/240 (1%) 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 Y +++ D R V D P I R+ VGRLD NT GLLLLTNDG A Sbjct: 62 YYVFYKPIG-VISAVKDDKDRKVVTDFFPGIEQRIYPVGRLDYNTSGLLLLTNDGEFANT 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + +VY + G + ++ L++G+ I G+ Q + + + + Sbjct: 121 LMHPRYEINKVYVAKVEGVITGEERKQLERGVEIDGVKTAPAQAKILSVDKDKKTTIIEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++K+ E V +L R YG L L G +R + K + E L + Sbjct: 181 VIHEGRNRQVRKMLEAVGHPVTKLKRERYGFLDLKGLKPGDSRTLLKHEIEELLANAKKK 240 >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 = 193 bits (491), Expect = 3e-47, Method: Composition-based stats. Identities = 70/241 (29%), Positives = 130/241 (53%), Gaps = 3/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + Sbjct: 2 SKELERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVSHSDTVEVEGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR V D I +R+ VGRLD +T G+LLLTNDG Sbjct: 62 EDKMYILFYKPT-QVITSVSDDLGRKVVTDYFEDIETRIYPVGRLDYDTSGVLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 ++ P + Y + G + ++++ L++GI ++ ++ ++ + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREQVKELEQGIELEDGFTQPAQVKIKRQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEYFGHEVNKLTRIQFGPLDLKGLNAGEGRVLTPHEVKTLRHL 240 Query: 248 H 248 Sbjct: 241 A 241 >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 = 193 bits (490), Expect = 3e-47, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 128/240 (53%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKENLRPLTRGVTIDGKKTKPATYEILKVDPEKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G + L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKKEISQLHTLAVTK 239 >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 = 193 bits (490), Expect = 3e-47, Method: Composition-based stats. Identities = 73/240 (30%), Positives = 122/240 (50%), Gaps = 3/240 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ASRR+ E +I +V VN + + V + D +EV+GV + E Sbjct: 1 MRINKYLAHAGVASRRKAEELILAGKVTVNNVPMTNLGYQVSTGDVVEVNGVAVYNEEPV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D ++ D +P + R+ VGRLD +T GLLLLTNDG + Sbjct: 61 YYLLNKPRGYISSVRDDKGRQTV-MDLMPQVKERIYPVGRLDWDTSGLLLLTNDGEFTNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + PS +VY + GQ +++ L L G+ I+G + + Q+ +++ V++ Sbjct: 120 MTHPSHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIKQEKTKNHSIVSL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F V +L RI YG L L G R +SKK + + + + Sbjct: 180 TIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKKEVSQLINAAQGK 239 >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 = 193 bits (490), Expect = 3e-47, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 127/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A + Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVT-DFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G+ ++ V + + A V + Sbjct: 121 LMHPKYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAHVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 193 bits (490), Expect = 3e-47, Method: Composition-based stats. Identities = 83/245 (33%), Positives = 130/245 (53%), Gaps = 3/245 (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 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSN 186 + P + +VY R G +++ L L +G+VI+G + + Sbjct: 145 DFTDEMIHPRNEIDKVYVARVKGVANKEVLRPLTRGLVIEGKKTKPAVYEILKVDPVKNR 204 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V + + EG+N ++KK+FE V++L R +G L L G R +SKK + + Sbjct: 205 SVVQLTIHEGRNHQVKKMFEAVGLPVDKLSRTQFGHLDLTGLKPGEARRLSKKEVSQLHN 264 Query: 247 PHLLE 251 + + Sbjct: 265 LAVTK 269 >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 = 193 bits (490), Expect = 4e-47, Method: Composition-based stats. Identities = 77/244 (31%), Positives = 129/244 (52%), Gaps = 3/244 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGVTIDGKKTKPATYEILKVDVEKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G + L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLLVDKLSRTQFGNLDVSGLRPGEYRRLNKKEISQLHNLAVTK 239 Query: 252 EAQV 255 + Sbjct: 240 SKKS 243 >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 = 193 bits (490), Expect = 4e-47, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 133/235 (56%), 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 ++ + Y ++T+ SD GR+ V D ++ +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKIYILFYKPT-QVITSVSDDRGRTVVTDYFKNLEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L++GI ++ QV + ++ + 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|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 = 193 bits (490), Expect = 4e-47, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 131/243 (53%), Gaps = 3/243 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLLPLTRGVEIDGKKTKPAVYEIIKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLEVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHNLAITK 239 Query: 252 EAQ 254 + Sbjct: 240 AGK 242 >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 = 193 bits (490), Expect = 4e-47, Method: Composition-based stats. Identities = 158/353 (44%), Positives = 206/353 (58%), Gaps = 1/353 (0%) 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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+QLG L+E+A + +API R + + + K Sbjct: 277 RDQLGERLIEQAGADFEAPIAIPFANKPVRAERRKPEEEKRKTGLEE-NAGRQERKPANR 335 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 ++ + + F + + P SK + S ++ Sbjct: 336 RKSREEKHEEARDRLQTKRPDDFKGKGSAAHKGKDQRPPRISKTARPEKSGQE 388 Score = 47.5 bits (111), Expect = 0.004, Method: Composition-based stats. Identities = 23/132 (17%), Positives = 36/132 (27%), Gaps = 17/132 (12%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE + R++L ++ + A + RM +S Sbjct: 339 REEKHEEARDRLQTKRPDDFKGKGSAAHKGKDQRPPRISKTARPEKSGQERMSGDSKA-- 396 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHS-----------SFLSDSGQREENHRRSPSFP 342 + PV RR+ ASNVWMA G R+ Sbjct: 397 ----EGPTRAPVERRSRASNVWMAPGARPVGKKRAEEASKDAEKKPRAGRPATGRAERRD 452 Query: 343 SKRSLRRTSAKK 354 R R ++ Sbjct: 453 GDRPTRPGKGRR 464 >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 = 193 bits (489), Expect = 4e-47, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 126/234 (53%), Gaps = 1/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K ++ AG+ASRR+ E++I + RVKVNG ++ V V D +EVDG P++ + Sbjct: 4 VRINKFLSEAGVASRRKAEKLILEGRVKVNGEVVRSLGVKVNPEVDIVEVDGKPVKPQRK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L L 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EG+ +K+ F KV RL RI+ GP +LG L G RE+++ L + Sbjct: 184 FHEGRKHLVKRFLGAFGHKVKRLKRIAIGPIKLGKLSPGKWRELNQGELAQLFK 237 >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 = 193 bits (489), Expect = 4e-47, Method: Composition-based stats. Identities = 69/348 (19%), Positives = 128/348 (36%), Gaps = 10/348 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRRE +R I Q V +NG E V D ++V+G + Sbjct: 3 NDSTTRLNKYISESGICSRREADRYIEQGNVYINGKRAEV-GDRVAPGDTVKVNGQIIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + + +R+ +GRLD +++GL+ LTN+G Sbjct: 62 QEPEDFVFIALNKPVGIVSTTESSERNNIVRFVGHSTRIFPIGRLDKDSQGLIFLTNNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + + G+ I G +V +K S Sbjct: 122 LVNKILRAGNDHEKEYLVEVNKPIRDNFIEGMANGVPILGTMTKKCKV----KKESPTVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG NR+I+++ E+F + V L R+ L L G R++++K L Sbjct: 178 RITLVEGLNRQIRRMCEYFGYDVVALERVRIMNVDLKGLATGDWRDLTQKELNGIFDAIK 237 Query: 250 LEEAQVNLDAPIYSSETLVR-----DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 ++ ++P + + K+ ++ G K KK + Sbjct: 238 DSSSEAPAGRKTTQKRGGKPGGSGQNKPGNKTNSKKPAAKASKSGPKRGGPHKAKKTSGN 297 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + ++ S +G + PS + Sbjct: 298 PNTKHPPKPPGGKPSGKPSPKGKAGGKPSGKPMKGGKPSPKGKAGGKP 345 >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 = 193 bits (489), Expect = 4e-47, Method: Composition-based stats. Identities = 101/363 (27%), Positives = 155/363 (42%), Gaps = 27/363 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AGIASRR+ E IA RV VNG ++ V D I VDG P+ K Sbjct: 4 ERLQKVLASAGIASRRDCEEYIAAGRVMVNGKVVRIPGTRVDPEHDEILVDGKPIGKIHH 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+V+T DP GR TV +L ++ R+ VGRLD ++EGLLLLT+DG L + Sbjct: 64 RTYVMLHKPAGVVSTTDDPHGRPTV-VDLVNLPQRLFPVGRLDYDSEGLLLLTDDGELTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS Q + Y+V + + L + G+ + G+ V L + AWV V Sbjct: 123 KLTHPSYQVEKEYQVLLNDAPSPNALRAWRTGVELDGVKTAPAWVELIERTPEGAWVRVI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EG+ R+I++V ++V RLIR+ GP LG L +G+ R ++ + + Sbjct: 183 LHEGRKRQIREVARLLGYEVRRLIRVREGPLALGDLPSGTWRFLTDEEVDMLREHAERNA 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ--------------------- 291 A + + P + ++ + R+ + + Sbjct: 243 AVADAERPRRREQDEMKAVGGRRLRRINPSARLLQKGEKVTETTLPELDEAIGSEKGIPS 302 Query: 292 ----KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + ++ G S +D G + RR R Sbjct: 303 IGEEGRKVRDKEAPHRNASPARDFRRDDRGSGFRSDRRNDRGSGPRDFRRDDRGNGPRDF 362 Query: 348 RRT 350 RR Sbjct: 363 RRD 365 >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 = 193 bits (489), Expect = 4e-47, Method: Composition-based stats. Identities = 82/231 (35%), Positives = 124/231 (53%), Gaps = 3/231 (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 LY + + + GR V D I R+ +GRLD +T GLLLLTNDG A + Sbjct: 62 YYLLYKPRGVISSVKDE-KGRKVVTDFFKDIHQRIYPIGRLDYDTSGLLLLTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTV 191 L P + +VY + G +++L +KG++++ +V L + 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|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 = 193 bits (489), Expect = 4e-47, Method: Composition-based stats. Identities = 153/354 (43%), Positives = 208/354 (58%), Gaps = 13/354 (3%) 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 QVNLDAPIYSSETLVRDRPNIISEVPD-----------DFTRMKKNSSQKNGLSKQKKLA 302 + DAP+ + + + + +++ L + A Sbjct: 309 GADFDAPVAKPFSNRPVEAERTERPKKADEWISASETAPNKKRVREAKREDALGRLDTRA 368 Query: 303 TPVHR--RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R R + S + K+ Sbjct: 369 GRPERNDRGDRKPYGERPAKRFEGPKKPYGDRDAAGGRDDAASPPKRPIDAPKR 422 >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 = 193 bits (489), Expect = 4e-47, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 127/235 (54%), Gaps = 3/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + Sbjct: 2 SKELERLQKRIANSGYTSRRKAETLITEGKVKVNGEVVTELGTKVKPSDQVEVEGIKME- 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D + +R+ VGRLD +T G+LLLTNDG Sbjct: 61 QEDKIYILFHKPAQVITSVSDDRGRTVVTDYFKDLDTRIYPVGRLDYDTSGVLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 ++ P + Y + G + ++++ L+ GI ++ ++ + + Sbjct: 121 FTNLMTHPRYHIPKTYVAKLKGYLMREEVKALEAGIELEDGLTQPATVKIKRQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE F VN+L RI +G L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEHFGHSVNKLTRIQFGSLNLKGLNAGEGRVLTPHEVK 235 >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 = 193 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 158/347 (45%), Positives = 209/347 (60%), Gaps = 2/347 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +R++KV+AR G+ SRRE E I RV++NG LL AV V D + VDG PL Sbjct: 99 NDRGERIAKVMARVGLCSRREAEVWIENGRVELNGKLLTTPAVTVTPDDKVVVDGQPLPM 158 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP RV++VGRLDINTEGLLLLTNDGG Sbjct: 159 RERTRLWLYHKPRGLVTTNKDPEGRPTVFERLPDDLPRVLTVGRLDINTEGLLLLTNDGG 218 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LARVLELP+T WLR YRVR G+V Q L+ LK GI I+G+ YG ++ TLD ++G+N W+ Sbjct: 219 LARVLELPATGWLRRYRVRAFGKVTQPDLDTLKDGIAIEGVLYGAIEATLDKEQGNNVWM 278 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 TVGLREGKNRE+K+V E VNRLIR+SYGPFQL L G RE+ ++LR+QLG L Sbjct: 279 TVGLREGKNREVKRVLEHLGLAVNRLIRLSYGPFQLMDLPEGDVREIRGRVLRDQLGDAL 338 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 EEA + DAPI+ + ++ ++ + ++G + R Sbjct: 339 AEEAGADFDAPIFHAPKPEAEKKPAGAKRGGSRDGGNREGRDRDGGGRDGGGRDGGKREG 398 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRS--PSFPSKRSLRRTSAKK 354 A+ S + E + + + + R+ + + Sbjct: 399 GQGRWMTAREGRSETDRKRAAKNERNEQREERKKGAGKGPRKNAGPR 445 >gi|121535833|ref|ZP_01667633.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] gi|121305605|gb|EAX46547.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] Length = 241 Score = 193 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 121/240 (50%), Gaps = 4/240 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE 71 P+R+ K++++AGIASRR E++I RV VNG ++ V D + VDG P+ E Sbjct: 2 PERLQKILSQAGIASRRAAEKLILDGRVAVNGKIITELGAKVDWPRDRVTVDGKPIAA-E 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G++T+ DP GR TV D L + RV VGRLD NTEGLLLLTNDG L Sbjct: 61 APVYILLNKPKGVITSLKDPRGRKTVIDLLKDVPERVYPVGRLDYNTEGLLLLTNDGDLT 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WV 189 L PS + + Y + G ++++L+ L+ GI + V L V Sbjct: 121 HALTHPSHEIKKTYVSKIAGLPNEEQLDRLRAGIKLSDGMTSPAAVRLLDFDPVKQVAVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EG+NR+++++FE V L R Y L L G R ++ + Sbjct: 181 EITIHEGRNRQVRRMFEAIGHPVKSLKRTKYAFLTLTGLKRGEYRRLTPDEVASLKKLAQ 240 >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 = 193 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 168/347 (48%), Positives = 225/347 (64%), Gaps = 11/347 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + T +R++K +ARAGIASRRE E MIA R+ VNG +LE AVNV TD I VDG PL+ Sbjct: 53 QEDTGERIAKRLARAGIASRREAETMIAAGRIAVNGKVLESPAVNVKRTDIITVDGKPLK 112 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRLWLYHKP GLVTT+ DP+GR TVF+ LP+ RV+SVGRLDINTEGLLLLTNDG Sbjct: 113 QTERTRLWLYHKPAGLVTTNRDPEGRPTVFEALPAEMPRVLSVGRLDINTEGLLLLTNDG 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELPST WLR YRVR HG+V Q +L+ LK GI + G+ YG ++ TL+ ++G+N W Sbjct: 173 GLSRVLELPSTGWLRRYRVRAHGKVTQVQLDELKNGIAVDGVFYGSIEATLEREQGANVW 232 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +++GLREGKNRE+K + V RLIR+S+GPFQLG L G+ RE+ +ILR+QLG Sbjct: 233 ISIGLREGKNREVKNILGALGLTVGRLIRVSFGPFQLGDLEEGAVREIKGRILRDQLGDK 292 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK-----------NSSQKNGLSK 297 L+E++ + DAP+ + + + +V D+ ++ +S Q+ Sbjct: 293 LIEDSGADFDAPVLNEFSNAAVQGRTRRDVEDEGEEGERRRGPREREWISSSPQRRRGRD 352 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 K RR +NVWMA G + + + R+ P +K Sbjct: 353 DKGAEKVEPRRRGNANVWMAPGARPKGENAAAKPARVERQVPHRSAK 399 Score = 40.5 bits (93), Expect = 0.39, Method: Composition-based stats. Identities = 14/137 (10%), Positives = 32/137 (23%), Gaps = 8/137 (5%) Query: 226 GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 G L R ++ R++ G + + + P+ + Sbjct: 402 GDLQMRPRRAGDEEQGRDEGGERRYNKRPEGRFDKDARPQRPRPEGNRSEEGRPERREQR 461 Query: 286 KKNSSQKNGLSKQKKLATPVHRRN--------LASNVWMAKGIHSSFLSDSGQREENHRR 337 + ++ +++ R G + R+ Sbjct: 462 EDGRKERRPGKRERAELRDAEGRTVEHGKGGFEGRKTGKPGGPRGEGRFGASDRDTRSGP 521 Query: 338 SPSFPSKRSLRRTSAKK 354 S P +S R K Sbjct: 522 RSSGPGNKSRRFDDGSK 538 Score = 39.4 bits (90), Expect = 0.80, Method: Composition-based stats. Identities = 9/113 (7%), Positives = 26/113 (23%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + V + S +M+ + + + Sbjct: 363 RRGNANVWMAPGARPKGENAAAKPARVERQVPHRSAKFSGDLQMRPRRAGDEEQGRDEGG 422 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 ++R A+ + + RR ++ R ++ Sbjct: 423 ERRYNKRPEGRFDKDARPQRPRPEGNRSEEGRPERREQREDGRKERRPGKRER 475 >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 = 193 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 132/235 (56%), 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 ++ + Y ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKIYILFYKPT-QVITSVSDDRGRTVVTDYFKDLEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L++GI ++ QV + ++ + 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|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 = 193 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 127/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRNVVT-DFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G+ ++ V + + A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPANVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >gi|311030759|ref|ZP_07708849.1| pseudouridine synthase [Bacillus sp. m3-13] Length = 242 Score = 193 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 76/242 (31%), Positives = 128/242 (52%), Gaps = 3/242 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E +I + +V+VN +++ V V D IEV+G+P+ + + Sbjct: 2 ERLQKVIAHAGIASRRKAEELIKEGKVRVNDKVVKELGVKVNPNDKIEVEGIPVEREKPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY + + D GR D P I R+ VGRLD +T GLLL+TNDG A V Sbjct: 62 YFLLYKPRGVISSVS-DDKGRKVATDFFPYIEERIYPVGRLDYDTSGLLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P+++ +VY + G ++ + L++GI ++ ++ L + + + + Sbjct: 121 LMHPASEVEKVYVAKLKGIPSREAIKSLERGIKLEDGKTAPARIKLLSMERTKNTSIFEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE V +L R YG L L AG RE++ +++ Sbjct: 181 SIHEGRNRQVRRMFEAIGHPVMKLKRERYGFLNLHGLSAGEARELTPHEVKQLRVMATKP 240 Query: 252 EA 253 + Sbjct: 241 KK 242 >gi|158320609|ref|YP_001513116.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158140808|gb|ABW19120.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 234 Score = 193 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 75/229 (32%), Positives = 113/229 (49%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 VT +L + R+ VGRLD NT GLL+LTNDG L Sbjct: 61 KVYILLNKPTGYVT-TVSEQFNRKKVTDLVDVPYRIFPVGRLDYNTSGLLILTNDGELTY 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|311693777|gb|ADP96650.1| pseudouridine synthase family 1 protein [marine bacterium HP15] Length = 312 Score = 192 bits (488), Expect = 5e-47, Method: Composition-based stats. Identities = 60/308 (19%), Positives = 113/308 (36%), Gaps = 5/308 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +G+ SRRE +R I Q V +NG V+ D ++V+G + Sbjct: 6 STRLNKYISESGMCSRREADRYIEQGNVYINGKRATV-GDQVLPGDTVKVNGQVIEPRAE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + R+ +GRLD +++GL+ +T++G L Sbjct: 65 EDLVFIALNKPVGIVSTTDSAEKHNIQRFVGHSERIFPIGRLDKDSQGLIFMTSNGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V V ++ + + G+ I G +V+ + S + Sbjct: 125 KILRAGNNHEKEYLVTVDKPVTREFVEGMANGVPILGTMTKKCKVSRE----SRFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E+F ++V +L RI L L G R++S+K L Sbjct: 181 LVQGLNRQIRRMCEYFGYEVTKLERIRIMNVSLKGLAVGQWRDLSEKELAGLFDAIRDSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 ++ A + + P + K + K K Sbjct: 241 SEAPPGAGKPAKKKSGTKAKPKPDRKPGSASTPGKPGGARRPGPKGKPAPGKKPASGKRP 300 Query: 313 NVWMAKGI 320 + Sbjct: 301 KGGKPRQK 308 >gi|296131694|ref|YP_003638941.1| pseudouridine synthase [Thermincola sp. JR] gi|296030272|gb|ADG81040.1| pseudouridine synthase [Thermincola potens JR] Length = 244 Score = 192 bits (488), Expect = 5e-47, Method: Composition-based stats. Identities = 68/235 (28%), Positives = 115/235 (48%), Gaps = 4/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 QR+ KV+A G+ +R+E +++I +++V+VNG L + ++V D I V+G P+ Sbjct: 3 EKERQRLDKVLAHMGLGTRKEAKKLIKERKVEVNGELAQDPGLHVRPGQDRIVVNGEPVE 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L L L T + + VGRLD +TEGLLLLTNDG Sbjct: 63 YRQFVYLMLNKPQGVLSATGDESGQVVVDLLSPNYQSFHPFPVGRLDKDTEGLLLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNA 187 LA L P + Y G V Q+ + + ++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|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 = 192 bits (488), Expect = 6e-47, Method: Composition-based stats. Identities = 56/241 (23%), Positives = 112/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK K ++ + P R++K ++ AG+ SRRE + I V+VN ++ + D + Sbjct: 1 MKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQAGVVQVNDQVVTELGTKITRQDKV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 ++ + + L + T+ + + + + R+ VGRLD NT G Sbjct: 61 LFKDQQVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTG 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 121 VLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVSIEDMEKIANGLELEDGEIHADAISYA 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 181 SED-DKSQVGIEIHSGRNRIVRRIFESLGYHVVKLDRVYFAGLTKKNLGRGKWRYLNERE 239 Query: 241 L 241 + Sbjct: 240 V 240 >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 = 192 bits (488), Expect = 6e-47, Method: Composition-based stats. Identities = 96/268 (35%), Positives = 138/268 (51%), Gaps = 1/268 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR+++++ E + V RL R+ YG ++ L G R +++ R L P Sbjct: 183 IHEGRNRQVRRMCEAVSLSVVRLKRVRYGALEMRGLKPGQHRLLTEAEARALLTPGAGLR 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPD 280 + + + P Sbjct: 243 SAEAPREKRARNAGQPPRETRGRGKKPT 270 >gi|260893153|ref|YP_003239250.1| pseudouridine synthase [Ammonifex degensii KC4] gi|260865294|gb|ACX52400.1| pseudouridine synthase [Ammonifex degensii KC4] Length = 251 Score = 192 bits (488), Expect = 6e-47, Method: Composition-based stats. Identities = 97/247 (39%), Positives = 140/247 (56%), Gaps = 1/247 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +REG+ R+I+++ + +V RL R++ GP +LG L G R ++ + + L E Sbjct: 184 IREGRKRQIRRMLKALGCEVLRLKRVAVGPVRLGPLRPGEYRHLTPREVDSLRKAAGLVE 243 Query: 253 AQVNLDA 259 Sbjct: 244 VTKKEFR 250 >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 = 192 bits (488), Expect = 6e-47, Method: Composition-based stats. Identities = 80/242 (33%), Positives = 129/242 (53%), Gaps = 3/242 (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 + + D GR V D P I R+ +GRLD +T G+LL+TNDG A + Sbjct: 62 YFLLYKPTGVISSVS-DDKGRKVVTDFFPEIRQRLFPIGRLDYDTSGVLLMTNDGDFANI 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L+KG+V++ +V + + A V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLEKGVVLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE KV +L R Y + G+L G RE+S +++ + Sbjct: 181 TIHEGRNRQVRRMFEALGCKVMKLKRERYAFLEAGSLRPGDARELSPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 192 bits (488), Expect = 6e-47, Method: Composition-based stats. Identities = 73/334 (21%), Positives = 130/334 (38%), Gaps = 9/334 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++K I+ G SRRE +++I Q RV +NG+ E V D + +DG PLR Sbjct: 2 SQPTEKRLNKFISETGYCSRREADKLIEQGRVTLNGLQPEV-GSKVTDQDEVCIDGKPLR 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER +KP G+ T + R+ +GRLD ++GL+ LTNDG Sbjct: 61 SKERPIYIALNKPTGITCTTERDV--PGNIVDFIGHHKRIFPIGRLDKPSDGLIFLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y VR + + + + G+ I +VT + + Sbjct: 119 DIVNKILRAGNNHEKEYVVRVDKPITPEFIRQMSSGVNILDTVTLPCKVT----QETQYS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V +L R+ L + G R +S+ + E L Sbjct: 175 FRIVLTQGLNRQIRRMCEALGYEVFKLRRVRIMNITLDGIPNGKWRYLSEAEVSEILAMC 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNI--ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 S +T+ R S + ++ ++N +G + Q+ P Sbjct: 235 EDSSGTEEASRVAQSGDTIKRATDAKLFDSREANKESKARRNPKTYHGKNAQEFRHAPNS 294 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 ++ + S R Sbjct: 295 KKAQRRPSSPSSNTTSGSKPTPRTGGTLSLRKSK 328 >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 = 192 bits (488), Expect = 6e-47, Method: Composition-based stats. Identities = 72/241 (29%), Positives = 131/241 (54%), Gaps = 3/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + +V VNG ++ V ++D +EV+G+ + + Sbjct: 2 SKEQERLQKRIANSGYTSRRKAETLITEGKVSVNGQVVTELGTKVSNSDTVEVEGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR+ V D I +R+ VGRLD +T G+LLLTNDG Sbjct: 62 EDKMYILFYKPT-QVITSVSDDRGRTVVTDYFDDIETRIYPVGRLDYDTSGILLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L+KGI ++ QV + ++ + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREEVKELEKGIQLEDGFTQPAQVKIKKQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +VN+L RI +GP L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEHFGHQVNKLTRIQFGPLDLKGLNAGEGRVLTPHEVKTLRHL 240 Query: 248 H 248 Sbjct: 241 A 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 = 192 bits (488), Expect = 6e-47, Method: Composition-based stats. Identities = 72/250 (28%), Positives = 121/250 (48%), Gaps = 3/250 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + R++K +A AG+ASRR+ E +I +V VN + + V + D +E Sbjct: 7 QKNKPYLTKVKKMRINKYLAHAGVASRRKAEELILAGKVTVNNVSMTNLGYQVSTGDIVE 66 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V+GV + E L + + D ++ D +P + R+ VGRLD +T GL Sbjct: 67 VNGVAVYNEEPVYYLLNKPRGYISSVSDDKGRQTV-MDLMPQVKERIYPVGRLDWDTSGL 125 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG ++ P +VY + GQ +++ L L G+ I+G + + Sbjct: 126 LLLTNDGEFTNMMTHPRHGVDKVYVAKVEGQANKENLRPLTLGMTIEGKKVSPARYEIIK 185 Query: 182 QK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q+ +++ V++ + EG+N ++KK+F V +L RI YG L L G R +SKK Sbjct: 186 QEKTKNHSIVSLTIHEGQNHQVKKMFAAAGLPVQKLSRIQYGTLTLDGLPTGQFRRLSKK 245 Query: 240 ILREQLGPHL 249 + + + Sbjct: 246 EVSQLINAAQ 255 >gi|150390402|ref|YP_001320451.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] gi|149950264|gb|ABR48792.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] Length = 234 Score = 192 bits (488), Expect = 7e-47, 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 +L + R+ VGRLD +T G LLLTNDG L Sbjct: 61 MIYILLNKPTGFVTTVSDQFDRKTV-TDLVGVSERIFPVGRLDYHTSGFLLLTNDGNLTF 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|149181685|ref|ZP_01860178.1| RluB [Bacillus sp. SG-1] gi|148850663|gb|EDL64820.1| RluB [Bacillus sp. SG-1] Length = 243 Score = 192 bits (488), Expect = 7e-47, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 127/237 (53%), Gaps = 3/237 (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 +++ +D R V D P I R+ VGRLD +T GL+LLTNDG A + Sbjct: 62 YYLLYKPRG-VISAVTDDKDRKVVTDFFPYIQERIYPVGRLDYDTSGLILLTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + Y R G + KL L+KGI+++ +V + +K + V + Sbjct: 121 LTHPRYNIDKTYVARLKGIPPKFKLKELEKGIMLEDGKTAPAKVKVLKIEKKQDKSIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EGKNR++K++FE ++V +L R + L L AG +RE+S +++ Sbjct: 181 TIHEGKNRQVKRMFEAIGYQVQKLKRERFAFLDLHGLNAGESRELSPHEVKQLRALA 237 >gi|126650120|ref|ZP_01722353.1| RluB [Bacillus sp. B14905] gi|126593292|gb|EAZ87254.1| RluB [Bacillus sp. B14905] Length = 243 Score = 192 bits (488), Expect = 7e-47, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 124/237 (52%), Gaps = 3/237 (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 + D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 62 YFLLYKPRGTISAVT-DDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 L P + + Y R G + L L++GI ++ + +T +K A + Sbjct: 121 LTHPKFKIDKTYIARVKGIPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDEKAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++FE V +L R + L L G RE+SK +++ Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLFGLAPGEFRELSKHEVKQLRVLA 237 >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 = 192 bits (488), Expect = 7e-47, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 105/234 (44%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + T D +L + VGRLD +TEGLL+LTNDG L Sbjct: 63 EYIYLMMNKPDGYVSATTDKYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Q+ + + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDGYKTMPSQLNIL-KSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEIK 235 >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 = 192 bits (488), Expect = 7e-47, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 117/231 (50%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K ++ G+ SRR+ +++I + RVKVNG+++ + D +EVDG L+ + Sbjct: 8 VRLNKYLSMCGVTSRRKADQLIKEGRVKVNGLVVRELGYKIDPHRDTVEVDGKVLKPPRK 67 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY L + + + 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G+ +K+ F KV RLIRI+ GP +LG L G R+++ + + E Sbjct: 188 FTIGRKHIVKRYCAHFGHKVLRLIRIAIGPIRLGKLSPGKWRDLTLQEVTE 238 >gi|229160522|ref|ZP_04288517.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228622932|gb|EEK79763.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 242 Score = 192 bits (487), Expect = 7e-47, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 128/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVT-DFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + A V + Sbjct: 121 LMHPKYKVEKTYVAKVKGPLTGEKIRMLERGVALEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 192 bits (487), Expect = 7e-47, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 129/242 (53%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVT-DFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G++++ +V + + A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVMLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 192 bits (487), Expect = 7e-47, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLHPGESRRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 192 bits (487), Expect = 7e-47, Method: Composition-based stats. Identities = 151/305 (49%), Positives = 194/305 (63%), Gaps = 2/305 (0%) 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 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + E R + + S++K+ + ++ P Sbjct: 286 --GKAVLKPKAETKSAGEREKEQRVAAKARKQKLAEDKRAASAKKDKPYEARQAGKPDAH 343 Query: 308 RNLAS 312 R +S Sbjct: 344 RRRSS 348 >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 = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 80/242 (33%), Positives = 129/242 (53%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARLKGLATKENLRPLTRGVVIDGKKTGPARYKIIKVEPDKNRSLVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++K +F+ V++L R +G L L G +R +SKK + + + + Sbjct: 180 TIHEGRNHQVKNMFQAVGLLVDKLSRTQFGTLNLRGLQPGESRRLSKKEVSQLHNAAVTK 239 Query: 252 EA 253 Sbjct: 240 HQ 241 >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 = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 83/237 (35%), Positives = 128/237 (54%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G +D L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKDNLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLIVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQLHNAA 236 >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 = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 128/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVT-DFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G+ ++ +V + + A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 71/247 (28%), Positives = 119/247 (48%), Gaps = 3/247 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA +G SRR+ E +IA RVKVNG ++ V D I +D L+ + Sbjct: 2 ERLQKAIAASGYTSRRKAEDLIAAGRVKVNGEVISELGFKVKKGDMIMIDDKALKGENKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + + + + + P + R+ VGRLD +T G+LL++NDG A + Sbjct: 62 YYVFYKPKGCICSLSDELGRSTVIDYF-PEVEERIYPVGRLDYDTTGVLLMSNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + PS+ +VY V G V + L+ L+KG+ ++G ++ + + + + Sbjct: 121 MMHPSSHLEKVYEVSVSGLVQGETLHKLEKGVYLEGTKTLPCKIKVTHKDVEHKTTILMI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EGKNR++KK+FE KV RL R+ G L L G R + + ++E + + Sbjct: 181 KLVEGKNRQVKKMFEAMGHKVKRLHRLQVGTINLKGLTPGHYRLLKPQEVKELKTMAMAK 240 Query: 252 EAQVNLD 258 + Sbjct: 241 KTSGKKR 247 >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 = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 70/241 (29%), Positives = 130/241 (53%), Gaps = 3/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + +VKVNG ++ V +D +EV+G+ + + Sbjct: 2 SKELERLQKRIANSGYTSRRKAETLITEGKVKVNGQVVTELGTKVSHSDTVEVEGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR V D I +R+ VGRLD +T G+LLLTNDG Sbjct: 62 EDKMYILFYKPT-QVITSVSDDRGRKVVTDYFEDIETRIYPVGRLDYDTSGVLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 ++ P + Y + G + ++++ L++GI ++ ++ ++ + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREQVKELEQGIELEDGFTQPAQVKIKRQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEYFGHEVNKLTRIQFGPLDLKGLNAGEGRVLTPHEVKTLRHL 240 Query: 248 H 248 Sbjct: 241 A 241 >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 = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 141/348 (40%), Positives = 194/348 (55%), Gaps = 3/348 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 + R++KV++RAG+ASRRE ERMIA+ RV VNG +++ A+NV+ D I VDG + Sbjct: 47 DGPEGDRIAKVLSRAGVASRREAERMIAEGRVAVNGKVIDSPALNVVLGKDRIVVDGNQM 106 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E RLW+YHKP GLVTT +D R T+FD LP RV++VGRLD+N+EGLLLLTND Sbjct: 107 QDPEPPRLWMYHKPSGLVTTTNDELDRRTIFDELPEDMPRVMTVGRLDLNSEGLLLLTND 166 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GG+ R LELPST WLR YRVR +G+ L++G+VI+G + M V LD Q+G+NA Sbjct: 167 GGIKRQLELPSTGWLRRYRVRINGRPKDTDFEPLRQGLVIEGERFQPMTVALDRQQGANA 226 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ +++R+QLG Sbjct: 227 WLTIGLREGKNREIRRAIEDIGFTVNRLLRLSYGPFQLGNLKPGEVEELRSRVVRDQLGL 286 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD--DFTRMKKNSSQKNGLSKQKKLATPV 305 E + PD ++ K Sbjct: 287 TAPETEEDEKPKRPVRQRPGAGKPGPKPGAKPDFKSGSKPGGKPGGKPSGRSFGSSDRSS 346 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + S A F + ++ P+ R+ RTS + Sbjct: 347 EKPGDRSGARPAGKPGGKFAGKGKPSDRFAGKAEGKPTGRTADRTSDR 394 >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 = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 77/230 (33%), Positives = 121/230 (52%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A GIASRR+ E I Q RVKVNG ++ V + D IE D +R+ ++ Sbjct: 2 VRLQKYLAECGIASRRKCEEYILQGRVKVNGKEVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV +L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVM-DLVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + + Y + G +++L + G++I+ ++ + T K + V + Sbjct: 121 ILMHPRHEIAKTYIAKIKGIPTEEELERFRNGLLIEDYVTSKAEIKVLTVKKGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++K+ E V L+R G L L G R ++ K + Sbjct: 181 IHEGKNRQVRKMCEAIGHPVISLMRTKIGELSLEGLKPGEWRYLTNKEID 230 >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 = 192 bits (487), Expect = 9e-47, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 104/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G +R+EV+ I + V VNG + E+ + V TD + V+G + E Sbjct: 1 MRLDKLLAHSGFGTRKEVKDFIKKGIVTVNGEIAEKDKMQVDPQTDEVCVNGEVITYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + D + V + VGRLD++TEGLLL++NDG LA Sbjct: 61 VYYMLNKPAGYV-SATEDNLYPTVVDLIDDYYRDDLFPVGRLDVDTEGLLLISNDGVLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + +G V + GI I ++ + + + + + V Sbjct: 120 QLLSPKKHCPKVYYAKINGIVTNQDVEAFFNGITIDDYQCQSAELKILSTSATTSEIEVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++KK+F +V L RI L L G R ++ + L Sbjct: 180 IYEGKFHQVKKMFIAVGKEVTYLKRIRMKDLCLDNSLQLGEYRHLTDEELD 230 >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 = 192 bits (487), Expect = 9e-47, Method: Composition-based stats. Identities = 68/321 (21%), Positives = 127/321 (39%), Gaps = 10/321 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + R++K I+ G SRRE +++I QQR+ +NG + V D + VDG Sbjct: 1 MTSPEPKLTRLNKFISDTGYCSRREADKLIDQQRITINGKIP-EMGTKVADGDEVLVDGK 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL++ + ++KP+G+ T + V + R+ +GRLD ++GL+ LT Sbjct: 60 PLKEKQDRIYIAFNKPVGITCTTERHVEGNIVDYI--NHEQRIFPIGRLDKPSDGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y VR + + L + G+ I ++ ++ S Sbjct: 118 NDGDIVNKILRAGNAHEKEYVVRVDKPITDEFLQKMAAGVPILDTVTLPCKI----KQES 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ +++V +L R+ LG L +G R +S+ + + Sbjct: 174 RFVFRITLTQGLNRQIRRMCEYLDYEVFKLKRVRIMNIDLGKLASGEWRYLSQAEMDQLN 233 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT---RMKKNSSQKNGLSKQKKLA 302 G + + VR S + + K G + Sbjct: 234 GMIGTSSKTEEASRKVKEIDGKVRVLKKASSGRNHHSNNTFKENRREKAKEGRFSKSAPK 293 Query: 303 TPVHRRNLASNVWMAKGIHSS 323 R+ K Sbjct: 294 RKNDRKEQGKPQSEIKVWRPK 314 >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 = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 81/242 (33%), Positives = 132/242 (54%), Gaps = 3/242 (1%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIVKVDPEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTQFGTLDLAGLRPGESRRLNKKEISQLHNLAVNK 239 Query: 252 EA 253 + Sbjct: 240 QK 241 >gi|289578329|ref|YP_003476956.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9] gi|289528042|gb|ADD02394.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9] Length = 236 Score = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 120/230 (52%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A GIASRR+ E I Q RVKVNG ++ V + D IE D +R+ ++ Sbjct: 2 VRLQKYLAECGIASRRKCEEYILQGRVKVNGKEVKELGVKINPDVDIIEFDDKIVRREKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G +T+ D GR TV +L + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 KVYIMLNKPTGYITSVKDQFGRPTVM-DLVKVKERIYPVGRLDYDTSGLLLLTNDGEIAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 +L P + ++ Y + G Q++L + G++I ++ + K + V + Sbjct: 121 ILMHPRHEIVKTYIAKIKGIPTQEELERFRNGLLIGDYLTSKAEIEILAVKNGTSVVEIK 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ E V L R G L L G R +++K + Sbjct: 181 IHEGKNRQVRRMCEAIGHPVISLTRTKIGDLSLEGLKPGKWRYLTQKEID 230 >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 = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 96/288 (33%), Positives = 135/288 (46%), 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 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTVG 192 P Q +VY + G + L L+ GIV+ G + L +Q N 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|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 = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 62/241 (25%), Positives = 111/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AG+ SRRE + I V VNG ++ V TD + Sbjct: 5 IEYKDILTDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKVKRTDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 65 KFHDQPVNIERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 124 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + +GI + Sbjct: 125 VLLLTNDGDLASKLTHPKFLKKKIYHVYCDKNVTKADLDQIVQGITLDDGEIH-ADAVSY 183 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + GKNR ++++FE ++V +L R+ + L G R +++ Sbjct: 184 ASDTDKSQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLTEME 243 Query: 241 L 241 + Sbjct: 244 V 244 >gi|255099545|ref|ZP_05328522.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-63q42] Length = 240 Score = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 105/234 (44%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + T D +L + VGRLD +TEGLL+LTNDG L Sbjct: 63 EYIYLMMNKPAGYISATTDKYDPTVLDLIDLSYLVFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Q+ + + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDGYKTMPSQLNIL-KSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEVK 235 >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 = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 73/351 (20%), Positives = 134/351 (38%), Gaps = 14/351 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K+ + +R++K I+ G SRRE ++ I Q RV VNG V V +TD + Sbjct: 9 LKNYYAISAMTELKRLNKFISETGFCSRREADKYIEQGRVSVNGYSP-EMGVKVAATDVV 67 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 VDG PL+ + Y+KP+G+ T + + + +R+ +GRLD +EG Sbjct: 68 LVDGKPLKATPKRVYIAYNKPVGITCTTESKIQSNIIRAV--NYPTRIFPIGRLDRPSEG 125 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LTN+G + + + Y V +++ + + G+ I +VT Sbjct: 126 LIFLTNEGDIVNKILRAGNNHEKEYVVTVDKPLNRQFVTKMANGVPILDTVTKKCKVT-- 183 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + L +G NR+I+++ E+ ++V L R L L G R +S Sbjct: 184 --QTAPKEFKIVLTQGLNRQIRRMCEYLGYEVVTLKRTRIMNVTLKGLKVGQWRHLSDTE 241 Query: 241 -------LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 + + S RD + + + S+++N Sbjct: 242 MAQINDSISDSGKTQEHSLDANKQSENNTPSAPKKRDFQGENPRRFNKGEQSGERSTERN 301 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + R+N S K + +E +S + Sbjct: 302 SSRNSDRSNANGERKNERSKAPYQKRSTTYVGKPKSIKENKSSQSKPSSGR 352 >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 = 191 bits (486), Expect = 1e-46, 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|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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 124/237 (52%), Gaps = 3/237 (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 + D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 62 YFLLYKPRGTISAVT-DDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 L P + + Y R G + L L++GI ++ + +T + A + Sbjct: 121 LTHPKFKIDKTYIARVKGIPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDENAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++FE V +L R + L L G RE+SK +++ Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLYGLAPGEFRELSKHEVKQLRVLA 237 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 106/231 (45%), Gaps = 2/231 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK-A 70 P R+ K +ARAG+ASRR ER+I+ RV VNGI++ V D + VDG + A Sbjct: 49 PLRLQKFLARAGVASRRGSERLISAGRVAVNGIVITELGTKVDPLVDEVCVDGAIVTWGA 108 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L + T R + + +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|229166414|ref|ZP_04294170.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228616988|gb|EEK74057.1| Pseudouridine synthase [Bacillus cereus AH621] Length = 242 Score = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 127/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRNVVT-DFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 71/344 (20%), Positives = 126/344 (36%), Gaps = 5/344 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q +V +NG V + D ++V+G + Sbjct: 4 NESMRLNKYISESGICSRREADRFIEQGQVFINGKRA-GIGDQVFAGDLVKVNGQVIEAR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + G + + +RV +GRLD +++GL+ LTN G L Sbjct: 63 EADSLVFIVLNKPVGIVSTTEAGEKDNIVDFVNHSTRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V D + + G+ I G +V +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDDFIKGMGAGVPILGAVTKKCKV----KKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L RI L L G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLTDDELIELFKLIED 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 ++V + R + + Sbjct: 239 SSSEVKPAKGDKPKVAKAAVAQTGKAAQGKKPRRDDDHEIGGRPNVSGPEAFEKKIPVGK 298 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + G ++ +G+ N R P+ R+ + KK Sbjct: 299 GAVGKGGAGKAAAGKGSAGKGASNKGRKPAAAKPRAGQSGRQKK 342 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 79/230 (34%), Positives = 124/230 (53%), 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 KVYAILNKPKGYLTAASDYRGRKTVIDLLNF-KERVFPVGRLDFNTTGLLIVTNDGEIFN 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|255305403|ref|ZP_05349575.1| putative RNA pseudouridine synthase [Clostridium difficile ATCC 43255] Length = 240 Score = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 105/234 (44%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + T D +L + VGRLD +TEGLL+LTNDG L Sbjct: 63 EYIYLMMNKPDGYISATTDKYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Q+ + + + + Sbjct: 123 SHRVLSPKKHVSKTYYAKIDGVVTEEDVEAFLEGVVLDDGYKTMPSQLNIL-KSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEVK 235 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 129/237 (54%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G D+D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIADKDNLRPLTRGVEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMA 236 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 94/348 (27%), Positives = 139/348 (39%), Gaps = 16/348 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIEAGRVSVDGKIATLGDRVEVTPALKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + +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 E + + ++ + + G + + A Sbjct: 242 ELVGL--EPETSSKVAVEKDRRRMKANQIRRAVKRHSQTAGASRQGAPARQGQAGAARPA 299 Query: 303 TPVHR----RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 R+ S + + SG P+ R+ Sbjct: 300 GSARAAENTRSGNSTSRASGNARPGGNARSGGARATGNGRPASSGGRA 347 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 86/236 (36%), Positives = 126/236 (53%), Gaps = 3/236 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P Q +VY + +D++ L L++GI+I G + + + + V + Sbjct: 121 LMHPRYQVDKVYVAKLDKILDKEALRKLERGIIIDGKKTSKARAKVLDTNLEKKMSVVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG N ++KK+FE V +L R +GP LG + G RE+ + E Sbjct: 181 TIHEGWNHQVKKMFEAVGAHVVKLKREKFGPLNLGKMQPGEYRELLPNEVTELKNL 236 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 143/279 (51%), Positives = 177/279 (63%) 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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 + Q A + P Sbjct: 241 LDARPKPQRRRAAGRDDGDAARPRGPARPGPTGPRKPPR 279 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 60/311 (19%), Positives = 114/311 (36%), Gaps = 11/311 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 N + R++K I+ +G SRRE +++I RV +NG++ V+ D + VDG Sbjct: 2 NTSNTTSSSIRLNKFISDSGFCSRREADKLIDSNRVTINGVIP-ELGTKVLPGDEVRVDG 60 Query: 65 VPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 ++ YHKP+G+ T + + R+ +GRLD +EG Sbjct: 61 NLVKASAENKSDRVYLAYHKPVGITCTTERHVKGNIIDAI--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 + + ++ + + + + Sbjct: 235 MHEINSAVAGSTKTAEDAKHKTDTAVPDKRTNHVAKRSGNRGLKSDRGPERSQVRKHSTS 294 Query: 301 LATPVHRRNLA 311 T R Sbjct: 295 AKTSSRRAPKR 305 >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 = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 139/352 (39%), Positives = 191/352 (54%), Gaps = 10/352 (2%) 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 + Sbjct: 186 VGIREGKNREVRKALDAVGLRVNRLIRIAYGPFQLGQLEKGEIKSVPSRVLHDQCGHLID 245 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ--------KKLA 302 A R R Q ++ + Sbjct: 246 MGDTPTGQAIAKPRPANRAARKPGQKPDGKPGQRAMGGPGQPGLPKREVDDSLIEDARKG 305 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P+ ++ + + +G+ S S + RT + Sbjct: 306 RPLDAKSTRARRGKD--GKPTAKPAAGRAAPRATTSRSETPRPDTPRTGGPR 355 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 111/235 (47%), Gaps = 1/235 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + P R++K +A AGI SRRE + I V VNG ++ + TD ++ P Sbjct: 1 MTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEVKFHDEP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + +T + L + T+ + ++ + + R+ VGRLD NT G+LLLTN Sbjct: 61 VSIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTGVLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P ++Y V V + L+ + G+ + ++ ++ Sbjct: 121 DGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYASET-DK 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + GKNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 180 SQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQEV 234 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 79/237 (33%), Positives = 129/237 (54%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMA 236 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 140/321 (43%), Positives = 187/321 (58%), Gaps = 2/321 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++KV++RAGIASRRE ERMI RV+VNG ++ A+NV +D I VDG P+ + E Sbjct: 17 GDRIAKVLSRAGIASRREAERMIEAGRVRVNGAQIDSPALNVTPSDAITVDGKPVGEPEP 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R+WL+HKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTNDG + R Sbjct: 77 PRVWLFHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTNDGEVKR 136 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELPS WLR YRVR +G+ D L L+KGI + G + M VTLD Q+G+NAW+TVG Sbjct: 137 RLELPSNGWLRRYRVRVNGRPTDDMLEPLRKGITVDGEDFQPMTVTLDRQQGANAWLTVG 196 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG + + Sbjct: 197 LREGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKTGEVEELKRKVVRDQLGL-EIAD 255 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + + R + G + K P + ++ + Sbjct: 256 TTGTAIKKKPARIIKRKARKPGEPGPGRPGLPKEPGDKTATGKTIPGKP-KPGYGKSKPA 314 Query: 313 NVWMAKGIHSSFLSDSGQREE 333 R+ Sbjct: 315 RPASDPAPRKFGTRVKSTRKP 335 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 81/242 (33%), Positives = 129/242 (53%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G D++ L L KG+ + G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVADKEVLRPLTKGVEVDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTQFGHLNLTGLRPGEARRLNKKEVSQLHNLAVTK 239 Query: 252 EA 253 + Sbjct: 240 KK 241 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 131/243 (53%), Gaps = 3/243 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGVEINGKKTKPAVYEIIKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLEVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHNLAITK 239 Query: 252 EAQ 254 + Sbjct: 240 AGK 242 >gi|52143877|ref|YP_082953.1| pseudouridylate synthase [Bacillus cereus E33L] gi|51977346|gb|AAU18896.1| pseudouridylate synthase [Bacillus cereus E33L] Length = 242 Score = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 129/242 (53%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVT-DFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G++++ +V + + A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVMLEDGKTAPARVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 140/321 (43%), Positives = 187/321 (58%), Gaps = 2/321 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++KV++RAGIASRRE ERMI RV+VNG ++ A+NV +D I VDG P+ + E Sbjct: 17 GDRIAKVLSRAGIASRREAERMIEAGRVRVNGAQIDSPALNVTPSDAITVDGKPVGEPEP 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R+WL+HKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTNDG + R Sbjct: 77 PRVWLFHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTNDGEVKR 136 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELPS WLR YRVR +G+ D L L+KGI + G + M VTLD Q+G+NAW+TVG Sbjct: 137 RLELPSNGWLRRYRVRVNGRPTDDMLEPLRKGITVDGEDFQPMTVTLDRQQGANAWLTVG 196 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG + + Sbjct: 197 LREGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKTGEVEELKRKVVRDQLGL-EIAD 255 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + + R + G + K P + ++ + Sbjct: 256 TTGTAVKKKPARIIKRKARKPGEPGPGRPGLPKEPGDKTATGKTIPGKP-KPGYGKSKPA 314 Query: 313 NVWMAKGIHSSFLSDSGQREE 333 R+ Sbjct: 315 RPASDPAPRKFGTRVKSTRKP 335 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 130/241 (53%), Gaps = 3/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I +VKVNG ++ V ++D +EV+G+ L Sbjct: 2 SKELERLQKRIASSGYTSRRKAETLITDGKVKVNGHVVTELGTKVSNSDTVEVEGIKLE- 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 61 QEDKIYILFNKPAQVITSVSDDRGRKVVTDYFKDIETRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L+KGI ++ QV + + + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREEVKALEKGIELEDGFTQPAQVKVKNQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +V++L RI +GP L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEHFGHQVSKLTRIQFGPLDLKGLNAGEGRVLTPHEVKTIRHL 240 Query: 248 H 248 Sbjct: 241 A 241 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 77/242 (31%), Positives = 129/242 (53%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVT-DFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + + Y + G + +K+ +L++G+ ++ QV + ++ A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQVKIISWDKRKETAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE+S +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELSPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 109/232 (46%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ K+++ G +R+E++ ++ Q V+++ +++ + + + D I V G + + Sbjct: 2 ERLDKILSNLGYGTRKEIKALVKQGLVEIDNEVVKDSGMKIDPDDKEIRVSGEMVNYRQN 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D + + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLIMNKPNGVVSATFDNYDETVVDLLDPEHQAFKPFPVGRLDKDTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y VDQ+ + K GI + ++ + + + V V Sbjct: 122 RLISPKWHVDKIYYAEIDKPVDQNDVEKFKIGITLDDGYKCLPGKLKILESDENGSKVEV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++EGK ++K++F + V L RI +GP +L L G RE+S+ ++ Sbjct: 182 TIQEGKFHQVKRMFNALDKNVVYLKRIKFGPMELDLDLEEGEYRELSEDEIK 233 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 111/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K ++ + P R++K +A AGI SRRE + I V VNG ++ V +D + Sbjct: 5 IEYKELLTDPDEPIRLNKFLANAGICSRREADEFITAGVVSVNGEIVTELGTKVKRSDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 65 KFHDQPVNIERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 124 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + +GI + Sbjct: 125 VLLLTNDGDLASKLTHPKFLKKKIYHVYCDKNVTKADLDQIVQGITLDDGEIH-ADAISY 183 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 184 ASDTDKSQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLTEQE 243 Query: 241 L 241 + Sbjct: 244 V 244 >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 = 191 bits (484), Expect = 2e-46, 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|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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 76/235 (32%), Positives = 131/235 (55%), Gaps = 3/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + Sbjct: 2 SKEQERLQKRIANSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG Sbjct: 62 EDKIYILFYKPT-QVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L+KGI ++ QV + ++ + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEYFGHQVNKLTRIQFGPIDLKGLNAGEGRVLTPHEVK 235 >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 = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 83/242 (34%), Positives = 133/242 (54%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R ++G L L G +R +SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKKEISQLHNLAVNK 239 Query: 252 EA 253 + Sbjct: 240 QK 241 >gi|242242766|ref|ZP_04797211.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] gi|242233902|gb|EES36214.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] Length = 245 Score = 191 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 76/241 (31%), Positives = 133/241 (55%), Gaps = 3/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA++G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + Sbjct: 2 SKEQERLQKRIAKSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG Sbjct: 62 EDKIYILFYKPT-QVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L+KGI ++ QV + ++ + Sbjct: 121 FTNLMTHPRYHIKKKYIAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE+F +VN+L+RI +GP L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEYFGHQVNKLVRIQFGPIDLKGLNAGEGRVLTPHEVKTLRHL 240 Query: 248 H 248 Sbjct: 241 A 241 >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 = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 79/239 (33%), Positives = 121/239 (50%), Gaps = 3/239 (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 +++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAVKDDKGRKVVTDFFTEVEERIYPIGRLDYDTSGLLLLTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y + G ++ L L++G+ ++ +V L +K + V + Sbjct: 121 LMHPKYEINKTYVAKLKGIPLKENLKKLERGVRLEDGKTAPAKVKLLSLDKKKQTSIVQI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVLKLKREEYAFLNLAGLKTGEKRELTPHEVKRLRALAEH 239 >gi|229058206|ref|ZP_04196594.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228720070|gb|EEL71654.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 242 Score = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 77/242 (31%), Positives = 128/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRNVVT-DFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + DK+ +L++G+ ++ QV + + A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGDKIRMLERGVALEDGKTAPAQVKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 127/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRNVVT-DFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + A V + Sbjct: 121 LMHPRYKIEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 80/242 (33%), Positives = 129/242 (53%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G D++ L L KG+ + G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVADKEVLRPLTKGVEVDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTQFGHLNLTGLRPGEARRLNKKEVSQLHNLAVTK 239 Query: 252 EA 253 + Sbjct: 240 KK 241 >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 = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 83/231 (35%), Positives = 124/231 (53%), Gaps = 2/231 (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 +L R+ +GRLDI+T GLL+LTNDG LA Sbjct: 61 YTYVMINKPIGIVSTAKDEKNRKTV-VDLVPNDERIYPIGRLDIDTTGLLILTNDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY G + L+ L+ GI I G ++ + S++ V V Sbjct: 120 KLMHPRKEIDKVYIATVEGTPSKSGLDKLRNGITIDGYKLSKSEIKILKSYESDSIVRVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR++KK+FE V +L RIS+GP +L L G+ R ++ + ++E Sbjct: 180 IHEGRNRQVKKMFERIGNPVKKLKRISFGPIELANLEIGAYRYLTNEEIKE 230 >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 = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 127/242 (52%), Gaps = 3/242 (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 + + D D P I R+ +GRLD +T G+LL+TNDG A V Sbjct: 62 YFLLYKPTGVISSVSDDKGRNVVT-DFFPEIRQRLFPIGRLDYDTSGVLLMTNDGEFANV 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G + +K+ +L++G+ ++ Q + + A V + Sbjct: 121 LMHPRYKVEKTYVAKIKGPLTGEKIRMLERGVALEDGKTAPAQAKIISWDKRKEMAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 181 TIHEGRNRQVRRMFEALDCKVMKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTK 240 Query: 252 EA 253 Sbjct: 241 PR 242 >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 = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 71/323 (21%), Positives = 134/323 (41%), Gaps = 14/323 (4%) 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 YIAYNKPVGITCTTERKIQSNIVKAV--NYPDRIFPIGRLDRPSEGLIFLTNEGDIVNKI 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V +++ + + G+ I +VT + T+ L Sbjct: 123 LRAGNNHEKEYVVTVDKPLNRQFVAKMGNGVPILDTITKKCKVTQTGAQQ----FTIILT 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI-------LREQLGP 247 +G NR+I+++ E+ ++V L R+ L L G R ++++ + + Sbjct: 179 QGLNRQIRRMCEYLGYEVVTLKRVRIMNVTLKGLKVGQWRHLTEQEMAIINNSISDSGKT 238 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 S + + + + + K+ + + ++K+ + ++ Sbjct: 239 QEHSVYDEANALQQQSPQAVAKPQKTSDKKRDFQGENPKRFNQGERTEERKKERSKTPYQ 298 Query: 308 RNLASNVWMAKGIHSSFLSDSGQ 330 + + V K I ++ SDS Sbjct: 299 KRSTTYVGKPKSIKANKSSDSKG 321 >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 = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 75/243 (30%), Positives = 121/243 (49%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ KVIA+AG+ASRR+ E I + RVKVNG + V D +EVDGVPL K E Sbjct: 2 ERLQKVIAKAGVASRRKAEEYIVEGRVKVNGETVTELGTKVNPSKDAVEVDGVPLDKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY + T++ + + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 VYHLLYKPTGVVSTSNDEKGRKVVTDFI--ESEQRIYPIGRLDYDTSGLLLLTNDGEFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VT 190 +L P + + Y + G ++ ++ L+ GIV++ + + + V Sbjct: 120 LLMHPRYKIEKEYIAKVKGIPERKRIKELETGIVLEDGKTAPAKAKVLSIDKKKQTAIVR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EGKNR+++++FE V +L R YG LG L G +R + +++ + Sbjct: 180 LIIHEGKNRQVRRMFEAIGHPVVKLKRERYGFLTLGHLHPGESRPLKPIEVKQLKELAVT 239 Query: 251 EEA 253 + + Sbjct: 240 KPS 242 >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 = 190 bits (483), Expect = 3e-46, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQLHTLAVTK 239 >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 = 190 bits (483), Expect = 3e-46, Method: Composition-based stats. Identities = 79/242 (32%), Positives = 117/242 (48%), Gaps = 1/242 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 R+ K +A+AG+ASRR E +I Q RV+V+G ++ V I VDG + Sbjct: 2 TEEDGIRLQKALAQAGVASRRNAELLIEQGRVEVDGAVVTEFGTRVDPAVSVIRVDGERI 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + +KP G+VTT SDP GR + D + R+ +GRLD +TEGLLLLTN Sbjct: 62 PPVTAHVYLVLNKPRGVVTTMSDPQGRPCIADYVQERPERLFHIGRLDTDTEGLLLLTNH 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A L PS + + Y G V L L G+ ++ V + ++ Sbjct: 122 GEFAHRLAHPSYEVSKTYVAEVDGNVKPIVLRRLLDGVELEDGFAQADTVKVMSEIKGRT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L EG+NR ++++F+ V RL R + GP + G L G RE+ K L + L Sbjct: 182 LIQITLHEGRNRIVRRMFDAVGHPVKRLTRTAIGPVRRGNLHTGELRELDPKELGQLLDL 241 Query: 248 HL 249 Sbjct: 242 VN 243 >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 = 190 bits (483), Expect = 3e-46, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 190 bits (483), Expect = 3e-46, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 131/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G +L L G +R ++KK + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLELTGLRPGESRRLNKKEISQLHNLANTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >gi|325687113|gb|EGD29136.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK72] Length = 242 Score = 190 bits (483), Expect = 3e-46, Method: Composition-based stats. Identities = 82/240 (34%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQLHTLAVTK 239 >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 = 190 bits (483), Expect = 3e-46, Method: Composition-based stats. Identities = 82/242 (33%), Positives = 133/242 (54%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGLATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R ++G L L G +R +SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKKEISQLHNLAVNK 239 Query: 252 EA 253 + Sbjct: 240 QK 241 >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 = 190 bits (483), Expect = 3e-46, Method: Composition-based stats. Identities = 136/278 (48%), Positives = 176/278 (63%) 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 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 E A + S + Sbjct: 243 EGHAEPKAKPAFKGKRRKAPDARKSGERLAPRGKPSGA 280 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 131/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYIARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGEARRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 144/349 (41%), Positives = 203/349 (58%), Gaps = 7/349 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R++K++AR+G+ SRR+VER+IA+ RV +NG +L AV V D + VDG + + E Sbjct: 150 GERIAKLLARSGVGSRRDVERLIAEGRVAINGQVLTTPAVKVEPGDILTVDGAVVGEPEP 209 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R++ YHKP+GLVTTH DP GR TVF+ LP R+ISVGRLD+N+EGLLLLTNDGGLAR Sbjct: 210 VRVFRYHKPVGLVTTHKDPQGRPTVFEALPEGLPRLISVGRLDLNSEGLLLLTNDGGLAR 269 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSNAW 188 LELP+T +R YR R HG++ Q++L+ LK GI ++G+ YG ++ LD +G+N W Sbjct: 270 ALELPATGVVRRYRARAHGRITQERLDTLKDGITVEGVRYGAIEARLDKAKEGHQGANLW 329 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TV L+EGKNRE+++V E KVNRLIR+SYGPF LGTL G EV +++REQL H Sbjct: 330 LTVTLQEGKNREVRRVLEALGLKVNRLIRLSYGPFALGTLDVGEIEEVGPRVIREQLEGH 389 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ---KNGLSKQKKLATPV 305 + E D P Y S R S + + ++ K G +K K A P Sbjct: 390 IPPENMPKGDRPQYRSPARKSRRAQAESRQAELVPPRPEAPAKKAYKAGWAKPKAKAKPH 449 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + + +R+ S + ++ Sbjct: 450 AKTAGKAAKAKLQAKIEGKTIGPRHEPAAGKRTASQGKPPGRPKGGPQR 498 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKENLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLDIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 80/229 (34%), Positives = 117/229 (51%), Gaps = 3/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K + Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHKEQLHT 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY + T D GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 64 YLLYKPRNVVSTVS-DNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K +F+ N V +L R Y L +L++G RE++ + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEI 231 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 140/346 (40%), Positives = 194/346 (56%), Gaps = 2/346 (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 LLEEAQVNLDAPIYSSETLVR--DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 E D + +R P + + + +++ P Sbjct: 266 FAAEDAAAADGRPAAGPVRMRYDRLPRAARDAAPPSATKGGRAPAREAGGQEQARRGPRA 325 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + + S + + +R R + R+ R Sbjct: 326 KPSARSAREAVQRLLGDSRPPERERPARRPRPEERAALRAEGRGEG 371 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 136/325 (41%), Positives = 186/325 (57%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++KV++RAG+ASRRE ERMI RV+VNG+ ++ A+NV + D+I VDG P+ Sbjct: 12 TDTPPGDRIAKVLSRAGLASRREAERMIEAGRVRVNGVQIDSPALNVTAADNITVDGKPV 71 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E R+WLYHKP GLVTT+ D GR T+FD+LP RV+S+GRLD+N+EGLLLLTND Sbjct: 72 GDPEPPRMWLYHKPTGLVTTNRDEKGRGTIFDDLPEDMPRVMSIGRLDLNSEGLLLLTND 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + R LELPS WLR YRVR +G+ + L L++GI + G + M VTLD Q+G+NA Sbjct: 132 GDVKRKLELPSNGWLRRYRVRVNGRPSDEVLEPLRRGITVDGEEFQPMTVTLDRQQGANA 191 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TVGLREGKNREI++ E N VNRLIR SYGPFQLG L G E+ +K++R+QLG Sbjct: 192 WLTVGLREGKNREIRRAMEAVNLSVNRLIRTSYGPFQLGELKPGEVEELKRKVVRDQLGI 251 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + + +P + + + K Sbjct: 252 EIEDNTGTAVKKKPSHIVKRKPRKPGAPGPGRPGLPKEPGEKTATGKVIPGKPKPGYGKS 311 Query: 308 RNLASNVWMAKGIHSSFLSDSGQRE 332 + S ++ Sbjct: 312 KAPRPPSDAPGPRKFGTRVKSTRKP 336 >gi|19879252|gb|AAK38326.1| hypothetical pseudouridine synthase [Flavobacterium johnsoniae UW101] Length = 304 Score = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 64/274 (23%), Positives = 117/274 (42%), Gaps = 11/274 (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 + + V + R+ +GRLD +EGL+ +T Sbjct: 58 IVEKHEKLVYLAFNKPVGIECTTNLEVKNNIVDYI--NYPKRIFPIGRLDKASEGLIFMT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + + + + + G+ I + ++ S Sbjct: 116 NDGDIVNKILRARNNHEKEYTVTVNKPITERFIQRMGNGVPILDTVTKKCK----VEQIS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ ++V L RI L + G R+++ ++E Sbjct: 172 KYTFKIILTQGLNRQIRRMSEYLGYEVTALKRIRIINISL-DVPVGRYRDLTDAEIKELN 230 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 P ++ T R I P Sbjct: 231 KLIEPSSKTEEASLPKAAAPTPSRRSTFISKNDP 264 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 62/238 (26%), Positives = 103/238 (43%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G SR+EV+ ++ V V+G + +V + V G P+ + Sbjct: 1 MRLDKLLANSGYGSRKEVKAVVKAGAVMVDGKPAKDVKAHVDPDTQEVTVYGEPVDYRKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + L T + GRLD +TEG LLLTNDG LA Sbjct: 61 IYLMMNKPQGVLSATEDSRQQTVIDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V Q+ + ++ L+ G+ I+G + + N V + Sbjct: 121 RLLSPKKHVPKTYEVHLKSQISPEDISDLETGVYIEGGYKTKPAKAEIKANDNGNTVVYL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + EGK ++K++ + +V L R+S GP L L G RE++++ L+ P Sbjct: 181 TITEGKFHQVKQMAKAVGNEVIYLKRLSMGPVSLDPALAPGEYRELTEEELKRLNEPQ 238 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 78/240 (32%), Positives = 123/240 (51%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 + P + Y + G + L++GI I G + + V++ Sbjct: 121 MTHPKHHVEKKYIAKVKGVPTPRHMRQLERGIWIDGKKTSKAVARILSVDTEKNTGIVSL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG N ++KK+FE V +L R +G L L G RE+ +++ + E Sbjct: 181 TIHEGWNHQVKKMFEAVELPVQKLKREEFGFLTLENLRPGDYRELRAFEVQKLVRLAKNE 240 >gi|229916174|ref|YP_002884820.1| pseudouridine synthase [Exiguobacterium sp. AT1b] gi|229467603|gb|ACQ69375.1| pseudouridine synthase [Exiguobacterium sp. AT1b] Length = 252 Score = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 72/241 (29%), Positives = 115/241 (47%), Gaps = 5/241 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E MI RV+VNG ++ V IEVDGV + + E Sbjct: 2 ERLQKVIAQAGVASRRKAEEMILDGRVRVNGKVVRELGTKVGPKSEIEVDGVKIEQEEHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY + T D + +L +RV VGRLD NT GL++LTNDG + + Sbjct: 62 YYLLYKPSGYVSTVDDDKGRKVI--TDLVPPGARVFPVGRLDYNTTGLIILTNDGEFSNM 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GDMQVTLDTQKGSNAWVT 190 + P + + Y + + L+ G+ + +++ QK + A + Sbjct: 120 MTHPKYKIQKRYVAKVKNIPSYLAIKQLESGVELDDGFKTGSAKVKMKSVDQKKNTAILE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG NR+I+++ E +V +L R +G L L G RE+S K + + Sbjct: 180 IVISEGHNRQIRRMVEAIGSEVIKLKREQFGFLTLDGLNTGDWRELSHKEISKLRELANP 239 Query: 251 E 251 Sbjct: 240 T 240 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 76/241 (31%), Positives = 130/241 (53%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L +G+ I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKENLRPFTRGVEIEGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGEARRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 82/240 (34%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQLHTLAVTK 239 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 74/232 (31%), Positives = 115/232 (49%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ + Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHHEQHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + H D R+ V I R+ VGRLD +T G+LLLTNDG LA Sbjct: 62 YYLLNKPRGVISSAHDDKGRRTVVDIIHDADIDERIYPVGRLDYDTTGILLLTNDGTLAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L P + + Y + G V D+L L+ G++I G + L + + V Sbjct: 122 KLMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVIIDGRKTKPAKSKLLNVDRAKKTSLVQ 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+N ++K +F+ V +L R +YGP L L G R + + ++ Sbjct: 182 LTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFRALKPEEVQ 233 >gi|315646387|ref|ZP_07899505.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315278030|gb|EFU41350.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 251 Score = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 81/251 (32%), Positives = 132/251 (52%), Gaps = 4/251 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I + +V+VNG + D I V G P++ E+ Sbjct: 2 ERLQKIMAQAGVASRRKCEELILEGKVQVNGETVTELGTKADPAQDMITVSGKPIK-HEK 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 EEAQVNLDAPI 261 + N Sbjct: 241 AKPGGNPKKKR 251 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 74/237 (31%), Positives = 113/237 (47%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR E +I +VKVNG ++ V D + V+G P+ + + Sbjct: 4 ERLQKVIAHAGVASRRAAEGLILAGKVKVNGQVVTELGTKVDGNDEVMVNGEPVEQEQHE 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLAR 132 L + + H D ++ V VGRLD +T GLL++TNDG LA Sbjct: 64 YYLLDKPRGVISSAHDDKGRKTVVDILKNEGVQTRVYPVGRLDYDTTGLLVMTNDGELAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 L P + +VY + G V D++ LL++G+ I G + L Q+ + V Sbjct: 124 RLMHPRFEVDKVYIAKVKGLVSNDEMRLLREGVKIDGKKSQPARTKLLEANQRQKTSVVK 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG ++KK+ E V +L R SYGP L L G R++ +R Sbjct: 184 LTIHEGHYHQVKKMMEAVGHPVLKLHRESYGPLTLAGLNPGQFRKLKVDEVRALRKL 240 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 74/237 (31%), Positives = 113/237 (47%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ASRR E +I +VKVNG ++ V D + V+G P+ + + Sbjct: 4 ERLQKVIAHAGVASRRAAEGLILAGKVKVNGQVVTELGTKVDGNDEVMVNGEPVEQEQHE 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLAR 132 L + + H D ++ V VGRLD +T GLL++TNDG LA Sbjct: 64 YYLLDKPRGVISSAHDDKGRKTVVDILKNEGVQTRVYPVGRLDYDTTGLLVMTNDGELAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 L P + +VY + G V D++ LL++G+ I G + L Q+ + V Sbjct: 124 RLMHPRFEVDKVYIAKVKGLVSNDEMRLLREGVKIDGKKSQPARTKLLEANQRQKTSVVK 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG ++KK+ E V +L R SYGP L L G R++ +R Sbjct: 184 LTIHEGHYHQVKKMMEAVGHPVLKLHRESYGPLTLAGLNPGQFRKLKVDEVRALRKL 240 >gi|327490097|gb|EGF21885.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1058] Length = 242 Score = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 134/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTQPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQLHTLAVTK 239 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + + + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVIQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQLHTLAVTK 239 >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 = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 97/340 (28%), Positives = 155/340 (45%), Gaps = 2/340 (0%) 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 KP-ERLKYFVLNKPKGVLCTNHDPAGRTRVIDLFAKERVRLFPVGRLDEDSEGLLIVTND 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 FLEIVLGQGHNREIRRLFARIGHKVMSLQRIAFGPIRLGKQKVGQYRELTRNELEELRSI 263 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + S R + + + G + + R Sbjct: 264 LERNKKTPPKGPRSGGSGNSSPKRGSKGAPKGRRKPEGSGRKPEMAGSEEATPQKKRIRR 323 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 N + V + G S R P+ K++ Sbjct: 324 PNNSPTVGASGGKSGGRPSGGKSRSGYGSSKPAAGKKKTK 363 >gi|325690957|gb|EGD32957.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK115] Length = 242 Score = 190 bits (481), Expect = 3e-46, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTQPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQLHTLAVTK 239 >gi|330685968|gb|EGG97591.1| pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU121] Length = 246 Score = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 76/241 (31%), Positives = 130/241 (53%), Gaps = 3/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I +VKVNG ++ V ++D +EV+G+ L Sbjct: 2 SKELERLQKRIASSGYTSRRKAETLITDGKVKVNGQVVTELGTKVSNSDTVEVEGIKLE- 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L++KP ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 61 QEDKIYILFNKPAQVITSVSDDRGRKVVTDYFKDIETRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L+KGI ++ QV + + + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREEVKALEKGIELEDGFTQPAQVKVKNQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +V++L RI +GP + L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEHFGHQVSKLTRIQFGPLDIKGLNAGEGRVLTPHEVKTIRHL 240 Query: 248 H 248 Sbjct: 241 A 241 >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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 93/342 (27%), Positives = 145/342 (42%), Gaps = 8/342 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+IARAG+ASRR E +I RV+VNG ++ + 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREG+N++I+++ E W V RL R ++ L G R ++ L H+ E Sbjct: 182 LREGRNQQIRRMGEATGWPVMRLARTTFAGVSSEGLRPGEWRALTVDEL-----LHIREA 236 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 V + + + + P R + Sbjct: 237 FGVPKRIRGAVMGASSGPVDHRRTASSARSGAKASPRPTQEAAGAAARSRGPAQPRVRSR 296 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A + R +PS P++ RT+ + Sbjct: 297 ANADAPSAPGQGPAGRTARSR-TDAAPSTPARSPAGRTARSR 337 >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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 127/238 (53%), 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 Y ++++ D GR TV D + R+ VGRLD +T GLLL+T Sbjct: 61 PIEKETLHTYLFYKPRG-VISSVKDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQK 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|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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 80/229 (34%), Positives = 118/229 (51%), Gaps = 3/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K + Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHKEQLHT 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY + T D GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 64 YLLYKPRNVVSTVS-DNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K +F+ N V++L R Y L +L++G RE++ + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVDKLSRERYAFLTLKSLISGEYRELTHEEI 231 >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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 64/239 (26%), Positives = 113/239 (47%), Gaps = 5/239 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDG 64 I + R+ K + G+ +R EV++++ +++ VNG ++ + V D I G Sbjct: 17 IEKGKNELMRLDKFLTEMGLGTRSEVKKILKTKQITVNGEIVTKPETKVAPENDQISYKG 76 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ E Y + T D ++ + ++ S + VGRLDI+TEGLLL+ Sbjct: 77 EPVTYCEYEYYLFYKPAGCV-TATEDQLHKTVMDYLTDTVRSDLFPVGRLDIDTEGLLLI 135 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQK 183 TNDG LA L P+ + Y G V + +N + G+ I ++ + + Sbjct: 136 TNDGALAHDLLSPAKHVEKTYYAVIDGVVTEKDVNSFENGVDIGEEKLTKPGKLRIL-KS 194 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + + EG+ ++K++FE KV L RIS GP QL L G R ++++ + Sbjct: 195 EPESEIELTITEGRFHQVKRMFEAVGKKVLYLKRISMGPLQLTDDLKPGEYRPLTEEEI 253 >gi|327462027|gb|EGF08356.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK1057] Length = 242 Score = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R+++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLNKKEVSQLHTLAVTK 239 >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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 114/237 (48%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AGIASRR+ E +I VKVNG + V V +DH+EVDGVPL + Sbjct: 3 ERLQKVMAEAGIASRRKSEVLITSGHVKVNGKTVTTLGVKVEPSDHVEVDGVPLNAEKLV 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T D GR TV D + R+ VGRLD +T GLL++TNDG LA Sbjct: 63 YYLFYKPRGVVTTV-HDEKGRKTVLDFFEDVPERIYPVGRLDYDTSGLLIMTNDGALANR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P + + Y + G L L+ G+ I G + L +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|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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 80/229 (34%), Positives = 116/229 (50%), Gaps = 3/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR E +I +V VNG L+ V D IEV+GVP+ K + Sbjct: 4 RLQKVIAEAGIASRRNAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHKEQLHT 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY + T D GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 64 YLLYKPRNVVSTVS-DNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKISGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K +F+ N V +L R Y L +L++G RE++ + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEI 231 >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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 82/242 (33%), Positives = 133/242 (54%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGLATKENLRPLTRGVVIDGKKTKPARYNIIKVDPEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R ++G L L G +R +SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFELVGLLVDKLSRTNFGTLDLSGLRPGESRRLSKKEISQLHNLAVNK 239 Query: 252 EA 253 + Sbjct: 240 QK 241 >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 = 190 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 74/232 (31%), Positives = 115/232 (49%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ + Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHHEQHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + H D R+ V I R+ VGRLD +T G+LLLTNDG LA Sbjct: 62 YYLLNKPRGVISSAHDDKGRRTVVDIIHDAEIDERIYPVGRLDYDTTGILLLTNDGALAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P + + Y + G V D+L L+ G+VI G + L + + V Sbjct: 122 KMMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVVIDGRKTKPAKSKLLNVDRAKKTSLVQ 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+N ++K +F+ V +L R +YGP L L G R + + ++ Sbjct: 182 LTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFRALKPEEVQ 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 = 189 bits (480), Expect = 4e-46, Method: Composition-based stats. Identities = 140/265 (52%), Positives = 175/265 (66%) 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 QLGPHLLEEAQVNLDAPIYSSETLV 268 QLG EA+ A Sbjct: 245 QLGMKEEPEAEQPKPARPKPQRRRR 269 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 75/241 (31%), Positives = 127/241 (52%), Gaps = 3/241 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 3 RLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY + + D D P I R+ +GRLD +T G+LL+TNDG A VL Sbjct: 63 FLLYKPTGVISSVSDDKGRSVVT-DFFPEITQRLFPIGRLDYDTSGVLLMTNDGDFANVL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + + Y + G + +K+ +L++G+ ++ +V + + A V + Sbjct: 122 MHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 182 IHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTKP 241 Query: 253 A 253 Sbjct: 242 R 242 >gi|144897623|emb|CAM74487.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum gryphiswaldense MSR-1] Length = 287 Score = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 138/278 (49%), Positives = 184/278 (66%) 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 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 LG A+ + + + S Sbjct: 250 LGQGGGNWAKADTEDRPRPPSNHKKPHAGKASHENRRR 287 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 67/238 (28%), Positives = 110/238 (46%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAER 72 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V I V G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKQLLKQKAVTVDGAYVKDAALHVDPEQQIVSVFGERVVYTEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + P + T D + VGRLD +TEGLLLLTNDG LA Sbjct: 61 VYFIMNKPPGVISATEDLRDETVIDLLEPLHQHFQPFPVGRLDKDTEGLLLLTNDGHLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY + G V ++ GI + ++ + + + + + Sbjct: 121 NLLSPKKHVPKVYYAQIEGVVTEEDAEKFANGIELDDGYVTKPGKLVIL-KSAQQSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 ++EGK ++K++FE +V L RIS G +L L G RE++ + L + H Sbjct: 180 TIQEGKFHQVKRMFEAVGKRVTYLKRISMGSLKLDENLALGEYRELTAEELNDLQNNH 237 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 139/268 (51%), Positives = 178/268 (66%) 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 LREQLGPHLLEEAQVNLDAPIYSSETLV 268 +R+QLG EA+ A Sbjct: 241 MRDQLGMPQEPEAEPAKPARPKPQRRRR 268 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 75/232 (32%), Positives = 115/232 (49%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++I Q +V VNG ++ V D I V+GVP+ + Sbjct: 2 ERLQKAMAEAGVASRRASEKLILQGKVAVNGKIVTELGTKVGVHDEIVVNGVPIHHEQHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + H D R+ V I R+ VGRLD +T G+LLLTNDG LA Sbjct: 62 YYLLNKPRGVISSAHDDKGRRTVVDIIHDADIDERIYPVGRLDYDTTGILLLTNDGALAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L P + + Y + G V D+L L+ G+VI G + L + + V Sbjct: 122 KLMHPKYEVEKTYVAKVEGIVKNDELKQLRLGVVIDGRKTKPAKSKLLNVDRAKKTSLVQ 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+N ++K +F+ V +L R +YGP L L G R + + ++ Sbjct: 182 LTIHEGRNHQVKNMFKAVGHPVTKLHRETYGPLNLYGLQPGEFRALKPEEVQ 233 >gi|319400836|gb|EFV89055.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus epidermidis FRI909] Length = 245 Score = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 76/241 (31%), Positives = 132/241 (54%), Gaps = 3/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA++G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + Sbjct: 2 SKEKERLQKRIAKSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG Sbjct: 62 EDKIYILFYKPT-QVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + Y + G + ++++ L+KGI ++ QV + ++ + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEYFGHQVNKLARIQFGPIDLKGLNAGEGRVLTPHEVKTLRHL 240 Query: 248 H 248 Sbjct: 241 A 241 >gi|241764490|ref|ZP_04762511.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241366074|gb|EER60671.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 504 Score = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 80/358 (22%), Positives = 137/358 (38%), Gaps = 17/358 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D ++V+ Sbjct: 147 KRVLLPQVETPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQVKVN 205 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +V+ + + + SVGRLD+NTE Sbjct: 206 GKPIRYRIDPPPARVIAYHKPVGEVVSHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTE 265 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y VR G + ++ L G+ + + Sbjct: 266 GLLLFTSSGELANKLMHPRFGLEREYAVRVLGALSNEEKQQLLDGVRLDDGMAAFGSIED 325 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +GSN W V + EG+NRE++++ E V+RLIRI YG L L G+ E+ + Sbjct: 326 GGGEGSNCWYRVTISEGRNREVRRMLEAVGHAVSRLIRIRYGAMVLPRGLKRGAWLELGE 385 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + + + + R + + Sbjct: 386 GDIRALMQAAGAGRPDA---------AGPRTEAEGGAARGNRERGRGSVRAGDGRKRTGG 436 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSF--LSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + A A G G++ + + S + SL R + Sbjct: 437 ANGSMGSGGQGRAPRRSDAPGARGGNAERPRGGEQPDPMKTSVGYIGADSLSRHRQDQ 494 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 78/249 (31%), Positives = 125/249 (50%), Gaps = 3/249 (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 + + D GR TV D LP + R+ VGRLD +T G+L+LT Sbjct: 61 PIYNEEKVYYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--K 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 QLGPHLLEE 252 ++ Sbjct: 240 LHNLANTKK 248 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 80/229 (34%), Positives = 117/229 (51%), Gaps = 3/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K + Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGNLVTTLGTKVDDNDKIEVNGVPIHKEQLHT 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY + T D GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 64 YLLYKPRNVVSTVS-DNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKIRGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K +F+ N V +L R Y L +L++G RE++ + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEI 231 >gi|291538915|emb|CBL12026.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis XB6B4] Length = 235 Score = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 112/237 (47%), Gaps = 5/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 1 MRLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQKVDEKNDTVCFRGNPLTYTEY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T D R+ + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 61 EYYLFHKPAGCV-TATEDNLHRTVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ +VY + G+V ++ +NL + G+ I + + + G N+ + + Sbjct: 120 DLLSPAKHVSKVYYAKIDGRVTEEDVNLFENGVDIGEEKPAKPALLEVLH-SGDNSEIRL 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 + EG+ ++K++FE KV L R+ G L L G R +++K L+E Sbjct: 179 TITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEKELQELRRH 235 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 69/321 (21%), Positives = 129/321 (40%), Gaps = 15/321 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + R++K I+ G SRRE +++I QQR+ +NG + V D + VDG Sbjct: 1 MTSPEPKLTRLNKYISDTGYCSRREADKLIDQQRITINGNVP-EMGTKVAEGDDVLVDGK 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL+ + ++KP+G+ T + + + R+ +GRLD ++GL+ LT Sbjct: 60 PLKAKQERIYIAFNKPVGITCTSERHVEGNIIDYI--NHEQRIFPIGRLDKPSDGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG + + + Y VR + D L + G+ I QV ++ S Sbjct: 118 SDGDIVNKILRAGNAHEKEYVVRVDKPITDDFLAQMAAGVPILDTVTLPCQV----KQES 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ +++V +L R+ LGTL +G R ++ + + Sbjct: 174 RFVFRITLTQGLNRQIRRMCEYLDYEVFKLKRVRIMNIDLGTLASGEWRYLTASEMEQIN 233 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD-------FTRMKKNSSQKNGLSKQ 298 + + +R S R + Q Sbjct: 234 NMIGTSSKTEEASRKVKEVDGKIRTIKKASSGRNHHSNNTFSQKRREESKDRGFGKSYSQ 293 Query: 299 KKLATPVHRRNLAS-NVWMAK 318 ++ + ++ VW AK Sbjct: 294 RRDEGKDQDKPQSTIKVWRAK 314 >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 = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 95/350 (27%), Positives = 158/350 (45%), Gaps = 9/350 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 +P+R+ KV+A AGIASRR+ E +IA RV VNG ++ V D + VDG PLR Sbjct: 2 SPERLQKVLASAGIASRRDCEELIAAGRVTVNGRVVTVPGTRVDLEHDEVLVDGQPLRMP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + HKP G+V+T DP GR TV +L + +RV VGRLD+++EGL+LLT+DG L Sbjct: 62 AKRTYIMLHKPAGVVSTAEDPHGRPTV-VDLVDVPARVFPVGRLDLDSEGLILLTDDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + + YRV + D L + G++++G V L WV Sbjct: 121 AYALTHPSFEVEKEYRVLLDRALTPDALRSWRNGVLLEGEMTAPAWVELLETTPEGVWVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + LREG+ R+I+ V + ++V RL+R+ GP QLG L + R ++ + + + Sbjct: 181 IVLREGRKRQIRAVAKLLGYEVRRLVRVREGPLQLGDLPPRAWRHLTDEEVAALRAHVSV 240 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR--- 307 + ++ +++ + S + + R Sbjct: 241 RRSLADVPTRSTDVVKSRALDEKPHRAGDSAPVTRQRSEHSERRSSDRSRREQRDERVTE 300 Query: 308 ----RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + A ++G+ + + + R + + + Sbjct: 301 GPTWGETDARAGRAPRGRQDSRGEAGRGAWGETDARAGRAPRGRQDSRGE 350 >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 = 189 bits (480), Expect = 6e-46, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 105/234 (44%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + T D +L + VGRLD +TEGLL+LTNDG L Sbjct: 63 EYIYLMMNKPDGYISATTDKYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWV 189 + + P + Y + G V ++ + +G+V+ Q+ + + + + Sbjct: 123 SHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDRYKTMPSQLNIL-KSDDESEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R+S G +L L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEVK 235 >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 = 189 bits (480), Expect = 6e-46, Method: Composition-based stats. Identities = 135/271 (49%), Positives = 173/271 (63%) 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 GPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 G + + + Sbjct: 241 GLSDKDLGKDSAKPTRVRKPVNRPVTGKKRQ 271 >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 = 189 bits (479), Expect = 6e-46, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + A V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRAVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 189 bits (479), Expect = 6e-46, Method: Composition-based stats. Identities = 82/237 (34%), Positives = 127/237 (53%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGEARRLNKKEVSQLHNAA 236 >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 = 189 bits (479), Expect = 6e-46, Method: Composition-based stats. Identities = 80/241 (33%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++D L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGVANKDNLRPLTRGLEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE +V++L R +G L L G +R ++KK + + + + Sbjct: 180 IIHEGRNHQVKKMFEAVGLQVDKLSRTRFGHLDLTGLRPGESRRLNKKEISQLHTMAVTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 189 bits (479), Expect = 6e-46, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 122/232 (52%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K I+R+G+ SRR+ E +I + RVKVNG ++ V + D +EVD ++ ++ Sbjct: 3 ERLQKFISRSGVTSRRKAEELILEGRVKVNGKVIRTLGVKIDPEKDVVEVDNKIIKPEKK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY L + + R+ + SRV VGRLD ++EGLLL TNDG +A Sbjct: 63 LYIALYKPVGYLSSLYDPFGRRTIKDLLKDKLSSRVYPVGRLDFDSEGLLLCTNDGEIAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVT 190 + P + ++Y V +G +++L ++G++++ + + + + + Sbjct: 123 FVIHPRYKIPKIYEVLVNGIPKEEELKKFREGVILEEGKTLPAEFEVVWKNSKTKRSLLK 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L +G R+I+++ F ++V +L RI G +LG L G R ++ + ++ Sbjct: 183 VVLYQGWKRQIRRMLALFGYEVLKLKRIQIGEIRLGNLKPGEFRFLNDEEIK 234 >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 = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 159/352 (45%), Positives = 208/352 (59%), Gaps = 9/352 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q + R++K++AR G+ASRR+VERM+A+ R++VNG LL+ AV V +D IEVDG + Sbjct: 35 QASAESGRIAKILARVGVASRRDVERMVAEGRIRVNGKLLDSPAVVVSLSDRIEVDGEEV 94 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ERTRLW+YHKP GLVTT+ DP+GR TVF+ LP RV+S+GRLDINTEGLLLLTND Sbjct: 95 AGIERTRLWIYHKPAGLVTTNRDPEGRRTVFETLPKHLPRVLSIGRLDINTEGLLLLTND 154 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP T WLR YRVR +G +DQ++L+ LK GI + G+ YG ++ TLD ++G N Sbjct: 155 GGLARTLELPETGWLRRYRVRAYGDIDQNRLDTLKDGIAVDGVLYGAIEATLDRKQGHNV 214 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNREIK V VNRLIRIS+GPFQLG + G E+ + LREQLG Sbjct: 215 WITMGLREGKNREIKNVLSALGLDVNRLIRISFGPFQLGDVREGDVVEIKSRTLREQLGV 274 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR--------MKKNSSQKNGLSKQK 299 L+EE+ N DAP+ S + + + + Sbjct: 275 RLIEESGANFDAPLNDSAPASKKEAKPSPAAKPAQREWISSSEKVERARARFDTKPGRPD 334 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS-FPSKRSLRRT 350 + P RR+ SS S R + P + +R Sbjct: 335 RDGKPGERRSEWGPGKERGERKSSGDKASRPRSGGPEGKRNEEPGAKPAKRG 386 Score = 37.5 bits (85), Expect = 3.0, Method: Composition-based stats. Identities = 11/111 (9%), Positives = 22/111 (19%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R V + P TR + + Sbjct: 392 RASNVWMAPGARPVADADKPEGGRGGAKSGHKKADADPRAETRRGSFPKGRAKPRPDRDE 451 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 RR+ A G + S + + + K + ++ Sbjct: 452 NDGRPRRDGDRPFGKAPGKPAGKPSGKFAGKPSGKPDGKPGGKPVRKPDAS 502 >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 = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 78/241 (32%), Positives = 122/241 (50%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 61 YYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVNLKGLRPGEARRLNKKEISQLHNLANTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 189 bits (479), Expect = 7e-46, 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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 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|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 = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 122/241 (50%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 61 YYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + S + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKSRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQLHNLANTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 128/235 (54%), Gaps = 3/235 (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 ++ + Y ++T+ SD GR V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKLYILFYKP-AQVITSVSDDRGRKVVTDYFKQIKTRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 ++ P + + Y V+ G + ++++ L++G+ ++ +V + + Sbjct: 121 FTNLMTHPRYKIKKKYVVKLKGYLMREEVKSLEQGVQLEDGVTQPAIIKVKNQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE F +V +L RI +GP L L AG R ++ ++ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLQRIEFGPLNLKGLNAGEGRVLTPHEVK 235 >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 = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 61/291 (20%), Positives = 112/291 (38%), Gaps = 7/291 (2%) 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 + + +L +R+ +GRLD +EGL+ LT Sbjct: 60 PVKEKQKRIYIALNKPAGITCTTERHIHGNVI--DLIDYSTRIFPIGRLDKPSEGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V+ V L + +G+ I +VT + Sbjct: 118 NDGDIVNKILRAGNAHEKEYIVKVDSTVTDKFLTGMARGVPILDTVTKPCKVTRE----G 173 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G N++I+++ E F ++V L R + L G R ++ + E Sbjct: 174 RFEFKIILTQGLNQQIRRMCEHFGFQVKSLTRTRIMNIDIKGLATGQWRLLTDNEMAEIN 233 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + R Sbjct: 234 AMVEGSSSTEEASDYGQVKPKVKGQHSKRGVNSAARQKRFGYGDYAATPGQ 284 >gi|327470426|gb|EGF15882.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK330] Length = 242 Score = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLSKKEVSQLHTLAVTK 239 >gi|322411180|gb|EFY02088.1| hypothetical protein SDD27957_02020 [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 240 Score = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 132/241 (54%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G +L L G +R ++KK + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLELTGLRPGESRRLNKKEISQLHNLANTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 189 bits (479), Expect = 7e-46, Method: Composition-based stats. Identities = 137/273 (50%), Positives = 176/273 (64%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + R++KV+ARAGIASRRE ERMI RV VNG + A+NV D I VD Sbjct: 26 RGMSNTPPPGDRIAKVLARAGIASRREAERMIEAGRVAVNGKPINSPALNVTGKDKITVD 85 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G P+ + E +RLWLYHKP GLVTT D GR+T+FD LP RV+SVGRLD+N+EGLLL Sbjct: 86 GKPVSEPEPSRLWLYHKPPGLVTTARDEKGRTTIFDKLPENMPRVMSVGRLDLNSEGLLL 145 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDGG+ R LELPST WLR YRVR +G+ + L+KG+VI G + M VTLD Q+ Sbjct: 146 LTNDGGIKRKLELPSTGWLRKYRVRVNGRPRDEDFAPLRKGLVIDGERFQPMTVTLDRQQ 205 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 G+NAW+T+GLREGKNREI++ E + VNRL+R+SYGPFQLG L G E+ ++++R+ Sbjct: 206 GANAWLTIGLREGKNREIRRAIEDIGYVVNRLLRVSYGPFQLGDLKPGEVEEIRRRVMRD 265 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 QLG + + P Sbjct: 266 QLGLDAEGDGKAPAKRPARPQRKRPAIGKKPRK 298 >gi|291536218|emb|CBL09330.1| ribosomal small subunit pseudouridine synthase A [Roseburia intestinalis M50/1] Length = 235 Score = 189 bits (479), Expect = 8e-46, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 112/237 (47%), Gaps = 5/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 1 MRLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQKVDEKNDTVCFRGNPLTYTEY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T D R+ + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 61 EYYLFHKPAGCV-TATEDNLHRTVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ +VY + G+V ++ +NL K G+ I + + + G N+ + + Sbjct: 120 DLLSPAKHVSKVYYAKIDGRVTEEDVNLFKNGVDIGEEKPAKPALLEVLH-SGDNSEIRL 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 + EG+ ++K++FE KV L R+ G L L G R ++++ L+E Sbjct: 179 TITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEEELQELRRH 235 >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 = 188 bits (478), Expect = 8e-46, Method: Composition-based stats. Identities = 69/230 (30%), Positives = 120/230 (52%), Gaps = 2/230 (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 +L + R+ +GRLD ++ GLLLLTNDG + Sbjct: 62 KVYIALNKPVKYISSVKDEKGRKNVI-DLIDVKERIYPIGRLDYDSSGLLLLTNDGDIYN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y V +G +++ L+ GI I G +V ++ + A + + Sbjct: 121 NLMHPSKEVYKTYLVTVNGIPTIEEIKKLETGIDIGGYITAPAKVKIEKLDYNKASLKIQ 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+I+K+ + V L RI+ G +L + G R ++K+ + Sbjct: 181 IYEGKNRQIRKMCDSIGHSVIALKRIAIGDIKLKDIPQGKYRFLTKEEID 230 >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 = 188 bits (478), Expect = 8e-46, Method: Composition-based stats. Identities = 89/255 (34%), Positives = 136/255 (53%), Gaps = 1/255 (0%) 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ R+++++ E + V RL R+ YG +G L G+ R ++ + + Sbjct: 183 IHEGRYRQVRRMCEAVSLSVVRLRRVRYGALSMGDLKIGAYRHLTSGEVAALSDGKIGAR 242 Query: 253 AQVNLDAPIYSSETL 267 + Sbjct: 243 GGAPRRRGPSAPPRK 257 >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 = 188 bits (478), Expect = 8e-46, Method: Composition-based stats. Identities = 82/241 (34%), Positives = 130/241 (53%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + T+ + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYTIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQLHNAAINK 239 Query: 252 E 252 Sbjct: 240 S 240 >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 = 188 bits (478), Expect = 8e-46, Method: Composition-based stats. Identities = 72/237 (30%), Positives = 118/237 (49%), Gaps = 2/237 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 N R+ K++A+AG SRR+ E+MI RV+V+G L+ V HI VDG Sbjct: 14 DNNNEGIRLQKILAQAGFGSRRKCEQMITDGRVEVDGELVTELGTRVDPKKQHIRVDGSR 73 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + +KP +++ DP GR T+ D + + RV +GRLD ++EGL+L+TN Sbjct: 74 VHLNPNHVTLALNKPKKVLSAMDDPKGRYTLADIIGDKYERVFHMGRLDYDSEGLILMTN 133 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G++ + L +G+ + + Sbjct: 134 DGELSQHVMHPKYEVEKTYIATIDGKIGGNVCRRLVTQGVQLDDGLVKLDHCAIIDANRD 193 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ +R Sbjct: 194 QTIVKVVLHSGKNRIVRRIFGAIGYPVRRLVRTQIGPIKLGDLKSGTYRVLSQVEVR 250 >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 = 188 bits (478), Expect = 8e-46, Method: Composition-based stats. Identities = 73/237 (30%), Positives = 122/237 (51%), Gaps = 3/237 (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 Y + + D ++ V + R+ VGRLD +T GLLL+TN Sbjct: 61 IEKETLHTYLFYKPRGVISSVKDDKGRKTVVDYF-EDVPYRLYPVGRLDYDTSGLLLMTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKG 184 DG LA L P + +VY + G + + ++ L G+ I G ++ + +K Sbjct: 120 DGELANKLMHPRNEVPKVYVAKIKGLLSPEDIHSLTHGVRIDGRKSAPAKLKILKTDEKK 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 180 NTQIVQLTIHEGHYHQVKRMFEAVHHFVEKLSREKYAFLTLKSLTSGEYRELTHEEV 236 >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 = 188 bits (478), Expect = 8e-46, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 108/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V + V G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKQLLKQKAVTVDGASVKDAAMHVDPEQQNVSVYGERVIYTEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + P + T D + VGRLD +TEGLL+LTNDG LA Sbjct: 61 VYFMMNKPPGVISATEDLRDETVIDLLEPVDQHFQPFPVGRLDKDTEGLLVLTNDGILAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY G V ++ + G+ + ++ + + + + + Sbjct: 121 NLLSPKKHVPKVYYAHIEGVVTEEDVEKFANGVELDDGYMTKPGKLVIL-KSAPQSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++K++FE +V L RIS G +L L G RE++ + L Sbjct: 180 TIQEGKFHQVKRMFEAVGKRVTYLKRISMGNLKLDDQLELGEYRELTVEELD 231 >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 = 188 bits (478), Expect = 8e-46, Method: Composition-based stats. Identities = 63/235 (26%), Positives = 106/235 (45%), Gaps = 4/235 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 QR+ K+++ G SR E+++ VKVNG ++ V V D I DG + Sbjct: 19 SKKQRIDKILSNLGYGSRSELKKFCKNGLVKVNGKVINNPGVQVDVENDEIIFDGEKVTY 78 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + T D + + VGRLD +TEGLL+LTNDG Sbjct: 79 KEFIYLMLNKPDGYISATFDKRDPIVLDLIDKEDLVFEPFPVGRLDKDTEGLLVLTNDGQ 138 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAW 188 LA + P + Y + G V ++ + KG+ + ++ + + + Sbjct: 139 LAHRVLSPKKHVPKTYYAKIEGIVTEEDIKAFAKGVTLDDGYETMPAELIIL-KSDEISE 197 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + EGK ++K++FE + KV L R+S G +L L G RE++ + ++ Sbjct: 198 IELTIHEGKFHQVKRMFESVDKKVIYLKRLSMGKLKLDENLALGEYRELTDEEVK 252 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 80/229 (34%), Positives = 117/229 (51%), Gaps = 3/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA AGIASRR+ E +I +V VNG L+ V D IEV+GVP+ K + Sbjct: 4 RLQKVIAEAGIASRRKAEILITSGQVTVNGDLVTTLGTKVDDNDKIEVNGVPIHKEQLHT 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY + T D GR TV D + R+ VGRLD +T GLLL+TNDG LA L Sbjct: 64 YLLYKPRNVVSTVS-DNKGRKTVTDFFKDLPYRLYPVGRLDYDTSGLLLMTNDGELANRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + +VY + G + ++ LK G+ I G +V + + V + Sbjct: 123 MHPKNEIEKVYVAKIRGFLTASEIYDLKHGVTIDGRKTAPAKVKIIKTDKNRNIQLVQLT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K +F+ N V +L R Y L +L++G RE++ + + Sbjct: 183 IHEGHYHQVKNMFKAVNHLVEKLSRERYAFLTLKSLISGEYRELTHEEI 231 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 83/237 (35%), Positives = 128/237 (54%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G +D L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKDNLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + Sbjct: 180 TIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQLHNAA 236 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 65/318 (20%), Positives = 118/318 (37%), Gaps = 5/318 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +G+ SRRE +R I V +NG + V+ D + V+G + + Sbjct: 6 STRLNKYISESGMCSRREADRYIENGNVAINGKAAQV-GDQVLPGDKVTVNGQLIEPRDE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + N R+ +GRLD +++GL+ LT++G L Sbjct: 65 EDLIFIALNKPVGVVSTTDPAERRNIVNHVGHGERIFPIGRLDKDSQGLIFLTSNGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ I G +V +K S + Sbjct: 125 KILRAGNNHEKEYLVTVNKPVTTEFVQGMSAGVPILGTVTKRCKV----EKVSRFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ EFF ++V +L R+ L L G R++ K L Sbjct: 181 LVQGLNRQIRRMCEFFGYEVTKLERVRIMNISLKGLSVGEWRDLGPKELAGLFDMIRDSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 ++V+ D + + V+ P + Q K R S Sbjct: 241 SEVSPDNRSETKKPAVKRPSKKPGASPSGPRGKGAKTGQPGRPGKPTGKHGKPSRPGKPS 300 Query: 313 NVWMAKGIHSSFLSDSGQ 330 + S + Sbjct: 301 KRGKPGKLRKPRQSSVKR 318 >gi|332358327|gb|EGJ36153.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK355] Length = 242 Score = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 80/240 (33%), Positives = 133/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L L G R+++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTGLKPGEYRKLNKKEVSQLHTLAVTK 239 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 78/241 (32%), Positives = 122/241 (50%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 61 YYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQLHNLANTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 113/232 (48%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G+ SR+EV++++ +R+ VN ++++ + ++V D I VD + + Sbjct: 2 MRLDKLLSNMGVGSRKEVKQLLKSKRITVNEVIVKDSGMHVDPEYDQIFVDDQLISYQKH 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ P + T + D + VGRLD +TEGLLL+TNDG LA Sbjct: 62 IYLMMHKPPGVVSATVDNRDRTVIDLLSADEKKFEPFPVGRLDKDTEGLLLITNDGELAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY G+ ++ + ++G+ ++ ++ + ++ + V V Sbjct: 122 RLTSPKKHVEKVYIAHISGEFPENIVEQFQEGLTLEDGYQTKPAKLEILNKQ--SKEVKV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK +IK++F KV L R+ QL L G R +++ L+ Sbjct: 180 TITEGKYHQIKRMFIAVGCKVTYLKRVQMANLQLDDSLPIGDFRPLTEDELQ 231 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ V+++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVRIDGKPVKDAKFHVNIEKQEVTIYGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D VGRLDI+TEGLLLLTNDG L Sbjct: 61 VYLMMHKPQGVISATEDDHHETVVDLLEFEDAIFNPFPVGRLDIDTEGLLLLTNDGKLTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V + + KG+V+ ++T+ + + + Sbjct: 121 QLLSPKKHVPKKYYAHIEGVVTEKDVEDFAKGVVLDDGYETKPGELTILNSD-DISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R+ GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRVEMGPLTLDEELELGQYRELTDEEVE 231 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 121/241 (50%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V D +E++G P+ E+ Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVITDLATTVKLGDVVEIEGSPIYNEEKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 61 YYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +GIVI G + + + + V + Sbjct: 120 MTHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPGEARRLNKKEISQLHNLANTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 92/276 (33%), Positives = 140/276 (50%), Gaps = 8/276 (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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---KGSNAWV 189 L PS + +VYRV G VD++ L +G+ ++ +V + Q + A V Sbjct: 121 RLLHPSREIEKVYRVSVRGIVDRETRRALMEGVELEDGVTAPAKVEVLRQADREDGVAVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EG+NR+++++FE V RL RI++GP LG L G R ++++ + + Sbjct: 181 HLAIHEGRNRQVRRMFERLGLPVLRLKRIAFGPVSLGHLKTGEWRALTQEEW---VALYQ 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 S R S R Sbjct: 238 AAGMTPPPYRRPTISREPARKGAARASARDHGSRRG 273 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 61/293 (20%), Positives = 116/293 (39%), Gaps = 5/293 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V V + D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYIEQGNVFINGKRATV-GVQVSAGDVVKVNGQIIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L + + DG + + RV +GRLD +++GL+LLTN G Sbjct: 62 RNEEDLILIALNKPVGVISTTEDGEQNNIVDFVNHSKRVFPIGRLDKDSQGLILLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +V + + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKVKRE----ATFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R+ L L G R++++ L E Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERVRIMNISLKGLPQGEWRDLTEDELIELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + + + + + ++KK Sbjct: 238 NSSSDEKPVKKAPVKAVEAKRVSISGPKKTEKPDGNAASRKRFAQPGRKKKGR 290 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 69/246 (28%), Positives = 114/246 (46%), Gaps = 6/246 (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 TVNGKRVEGKERPVLLAVNKPRGIVCTTSDKDRAENIVEFFKY-PVRIYPVGRLDKDSEG 118 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL+TN G L + + Y V V + + ++ G+ I G + + Sbjct: 119 LLLMTNQGDLVNRILRGRYGHEKEYLVTVDRPVTEAFIRQMRNGVEILGTRTKPCEAEI- 177 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ L +G NR+I+++ E ++V L R+ +LG L G RE++ Sbjct: 178 ---TGERSFSIILTQGLNRQIRRMCEALGYQVKTLKRVRIMNVKLGNLKTGQYRELTPAE 234 Query: 241 LREQLG 246 E Sbjct: 235 WEELQR 240 >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 = 188 bits (478), Expect = 9e-46, Method: Composition-based stats. Identities = 169/349 (48%), Positives = 216/349 (61%), Gaps = 2/349 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ P+R+SK++ARAGIASRR+VERMI + RV VNG +L+ +N D IEVDG P+ Sbjct: 77 EDTLKPERISKLLARAGIASRRDVERMIMEGRVAVNGKVLDSPVLNATLADRIEVDGEPI 136 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R ERTRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLLLTND Sbjct: 137 RGIERTRLWLYHKPSGLVTTNSDPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTND 196 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLARVLELP+T WLR YRVR +G++DQ KL+ LK GI + G+ YG + LD +G N Sbjct: 197 GGLARVLELPTTGWLRRYRVRAYGEIDQAKLDTLKDGIAVDGVLYGAIDAVLDRSQGHNV 256 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNREIK V +VNRLIRISYGPFQLG L +EV ++LR+QLGP Sbjct: 257 WITMGLREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPESQVQEVRGRMLRDQLGP 316 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L+EE++ N DAP+YS+ + K ++ + Sbjct: 317 RLIEESKANFDAPLYSNAPAEEEDAPAPKAKAKAEEGNWKKDTRPAKPRGFDNREDAREK 376 Query: 308 --RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 L + AK S G+ + + + R K+ Sbjct: 377 ALSRLDTRRDGAKPAFGSKPGFGGKPGFKGKPAAGRDGDDAARDGKPKR 425 >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 = 188 bits (478), Expect = 1e-45, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 127/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 + P + Y + G ++ L++GIV+ G + + + 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|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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 129/241 (53%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQLHNAAINK 239 Query: 252 E 252 Sbjct: 240 S 240 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 62/323 (19%), Positives = 117/323 (36%), Gaps = 7/323 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++K I+ +GI SRRE +R I Q V++NG V+ TD + V+G + Sbjct: 2 TQSSSTRLNKYISESGICSRREADRYIEQGNVRINGKRASV-GDQVLPTDTVMVNGQIIE 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + R+ +GRLD +++GL+ +T++G Sbjct: 61 PRAEEDQVFIALNKPVGIVSTTDSAERDNIQRFVGHTVRIFPIGRLDKDSQGLIFMTSNG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + Y V + + ++ + G+ I G +V + S Sbjct: 121 DLVNKILRAGNNHEKEYLVTVDKPITKTFIDGMAGGVPILGTVTKKCRV----SQESRFV 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E F + V RL R LG L G R+++ K L + Sbjct: 177 FRIVLVQGLNRQIRRMAEHFGFDVTRLERQRIMNISLGNLPVGQWRDLTSKEL--AVLMD 234 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + ++ + A + + R + + G + R Sbjct: 235 SIRDSSSDAPAAPQKPAGKTKPANAPAQKRESHKPRAGNKTPPRPGAKSAGQPGGRPDNR 294 Query: 309 NLASNVWMAKGIHSSFLSDSGQR 331 + K S +R Sbjct: 295 PGSKPAARPKSKPKKQRQRSTKR 317 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 129/241 (53%), Gaps = 3/241 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARIKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFEQVGLLVDKLSRTQFGTLDLTGLRPGEARRLNKKEISQLHNAAINK 239 Query: 252 E 252 Sbjct: 240 S 240 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 139/309 (44%), Positives = 190/309 (61%), Gaps = 1/309 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E R++KV+ARAG+ASRRE ERMI R+ V+G +++ A+NV+ T I VDG P+ Sbjct: 3 TETPKGDRIAKVLARAGVASRREAERMIDAGRISVDGKIIDSPALNVLPTARISVDGKPM 62 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E R+W+YHKP GLVTT SD GR T+FD+LP RV+SVGRLD+N+EGLLLLTND Sbjct: 63 AAPEPPRVWMYHKPTGLVTTDSDEKGRKTIFDDLPEDMPRVMSVGRLDLNSEGLLLLTND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGL R LELPST WLR YRVR +G+ ++ L+KG+ +QG + M V++D Q+G+NA Sbjct: 123 GGLKRKLELPSTGWLRKYRVRINGRPTEETFEPLRKGLNLQGEHFQPMLVSIDRQQGANA 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TVG+REGKNREI++ E VNRLIR+SYGPFQLG L E+ ++ L++QLG Sbjct: 183 WLTVGIREGKNREIRRAMEAIQLNVNRLIRVSYGPFQLGNLKTSGVEEIRRRALKDQLGL 242 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 E+ +V P + +P R + S + +++ K P + Sbjct: 243 S-DEDLEVPGAKPKPTQRGKNSVTRGKRPPLPKGPLRGRDRFSDSDPMARPKSSGKPKSK 301 Query: 308 RNLASNVWM 316 Sbjct: 302 PANKPRPKR 310 >gi|255525211|ref|ZP_05392153.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255511074|gb|EET87372.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 234 Score = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 75/231 (32%), Positives = 120/231 (51%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L + R+ +GRLD +T GL+LLTNDG + Sbjct: 63 KVYIALNKPKGYVSTVKDERGRKT-ILDLVDVTERIYPIGRLDYDTSGLILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++Y G ++ + + GI I G + + + V + Sbjct: 122 KIIHPKQEKNKIYIALIKGIPTENDIKKFEIGINIDGYVTAPAKFKIIKKFKDYCEVEII 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+I+K+ +F N +V L RI G +LG L G R +S K ++ Sbjct: 182 IHEGRNRQIRKMCDFINHQVLELKRIQIGDIKLGNLPLGKWRYLSNKEVKN 232 >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 = 188 bits (477), Expect = 1e-45, 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 +L + R+ +GRLD ++ G++LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTV-LDLVKVNERIYPIGRLDYDSSGIILLTNDGDIYN 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|218289586|ref|ZP_03493806.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] gi|218240236|gb|EED07419.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] Length = 273 Score = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 92/276 (33%), Positives = 140/276 (50%), Gaps = 8/276 (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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---KGSNAWV 189 L PS + +VYRV G VD++ L +G+ ++ +V + Q + A V Sbjct: 121 RLLHPSREIEKVYRVSVRGIVDRETRRALMEGVELEDGVTAPAKVEVLRQADREDGVAVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EG+NR+++++FE V RL RI++GP LG L G R ++++ + + Sbjct: 181 HLAIHEGRNRQVRRMFERLGLPVLRLKRIAFGPVSLGHLKTGEWRALTQEEW---VALYQ 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 S R S R Sbjct: 238 AAGMTPPPYRRPTISREPERKGAARASARDHGSRRG 273 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 146/354 (41%), Positives = 203/354 (57%), Gaps = 11/354 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N R++KV+ARAG+ASRRE ERMI + RV VNG ++ A++V D I VDG PL Sbjct: 10 PNPQADRIAKVMARAGVASRREAERMILEGRVTVNGKKIDSPALDVTPADRIRVDGKPLE 69 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + TRLWLY+KP+GLVT++SD GR TVFD LP RV++VGRLD+N+EGLLLLTNDG Sbjct: 70 EPQETRLWLYYKPLGLVTSNSDEKGRQTVFDALPRDLPRVMTVGRLDLNSEGLLLLTNDG 129 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L R LELP+T WLR YRVR +GQ + L++G+ I G + M++ LD+Q+G+NAW Sbjct: 130 ELKRRLELPTTGWLRRYRVRVNGQPNDLTFAPLRRGVTIDGEEFAPMEINLDSQQGANAW 189 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +TVG+REG+NREI++ VNRLIRI YGPF+L L REV +K+LR+QLG Sbjct: 190 LTVGIREGRNREIRRAMAHVGLIVNRLIRIGYGPFKLTGLEENEVREVKRKVLRDQLGGL 249 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR----MKKNSSQKNGLSKQKKLATP 304 L E + + + + D+ R +++ +K +++ P Sbjct: 250 LTGETEEKPRSFRERGAAKPAEGDARPRKPRDEGGRKPFARREDGDRKPFARREEGDRKP 309 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP-----SFPSKRSLRRTSAK 353 RR G + E+ R P K ++R + K Sbjct: 310 FARREDGER--KPFGKRPDGGRKPFAKREDGERKPFARREDRDGKPAVRDGARK 361 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 82/272 (30%), Positives = 122/272 (44%), Gaps = 13/272 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 PQR+ K++A+ G+ASRR+VE I RV+VNG ++ D IEV+G + A Sbjct: 3 EPQRLQKLLAQQGLASRRQVEAWILAGRVRVNGKVVTELGSKADPERDCIEVNGQVIPLA 62 Query: 71 ERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLT 125 + L L+ L T ++ + PS + 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 KILREQLGPHLLEEAQVNLDAPIYSSETLVRD 270 L+ L P + +L RD Sbjct: 243 HELQALLAPLTGHSSSSSLGKRPLRPPARSRD 274 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 85/240 (35%), Positives = 130/240 (54%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 + P + +VY R G +D L L KGIVI G + + ++ + + V + Sbjct: 120 MLHPRHEIDKVYVARVKGLASKDNLRPLTKGIVIDGKKTQPARYRIVKTDREKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G R ++KK + + + E Sbjct: 180 TIHEGRNHQVKKMFEAVGLMVDKLSRTRFGTLDLSGLNPGEARRLNKKEISQLYNAAVNE 239 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 87/234 (37%), Positives = 129/234 (55%), Gaps = 2/234 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T +R+ KV+A AG+ASRRE E++I RV+VNG + V D I VDG L + Sbjct: 2 EQTKERLQKVMAAAGVASRRECEKIILAGRVQVNGKPVTELGTRVGKADRITVDGKALHR 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +L +KP G+VTT DP GR TV D + + R+ VGRLD TEGLLL+TNDG Sbjct: 62 KSARHTYLLYKPGGVVTTMKDPQGRRTVADLMAGLHQRLYPVGRLDYLTEGLLLMTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 LA+ L PS + Y V HG+V ++KL++L+ G+ ++ V + Sbjct: 122 LAQHLTHPSHHVDKTYEVEVHGRVPEEKLDVLRLGVPLEDGLTAPAVVYVKKWDPEKNLT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 TV + EG+NR+++++ +F + V L RI G L + G RE++ + + Sbjct: 182 RFTVTIHEGRNRQVRRMCDFIGFPVKSLKRIQVGTLTLEGMKKGEFRELTPEEV 235 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 82/247 (33%), Positives = 124/247 (50%), Gaps = 3/247 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ KVIA AGIASRR E +IA VKVNG + + + D +EVDGVP+ Sbjct: 2 TTKNERLQKVIANAGIASRRHAETLIASGHVKVNGHVTTEMGIKIGPHDTVEVDGVPI-G 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E R +L++KP G+++ D GR V D + R+ VGRLD +T GLL++TNDG Sbjct: 61 KEAKRYFLFYKPRGVISAVEDNKGRKVVTDYFEDVQERLYPVGRLDYDTSGLLVMTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW- 188 LA L P + Y + G ++ L LK G+ I G +V + + + Sbjct: 121 LANHLMHPRYALEKKYVAKVEGIPNRPALAPLKTGVSIDGKMTAPAKVEILSTDKAKKTA 180 Query: 189 -VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + +G N ++KK+F+ + V +L R +YG L L G R + + L + Sbjct: 181 IVALTIHQGMNHQVKKMFKAVGFPVIKLSREAYGNLTLAGLQPGEHRPIKPQELHDLRQL 240 Query: 248 HLLEEAQ 254 +E Sbjct: 241 TGEQEEA 247 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 129/240 (53%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQLHNAAVNK 239 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 73/230 (31%), Positives = 123/230 (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 + R+ VGRLD +T GLLLLTNDG +A Sbjct: 62 NIYIMLNKPTGFITTVKDQFGRPSVLDIIKI-KDRIYPVGRLDCDTSGLLLLTNDGDIAN 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|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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 63/246 (25%), Positives = 109/246 (44%), Gaps = 5/246 (2%) Query: 1 MKDKNIVQEN----FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK + E P R++K +A AG+ SRRE + I VKVNG ++ V+ Sbjct: 1 MKKRIEYNEEHIDPTVPVRLNKYLANAGVCSRREADEFIQAGVVKVNGEVVTELGTKVLR 60 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +D + P+ ++ + L + T+ ++ + + R+ VGRLD Sbjct: 61 SDEVVFHDQPVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNACPERIYPVGRLDR 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT G+LL TNDG LA L P +VY V V + + +GI ++ Sbjct: 121 NTTGVLLFTNDGDLASKLTHPKFLKKKVYHVFLDKNVTAHDMQQIAEGIELEDGEIHADA 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + N V + + GKNR ++++FE ++V +L R+ + L G R + Sbjct: 181 IEYTNETEKNQ-VGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNLRRGDWRYL 239 Query: 237 SKKILR 242 + + + Sbjct: 240 TAQEVD 245 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 91/350 (26%), Positives = 139/350 (39%), Gaps = 12/350 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIEAGRVSVDGKIATLGDRVEVTPALKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + +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 ++ + ++ S + G + Sbjct: 242 ELVGLPPETASKVAVEKDRRRM--KANQIRRAVKRHSQTAGGPRQGSPARQGQGQAGAAR 299 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R + +S + G + + + Sbjct: 300 PAGSARPAENTRAGNNTSRASGNARPGGNPRASGARATGSGRPNSGSGRP 349 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 74/325 (22%), Positives = 134/325 (41%), Gaps = 17/325 (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 YIAYNKPVGITCTTERKIQSNIVKAV--NYPERIFPIGRLDRPSEGLIFLTNEGDIVNKI 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V +++ +N + GI I +VT + ++ L Sbjct: 123 LRAGNNHEKEYVVTVDKPLNRQFVNKMANGIPILDTVTKKCKVTQTGAQQ----FSIILT 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGPHLLE 251 +G NR+I+++ E+ ++V L R+ L L G R +S + + + Sbjct: 179 QGLNRQIRRMCEYLGYEVVTLKRVRIMNVTLKGLKVGQWRHLSDAEMAVINDSIADSGKT 238 Query: 252 EAQV---NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + + + Y+ + + ++N+ ++ +K+ TP +R Sbjct: 239 QEHSLYDDTEQRKYTEQDKNSGAKSAHKRDFQGGKLRRENNDEQQKHAKKNSRNTPYQKR 298 Query: 309 N----LASNVWMAKGIHSSFLSDSG 329 + SN A + SG Sbjct: 299 STTYVGKSNTHKANTATGNKTRSSG 323 >gi|13476819|ref|NP_108388.1| hypothetical protein mlr8253 [Mesorhizobium loti MAFF303099] gi|14027580|dbj|BAB53849.1| mlr8253 [Mesorhizobium loti MAFF303099] Length = 546 Score = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 151/347 (43%), Positives = 204/347 (58%), Gaps = 9/347 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R++K +ARAG+ASRR+ E +IA RVKVNG L A NVM D I +DG+ + Sbjct: 93 TEEAGERIAKRLARAGLASRRDAEELIAAGRVKVNGRALTSPAFNVMPGDIIHLDGMEIP 152 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ERTRL+L+HKP G+VTT+ DP+GR TVFD LP+ R++++GRLDINTEGLLLLTNDG Sbjct: 153 PIERTRLFLFHKPAGVVTTNRDPEGRKTVFDVLPAELPRLMTIGRLDINTEGLLLLTNDG 212 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GL+RVLELP+T WLR YRVR HG+V++ L L++GI + G+ YG ++ +LD ++GSNAW Sbjct: 213 GLSRVLELPATGWLRRYRVRVHGKVEESALAGLREGIAVDGVFYGAIEASLDREQGSNAW 272 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GLREGKNRE+K + V RLIRISYGPFQL L G E+ ++LR+QLG Sbjct: 273 LTIGLREGKNREVKNILGALGLDVTRLIRISYGPFQLEDLPEGHVLEIKGRVLRDQLGER 332 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 L+EE+ N DA I + + ++ ++G + + R Sbjct: 333 LVEESGANFDAEIAKPFS-----NKPVRRTEVREPEPERPKFTRDGERRPIGEGGLIKNR 387 Query: 309 NLASNVWMAKGIHSSFLSDSGQREEN----HRRSPSFPSKRSLRRTS 351 S D G+R E P R S Sbjct: 388 KRREGSRDEALGKLSTSPDRGERPEKSFGERGPRPERGGFGDKPRGS 434 >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 = 188 bits (477), Expect = 1e-45, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 129/240 (53%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+V+ G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLIRGVVLDGKKTQPARYNIIKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQLHNVAVNK 239 >gi|65318840|ref|ZP_00391799.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bacillus anthracis str. A2012] Length = 242 Score = 188 bits (476), Expect = 1e-45, Method: Composition-based stats. Identities = 75/241 (31%), Positives = 127/241 (52%), Gaps = 3/241 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 3 RLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LY + + D D P I R+ +GRLD +T G+LL+TNDG A VL Sbjct: 63 FLLYKPTGVISSVSDDKGRSVVT-DFSPEITQRLFPIGRLDYDTSGVLLMTNDGDFANVL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVG 192 P + + Y + G + +K+ +L++G+ ++ +V + + A V + Sbjct: 122 MHPRYKVEKTYVAKIKGPLTGEKIRMLERGVTLEDGKTAPARVKIISWDKRKEMAIVQLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR+++++FE + KV +L R Y ++G+L G RE++ +++ + Sbjct: 182 IHEGRNRQVRRMFEALDCKVVKLKRERYAFLEVGSLRPGDARELTPHEVKQLRALASTKP 241 Query: 253 A 253 Sbjct: 242 R 242 >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 = 188 bits (476), Expect = 1e-45, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 116/237 (48%), Gaps = 5/237 (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 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++ + + D + + ++ + VGRLDI+TEGLLL+T Sbjct: 65 IVKYQRYEYYLFNKPSGCV-SATCDNVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLIT 123 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG 184 NDG L+ L PS + Y R G+V D + K+GI I + ++ + + G Sbjct: 124 NDGALSHELLSPSKHVAKTYYARIDGEVTLDDIIRFKEGIDIGEEKPTKPAEL-VIKKSG 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 S + + + + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 183 SVSEIELTITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQAE 239 >gi|168700584|ref|ZP_02732861.1| ribosomal large subunit pseudouridine synthase B [Gemmata obscuriglobus UQM 2246] Length = 271 Score = 188 bits (476), Expect = 1e-45, Method: Composition-based stats. Identities = 86/271 (31%), Positives = 132/271 (48%), Gaps = 2/271 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R++K +A AG+ SRR +++I+ RVKVNG+ + + + + I VD P+R E+ Sbjct: 2 ERLNKYLAHAGVGSRRHCDKLISAGRVKVNGVKVTELGLKIDPSAHQIAVDDQPVRA-EK 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 LTEGKNREIRRMLAKFGHKVMRLKRVAIGPVKLDKLPKGKARRISDEELKALKAFVTRAR 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 ++ + + D Sbjct: 241 QKITAARLKAADGGRKTSQDAPKRPRKTDGA 271 >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 = 188 bits (476), Expect = 1e-45, Method: Composition-based stats. Identities = 79/249 (31%), Positives = 125/249 (50%), Gaps = 3/249 (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 + + D GR TV D LP + R+ VGRLD +T G+L+LT Sbjct: 61 PIYNEEKVYYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--K 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 QLGPHLLEE 252 ++ Sbjct: 240 LHNLANTKK 248 >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 = 188 bits (476), Expect = 1e-45, Method: Composition-based stats. Identities = 85/240 (35%), Positives = 120/240 (50%), Gaps = 1/240 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREG+NRE++++ V RL RI L L G+ R ++ + L++ Sbjct: 181 LREGRNREVRRMLAAVGHPVLRLRRIRLAFLTLRGLKPGTYRHLTPHEVERLYRLVGLKK 240 >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 = 188 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 109/231 (47%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K++A G SR+EV++++ Q+ V V+G ++ AA++V + V G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKQLLKQKAVTVDGASVKDAAMHVDPEQQNVSVYGERVVYTEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + P + T D + VGRLD +TEGLL+LTNDG LA Sbjct: 61 VYFMMNKPPGVISATEDLRDETVIDLLEPLDQHFQPFPVGRLDKDTEGLLVLTNDGILAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY G V ++ + +G+ + ++ + + + + + Sbjct: 121 KLLSPKKHVPKVYYAHIEGVVTEEDVEKFAEGVELDDGYMTKPGKLVIL-KSAPQSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++FE +V L RIS G +L L G RE++ + L Sbjct: 180 TIQEGKFHQVKRMFESVGKRVTYLKRISMGNLKLDDHLALGEYRELTAEEL 230 >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 = 188 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 138/346 (39%), Positives = 189/346 (54%), Gaps = 7/346 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +RV+K +ARAG+ASRREVER+I RV +NG +L A+ V D + VDG + + E Sbjct: 25 GERVAKALARAGVASRREVERLIEAGRVAINGKVLTTPAIKVKPGDFLTVDGQLVAEREP 84 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR++ YHKP GL+TTH+DP GR TVF LP R+ISVGRLD+N+EGLLLLTNDG L+R Sbjct: 85 TRIFRYHKPTGLMTTHNDPKGRPTVFQTLPKDLPRLISVGRLDLNSEGLLLLTNDGELSR 144 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNA 187 LE PS W+R YR R G Q KL+ LK G+ I+G+ YG ++ LD G N Sbjct: 145 ALETPSNAWVRRYRARAFGDTTQAKLDTLKDGVTIEGVKYGSIEARLDKAHDKAGGGKNI 204 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TV L EGKNRE++KV E KVNRLIR+SYGPF LG L AG EV +++RE L Sbjct: 205 WITVSLSEGKNREVRKVLESVGLKVNRLIRMSYGPFALGALAAGQIEEVGPRVIRELLEG 264 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + E D P ++ + D R + + + +K PV++ Sbjct: 265 VVPPENMPTGDRPKFAGI-ANPVKAPGTDGGGDLQRRGVPRADRDLKPAAPEKPEKPVYK 323 Query: 308 RNLASNVWM-AKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 A + + + + + ++ + R Sbjct: 324 AGWAKPKKKVSPHAPAKGAAKPKRAPAKSLETKFIDDRKPVARGKP 369 >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 = 188 bits (476), Expect = 2e-45, 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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 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|312793758|ref|YP_004026681.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] gi|312180898|gb|ADQ41068.1| pseudouridine synthase [Caldicellulosiruptor kristjanssonii 177R1B] Length = 240 Score = 188 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 74/230 (32%), Positives = 118/230 (51%), Gaps = 2/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K +A+ GIASRR+ E +I Q RVKVNG + + V D +EVDG + Sbjct: 3 ELVRLQKYMAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRITLQ 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGG 129 + + +KP G++++ D GR TV D + + VGRLD +T GL+LLTNDG Sbjct: 63 MQKVYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGE 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + Y G ++++ +KG++I G + + NA V Sbjct: 123 FAYKVTHPKHDIEKTYIALIRGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALV 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+NR+I+K+ + +V +L R++ G QLG L G + K+ Sbjct: 183 EIKIHEGRNRQIRKMCDQIGHEVLKLKRVAIGKLQLGKLKEGEFVFLDKE 232 >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 = 188 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 75/329 (22%), Positives = 132/329 (40%), Gaps = 9/329 (2%) 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 VGRLD ++G Sbjct: 60 CADNIPVHKNEKKVLLLFNKPRGIVCSTKQQFDETTVTDYLDYPLRV-YPVGRLDKESQG 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 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT---RMKKNSSQKNGLSK 297 E ++ + + + ++ ++ + Sbjct: 235 WEELNHLLESSTSETVIRTGEQNGNSSDHANERAGAKAGQGSKGVLPAGYRDHKQQRVRS 294 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLS 326 + A+ RN + S Sbjct: 295 DVRRASGSGERNRHCSGKQPNRKRRVRGS 323 >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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 136/290 (46%), Positives = 183/290 (63%) 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 SLREGKNREIRRVMEHLGLPVSRLIRVAYGPFQLGQLEEGTVDEIPGKIMREQLGKDAPP 243 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + + + + R+ + + K + Sbjct: 244 PPRRAEAKAKGNKGAAPPPKGTLSLPESSNTGRVARIARATRRAHKPEPS 293 >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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 58/238 (24%), Positives = 105/238 (44%), Gaps = 3/238 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++ R+ K +A G+ SR E++R I +RV VNG+ + + + D I D Sbjct: 1 MKAQVEKMRIDKYLANMGVGSRSEIKRYIKNKRVMVNGVYITDNGLIINLDDDIIFDEEK 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + + + T + + + GRLD +TEG LLLTN Sbjct: 61 ISYRKFVYIMMNKPQGVISATEDKYQNTVLDLLDPSYLHFDLFPAGRLDKDTEGFLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS 185 DG LA + P + Y V G + + ++ I+I ++ + Sbjct: 121 DGKLAHNMLSPKKHVEKKYYVEVIGHLVNEDIDAFSGNIIIDDGYECMPAKLEILDSN-D 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V ++EGK +IK++FE +V L R++ GP +L L G RE++++ ++ Sbjct: 180 ISKAYVTIKEGKFHQIKRMFEAIGKEVTYLKRLTMGPLKLDENLELGEYRELTEQEMQ 237 >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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 71/232 (30%), Positives = 120/232 (51%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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|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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 108/236 (45%), Gaps = 4/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G SR++V++++ V VN ++ V D + ++G + E Sbjct: 1 MRIDKMLANLGYGSRKDVKKLLKDGAVTVNDEKVKDPKHQVDPEQDAVIINGEKVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + P + T + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 IYLMMNKPPGVISATEDSQFETVVDLLEMRDLVFSPFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y +V D + KKG+++ ++ + + G + + + Sbjct: 121 RLLSPKKHVPKTYFAVIDREVTADDVAAFKKGVILDDGYETKPGELEIL-KSGITSDIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EGK ++K++FE +V L RIS GP +L L G RE++ + L + + Sbjct: 180 TITEGKFHQVKRMFEAVGKRVIYLKRISMGPLELDKTLELGEYRELTDEELDKLMN 235 >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 = 187 bits (475), Expect = 2e-45, 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|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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 75/243 (30%), Positives = 124/243 (51%), Gaps = 3/243 (1%) 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 +++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELTPHEVKRLRALADHG 240 Query: 252 EAQ 254 + Sbjct: 241 KNA 243 >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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 78/249 (31%), Positives = 125/249 (50%), Gaps = 3/249 (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 + + D GR TV D LP + R+ VGRLD +T G+L+LT Sbjct: 61 PIYNEEKVYYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--K 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 QLGPHLLEE 252 ++ Sbjct: 240 LHNLANTKK 248 >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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 147/348 (42%), Positives = 204/348 (58%) 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 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G +++ P + RP + ++ +G Q+ A V Sbjct: 241 GLAKGDDSGHAKAKPERTGTQPPGRRPGTLRLRSKPTDIEVESDRPSSGGRVQRTRADMV 300 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + V S S + + +S K Sbjct: 301 KSAPRSGTVEKVSLKSGSSKSAGSRSATSKPVVSKTGWAKSSAAKPGK 348 >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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 129/240 (53%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIVKVDHEKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L G +R ++KK + + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGESRRLNKKEISQLHNAAVNK 239 >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 = 187 bits (475), Expect = 2e-45, 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 +L + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTV-LDLVKVNERIYPIGRLDYDSSGLILLTNDGDIYN 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|310828101|ref|YP_003960458.1| pseudouridine synthase [Eubacterium limosum KIST612] gi|308739835|gb|ADO37495.1| pseudouridine synthase [Eubacterium limosum KIST612] Length = 241 Score = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 70/243 (28%), Positives = 114/243 (46%), Gaps = 8/243 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A+ G+ASRR+ E MIA RV VNG + + V D + VDG + + ++ Sbjct: 1 MRLQKYMAQCGVASRRKSEEMIAAGRVCVNGEAVLTPGLQVDPEADTVTVDGKTIAEDKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + T+ ++ + I R+ +VGRLD +TEGLL+LTNDG L Sbjct: 61 IYVLLNKPKGVVSTSADRHADQTVMDRL--PIKERLFTVGRLDKDTEGLLILTNDGDLTF 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNA 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 HLL 250 Sbjct: 239 KDD 241 >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 = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 108/232 (46%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+++ G SR+E++ ++ + ++++G +++ + V I+V G + + Sbjct: 2 ERLDKILSNLGYGSRKEIKALVKKGEIEIDGKIIKDNGIKVDPNKSTIKVSGEEINYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D + VGRLD +TEG LL+TNDG L Sbjct: 62 IYLMMNKPAGVVSATFDNYDETVIDLLDYEYTVFDPFPVGRLDKDTEGFLLITNDGDLNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y VD+ + +KGIV+ ++ + + + + V + Sbjct: 122 RLTSPKWHVDKIYYAEIDKIVDEKDIRAFEKGIVLDDGYKCLPAKLEILSADENGSEVNI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++K++FE KV L R+ G L L G RE+++ ++ Sbjct: 182 TIQEGKFHQVKRMFEAREKKVIYLKRLQMGNLVLDESLNEGEYRELTEDEIK 233 >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 = 187 bits (474), Expect = 2e-45, Method: Composition-based stats. Identities = 58/233 (24%), Positives = 100/233 (42%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G SR+EV+++I V VN +E + ++ D +E++G + E Sbjct: 1 MRLDKFLVNQGFGSRKEVQKLIKAGIVYVNNFPVEDPSFHINPEKDVVEIEGQEIEYKEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T+ + I S++ VGRLD++TEGLL++T+DG LA Sbjct: 61 YYFMLNKPKGYITATYDENYPTVMDLFASEPIVSKLFPVGRLDVDTEGLLIITSDGVLAH 120 Query: 133 VLELPSTQWLRVYRVRFH---GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +D K + + +V + + + Sbjct: 121 RLSHPKWNVEKEYFVIVEGDISDIDFSKYEKEGMYLKKEKYKTKPFKVKVLKTSFEESEL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK +KK+ +V L R+ GP L L G RE++K+ + Sbjct: 181 LITITEGKYHIVKKIMYAVGHEVKYLKRVRIGPLILDEDLEVGEYRELTKEEI 233 >gi|317051704|ref|YP_004112820.1| pseudouridine synthase [Desulfurispirillum indicum S5] gi|316946788|gb|ADU66264.1| pseudouridine synthase [Desulfurispirillum indicum S5] Length = 251 Score = 187 bits (474), Expect = 2e-45, Method: Composition-based stats. Identities = 82/243 (33%), Positives = 121/243 (49%), Gaps = 5/243 (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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + EG+NR+I+K+FE + V +L R+S G LG + G R + Sbjct: 183 YEVTITEGRNRQIRKMFEALKYDVRKLKRVSLGEILLGGVGVGKYRRAEAWEIEYFEKLK 242 Query: 249 LLE 251 + Sbjct: 243 REK 245 >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 = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 70/236 (29%), Positives = 118/236 (50%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + Sbjct: 3 ERLQKIIAEAGIASRRKAEKMITAGRVKVDGKVITKLGTKVDTFSNITVDDEPIERESLH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T D D ++ V + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 63 TYLFYKPRGVVSTASDDKDRKTVVDYF-EDVPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + +VY + G + +++ L G+ + +V + ++ V + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPEEIKTLTHGVKLDDFKAAPAKVKVLKTDKRKDTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKNEVDKLMRL 237 >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 = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 73/230 (31%), Positives = 122/230 (53%), Gaps = 2/230 (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 KVYIMLNKPEGYISSVKDEKGRDTILDIVKVN-ERIYPIGRLDYDSSGLLLLTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y G++ + GI I G ++ + + + + +G Sbjct: 122 KIIHPRVEIIKRYVAVVKGEITDKDKMKFEIGIDIGGYITAPAELKVISYDKGVSTIEIG 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+I+K+ + V L RIS G +LG L G R+++K+ L Sbjct: 182 IHEGKNRQIRKMCAAIHHDVLSLKRISIGEIKLGYLKRGEYRKLNKEELD 231 >gi|332359120|gb|EGJ36941.1| ribosomal large subunit pseudouridine synthase B [Streptococcus sanguinis SK49] Length = 242 Score = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 132/240 (55%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +GI I+G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGLANKEVLRPLTRGIEIEGRKTKPAVYEIIKVDPAKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+F+ +V++L R +G L + G R++SKK + + + + Sbjct: 180 TIHEGRNHQVKKMFQAVGLQVDKLSRTRFGHLDLTDIKPGEYRKLSKKEVSQLHTLAVTK 239 >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 = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 142/259 (54%), Positives = 175/259 (67%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + R++KV++RAGIASRRE ERMI RV VNG ++ A+NV D I+VDG Sbjct: 1 MTDTPEKGDRIAKVLSRAGIASRREAERMIEAGRVSVNGKVIPSPALNVTPKDKIKVDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + AE RLWLYHKP+GLVTT D GR TVFDNLP RV+SVGRLDIN+EGLLLLT Sbjct: 61 EVGDAEPARLWLYHKPVGLVTTERDEKGRDTVFDNLPDGLPRVMSVGRLDINSEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGL R LELPST WLR YRVR +G V +D L L+KG+VI G + M +++D Q+GS Sbjct: 121 NDGGLKRKLELPSTGWLRKYRVRVNGIVIEDHLTPLRKGLVIDGEKFQPMNISVDRQQGS 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 NAW+TVG+REGKNREI++ FE VNRLIR+SYGPFQL L A E+ ++LR+QL Sbjct: 181 NAWLTVGIREGKNREIRRAFETIFLPVNRLIRVSYGPFQLNDLRADEVEEIKGRVLRDQL 240 Query: 246 GPHLLEEAQVNLDAPIYSS 264 G + + Sbjct: 241 GLTPETATKKSKKIVKRRR 259 >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 = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 124/343 (36%), Positives = 179/343 (52%), Gaps = 3/343 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K++ARAG+ASRREVERMIA+ R+ +NG ++ A + S D + VDG P+ E TR Sbjct: 6 RIAKLLARAGVASRREVERMIAEGRIALNGTTIDTPATLLSSLDGVTVDGNPVDAPEPTR 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+LY+KP GL+ T DP GR T++D LP R++ VGRLD+NTEGLLLLT DGG R L Sbjct: 66 LFLYNKPNGLLVTERDPKGRPTIYDRLPEGLPRLMPVGRLDLNTEGLLLLTTDGGFKRQL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 ELP+T R YR R +G + Q +L L GI I GI YG + L+ + G+N W+ + LR Sbjct: 126 ELPATGVERTYRARAYGDITQAQLEELIHGIEIDGIRYGQIDANLERRTGANVWIELTLR 185 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLGPHLLE 251 EGKNRE+++V E+ +V+RLIR+ YGPF LG L G EV R+ L + Sbjct: 186 EGKNREVRRVLEYLGLQVSRLIRLRYGPFVLGDLPVGEIGEVKGAAIVEFRKTLLGGIPA 245 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 +A + + D ++ ++ +R A Sbjct: 246 DAVRPSPRAGFRTPPTRAKTDRPDRPAAQDRRPSDGRDRPQSDAKRRAAGPGGDRQRPAA 305 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + +D+ R RS + +++ Sbjct: 306 PRTARSTDRGERPSADAQFRPSGGERSRPTGKRAPRSGDRSER 348 >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 = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 108/233 (46%), 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 + T TV + + S + VGRLD++TEGLLL++NDG L Sbjct: 61 YYILNKPQGYVSATE--DMLYPTVMELIQSQRHDLYPVGRLDVDTEGLLLISNDGKLTHE 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V F G + ++ ++ + + + ++ + + + + Sbjct: 119 VLSPKKHVDKKYYVEFDGTLPENAVDFFNQPMEFEEFTSAPSKLEILDTNKA----YLTI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGK ++K++FE N V L RI +GP +L L G R ++++ L G Sbjct: 175 HEGKFHQVKRMFEKANCTVTYLQRIEFGPLKLNDLPLGEFRALTQEELDALKG 227 >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 = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 74/243 (30%), Positives = 123/243 (50%), Gaps = 3/243 (1%) 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 +++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAAQDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELTPHEVKRLRALADHG 240 Query: 252 EAQ 254 + Sbjct: 241 KNA 243 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 68/278 (24%), Positives = 120/278 (43%), Gaps = 11/278 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ G SRRE ++ IA RV +NG + E V +D +E+DG PL+ Sbjct: 2 SESTRLNKYISDTGFCSRREADKYIADGRVTLNGKIPEV-GTKVTDSDVVEIDGKPLKAK 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + Y+KP+G+ T + + + R+ +GRLD +EGL+ LTN+G + Sbjct: 61 PKAVFIAYNKPVGVTCTTELNIRSNIISAI--NHPERIFPIGRLDRPSEGLIFLTNEGDI 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + G+ I G +VT + S+ Sbjct: 119 VNKILRAGNNHEKEYLVTVDKAISPQFIKKMGAGVPILGTVTKQCKVT----QVSSHGFN 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL----REQLG 246 + L +G NR+I+++ EF ++V L R+ L L +G R ++ K + R G Sbjct: 175 IVLTQGLNRQIRRMCEFLGYEVVTLKRVRIMNIDLTGLRSGQWRNLTDKEMAIINRSIEG 234 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 EE V+ + + + + + R Sbjct: 235 SGKTEELSVDPNKNKNFKKPVKKQFDEPEQTMKTQAVR 272 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 65/236 (27%), Positives = 112/236 (47%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G SR+EV+++I V+VNG ++ ++N+ D I V + + Sbjct: 2 ERIDKILANMGYGSRKEVKKLIKNNLVEVNGEKVKDPSINIDPEKDKILVGDKVVNYRKF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T + D VGRLD +T GLLL+TNDG L Sbjct: 62 IYIMMNKPEGVVSATFDNYDETVIDLLEEEYQVFNPFPVGRLDKDTVGLLLITNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY + +V++ + + GIVI G ++ + + A V V Sbjct: 122 KLISPKWKVDKVYYAEINKEVNEKDIEAFQNGIVISDGYKCMPGKLEIIKSDENGAEVYV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 ++EGK ++K++FE + KV L R+ +G L L G RE++++ L L Sbjct: 182 TIQEGKFHQVKRMFEALDKKVVYLKRVKFGNINLDETLEEGEYRELTEEELENILE 237 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 81/247 (32%), Positives = 126/247 (51%), Gaps = 3/247 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ Sbjct: 2 TTKTERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPI-G 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG Sbjct: 61 KEAKRYFLFYKPRGVISAVQDNKGRDVVTDYFKDITERLYPVGRLDYDTSGLLVMTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW- 188 LA L P + Y + G ++ L LK G+ + G +V + + + Sbjct: 121 LANHLMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTA 180 Query: 189 -VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V++ + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 181 IVSLTIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQALRKL 240 Query: 248 HLLEEAQ 254 E++ Sbjct: 241 AGESESK 247 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 81/247 (32%), Positives = 125/247 (50%), Gaps = 3/247 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ Sbjct: 2 TTKTERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPI-G 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG Sbjct: 61 KEAKRYFLFYKPRGVISAVQDNKGRDVVTDYFKDITERLYPVGRLDYDTSGLLVMTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW- 188 LA L P + Y + G ++ L LK G+ + G +V + + + Sbjct: 121 LANHLMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTA 180 Query: 189 -VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V++ + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 181 IVSLTIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQALRKL 240 Query: 248 HLLEEAQ 254 E + Sbjct: 241 AGESENK 247 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 107/232 (46%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N R++K ++ AG+ SRRE + +I V VNG ++ + D I+ DG + Sbjct: 101 NEDAVRLNKYLSNAGVCSRREADVLIQTGVVSVNGEVITEMGYKIKPGDKIQYDGETINA 160 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + L + T ++ + + + R+ VGRLD +T GLLL TNDG Sbjct: 161 ETKRYVLLNKPKGFITTMDDPLGRKTVMGLVIKACKERIYPVGRLDRDTTGLLLFTNDGD 220 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 +A+ L P + ++Y V V + L L GI ++ + S+ V Sbjct: 221 MAKKLTHPRYEATKIYHVEVDKPVQSEHLEQLMSGIELEDGTIKADKAEYVKDGKSSREV 280 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + GKNR ++++FE ++V +L R+ + L G R +++K + Sbjct: 281 GVEIHSGKNRIVRRMFEKLGYEVVKLDRVQFASLTKKDLPRGYYRHLTEKEV 332 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 112/237 (47%), Gaps = 5/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++ G SR EV++ I V VNG ++++ V D + G PL E Sbjct: 5 MRLDKLLTELGTGSRSEVKKYIRSGLVTVNGEVVKKPEQRVDEKNDTVCFRGNPLTYTEY 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T D R+ + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 65 EYYLFHKPAGCV-TATEDNLHRTVMDYLTDTARHDLFPVGRLDIDTEGLLLITNDGALAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ +VY + G+V ++ +NL + G+ I + + + G N+ + + Sbjct: 124 DLLSPAKHVSKVYYAKIDGRVTEEDVNLFENGVDIGEEKPAKPALLEVLH-SGDNSEIRL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 + EG+ ++K++FE KV L R+ G L L G R ++++ L+E Sbjct: 183 TITEGRFHQVKRMFEAVGKKVTYLKRVEMGSLVLPDELAPGEYRPLTEEELQELRRH 239 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 81/247 (32%), Positives = 126/247 (51%), Gaps = 3/247 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K+IA AGIASRR E +IA VKVNG + + + D +EVDGVP+ Sbjct: 2 TTKTERLQKIIANAGIASRRHAETLIATGHVKVNGQIETEMGIKIGPHDEVEVDGVPI-G 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E R +L++KP G+++ D GR V D I R+ VGRLD +T GLL++TNDG Sbjct: 61 KEAKRYFLFYKPRGVISAVQDNKGRDVVTDYFKDIAERLYPVGRLDYDTSGLLVMTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW- 188 LA L P + Y + G ++ L LK G+ + G +V + + + Sbjct: 121 LANHLMHPRYALEKKYVAKVQGVPNRPALAPLKTGVEVDGKMTAPAKVDIISTDKAKKTA 180 Query: 189 -VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V++ + +G N ++KK+F+ + V +L R +YG L L G R + + L+ Sbjct: 181 IVSLTIHQGMNHQVKKMFKAVGFPVLKLSREAYGNLTLVGLQPGEHRPIKPQELQALRKL 240 Query: 248 HLLEEAQ 254 E++ Sbjct: 241 AGESESK 247 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 137/279 (49%), Positives = 173/279 (62%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++KV++RAG+ASRRE ERMI RVKVNG + A+NV ++D I VDG + Sbjct: 6 TPQGDRIAKVLSRAGVASRREAERMIEAGRVKVNGKPISSPALNVQASDKITVDGKDVSP 65 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E RLWLYHKP GLVTT +D GR T++ LP+ RV+SVGRLDIN+EGLLLLTNDG Sbjct: 66 PEPARLWLYHKPTGLVTTDNDEKGRETIYSALPADLPRVMSVGRLDINSEGLLLLTNDGS 125 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + R LELP+T WLR YRVR +G+ L L++GI +G + MQVTLD Q+G+NAW+ Sbjct: 126 IKRRLELPTTGWLRRYRVRVNGRPTDATLEPLRRGISSEGENFQPMQVTLDRQQGANAWL 185 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNREI++ VNRLIRISYGPFQLG L +G+ EV +K+LR+QLG Sbjct: 186 TMGLREGKNREIRRALAELGLTVNRLIRISYGPFQLGELKSGAVEEVRRKVLRDQLGLEE 245 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 R + K Sbjct: 246 DAGTDPAKRLEAGRKRGPPIRRTRATAGAKPARYAKKPR 284 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 107/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D VGRLD NT GLLL TNDG L Sbjct: 62 IYLMMNKPQGVVSATFDNYDETVIDLLEDEDRIFEPFPVGRLDKNTVGLLLFTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y + + +V + + KKGI++ ++ + + V V Sbjct: 122 RLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEVRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++FE + KV L R +GP +L L G RE++ + + Sbjct: 182 TIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 145/263 (55%), Positives = 177/263 (67%) 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 GPHLLEEAQVNLDAPIYSSETLV 268 G E + + Sbjct: 241 GETSEEAPKKPGKPAPKRTRRRS 263 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 77/236 (32%), Positives = 126/236 (53%), Gaps = 2/236 (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 +L RV VGRLDI+T GL+ LTNDG LA Sbjct: 61 KVYMILNKPIGVVTSASDEKDRPTV-TDLVPDDYRVYPVGRLDIDTTGLVFLTNDGQLAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ P + + Y V G + +L++L++G+ I+ + V + ++ + + Sbjct: 120 IMMHPRYKIGKKYIVTVDGTPNARELSILREGLDIRDLKTSPANVRILKSFKQDSILEIE 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+N ++K++F++ KV +L RIS G QL L G+ R +S+K ++ G Sbjct: 180 IFEGQNHQVKRMFDYIGHKVKKLKRISIGEIQLLDLEPGNYRYLSEKEVKYLKGLK 235 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 85/240 (35%), Positives = 131/240 (54%), Gaps = 3/240 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 + P + +VY R G +D L L KGIVI G + + ++ + + V + Sbjct: 120 MLHPRHEIDKVYVARVKGLASKDNLRPLTKGIVIDGKKTQPARYRIVKTDREKNRSVVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R +G L L +G R ++KK + + + E Sbjct: 180 TIHEGRNHQVKKMFEAVGLMVDKLSRTRFGTLDLSGLNSGEARRLNKKEISQLYNAAVNE 239 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 147/361 (40%), Positives = 193/361 (53%), Gaps = 21/361 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +RV+K +ARAG+ASRREVER+I RV +NG +L AV V D + VDG + + E Sbjct: 34 GERVAKALARAGVASRREVERLIEAGRVAINGKVLTTPAVKVAPGDFLTVDGQLVAEREP 93 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR++ YHKP GL+TTH+DP GR TVF LP R+ISVGRLD+N+EGLLLLTNDG L+R Sbjct: 94 TRIFRYHKPTGLMTTHNDPKGRPTVFGALPKDLPRLISVGRLDLNSEGLLLLTNDGELSR 153 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-----QKGSNA 187 LE PS W+R YR R G Q KL+ LK G+ I+G+ YG ++ LD G N Sbjct: 154 ALETPSNAWVRRYRARAFGDTTQAKLDKLKDGVTIEGVTYGAIEAKLDKAHEKAGGGKNV 213 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TV L EGKNRE++KV E KVNRLIR+SYGPF LGTL AG EV +++RE L Sbjct: 214 WITVSLSEGKNREVRKVLESIGLKVNRLIRLSYGPFALGTLAAGQIEEVGPRVIRELLEG 273 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + E D P ++ + + R + + L +K PV++ Sbjct: 274 VVSPENMPTGDRPKFAGI-ANPTKAPGTEGGGELQRRGAPRADRAVILDTPEKPEKPVYK 332 Query: 308 RNLASNVWMAK--GIHSSFLSDSGQREENHRR-------------SPSFPSKRSLRRTSA 352 A A G + +R P+ K + R A Sbjct: 333 PGWAKPKKKASPHGPPKGAGKGPAKGPAKAKRPAKSIESKFIDIGKPAARGKPAAPRPGA 392 Query: 353 K 353 K Sbjct: 393 K 393 >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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 66/344 (19%), Positives = 125/344 (36%), Gaps = 7/344 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++K I+ +G+ SRRE +R I Q V +N E V D + V+G + E Sbjct: 5 TSTRLNKYISESGMCSRREADRFIEQGNVFINKKRAEV-GDQVNPGDVVRVNGAKIEPPE 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + + + SR+ +GRLD +++GL+ LT++G L Sbjct: 64 AEDLVFIALNKPVGIVSTTEMEEPDNMVSFVNHSSRIFPIGRLDKDSQGLIFLTSNGDLV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + +D +N + G+ + G +V + + + Sbjct: 124 NKILRAGNNHEKEYVVTVDKPLTEDAINTMASGVPMLGTKTKKCKVV----QEAPNVFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP--HL 249 L +G NR+I+++ EF ++V L R+ L L G R++++K + E H Sbjct: 180 FLVQGLNRQIRRMCEFCGYQVTELERVRIMNISLKGLPVGDWRDLTEKEMTELSKMIEHS 239 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 E +++ R S+ +K SQ + + + K Sbjct: 240 SSEDTSKQKPAPAKAKSKGRSNSKSFSKSKAQAAESRKEKSQSSKPASKGKSDGRSRPGE 299 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + K + + P + Sbjct: 300 GKNESGRGKNEGGRGKAPLNRSRSGEGGKGGSPKGNGANKGRPA 343 >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 = 186 bits (473), Expect = 4e-45, Method: Composition-based stats. Identities = 148/344 (43%), Positives = 196/344 (56%), Gaps = 1/344 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K IARAGIASRR+ E MI RV +NG +L A+NV +D I +DG PL Sbjct: 23 PEGERIAKAIARAGIASRRDAEAMIEAGRVSLNGKILTSPAINVTESDRIAIDGEPLPAR 82 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGL Sbjct: 83 ERTRLWLLHKPRGVVTTARDPEGRQTVFDGLPDDLPRVVAIGRLDINTEGLLLLTNDGGL 142 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A+V+ P T WLR YRVR G + Q L+ LKKG+ + G+ YG ++ TLD +G N W+T Sbjct: 143 AKVIAHPDTGWLRRYRVRAFGDITQADLDRLKKGVTVDGMEYGPVEATLDRVQGDNLWLT 202 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L+EQLG L Sbjct: 203 LGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKEQLGKSLA 262 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E+A V+ ++P+ + + G + + R Sbjct: 263 EQAGVDFESPVREAIAPFGSPKKAARAAQSPRAEAPAGRGGRQGAHDEGRSEPRSGARGG 322 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A+ + + + SP+ R A K Sbjct: 323 AAGRPPRDPARPAAPRAGARPAQRA-PSPTVWRADDETRPRASK 365 Score = 35.9 bits (81), Expect = 8.4, Method: Composition-based stats. Identities = 10/128 (7%), Positives = 27/128 (21%), Gaps = 7/128 (5%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 R+ + RE R + R + ++ Sbjct: 436 RQERPERSREDRPRRDAPAGDARPRRREAGEGAAPERRGPPRERRFEGEGRPEGRPPRER 495 Query: 294 GLSKQKK-LATPVHRRNLASNVWM------AKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + ++ RR ++ + + + R +P R Sbjct: 496 SEGRPQRDRGEGAPRRERSAEAGAPERRGPPRDRPRAAEGERPARSPRGADAPERGGFRK 555 Query: 347 LRRTSAKK 354 ++ Sbjct: 556 GPGGRLRR 563 >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 = 186 bits (473), Expect = 4e-45, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 122/230 (53%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKITELGTKVEPSDKIEVNGVPIEKETLH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y ++++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLFYKPRG-VISSVKDDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 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|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 = 186 bits (473), Expect = 4e-45, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 120/230 (52%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEKEALH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + + D GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLFYKPRGVISSVS-DDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 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|322807584|emb|CBZ05159.1| ribosomal small subunit pseudouridine synthase A [Clostridium botulinum H04402 065] Length = 238 Score = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D VGRLD NT GLLLLTNDG L Sbjct: 62 IYLMMNKPQGVVSATFDNYDETVVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y + + +V + + KKGI++ ++ + + V V Sbjct: 122 RLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEVRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++FE + KV L R +GP +L L G RE++ + + Sbjct: 182 TIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >gi|311068833|ref|YP_003973756.1| RluB protein [Bacillus atrophaeus 1942] gi|310869350|gb|ADP32825.1| RluB [Bacillus atrophaeus 1942] Length = 244 Score = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 73/243 (30%), Positives = 122/243 (50%), Gaps = 3/243 (1%) 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 +++ D GR V D I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAADDDKGRKVVTDFFKEIPQRIYPIGRLDYDTSGLLLLTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P Q + Y + G ++ + L++G+ ++ + L + + + + Sbjct: 121 LMHPKYQIDKTYVAKVKGIPSKELVRKLERGVQLEEGKTAPAKAKLLSLDKRKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE +V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVLKLKREEYAFLDLRGLHTGDARELTPHEVKRLRALAEHG 240 Query: 252 EAQ 254 + Sbjct: 241 KNA 243 >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 = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 135/266 (50%), Positives = 175/266 (65%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++KV+ARAG+ASRRE E+MI RV VNG ++ RAA+NV D + VDG P+ Sbjct: 51 TPAGDRIAKVLARAGVASRREAEKMIEMGRVAVNGEIITRAALNVTDKDKVTVDGKPVDA 110 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E R+WLYHKP GLVTT D GR T++D+LP RV+SVGRLD+N+EGLLLLTNDG Sbjct: 111 PEDPRIWLYHKPAGLVTTTKDEQGRPTIYDDLPEELPRVMSVGRLDLNSEGLLLLTNDGS 170 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + R LELPST WLR YRVR +G+ D L L+ GIV+ G + M+VTLD Q+G+NAW+ Sbjct: 171 IKRRLELPSTGWLRKYRVRVNGKPSDDMLAPLRAGIVVDGQAFQPMEVTLDRQQGANAWL 230 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNREI++ VNRLIR+SYGPFQLG L G +EV +++R+QLG Sbjct: 231 TIGLREGKNREIRRAMTDIGLTVNRLIRVSYGPFQLGQLKQGEVQEVRSRVVRDQLGLEG 290 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNII 275 + + + + P Sbjct: 291 AKSNRPQPTRRRKPAPDGAKQSPKRR 316 >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 = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 128/237 (54%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTKPARYNIIRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG++ ++KK+FE V++L R +G L L G R ++KK + + Sbjct: 180 TIHEGRHHQVKKMFESVGLLVDKLSRTRFGTLDLTGLRPGEARRLNKKEVSQLHNAA 236 >gi|312277674|gb|ADQ62331.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 255 Score = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 81/251 (32%), Positives = 131/251 (52%), Gaps = 3/251 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV Sbjct: 4 RKDTAEAVEKRMRINKYIAHAGVASRRKAEELIKEGRVTLNGKTVMELATIVKNGDIVEV 63 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +G P+ E +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL Sbjct: 64 NGSPI-YNEEKVYYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLL 122 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LTNDG + P + +VY R G ++ L L +G+VI G + Sbjct: 123 ILTNDGDFTDKMIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTQPAHYNIIKV 182 Query: 183 K--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + + EG+N ++KK+FE V++L R +G L L G +R +SKK Sbjct: 183 DHEKNRSVVELTIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLSKKE 242 Query: 241 LREQLGPHLLE 251 + + + + Sbjct: 243 ISQLHNIAVNK 253 >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 = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D VGRLD NT GLLLLTNDG L Sbjct: 62 IYLIMNKPQGVVSATFDNYDETVVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y + + +V + + KKGI++ ++ + + V V Sbjct: 122 RLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEVRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++FE + KV L R +GP +L L G RE++ + + Sbjct: 182 TIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >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 = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 105/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ G SR+EV++++ ++V+G ++ +V + + G P+ + Sbjct: 1 MRLDKLLSNMGAGSRKEVKQLLKSGAIQVDGEIVYDPKQHVDTENQQVLLYGEPVTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + P + T D + + VGRLD +TEGLLLLTNDG Sbjct: 61 IYLMMNKPPGVISATEDKRDQTVIDLLFDDVTYFKPFPVGRLDKDTEGLLLLTNDGSFNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY G + ++ + + +G+ ++ ++ + + + + Sbjct: 121 ALMSPKKHVEKVYYAEVIGTLTEEDVEEVAEGVTLEDGYKTKPGKLIILEATDETSTLEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++ +V L R+S G L TL AG RE+++ L Sbjct: 181 TITEGKFHQVKRMMLALGKEVTYLKRLSIGQLPLDPTLEAGEYRELTRGEL 231 >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 = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 86/344 (25%), Positives = 145/344 (42%), Gaps = 9/344 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + +++ KV+AR G+ SRR+VE I+Q R+KVNG + V D I VDG +++ Sbjct: 14 PSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNG-VAATLGQRVDLHDAIAVDGKLIKRE 72 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E R + + T + R I++GRLDINT GLLL T Sbjct: 73 EAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFT 132 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KG 184 DG LA L PS + R Y VR G+VD + + LK G++++ + +G Sbjct: 133 TDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPAKFTDIQKAPGGEG 192 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 N W + EG+NRE+++++E V+RL R+ +GP L L G RE+S+ + + Sbjct: 193 FNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPMGRWREMSQGEI-D 251 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L + + + + + + R + + + + + ++ Sbjct: 252 ILAAEVGLQPVALPALNLKAKDKMERLQRKSSRPLGRGERVRNLRPAHEGAAAGERPARQ 311 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 P N A S + + E + + K Sbjct: 312 PREEAPRKGNRGSAVAERPSEMRKRPAKPEGDKPAGRGRGKPRG 355 >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 = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 66/239 (27%), Positives = 116/239 (48%), Gaps = 2/239 (0%) 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 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + + D F ++ VGRLD + EGLLL+T DG LA Sbjct: 61 YYLVLNKPAGYVTS-TKDRQMTVMELVADIPRFDKLFPVGRLDKDAEGLLLMTTDGELAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y V+ G++ ++ + L++GI ++ +V + + + Sbjct: 120 RLTHPKWKVPKTYVVKVEGRLTEEAVEPLRRGIELKDFKAKPAEVRILRSSEEESEAEIT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EGK ++K++F V L R+++GP +LG L G R ++++ LR LE Sbjct: 180 ITEGKFHQVKRMFAAIGHPVKELKRVAFGPLKLGELPTGEYRHLTEEELRALRKAVKLE 238 >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 = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D VGRLD NT GLLLLTNDG L Sbjct: 62 IYLMMNKPQGVVSATFDNYDETVIDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y + + +V + + KKGI++ ++ + + V V Sbjct: 122 RLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEVRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++FE + KV L R +GP +L L G RE++ + + Sbjct: 182 TIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGEYRELTDEEI 232 >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 = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D VGRLD NT GLLLLTNDG L Sbjct: 62 IYLMMNKPQGVVSATFDNYDETVIDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y + + +V + + KKGI++ ++ + + V V Sbjct: 122 RLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEVRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++FE + KV L R +GP +L L G RE++ + + Sbjct: 182 TIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >gi|46201216|ref|ZP_00208014.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 294 Score = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 149/293 (50%), Positives = 185/293 (63%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R++K +ARAG+ SRRE ER I RV VNG L+ A V D I VDG PL Sbjct: 2 TEEKGERIAKRLARAGLCSRREAERWIEMGRVSVNGKTLDSPACVVGPGDIILVDGTPLS 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E+TRLW YHKP GLVTTH DP+GR TVFD+LP RVISVGRLD+N+EGLLLLTNDG Sbjct: 62 EPEKTRLWRYHKPAGLVTTHKDPEGRPTVFDHLPEGMPRVISVGRLDLNSEGLLLLTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LAR LELPS WLR YRVR HG+V +D L L+ GI I G+ YG + TLD ++G+NAW Sbjct: 122 ELARKLELPSNAWLRRYRVRVHGEVSEDALARLENGITIDGMAYGPISATLDRRQGANAW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 ++V LREGKNREI++V EF W V+RLIR+SYGPFQLGTL G+ EV+ K+LREQ+G Sbjct: 182 LSVSLREGKNREIRRVMEFLGWPVSRLIRVSYGPFQLGTLEEGAADEVAGKVLREQMGEG 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + E R + D K+ +++ Sbjct: 242 KAVLKPRPENKSAGEREKEQRVAAKARKQKLADDKHAASAKKAKSDAHRRRSS 294 >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 = 186 bits (471), Expect = 5e-45, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 112/230 (48%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ GI SRRE +++I +RV +NG L V S D + +DG PL ++ Sbjct: 1 MRINKFISETGICSRREADKLIESKRVTINGQLA-ELGSTVASGDDVRIDGQPLGVKKKD 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T + + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTTELHV--KGNIIDFVNHPERIFPIGRLDKDSQGLILLTNDGDIVNK 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|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 = 186 bits (471), Expect = 5e-45, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 117/237 (49%), Gaps = 2/237 (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 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G++ L + + + Sbjct: 132 DGELSQHVMHPKYEVEKTYVATLEGKISGTVCRRLVTTGVQLDDGWIKLDHCAIIDSSRD 191 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V V L GKNR ++++F + V RL+R GP +LG L GS R +S+ +R Sbjct: 192 HTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKPGSYRVLSQTEVR 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 = 186 bits (471), Expect = 5e-45, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 116/237 (48%), Gaps = 2/237 (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 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G++ L + + + Sbjct: 132 DGELSQHVMHPKYEVEKTYVATLEGKISGTVCRRLVTTGVQLDDGWIKLDHCAIIDASRD 191 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L GS R +S+ +R Sbjct: 192 YTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKPGSYRVLSQTEVR 248 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 63/246 (25%), Positives = 111/246 (45%), Gaps = 5/246 (2%) Query: 1 MKDKNIVQENF----TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK + +E P R++K +A AG+ SRRE + I V VNG ++ ++ Sbjct: 1 MKKRIEYKEENIDPTEPLRLNKFLANAGVCSRREADEFIQAGLVTVNGEVVTELGTKILR 60 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 TD ++ P+ ++ + L + T+ ++ + R+ VGRLD Sbjct: 61 TDEVKFHDAPVTLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDR 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT G+LLLTNDG LA L P +VY V + ++ +++GI ++ Sbjct: 121 NTTGVLLLTNDGDLASKLTHPKFLKKKVYHVHLDKNLTAHDMDQIREGITLEDGEIK-AD 179 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 A V + + GKNR ++++FE ++V +L R+ + L G R + Sbjct: 180 AVEYADDRDKAQVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFL 239 Query: 237 SKKILR 242 ++K + Sbjct: 240 TEKEVD 245 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 70/235 (29%), Positives = 127/235 (54%), Gaps = 3/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + +VKVNG + V S+D +EV+G+ + + Sbjct: 2 SKELERLQKRIANSGYTSRRKAETLITEGKVKVNGQTVTELGTKVKSSDTVEVEGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKMYILFYKPT-QVITSVSDDRGRTVVTDYFKDLETRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 ++ P + Y + G + ++++ L+ GI ++ +V + + Sbjct: 121 FTNLMTHPRYHIQKKYVAKLKGYLMREEVKALENGIELEDGFTQPAQVKVKKQDKDKNIT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE F +V++L RI +G L L AG R ++ ++ Sbjct: 181 LVEITISEGRNRQVRRMFEHFGHQVDKLTRIEFGNLNLKGLNAGEGRVLTPHEVK 235 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 112/231 (48%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + ++VNG +++ + + D I V+G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVRKGLIEVNGEIVKDNGMQIDPEVDKILVNGEEIFYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLMMNKPDGVVSATFDNRDETVIDLLEIEHQVFEPFPVGRLDKDTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + +VY + +V + + K GI + + ++ + S + V + Sbjct: 122 RLISPKWKVDKVYYAKIDKKVTEADIKKFKNGITLDDGYTCKEAKLEILESSDSGSEVMI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++EGK ++K++FE + V L R+ +G QL L G RE++++ + Sbjct: 182 TIQEGKFHQVKRMFEAVDKSVVYLKRVEFGTLQLDEDLEEGEYRELTEEEV 232 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 81/359 (22%), Positives = 137/359 (38%), Gaps = 11/359 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + DH++V+ Sbjct: 87 KRVLAPLAETPKLHKVLAQAGMGSRLEMEQLIMEGRITVNNEPA-HIGQRIQFGDHVKVN 145 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + 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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 266 GGGEGANCWYRVTIAEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWMELDE 325 Query: 239 KILR---EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 ++ + GP S R + NG Sbjct: 326 SDIKSLMQAAGPRSSSAQGNEAGEGGVDVSRREGAEQGPGSRNRRRGARGNGVRNTGNGQ 385 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ--REENHRRSPSFPSKRSLRRTSA 352 P + ++ + + + + + S R Sbjct: 386 RNATVGGAPKSGAGFSQGSGQSRKKQGQTGDRQAGASQPDPMKTAFGYIGADSFTRQRQ 444 >gi|291524779|emb|CBK90366.1| ribosomal small subunit pseudouridine synthase A [Eubacterium rectale DSM 17629] Length = 240 Score = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 114/230 (49%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV+++I ++ +NG + + V + D + V+G ++ Sbjct: 2 IRLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNGRIVKYQRY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + SD + + ++ + VGRLDI+TEGLLL+TNDG L+ Sbjct: 62 EYYLFNKPSGCV-SATSDNVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLITNDGALSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y R G+V D + K+GI I + ++ + + GS + + + Sbjct: 121 ELLSPSKHVAKTYYARIDGEVTWDDIIRFKEGIDIGEERPTKPAEL-VIKKSGSVSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 180 TITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQAE 229 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKFHVNVEEQEVTIHGEIVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LLLTNDG L Sbjct: 61 VYLMMHKPQGVISATEDDNHETVVDLLELEDAIFDPFPVGRLDIDTEGFLLLTNDGKLTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V + + KG+++ ++T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEKDVEEFAKGVILDDGYETKPGELTIL-KSDDVSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 66/231 (28%), Positives = 109/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + V +D I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTESDEILFDGEKINYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + + VGRLD +TEGLLL+TNDG LA Sbjct: 64 IYIMINKPKGVISATYDEVEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y G V++ + +GI+++ + + + V V Sbjct: 124 QLLSPKKNVIKKYYAEILGFVNESDIKAFNEGIILEDGYKTLPANLEILFSSSDVSKVYV 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 184 YIREGKYHQIKRMFESVGKKVIYLKRLAMGSLTLDENLKPGEWRELSEEEL 234 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 74/250 (29%), Positives = 121/250 (48%), Gaps = 3/250 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K + + +R+ KVIA AG+ASRR+ E +I + RV VNG + V V S+D IEV Sbjct: 28 SKIVHEVKDKMERLQKVIAHAGVASRRKAEELIKEGRVTVNGQTVTELGVKVGSSDKIEV 87 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +G+ L + E LY +++ D GR V D + R+ +GRLD +T GL+ Sbjct: 88 NGLKLEREEPVYFMLYKPRG-VISAAEDDKGRKVVTDFFDDVPQRLYPIGRLDYDTSGLI 146 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+TNDG A L P + + Y + G ++ L L+KGI++ + + + Sbjct: 147 LITNDGEFAHKLMHPKYEIDKTYAAKLKGIPSKELLRKLEKGIMLDHKKTAPARAKMLSI 206 Query: 183 KGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V + + EG+NR+++++FE V +L R Y + + G RE+S Sbjct: 207 DKRKQTCIVQLTIHEGRNRQVRRMFEAIGHDVLKLKREHYAFLHIEGMRPGDRRELSPHE 266 Query: 241 LREQLGPHLL 250 ++ Sbjct: 267 VKRLRAIADH 276 >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 = 186 bits (471), Expect = 6e-45, Method: Composition-based stats. Identities = 80/251 (31%), Positives = 131/251 (52%), Gaps = 3/251 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + R++K IA AG+ASRR+ E +I + RV +NG + A V + D +EV Sbjct: 4 RKDTAEAVEKRMRINKYIAHAGVASRRKAEELIKEGRVTLNGKTVMELATIVKNGDIVEV 63 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +G P+ E +L +KP G++++ SD R TV D +P + R+ VGRLD +T GLL Sbjct: 64 NGSPI-YNEEKVYYLLNKPRGVISSVSDEKNRKTVIDLMPHVKERIYPVGRLDWDTTGLL 122 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LTNDG + P + +VY R G ++ L L +G+VI G + Sbjct: 123 ILTNDGDFTDKMIHPRNEIDKVYLARVKGIATKENLRPLTRGVVIDGKKTQPAHYNIIKV 182 Query: 183 K--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + + EG+N ++KK+FE V++L R +G L L G +R ++KK Sbjct: 183 DHEKNRSVVELTIHEGRNHQVKKMFESVGLIVDKLSRTRFGTLDLTGLRPGESRRLNKKE 242 Query: 241 LREQLGPHLLE 251 + + + + Sbjct: 243 ISQLHNIAVNK 253 >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 = 185 bits (470), Expect = 7e-45, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D VGRLD NT GLLLLTNDG L Sbjct: 62 IYLMMNKPQGVVSATFDNYDETIVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y + + +V + + KKGIV+ ++ + + V V Sbjct: 122 RLISPKWHVDKIYYAKINKKVTDEDIEKFKKGIVLDDGYECFPAKLEIIKSFNEESEVRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++FE + KV L R +GP +L L G RE++ + + Sbjct: 182 TIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQYRELTDEEI 232 >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 = 185 bits (470), Expect = 7e-45, 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 ELLEGIVAEENMPKGDKPQF-IGVADPLKAVGTAGGGDMQRRGVPRTNKLTQVSIITPEE 316 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR-RTSAKK 354 + + W + + R + L R +A K Sbjct: 317 PVEEEKFVRKPGWAKPKKKPAIVGREPVRTAKKSIESKMIGPKPLSYRDAAAK 369 Score = 36.3 bits (82), Expect = 7.0, Method: Composition-based stats. Identities = 16/111 (14%), Positives = 22/111 (19%), Gaps = 5/111 (4%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ-----KK 300 P ++ S L R N + + R K Sbjct: 390 KPARPDKPAGQPSGGHTSKPKLGALRANGYKPLTEGPARSAGKPGGARPGGKPSTVKAAG 449 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 P + S MAK G + P S R Sbjct: 450 AGKPGEPGKVWSKPGMAKSAGPRPDGPKGPPRAGGKPGGPRPGGSSAPRGK 500 >gi|330719107|ref|ZP_08313707.1| 16S rRNA uridine-516 pseudouridylate synthase [Leuconostoc fallax KCTC 3537] Length = 252 Score = 185 bits (470), Expect = 7e-45, Method: Composition-based stats. Identities = 86/237 (36%), Positives = 131/237 (55%), Gaps = 2/237 (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 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKG 184 DG +A L P ++ +VY + G ++ L LKKG++I+G +V+++ + Sbjct: 121 DGTIANELMHPKSKVDKVYIAKVKGMATENDLLPLKKGVMIEGHKTQPARVSVESVDKTK 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + EGKN ++K + + V +L R Y L L G R+++ + Sbjct: 181 KTSMVKLIIHEGKNHQVKNMLAKVGFPVEKLKREQYAFLDLVGLQPGEYRKLTNAEV 237 >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 = 185 bits (470), Expect = 7e-45, Method: Composition-based stats. Identities = 70/249 (28%), Positives = 112/249 (44%), Gaps = 10/249 (4%) Query: 1 MKDKNIVQEN---FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M+ ++E R++K ++ AG SRRE +R++ Q VKVNG V Sbjct: 1 MEQNIRLKEKKSADEQIRLNKFLSDAGYCSRREADRLVEQGVVKVNGKTA-VMGQKVTIN 59 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 D I V G + + E L +KP+G+ T + + + RV +GRLD N Sbjct: 60 DSIMVKGKNISREEEQILIALNKPVGIECTTDLNN--PDNIVDFINFDKRVYPIGRLDKN 117 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 ++GL+LLTNDG + + S + Y V V D + + G+ I +V Sbjct: 118 SQGLILLTNDGSIVNNILKGSNYHEKEYVVTVDKPVTDDFIKKMSTGVRILDQVTRPCKV 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T K + L +G NR+I+++ + V +L RI +LG L G R+V+ Sbjct: 178 T----KVKKHVFNIVLTQGLNRQIRRMCGELGYNVQKLKRIRIMNIELGNLPVGQYRKVT 233 Query: 238 KKILREQLG 246 L+E + Sbjct: 234 DSELKELMR 242 >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 = 185 bits (470), Expect = 7e-45, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 111/232 (47%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G SR+E++ ++ + ++++G +++ + V I+V+G + + Sbjct: 2 ERLDKVLSNLGYGSRKEIKALVKKGEIEIDGKVIKDNGLKVDPNKSIIKVNGEKINYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T + D + VGRLD +TEGLL++TNDG L Sbjct: 62 IYIMMNKPAGVVSATFDNYDETVIDLLDYEYTVFDPFPVGRLDKDTEGLLIITNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y +VD+ + +KGI + ++ + + + + V V Sbjct: 122 RLTSPKWHVDKIYYAEIDKRVDEKDVEKFEKGITLDDGYKCLPAKLEILSADENGSEVNV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++K++FE + KV L R+ G L L G RE+++K + Sbjct: 182 IIQEGKFHQVKRMFEARDKKVVYLKRLKMGNISLDNELEEGEYRELTEKEIE 233 >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 = 185 bits (470), Expect = 8e-45, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 113/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 86 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 145 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P++ + + L + T+ + + + + R+ VGRLD NT G Sbjct: 146 TFNEKPVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTG 205 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L PS + ++Y V V + + + G+ ++ Sbjct: 206 VLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIH-ADAISY 264 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 265 ASEDDKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNERE 324 Query: 241 L 241 + Sbjct: 325 V 325 >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 = 185 bits (470), Expect = 8e-45, Method: Composition-based stats. Identities = 77/237 (32%), Positives = 122/237 (51%), Gaps = 3/237 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++ + +R+ KVIA+AGIASRR+ E+MI +V VNG + V +D IEV+GVP Sbjct: 1 MRVSKMAERLQKVIAQAGIASRRKAEKMITAGQVTVNGKKVTELGTKVEPSDKIEVNGVP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + K Y + + D GR TV D + R+ VGRLD +T GLLL+TN Sbjct: 61 IEKEALHTYLFYKPRGVISSVS-DDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKG 184 DG LA L P + +VY + G + +++ L G+ I G ++ + +K Sbjct: 120 DGELANKLMHPRNEVPKVYVAKIKGILSPEEIRSLTHGVRIDGRKSAPAKLKILKTDEKK 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + EG ++K++FE + V +L R Y L +L +G RE++ + + Sbjct: 180 KTQIVQLTIHEGHYHQVKRMFEAVHHFVEKLAREKYAFLTLKSLNSGEYRELTNEEV 236 >gi|312622236|ref|YP_004023849.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] gi|312202703|gb|ADQ46030.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] Length = 240 Score = 185 bits (470), Expect = 8e-45, Method: Composition-based stats. Identities = 75/228 (32%), Positives = 118/228 (51%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A+ G+ASRR+ E +I Q RVKVNG L+ + V D +EVDG + + Sbjct: 5 VRLQKFMAQCGVASRRKCEEIILQGRVKVNGELVNQLGFKVDPEKDVVEVDGKRISPQMQ 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G++++ D GR TV D + + VGRLD +T GL+LLTNDG A Sbjct: 65 KVYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGEFA 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y G + ++ +KG++I G + + NA V + Sbjct: 125 YKVTHPKHDIEKTYIALIKGIPSKKEIERFEKGLLIDGKMTAPAKFKILKLINGNALVEI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EG+NR+I+K+ + KV +L RI+ G QLG L G + ++ Sbjct: 185 KIHEGRNRQIRKMCDQIGHKVLKLKRIAIGKLQLGKLKEGEFVFLDRE 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 = 185 bits (470), Expect = 8e-45, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 107/234 (45%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 QRV KV++ G SR E+++ Q V VNG + + V + D I +G + Sbjct: 3 KKQRVDKVLSNLGYGSRAELKKFCKQGLVFVNGKAVSNPGLQVDTDIDEIVFNGEKINYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + T D + + VGRLD +TEGLL+LTNDG L Sbjct: 63 EFIYLMMNKPDGYISATFDKHDPIVLDLIDDEYLVFEPFPVGRLDKDTEGLLVLTNDGQL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A + P + Y + G+V ++ + K+G+V+ ++ + + + + Sbjct: 123 AHRVLSPKKHVPKTYYAKIDGKVTEEDIEAFKQGVVLDDGYETMPSELVIL-KSDDISEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + EGK ++K++FE V L R+S G +L L G RE++ + ++ Sbjct: 182 ELTIHEGKFHQVKRMFESVGKTVVYLKRLSMGALKLDETLELGEYRELTDEEVK 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 = 185 bits (470), Expect = 8e-45, Method: Composition-based stats. Identities = 68/232 (29%), Positives = 120/232 (51%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K IA+AG+ SRR+ E++I + RVKVNG ++ V + D +E+D ++ ++ Sbjct: 3 ERLQKFIAKAGVTSRRKAEKLILEGRVKVNGEVIRTLGVKIDPEKDIVEIDNKIVKPDKK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + + + R+ + RV VGRLD ++EGLLL TNDG +A Sbjct: 63 IYIALYKPVGYISSLYDPFGRRTIKDLLRDKVPFRVYPVGRLDFDSEGLLLCTNDGEIAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 VL P + +VY V G +++L L++G++++ + + + + Sbjct: 123 VLIHPRYKIPKVYEVLIDGIPKEEELKKLREGVILEEGRTLPAGFEIIWENRRKNISLLK 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G R+I+++ FN+KV L R+ G +LG L G R + +R Sbjct: 183 ITLYQGWKRQIRRMLALFNYKVLNLKRVQIGKIKLGDLKPGEIRFLRDDEIR 234 >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 = 185 bits (470), Expect = 8e-45, Method: Composition-based stats. Identities = 85/243 (34%), Positives = 129/243 (53%), Gaps = 4/243 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K++A+ G+ASRR ERMIA+ RV VNG ++ D I VDG +R+ Sbjct: 2 NEPIRLHKLLAQMGVASRRAAERMIAEGRVSVNGRIVNTPGAMASPEDEIRVDGKLVRQQ 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + R L +KP G+++T D GR TV D L +RV VGRLD ++EGL+LLTNDG L Sbjct: 62 PKMRYILLNKPAGVLSTAKDERGRKTVIDLL-GQSNRVYPVGRLDKDSEGLMLLTNDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A+ + P + Y V G L L +G+ ++ + + ++ + + Sbjct: 121 AQRITHPRYGVHKQYMVEVEGYFSDRSLQDLLQGVELEDGFSKPLDAKIISRSRDKSKLL 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGP 247 + + EG+ R++++ +KV RL R++ GP LG L G RE+S + LR QLG Sbjct: 181 ITMGEGRKRQVRRTLAALGYKVKRLTRVALGPLSLGNLKPGEYRELSDQEAKWLRSQLGL 240 Query: 248 HLL 250 Sbjct: 241 TPE 243 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGTLTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 141/284 (49%), Positives = 178/284 (62%), Gaps = 2/284 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++KV++RAG+ASRRE ERMI RVKVNG + A+NV TD I VDG + Sbjct: 4 EPTPQGDRIAKVLSRAGVASRREAERMIEAGRVKVNGQHISSPALNVQGTDKITVDGKEV 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E RLWLYHKP GLVTT +D GR T++ LP RV+SVGRLDIN+EGLLLLTND Sbjct: 64 SPPEPARLWLYHKPTGLVTTDNDEKGRETIYSALPEDMPRVMSVGRLDINSEGLLLLTND 123 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GG+ R LELP+T WLR YRVR +G+ L+ L++GI +G + MQ+TLD Q+G+NA Sbjct: 124 GGVKRRLELPTTGWLRRYRVRINGRPTDATLDPLRRGISSEGENFQPMQITLDRQQGANA 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TVGLREGKNREI++ + VNRLIRISYGPFQLG L G+ EV +KILR+QLG Sbjct: 184 WLTVGLREGKNREIRRALAELDLSVNRLIRISYGPFQLGELKPGAVEEVRRKILRDQLGL 243 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E + + P + K + Sbjct: 244 EGEVEESAPKHPDAGK--KRGPNVNRTRTAAPGKSFKHTKKPRK 285 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 169/343 (49%), Positives = 217/343 (63%), Gaps = 3/343 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P+R+SK++ARAG+ASRR++ERMI + RV +NG+ L+ +N +D IEVDG+P+R A Sbjct: 50 TKPERISKIMARAGVASRRDIERMIMEGRVSLNGVKLDTPVMNATLSDKIEVDGMPIRGA 109 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGL Sbjct: 110 ERTRLWLYHKPAGLVTTNSDPEGRPTVFDNLPGELPRVLSIGRLDINTEGLLLLTNDGGL 169 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 +RVLELP+T WLR YRVR HG+VDQ L+ LK+GI + G+ YG + TLD +G N W+T Sbjct: 170 SRVLELPTTGWLRRYRVRAHGEVDQAALDKLKEGIAVDGVLYGAIDATLDRTQGHNVWIT 229 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNREIK V +VNRLIRISYGPFQLG L G EV ++LR+QLGP L+ Sbjct: 230 MGLREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGKVLEVRGRMLRDQLGPRLI 289 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E++ N DAPIY + + N P S G + + A R Sbjct: 290 EQSGANFDAPIYDAPVADDEEENTPKRAP---RSEWAKSDAPEGKPRFDRAAGKPEDRRE 346 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + G + + + + R A+ Sbjct: 347 KALGRLDTKRGDKPAGKFGGKPAGKFGAKTRGEEDGEERRPAR 389 Score = 39.0 bits (89), Expect = 1.2, Method: Composition-based stats. Identities = 9/102 (8%), Positives = 23/102 (22%), Gaps = 2/102 (1%) Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR--R 308 + + + + + + + ++ P R Sbjct: 515 ARGGKPFGDRPFRDKPREEGDRPRSDRPRGEKSFGDRTARGEKPFGERPFRDKPREDGDR 574 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + K + G R + + S P +R R Sbjct: 575 PRGDRPFGDKPRGAKSGGKPGGRPASGKPSFGKPGERGERSG 616 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 63/291 (21%), Positives = 119/291 (40%), Gaps = 6/291 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + + Sbjct: 6 SIRLNKYISESGICSRRDADRYIEQGNVFINGKRAAV-GDQVFAGDIVKVNGQLIEPRDE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + + D + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVLIALNKPVGIITTMEDSERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + + G+ + G +V QK ++ + Sbjct: 125 KILRAGNNHEKEYVVTVNKPVTDEFIQGMSAGVPMLGTVTKKCKV----QKEASFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ + F ++V RL R L L G R+++ L E + Sbjct: 181 LVQGLNRQIRRMCKHFGYEVTRLERTRIMNVNLKGLPQGEWRDLTDDELIELFKL-IENS 239 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + A ++ + + + + S ++ S +KK Sbjct: 240 SSEEKSAKKAQTKHVTAKKTGFNEPKNAEKSDGNSASRKRFTQSGRKKKGR 290 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 143/325 (44%), Positives = 190/325 (58%), Gaps = 2/325 (0%) 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 WLTVGLREGKNREIRRAMESIGLSVNRLIRISYGPFQLGPLAPGAVEEVRRRVMRDQLGL 245 Query: 248 HLLEEAQVNLDAPIY--SSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 E + + R + + + + + + P Sbjct: 246 DDAEADAPRPKRSRAGQRTGPETKTRDKVRARTGGKTSGGGRTPDAPVPEAPWETRPKPR 305 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQ 330 + A+ + Sbjct: 306 GKPPGPDGSGKARPRPHVTRRRRKK 330 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 155/343 (45%), Positives = 199/343 (58%), Gaps = 7/343 (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 GLREGKNREIRRVMEALGFVVNRLIRISYGPFQLGALEAGEVQEVRRKVLRDQLGLDQDA 257 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 I + + + P K + + + + P Sbjct: 258 PDLQRSRRIIRNEKIVDETPKRGRPAKPGFKPGAKPSGDRPSYGDRPSFGDKPR------ 311 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 +G SF ++ PSF K R K Sbjct: 312 -FGDKPRGDRPSFGDKPRFGDKPRGDRPSFGDKPRGDRPYGDK 353 Score = 37.1 bits (84), Expect = 4.3, Method: Composition-based stats. Identities = 10/106 (9%), Positives = 18/106 (16%), Gaps = 1/106 (0%) Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 G + D+P D + + G Sbjct: 545 EGDAPRGERKSFGDKPRFGDKPRGDRPSFGDKPRGDRPYGDKPRGDRPYGDKPRGDR-PS 603 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 P + +G S + R P + Sbjct: 604 FGDKPRSFGDKPRFGDKPRGDRPSGDRRPSGAPQGGNRRPPRRDDK 649 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 81/231 (35%), Positives = 123/231 (53%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RV+V+G L+ + V + I VD P+ + Sbjct: 4 ERLQKVIAEAGIASRRKAEKMIVAGRVRVDGKLVTKLGTKVDTFSTITVDDEPIERESLH 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y +V+T D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 64 TYLFYKPRG-VVSTAHDDKGRKTVVDYFDDLPYRLYPVGRLDYDTSGLLLMTNDGKLANL 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + +VY + G ++ D++ LKKG+ + G +V + QK +N V + Sbjct: 123 LMHPKNEVPKVYVAKIEGILEPDQIMTLKKGVKVDGRKCAPAKVKILKTNQKKNNQIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG E+K++F+ V +L R Y L L G RE++++ + Sbjct: 183 TIHEGHYHEVKRMFKAVGHPVEKLSRERYAFLDLHALTYGQYRELTREEVD 233 >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 = 185 bits (469), Expect = 9e-45, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ +V + + G + E Sbjct: 1 MRLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDPKFHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG++++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVSGVVTEEDVKEFAKGVILEDGYETKPGDLTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 71/236 (30%), Positives = 117/236 (49%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + Sbjct: 3 ERLQKVIAEAGIASRRKAEKMIVAGRVKVDGHVVTKLGTKVDTFSNITVDDEPIERESLH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T D ++ V + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 63 TYLFYKPRGVVSTAEDDRGRKTVVDYF-EDLPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P + +VY + G + D++ L +G+ + +V + V + Sbjct: 122 LMHPKNEVAKVYVAKIKGILTPDEIKTLTQGVKLDHFKAAPAKVKVLKTDHKKDTQIVQI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG ++K++F+ V++L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLAREKYAFLTLDSLTSGQYRELSKHEVDKLMQL 237 >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 = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 120/232 (51%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + + Y G + D++ + G+ I+ ++ + + ++ + + Sbjct: 121 KLTHPKHEIDKTYVASVKGIISDDEIRQFETGLKIEDYTTAPAKIRVTKENKEKNYSVCE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++K+ + N V L RIS G L G R +++ ++ Sbjct: 181 ITIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTEDEIK 232 >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 = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 139/268 (51%), Positives = 175/268 (65%), Gaps = 1/268 (0%) Query: 7 VQENFTP-QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E P 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 E + + R Sbjct: 241 GLTEEEAGRTPGPQAKAKPRGKPQRRRK 268 >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 = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 69/286 (24%), Positives = 115/286 (40%), Gaps = 12/286 (4%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 NIV N R++K I+ +G SRRE +++I Q RVK+NG + V D + VDG Sbjct: 15 NIVDNNSE-IRLNKFISDSGFCSRREADKLIEQNRVKINGDIP-ELGTKVQLGDLVLVDG 72 Query: 65 VPLRKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +Y+KPIG+ T + + R+ +GRLD +EG Sbjct: 73 KRINASAQDKLDRIYIVYNKPIGITCTTERHIHGNIINAI--GHKKRIFPIGRLDKPSEG 130 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+ LT+DG + + + Y V + + + +++G+ I +VT+D Sbjct: 131 LIFLTSDGDIVNKILRAENAHDKEYLVTVDKPLSERFVERMQRGVPILDTITKPCKVTVD 190 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 S + L +G NR+I+++ E ++V +L R LG L G R ++ Sbjct: 191 ----SRFIFRIVLTQGLNRQIRRMCEHLGYEVLKLKRTRIMKVGLGNLKPGQWRNLTNIE 246 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 L E A S K Sbjct: 247 LAEINQAVSSSSKTATDPAKPVSKAPQSEAIKKSTGANNSHQPAKK 292 >gi|229169439|ref|ZP_04297147.1| Pseudouridine synthase [Bacillus cereus AH621] gi|228614044|gb|EEK71161.1| Pseudouridine synthase [Bacillus cereus AH621] Length = 248 Score = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 60/237 (25%), Positives = 107/237 (45%), Gaps = 4/237 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPL 67 + R+ K++A G SR+EV++++ VK++G+ ++ A +V + + G + Sbjct: 2 KKVKNMRLDKLLANMGHGSRKEVKKLLKDGVVKIDGVPVKDAKFHVNVEEQEVMIHGEVV 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E L ++ + T D L VGRLDI+TEG LL+TND Sbjct: 62 EYKEFVYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN 186 G L L P + Y G V ++ + KG++++ ++T+ + Sbjct: 122 GKLTHQLLSPKKHVPKKYYAHISGVVTEEDVIEFAKGVILEDGYETKPGELTIL-KSDDI 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 181 SEIELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDEELELGQYRELTDEEVE 237 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 82/243 (33%), Positives = 128/243 (52%), Gaps = 4/243 (1%) 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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L PS + Y G L+ LKKG++++ +V + + Sbjct: 124 LLTHPSHHVPKTYYATVKGVPHGSLLDQLKKGVMLEDGLTAPAEVEYQDIDEEKNMSTIR 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++F+ V +L R+ +G L TL G R ++ ++E Sbjct: 184 ITIYEGRNRQVRRMFDAIKHPVLKLRRVKFGELGLRTLARGQFRHLTPVEVKELRDQARK 243 Query: 251 EEA 253 Sbjct: 244 THK 246 >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 = 184 bits (468), Expect = 1e-44, 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+ +L + R+ +GRLD NT GLLL+TNDG + Sbjct: 63 KVYIALNKPEGYVSTVKDERNRKTIM-DLVEVEERIFPIGRLDYNTSGLLLMTNDGDIYN 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|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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|329667453|gb|AEB93401.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii DPC 6026] Length = 239 Score = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 75/230 (32%), Positives = 119/230 (51%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V +D IEV+GVP+ K Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPSDKIEVNGVPIEKEALH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + D GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLFCKPRGVISSVS-DDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 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|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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 136/344 (39%), Positives = 193/344 (56%) 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 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 + R + + G +K + + + Sbjct: 255 LGVEDGKPPRSERMAPKPGARRPRPEGGEGEERKGFGRQRDFAGAEGDRKPKSFGMKSHR 314 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R E+ R P P + + ++ Sbjct: 315 EEGERKPFARREDGERKPYARREDGDRKPYAPRDGEKKPYARRE 358 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 112/229 (48%), Gaps = 7/229 (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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP+G+ T + + + + +R+ +GRLD +++GL++LTNDG + Sbjct: 60 EYLILNKPVGITCTTERDIEGNII--DFVNHPNRIFPIGRLDKDSDGLIILTNDGDIVNR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + G+ I G + ++ + + L Sbjct: 118 ILRAENNHDKEYIVTVDAPITETFIEGMAGGVDILGTTTKEC----VVEQLESRTFRIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F ++V RL R+ +LG L G R++++ ++ Sbjct: 174 TQGLNRQIRRMCKEFGYRVKRLQRVRIMNIELGDLPIGEWRDLTESEMK 222 >gi|302333165|gb|ADL23358.1| ribosomal large subunit pseudouridine synthase B, RluB [Staphylococcus aureus subsp. aureus JKD6159] Length = 245 Score = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 129/243 (53%), Gaps = 3/243 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + Sbjct: 2 TKELERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIEL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 -EDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNA 187 ++ P Q + Y + G + ++++ L+KGI ++ + V + + Sbjct: 121 FTNLMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVKVMRHL 240 Query: 248 HLL 250 Sbjct: 241 AEH 243 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 73/235 (31%), Positives = 119/235 (50%), Gaps = 1/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+ R+++++ + + L R G + L G R +S++ + G Sbjct: 183 IHEGRKRQVRRMCDSIGHPIIELKRTQIGDISIKGLKPGEWRLLSQREIDYIKGL 237 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 77/240 (32%), Positives = 121/240 (50%) 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + L GKNR ++++ V+ L R L L G R + K L Sbjct: 216 IVQLTLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAALQEM 275 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 71/230 (30%), Positives = 120/230 (52%), Gaps = 2/230 (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 +L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKT-ILDLVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKISKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKNDLKLGEWRYLTKKEID 231 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMLHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGEYRELTDEEVE 231 >gi|312127407|ref|YP_003992281.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] gi|311777426|gb|ADQ06912.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] Length = 240 Score = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 74/230 (32%), Positives = 118/230 (51%), Gaps = 2/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K +A+ G+ASRR+ E +I Q RVKVNG L+ + V D +EVDG + Sbjct: 3 ELVRLQKFMAQCGVASRRKCEEIILQGRVKVNGKLVNQLGFKVDPEKDVVEVDGKRISLQ 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGG 129 + + +KP G++++ D GR TV D + + VGRLD +T GL+LLTNDG Sbjct: 63 RQKVYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVNVRVFPVGRLDFDTTGLILLTNDGE 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + Y G ++++ +KG++I G + + NA V Sbjct: 123 FAYKVTHPKHDIEKTYIALIKGIPSKEEIERFEKGLLIDGKMTAPAKFKILKLINGNALV 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + EG+NR+I+K+ + KV +L R++ G QLG L G + + Sbjct: 183 EIKIHEGRNRQIRKMCDQIGHKVLKLKRVAIGKLQLGKLKEGKFVFLDRD 232 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 120/237 (50%), Gaps = 2/237 (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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 220 TTMVKIVLHSGKNRIVRRIFGAVGFPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVR 276 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGIPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 85/257 (33%), Positives = 131/257 (50%), Gaps = 2/257 (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 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+LTNDG LA +L PS + Y + G V + L KGI + + Sbjct: 121 GLLILTNDGELAHILAHPSFGVSKTYIAKVEGIVSAQTIAKLTKGIELDDGPIVADKARA 180 Query: 180 DTQ-KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + G+ V + L G+N ++++ + V L+R +GP LG+L G TR+++K Sbjct: 181 LGRASGNETMVEITLHSGRNHIVRRMLDAVGHPVIDLVRRQFGPLTLGSLPVGRTRDLTK 240 Query: 239 KILREQLGPHLLEEAQV 255 L L E Q Sbjct: 241 AELGAVLTIARNAEEQS 257 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 129/243 (53%), Gaps = 3/243 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + Sbjct: 2 TKELERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIEL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 -EDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNA 187 ++ P Q + Y + G + ++++ L+KGI ++ + V + + Sbjct: 121 FTNLMTHPRYQIKKKYVAKLKGYIMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVKVMRHL 240 Query: 248 HLL 250 Sbjct: 241 AEH 243 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 129/243 (53%), Gaps = 3/243 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + Sbjct: 2 TKELERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIEL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 -EDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNA 187 ++ P Q + Y + G + ++++ L+KGI ++ + V + + Sbjct: 121 FTNLMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVKVMRHL 240 Query: 248 HLL 250 Sbjct: 241 AEH 243 >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 = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 65/335 (19%), Positives = 122/335 (36%), Gaps = 16/335 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +G+ SRRE ++ I Q V +NG V D + ++G + Sbjct: 2 TEKIRLNKFISDSGVCSRREADKYIEQGHVFINGRRATV-GAQVSKHDKVTLNGNLIEAK 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + + G + R+ +GRLD ++GL+ LTN+G + Sbjct: 61 EGTDFAFIAFNKPVGIISTTEIGVKDSIIDYIGYHERIFPIGRLDKESQGLIFLTNNGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y V + + + + + G+ I G V K S Sbjct: 121 VNKILRAGNKHEKEYLVTVNKPITDEFILKMGNGVPILGEMTKKCSVI----KESVFSFR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+F ++V +L RI L + G R++ + + E + Sbjct: 177 IVLIQGLNRQIRRMCEYFEYEVVKLERIRIMNIGLKGIPLGEWRQLEAEEMNEIMMAIKD 236 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 + + S+ ++ + P ++ K N K K+L Sbjct: 237 SSSTAKPKSNGGESKIQHQEPRRKTMDRPMSGSKPSKTDRTSNPNPKSKELRG------- 289 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 A R+ P KR Sbjct: 290 ----GYAGQAGKKTNPSRSASNAKGNRTSGKPGKR 320 >gi|291528900|emb|CBK94486.1| ribosomal small subunit pseudouridine synthase A [Eubacterium rectale M104/1] Length = 240 Score = 184 bits (467), Expect = 1e-44, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 114/230 (49%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV+++I ++ +NG + + V + D + V+G ++ Sbjct: 2 IRLDKFLSEMGLGTRSEVKKLIKTGQIAINGTVAAKPETKVDTDADEVSVNGRIVKYQRY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + SD + + ++ + VGRLDI+TEGLLL+TNDG L+ Sbjct: 62 EYYLFNKPSGCV-SATSDNVHDTVMDYITDAVHDDLFPVGRLDIDTEGLLLITNDGALSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y R G+V D + K+GI I + ++ + + GS + + + Sbjct: 121 ELLSPSKHVAKTYYARIDGEVTLDDIIRFKEGIDIGEERPTKPAEL-VIKKSGSVSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 + EGK ++K++FE +V L RIS GP +L L G+ R +++ Sbjct: 180 TITEGKFHQVKRMFEALGKRVIYLKRISMGPLKLPDDLKTGTYRALTQAE 229 >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 = 184 bits (467), Expect = 1e-44, Method: Composition-based stats. Identities = 136/267 (50%), Positives = 171/267 (64%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++KV++RAGIASRRE ERMI + RV VNG + A+NV D I VDG PL Sbjct: 16 TDTPPGDRIAKVLSRAGIASRREAERMIEEGRVTVNGETIASPALNVTDKDRITVDGKPL 75 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E R+W+YHKP GLVTT D GR T+FD LP RV++VGRLD+N+EGLLLLTND Sbjct: 76 EAPEAPRMWMYHKPAGLVTTTKDEQGRETIFDKLPEDLPRVMTVGRLDLNSEGLLLLTND 135 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GG+ R LELPST WLR YRVR +G+ ++ L L+ GI + G + MQV LD Q+GSNA Sbjct: 136 GGIKRKLELPSTGWLRRYRVRVNGKPTEEMLKPLRDGITVDGQTFQPMQVELDRQQGSNA 195 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+TVGLREGKNREI++ VNRLIRISYGPFQLG + G E+ +I+R+QLG Sbjct: 196 WLTVGLREGKNREIRRAMSDIGLTVNRLIRISYGPFQLGQMKVGEVVELRGRIVRDQLGL 255 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNI 274 + + + R Sbjct: 256 EGAKTTRPEPSRRRKPRPIPDKSRRTR 282 >gi|298694777|gb|ADI97999.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus ED133] Length = 245 Score = 184 bits (467), Expect = 1e-44, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 129/243 (53%), Gaps = 3/243 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + Sbjct: 2 TKELERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIEL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 -EDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNA 187 ++ P Q + Y + G + ++++ L+KGI ++ + V + + Sbjct: 121 FTNLMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLSRIDYGPLNVVGLNAGEGRVLTPHEVKVMRHL 240 Query: 248 HLL 250 Sbjct: 241 AEH 243 >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 = 184 bits (467), Expect = 1e-44, Method: Composition-based stats. Identities = 90/235 (38%), Positives = 136/235 (57%), Gaps = 2/235 (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 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 +A L P ++ +VY + G +KL LK G+VI+G +VT++ + Sbjct: 122 VANQLMHPKSRVDKVYVAKVEGIATDEKLAPLKHGVVIKGRKTAPARVTIERVDKDKKTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V + EG+N +IK + + + V +L R Y F L L +G R+++ +R Sbjct: 182 MVRVIIHEGRNHQIKNMLQKVHLPVVKLTREQYAFFDLIGLQSGEYRKLTGAEVR 236 >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 = 184 bits (467), Expect = 1e-44, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 119/230 (51%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AG+ASRR+ E+MI+ +V VNG + V D IEV+GVP+ K Sbjct: 3 ERLQKVIAQAGVASRRKAEKMISAGQVTVNGKKVTELGTKVEPRDKIEVNGVPIEKEALH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + + D GR TV D + R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLFYKPRGVISSVS-DDKGRKTVVDFFEDVPYRLYPVGRLDYDTSGLLLMTNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 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|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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 75/230 (32%), Positives = 119/230 (51%), Gaps = 2/230 (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 +L + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KVYIILNKPEGYITSAKDEKGRKTV-LDLVKVNERIYPIGRLDYDSSGLILLTNDGDVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G+V + +++ KGI I G + + + + V V Sbjct: 122 KIIHPREELNKKYIAVVKGKVSKKDIDIFNKGIDIGGYITAPASLEVLSYANEKSTVEVC 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+I+K+ N +V L R+S G QL L G RE++ + L Sbjct: 182 IHEGKNRQIRKMCTAINHEVLSLNRVSIGEIQLKYLKKGEWRELTTEELD 231 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 75/232 (32%), Positives = 118/232 (50%), Gaps = 4/232 (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 KVYIMLNKPEDVITSVKDEKDRKTVIDIVKVN-ERIFPIGRLDYDSSGLILLTNDGELYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P + + Y G+V D + GI I G ++ + + + Sbjct: 122 KIIHPRVELDKKYVAVVKGEVSLDDKEKFESGIDIGGYITAPAKLKMLEYSHRKDLSTIE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + EGKNR+I+K+ N +V L R+S G +LG L G R ++ + ++ Sbjct: 182 VCIHEGKNRQIRKMCSAINHEVISLKRVSIGNIRLGQLKKGEYRYLNDEEMK 233 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 106/237 (44%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G +R E+++M Q V VNG +++ ++ D + ++G +R E Sbjct: 1 MRLDKMLSNLGYGTRSEIKKMCRQGMVTVNGQEVKKPDHHIDPDQDQVCLNGQAVRYREY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T+ D + + VGRLD +TEGLL++TNDG L+ Sbjct: 61 IYLMMNKPAGCVSATYDKYDQTVIDLIDPEYLAFEPFPVGRLDKDTEGLLVITNDGQLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS-----N 186 + P ++Y +V + KG+ I ++ + + + Sbjct: 121 RVLSPKKHVPKIYYAEIDHEVLARDIEAFSKGVYIGDDYTTKPAKLEVIKSFEAEDGAIH 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + V + EGK ++K++FE V L RI G +L L G RE++++ + Sbjct: 181 SEIYVTISEGKFHQVKRMFEAVGKSVLYLKRIQMGGLKLDESLGLGEYRELTEEEID 237 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 73/250 (29%), Positives = 122/250 (48%), Gaps = 3/250 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K + + +R+ KVIA AG+ASRR+ E +I + RV VNG + V V S+D IEV Sbjct: 37 SKIVHEVKDKMERLQKVIAHAGVASRRKAEELIKEGRVTVNGQTVTELGVKVGSSDKIEV 96 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +G+ L + E LY +++ D GR V D + R+ +GRLD +T GL+ Sbjct: 97 NGLKLEREEPVYFMLYKPRG-VISAAEDDKGRKVVTDFFDDVPQRLYPIGRLDYDTSGLI 155 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+TNDG A L P + + Y + G ++ L L+KGI++ + + + Sbjct: 156 LITNDGEFAHKLMHPKYEIDKTYAAKLKGIPSKELLRKLEKGIMLDHKKTARARAKMLSI 215 Query: 183 KGSN--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + EG+NR+++++FE V +L R Y + + G RE++ Sbjct: 216 DKRKQTSIVQLTIHEGRNRQVRRMFEAIGHDVLKLKREQYAFLHIEGMRPGDRRELTPHE 275 Query: 241 LREQLGPHLL 250 ++ Sbjct: 276 VKRLRAIADH 285 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 153/376 (40%), Positives = 209/376 (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 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK------------ 299 A + + E + +K + K + + Sbjct: 268 AAGADFTGLLVERELEEAPPRVALRPAGKRQAAAEKGGTLKAPARRSRQDEDFDAPVEDV 327 Query: 300 -KLATPVHRRNLA---------------------SNVWMAKGIHSSFLSDSGQREENHRR 337 + A P RR ++ V K + + +G R + Sbjct: 328 IRPAGPRTRRRMSDENAVESRGSVADRKGRTVKVERVVAPKADAPTRGARTGARPGARKS 387 Query: 338 SPSFPSKRSLRRTSAK 353 R RR A+ Sbjct: 388 DRDEAGARPFRRGPAE 403 Score = 37.9 bits (86), Expect = 2.3, Method: Composition-based stats. Identities = 9/101 (8%), Positives = 22/101 (21%), Gaps = 4/101 (3%) Query: 258 DAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMA 317 D P P + + + ++ P + A Sbjct: 445 DRPRRPRPETADGAPRRGRDERPQQGERPFRTRSERPDRTSEQEGRPARGGSRPYGDKPA 504 Query: 318 KGIHSSFLSDSGQREE----NHRRSPSFPSKRSLRRTSAKK 354 + +G + ++ K + R S + Sbjct: 505 GRARPTGDRPAGAGRAYGEKSEGSGRAYGDKPARSRPSGDR 545 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG++++ ++T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHISGVVTEEDVIEFAKGVILEDGYETKPGELTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDEELELGQYRELTDEEVE 231 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 61/246 (24%), Positives = 111/246 (45%), Gaps = 8/246 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL- 67 + R++K ++ G SRR +++I Q RV +NG + ++ TD + VDG + Sbjct: 2 KEIQATRINKYLSEVGYCSRRAADKLIDQGRVTINGKIP-EMGTKIIPTDEVRVDGELIS 60 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E ++KP+G+V T + + D + R+ +GRLD +EGL+ LTND Sbjct: 61 ESKEDFVYLAFNKPVGIVCTTDTRVEKDNIIDYINYPK-RIFPIGRLDKPSEGLIFLTND 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V+ + D ++ + GI I + +K S Sbjct: 120 GDIVNKILRARNHHEKEYIVKVDNIITDDFVHQMSNGIPILDTITRKCK----VEKLSKY 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+ + V +L R+ L + G+ RE +K+ L+E Sbjct: 176 EFRIILTQGLNRQIRRMTEYLGYNVVKLKRVRIMNISL-DMPVGTYREFTKEELKEINRL 234 Query: 248 HLLEEA 253 Sbjct: 235 VSTSAK 240 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMLHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDVSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGEYRELTDEEVE 231 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 81/241 (33%), Positives = 122/241 (50%), Gaps = 4/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++RAGIASRR+ E +I Q RV VNG ++ R + D ++VDG P+ + E Sbjct: 1 MRLQKFMSRAGIASRRKSEELIQQGRVTVNGQVITRLGTKINPDTDTVKVDGEPITQEES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +T+ DP GR TV +L + RV VGRLD ++ GL+LLTNDG LA Sbjct: 61 NVYIMLNKPKDYITSKDDPQGRKTVM-DLIQVKERVYPVGRLDYDSRGLVLLTNDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ QDKL+ L GI ++ V + N + + Sbjct: 120 RLMHPKYNIPKTYMVKVDKLPLQDKLDNLVNGIYLEEGLCKADHVEIL--DTKNNILKII 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EG+ R+I+++ +V L R S G L L G+ R+++K + L + Sbjct: 178 LSEGRKRQIRRMLASLGIEVKDLKRDSLGTLTLKDLSEGNYRKLTKDEIDNIKKLAGLTD 237 Query: 253 A 253 Sbjct: 238 N 238 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 71/230 (30%), Positives = 120/230 (52%), Gaps = 2/230 (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 +L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKT-ILDLVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKISKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKNDLKLGEWRYLTKKEID 231 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 82/235 (34%), Positives = 132/235 (56%), Gaps = 2/235 (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 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 +A L P T+ + Y + G ++KL LK+G+V++G +V+++ + + + Sbjct: 122 VANQLMHPKTKVDKTYVAKVEGIATEEKLAPLKRGVVLKGRKTAPARVSIERIEPTKRTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+N ++K + V +L R Y F + L G R+++ ++ Sbjct: 182 MVRLTIHEGRNHQVKNMLAKVGLPVQKLKREQYAFFDVTGLQPGEYRKLTSVEIK 236 >gi|324328601|gb|ADY23861.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 242 Score = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 107/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L RI GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRIEMGPLVLDEELELGQYRELTDEEVE 231 >gi|121533339|ref|ZP_01665167.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] gi|121307898|gb|EAX48812.1| pseudouridine synthase [Thermosinus carboxydivorans Nor1] Length = 245 Score = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 72/233 (30%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ KV+A G SRRE+++M+ +RV VNG ++ ++V D IEVDG P+ Sbjct: 5 ERQRLDKVLAHLGYGSRREIKKMVKAERVIVNGAVVRDPELHVFPWQDRIEVDGEPIHYR 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + L T VGRLD +TEGLLLLTNDG L Sbjct: 65 EYIYLMMNKPQGVLSATEDAAGKVVVDLLRPEHKAFAPFPVGRLDKDTEGLLLLTNDGQL 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P + Y R G V + + GI + ++T+ G + V Sbjct: 125 AHRLLAPKKHVPKRYYARVKGVVTDEDKGAFQAGITLDDGYRTLPAELTILHA-GPVSEV 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EGK ++K++F V L R++ G L L G RE++ L Sbjct: 184 ELVIYEGKFHQVKRMFAARGKTVTYLKRLAMGALVLDEKLAPGEYRELTADEL 236 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 72/233 (30%), Positives = 115/233 (49%), Gaps = 4/233 (1%) 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 + T + GR TV D I R+ ++GRLD NTEGLLL+TNDG LA Sbjct: 62 HYYLFNKPKGVITTCSDE-QGRPTVLDYFKRIKDRIYAIGRLDQNTEGLLLMTNDGELAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 +L P + Y V+ G + L L G+++ V + Sbjct: 121 ILMHPGHMVDKTYEVKIKGHIADAVLQQLADGVLLSDGMTAPADVYYVGYDTHTGITSLE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EGKNR+++++ E F ++V+ L R+ Y L + G+ R ++++ + E Sbjct: 181 ITIHEGKNRQVRRMMEHFGYQVHNLRRVQYAFLTLSGVKRGAYRALTREEVME 233 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 81/251 (32%), Positives = 131/251 (52%), Gaps = 4/251 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ KVIA AG+ASRR+ E +IA V +NG +++ + V ST HIEVDGVPL E+ Sbjct: 2 ERLQKVIANAGVASRRKAETLIATGHVTLNGKVVKEMGIKVDSTSAHIEVDGVPLT-REK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +++ +D R V + L I RV +GRLD +T GLLLLTNDG A Sbjct: 61 KVYYALYKPRQVISAVTDDKKRRVVTEYLEDIQERVYPIGRLDYDTSGLLLLTNDGDFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 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 EEAQVNLDAPI 261 E + + P Sbjct: 241 NEKPKHKNRPK 251 >gi|229163701|ref|ZP_04291648.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228619763|gb|EEK76642.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 242 Score = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGVLTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 62/238 (26%), Positives = 107/238 (44%), Gaps = 2/238 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 65 + + R+ K +A+ G+ASRR+ E +I V VNG +++ + + D + V G Sbjct: 1 MANSGDLIRLHKYMAQCGVASRRKSEELIKSGAVSVNGHVVKDMGILIDPQKDEVRVYGR 60 Query: 66 PLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 +R + + + + T + + + R+ VGRLD +T GL+LL Sbjct: 61 IIRLKSDMIYIAVNKPRGYVSTVKDQFGRPTVLDLVPVADEYRLYPVGRLDYDTTGLILL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L L P + ++Y G D + + G+V++G L Sbjct: 121 TNDGDLTYRLTHPKHEIEKIYVAGLRGIPDNQDIFRFEHGLVLEGRLTAPAGFELIKADQ 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V + LREG+NR+I+K+ + V L R + G +L L G R ++ K + Sbjct: 181 RLSVVKITLREGRNRQIRKMCDMIGHPVIWLRREAIGEVELCGLQPGQWRYLTPKEIE 238 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 116/233 (49%), Gaps = 4/233 (1%) 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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T + + + + R+ +GRLD NT GLLL+TNDG L + Sbjct: 62 YFLLNKPNGFLSTAKDKKNRPTVLDLIEEASIQRLYPIGRLDFNTTGLLLITNDGDLTQK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----KGSNAWV 189 L PS + Y V+ + + + L+ KGI+I + + + W+ Sbjct: 122 LTHPSFCIPKEYHVKINACLQKKDLSTFCKGIIIDKKYLAVCKEIDILKISYMPKPSTWL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EGKNR+++K+ + ++V +L R Y + L G+ R + ++ Sbjct: 182 KLVITEGKNRQVRKMMQALGYQVLKLKRYRYSFLTIENLTIGAYRPLKIHEIK 234 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 119/237 (50%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA G+ASRR+ E +IA +V+VNG + V V D + VDG L + Sbjct: 2 ERLQKFIASCGVASRRKAEELIASGKVRVNGRKVTELGVKVDPMKDKVMVDGQLLAVEKP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + D + + R+ +GRLD++TEGLLLLTNDG LA+ Sbjct: 62 VYYLMNKPKGVITSVTDPQGRETV-MDYIKNEKRRIYPIGRLDLHTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V+ L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVNDTDLQVIADGVPLEDGVTAPATLVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG+NR+++++FE F ++++ L RI+YG L + G R+++++ + Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYGGLTLSGVKRGGVRQLTQREVSALKAL 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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 74/228 (32%), Positives = 118/228 (51%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A+ G+ASRR+ E +I Q RVKVNG + + + D +EVDG + Sbjct: 1 MRLQKFMAQCGVASRRKCEEIIQQGRVKVNGKTVNQLGFKIDPEKDIVEVDGERISLQSH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G++++ D GR TV D + + 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|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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 67/335 (20%), Positives = 125/335 (37%), Gaps = 5/335 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N T R++K I+ +G+ SRR+ +R I Q V +NG + V+ D ++V+G + Sbjct: 3 NRTSTRLNKYISESGMCSRRDADRFIEQGNVHINGRRAQV-GDQVLPGDVVKVNGQVVEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + R+ +GRLD +++GL+ LT++G Sbjct: 62 RDEEDLVFIALNKPVGIVSTTDSAEKDNIQRFVGHSERIFPIGRLDKDSQGLIFLTSNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V V ++ + + G+ I G +V +K S Sbjct: 122 LVNKILRAGNNHEKEYLVTVDKPVTREFVEGMSNGVPILGTMTKRCKV----EKVSRFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V RL R+ L L G+ R++++K L Sbjct: 178 RITLVQGLNRQIRRMAEYFGYEVARLERVRIMNVSLQGLPVGAWRDLTEKELAVLFDAIR 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 ++ A + R K + +K + +R Sbjct: 238 DSSSEATEPAGSKPRKKPAGARGARPGPGGKPARAGAKAGGKSPAGKGRKGPGSGPGKRP 297 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 K S + R PS + Sbjct: 298 SGKPGGGPKPGGRGPGSKGKPSKPGKPRKPSIKKR 332 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 68/231 (29%), Positives = 109/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A G +R+EV+ ++ + V++NG+ + + V V + D I+V+G + + Sbjct: 2 ERLDKVLANLGYGTRKEVKVLVKKGAVEINGVQAKNSDVKVDTNEDIIKVNGETINYRKF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLMMNKPAGVVSATFDNYDETVIDLLDPEEQIFEPFPVGRLDKDTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY VD + +KGIV+ ++ + + V V Sbjct: 122 KLISPKYHVDKVYYAEIDKPVDDKDVKCFEKGIVLDDGYKTMPGKLEILKATEHGSEVYV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++EGK ++K++FE KV L RIS+G L L G RE+S+ L Sbjct: 182 TIQEGKFHQVKRMFESLGKKVVFLKRISFGGIILDEDLEEGQYREISEDEL 232 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 79/232 (34%), Positives = 116/232 (50%), Gaps = 4/232 (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 + + V D L I RV VGRLD +T GLLLLTNDG LA Sbjct: 62 VYLLLYKPTGVITSVTDPQGR-RVVIDLLKGIQERVYPVGRLDYDTSGLLLLTNDGELAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L PS + +VYR G +K+ L GI ++ Q L + S A V Sbjct: 121 RLAHPSYEIDKVYRAWVKGIPSPEKVRKLATGIRLEDGMTSPGQSKLLKAESSSQRALVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++++ E V L RI G L L G R+++ + + Sbjct: 181 LTIHEGRNRQVRRMCEAIGHPVLTLERIRLGFLTLDGLKPGEFRKLTHEEVE 232 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 70/230 (30%), Positives = 119/230 (51%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKDRKT-ILDLVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYLTAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L G R ++ K + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTNKEID 231 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 131/315 (41%), Positives = 184/315 (58%), Gaps = 6/315 (1%) 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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 +QLG E+ +++ +R +P++ + +S Q + K Sbjct: 244 SDQLGLTDPEDDG------HATAKPRLRAKPSMKRSGGGRYKGKTSSSQQDDKRGKDAHN 297 Query: 302 ATPVHRRNLASNVWM 316 P R + Sbjct: 298 RGPSSRHKTGQSGRR 312 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 74/235 (31%), Positives = 118/235 (50%), Gaps = 2/235 (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 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y V G + + L + + + Q ++ Sbjct: 136 ELSQHVMHPRYEVAKTYVVTLDGHLSGNVCRRLVRTGVQLDDGWIKLDQCSIIDANRETT 195 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L GS R +S +R Sbjct: 196 IVKVVLHSGKNRIVRRIFGAIGFPVRRLVRTQIGPIKLGDLKPGSYRVLSDAEVR 250 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 87/229 (37%), Positives = 132/229 (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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+ R+I+K+ E V RLIRI+ +LG L G R ++K+ + Sbjct: 183 HEGRKRQIRKMLERVGHPVIRLIRIAIDGVKLGDLKPGQLRPLTKEEIE 231 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 114/238 (47%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V VNG ++ V +D + VDGVP+++ Sbjct: 2 ERLQKVMAEAGVASRRASEKLIAAGHVAVNGQVVTELGTKVTKSDQVTVDGVPIKREPLK 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLAR 132 L + T H D R+ V VGRLD +T G+LLLTNDG LA Sbjct: 62 YYLLNKPRGVVSTAHDDKGRRTVVDILKDDDVEERVYPVGRLDYDTTGILLLTNDGALAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L P + + Y + G + L L++G+++ G + + L + + V Sbjct: 122 KLMHPKFEVEKTYIAKVKGVLSNHDLQKLRQGVIVDGRKTREAKSKLLEVADNRQSSRVR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGP 247 + + EG ++K++ + V +L R SYGP L L + G RE+ +++ Sbjct: 182 LTIHEGHYHQVKRMLKAVGHPVIKLHRESYGPLNLYGLASGGQWRELKPNEVKQLKNL 239 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 64/298 (21%), Positives = 122/298 (40%), Gaps = 7/298 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N ++K I+ +G+ SRRE E+ I + R+ +NG + V D ++ DG + Sbjct: 5 NQQSINLNKYISSSGVCSRREAEKFIKEGRITINGK-ATQLGNRVGKKDVVKFDGRLVEP 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 T +KP+G+V+T + + + R+ +GRLD +EGL+ LTNDG Sbjct: 64 KNVTLYIALNKPVGIVSTTDERE--PHNIVKHVNYPERLFPIGRLDKPSEGLIFLTNDGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + D + + GI I G +V +K S+ Sbjct: 122 IVNKILRAGNNHEKEYFVSVDKSITNDFITSMGNGIPILGTMTKRCKV----EKVSDKIF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+ +++V +L R LG L +G RE++++ +++ Sbjct: 178 KIVLTQGLNRQIRRMCEYLDYEVTKLKRTRIMNVDLGYLQSGDWRELTEEEMKDINKMIA 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + R ++ + S + R Sbjct: 238 TSSKTEEASSIEEKPKQARPKRNKAPTKNDFNKKSASFRKSSPKSKRSNTSFSAKKKR 295 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 68/243 (27%), Positives = 113/243 (46%), Gaps = 9/243 (3%) Query: 7 VQENFT---PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + +N R++K ++ AGI SRRE +R+I +V V+G + V ++ I V+ Sbjct: 1 MNDNAKTDNGIRLNKYLSEAGICSRREADRLIEDGKVTVDGRTA-SMGMKVFTSQEITVN 59 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G + ER L +KP G+V T SD D + + L R+ VGRLD ++EGLLL Sbjct: 60 GKRVEGKERPVLLAVNKPRGIVCTTSDKDRAENIVEFLKY-PVRIYPVGRLDKDSEGLLL 118 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +TN G L + + Y V V + + ++ G+ I G + + Sbjct: 119 MTNQGDLVNRILRGRYGHEKEYLVTVDRPVTEAFIRQMRNGVEILGTRTKPCEAEI---- 174 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 ++ L +G NR+I+++ E ++V L R+ +LG L G RE++ E Sbjct: 175 TGKRSFSIILTQGLNRQIRRMCEALGYQVKTLKRVRIMNVKLGNLKTGQYRELTPAEWEE 234 Query: 244 QLG 246 Sbjct: 235 LQR 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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 72/241 (29%), Positives = 120/241 (49%), Gaps = 2/241 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 + N R+ K++A+AG SRR+ E+MI RV+V+G L+ V T I V Sbjct: 9 RKAHDNNQEGIRLQKLLAQAGFGSRRKCEQMITDGRVEVDGELVTELGTRVDPTHQQIRV 68 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG +R + + +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+ Sbjct: 69 DGSRVRISNKHITLALNKPRKVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLI 128 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDT 181 L+TNDG L++ + P + + Y G++ L + + + + Sbjct: 129 LMTNDGELSQHVMHPKYEVEKTYIATLEGRISGTVCRRLVTTGVQLDDGWIKLDRCAIID 188 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L GKNR ++++F + V RL+R GP +LG L +GS R +S+ + Sbjct: 189 ATHDTTIVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKSGSYRVLSQTEV 248 Query: 242 R 242 R Sbjct: 249 R 249 >gi|197122579|ref|YP_002134530.1| pseudouridine synthase [Anaeromyxobacter sp. K] gi|196172428|gb|ACG73401.1| pseudouridine synthase [Anaeromyxobacter sp. K] Length = 329 Score = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 88/321 (27%), Positives = 132/321 (41%), Gaps = 6/321 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ +K++ E +V RL R +G +G L G R + + +R LE Sbjct: 184 VGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGKFRRLEPEEVRALRQRVGLES 243 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + R + G + + A R Sbjct: 244 GTPARGPSVRELPKAARRHG-----HGPPAAPGAVPPPAEPGADEVEPRARGASRGGPRP 298 Query: 313 NVWMAKGIHSSFLSDSGQREE 333 A + R Sbjct: 299 AGPRATAPGPGGRASRPSRPS 319 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 73/230 (31%), Positives = 121/230 (52%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L I R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKT-ILDLVKIKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTKKEID 231 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 176/343 (51%), Positives = 221/343 (64%), Gaps = 7/343 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+SK++ARAG+ASRR+VERMI + RV +NG+LL+ VN +D IEVDG+P+R AE Sbjct: 55 KPERISKIMARAGVASRRDVERMIMEGRVSLNGVLLDTPVVNATLSDKIEVDGMPIRGAE 114 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWLYHKP GLVTT+SDP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGGL+ Sbjct: 115 RTRLWLYHKPAGLVTTNSDPEGRPTVFDNLPGELPRVLSIGRLDINTEGLLLLTNDGGLS 174 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 RVLELP+T WLR YRVR HG+VDQ L+ LK GI + G+ YG + TLD +G N W+T+ Sbjct: 175 RVLELPTTGWLRRYRVRAHGEVDQAALDKLKDGIAVDGVLYGAIDATLDRTQGHNVWITM 234 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 GLREGKNREIK V +VNRLIRISYGPFQLG L G EV ++LR+QLGP L+E Sbjct: 235 GLREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGKVLEVRGRMLRDQLGPRLIE 294 Query: 252 EAQVNLDAPIYSSE-------TLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 EA N DAPIY++ R + + + ++ K ++K L Sbjct: 295 EAGANFDAPIYNTSVDDEEEAPAKRAKSEWAKSDAPEGKPRFEKAAGKPEDRREKALGRL 354 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 +R+ F +E R P P+ S Sbjct: 355 DTKRSDKPAGKFGAKPAGKFGGKGRNDDEGDDRRPRPPAGTSR 397 Score = 37.5 bits (85), Expect = 3.7, Method: Composition-based stats. Identities = 12/105 (11%), Positives = 22/105 (20%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P ++ + E R R + R + + + K Sbjct: 524 RPARGDKPFGDRPFRDRPREDGDRPRSDRPRGEKSFGDRTARGEKPFSERPFRDKPREEG 583 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 R G R + + S +R R Sbjct: 584 DRPGSDRPRGDRPFGDKPRGGKPGGRPASGKPSFGKSGERGERSG 628 Score = 35.9 bits (81), Expect = 8.6, Method: Composition-based stats. Identities = 15/110 (13%), Positives = 23/110 (20%), Gaps = 1/110 (0%) Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 G + D P R R + D R K+ + + P Sbjct: 477 FGDRGGRGGKPFGDRPSGDRPFRDRPREDGDRPRGDRPARGTKSFGDRPARGDKPFGDRP 536 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + G R + S R R + Sbjct: 537 FRDRPREDGD-RPRSDRPRGEKSFGDRTARGEKPFSERPFRDKPREEGDR 585 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 66/231 (28%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + V +D I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTESDEILFDGEKINYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + + VGRLD +TEGLLL+TNDG LA Sbjct: 64 IYIMINKPKGVISATYDEVEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y G V++ + +GI+++ + + + V V Sbjct: 124 QLLSPKKNVIKKYYAEILGFVNESDIKAFNEGIILEDGYKTLPANLEILFSSSDVSKVYV 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +REGK +IK++FE KV L R++ L L G RE+S+K L Sbjct: 184 YIREGKYHQIKRMFESVGKKVIYLKRLAMDNLTLDENLKPGEWRELSEKEL 234 >gi|170288482|ref|YP_001738720.1| pseudouridine synthase [Thermotoga sp. RQ2] gi|170175985|gb|ACB09037.1| pseudouridine synthase [Thermotoga sp. RQ2] Length = 239 Score = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 61/245 (24%), Positives = 113/245 (46%), Gaps = 7/245 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ V+ D + +DG +R ++ Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHPVLENDAVALDGEVVRFHKKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + Y + +T S + VGRLD + EGLL++TNDG A Sbjct: 61 YILFYKPSGYVTSTKDP---HSETIMEFLPPLKGIFPVGRLDKDAEGLLIITNDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAKCV---EKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EGK +IK++ K L R G L + G R +S++ +++ +E Sbjct: 175 TEGKYHQIKRMTAAVGLKTVHLKRTRIGGLVLPDDMKPGEYRFLSEEEVKKVFEREDQKE 234 Query: 253 AQVNL 257 Sbjct: 235 DTPRF 239 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+ +I + +V V+G +++ + + + I V G L + Sbjct: 2 ERLDKILANLGYGTRKEVKALIKKGQVDVDGEVVKDNGMQIDPEKNKIFVFGKELVYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D VGRLD NT GLLLLTNDG L Sbjct: 62 IYLIMNKPQGVVSATFDNYDETVVDLLEDEDRIFEPFPVGRLDKNTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y + + +V + + KKGI++ ++ + + V V Sbjct: 122 RLISPKWHVDKIYYAKINKKVTDEDIKKFKKGIILDDGYECFPAKLEIIKSFNEESEVRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++FE + KV L R +GP +L L G RE++ + + Sbjct: 182 TIHEGKFHQVKRMFESVDKKVIYLKREEFGPLKLDESLEEGQCRELTDEEI 232 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 59/238 (24%), Positives = 104/238 (43%), Gaps = 5/238 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 1 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKTQVNEFEDTVTYLGEIIAYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + D + VGRLD +TEGLL+LTNDG A Sbjct: 61 FYYILHKPAGVISATQDNHDQTVIDLLKDQDYREDLFPVGRLDKDTEGLLILTNDGIFAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG--SNAWV 189 L P + Y G + ++ + L +G++I ++ +D + + Sbjct: 121 QLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETSII 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 181 RLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFWLPKDLNKGQYRPMTKEELEQVRE 238 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 78/243 (32%), Positives = 129/243 (53%), Gaps = 3/243 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + Sbjct: 2 TKELERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIE- 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 61 QEDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIDARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNA 187 ++ P Q + Y + G + ++++ L+KGI ++ +V + + Sbjct: 121 FTNLMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGLTQPADVKVKKQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++FE F +V +L RI YGP + L AG R ++ ++ Sbjct: 181 LVEITITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVKVMRHL 240 Query: 248 HLL 250 Sbjct: 241 AEH 243 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 72/230 (31%), Positives = 121/230 (52%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKT-ILDLVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYITAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTKKEID 231 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 120/238 (50%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 38 TSEPERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRIHT 97 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+G Sbjct: 98 DTVLQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNNGE 157 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA + PS + + Y GQV +L++G+ ++ + L + ++ V Sbjct: 158 LANRIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGSSIV 217 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L GKNR ++++ V+ L R L L G R + K L Sbjct: 218 QLTLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAALQEM 275 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 68/238 (28%), Positives = 115/238 (48%), Gaps = 5/238 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ KVIA+AG+ SRR+ E++I + +V VNG + V D + V+GVPL K E Sbjct: 5 ERLQKVIAQAGVTSRRKAEQLILEGKVIVNGNKVTELGTKVDLQHDEVIVEGVPLEKEEP 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY + + + + +GRLD +T GL+LLTNDG A Sbjct: 65 IYFLLYKPTGVISSVDDEKGRKVVTDFIPTDKRI--FPIGRLDYDTSGLILLTNDGDFAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 +L P + + Y + G ++ + L+KGI ++ +V + +K + + Sbjct: 123 LLMHPKHEIYKTYIAKVEGVPLREDIKKLEKGIHLEDGRTAPAKVKVSRSDKKKGTSIIE 182 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + EG+NR+++++FE V +L R +YG L L AG RE+ ++ Sbjct: 183 ISIHEGRNRQVRRMFEAIGHPVMKLKRENYGFLNLKGLNAGDFRELKPHEVKRLRELA 240 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 78/230 (33%), Positives = 128/230 (55%), Gaps = 3/230 (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 ++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLLYKPRG-VISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P +VY + G + ++++ LK G+ I G +V + ++ + V + Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIHSLKHGVRIDGKKSAPAKVKIISTNREKGTSIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++F+ V++L R Y L +L AG RE++++ + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTREEV 231 >gi|309389185|gb|ADO77065.1| ribosomal large subunit pseudouridine synthase B [Halanaerobium praevalens DSM 2228] Length = 236 Score = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 64/236 (27%), Positives = 117/236 (49%), Gaps = 2/236 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ KV+A AG+ASRR+ E +IA+ RVKVNG ++ + + VDG + + ++ Sbjct: 2 ERLQKVMAHAGVASRRKSEEIIAEGRVKVNGQVITEMGYKIDPAQAEVMVDGQVISEEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + T + TV D +P + R+ GRLD ++ GLL++TNDG L Sbjct: 62 VYILLNKPEGYITTVSDPENR-PTVMDLIPDLNQRLYPAGRLDFDSSGLLIMTNDGDLTY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + YRV G+++++ + G+VI G +++ KG + Sbjct: 121 KLTHPKKEVDKKYRVLIQGKLEEEDFEKFEAGMVIDGQETAPAEISNVDYKGEQTEFDIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++ + + V L RI + L + G R +++ + Sbjct: 181 IHEGRNRQVRRMAKIAGFSVISLKRIGFAFLTLTGVEEGKFRYLTEAEVENLKKLA 236 >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 = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 107/237 (45%), Gaps = 2/237 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 +E P RV K +ARAG+ASRR E ++ RV VNG ++ V D + VDG Sbjct: 5 EERIVPMRVQKFLARAGVASRRRSEDLMTAGRVCVNGEVVTELGAKVDPRVDTVTVDGRE 64 Query: 67 LRKAERTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +R + + L + T + + 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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +T+ + EG+ R+++++ + V L R +GP LG L GS RE++K + Sbjct: 185 KSRITLVIHEGRTRQVRRMCQKVGHPVLELHRAQFGPLTLGDLPEGSWRELTKAEVE 241 >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 = 183 bits (465), Expect = 2e-44, Method: Composition-based stats. Identities = 110/226 (48%), Positives = 154/226 (68%), Gaps = 2/226 (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 RLWIYYKPVGLITTHKDPLSRKTVFEQL-TGLPRVISIGRLDLNSEGLLLLTNNGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ELPS++ RVY VR +G D + K + I GI Y + L + +N+W+ V L Sbjct: 121 FELPSSKLKRVYHVRAYGNPDPLLKSN-YKNLEIDGIFYNPQSIKLLRKNSTNSWLEVIL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGKNREI+++FE F KVN+LIR YG F+L L REV+KK Sbjct: 180 FEGKNREIRRIFEHFGLKVNKLIRTEYGDFKLDNLKPNEYREVTKK 225 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 59/238 (24%), Positives = 105/238 (44%), Gaps = 5/238 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 1 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFEDTVTYLGEIIAYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + D + VGRLD +TEGLL+LTNDG A Sbjct: 61 FYYILHKPAGVISATQDNHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVFAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG--SNAWV 189 L P + Y +G + ++ + L +G++I ++ +D + + Sbjct: 121 QLLSPKKHVEKEYLAEVNGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQESETSII 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 181 RLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFCLPKDLNRGQYRPMTKEELEQVRE 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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 75/240 (31%), Positives = 122/240 (50%), Gaps = 5/240 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K+IA+AGI SRR+ E++I + RV VNG ++ TD I VDGVPL+K E Sbjct: 2 ERLQKLIAQAGITSRRKAEKLIEEGRVYVNGNQVKEVGAKADLQTDEISVDGVPLQKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY + + D ++ + +L RV VGRLD +T GL++LTNDG A Sbjct: 62 VYYLLYKPSGVISSAGDDKGRKTVI--DLVPGEFRVFPVGRLDFDTSGLIVLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 +L P + + Y + G ++ L L +GIV++ + + ++ A V Sbjct: 120 LLMHPKYRIHKTYIAKVKGLPLREDLKKLDRGIVLEDGKTAPAKTKVIKTDKRKGTAVVE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++F+ + V +L R YG L L AG RE+ ++ Sbjct: 180 ITIHEGRNRQVRRMFDAIGFPVMKLKRERYGILDLKGLNAGDWRELKPHEVKTLREIAEK 239 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 63/246 (25%), Positives = 114/246 (46%), Gaps = 5/246 (2%) Query: 1 MKDKNIVQEN----FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK + +E+ P R++K +A AGI SRRE + I V VNG ++ V+ Sbjct: 1 MKKRIEYKEDHIDPNEPLRLNKFLANAGICSRREADEFIQAGVVTVNGEVVTELGTKVLR 60 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +D ++ P+ ++ + L + T+ ++ + + R+ VGRLD Sbjct: 61 SDEVKFRDQPVTLEKKVYVLLNKPKNYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDR 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT G+LLLTNDG +A L P +VY V + + L + +GI ++ Sbjct: 121 NTTGVLLLTNDGDMASKLTHPKFLKKKVYHVFLDKNIGVEDLQKIAEGIELEDGEIHADA 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + V + + G+NR ++++FE ++V RL R+ + L G R + Sbjct: 181 VEYANEN-DKSQVGIEIHSGRNRIVRRIFEALGYRVVRLDRVLFAGLTKKNLRRGDWRFL 239 Query: 237 SKKILR 242 +++ + Sbjct: 240 TEQEVD 245 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 64/246 (26%), Positives = 111/246 (45%), Gaps = 5/246 (2%) Query: 1 MKDKNIVQENF----TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK + +E P R++K +A AG+ SRRE + I V VNG +++ V+ Sbjct: 1 MKKRIEYKEENFDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLR 60 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 TD + P+ ++ + L + T+ ++ + + R+ VGRLD Sbjct: 61 TDVVLFQDKPVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDR 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT G+LLLTNDG LA L P +VY V V + L + GI ++ Sbjct: 121 NTTGVLLLTNDGDLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADA 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + V + + GKNR ++++FE ++V +L R+ + + G R + Sbjct: 181 IEYASPDDL-TQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFL 239 Query: 237 SKKILR 242 ++K + Sbjct: 240 TEKEVD 245 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 112/229 (48%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ AG+ +R+EV+++I ++ V+VNG L+ + ++V D +++DG + Sbjct: 1 MRLDKYLSHAGVGTRKEVKQLIRKKHVRVNGELVVKDDMHVEEDDLVQLDGEHIYYEPFV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L ++ D + + + + VGRLD++TEGL+L++NDG LA Sbjct: 61 YLMLNKPSG-VICATQDSEHETVLDCFDVMLPKGCFPVGRLDMDTEGLVLISNDGKLAHH 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V +D+ + L G +I L+ ++ + + Sbjct: 120 LLSPKHHVRKTYYVEHQLCLDETAIKTLCNGSIILDEKTVLC-AALEVINETSCFFHIE- 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ +IK++F +V L R++ GP +L L G R ++++ L Sbjct: 178 -EGRYHQIKRMFSAVGNEVLYLKRVAMGPLRLDDHLEVGEWRALTQEEL 225 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 71/230 (30%), Positives = 120/230 (52%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYVCTAKDEKGRKT-ILDLVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTIKKDHIELFKKGIDIGDYLTAPATLEILKINKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G L G R ++ K + Sbjct: 182 IHEGKNRQVRRMCKSIGHAVIDLDRISIGNITKSDLKLGEWRYLTNKEID 231 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 109/232 (46%), Gaps = 7/232 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R++K I+ G SRRE ++++ Q RV +NG ++D + VDG PL+ + Sbjct: 2 EPVRINKFISETGFCSRREADKLVEQGRVMLNGRKA-VLGDKATTSDDVRVDGKPLKAKK 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++KP+G+ T + + R+ +GRLD +EGL+ LT+DG + Sbjct: 61 AGVYIAFNKPVGITCTTERHIKGNIIDYI--RHKERIFPIGRLDKPSEGLIFLTSDGDIV 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + + + + G+ I G+ +K S+ T+ Sbjct: 119 NKILRAGNNHEKEYVVTVNKPITPEFIQKMSSGVPILGVVTKKC----FVRKDSSYVFTI 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L +G NR+I+++ EF + V +L R+ L L G R+++ ++E Sbjct: 175 ILTQGLNRQIRRMCEFLGYNVTKLKRVRIMNVTLKDLPVGKWRDLTAAEMQE 226 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 72/243 (29%), Positives = 122/243 (50%), Gaps = 3/243 (1%) 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 +++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAADDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--MQVTLDTQKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ ++ ++ + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPSKELLRKLERGIQLEEGKTAPARAKMLSLDKRKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE V +L R Y L L G RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHDVLKLKREEYAFLDLRGLHTGDARELTPHEVKRLRALADHG 240 Query: 252 EAQ 254 + Sbjct: 241 KNA 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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 120/234 (51%), Gaps = 2/234 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K+I+ +G SRR+ E IA +V VNG + D I VDG+ + + Sbjct: 2 EKVRIQKIISESGFCSRRKAEEFIAAGKVTVNGRPCTLGDKALPGKDLIVVDGIKIDQPR 61 Query: 72 RT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + HKP G VTT +D R V D L + RV VGRLD N+EGLLLLTNDG Sbjct: 62 KRTLYYIMLHKPRGYVTTMNDELDRKCVTDLLTGLPERVYPVGRLDKNSEGLLLLTNDGA 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + PS + YRV ++ ++L L G+ I G + VT+ ++ + Sbjct: 122 FANDIMHPSKHVNKTYRVTVRPDINDEQLVKLASGVEIDGRMTSECSVTVLDKQPGRVVL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EG+NR+I+K+ E +V RL R + GP +LG L G RE+ LR Sbjct: 182 QMTIHEGRNRQIRKMCEAVGLEVARLKRTAIGPLRLGMLKPGEYRELKPDELRA 235 >gi|229062392|ref|ZP_04199708.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228716863|gb|EEL68550.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 242 Score = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGHGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNIEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG++++ ++T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHISGVVTEEDVKEFSKGVILEDGYETKPGELTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLMLDQELELGQYRELTDEEVE 231 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 148/361 (40%), Positives = 203/361 (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 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 E+A V+ ++P+ + + ++ G S+ + + Sbjct: 258 AEQAGVDFESPVRETIAPFGSPKKATRATQAAPAGRGRQGARDEGASEARSGSRGGAAGR 317 Query: 310 LASN---------------------VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + VW A S +R + + + + ++R Sbjct: 318 PPRDPARPAAPRAGARPAPRPPSPTVWRADEETRPRASKVPRRGMDPKTARAEAAERGRE 377 Query: 349 R 349 R Sbjct: 378 R 378 Score = 44.0 bits (102), Expect = 0.038, Method: Composition-based stats. Identities = 10/114 (8%), Positives = 25/114 (21%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ +L E N + Q + + Sbjct: 382 IQAAGERRVLVERLQPSPEKPAPEPHRRVRFRNEEERSAPRDRAREDRPRQDRPGQDRPR 441 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P + + F + + RR + + + RR ++ Sbjct: 442 EDRPRSEGPRENRARDERPGRDEFRRGAPAGDARPRRREAGEAAPAERRGPPRE 495 Score = 42.9 bits (99), Expect = 0.081, Method: Composition-based stats. Identities = 13/112 (11%), Positives = 26/112 (23%), Gaps = 1/112 (0%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R L L + P + + + + + Q + + Sbjct: 388 RRVLVERLQPSPEKPAPEPHRRVRFRNEEERSAPRDRAREDRPRQDRPGQDRPREDRPRS 447 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSD-SGQREENHRRSPSFPSKRSLRRTSA 352 P R + + D +R E +P+ R S Sbjct: 448 EGPRENRARDERPGRDEFRRGAPAGDARPRRREAGEAAPAERRGPPRERPSD 499 Score = 42.1 bits (97), Expect = 0.14, Method: Composition-based stats. Identities = 11/112 (9%), Positives = 23/112 (20%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + + R+ D R + ++ Sbjct: 424 RAREDRPRQDRPGQDRPREDRPRSEGPRENRARDERPGRDEFRRGAPAGDARPRRREAGE 483 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A P RR G+ + + + + RR Sbjct: 484 AAPAERRGPPRERPSDFEGRPPRERSEGRPQRDFHGDSRERGEGAPRRERPS 535 Score = 40.2 bits (92), Expect = 0.47, Method: Composition-based stats. Identities = 13/123 (10%), Positives = 32/123 (26%), Gaps = 1/123 (0%) Query: 232 STREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 TR + K+ R + P + +R ++ + + + Sbjct: 349 ETRPRASKVPRRGMDPKTARAEAAERGRERVGAIQAAGERRVLVERLQPSPEKPAPEPHR 408 Query: 292 KNGLSKQKKLATPVHR-RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + +++ + P R R + +R P + RR Sbjct: 409 RVRFRNEEERSAPRDRAREDRPRQDRPGQDRPREDRPRSEGPRENRARDERPGRDEFRRG 468 Query: 351 SAK 353 + Sbjct: 469 APA 471 Score = 39.8 bits (91), Expect = 0.60, Method: Composition-based stats. Identities = 13/125 (10%), Positives = 31/125 (24%), Gaps = 6/125 (4%) Query: 234 REVSKKILREQLGPHLLEEAQV-----NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 R + K R + E + + +++ Sbjct: 360 RGMDPKTARAEAAERGRERVGAIQAAGERRVLVERLQPSPEKPAPEPHRRVRFRNEEERS 419 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + + + P R + + R+E R +P+ R R Sbjct: 420 APRDRAREDRPRQDRPGQDRPREDRPRSEGPRENRARDERPGRDEFRRGAPA-GDARPRR 478 Query: 349 RTSAK 353 R + + Sbjct: 479 REAGE 483 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 135/261 (51%), Positives = 178/261 (68%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 T QR++KV+ARAG+ASRRE ERMI RV+VN L+E A+NV+ +D I VDG + Sbjct: 7 NTGPTGQRIAKVLARAGVASRREAERMIEAGRVRVNSKLIESPALNVVPSDRISVDGKLI 66 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E TR+WL+HKP GL+T+ D +GR TVFD LP RV+SVGRLD+N+EGLL+LTND Sbjct: 67 GDPEPTRMWLFHKPQGLITSERDEEGRETVFDVLPPEMPRVLSVGRLDLNSEGLLVLTND 126 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + R LELPST WLR YRVR G + + KL+ L++GI ++G+ Y M VT D Q+G+NA Sbjct: 127 GEVKRKLELPSTGWLRRYRVRIKGSLSEAKLDELREGITVEGVHYQPMDVTFDRQQGANA 186 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+G+REGKNREI++ E VNRLIRISYGPFQLG + AG E+ +++R+QLG Sbjct: 187 WLTIGIREGKNREIRRTMEALGVTVNRLIRISYGPFQLGNIKAGEVEELKSRVVRDQLGL 246 Query: 248 HLLEEAQVNLDAPIYSSETLV 268 + + T Sbjct: 247 DPRPKPERTRKTGAKGKNTRK 267 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 65/236 (27%), Positives = 113/236 (47%), Gaps = 4/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ KV+A G SR+EV++++ V VN ++ A +V D I ++G + E Sbjct: 1 MRIDKVLANLGYGSRKEVKKLLKDGSVTVNDEKIKDAKQHVDPEKDLIRINGETVEYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + P + T + D + VGRLD +TEGLLL+TNDG LA Sbjct: 61 IYLMMNKPPGVISATEDNRDETVIDLLEAEDLIFEPFPVGRLDKDTEGLLLITNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P + Y +V ++ + +KG+++ ++ + + G + + + Sbjct: 121 RLLSPKKHVPKTYFAVIDQEVTEEDVTAFRKGVILDDGYATKPGELNIL-KSGERSDIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EGK ++K++FE KV L R+S GP +L L G RE++++ L+ + Sbjct: 180 TITEGKFHQVKRMFEAVGKKVVYLQRLSMGPLRLDETLELGEYRELTEEELQSLME 235 >gi|331270360|ref|YP_004396852.1| pseudouridine synthase [Clostridium botulinum BKT015925] gi|329126910|gb|AEB76855.1| pseudouridine synthase [Clostridium botulinum BKT015925] Length = 240 Score = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 109/232 (46%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+++ G SR+E++ ++ + ++++G ++ V V I+V G + + Sbjct: 4 ERLDKILSNLGYGSRKEIKVLVKKGEIEIDGEKIKDNGVKVDPNKSIIKVSGEEINYRKY 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T + D + VGRLD +TEG LL+TNDG L Sbjct: 64 IYLMMNKPAGVVSATFDNYDETVIDLLDYEYTVFDPFPVGRLDKDTEGFLLITNDGDLNH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++Y VD+ + +KGI+++ ++ + + + + V + Sbjct: 124 RLTSPKWHVDKIYYAEIDKIVDEKDIKAFEKGIMLEDGYRCLPAKLRVLSADENGSEVNI 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++K++FE + KV L R+ G L L G RE+++ ++ Sbjct: 184 TIQEGKFHQVKRMFEARDKKVIYLKRLQMGNLVLDESLSEGEYRELTEDEVK 235 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 78/246 (31%), Positives = 128/246 (52%), Gaps = 7/246 (2%) 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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-- 190 L P + + Y G++ ++KL +L+ G++++ +V+L ++ V Sbjct: 125 GLLHPRFEVEKTYHAGVTGKLTEEKLQMLRDGLLLEDGMTAPAKVSLLPEREPGERVRGL 184 Query: 191 ----VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + EG+NR+++++F V L R+ + L + G R ++++ + Sbjct: 185 TRAAITIHEGRNRQVRRMFAAVGCDVKSLKRVRFAGLTLKGVARGQHRALTEEEVSSLYR 244 Query: 247 PHLLEE 252 Sbjct: 245 LAGCTR 250 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 83/291 (28%), Positives = 138/291 (47%), Gaps = 6/291 (2%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRL 75 K+++ AG+ASRR E +I RV V+G+ + + 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 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG-----PHLL 250 G+NR+++++F +V RL R+ + L L G+ R ++ + E Sbjct: 182 GRNRQVRRMFAAVGCRVQRLRRVRFAMLTLDGLPCGAFRHLTLDEIHELQKIAGGIHSEE 241 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + + R + D R + + K L + K+ Sbjct: 242 GSRRRRRTSGDDGGGSGGGTRRERNAARKDAARRPQDDDHGKRPLQRDKRR 292 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 62/239 (25%), Positives = 102/239 (42%), Gaps = 2/239 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 P RV K +ARAG+ASRR E ++ RV VNG ++ V D + VDG + ++ Sbjct: 17 PMRVQKFLARAGVASRRGSENLMTTGRVSVNGRVVTELGSRVDPRCDVVRVDGHVVHLSD 76 Query: 72 -RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T L L + T + + +GRLD +T G+LL + DG L Sbjct: 77 GSTTLMLNKPAGYITTMSDPFGRACVAELVPIDAYPGLFPIGRLDADTTGILLFSTDGEL 136 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+ G V +++L L+ G+ ++ + L + + Sbjct: 137 GNGLLHPRKHVDKTYQALVEGSVSEEELERLRSGVELEDGMTAPAEARLTCVSEDESRLD 196 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EG+ R+++++ V L R +GP LG L GS R +S + Sbjct: 197 ITIHEGRKRQVRRMCATVGHPVVTLHRSRFGPLVLGDLPEGSWRMLSGSEVAALHAAAR 255 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 71/248 (28%), Positives = 115/248 (46%), Gaps = 4/248 (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 + + + V D L I RV VGRLD +TEGLL+LTNDG A Sbjct: 63 IYILFNKPKGVITSVSDPEGR-RVVGDFLKGIKERVYPVGRLDYDTEGLLILTNDGEFAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 ++ P + Y G L L++G+ ++ +V + ++ Sbjct: 122 MVTHPRHHVSKTYHATVKGVPHGSVLEKLREGVKLEDGMTAPAEVEYHDIDPDKKQSVIS 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EGKNR+++++FE + V RL R+ +G L L G R + K+ ++ L Sbjct: 182 ITIYEGKNRQVRRMFEAVGYPVTRLKRVKFGSIPLVGLPRGKFRRMRKEEVQALLNEASQ 241 Query: 251 EEAQVNLD 258 Sbjct: 242 SHKVQKGQ 249 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 69/235 (29%), Positives = 115/235 (48%), Gaps = 2/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ASRR+ E +I Q RVKVNG + V D + VDG L ++ Sbjct: 2 VRLQKFMADCGVASRRKCEEIILQGRVKVNGRTITELGFKVDPQKDKVLVDGKKLVPVQK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G++++ D GR TV D + VGRLD +T GL+LLTNDG A Sbjct: 62 KIYIMLNKPFGVISSAKDEKGRKTVVDLVKDKVDVRVFPVGRLDFDTTGLILLTNDGEFA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y G ++++ KKG+ I G + + + V + Sbjct: 122 YKVTHPKHDIEKTYIALIEGVPTKEEIEQFKKGLFIDGKLTSPAKFRILKVFKGMSLVEI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EG+NR+++K+ + +V +L R++ G +LG L G + + ++ + Sbjct: 182 KIHEGRNRQVRKMCDAIGHRVLKLKRVAIGKLKLGKLKEGEFVFLDENMVNKVFE 236 >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 = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 111/230 (48%), Gaps = 8/230 (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 ++ + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEDNIIDYI--DYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRVNQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELE 223 >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 = 183 bits (464), Expect = 3e-44, Method: Composition-based stats. Identities = 77/240 (32%), Positives = 124/240 (51%), Gaps = 3/240 (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 D +L RV VGRLD T G L+LTNDG A Sbjct: 67 VYYILNKPRGIVSSAND-DKDRESVVDLVPNDIRVFPVGRLDRETTGALILTNDGDFAYY 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P ++YRV G++ + N LK+GI I+G+ Y ++++ ++ Sbjct: 126 MTHPKFDLSKIYRVSVRGRLSYEVTNSLKEGITIEGVEYKGVEISRVKYDAAKDKTQFSI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EGKNR+I+K+F F V +L R G + L G RE+ +++ L E Sbjct: 186 TLHEGKNRQIRKIFAHFGLPVLKLHRYQIGYLDIDELKIGQYRELKPFEVKKLLLTAKGE 245 >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 = 183 bits (464), Expect = 3e-44, Method: Composition-based stats. Identities = 68/235 (28%), Positives = 117/235 (49%), Gaps = 2/235 (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 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ L + + + + N Sbjct: 135 ELSQHVMHPKYEVEKTYIATLEGRISGQVCRRLVTTGVQLDDGWIKLDRCAILDASRDNT 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 195 LVKVVLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGSYRVLSQTEVR 249 >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 = 183 bits (464), Expect = 3e-44, Method: Composition-based stats. Identities = 75/230 (32%), Positives = 123/230 (53%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AG ASRR+ E +I + RVKVN ++ + V D + +DG L Sbjct: 1 MRLQKFMAHAGAASRRKSEELIKEGRVKVNNNIVTEMGLEVDPNKDRVYLDGKRLNLENE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KPIG+VTT + +L RV VGRLDI+T GL+LLTNDG LA Sbjct: 61 NIYIILNKPIGVVTTS-SDEKGRINVVDLVDETKRVYPVGRLDIDTTGLVLLTNDGTLAN 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|229032362|ref|ZP_04188334.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|228728970|gb|EEL79974.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 242 Score = 183 bits (464), Expect = 3e-44, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHIAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDEISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE+S + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDAELELGEYRELSDEEVE 231 >gi|295095390|emb|CBK84480.1| ribosomal large subunit pseudouridine synthase F [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 290 Score = 183 bits (464), Expect = 3e-44, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 117/292 (40%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG V+ D ++V+G + Sbjct: 4 TQSTRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVVPGDVVKVNGQVIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + DG + + SR+ +GRLD +++GL+ LTN G L Sbjct: 63 DAEDLVFIALNKPVGIVSTTEDGERDNIVDFVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +V +K + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTVTKKCKV----RKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIELFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTQAIKRPVVKAPQAEEKGRGKPGNGKRFTQPGRKKKGR 290 >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 = 183 bits (464), Expect = 3e-44, Method: Composition-based stats. Identities = 63/247 (25%), Positives = 106/247 (42%), Gaps = 7/247 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K+++ G +R E+++++ Q +V V G +++ + V D + DG + Sbjct: 3 KKMRIDKLLSHTGYGTRSEIKKLVKQGKVTVAGKVVKDSGQLVDPELDEVAFDGELVLYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + P + T + VGRLD +T GLLLLTNDG L Sbjct: 63 EVIYLMMNKPPGVISATEDRRERTVIDLLEQEDQLMDPFPVGRLDKDTVGLLLLTNDGQL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK----GS 185 A L P + Y G V ++ K G+ + + + + G Sbjct: 123 AHELLSPRKHVPKTYEAVVQGDVGEEDQEQFKAGVTLDDGYVTMPSDLKILKKDSGEGGV 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQ 244 + +++ + EGK ++K++FE KV L RIS GP +L L G+ RE++ + L Sbjct: 183 TSVISLTIMEGKFHQVKRMFEAVGKKVVFLKRISMGPLELDADLEEGTYRELTDEELALL 242 Query: 245 LGPHLLE 251 E Sbjct: 243 RAHRATE 249 >gi|310765941|gb|ADP10891.1| 23S rRNA pseudouridine synthase F [Erwinia sp. Ejp617] Length = 292 Score = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 6 SIRLNKYIGESGICSRRDADRYIEQGNVFINGKRASV-GDRVFAGDVVKVNGQLIEPRNE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + +G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVVIALNKPVGIISTTEEGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V ++ + L G+ + G +V K S + Sbjct: 125 KILRAGNDHEKEYLVTVNKPVTEEFIRGLGAGVPMLGTVTKKCKV----NKESTFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V++L R L L G R+++ L E Sbjct: 181 LVQGLNRQIRRMSEHFGYEVSKLERTRIMNISLKGLPPGEWRDLTDDELIELFKLIENSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 ++ T + ++ T + +K +K Sbjct: 241 SEDGTAKKAKPKATTAKKPAASGAKGGAKVTGNANAAPRKRFAQPGRKKKGR 292 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 78/273 (28%), Positives = 125/273 (45%), Gaps = 1/273 (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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 AQ P + + Sbjct: 254 ISREARAQAGPATPQGAGAAAEAQGDVDREDGE 286 >gi|332830030|gb|EGK02658.1| hypothetical protein HMPREF9455_00908 [Dysgonomonas gadei ATCC BAA-286] Length = 342 Score = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 72/343 (20%), Positives = 143/343 (41%), Gaps = 10/343 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G SRRE +R I + RV +NG + + V+ ++V+G + Sbjct: 4 RLNKYISNSGFCSRREADRFIEEGRVTINGKRAQV-GMRVLPGQKVKVNGELIVNKIEPV 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++KP+G+V+T + + + R+ +GRLD +++GL+LLTNDG + + Sbjct: 63 YIAFNKPVGIVSTTDPQERDNIINFI--RHEQRIFPIGRLDKDSQGLILLTNDGDIVNKI 120 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V+ + + +D L + +G+ I ++ + + + L Sbjct: 121 LRAGNNHKKDYLVKVNRPITKDFLTRMAQGVPILDRVTRRCEIV----EINPYMFRISLI 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR---EQLGPHLLE 251 +G NR+I+++ E+F+++V +L RI +LG L G+ R ++ L + L Sbjct: 177 QGLNRQIRRMCEYFDYEVLKLERIQIMNIKLGDLGQGNWRNLTPTELEGLFDMLENSEKT 236 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + ++ D + KK+ + K G + K T + Sbjct: 237 QMSKAPSNKAFNKALEEFDIKTDYRKASIAAKYGKKDKTDKPGSTNSKSSNTAAPSSDEN 296 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + K +++ P K + S KK Sbjct: 297 EHKAKPKRKGKPASGLRVGKQKVAANKPKGGPKPKAKNQSKKK 339 >gi|158320760|ref|YP_001513267.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158140959|gb|ABW19271.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 228 Score = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 111/229 (48%), Gaps = 7/229 (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 + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTTEKHV--KGNIVDFVHHKERIFPIGRLDKDSQGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + + G+ I G +VT K ++ + L Sbjct: 118 ILRAENNHEKEYIVTVNKPITPEFIKGMSSGVKILGTKTKPCKVT----KINDTVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F +KV +L RI +L L G R+++K+ L Sbjct: 174 TQGLNRQIRRMCQVFGYKVVKLQRIRIMNVKLKGLEIGQWRDLTKEELE 222 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 78/230 (33%), Positives = 127/230 (55%), Gaps = 3/230 (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 ++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLLYKPRG-VISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P +VY + G + +++ LK G+ I G +V + ++ + V + Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIYSLKHGVRIDGKKSAPAKVKIISTNREKGTSIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++F+ V++L R Y L +L AG RE++++ + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTREEV 231 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 55/243 (22%), Positives = 111/243 (45%), Gaps = 7/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ +V D + +DG + + Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHSVSENDVVVLDGETVNFHRKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + +T S + VGRLD + EGLL++TNDG A Sbjct: 61 YILFHKPSGYVTSTKDP---HSETIMEFLPPLKGIFPVGRLDKDAEGLLIITNDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G++ +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VTSPKWSVEKEYIVKVEGEITEDKIEKLKNGVTLRDGFFAKAKCV---EKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EG+ ++K++ + L R G L + G R +S++ +++ +E Sbjct: 175 TEGRYHQVKRMTAAVGLRTVHLKRTRIGELVLPDDMKPGEYRFLSEEEVKKVFEGENKKE 234 Query: 253 AQV 255 Sbjct: 235 NTP 237 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 66/299 (22%), Positives = 125/299 (41%), Gaps = 7/299 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N ++K I+ +GI SRRE E+ I + RV +NG + V D +++DG ++ Sbjct: 11 NQKSTNLNKYISSSGICSRREAEKFIKEGRVTLNGK-ATQLGNRVTKKDVVKLDGRVVKP 69 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + T +KP+G+V+T + + R+ +GRLD +EGL+ LTNDG Sbjct: 70 KDVTIYIALNKPVGIVSTTDGRE--PNNIVKHINYPERLFPIGRLDKPSEGLIFLTNDGD 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + + +D + + GI I G +K ++ Sbjct: 128 IVNKILRAGNNHEKEYFVTVNKSITEDFIEKMGNGIPILGTVTQKC----LVEKVNDKIF 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+ +++V +L R +LG L G RE++++ + E Sbjct: 184 KIILTQGLNRQIRRMCEYLDYEVTKLKRTRIMNVELGYLQTGDWRELTEEEMNEINKMIS 243 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + + ++ + S K ++ RR Sbjct: 244 TSSKTEEASKIKEKPKAKKPKKKLAPTKNDFNRKSASFRKSSPKNKRKNTSFSSKRKRR 302 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 63/250 (25%), Positives = 111/250 (44%), Gaps = 7/250 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E R++K I+ G SRRE +++I Q RVK++G+ + V + + +DG PL Sbjct: 57 NEIRDEVRLNKYISETGFCSRREADKLIEQGRVKIDGVKATT-GMKVSNGQSVSIDGKPL 115 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + +KP+G+ T + + R+ +GRLD +++GL+ +TND Sbjct: 116 KVENELVYIALNKPVGITCTTESKI--KGNIVDFINHEKRIFPIGRLDKDSQGLIFMTND 173 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + + + G+ I G +K S Sbjct: 174 GDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKC----LVKKESKN 229 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 230 SFRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKELAEINRL 289 Query: 248 HLLEEAQVNL 257 Sbjct: 290 TENSSKTEEA 299 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 59/293 (20%), Positives = 114/293 (38%), Gaps = 6/293 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYIEQGNVFINGKRATV-GEQVYAGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ L L + + DG + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDQNDLVLIALNKPVGIICTTEDGEGDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 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 Sbjct: 178 SITLVQGLNRQIRRMCKYFGYEVTKLERTRIMNINLKGLPIGEWRDLRDDELIELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRP-NIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + + + + K+K Sbjct: 238 NSSSDEKPQKKPKAKPVVAKKPAISRSKPAEKSEANSAGRKRFTQPGRKKKGR 290 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 64/231 (27%), Positives = 108/231 (46%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VK++G++++ V + V G + E Sbjct: 4 RIDKMLANMGFGTRKEVKKLLKSGVVKIDGMIVKDPKTQVNPSEQVVTVRGEEVEYKEFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + P + T + VGRLD +TEGLLLLTNDG LA Sbjct: 64 YLMMNKPPGVISATEDMAEETVIDLLEEEDRVFAPFPVGRLDKDTEGLLLLTNDGQLAHQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G+V ++ + + GIV+ ++ + + G + V V Sbjct: 124 LLSPKKHVPKTYFAVIDGEVTEEDIESFRHGIVLDDGYKTKPAELIIL-KSGLRSDVEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IK++F +V L RI GP L +L G RE+++K ++ Sbjct: 183 ITEGKFHQIKRMFRALGKRVVYLKRIQMGPLALDPSLEVGEYRELTEKEVK 233 >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 = 183 bits (464), Expect = 4e-44, Method: Composition-based stats. Identities = 90/247 (36%), Positives = 140/247 (56%), Gaps = 5/247 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + +EN R+ K IA +G+ASRR E M+ + RVKVNG+++ + V TD IE Sbjct: 13 EKDQVNEENQIRMRLQKAIALSGLASRRRAEEMMTEGRVKVNGVVVTELGMKVCGTDTIE 72 Query: 62 VDGV-----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 VDG ++ E ++ +KP+G++T+ DP GR TV D L + RV VGRLD Sbjct: 73 VDGKTVQSLEVKGKENKVYYMLNKPVGVITSLRDPQGRKTVRDLLGDVKERVYPVGRLDY 132 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +T G+LLLTNDG LA L P ++YRV+ ++ + L+KG++++ + Sbjct: 133 DTSGILLLTNDGDLAYRLTHPKFGVSKIYRVQTGSRIPPKSIEQLEKGLLLEDGWTAPAK 192 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V Q ++ V + + EG+NR+I+++FE + V RL R S+GP G L G R + Sbjct: 193 VHRLPQGQNDHIVEITIHEGRNRQIRRMFERIGYPVQRLHRKSFGPLFTGELAPGGHRRL 252 Query: 237 SKKILRE 243 S+K +R Sbjct: 253 SQKEIRA 259 >gi|332977338|gb|EGK14123.1| ribosomal large subunit pseudouridine synthase B [Desmospora sp. 8437] Length = 236 Score = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 112/235 (47%), Gaps = 2/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+ARAG+ASRR+ E I +V+VNG + + V D IEV+G +R ++ Sbjct: 2 ERLQKVMARAGVASRRKSEEWILSGKVRVNGKTVTQLGTRVDPERDRIEVEGRLIRPEQK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 Y + + V D + RV VGRLD +TEGLLLLTNDG L Sbjct: 62 RYFLFYKPKGVITSLSDPDGR-PVVTDWFREVEERVYPVGRLDYDTEGLLLLTNDGELTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY+ G + L L+ G+ + +V + A + + Sbjct: 121 GLAHPRHEVDKVYQATVKGIPAKKSLRRLETGVKLTDGWTAPAKVRMLRSGKEQACLELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+NR+++++ E V L+R+ L L G RE+SK+ +R Sbjct: 181 IHEGRNRQVRRMCEAVGHPVVHLVRVQLAFLTLSGLQPGEYRELSKEEIRRLKEL 235 >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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 99/231 (42%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + + Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVIYQQYHY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L T + ++ VGRLD +T GLLLLTNDG LA L Sbjct: 63 FLLNKPAGVLSATEDSRQKTVLDLLKDQDSYQKIAPVGRLDKDTTGLLLLTNDGQLAHQL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGD--MQVTLDTQKGSNAWVTV 191 P + Y G D++ + G+ ++ +++ + + + + Sbjct: 123 LAPEYHVPKPYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV +L R+S GP L L GS R ++++ L Sbjct: 183 TITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEEL 233 >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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 62/244 (25%), Positives = 105/244 (43%), Gaps = 4/244 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + V G + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEYKPFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + T + F VGRLD +TEGLLLLTNDG LA Sbjct: 64 YLMMNKPSGVVSATEDAVEETVVDFLEEEDRAFSPFPVGRLDKDTEGLLLLTNDGQLAHQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G+V + + ++G+V+ ++ + + G + V V Sbjct: 124 LLSPKKHVPKTYFAVVDGEVTEADVAAFQRGVVLDDGYETKPAKLVVL-KSGLRSDVEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLE 251 + EGK ++K++F+ +V L RI GP L L G RE++ + + Sbjct: 183 ITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLALDPDLAVGEYRELTDEEVDMLKQYRPET 242 Query: 252 EAQV 255 + + Sbjct: 243 DEKK 246 >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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 74/332 (22%), Positives = 129/332 (38%), Gaps = 15/332 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK- 69 + R++K I+ +G SRRE +++IA RVK+NG+L V S D + VD PLR Sbjct: 4 DSAVRLNKFISDSGHCSRREADKLIASDRVKINGLLP-ELGAVVESGDVVTVDDQPLRAS 62 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 Y+KP G+ T + V +GRLD +EGL+LLT+ Sbjct: 63 AADKTDRIYIAYNKPFGITCTTDQTVKGNIVDAIDHDERI--FPIGRLDKPSEGLILLTS 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y V + + + + +G+ I G +V + Sbjct: 121 DGDIVNKILRAENAHDKEYIVTVNKNLAPNFAEKMSRGLPILGTITKPCKVRVI----GK 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ ++ + V +L+R +LG L G R ++K L Sbjct: 177 TTFKIILTQGLNRQIRRMCDYLGYDVKQLVRTRIMNIELGKLKPGQWRRLTKVELDLLTK 236 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 A SS + +P + + + K+G K K Sbjct: 237 ATSQSSKTAIKGANAKSSASPTATKPRVAKPK----VKKEPKDLDKHGRPKNKSTGVKRG 292 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 ++ G + ++G+ R Sbjct: 293 AKSKNLTTGGRTGNKGAGRGNAGRPTAPRGRK 324 >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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 106/233 (45%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+I+ G SR++V+++I RVKV+G +++ + I V+G + + Sbjct: 2 ERLDKIISNMGYGSRKDVKKIIKDGRVKVDGEVVKDNNKQLDPQKSKIIVNGEEISYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T D D + +GRLD +T GLL LTNDG Sbjct: 62 IYLMMNKPDGVISATSDDYDKTVIDLLEVEDQVFEPFPIGRLDKDTVGLLFLTNDGDFNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY + V + + K+GIV+ ++ + + V V Sbjct: 122 RLISPKWHVDKVYYAKIDKDVTSEDVVAFKEGIVLDDGYKCMSAKLEVLNNSKEGSEVKV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 +REGK ++K++FE KV L RIS+ +L L G RE+++ ++ Sbjct: 182 TVREGKYHQVKRMFEAQGKKVVYLKRISFAGIKLDENLEEGEYRELTEDEMKA 234 >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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 122/236 (51%), Gaps = 2/236 (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 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG LA+ + P + + Y G + + L + + + Q ++ Q Sbjct: 133 DGELAQHVMHPKYEVDKTYIATVEGHIGGSVCHRLVRTGVQLDDGWIKLDQCSIIDQNRD 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V V + G+NR +++VF + V +LIR GP +LG L +GS R ++ + Sbjct: 193 RSVVKVVIHSGRNRIVRRVFGAIGFPVVKLIRTQIGPIKLGELKSGSYRVLTGAEV 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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 72/230 (31%), Positives = 123/230 (53%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L + R+ +GRLD++T G+++LTNDG + Sbjct: 63 KIYILLNKPKGYLCTAKDEKGRKT-ILDLVKVKERIYPIGRLDMDTSGIIILTNDGEIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++ Y+ + G + +D + L KKGI I + + + + + Sbjct: 122 KIIHPKFEKIKTYKAKVKGTMKKDHIELFKKGIDIGDYITAPAALEIFKTNKDTSEIIIK 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ + V L RIS G G L G R ++KK + Sbjct: 182 IHEGKNRQVRRMCKSIGHPVIDLDRISIGNISKGDLKLGEWRYLTKKEID 231 >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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 68/236 (28%), Positives = 118/236 (50%), Gaps = 1/236 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 65 ++ R+++ I+ G+ASRR+ +++I + +VKVNGI ++ V D +EV+G Sbjct: 1 MERGEVLVRLNRFISMCGVASRRKADKLIKEGKVKVNGITIKEMGYRVDPQKDVVEVEGR 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++ + L L + DG+ ++ + + +I RV GRLD N EGLL+LT Sbjct: 61 VIKAPRYRYVILNKPCCYLSSLAEGKDGKKSIKELIKNIPERVYPAGRLDYNAEGLLVLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA + P + + Y V G+V+ L + KG ++ +V + + Sbjct: 121 NDGELANRIMHPRYKLKKTYLVWVEGRVNPKTLKEMAKGAHLEDGFARPDKVRIVKMQKD 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V EG+ +K+ F KV L R + GP +LG L G R+++ + L Sbjct: 181 STLLEVVFHEGRKHIVKRFMAKFGHKVKALKRTAIGPIKLGKLPPGKWRDLTAEEL 236 >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 = 183 bits (463), Expect = 4e-44, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV++++ + VKVN + + V D I VDG + Sbjct: 1 MRLDKFLSNMGVGTRTEVKQLLKKNSVKVNDKVEKSPKSQVDPEQDEITVDGKIIEYINH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYV-SATYDDINQTVIDLIADYCHLDLFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y+V + + + K GI + Q+ S V Sbjct: 120 NLMSPSKHVSKTYKVTSKYPIKNEDIIAFKNGIELSDGKVKPAQLEKLDHNVS----LVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F + +V L R+ L L +G R ++ + L+ Sbjct: 176 IYEGKYHQVKRMFHSIDNEVLELKRLKIANLTLDENLKSGEYRLLTSEELK 226 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 93/228 (40%), Positives = 129/228 (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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR+++++ E V+RL RI Y LG L G R++S+ + Sbjct: 183 HEGRNRQVRRMCEAVGCPVSRLKRIRYAFLDLGDLRPGQHRQLSRNEV 230 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 90/353 (25%), Positives = 144/353 (40%), Gaps = 12/353 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG+ SRRE+E MI RV V+G + I +DG + E Sbjct: 2 SEKLQKVLARAGLGSRRELETMIQAGRVSVDGQRAKLGDRLENVDAKIRIDGHVVSVKES 61 Query: 73 TRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 T + + L T H R+ SR +SVGRLD NT GLLL T D Sbjct: 62 TDVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIRDSRWVSVGRLDANTAGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y R G++++ + L G+ ++ V +G N Sbjct: 122 GELANRLMHPSRKVEREYMCRVFGEINEKMIRNLVTGVKLEDGEARFEDVMYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + EG+NRE++++++ V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKALPRGGWMELELKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E+ +++D + + D+ + ++N+ KK Sbjct: 242 MVELPPEKESLLDVDKESRKRAKSKTQKIRRAVKRYDERSTEERNTPAGRRGRNNKKPVG 301 Query: 304 ---PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P +R + G S ++ R S K + + Sbjct: 302 SSLPSAKRGSNNGDSKPSGKPQSKGKKPAAGQKPVRSKFSPNGKAPKSKPRQR 354 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 61/227 (26%), Positives = 108/227 (47%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ GI SRR ++ IA+ +V +NG + V + D + VDG ++K ++ Sbjct: 1 MRINKYLSETGIISRRGADKWIAEGKVTINGEVATV-GSQVEAGDIVCVDGKEVKKEQQL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T + V + + R+ +GRLD +EGLLLLTNDG + Sbjct: 60 VYIALNKPVGITSTTERHIKGNVV--DFVNHPLRIFHIGRLDKESEGLLLLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + + + G+ I V +K S + L Sbjct: 118 ILRAENHHEKEYIVQVDKPITAQFIQKMGAGVDILDTTTLPCHV----EKISEKVFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ + V RL RI +LG L G R++++K Sbjct: 174 EQGLNRQIRRMCSALGYSVKRLQRIRIMNIKLGNLKVGQWRDLTEKE 220 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 104/231 (45%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + V + V G + + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGLVKVDGAAVYDPKTKVRPDEQTVTVWGETVEYKQFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + P + T + VGRLD +TEGLLLLTNDG LA Sbjct: 64 YLMMNKPPGVISATEDAVEETVVDLLEEEDRLFDPFPVGRLDKDTEGLLLLTNDGQLAHQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G+V +D + ++G+V+ ++ + + G + V V Sbjct: 124 LLAPKKHVPKTYFAVIDGEVTEDDVEAFRRGVVLDDGYETKPAELVVL-KSGLRSDVEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F+ +V L R+ GP L L G RE++ + + Sbjct: 183 ITEGKFHQVKRMFQAVGKRVVYLKRVQMGPLSLDPNLAVGEYRELTDEEVE 233 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 75/243 (30%), Positives = 125/243 (51%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KVIA+AGIASRR+ E++I + +VKVNG +++ + V D IEV+GVP+ K E Sbjct: 2 ERLQKVIAQAGIASRRKAEQLILEGKVKVNGQVVKELGIKVNPNQDDIEVEGVPVEKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY + + D + I RV VGRLD +T GLLLLTNDG A Sbjct: 62 VYFLLYKPTGVISSVKDDKGRKVVTDFL--EIEQRVYPVGRLDYDTSGLLLLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VT 190 +L P + +VY + G +D+L LL +G+ ++ +V + + V Sbjct: 120 LLMHPRHKIEKVYVAKVKGIPTRDQLKLLARGVKLEDGPTAPAKVKMLSVDRRKQTAIVK 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++FE +V +L R + L + G R + ++ + Sbjct: 180 LTIHEGRNRQVRRMFETIGCEVMKLKREQFAFLDLSGMNPGDVRPLKPIEVKHLRELAVT 239 Query: 251 EEA 253 +++ Sbjct: 240 KKS 242 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 99/231 (42%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + + Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVVYQQYHY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L T + ++ VGRLD +T GLLLLTNDG LA L Sbjct: 63 FLLNKPAGVLSATEDSRQKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAHQL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS--NAWVTV 191 P + Y G D++ + G+ ++ Q+ + Q + + + Sbjct: 123 LAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLNILRQDKDQEQSEIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV +L R+S GP L L GS R ++++ L Sbjct: 183 TITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEEL 233 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 99/231 (42%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + + Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVVYQQYHY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L T + ++ VGRLD +T GLLLLTNDG LA L Sbjct: 63 FLLNKPAGVLSATEDSRQKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAHQL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS--NAWVTV 191 P + Y G D++ + G+ ++ Q+ + Q + + + Sbjct: 123 LAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV +L R+S GP L L GS R ++++ L Sbjct: 183 TITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLAPGSYRPLTEEEL 233 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 80/339 (23%), Positives = 133/339 (39%), Gaps = 6/339 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + PQR+ K++A AG+ SRRE+E +I R+ +NG + E A V D + D P+ Sbjct: 23 DPDAVPQRLHKLLALAGLGSRREMEELILSGRITINGKVAEVGAAVV-PGDVVRFDSRPV 81 Query: 68 RKAER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + +V+ + ++ I++GRLDINT GLL+ Sbjct: 82 HLPFEAELAQVLIYHKPEGEIVSQDDPEKRATVFDKLPRVRGAKWIAIGRLDINTSGLLI 141 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T G LA P + R Y VR G++ + ++ L +GI ++ + + Sbjct: 142 FTTSGELANRFMHPRYEVEREYAVRIFGELTEGEMLQLTQGIELEDGPASFDSIRPQGGE 201 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 G+N W V LREG+NRE++++F+ F V+RL+R+ +GP L L G + K + Sbjct: 202 GANHWYQVILREGRNREVRRLFDAFQKPVSRLMRVRFGPVNLPPRLKRGQMLNLDPKEVL 261 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L L + L + + + + + A Sbjct: 262 GLLEWAGLPLPKAPLRQRTAREKEKAGQVFTPKARRAAPEREPRAEGTTGRPAYGARPDA 321 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 S K S + R P+ Sbjct: 322 AGRADGRKTSTSPARKPAQSRRIRQDADIPAPRSRRPAT 360 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 67/235 (28%), Positives = 117/235 (49%), Gaps = 2/235 (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 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNA 187 L++ + P + + Y G++ L + + + + + Sbjct: 135 ELSQHVMHPKYEVEKTYIATLEGRISGQVCRRLVTTGVQLDDGWIKLDRCAILDASRDST 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L +GS R +S+ +R Sbjct: 195 LVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGDLKSGSYRVLSQTEVR 249 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 157/348 (45%), Positives = 206/348 (59%), Gaps = 5/348 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + F R++KV+ARAG SRR+ E IA+ RV VNG +L+ A NV D IEVDG PL Sbjct: 36 KAFEGDRIAKVMARAGACSRRDAEIWIAEGRVAVNGAVLDSPAFNVREGDRIEVDGAPLA 95 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLT 125 + E TRL+L+HKP GLVT+ DP+GR TVF L R++SVGRLDINTEGLLLLT Sbjct: 96 EREPTRLFLFHKPEGLVTSAKDPEGRDTVFGFLEERHPDLPRLVSVGRLDINTEGLLLLT 155 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDGGLAR LELP+T W R YRVR HG++DQ +L+ L+KG+ + + Y ++ LD +G+ Sbjct: 156 NDGGLARTLELPATGWTRRYRVRAHGEIDQARLDELRKGVTVDDVDYAPIEARLDRVQGA 215 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 N W+T+ LREGKNREIK+V E VNRLIRIS+GPFQLG L G+ EV KILREQL Sbjct: 216 NVWITMALREGKNREIKRVLEHLGLGVNRLIRISFGPFQLGELAEGAVEEVKLKILREQL 275 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G L E A V+ +P ET + TR +K+ S ++ + Sbjct: 276 GKGLAELAGVDFSSPRR--ETAEPEHVIEEERRQHAKTRARKHVSTLRAEVEESRGKKAP 333 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R S KG + + R +P ++ + R + + Sbjct: 334 RARIERSATADRKGRAVAVETIKPVRRRLEEEAPPLATRNARRFQAER 381 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 79/356 (22%), Positives = 137/356 (38%), Gaps = 16/356 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D ++V+ Sbjct: 161 KRVLLPQVETPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRIQFGDQVKVN 219 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +V+ + + + + 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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++ E V+RLIRI YG L L G+ E+ + Sbjct: 340 GGGEGANCWYRVTIAEGRNREVRRMLEAVGHAVSRLIRIRYGAMVLPRGLKRGTWLELDE 399 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + +R L +A + + + G + Sbjct: 400 RDIR------ALAQAAGARAPALSTRTPTDARAGKQRERSGPPMGNGPRRGRSPQGPAAG 453 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + P + + + + S + SL R K Sbjct: 454 ARAQNPRRDGGGQGVGAGGNHAGP----RAAAQPDPMQTSVGYIGGDSLSRLRQSK 505 >gi|291542267|emb|CBL15377.1| ribosomal large subunit pseudouridine synthase B [Ruminococcus bromii L2-63] Length = 249 Score = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 77/242 (31%), Positives = 125/242 (51%), Gaps = 3/242 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P R+ K IA+ GIASRR+ E +I VKVNG V+ TD + V G + Sbjct: 3 KIEPIRLQKFIAQCGIASRRKAEELILGGHVKVNGKTA-ILGDKVLPTDKVFVRGKRIVV 61 Query: 70 AE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 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 HL 249 Sbjct: 242 PF 243 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 104/232 (44%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G SR++V++++ + V VNG L ++ +V D + V G + E Sbjct: 1 MRLDKLLASSGFGSRKDVKKLVKARAVTVNGELAKQVKDHVDPSNDEVLVHGERVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T D I VGRLD +T GLLLLTNDG LA Sbjct: 61 IYLMMNKPDGVISATEDVRDETVVDLLEPEDIAREPFPVGRLDKDTVGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + +N L++G++I +V +D + + + + Sbjct: 121 QLLSPKKHVPKTYEVHLKYPLGDQDINRLEEGVIILDDYRTKPAKVEVDANESEDTRIRL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K + + +V L R S G L L G RE++ + L Sbjct: 181 TITEGKYHQVKLMAQAVGNEVIFLKRRSMGSLSLDEDLAPGEYRELTDEELD 232 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 77/230 (33%), Positives = 128/230 (55%), Gaps = 3/230 (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 ++++ D GR TV D R+ VGRLD +T GLLL+TNDG LA Sbjct: 63 TYLLYKPRG-VISSVKDDKGRKTVLDFFEESPYRLYPVGRLDYDTSGLLLITNDGELANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P +VY + G + ++++ LK G+ I G +V + ++ + V + Sbjct: 122 LMHPRHMVDKVYVAKIKGFLTPEEIHSLKHGVRIDGKKSAPAKVKIISTNREKGTSIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG ++K++F+ V++L R Y L +L AG RE++++ + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVDKLSRERYAFLTLKSLTAGKYRELTREEV 231 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 159/356 (44%), Positives = 212/356 (59%), Gaps = 7/356 (1%) 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 REQLGPHLLEEAQVNLDAP-IYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 R+QLG L+ EA ++ DAP I + + + + S K+ + K Sbjct: 265 RDQLGERLVSEADLDFDAPIINQMDARTSKKAEMKKKKKSSGGAGGGWISAKDAAAVLAK 324 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL--RRTSAKK 354 R +G + D + P+F ++S R +K Sbjct: 325 HNKKPMRHGEDKRDGDGEGSERNPFGDRKR----VGVKPTFGDRKSFGDRDGGERK 376 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 67/233 (28%), Positives = 115/233 (49%), Gaps = 4/233 (1%) 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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T + + + + R+ +GRLD NT GLLL+TNDG L + Sbjct: 62 YFLLNKPNGFLSTAKDNKKRPTVLDLIEEANIQRLYPIGRLDFNTTGLLLITNDGDLTQK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----GSNAWV 189 L PS + Y V+ + + + L +KGI+I + + + W+ Sbjct: 122 LTHPSFCIPKEYHVKINACLQKKDLATFRKGIIIDKNYLAFCKEIDILKSSYKPKPSTWL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EGKNR+++K+ + ++V +L R Y + L G+ R + ++ Sbjct: 182 KLVITEGKNRQVRKMMQSLGYQVLKLKRYRYSFLTIENLTIGAYRPLKIHEIK 234 >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 = 183 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 107/230 (46%), Gaps = 4/230 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G +++ A +V + V G + Sbjct: 3 RIDKLLANMGYGTRKEVKKLLKAGVVKVDGTIIKDAKTHVDPKAQVVTVWGEEVEYKPFI 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + T + VGRLD +TEGLLLLTNDG LA Sbjct: 63 YLMMNKPKGVISATEDAVEETVVDLLEEEDRIFDPFPVGRLDKDTEGLLLLTNDGQLAHQ 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y G+V +D + ++G+V+ ++ + + G + V + Sbjct: 123 LLSPKKHVPKIYEAIIDGEVTEDDVVAFQRGVVLDDGYETKPAELVVI-RTGLRSDVRIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK +IK++F+ +V L RI GP L L G RE++ + + Sbjct: 182 ITEGKFHQIKRMFQAVGKRVIYLKRIQMGPIPLDETLELGEYRELTDEEI 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 = 182 bits (462), Expect = 5e-44, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 IYLMLHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDEISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE+S + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELSDEEVE 231 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 135/258 (52%), Positives = 174/258 (67%) 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 AWLTVSLKEGKNREIRKVMAGMNLHVSRLIRTSYGPFQLGTLQRRELEEVSPRVLRDQLP 240 Query: 247 PHLLEEAQVNLDAPIYSS 264 + + Sbjct: 241 KATEKAPPARRAPAKQAD 258 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIDDNIIEYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 90/353 (25%), Positives = 144/353 (40%), Gaps = 12/353 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG+ SRRE+E MI RV V+G + I +DG + E Sbjct: 2 SEKLQKVLARAGLGSRRELETMIQAGRVSVDGQRAKLGDRLENVDAKIRIDGHVVSVKES 61 Query: 73 TRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 T + + L T H R+ SR +SVGRLD NT GLLL T D Sbjct: 62 TDVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIRDSRWVSVGRLDANTAGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y R G++++ + L G+ ++ V +G N Sbjct: 122 GELANRLMHPSRKVEREYMCRVFGEINEKMIRNLVTGVKLEDGEARFEDVMYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + EG+NRE++++++ V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKALPRGGWMELELKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E+ +++D + + D+ + ++N+ KK Sbjct: 242 MVELPPEKESLLDVDKESRKRAKSKTQKIRRAVKRYDERSTEERNTPAGRRGRNNKKPVG 301 Query: 304 ---PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P +R + G S ++ R S K + + Sbjct: 302 SSLPSAKRGSNNGDSQPSGKPQSKGKKPAAGQKPVRSKFSPNGKAPKSKPRQR 354 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++G ++ A +V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGTPVKDAKFHVNVEEQEVMIHGEIVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LLLTNDG LA Sbjct: 61 VYLMMHKPQGVISATEDDNHETVVDLLELEDAIFDPFPVGRLDIDTEGFLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V + + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGIVTEKDVEEFAKGVILDDGYETKPGALTIL-KSDDVSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVEKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 120/232 (51%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + + Y G + D++ + G+ I+ ++ + + ++ + + Sbjct: 121 KLTHPKHEIDKTYVASVKGIISDDEIRQFETGLKIEDYTTAPAKIRVTKENKEKNYSVCE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+NR+++K+ + N V L RIS G L G R +++ ++ Sbjct: 181 ITIHEGRNRQVRKMCKAINHPVLNLRRISVGKIVLKDTKVGEYRYLTEDEIK 232 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 109/234 (46%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+ LTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLIFLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 72/231 (31%), Positives = 118/231 (51%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G +R +V+R+I + V VNG ++ + NV D + VDG + + Sbjct: 1 MRLDKLLADSGFGTRSQVKRLIKKGFVTVNGETIKDPSFNVDPQKDEVLVDGELVEYEKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + + D F R+ VGRLD + EGLLL+TNDG LA Sbjct: 61 YYLILHKPQGYITS-TKDRQMTVMELIADIPRFERLFPVGRLDKDAEGLLLITNDGELAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY V G+++++ L LKKGI ++ +V + + S + + Sbjct: 120 RLTHPKWKVPKVYFVVVEGKLNEENLEPLKKGIELKDFRAKPAKVRILKAEESESEAEIE 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EGK ++K++FE V L RI +G +LG L G R ++K+ L+E Sbjct: 180 ITEGKYHQVKRMFEKIGHPVKYLRRIQFGNLKLGNLPVGEYRFLTKEELKE 230 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 129/245 (52%), Positives = 171/245 (69%), Gaps = 2/245 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+D + +R++K +ARAG+ASRR+ E+++ RV++N ++ A V S D + Sbjct: 6 MEDAD--SGTPRGERIAKWLARAGVASRRDAEKLVEDGRVRLNNQVVTHPATFVGSGDLV 63 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V+G + +RTRLW YHK G++TTH DP GR TVF+ LPS RV+SVGRLD+N+EG Sbjct: 64 TVNGALVEAPDRTRLWRYHKTDGVMTTHRDPQGRPTVFEKLPSSMPRVVSVGRLDLNSEG 123 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDG LAR LELP T W+R YRVR HG V Q L+ L +G+ ++G+ YG ++ LD Sbjct: 124 LLLLTNDGMLARRLELPQTGWIRRYRVRVHGDVTQAMLDSLARGVTVEGVRYGSIEAGLD 183 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + KGSN+W+TV L+EGKNREI+KV V RLIRI+YGPFQLG L G EV+ K+ Sbjct: 184 SSKGSNSWLTVSLKEGKNREIRKVMRHIGLHVTRLIRIAYGPFQLGQLGKGEVEEVTGKV 243 Query: 241 LREQL 245 LREQL Sbjct: 244 LREQL 248 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 120/238 (50%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P+R+ KV++RAG+ASRR E +IA+ RV++NG + V V+ TD I VDG + Sbjct: 38 TSEPERLQKVLSRAGVASRRASEDLIARGRVQINGETVREMGVKVLPTDRITVDGQRIHT 97 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++W +HKP+G V++ D R + D + + RV +VGRLD T GLLLLTN+G Sbjct: 98 DTVLQVWAFHKPVGTVSSMQPEDDRPCIGDWVTKLPERVYNVGRLDAATAGLLLLTNNGE 157 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA + PS + + Y GQV +L++G+ ++ + L + ++ V Sbjct: 158 LANRIMHPSYEVPKTYVAVVQGQVKMGLGKVLRRGVELEDGKVKVDKFKLIEVRRGSSIV 217 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L GKNR ++++ V+ L R L L G R + K L Sbjct: 218 QLTLHSGKNRVVRRLLSAVGHPVSALTRTGIANLTLDGLKEGQFRLLHGKELAALQEM 275 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 71/242 (29%), Positives = 130/242 (53%), Gaps = 4/242 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + +VKVNG + V +D++EV+GV L + Sbjct: 2 SKELERLQKRIANSGYTSRRKAETLIVEGKVKVNGETVTELGTKVKPSDNVEVEGVKLEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T+ SD GR+ V D + +R+ VGRLD +T GLLLLTNDG Sbjct: 62 EDKLYILFYKP-AQVITSVSDDRGRTVVTDYFDDLETRIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + + Y + G + +D++ L+KGI ++ +V + ++ + Sbjct: 121 FTNLMTHPRYKIKKKYVAKLKGYLMRDEVKALEKGIQLEDGKTHPAEVKIKNQNKEKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQLGTLLAGSTREVSKKILREQLG 246 V + + EG+NR+++++FE F +V++L R+ L L AG R ++ +++ Sbjct: 181 VVEITISEGRNRQVRRMFEHFGHEVSKLSRVELADFLTLKGLNAGEGRVLTPHEVKKLRN 240 Query: 247 PH 248 Sbjct: 241 LA 242 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 65/260 (25%), Positives = 115/260 (44%), Gaps = 10/260 (3%) Query: 1 MKDKNIVQENFT---PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 +K+ IV R++K I+ G SRRE +++I Q RVK++G+ + V Sbjct: 44 VKNTIIVSNKNEIRDEVRLNKYISETGFCSRREADKLIEQGRVKIDGVKATT-GMKVSKG 102 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +DG PL+ + +KP+G+ T + + R+ +GRLD + Sbjct: 103 QSVFIDGKPLKVENELVYIVLNKPVGITCTTESKI--KGNIVDFINHEKRIFPIGRLDKD 160 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 ++GL+ +TNDG + + + Y V + + + + + G+ I G Sbjct: 161 SQGLIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKC-- 218 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K S + L +G NR+I+++ E+F ++V +L RI LG L GS R ++ Sbjct: 219 --LVKKESKNSFRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLT 276 Query: 238 KKILREQLGPHLLEEAQVNL 257 KK L E Sbjct: 277 KKELAEINRLTENSSKTEEA 296 >gi|325679067|ref|ZP_08158661.1| pseudouridylate synthase [Ruminococcus albus 8] gi|324109191|gb|EGC03413.1| pseudouridylate synthase [Ruminococcus albus 8] Length = 244 Score = 182 bits (462), Expect = 7e-44, Method: Composition-based stats. Identities = 84/234 (35%), Positives = 124/234 (52%), Gaps = 2/234 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K+IA +G SRR+ E IA +V VNG + + D I VDG+ + + + Sbjct: 2 EKIRIQKIIAESGFCSRRKAEEFIAAGKVTVNGRKVTLGDKALPGKDLIVVDGIKIDQPK 61 Query: 72 RT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + HKP G VTT +D R V D L + RV VGRLD ++EGLLLLTNDGG Sbjct: 62 KRNLYYIMLHKPRGYVTTMNDELNRKCVTDLLDGVPERVYPVGRLDKDSEGLLLLTNDGG 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + PS + YRV ++ ++L L G+ I G + V + ++ + + Sbjct: 122 FANDIMHPSRHVAKTYRVTVRPDINDEQLVKLASGVEIDGRMTAECSVVVLDKQPNRVVL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + EG+NR+I+K+ E +V RL R + GP +LG L AG RE+ LR Sbjct: 182 QMTIHEGRNRQIRKMCEAVGLEVARLKRTAVGPLRLGMLKAGEWRELKPDELRA 235 >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 = 182 bits (462), Expect = 7e-44, Method: Composition-based stats. Identities = 72/236 (30%), Positives = 117/236 (49%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + Sbjct: 3 ERLQKVIAEAGIASRRKAEKMITAGRVKVDGKVITKLGTKVDTFSNITVDDEPIERESLH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T D R+ V I R+ VGRLD +T GLLL+TNDG LA + Sbjct: 63 TYLFYKPRGVVSTASDDKGRRTVVDYF-EDIPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + +VY + G + +++ L G+ + +V + ++ V + Sbjct: 122 LMHPRNEVQKVYVAKIKGILTPEEIEGLTHGVKLDRFKAAPAKVKILKTDKRKDTQIVQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKNEVDKLMRL 237 >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 = 182 bits (462), Expect = 7e-44, Method: Composition-based stats. Identities = 65/300 (21%), Positives = 120/300 (40%), Gaps = 10/300 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E + R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + Sbjct: 2 EINSSTRLNKYISESGICSRREADRYIEQGNVFINGKRA-GIGDQVSAGDIVKVNGQLIE 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L L + + G + + R+ +GRLD +++GL+ LTN G Sbjct: 61 PRDEDDLVLIALNKPVGIVSTTESGEKGNIVDYVNHSKRIFPIGRLDKDSQGLIFLTNHG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + Y V + V + + + G+ I G +V +K + Sbjct: 121 DLVNKILRAGNDHEKEYVVTVNKPVTDEFIQGMASGVPILGTMTKKCKV----KKEAPFV 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E Sbjct: 177 FRITLVQGLNRQIRRMTEHFGYEVTKLERVRIMNVKLTGIPVGEWRDLTDDELIELFNLI 236 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 E+ V + R T K ++ + K + +R Sbjct: 237 EKSESDVKPKK-----AAKPQARNTGSKTAGKQGTSSKPKANAEPPKKKFTQPGRKKKKR 291 >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 = 182 bits (462), Expect = 7e-44, Method: Composition-based stats. Identities = 84/257 (32%), Positives = 131/257 (50%), Gaps = 5/257 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK ++I+ + R+ KV++ G+ SRR+ E IAQ RV VNG + V D Sbjct: 1 MKTEDIMAK-VNGIRIQKVLSENGVMSRRKAEEAIAQGRVTVNGHPAQ-PGNPVDPARDV 58 Query: 60 IEVDGVPLRKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 I +DGV ++ ++ + HKP G VTT SD GR V D + + V VGRLD N Sbjct: 59 IAIDGVRVQLRKKKQNVYIMLHKPRGFVTTTSDELGRRCVTDLVKDAPAHVYPVGRLDRN 118 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGLLLLTNDG A ++ PS + YRV V ++ + G+++ G V Sbjct: 119 SEGLLLLTNDGAFANLVMHPSNHISKTYRVTVRPDVSDEQAAKMSAGVMLDGRMTLPATV 178 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + ++ + + ++EG+NR+++++ E +V RL R S GP +LG L G RE+ Sbjct: 179 LVLEKQDGRVVLQITIQEGRNRQVRRMCEAVGLEVARLKRTSVGPLKLGMLQPGQWRELR 238 Query: 238 KKILREQLGPHLLEEAQ 254 + ++A Sbjct: 239 PGEVAALRNAASKKQAG 255 >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 = 182 bits (462), Expect = 7e-44, Method: Composition-based stats. Identities = 63/240 (26%), Positives = 113/240 (47%), Gaps = 1/240 (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 L+ + + D L ++ +RV VGRLD +TEGLLLL+NDG + + Sbjct: 61 YLLLHKPAGYISSLADPQGRPRV-IDLLSAVNTRVFPVGRLDYDTEGLLLLSNDGEFSNL 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y G V D + L++G+ ++ +V L + K + + + + Sbjct: 120 MTHPRYLIPKKYEAWVQGLVKPDTIRQLEQGVALEDGITAPARVRLLSSKKGQSLLELEI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 EGK R+IK++ +V +L R + L + G R ++ + + Sbjct: 180 HEGKKRQIKRMCLAVGHRVTKLKRTALAFLTLEGVPRGQFRFLTASEVESLIMLARQSGK 239 >gi|289178586|gb|ADC85832.1| Ribosomal large subunit pseudouridine synthase B [Bifidobacterium animalis subsp. lactis BB-12] Length = 266 Score = 182 bits (461), Expect = 7e-44, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 119/242 (49%), Gaps = 2/242 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 + + + R+ K++A+AG SRR+ E MI RV+V+G L+ V + V Sbjct: 18 RKQYENDGDGIRLQKLLAQAGFGSRRKCEEMITDGRVEVDGELVTELGTRVDPKRQQVRV 77 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG +R R +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+ Sbjct: 78 DGSRIRLNPRHITLALNKPRKVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLI 137 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDT 181 L+TNDG L++ + P + + Y G + L + + + ++ Sbjct: 138 LMTNDGELSQHVMHPKYEVEKTYIATLEGHMSGTVCRRLVRTGVQLDDGWIKLDHCSIID 197 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L G+NR ++++F + V RL+R GP +LG + +GS R +S+ + Sbjct: 198 SNRDQTIVKVVLHSGRNRIVRRIFGAIGFPVKRLVRTQIGPIKLGDIKSGSYRVLSQDEV 257 Query: 242 RE 243 R Sbjct: 258 RA 259 >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 = 182 bits (461), Expect = 8e-44, Method: Composition-based stats. Identities = 59/235 (25%), Positives = 101/235 (42%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A I SR +V++ I + + VNGI+ + + D I +G + + Sbjct: 1 MRIDKFLANQDIGSRSQVKQYIKKGMISVNGIVCKSPEQKIDENADQISYNGKVIGYQKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T+ + + VGRLDI+TEGLLL+T+DG L+ Sbjct: 61 HYYMLNKPSGCVSATNDNLHITVLDLLKASVPVKNLFPVGRLDIDTEGLLLITDDGELSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS--NAWV 189 L PS + Y R G ++ + K+G+ I + + + + + Sbjct: 121 NLLSPSKHVAKTYFARIDGLATEEHIKAFKEGLDIGDDKPTKPGTLVIKNTDLNTQTSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + + EG+ ++K+ FE KV L R+S G L L G RE++ L+ Sbjct: 181 LLTITEGRYHQVKRSFEALGMKVTYLKRLSMGSLTLDEALAPGEFRELTDIELQA 235 >gi|308272550|emb|CBX29154.1| Ribosomal large subunit pseudouridine synthase F [uncultured Desulfobacterium sp.] Length = 235 Score = 182 bits (461), Expect = 8e-44, Method: Composition-based stats. Identities = 72/235 (30%), Positives = 117/235 (49%), Gaps = 7/235 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 R+ K ++ AG SRR+ E+ I VKVNG+++ V D +EVDG + + Sbjct: 4 GMRLQKYLSAAGFCSRRKGEKFILSGLVKVNGVVISELGTKVDPAKDVVEVDGNKIEAKD 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G +TT S R + +L +I R+ VGRLD ++ GLLLLTNDG L Sbjct: 64 DLIYIALNKPKGYITTCSRQRDRIVL--DLVNIPQRIYPVGRLDKDSTGLLLLTNDGRLH 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 VL PS + Y V + + L+ +K+G + G +++ + + + Sbjct: 122 NVLSHPSFDHEKEYEVSLKWPIADEALDKMKEGFFLMGSKTRPAEISRISPEK----FHI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L+EG+NR+I+++ + +V L RI +LG L G+ R ++ K + L Sbjct: 178 TLKEGRNRQIRRMVDKVGNRVLELKRIRISDVKLGNLKEGAWRYLTDKEKKALLK 232 >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 = 182 bits (461), Expect = 8e-44, Method: Composition-based stats. Identities = 73/252 (28%), Positives = 120/252 (47%), Gaps = 4/252 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG+++ D I V G P++ ++ Sbjct: 2 ERLQKILAQAGVASRRKCEELIQAGSVEVNGVIVTELGTKADPDQDMITVKGRPIKTEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + V D L + RV VGRLD +TEGLLLLTNDG A Sbjct: 62 IYLMMNKPKGVITSASDPEGR-KIVSDYLKGVKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVT 190 +L P + Y G +L+ LKKGIV++ + G + + Sbjct: 121 LLTHPKHHVPKTYVATVKGVPHGTELDKLKKGIVLEDGITAPAEVEYKDVDPNGKESVIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++FE + V RL RI++G L L G TR ++K + + Sbjct: 181 ITIYEGRNRQVRRMFEAISHPVIRLKRIAFGDLLLQNLKRGLTRPLTKDEINRLIQLAKS 240 Query: 251 EEAQVNLDAPIY 262 + + Sbjct: 241 DNTKKKRTGRGS 252 >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 = 182 bits (461), Expect = 8e-44, Method: Composition-based stats. Identities = 77/232 (33%), Positives = 124/232 (53%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L + R+ +GRLD +T GL+LLTNDG Sbjct: 62 KKYIALNKPTGYISSVKDDKGRKT-ILDLIDVKERIYPIGRLDYDTSGLILLTNDGDFYN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G + +L KKG+VI ++ + + K +NA V + Sbjct: 121 KVIHPREEKEKVYVATIKGIPNSSELQDFKKGLVIDDYLTSPSKIKIISVKNNNAEVIIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + EG+NR+++K+ E N V +L RIS G LG L GS R +++K + + Sbjct: 181 IMEGRNRQVRKMCEKINHPVIKLKRISVGHVGLGDLPIGSWRYLTQKEIDKF 232 >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 = 182 bits (461), Expect = 8e-44, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ ++ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYLSEANSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVTRV----DKSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 182 bits (461), Expect = 8e-44, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 116/232 (50%), Gaps = 4/232 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 +R+ KV+A I +R+EV+ ++ Q+ + V+G++ ++V I VDG PL Sbjct: 2 KRERLDKVLANMAIGTRKEVKALVKQRLIVVDGVVATDPGMHVIAEEQEILVDGEPLNFK 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L P +V+ D + V +V VGRLDI+TEGLLLLTNDG L Sbjct: 62 RWVYVLLNKPPG-VVSATEDNVHETVVDLLPYEWAIKVHPVGRLDIDTEGLLLLTNDGHL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + L P + + Y R G+V + + KG+ ++ ++ + G + + Sbjct: 121 SHSLLSPKKKVDKEYFARIEGRVTERHVQEFAKGVELEDFTTLPAKLEII-SSGETSEIR 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EGK ++K++F F+ V L RI GP L +L G RE++++ L Sbjct: 180 VTIMEGKFHQVKRMFAAFDLHVVYLQRIRMGPLHLDPSLAPGEYRELTEEEL 231 >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 = 182 bits (461), Expect = 9e-44, Method: Composition-based stats. Identities = 67/319 (21%), Positives = 123/319 (38%), Gaps = 8/319 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G+ SRR +R I Q V +NG + V D + V+G + E Sbjct: 7 RLNKYISESGLCSRRAADRYIEQGNVYINGKKAKV-GDKVFFGDLVMVNGQTIEPKEVEH 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + T + G + + RV +GRLD +++GL+ LTN+G L + Sbjct: 66 SVLIAYNKPVGITSTTEAGVKGNIVDHVNHSERVFPIGRLDKDSQGLIFLTNNGDLVNKI 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + + + + + KG+ I GI +VT K S + L Sbjct: 126 LRAGNNHEKEYLVTVNKPLTEQFITNMSKGVPILGIMTKKCKVT----KESPFVFKITLI 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E F ++V +L R L + G RE++ + + + Sbjct: 182 QGLNRQIRRMCEHFGFEVTKLERTRIMNIGLKGIPLGEWRELTAEEQTDIYNMVAKSSSL 241 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 AP S++ ++ + ++ + K + AS Sbjct: 242 EAASAPKKSAKKPEQELTEKPVAR---KKNSRPAGAKPSAAGKARPERKSGPASRGASAS 298 Query: 315 WMAKGIHSSFLSDSGQREE 333 S+ S + Sbjct: 299 AAPDWNKSNGPSRRPVKPS 317 >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 = 182 bits (461), Expect = 9e-44, Method: Composition-based stats. Identities = 72/236 (30%), Positives = 116/236 (49%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + Sbjct: 3 ERLQKVIAEAGIASRRKAEKMITAGRVKVDGQVVTKLGTKVDTFSNITVDDEPIERESLH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T D ++ V I RV +GRLD +T GLLL+TNDG LA + Sbjct: 63 TYIFYKPRGVVSTADDDKGRKTVVDYF-EDIPYRVYPIGRLDYDTSGLLLMTNDGELANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 L P + +VY + G + +++ L KG+ + +V + V + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPEEIKSLTKGVKLGRFKSAPAKVKVLKTDKRKNTQIVQI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKNEVDKLMKL 237 >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 = 182 bits (461), Expect = 9e-44, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 120/237 (50%), Gaps = 2/237 (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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 193 TTMVKVVLHSGKNRIVRRIFGAVGYPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVR 249 >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 = 182 bits (461), Expect = 9e-44, Method: Composition-based stats. Identities = 137/343 (39%), Positives = 187/343 (54%), Gaps = 3/343 (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---SFPSKRSLRRTSAK 353 + + +R R+ S + +R Sbjct: 322 KRHEAEAARTEEAKPARRGGASGRATLTLGGASAKPVRSGKPA 364 >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 = 181 bits (460), Expect = 9e-44, Method: Composition-based stats. Identities = 62/237 (26%), Positives = 109/237 (45%), Gaps = 8/237 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E ++++ I+ A SRRE +R+I RV +NG + V D + +DG Sbjct: 5 IYEKEQNMKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDDDVVTIDGQV 63 Query: 67 LRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + K E+ +HKP+G+ T +D + + + R+ VGRLD +EGL+LLT Sbjct: 64 IAKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLT 121 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG +A + + + Y V ++ + G+ I+ +VT Sbjct: 122 NDGAIANQILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----G 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 178 QSTFRIVLTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELHELEVGKWRSVTAEELE 234 >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 = 181 bits (460), Expect = 9e-44, Method: Composition-based stats. Identities = 63/250 (25%), Positives = 111/250 (44%), Gaps = 7/250 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E R++K I+ G SRRE +++I Q RVK++G+ + V + + +DG L Sbjct: 57 NEIRDEVRLNKYISETGFCSRREADKLIEQGRVKIDGVKATT-GMKVSNGQSVSIDGKSL 115 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + +KP+G+ T + V + R+ +GRLD +++GL+ +TND Sbjct: 116 KVENELVYIALNKPVGITCTTESKIKGNIVDFI--NHEKRIFPIGRLDKDSQGLIFMTND 173 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + + + G+ I G +K S Sbjct: 174 GDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKC----LVKKESKN 229 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+F ++V +L RI LG L GS R ++KK L E Sbjct: 230 SFRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLTKKELAEINRL 289 Query: 248 HLLEEAQVNL 257 Sbjct: 290 TENSSKTEEA 299 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 129/242 (53%), Gaps = 4/242 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R++K IA++GI SRR+ + +I + +VKVNG ++ + + D +EV+G ++ E+ Sbjct: 2 ERLNKYIAKSGICSRRKADELILEGKVKVNGKTVKNLGLKIDPKKDVVEVEGKIVKPTEK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP+G ++ T F 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V + GK R I++ + F +V RLIR+ G +G L R +S+K +R L Sbjct: 182 LVEIHSGKKRIIRRFMDSFGHRVKRLIRVKIGSIDIGNLKPFDYRYLSEKEIRSILDEKR 241 Query: 250 LE 251 Sbjct: 242 DS 243 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 78/238 (32%), Positives = 122/238 (51%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K++A AG+ASRRE E++I RV+VNG ++ + I VDG P+ + + Sbjct: 3 ERLQKILAAAGVASRREAEKIITAGRVRVNGKVVTELGCKFDADKVRISVDGKPIAQEAK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 Y + T + ++ D + ++ RV VGRLD NTEGLLLLTNDG LA+ Sbjct: 63 AYYMFYKPRGVVTTMSDPQNR-RSIADFVQNLPERVFPVGRLDFNTEGLLLLTNDGALAQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + + Y V+ G V Q+KL+ L+ G+ ++ V L Sbjct: 122 ALMHPSHEVNKTYFVKVPGIVPQEKLDQLRLGVKLEDGPTAPAIVNLRDYDHERGFTLFD 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + EG+NR+I+++ + + V L RI GP QL L G R +S++ L + Sbjct: 182 ITIHEGRNRQIRRMCDAIGFPVRDLKRIKLGPLQLQNLGRGKFRSLSEQELSQLRKAA 239 >gi|221310234|ref|ZP_03592081.1| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. 168] Length = 245 Score = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 125/239 (52%), Gaps = 3/239 (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 LY +++ D GR V D +I R+ +GRLD +T G Sbjct: 65 EVNGLKVEREEPVYFLLYKPRG-VISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSG 123 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL- 179 LLLLTNDG A L P + + Y + G ++ L L++GI ++ + L Sbjct: 124 LLLLTNDGEFANKLMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLL 183 Query: 180 -DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K + + + + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 184 SLDKKKQTSIIQLTIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELR 242 >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 = 181 bits (460), Expect = 1e-43, 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+ +L + R+ +GRLD NT GLLL+TNDG + Sbjct: 63 NVYIALNKPEGYVSTVKDERDRKTIM-DLVEVEERIFPIGRLDYNTSGLLLMTNDGDVYN 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|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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 66/260 (25%), Positives = 115/260 (44%), Gaps = 10/260 (3%) Query: 1 MKDKNIVQENFT---PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 +K+ IV R++K I+ G SRRE +++I Q RVK++G+ + V Sbjct: 44 VKNTIIVSNKNEIRDKVRLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKG 102 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +DG PL+ +KP+G+ T + V + R+ +GRLD + Sbjct: 103 QSVSIDGKPLKVENELVYIALNKPVGITCTTESKIKGNIVDFI--NHEKRIFPIGRLDKD 160 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 ++GL+ +TNDG + + + Y V + + + + + G+ I G Sbjct: 161 SQGLIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITHEFIKGMSNGVPILGTVTKKC-- 218 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K S + L +G NR+I+++ E+F ++V +L RI LG L GS R ++ Sbjct: 219 --LVKKESKNSFRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLT 276 Query: 238 KKILREQLGPHLLEEAQVNL 257 KK L E Sbjct: 277 KKELAEINRLTENSSKTEEA 296 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 78/273 (28%), Positives = 124/273 (45%), Gaps = 1/273 (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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 AQ P + + Sbjct: 259 ISREARAQAGPANPQGAGAAAEAQGDVDREDGE 291 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 104/229 (45%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V++ I Q+V+V+G L NV + I V G L + Sbjct: 1 MRLDKLLGQAGFGSRGQVKKFIRSQQVRVDGELARTGNQNVDPSLQTITVSGKQLSYSPH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYILNKPAGLVSVVRDQHYQTVIDLIAVVDRREGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + D + GI + G ++ + + + + Sbjct: 121 RLLHPKYHVDKTYYVEVNGDLGIDAIAFFDNGIAFLDGTVCKSAKLQIISSSSEVSRAYI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+GPF+LG L G RE++ + Sbjct: 181 TITEGKFHQVKKMFLAYGVKVTYLKRISFGPFELGDLSVGEYRELTAEE 229 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 107/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ ++ + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTI-SKSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 180 VITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 231 >gi|310658781|ref|YP_003936502.1| rlub [Clostridium sticklandii DSM 519] gi|308825559|emb|CBH21597.1| RluB [Clostridium sticklandii] Length = 235 Score = 181 bits (460), Expect = 1e-43, 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 YYYMLNKPIGYVSTAKDQFGRPSVVDFF-DKKQRIYPVGRLDYDSRGLLLMTNDGDLTYA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P ++Y V + ++ K GI I G ++T N V + Sbjct: 120 LTHPKYHIEKIYEVIVSSTLSNSEIEKFKSGIDIGGYVTAKSRITFI----GNTSYEVII 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +EGKNR+I+K+F V L R+S G +L L G+ R++ + + Sbjct: 176 KEGKNRQIRKMFSALGKDVLDLKRVSIGKLKLMDLKEGTYRKLINEEVE 224 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 73/245 (29%), Positives = 120/245 (48%), Gaps = 5/245 (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 + + T++ + T +L R+ +VGRLD +T G+LLLTNDG A Sbjct: 62 YFLMNKPKKTMCTSNDE--FDRTTVIDLIPCKERIFTVGRLDYDTSGVLLLTNDGEFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWVT 190 + P +VY + +G + +++ +KKGIV+ ++ L + + Sbjct: 120 IIHPRYHIPKVYNLTINGILTPEEMIQIKKGIVLDDGKKTLPAKLKLTEKDVTKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+IK++ E ++V RL R + L G R + + + Sbjct: 180 LTIYEGRNRQIKRMMEALGYEVRRLHRKELAFLKCSDLRQGEYRILKPFEVAQLRSLATK 239 Query: 251 EEAQV 255 + + Sbjct: 240 GKMKS 244 >gi|229543960|ref|ZP_04433019.1| pseudouridine synthase [Bacillus coagulans 36D1] gi|229325099|gb|EEN90775.1| pseudouridine synthase [Bacillus coagulans 36D1] Length = 245 Score = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 128/237 (54%), Gaps = 3/237 (1%) 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 Y +++ SD GR TV D +RV VGRLD +T GLL++TNDG A + Sbjct: 62 YYLFYKPRG-VISAVSDDKGRKTVSDYFRDAGARVYPVGRLDYDTSGLLVVTNDGEFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + + Y R G + +L L+KGI ++ + L ++ A V + Sbjct: 121 LMHPRFEIDKTYIARLSGIPSRQELKQLEKGIRLKDGMTAPARAKLLSMDKRKKKAIVQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++FE + V +L R +YG L L AG RE++ ++ Sbjct: 181 TIHEGRNRQVRRMFEHLGYPVEKLRREAYGMLTLKGLNAGEKRELTPHEVKTLRSLA 237 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 61/244 (25%), Positives = 104/244 (42%), Gaps = 4/244 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + V G + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEYKPFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + T + VGRLD +TEGLLLLTNDG LA Sbjct: 64 YLMMNKPSGVVSATEDAVEETVVDLLEEEDRAFCPFPVGRLDKDTEGLLLLTNDGQLAHQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G+V + + ++G+V+ ++ + + G + V V Sbjct: 124 LLSPKKHVPKTYFAVVGGEVTEADVAAFQRGVVLDDGYETKPAKLVVL-KSGLRSDVEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLE 251 + EGK ++K++F+ +V L RI GP L L G RE++ + + Sbjct: 183 ITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLALDPDLAVGEYRELTDEEVDMLKQYRPET 242 Query: 252 EAQV 255 + + Sbjct: 243 DEKK 246 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 119/242 (49%), Gaps = 2/242 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 + + + R+ K++A+AG SRR+ E MI RV+V+G L+ V + V Sbjct: 9 RKQYENDGDGIRLQKLLAQAGFGSRRKCEEMITDGRVEVDGELVTELGTRVDPKRQQVRV 68 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG +R R +KP +++T DP GR T+ D + + R+ +GRLD ++EGL+ Sbjct: 69 DGSRIRLNPRHITLALNKPRKVLSTMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLI 128 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDT 181 L+TNDG L++ + P + + Y G + L + + + ++ Sbjct: 129 LMTNDGELSQHVMHPKYEVEKTYIATLEGHMSGTVCRRLVRTGVQLDDGWIKLDHCSIID 188 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L G+NR ++++F + V RL+R GP +LG + +GS R +S+ + Sbjct: 189 SNRDQTIVKVVLHSGRNRIVRRIFGAIGFPVKRLVRTQIGPIKLGDIKSGSYRVLSQDEV 248 Query: 242 RE 243 R Sbjct: 249 RA 250 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 60/245 (24%), Positives = 111/245 (45%), Gaps = 7/245 (2%) 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 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + K + +++ + +D + +R+ +GRLD +EGL+ LTN Sbjct: 59 ISKKKEKPVYIAFHKPTGIVCTTDTRVEPDNIIEYINYPTRIFPIGRLDKMSEGLIFLTN 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y V +D ++ + GI I + ++ Sbjct: 119 DGDIVNKILRSRNNHGKEYIVTVDHSIDDRFISRMASGIPILDTVTKKCE----VEQIGR 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E+ N++V +L RI +L + G+ R+++K+ L E Sbjct: 175 KTFRIVLTQGLNRQIRRMCEYLNYRVTKLKRIRIMNVEL-DIPKGTYRDLTKEELDEIYR 233 Query: 247 PHLLE 251 Sbjct: 234 LTAES 238 >gi|312135342|ref|YP_004002680.1| pseudouridine synthase [Caldicellulosiruptor owensensis OL] gi|311775393|gb|ADQ04880.1| pseudouridine synthase [Caldicellulosiruptor owensensis OL] Length = 236 Score = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 73/228 (32%), Positives = 118/228 (51%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A+ GIASRR+ E +I Q RVKVNG + + V D +E+DG + + Sbjct: 1 MRLQKFMAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEIDGKRISLQRQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G++++ D GR TV D + + 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|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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 106/234 (45%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + Sbjct: 2 KNVRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYK 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L ++ + T D L VGRLDI+TEG LL+TNDG L Sbjct: 62 EFVYLMMHKPQGVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 + L P + Y G V ++ + KG+++ +T+ + + + Sbjct: 122 SHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 181 ELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 234 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 133/257 (51%), Positives = 169/257 (65%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++KV++RAGIASRRE ERMI RV VNG + A+NV + D I VDG + + E Sbjct: 9 GDRIAKVLSRAGIASRREAERMIEDGRVSVNGKTITSPALNVTADDRIVVDGKQVGEPEP 68 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R+WLYHKP GLVTT D R TVF +LP RV+SVGRLD+N+EGLLLLTNDG + R Sbjct: 69 PRIWLYHKPAGLVTTERDEKDRPTVFASLPETMPRVMSVGRLDLNSEGLLLLTNDGEVKR 128 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELPST WLR YRVR +G V + KL+ L++GI ++GI Y M VT D Q+G+NAW+TV Sbjct: 129 KLELPSTGWLRRYRVRINGSVSEAKLDELREGITVEGIQYQPMVVTFDRQQGANAWLTVS 188 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 LREGKNREI++ VNRLIR+SYGPFQL L G E+ ++++R+QLG Sbjct: 189 LREGKNREIRRAMGEIGVTVNRLIRVSYGPFQLAALKQGEVEELKQRVVRDQLGISGKPT 248 Query: 253 AQVNLDAPIYSSETLVR 269 + + R Sbjct: 249 PKRVRKPVNRPTRGKKR 265 >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 = 181 bits (460), Expect = 1e-43, Method: Composition-based stats. Identities = 136/258 (52%), Positives = 175/258 (67%) 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 AWLTVSLKEGKNREIRKVMAGMNLHVSRLIRTSYGPFQLGTLLRRELEEVSPRVLRDQLP 240 Query: 247 PHLLEEAQVNLDAPIYSS 264 + + Sbjct: 241 KATEKTPTTQRAPAKQAD 258 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 116/233 (49%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA-E 71 R++K IA +G+ASRR+ E +I + R++VN +++ + V D + D P+ 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 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWV 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|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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 61/254 (24%), Positives = 109/254 (42%), Gaps = 8/254 (3%) Query: 1 MKDKNIVQ---ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS- 56 M K+ + + R+ K +A G+ SR+EV+ +I + ++VNG +++ V Sbjct: 1 MNGKSRINALLKWGKRMRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKTQVNEF 60 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 D + G + + L+ + T + D + VGRLD Sbjct: 61 EDTVTYLGEIIAYQKDFYYILHKPAGVISATQDNHDQTVIDLLKDQDYREDLFPVGRLDK 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM 175 +TEGLL+LTNDG A L P + Y G + ++ + L +G++I Sbjct: 121 DTEGLLILTNDGIFAHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPA 180 Query: 176 QVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGS 232 ++ +D + + + L EGK ++K++ + +V L RI G F L L G Sbjct: 181 KLQIDQVDQESETSIIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFWLPKDLNKGQ 240 Query: 233 TREVSKKILREQLG 246 R ++K+ L + Sbjct: 241 YRPMTKEELEQVRE 254 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 87/231 (37%), Positives = 134/231 (58%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+IA+AG+ASRR+ E+ + RV+VNG + + D IEVDG L +AE+ Sbjct: 5 ERLQKLIAQAGLASRRQAEQWLKDGRVRVNGRSVT-LGDKADPSVDRIEVDGKALPRAEQ 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G VTT DP GR T+ L I RV VGRLD+N+EGLLLLTNDG L + Sbjct: 64 KLYLLLNKPLGYVTTLKDPQGRPTIRRFLKGIPQRVYPVGRLDVNSEGLLLLTNDGALTQ 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P Q + YRV+ +G++ L++G+ ++ V N+W + Sbjct: 124 HLLHPRHQVSKTYRVKVNGRISPQACRQLEQGVELEDGVTAPAVVRNVHHSPRNSWFDLE 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +REG+NR+++++ ++V+ L RI G +LGTL G R ++ K +++ Sbjct: 184 IREGRNRQVRRMCRGVGFEVSALKRIRIGSLELGTLAKGQCRSLTSKEIQD 234 >gi|239828089|ref|YP_002950713.1| pseudouridine synthase [Geobacillus sp. WCH70] gi|239808382|gb|ACS25447.1| pseudouridine synthase [Geobacillus sp. WCH70] Length = 240 Score = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 108/231 (46%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VK++G++++ V T + V G + E Sbjct: 4 RIDKMLANMGYGTRKEVKKLLKSGVVKIDGVVVKDPKTQVNPTEQVVTVRGKEVEYKEFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + P + T + VGRLD +TEGLLLLTNDG LA Sbjct: 64 YLMMNKPPGVVSATEDVVEETVVDLLEEEDRVFSPFPVGRLDKDTEGLLLLTNDGQLAHQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G+V ++ + ++GIV+ ++ + + G + V V Sbjct: 124 LLSPKKHVPKTYFAVIDGEVTEEDIASFRRGIVLDDGYETKPAELVVL-KSGLRSDVEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F +V L RI GP L +L G RE++ + + Sbjct: 183 ITEGKFHQVKRMFRAIGKRVIYLKRIQMGPLVLDPSLDLGEYRELTDEEVE 233 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 102/231 (44%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +GI SR+EV++++ V ++G + +V + V G P+ E Sbjct: 1 MRLDKLLANSGIGSRKEVKKIVKAGAVSIDGKQAKDVKTHVDPSEHEVTVYGEPIEYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + L T + GRLD +T GLLLLTNDG LA Sbjct: 61 IYLMMNKPQGVLSATEDSRQKTVIDLLAPDDMRFEPFPAGRLDKDTVGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + ++ + L+ G+ I+G +V + + + Sbjct: 121 RLLSPKKHVPKTYEVHLRSGLSEEDIANLESGVFIEGGYKTKPAKVETIANSEEHTEIRL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++ + +V L R+S G L +L G RE++++ L Sbjct: 181 TITEGKYHQVKQMAKAVENEVIFLKRLSMGSLLLDPSLEPGEYRELTEEEL 231 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 108/234 (46%), Gaps = 7/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ GI SRR ++ IA+ +V +NG V D + +DG ++K ++ Sbjct: 1 MRINKYLSETGIISRRGADKWIAEGKVTINGEPATV-GSQVQDGDIVCIDGKEVKKEQQL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T + V + + R+ +GRLD +EGLLLLTNDG + Sbjct: 60 VYIALNKPVGITSTTERHIKGNVV--DFVNHPLRIFHIGRLDKESEGLLLLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + + +N + G+ I +K S+ + L Sbjct: 118 ILRAENHHEKEYIVQVDKPITEQFINKMSAGVDILDTTTLPC----YVEKISDKVFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +G NR+I+++ + V RL RI +LG L G R+++ K E Sbjct: 174 EQGLNRQIRRMCSALGYSVKRLQRIRIMNIKLGNLKVGQWRDLTDKEQTELFKL 227 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 62/301 (20%), Positives = 116/301 (38%), Gaps = 13/301 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFINGKRAT-IGDQVMPGDVVKVNGRLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + D + + R+ +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVFIALNKPVGIVSTTEDSERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V D + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDDFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L L G R+++ L Sbjct: 179 ITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGLPPGEWRDLTDDELIALFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 ++ + + + +++K + + S K+ +P ++ Sbjct: 239 SSSEAKPTSKAKAKPKTAGIKRP--------VVKIEKTNEKARPASNGKRFTSPGRKKKG 290 Query: 311 A 311 Sbjct: 291 R 291 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 116/237 (48%), Gaps = 2/237 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 N R+ K++A+AG SRR+ E +I RV+++G L+ V + VDG Sbjct: 13 DNNNEGIRLQKLLAQAGFGSRRKCEEIITDGRVEIDGELITELGTRVDPKHQEVRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 73 VRVNPNHVTLALNKPKRVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G++ L + + + + Sbjct: 133 DGELSQHIMHPKYEVEKTYIATLDGRISGTVCRRLVTTGVQLDDGWIKLDRCAILDSSRD 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V V L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ +R Sbjct: 193 STLVKVVLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGTYRVLSQVEVR 249 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 116/237 (48%), Gaps = 2/237 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 N R+ K++A+AG SRR+ E +I RV+++G L+ V + VDG Sbjct: 13 DNNNEGIRLQKLLAQAGFGSRRKCEEIITDGRVEIDGELITELGTRVDPKHQEVRVDGSR 72 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R +KP +++ DP GR T+ D + + R+ +GRLD ++EGL+L+TN Sbjct: 73 VRVNPNHVTLALNKPKRVLSAMDDPKGRYTLRDIVGDKYERIFHMGRLDYDSEGLILMTN 132 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG L++ + P + + Y G++ L + + + + Sbjct: 133 DGELSQHVMHPKYEVEKTYIATLDGRISGTVCRRLVTTGVQLDDGWIKLDRCAILDSSRD 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V V L GKNR ++++F + V RL+R GP +LG L +G+ R +S+ +R Sbjct: 193 STLVKVVLHSGKNRIVRRIFGSIGFPVRRLVRTQIGPIKLGDLKSGTYRVLSQVEVR 249 >gi|227498494|ref|ZP_03928640.1| pseudouridine synthase [Acidaminococcus sp. D21] gi|226903952|gb|EEH89870.1| pseudouridine synthase [Acidaminococcus sp. D21] Length = 246 Score = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 83/230 (36%), Positives = 127/230 (55%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A +G+ASRRE E++I Q RV VNG + V TD I +DG PLR ER Sbjct: 7 ERLQKMMAASGVASRRECEKIILQGRVTVNGKPVIELGTKVSPTDRILIDGRPLR-KERH 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R +L +KP ++TT DP GR TV + + RV VGRLD TEGLL++TNDG LA+ Sbjct: 66 RYFLLNKPPAVMTTMKDPRGRRTVAELMDKERERVYPVGRLDFMTEGLLIMTNDGALAQG 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTV 191 + PS + Y V G V+++KL+ L+ GI + +V + + V Sbjct: 126 MTHPSYHINKTYEVVVDGHVEEEKLDKLRTGIRLCDGMTAPALVEVKRYDSRRDQSIFEV 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+NR+++++ E + V +L R L + G+ RE++ + Sbjct: 186 TIHEGRNRQVRRMCEAIGYPVRKLKRTQVAFLSLQGVKKGAYRELTDDEV 235 >gi|310642601|ref|YP_003947359.1| pseudouridine synthase [Paenibacillus polymyxa SC2] gi|309247551|gb|ADO57118.1| Pseudouridine synthase [Paenibacillus polymyxa SC2] Length = 252 Score = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 73/252 (28%), Positives = 119/252 (47%), Gaps = 4/252 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A+AG+ASRR+ E +I V+VNG+ + D I V G P++ ++ Sbjct: 2 ERLQKILAQAGVASRRKCEELIQAGSVEVNGVTVTELGTKADPDQDMITVKGRPIKTEKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + V D L + RV VGRLD +TEGLLLLTNDG A Sbjct: 62 IYLMMNKPKGVITSASDPEGR-KIVSDYLKGVKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVT 190 +L P + Y G +L+ LKKGIV++ + G + + Sbjct: 121 LLTHPKHHVPKTYVATVKGVPHGTELDKLKKGIVLEDGITAPAEVEYKDVDPDGKESVIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++FE + V RL RI++G L L G TR ++K + + Sbjct: 181 ITIYEGRNRQVRRMFEAISHPVIRLKRIAFGDLLLQNLKRGLTRPLTKDEINRLIQLAKS 240 Query: 251 EEAQVNLDAPIY 262 + + Sbjct: 241 DNTKKKRTGRGS 252 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 75/239 (31%), Positives = 111/239 (46%), Gaps = 2/239 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AGIASRR E +I RV+VNG ++ V S+ D +EVDG +R + Sbjct: 1 MRLQKYLAEAGIASRRASEELILAGRVRVNGEVVRELGTTVDSSRDRVEVDGQKIRPEPK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + T R D + RV VGRLD ++EGLLLLTNDG LA Sbjct: 61 IYVLLYKPRGYVTTARDPQGRRKVT-DLVAGAGGRVFPVGRLDYDSEGLLLLTNDGELAY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V L + +G+ + V L + G A V + Sbjct: 120 RLTHPRFHVPKTYHVVLDRSPGPAALRAIARGVELDDGLTAPAGVRLVRRDGREALVEMT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+ R++++++ ++V RL R+ +LG L G R + +RE L Sbjct: 180 IHEGRKRQVRRMWAALGFEVQRLKRVRMAGLELGGLEPGRWRHLRTTEVRELRKLVRLP 238 >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 = 181 bits (459), Expect = 1e-43, Method: Composition-based stats. Identities = 70/236 (29%), Positives = 117/236 (49%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGIASRR+ E+MI RVKV+G ++ + V + +I VD P+ + Sbjct: 3 ERLQKVIAEAGIASRRKAEKMIVAGRVKVDGKVVTKLGTKVETFSNITVDDEPIERESLH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T D ++ V + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 63 TYLFYKPRGVVSTADDDKGRKTVVDYF-EDVPYRLYPVGRLDYDTSGLLLMTNDGKLANL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTV 191 L P + +VY + G + D++ L G+ + +V + ++ + + Sbjct: 122 LMHPRNEVSKVYVAKIKGILTPDEIKTLTTGVKLDRFKAAPAKVKILKTDKRKDTQIIQL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG ++K++F+ V +L R Y L +L +G RE+SK + + + Sbjct: 182 TIHEGHYHQVKRMFKAVGHLVEKLSREKYAFLTLDSLTSGQYRELSKHEVDKLMRL 237 >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 = 181 bits (459), Expect = 2e-43, Method: Composition-based stats. Identities = 143/336 (42%), Positives = 194/336 (57%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VD PL Sbjct: 19 PEGERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDSDRITVDDEPLPAR 78 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGL Sbjct: 79 ERTRLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGL 138 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A+V+ P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T Sbjct: 139 AKVIAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLT 198 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L Sbjct: 199 LGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLA 258 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E+A V+ ++P+ + + ++ G S+ + + Sbjct: 259 EQAGVDFESPVRETIAPFGSPKKATRATQAAPAGRGRQGARDEGASEPRSGSRGGSAGRP 318 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + + R+ R+ Sbjct: 319 PRDPARPAAPRAGARPAPRPPSPTVWRADEETRPRA 354 Score = 43.2 bits (100), Expect = 0.056, Method: Composition-based stats. Identities = 16/116 (13%), Positives = 31/116 (26%), Gaps = 2/116 (1%) Query: 239 KILREQLGPHLLEEAQVN-LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 ++L E+L P + A + E R + P + + Sbjct: 389 RVLVERLQPSPEKPAPEPHRRVRFRNEEERSAPRDRAREDRPRQDRPGQDRPREDRPRDD 448 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSD-SGQREENHRRSPSFPSKRSLRRTSA 352 + + P R + + D +R E +P+ R S Sbjct: 449 RPRSEGPRENRARDERPGRDEFRRGAPAGDARPRRREAGEAAPAERRGPPRERPSD 504 Score = 39.0 bits (89), Expect = 1.00, Method: Composition-based stats. Identities = 12/120 (10%), Positives = 23/120 (19%), Gaps = 3/120 (2%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 R + K R E A +N +++ Sbjct: 360 RGMDPKTARAAAAERGRERVGAIQAAGERRVLVERLQPSPEKPAPEPHRRVRFRNEEERS 419 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + P R + +R P + RR + Sbjct: 420 APRDRAREDRPRQDRPGQDRPRED---RPRDDRPRSEGPRENRARDERPGRDEFRRGAPA 476 >gi|154686561|ref|YP_001421722.1| RluB [Bacillus amyloliquefaciens FZB42] gi|154352412|gb|ABS74491.1| RluB [Bacillus amyloliquefaciens FZB42] Length = 244 Score = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 74/243 (30%), Positives = 121/243 (49%), Gaps = 3/243 (1%) 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 +++ D GR V D + R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAADDDKGRKVVTDFFKEVPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + + Y + G ++ L L++GI ++ + L + + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPSKELLRKLERGIQLEEGKTAPARAKLLSLDKRKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++FE V +L R Y L L G RE+S ++ Sbjct: 181 TIHEGRNRQVRRMFEAIGHDVLKLKREEYAFLDLRGLRTGDARELSPHEVKRLRALAEHG 240 Query: 252 EAQ 254 + Sbjct: 241 KNA 243 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 118/230 (51%), Gaps = 2/230 (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 + T V D L I R+ VGRLD++TEG LL+TNDG L Sbjct: 63 IYVLLNKPAGYVTTLSDPQGR-PMVSDLLADIPLRLFPVGRLDLDTEGALLMTNDGELGN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y G DKL L+ GI I G+ V L + V + Sbjct: 122 AILHPRYEVNKTYEAEVSGSPSVDKLKRLESGIEIDGVMTRPAVVRLLRRHKGTTLVEIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK R+++K+F+ N +V L R +YG +LG+L G R +++ L+ Sbjct: 182 IHEGKKRQVRKMFQAINHRVLHLRRTAYGNLRLGSLPLGKYRVLNQNDLK 231 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 88/321 (27%), Positives = 136/321 (42%), Gaps = 1/321 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ +K++ E +V RL R +G +G L G R + + +R LE Sbjct: 184 VGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGRFRRLEPEEVRALRQRVGLES 243 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + R + P + + + G + Sbjct: 244 GTPARGPSVRELPKAARRHGHGPPAAPGAAPPPAEPDADEVGPRARGASRAGPRAAAPGP 303 Query: 313 NVWMAKGIHSSFLSDSGQREE 333 ++ S +G R Sbjct: 304 GGRASRPSRPSRPGRAGTRRR 324 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVTRV----DKSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFMNEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITTEELELLIG 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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 83/347 (23%), Positives = 144/347 (41%), Gaps = 12/347 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + +++ KV+AR G+ SRR+VE I+Q R+KVNG+ V D I VDG +++ Sbjct: 14 PSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEAT-LGQRVDLHDAIAVDGKLIKRE 72 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E R + + T + R I++GRLDINT GLLL T Sbjct: 73 EAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFT 132 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KG 184 DG LA L PS + R Y VR G+VD + + LK G++++ + +G Sbjct: 133 TDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPAKFTDIQKAPGGEG 192 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 N W + EG+NRE+++++E V+RL R+ +GP L L G RE+++ + + Sbjct: 193 FNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPMGRWREMTQGEI-D 251 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L + + + + + + R + + + + + ++ Sbjct: 252 ILAAEVGLQPVALPAMKLKAKDKMERLQRKSTRPLGRGERVRNLRPAHEGAATGERPARQ 311 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 P S + + + + + R R Sbjct: 312 PREEAPRKPTRGSTVAERPSEMRKRPGKPDGDKPA---GRGRGKPRG 355 >gi|323489657|ref|ZP_08094884.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] gi|323396788|gb|EGA89607.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] Length = 243 Score = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 81/231 (35%), Positives = 130/231 (56%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++I +V+VNG ++ V V ++D IEV+GV L E+ Sbjct: 2 ERLQKVLAHAGVASRRKSEQLILDGKVRVNGKTIKELGVKVSNSDKIEVEGVQLE-KEQK 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 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|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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 108/234 (46%), Gaps = 7/234 (2%) 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+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITSTTESHI--RGNIVDFVGHPQRIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + G+ I G +VT S + L Sbjct: 118 ILRAEGKHEKEYIVTVDRPVTPSFVQGMSSGVKILGHRTLPCEVTRV----SEYVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EGKNR+I+++ F ++V +L R+ +LG+L G+ R++++ +E Sbjct: 174 TEGKNRQIRRMCAAFGYEVKKLQRLRIMNIRLGSLQKGAWRDLTEAEKQELGQM 227 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 65/293 (22%), Positives = 117/293 (39%), Gaps = 5/293 (1%) 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 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + + G + + +R+ +GRLD +++GL+ LTN G Sbjct: 61 PRNEEDLVLIALNKPVGIVSTTESGEKDNIVDYVNHSTRIFPIGRLDKDSQGLIFLTNHG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + Y V + V + + + G+ I G +V +K + Sbjct: 121 DLVNKILRAGNSHEKEYLVTVNKPVTDEFIRGMGAGVPILGTMTKKCKV----KKEAPFV 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E Sbjct: 177 FRITLVQGLNRQIRRMCEHFGFEVTKLERVRIMNVRLTGIPVGEWRDLTDDELIELFDMM 236 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 E+ + S + P T K+KK Sbjct: 237 EKSESDIKPKKAQKSVSANKGNTKQASPSKPKVKTENPTRKKFTQPGRKKKKR 289 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 84/347 (24%), Positives = 145/347 (41%), Gaps = 12/347 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + +++ KV+AR G+ SRR+VE I+Q R+KVNG+ V D I VDG +++ Sbjct: 14 PSGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEAT-LGQRVDLHDAIAVDGKLIKRE 72 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E R + + T + R I++GRLDINT GLLL T Sbjct: 73 EAAEATRRVIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFT 132 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KG 184 DG LA L PS + R Y VR G+VD + + LK G++++ + +G Sbjct: 133 TDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVMLEDGPAKFTDIQKAPGGEG 192 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 N W + EG+NRE+++++E V+RL R+ +GP L L G RE+++ + + Sbjct: 193 FNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPMGRWREMTQGEI-D 251 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L + + + + + + R + + + + + ++ Sbjct: 252 ILAAEVGLQPVALPAMKLKAKDKMERLQRKSTRPLGRGERVRNLRPAHEGAATGERPARQ 311 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 P + S + + E + + R R Sbjct: 312 PREEAPRKNTRGSTVAERPSEMRKRPAKPEGDKPA---GRGRGKPRG 355 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 102/230 (44%), Gaps = 4/230 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+EV++++ VKV+G + A V + V G + Sbjct: 4 RIDKLLAHMGYGTRKEVKKLLKSGAVKVDGAPVRDAKTKVRPDEQIVTVWGETVEYKPFI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + T + VGRLD +TEGLLLLTNDG LA Sbjct: 64 YLMMNKPSGVVSATEDAVEETVVDLLEEEDRAFSPFPVGRLDKDTEGLLLLTNDGQLAHQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 L P + Y G+V + + ++G+V+ ++ + + G + V V Sbjct: 124 LLSPKKHVPKTYFAVVDGEVTEADVAAFQRGVVLDDGYETKPAKLVVL-KSGLRSDVEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F+ +V L RI GP L L G RE++ + + Sbjct: 183 ITEGKFHQVKRMFQAVGKRVVYLKRIQMGPLPLDPDLAVGEYRELTDEEV 232 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 83/231 (35%), Positives = 124/231 (53%), Gaps = 3/231 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P + +VY + G D L L++G+VI G + + K NA V + Sbjct: 121 LMHPRYEIDKVYVAKVKGYPSPDALKRLEEGLVIDGQKTAKARARIRKNKAAKENATVEL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+NR+++K+ E V RL R YG L G R + K + Sbjct: 181 TIHEGRNRQVRKMLEAVGHPVKRLNRERYGFLTTEGLGVGEYRPLLKAEVE 231 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLQVGKWRDITGEELELLIG 227 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 65/260 (25%), Positives = 114/260 (43%), Gaps = 10/260 (3%) Query: 1 MKDKNIVQENFT---PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 +K+ IV R++K I+ G SRRE +++I Q RVK++G+ + V Sbjct: 44 VKNTIIVSNKNEIRDKVRLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKG 102 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +DG PL+ +KP+G+ T + + R+ +GRLD + Sbjct: 103 QSVSIDGKPLKVENELVYIALNKPVGITCTTESKI--KGNIVDFINHEKRIFPIGRLDKD 160 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 ++GL+ +TNDG + + + Y V + + + + + G+ I G Sbjct: 161 SQGLIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITHEFIKGMSNGVPILGTVTKKC-- 218 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K S + L +G NR+I+++ E+F ++V +L RI LG L GS R ++ Sbjct: 219 --LVKKESKNSFRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLT 276 Query: 238 KKILREQLGPHLLEEAQVNL 257 KK L E Sbjct: 277 KKELAEINRLTENSSKTEEA 296 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 67/227 (29%), Positives = 113/227 (49%), Gaps = 7/227 (3%) 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 +L + RV ++GRLD +++GL+LLTNDG + Sbjct: 60 VYLALNKPVGITCTTEKGV--KGNIVDLVNHPLRVFNIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + + + KG+ I G +VT + S + L Sbjct: 118 ILRAENNHEKEYIVSVDKPITPEFIEKMSKGVRILGQKTLPCKVT----QISKYEFNIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V RL R+ LG L G R+++KK Sbjct: 174 TQGLNRQIRRMCEVLGYEVYRLQRVRIMNITLGNLPVGQWRDLTKKE 220 >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 = 181 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 108/234 (46%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE + +I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDHLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+ LTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLIFLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 76/236 (32%), Positives = 122/236 (51%), Gaps = 2/236 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 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 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGS 185 DG LA+ + P + + Y G + + L + + + Q ++ TQ Sbjct: 133 DGELAQHVMHPKYEIEKTYIATVEGHIGGGVCHRLVRTGVQLDDGWIKLDQCSIITQNRE 192 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V L G+NR ++++F + V RLIR GP LG L +GS R +S + Sbjct: 193 RSVLKVVLHSGRNRIVRRIFGSIGFPVTRLIRTQIGPISLGELKSGSYRILSTHEV 248 >gi|257900337|ref|ZP_05679990.1| pseudouridine synthase [Enterococcus faecium Com15] gi|257838249|gb|EEV63323.1| pseudouridine synthase [Enterococcus faecium Com15] Length = 255 Score = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 61/254 (24%), Positives = 109/254 (42%), Gaps = 8/254 (3%) Query: 1 MKDKNIVQ---ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS- 56 M K+ + + R+ K +A G+ SR+EV+ +I + ++VNG +++ V Sbjct: 1 MNGKSRINALLKWGKRMRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEF 60 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 D + G + + L+ + T + D + VGRLD Sbjct: 61 EDTVTYLGEIIAYQKDFYYILHKPAGVISATQDNHDQTVIDLLEDQDYREDLFPVGRLDK 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDM 175 +TEGLL+LTNDG A L P + Y G + ++ + L +G++I Sbjct: 121 DTEGLLILTNDGVFAHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPA 180 Query: 176 QVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGS 232 ++ +D + + + L EGK ++K++ + +V L RI G F L L G Sbjct: 181 KLQIDQVDQESETSIIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGNFCLPKDLNRGQ 240 Query: 233 TREVSKKILREQLG 246 R ++K+ L + Sbjct: 241 YRPMTKEELEQVRE 254 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 143/336 (42%), Positives = 193/336 (57%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K IARAGIASRR+ E +I RV +NG +L A+NV D I VD PL Sbjct: 19 PEGERIAKAIARAGIASRRDAEALIEAGRVTLNGKVLTSPAINVTDADRITVDDEPLPAR 78 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGL Sbjct: 79 ERTRLWLLHKPRGVVTTARDPEGRPTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGL 138 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A+V+ P T WLR YRVR G V Q L+ LKKG+ + G+ YG ++ TLD +G N W+T Sbjct: 139 AKVIAHPDTGWLRRYRVRAFGDVTQPDLDKLKKGLTVDGMEYGPIEATLDRAQGDNVWLT 198 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +GLREGKNRE+K++ E VNRLIR+S+GPFQLG L G E+ K+L++QLG +L Sbjct: 199 LGLREGKNREVKRILEHLGLSVNRLIRLSFGPFQLGDLEVGLVEEIRTKVLKDQLGKNLA 258 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E+A V+ ++P+ + + ++ G S+ + + Sbjct: 259 EQAGVDFESPVRETIAPFGSPKKATRATQAAPAGRGRQGARDEGASEARSGSRGGSAGRP 318 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + + R+ R+ Sbjct: 319 PRDPARPAAPRAGARPAPRPPSPTVWRADEETRPRA 354 Score = 43.6 bits (101), Expect = 0.041, Method: Composition-based stats. Identities = 10/114 (8%), Positives = 25/114 (21%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ +L E N + Q + + Sbjct: 382 IQAAGERRVLVERLQPSPEKPAPEPHRRVRFRNEEERSAPRDRAREDRPRQDRPGQDRPR 441 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P + + F + + RR + + + RR ++ Sbjct: 442 EDRPRSEGPRENRARDERPGRDEFRRGAPAGDARPRRREAGEAAPAERRGPPRE 495 Score = 42.9 bits (99), Expect = 0.084, Method: Composition-based stats. Identities = 13/112 (11%), Positives = 26/112 (23%), Gaps = 1/112 (0%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R L L + P + + + + + Q + + Sbjct: 388 RRVLVERLQPSPEKPAPEPHRRVRFRNEEERSAPRDRAREDRPRQDRPGQDRPREDRPRS 447 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSD-SGQREENHRRSPSFPSKRSLRRTSA 352 P R + + D +R E +P+ R S Sbjct: 448 EGPRENRARDERPGRDEFRRGAPAGDARPRRREAGEAAPAERRGPPRERPSD 499 Score = 42.1 bits (97), Expect = 0.14, Method: Composition-based stats. Identities = 11/112 (9%), Positives = 23/112 (20%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + + R+ D R + ++ Sbjct: 424 RAREDRPRQDRPGQDRPREDRPRSEGPRENRARDERPGRDEFRRGAPAGDARPRRREAGE 483 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A P RR G+ + + + + RR Sbjct: 484 AAPAERRGPPRERPSDFEGRPPRERSEGRPQRDFHGDSRERGEGAPRRERPS 535 Score = 38.2 bits (87), Expect = 1.9, Method: Composition-based stats. Identities = 14/123 (11%), Positives = 33/123 (26%), Gaps = 1/123 (0%) Query: 232 STREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 TR + K+ R + P A + +R ++ + + + Sbjct: 349 ETRPRASKVPRRGMDPKTARAAAAERGRERVGAIQAAGERRVLVERLQPSPEKPAPEPHR 408 Query: 292 KNGLSKQKKLATPVHR-RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + +++ + P R R + +R P + RR Sbjct: 409 RVRFRNEEERSAPRDRAREDRPRQDRPGQDRPREDRPRSEGPRENRARDERPGRDEFRRG 468 Query: 351 SAK 353 + Sbjct: 469 APA 471 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 81/243 (33%), Positives = 126/243 (51%), Gaps = 3/243 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ KVIA++G+ SRR+ E+MI +VKVNG ++ V V + D I VDGVPL K Sbjct: 2 TNNGERLQKVIAQSGVTSRRKAEQMILDGKVKVNGETVQEMGVKVTANDEIVVDGVPLEK 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 LY ++++ D GR V D ++ R+ +GRLD +T G+LLLTNDG Sbjct: 62 ETPVYFLLYKPRG-VISSVKDDKGRKVVTDYFEAVEQRIFPIGRLDYDTSGVLLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNA 187 A +L P + +VY + G ++ +L LL+KGI +QV L + + Sbjct: 121 FANLLMHPRHEIDKVYIAKVRGIPNKKELALLQKGIRSDKDVLKAVQVKLLSTDHQKKTS 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L EGKNR+++++ E + V +L R Y L L AG R ++ K + + Sbjct: 181 IIELTLHEGKNRQVRRMLEELGYPVMKLKRERYDFIGLEGLNAGEYRSLTPKEVNQLRAQ 240 Query: 248 HLL 250 Sbjct: 241 AQK 243 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 66/260 (25%), Positives = 115/260 (44%), Gaps = 10/260 (3%) Query: 1 MKDKNIVQENFT---PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 +K+ IV R++K I+ G SRRE +++I Q RVK++G+ + V Sbjct: 44 VKNTIIVSNKNEIRDEVRLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKG 102 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +DG PL+ +KP+G+ T + V + R+ +GRLD + Sbjct: 103 QSVSIDGKPLKVENELVYIALNKPVGITCTTESKIKGNIVDFI--NHEKRIFPIGRLDKD 160 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 ++GL+ +TNDG + + + Y V + + + + + G+ I G Sbjct: 161 SQGLIFMTNDGDIVNKILRAGNNHEKEYIVTVNKPITDEFIKGMSNGVPILGTVTKKC-- 218 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K S + L +G NR+I+++ E+F ++V +L RI LG L GS R ++ Sbjct: 219 --LVKKESKNSFRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKMGSWRYLT 276 Query: 238 KKILREQLGPHLLEEAQVNL 257 KK L E Sbjct: 277 KKELAEINRLTENSSKTEEA 296 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 143/337 (42%), Positives = 194/337 (57%) 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 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 E+A V+ ++P+ + + ++ G S+ + + Sbjct: 258 AEQAGVDFESPVRETIAPFGSPKKATRAAQAAPAGRGRQGARDEGASEARSGSRGGAAGR 317 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + + R+ R+ Sbjct: 318 PPRDPARPAAPRAGARPAPRPPSPTVWRADEETRPRA 354 Score = 44.0 bits (102), Expect = 0.039, Method: Composition-based stats. Identities = 10/114 (8%), Positives = 25/114 (21%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ +L E N + Q + + Sbjct: 382 IQAAGERRVLVERLQPSPEKPAPEPHRRVRFRNEEERSAPRDRAREDRPRQDRPGQDRPR 441 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P + + F + + RR + + + RR ++ Sbjct: 442 DDRPRSEGPRENRARDERPGRDEFRRGAPAGDARPRRREAGEAAPAERRGPPRE 495 Score = 42.9 bits (99), Expect = 0.069, Method: Composition-based stats. Identities = 13/112 (11%), Positives = 26/112 (23%), Gaps = 1/112 (0%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R L L + P + + + + + Q + + Sbjct: 388 RRVLVERLQPSPEKPAPEPHRRVRFRNEEERSAPRDRAREDRPRQDRPGQDRPRDDRPRS 447 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSD-SGQREENHRRSPSFPSKRSLRRTSA 352 P R + + D +R E +P+ R S Sbjct: 448 EGPRENRARDERPGRDEFRRGAPAGDARPRRREAGEAAPAERRGPPRERPSD 499 Score = 42.1 bits (97), Expect = 0.12, Method: Composition-based stats. Identities = 11/112 (9%), Positives = 23/112 (20%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + + R+ D R + ++ Sbjct: 424 RAREDRPRQDRPGQDRPRDDRPRSEGPRENRARDERPGRDEFRRGAPAGDARPRRREAGE 483 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A P RR G+ + + + + RR Sbjct: 484 AAPAERRGPPRERPSDFEGRPPRERSEGRPQRDFHGDSRERGEGAPRRERPS 535 Score = 38.6 bits (88), Expect = 1.4, Method: Composition-based stats. Identities = 14/123 (11%), Positives = 33/123 (26%), Gaps = 1/123 (0%) Query: 232 STREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 TR + K+ R + P A + +R ++ + + + Sbjct: 349 ETRPRASKVPRRGMDPKTARAAAAERGRERVGAIQAAGERRVLVERLQPSPEKPAPEPHR 408 Query: 292 KNGLSKQKKLATPVHR-RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + +++ + P R R + +R P + RR Sbjct: 409 RVRFRNEEERSAPRDRAREDRPRQDRPGQDRPRDDRPRSEGPRENRARDERPGRDEFRRG 468 Query: 351 SAK 353 + Sbjct: 469 APA 471 >gi|121308590|dbj|BAF43685.1| hypothetical protein [Vibrio fischeri] Length = 354 Score = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 90/353 (25%), Positives = 145/353 (41%), Gaps = 12/353 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG+ SRRE+E MI RV V+G + I +DG + E Sbjct: 2 SEKLQKVLARAGLGSRRELETMIQAGRVSVDGQRAKLGDRLENVDAKIRIDGHVVSVKES 61 Query: 73 TRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 T + + L T H R+ SR +SVGRLD NT GLLL T D Sbjct: 62 TDVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIRDSRWVSVGRLDANTAGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y R G++++ + L G+ ++ V +G N Sbjct: 122 GELANRLMHPSRKVEREYMCRVFGEINEKMIRNLVSGVKLEDGEARFEDVMYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + EG+NRE++++++ V+RL R+ YG L L G E+ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKALPRGGWMELELKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E+ +++D + + D+ + ++N+ KK Sbjct: 242 MVELPAEKESLLDVDKESRKRAKSKTQKIRRAVKRYDERSTEERNTPAGRRGRSNKKPVG 301 Query: 304 ---PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P +R + + G S ++ R S K + + Sbjct: 302 SSLPSAKRGSNNGESQSSGKPQSKGKKPVAGQKPVRSKFSPNGKAPKSKPRQR 354 >gi|326692499|ref|ZP_08229504.1| ribosomal large subunit pseudouridine synthase B [Leuconostoc argentinum KCTC 3773] Length = 249 Score = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 90/235 (38%), Positives = 136/235 (57%), Gaps = 2/235 (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 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 +A L P ++ +VY + G +KL LK+G+VIQG +V+++ + Sbjct: 122 IANQLMHPKSRVDKVYMAKVEGIATDEKLAPLKRGVVIQGRKTAPARVSVERVDKDKKTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V + EG+N ++K + + V +L R Y F L L +G R+++ ++ Sbjct: 182 MVRVIIHEGRNHQVKNMLQKVGLPVAKLTREQYAFFDLTGLQSGEYRKLTSAEVK 236 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 59/270 (21%), Positives = 113/270 (41%), Gaps = 10/270 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---R 68 R++K +++ G SRR +++I Q R+ +N + V D ++VDG P+ Sbjct: 3 EEVRINKYLSQLGYCSRRAADKLIDQGRITINDKVP-EMGTKVTPGDLVKVDGKPVSKEE 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E ++KP+G+V T + + D + R+ +GRLD +EGL+ LTNDG Sbjct: 62 LKEPNVYIAFNKPVGIVCTTDTRVEKDNIIDYINYPK-RIFPIGRLDKPSEGLIFLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + V + L + G+ I + + +K + Sbjct: 121 DIVNKILRARNNHEKEYVVSVNKPVSSEFLKKMSAGVPILDTVTRECE----IEKLGHHT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ EF +++V L RI L + G R+++ + L+ Sbjct: 177 FRIVLTQGLNRQIRRMCEFLDYQVTSLKRIRIMNVSL-DIPVGEWRDLTSEELKTINNLT 235 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 + + +R Sbjct: 236 DESTKTEEGSLTSTAKKANLRTGKRPRKPK 265 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 58/299 (19%), Positives = 112/299 (37%), Gaps = 11/299 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDGDRYIEQGNVFINGKRATV-GDQVFAGDVVKVNGQIIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + +G + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDEEDLVFIALNKPAGIITTMEEGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 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 Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNISLKGLPLGEWRDLTDDELLTLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 ++ + + + +K+ + + R Sbjct: 238 NSSSE------EKTVKKAPPKPVAAKRPGIQGQKKAEKSDDNTASRKRFTQPGRKKKGR 290 >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 = 180 bits (457), Expect = 2e-43, 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|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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 58/233 (24%), Positives = 101/233 (43%), Gaps = 1/233 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG ++ + D ++ + Sbjct: 2 DPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTVS 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + T+ R+ + + R+ VGRLD NT G+LLLTNDG Sbjct: 62 IERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P ++Y V + + + + GI + T Sbjct: 122 DLASKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIH-ADAISYTDDFKKDD 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 181 VGIEIHSGKNRIVRRIFESLGYKVMKLDRVYFAGLTKKGLRRGEWRYLTEQEV 233 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 61/243 (25%), Positives = 113/243 (46%), Gaps = 7/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ V+ D + +DG +R ++ Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHPVLENDAVALDGEVVRFHKKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + Y + +T S + VGRLD + EGLL++TNDG A Sbjct: 61 YILFYKPSGYVTSTKDP---HSETIMEFLPPLKGIFPVGRLDKDAEGLLIITNDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAKRV---EKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EGK +IK++ K L R G L + G R +S++ +++ +E Sbjct: 175 TEGKYHQIKRMTAAVGLKTVHLKRTRIGGLVLPDDMKPGEYRFLSEEEVKKVFEREDQKE 234 Query: 253 AQV 255 Sbjct: 235 DTP 237 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 106/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--HYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELD 223 >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 = 180 bits (457), Expect = 2e-43, Method: Composition-based stats. Identities = 69/239 (28%), Positives = 109/239 (45%), Gaps = 3/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--- 70 +R+ K++++ G+ASRR+ E+ I Q RV +NG + E + D I +DG LR Sbjct: 3 ERLQKILSQLGVASRRQAEQWIQQGRVTINGRVAEIGQQADLKRDRIHLDGKRLRPKHRP 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L+ + T R+ + 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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EG+NR+I++V E V RL R++ GP +LG+L G R ++ + Sbjct: 183 VILHEGRNRQIRRVAEQLGHPVLRLTRVAIGPLRLGSLQPGEYRSLTAAEVYRLRQLAQ 241 >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 = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 72/237 (30%), Positives = 121/237 (51%), Gaps = 2/237 (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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L GKNR ++++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 193 ATIVKVVLHSGKNRIVRRIFGAVGYPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVR 249 >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 = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 106/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE + +I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDCLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELDNLEVGKWRSVTSEELE 223 >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 = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 63/244 (25%), Positives = 112/244 (45%), Gaps = 8/244 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + + QR+ K++ G +R E+++ + Q RV +NG++++ + + D +E+DG Sbjct: 1 MSKGKKTQRLDKILGHLGYGTRSEIKKYVKQGRVTINGVVVKDSGIQCNPDVDVVELDGE 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + E L L+ P + T + + VGRLD +TEGLLLLT Sbjct: 61 QIFYREFVYLMLHKPPGVISATEDMREKTVIDLLPVDFQVFSPFPVGRLDKDTEGLLLLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKG 184 NDG LA L P + Y G V ++ ++G+ + ++ + Sbjct: 121 NDGQLAHDLLSPRKHVPKTYEAVVLGHVGDEEAARFREGVELDDGYVTLPAELKVLEHGI 180 Query: 185 S-----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSK 238 + V + + EGK ++K++FE +V L R+S GP L L G+ RE+++ Sbjct: 181 DADGTRISRVQLTISEGKFHQVKRMFEAVGSRVIYLKRLSMGPLVLDESLPLGAFRELTE 240 Query: 239 KILR 242 L+ Sbjct: 241 SELQ 244 >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 = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 65/300 (21%), Positives = 119/300 (39%), Gaps = 9/300 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E + R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + Sbjct: 2 EINSTTRLNKYISESGICSRREADRYIEQGHVFINGKRA-GIGDQVSAGDVVKVNGQLIE 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + + G + + +R+ +GRLD +++GL+ LTN G Sbjct: 61 PRNEEDLVLIALNKPVGIVSTTESGEKDNIVDYVNHSTRIFPIGRLDKDSQGLIFLTNHG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + Y V + V + + + G+ I G +V +K + Sbjct: 121 DLVNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTMTKKCKV----KKEAPFV 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E F ++V +L R+ +L + G R+++ L E Sbjct: 177 FRITLVQGLNRQIRRMTEHFGYEVTKLERVRIMNVRLTGIPVGEWRDLTDDELIELFNLI 236 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 E+ V + N S K + + K + +R Sbjct: 237 EKSESDVKP----KKAAKPQARASNNKSSGKQGSGSQKPKVNAEPPKKKFTQPGRKKKKR 292 >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 = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 82/351 (23%), Positives = 144/351 (41%), Gaps = 6/351 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 172 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 230 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 351 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 410 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 +R+ + L+ + T R + + + + + + Sbjct: 411 DAQVRKLMATVGLKAPSEEKGKRGGAGPTERRQPDPMQTSMGFIGREPVLTTHGQLDQPR 470 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + S S + + +G + +R R+ Sbjct: 471 RGGGRRGAPGLPGLSGYGSLPVAPSGYGNRTGGGRDGNRMGGGRDGNRAGG 521 >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 = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 103/251 (41%), Gaps = 5/251 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 K V R+ K +A + SR+EV++ I + +V VNG + + D I Sbjct: 14 KFFVLTRRKTMRLDKFLATMQLGSRKEVKQFIKKGKVTVNGEITRSDKAQINEYEDQISF 73 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +G ++ + L + T + D + VGRLD +TEGLL Sbjct: 74 EGEVIQYQKDYYYLLNKPAGVISATVDNYDETVMDLLVDEDFREDLFPVGRLDKDTEGLL 133 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT 181 +LTNDG LA L P + Y G + + + L +G++I G ++T+ + Sbjct: 134 VLTNDGQLAHRLLSPKKHVEKEYHATVAGVMTAEDVALFSEGLMIDQGEQCLPAKLTILS 193 Query: 182 QKGS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSK 238 S + +++ L EGK ++K++ +V L RI G L L G R ++ Sbjct: 194 VDESAQTSQISLILHEGKFHQVKRMVAAVGKEVVYLKRIRMGQLTLDESLALGEYRALTA 253 Query: 239 KILREQLGPHL 249 + Sbjct: 254 LEVEALQQNPF 264 >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 = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 104/234 (44%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I + VNG ++ VM TD ++ + Sbjct: 191 DPNEPIRLNKYLANAGVCSRREADEFIQAGVITVNGEVVTELGTKVMRTDEVKFHDQNVS 250 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ ++ + + R+ VGRLD N G+LLLTNDG Sbjct: 251 LEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNPTGVLLLTNDG 310 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY V V L + GI ++ + + Sbjct: 311 DLASKLTHPKFLKKKVYHVYLDKPVAAHDLQQIADGITLEDGEIHADAIEYADEHDKKQ- 369 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + GKNR ++++FE ++V +L R+ + L G R +S+K + Sbjct: 370 VGIEIHSGKNRIVRRIFEALGYRVTKLDRVQFAGLTKKNLRRGDWRFLSEKEVD 423 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 57/243 (23%), Positives = 111/243 (45%), Gaps = 7/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +G+ +R+EV+++I Q RV VNG ++ +V D + +DG + + Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLDPGHSVSENDVVVLDGETVNFHRKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + +T S + VGRLD + EGLL++T+DG A Sbjct: 61 YILFHKPSGYVTSTKDP---HSETIMEFLPPLKGIFPVGRLDKDAEGLLIITSDGDFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V+ G+V +DK+ LK G+ ++ + + +K SN + + + Sbjct: 118 VISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFAKAKCV---EKLSNDTLKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EGK +IK++ + L R G L + G R +S++ +++ +E Sbjct: 175 TEGKYHQIKRMTVAVGLRTVHLKRTRIGRLVLPEDMKPGEYRFLSEEEVKKVFEREDQKE 234 Query: 253 AQV 255 Sbjct: 235 DTP 237 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 65/292 (22%), Positives = 117/292 (40%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVNPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFVTGMAAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIELFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + A T ++ + + + +R N + ++KK Sbjct: 239 SSSGTKPKAKAKPKTTGIKRPVVKMEKTAEKGSRPASNGKRFTSPGRKKKGR 290 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 109/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ +G SR+EV++M+ V+VN L++ A +V D I V G P+ E Sbjct: 1 MRLDKLLSNSGYGSRKEVKKMLKNGAVRVNDQLVKDAKKHVDPESDDITVYGAPVMYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + L T + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 IYLMMNKPQGVLSATEDSRQETVVDLLDPELLRFEPFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + +DQ L+ L+KG+ I +G + +L + + + Sbjct: 121 QLLSPKKHVPKTYEVHVNKPIDQAALDQLEKGVDIGEGYVTKPAEASLLASENGVERLLL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++ + V L R+ G L LL G RE+S+ L Sbjct: 181 TITEGKFHQVKRMLKAVGHDVIYLKRLKMGDVDLDEELLPGEYRELSEHEL 231 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 74/277 (26%), Positives = 122/277 (44%), Gaps = 7/277 (2%) 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 + R+ VGRLD +++GLLLLTNDG L+ Sbjct: 62 ETVILAYNKPLGLTCTAS--HDDPDNIFDHIKYPIRLQYVGRLDKDSQGLLLLTNDGDLS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 ++ + YRVR + + + L + G+ I ++ K N + Sbjct: 120 NSIQKSVNNHEKEYRVRVNKPITDEFLTQMAAGVPILDTVTKKCRLY----KIDNYSFKI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + +G NR+I+++ E+F +KV L R+ +LG L G R ++K+ E + Sbjct: 176 IITQGLNRQIRRMCEYFGYKVVNLKRLRVINIRLGNLRPGEYRHLTKEEETELRRLVERK 235 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 E ++ V KN Sbjct: 236 EEVKTKREEAQPDNKNEQNVVGNKRYVSWKRETGSKN 272 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 66/260 (25%), Positives = 115/260 (44%), Gaps = 10/260 (3%) Query: 1 MKDKNIVQENFT---PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 +K+ IV R++K I+ G SRRE +++I Q RVK++G+ + V Sbjct: 44 VKNTIIVSNKNEIRDKVRLNKYISETGFCSRREADKLIEQGRVKIDGLKATT-GMKVSKG 102 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +DG PL+ +KP+G+ T + V + R+ +GRLD + Sbjct: 103 QSVSIDGKPLKVENELVYIALNKPVGITCTTESKIKGNIVDFI--NHEKRIFPIGRLDKD 160 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 ++GL+ +TNDG + + + Y V + + + + + G+ I G Sbjct: 161 SQGLIFMTNDGDIVNKILRAGNNHEKEYIVTVNKSITDEFIKGMSNGVPILGTVTKKC-- 218 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +K S + L +G NR+I+++ E+F ++V +L RI LG L GS R ++ Sbjct: 219 --LVKKESKNSFRIILTQGLNRQIRRMCEYFGYEVKKLERIRIMNVSLGNLKIGSWRYLT 276 Query: 238 KKILREQLGPHLLEEAQVNL 257 KK L E Sbjct: 277 KKELAEINRLTENSSKTEEA 296 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 65/281 (23%), Positives = 118/281 (41%), Gaps = 11/281 (3%) 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 + + V + R+ +GRLD +EGL+ +T Sbjct: 58 IVEKHEKLVYLAFNKPVGIECTTNLEVKNNIVDYI--NYPKRIFPIGRLDKASEGLIFMT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + + + + + G+ I + ++ S Sbjct: 116 NDGDIVNKILRARNNHEKEYTVTVNKPITERFIQRMGNGVPILDTVTKKCK----VEQIS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ ++V L RI L + G R+++ ++E Sbjct: 172 KYTFKIILTQGLNRQIRRMSEYLGYEVTALKRIRIINISL-DVPVGRYRDLTDAEIKELN 230 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 P ++ T R I P R Sbjct: 231 KLIEPSSKTEEASLPKAAAPTPSRRSTFISKNDPRFRKRGN 271 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 102/232 (43%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A +G SR++V++++ + V VNG L ++ +V D + V G + E Sbjct: 1 MRLDKLLASSGFGSRKDVKKLVKARAVTVNGELAKQVKDHVDPSNDEVLVHGERVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T D I VGRLD +T GLLLLTNDG LA Sbjct: 61 IYLMMNKPDGVISATEDLRDETVVDLLEPEDIAREPFPVGRLDKDTVGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + + L++ +++ +V +D + + + + Sbjct: 121 QLLSPKKHVPKTYEVHLKYPLGDQDIKRLEEGVVILDDYRTKPAKVEVDANESEDTRIRL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K + + +V L R S G L L G RE++ + L Sbjct: 181 TITEGKYHQVKLMAQAVGNEVIFLKRRSMGAVSLDEDLAPGEYRELTDEELD 232 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 134/331 (40%), Gaps = 9/331 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +++ KV+ARAG+ SRRE+E MI RV VNG++ + I VDG + Sbjct: 2 SEKLQKVLARAGLGSRREIESMIQAGRVSVNGVVAKLGDRLEDLNAAIRVDGHHVSVSAS 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L T R+ +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-GTLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ L++ Sbjct: 182 TFYVVITEGRNREVRRLWETQGVTVSRLKRVRYGDIYLSKELPRGGWMEL---ELKDVNY 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + E + + I + R I + ++ + +++ Sbjct: 239 LREMVELRPESETLINPEAKKRKSRVQKIRRAVRRYEERVESGETRKPRNRRGGQPAGNR 298 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 R S+ ++ +R Sbjct: 299 TRVGGGRSGKPGASRPGQSSNRQKKSGGNRN 329 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 88/235 (37%), Positives = 132/235 (56%), Gaps = 2/235 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R+ KV+A+AG+ASRR E MI + RVKVNG + V V D +EVDG P+ Sbjct: 2 SEEEMRLQKVVAQAGLASRRGAETMITEGRVKVNGETVTTLGVKVGIHDTVEVDGAPIEG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E+ +L +KP G+VTT SD GR TV D L I RV VGRLD +T G LLLTNDG Sbjct: 62 REKLVYYLLNKPRGVVTTTSDEKGRKTVLDLLEDIDQRVYPVGRLDYDTTGALLLTNDGT 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 +A L P ++ ++Y + G +KL LK+G++I+G +VT++ + Sbjct: 122 IANQLMHPKSRVDKIYLAKVSGIATVEKLAPLKQGVIIKGRKTAPARVTIERVDKDKKTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+N ++K + + V++L R Y F L L +G R+++ ++ Sbjct: 182 MVRIIIHEGRNHQVKDMLQKVGLPVDKLTREQYAFFDLIGLQSGEYRKLTGVEVK 236 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 79/246 (32%), Positives = 114/246 (46%), Gaps = 10/246 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDG-VPLRK 69 + QR+ KV+A AG+ASRR E++IA RV V+GI + V V T I VDG L Sbjct: 76 SGQRLQKVLAHAGVASRRACEQLIADGRVSVDGITVTEPGVRVDPLTQEIRVDGSRILTN 135 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--------ISVGRLDINTEGL 121 E L L+ + T + L + + 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 REQLGP 247 Sbjct: 316 AALQRE 321 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 113/230 (49%), Positives = 156/230 (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+ D + K + I GI Y + L Q SN+W V L Sbjct: 121 FELPSNRLKRVYHVRAYGKSDILLKSD-YKNLEIDGIFYNPHSIKLLKQNKSNSWFEVVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNREI+++FE+F KV++LIRI YG F + L G+ +E++ KIL E Sbjct: 180 FEGKNREIRRIFEYFGLKVHKLIRIQYGSFTIDNLKPGAYKEINNKILAE 229 >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 = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 70/304 (23%), Positives = 119/304 (39%), Gaps = 26/304 (8%) Query: 3 DKNIVQENFTP----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-ST 57 D++I+ N R+ + +AR G+ASRR E++I+ RV VNG++ + V + Sbjct: 64 DEDIMAGNLPSSTFTMRLQRYLARCGVASRRGAEKLISAGRVTVNGVVQDVLGSKVDCAH 123 Query: 58 DHIEVDGVP-LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 D + VDG P + E T L L L T + + +VGRLD Sbjct: 124 DVVCVDGTPCVLGDEHTYLILNKPQGVLTTMSDPFGHPCVAALVPKDTYPGLFAVGRLDG 183 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +T GLLL + DG + L PS + Y G + + L+ GI++ Sbjct: 184 DTTGLLLFSTDGNMGNRLLHPSHHVWKTYVCLLQGSLTRAAQKQLEAGIMLDDGPCAPSH 243 Query: 177 VTLDTQKGSNAWV-------------------TVGLREGKNREIKKVFEFFNWKVNRLIR 217 +T + + ++ +REG+ ++K++F+ V RL R Sbjct: 244 ITRLAPTDALCTLAPQCHILDGIPSARGYTICSISIREGRYHQVKRMFDAVGCPVVRLHR 303 Query: 218 ISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 +GP LG L G+ R + + + + N + + R Sbjct: 304 AQFGPLSLGDALPFGAWRMCTPAEVDALMRTVSSSDGIANAQTNVQTKAHTSALRYTQHG 363 Query: 277 EVPD 280 P+ Sbjct: 364 ATPN 367 >gi|291166791|gb|EFE28837.1| ribosomal large subunit pseudouridine synthase B [Filifactor alocis ATCC 35896] Length = 242 Score = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 71/230 (30%), Positives = 113/230 (49%), 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+ ++ D L R+ VGRLD + GLLLLTNDG LA Sbjct: 61 KVYYMLNKPLRYIS-AVSDDRGRNTVLELFRTKERIYPVGRLDYLSTGLLLLTNDGELAN 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|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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AG+ SR EV++++ +++V VNG L + D I G L + Sbjct: 1 MRLDKFLVEAGVGSRTEVKQLLKKKQVLVNGKLETSPKTQIDEKLDKIVCQGQNLSYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATEDDHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 + P ++Y + G + + + GI ++ Q+ + +K + + V Sbjct: 121 AMLSPKKHVDKLYCAKVAGIMTDEDVKAFADGIELKDFTCQPAQLNIINADEKSNTSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S GP +L L G R +S L Sbjct: 181 IVIKEGKFHQVKRMVLACGKEVTDLQRLSMGPLRLDDELALGEWRRLSPAELE 233 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 107/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELD 223 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 59/238 (24%), Positives = 104/238 (43%), Gaps = 5/238 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + + Sbjct: 1 MRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFEDAVTYLGEIITYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + D + VGRLD +TEGLL+LTNDG A Sbjct: 61 FYYILHKPAGVISATQDNHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVFAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG--SNAWV 189 L P + Y G + ++ + L +G++I ++ +D + + Sbjct: 121 QLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQETETSII 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 181 RLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGKFWLPKDLNKGQYRPMTKEELEQVRE 238 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 58/293 (19%), Positives = 111/293 (37%), Gaps = 5/293 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDGDRYIEQGNVFINGKRATV-GDQVFAGDVVKVNGQIIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + +G + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDEEDLVFIALNKPAGIITTMEEGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 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 Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNISLKGLPLGEWRDLTDDELLTLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ + + + + ++KK Sbjct: 238 NSSSEEKTVKKAPPKPVAAKRPGIQGQKKAEKSDDNTASRKHFTQPGRKKKGR 290 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 110/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KVI+ G SR++V+ + + ++V+G++++ ++V I+++G + + Sbjct: 2 ERLDKVISNLGYGSRKDVKAFVKKGLIEVDGVIVKDNGLSVDPEKSVIKINGEEVFYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + TH + D + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLMMNKPAGVISATHDNRDETVIDLLYVDHQVFEPFPVGRLDKDTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY + +VD+ + K GI + + ++ + + + + V Sbjct: 122 RLISPKWHVDKVYYAKIDKKVDEKDIQAFKSGITLDDGYKCMEAKLEIISASEEGSEIRV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++EGK ++K++FE KV L R +G L L G RE+S + L Sbjct: 182 TIQEGKFHQVKRMFEAVGKKVEYLKREEFGGLSLDTDLEEGEYRELSDEEL 232 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 82/348 (23%), Positives = 144/348 (41%), Gaps = 7/348 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 173 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 231 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 352 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 411 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ + R + + + + + + Sbjct: 412 EAQVRKLMATVGLKAPSEEKGKRAGGQQE-RRQPDPMQTSMGFISREPVLTTHGQLDQPR 470 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + S S + + SG R+ + R+ + Sbjct: 471 RGGGRRGAPGLPGLSGYGSLPVAPSGYGNRSGGRDVDGNRASYGAGPK 518 >gi|315149408|gb|EFT93424.1| conserved hypothetical protein [Enterococcus faecalis TX0012] Length = 257 Score = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 64/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G + G ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEDELQQ 248 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 62/227 (27%), Positives = 108/227 (47%), Gaps = 7/227 (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 + V + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITSTTESHIRGNVV--DFVGHPQRIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + G+ I G +VT S + L Sbjct: 118 ILRAEGKHEKEYIVTVDRPVIPSFVQGMSSGVKILGQRTLPCEVTRV----SEYVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EGKNR+I+++ F ++V +L R+ +LG+L G+ R +++ Sbjct: 174 TEGKNRQIRRMCAAFGYEVKKLQRLRIMNIRLGSLQKGAWRNLTEAE 220 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 62/299 (20%), Positives = 115/299 (38%), Gaps = 11/299 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I +GI SRR+ +R I Q V +NG V S D ++V+G + Sbjct: 3 TNSSTRLNKYIGESGICSRRDADRYIEQGHVFINGKRAAV-GDQVYSGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L + + +G S + + RV +GRLD +++GL+ LTN G Sbjct: 62 RNENDLVLIALNKPVGIISTTEEGESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V ++ + L G+ + G +V K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVNKPVTEEFILGLGAGVPMMGTVTKKCKV----SKVATFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 178 NITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPMGEWRDLTDDELIELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + + + + + +K+ S + + R Sbjct: 238 NSSSD------EKPVKKVQAKSVADKKPRVNGVKKPEKSDSNSAPRKRFAQPGRKKKGR 290 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 85/352 (24%), Positives = 143/352 (40%), Gaps = 17/352 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + + ++ KV+A AG+ SRR++E +I RV VNG ++ TD + ++ Sbjct: 174 RRDLTADDDAPKLHKVLAEAGLGSRRDMEELIIAGRVSVNGEPA-HIGQRILPTDQVRIN 232 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G ++ K L + +V+T+ S ++ ++VGRLD NTE Sbjct: 233 GKLIQRKVSKKPPRVLVYHKPAGEIVSTNDPEGRPSVFDRLPTMKAAKWLAVGRLDFNTE 292 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T G LA L P R Y VR G++++ L G+ ++ ++ Sbjct: 293 GLLLFTTSGDLANRLMHPRYGIDREYAVRTLGELEEGMRQKLLAGVELEDGLAQFSKIAD 352 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ + Sbjct: 353 GGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYGLLTLPKNLKRGRWEEMEE 412 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R+ L LD + + R V + N + Q Sbjct: 413 HAVRDLLAL-------SGLDKNTGEAGPANKGRAAGGDRVNGNRAPRVDNGLGQPRSPSQ 465 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + R+ G + ++ + + S FP RR+ Sbjct: 466 WQNTGTGQGRSQ----GQNPGKPNRQGQQRSRQPDPLQTSLGFPGMGQPRRS 513 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 75/231 (32%), Positives = 119/231 (51%), 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 ERLQKVIANSGVTSRRKAEQLIAAGRVTVNGEVVRELGTKVSPNDRIEVEGIELTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D ++ + I R+ VGRLD T GLLL+TNDG A Sbjct: 62 YFLFYKPRGVVSAVTDDKGRKTVADYFV-DIPERLYPVGRLDYETSGLLLMTNDGDFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 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|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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 66/270 (24%), Positives = 120/270 (44%), Gaps = 1/270 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD P+ Sbjct: 201 EAGEPIRLNKFLSNSGLCSRRTADQYIAAGRVKVNGAVVSELGSQVLPTDQVMVDDKPVT 260 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + T R+ + + R+ +GRLD NT G+LLLTNDG Sbjct: 261 LEAKVYVLLNKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTNDG 320 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P+ + ++Y V +V + + ++ G ++ ++ T + ++ Sbjct: 321 DLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ-THDK 379 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R Sbjct: 380 VGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRMGI 439 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 +E + SE Sbjct: 440 KEQEDNGVAPTTKVYHKHQETPDHPFSSEE 469 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 77/250 (30%), Positives = 129/250 (51%), Gaps = 1/250 (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 ILREQLGPHL 249 L E L Sbjct: 241 ELGELLDTAQ 250 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 63/293 (21%), Positives = 112/293 (38%), Gaps = 5/293 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 31 DSSIRLNKYISESGICSRREADRFIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGRLIEPR 89 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + D + + RV +GRLD +++GL+ LTN G L Sbjct: 90 EAEDLVFIALNKPVGIVSTTEDSERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 149 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + D + + G+ I G +K + Sbjct: 150 VNKILRAGNDHEKEYLVTVDKPITDDFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 205 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V RL R L L G R+++ L E Sbjct: 206 ITLIQGLNRQIRRMCEHFGYEVTRLERTRIMNVGLSGLPLGEWRDLTDDELIELFKLIEN 265 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++ A ++ I + + + ++ +KK Sbjct: 266 SSSEAKPKAKAKPKTAGIKRPVVKIEKSAEKEKSRPAANGKRFTSPGRKKKGR 318 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 61/281 (21%), Positives = 120/281 (42%), Gaps = 5/281 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + R++K I+ +G SRR+ +++I + +V +NG + M D I V+G Sbjct: 1 MANHPNSTRLNKAISDSGYCSRRQADKLIEEGKVTLNGNPV-SLGDRAMPDDVIHVEGNL 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + +KP+G+ T + V R+ VGRLD +EGLLL+TN Sbjct: 60 ITENNNLVYIILNKPVGITCTTDLRVEGNVVDYI--DHKERIFHVGRLDKPSEGLLLMTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y V+ + + + + GI ++ + + + ++ S Sbjct: 118 DGDIVNKILRAGNSHEKEYFVKVDRPITTEFIRRMGNGIPLEELETTTKKCFV--EQVSR 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E+ +++V L R +LG L G R+++K+ L+ Sbjct: 176 FVFRIILVQGLNRQIRRMCEYLDYEVMELKRERIMNIELGDLPYGEWRDLTKEELQGLKD 235 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 E +D N + R + Sbjct: 236 AVAKSENDSFIDREEKRKAAPKTGDANRNRPRNEAPKRESR 276 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 101/229 (44%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V++ I Q+V+V+ L NV I V G L + Sbjct: 1 MRLGKLLGQAGFGSRGQVKKFIRSQQVRVDDELARTGNQNVDPNLQTITVSGKQLSYSPH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + VG LD +TEGL+L+TN+G L Sbjct: 61 VYYILNKPAGLVSVVRDQHYQTVIDLIAVVDRREGLYPVGCLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + D + GI + G ++ + + + + Sbjct: 121 RLLHPKYHVDKTYYVEVNGDLGIDAIAFFDNGIAFLDGTVCKPAKLQIISSSSEVSRAYI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+GPF+LG L G RE++ + Sbjct: 181 TITEGKFHQVKKMFLAYGVKVTYLKRISFGPFELGDLPVGEYRELTAEE 229 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 107/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELD 223 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 60/241 (24%), Positives = 108/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 5 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 65 KFHEEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 124 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + GI ++ Sbjct: 125 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIH-ADAISY 183 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +++ Sbjct: 184 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLTEAE 243 Query: 241 L 241 + Sbjct: 244 V 244 >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 = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 91/356 (25%), Positives = 144/356 (40%), Gaps = 9/356 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K +++ ++ KV+A++GI SRR++E+ I +V VN + + + D I V Sbjct: 224 TKRVLRPEPEAPKLHKVLAQSGIGSRRDMEQFILDGKVTVNDEVAHV-GMRISYGDRIAV 282 Query: 63 DGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 DG P ++ L + +VT + + + SVGRLDINT Sbjct: 283 DGKPVRLRIQPGPARLLAYHKPTGEVVTLNDPEGRPTVFRRLPRLQQGKWQSVGRLDINT 342 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL TN G LA L P R Y VR G +++++ L +G+ I G G + Sbjct: 343 EGLLLFTNSGELANQLMHPRFGVEREYAVRVLGSLNEEQRAKLLEGVEIDGQTAGFKSIE 402 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V + EG+NRE++K+F+ V+RLIRI YG L L G E+ Sbjct: 403 EGGGEGANRWYRVVITEGRNREVRKLFDKVGLAVSRLIRIRYGTVVLPRGLKRGVWVELD 462 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK---KNSSQKNG 294 + LR + + R N + P+ R +Q G Sbjct: 463 DQDLRAIRQLASGNRGAAAQSESRDAQGNREQRRNNGRNGKPERNARGPQQGGARAQGQG 522 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 ++ P R + F E+ R + +R + Sbjct: 523 GGERGPRREPRESRFGEAAPDTDGAGEEDFGRIPNPLEQTFDRRFAKGPRRGAAQG 578 >gi|332999092|gb|EGK18679.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri K-218] Length = 291 Score = 179 bits (455), Expect = 5e-43, Method: Composition-based stats. Identities = 60/290 (20%), Positives = 114/290 (39%), Gaps = 5/290 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R ++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRYLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ A ++ + + + R N + ++++ Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKRR 288 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 65/238 (27%), Positives = 110/238 (46%), Gaps = 5/238 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + EN R+ +++ G+ +R+E++++I ++V VNG L +++ DHIEV G Sbjct: 1 MAEN-EKLRLDRLLNHMGLGTRKEIKKLIKAKQVMVNGELAMDPGLHIFPQRDHIEVQGE 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + E L L L T D + VGRLD +TEGLLLLT Sbjct: 60 VIEYREYIYLMLNKPQDVLSATEDASDKVVIDLLDPTYHSFNPFPVGRLDKDTEGLLLLT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKG 184 N+G LA L P + Y G V ++ + +G+ + Q+ + + Sbjct: 120 NNGKLAHQLLSPKKHVPKTYYALVQGLVTEEDVAAFARGVELDDGYRTLPGQLKII-RSA 178 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + + + EGK ++K++FE +V L R+S GP L L G RE++ + + Sbjct: 179 PQSEIELTIYEGKYHQVKRMFEAVGKRVIYLKRLSMGPLVLDNNLKPGEYRELTDEEI 236 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 59/289 (20%), Positives = 108/289 (37%), Gaps = 5/289 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R I Q V +NG + V D ++V+G + Sbjct: 6 SIRLNKYISESGICSRRDADRYIEQGNVFINGKRVA-LGDRVFPGDVVKVNGQLIEPRNE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + DG + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGVVSTTEDGEKDNIVDFVNHSTRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + ++ L G+ + G +K + + Sbjct: 125 KILRAGNDHEKEYLVTVNKPVTDEFIHGLGAGVPMLGTV----TKKCKVKKVAPFVFRIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L L G R+++ L E Sbjct: 181 LVQGLNRQIRRMCEHFGYEVTKLERTRIMNVGLAGLPLGEWRDLTDDELVELFKLIEDSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ + N K+K Sbjct: 241 SEAKPAKKAKPAVKKPASSGNGQRTADKPSGNPAARKRFTQPGRKKKGR 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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 62/291 (21%), Positives = 122/291 (41%), Gaps = 11/291 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + + P+R++K I+ +G SRR ++MI RV +N + V++ D ++V Sbjct: 2 SSDKLTTSTPPKRLNKYISDSGFCSRRSADKMIEANRVTINDKVP-ELGTKVLAGDVVKV 60 Query: 63 DGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 DG + Y+KPIG+ T + + R+ +GRLD + Sbjct: 61 DGYDIAPISDDKSDRIYIAYNKPIGITCTTEKHVRGNIIDAI--GHKKRIFPIGRLDKPS 118 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGL+ LT+DG + + + Y V + + + + +G+ I G Sbjct: 119 EGLIFLTSDGDIVNKILRAENAHDKEYIVTVDKPISERFIERMSRGVPILGTITKPC--- 175 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q S T+ L +G NR+I+++ E+ +++V +L R +LG L G RE++ Sbjct: 176 -IVQVKSRFEFTIILTQGLNRQIRRMCEYLDYEVLKLKRSRIMKVELGDLTPGQWRELTI 234 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 + E A + + + D + + + + + + + Sbjct: 235 TEMAEINQAVEGSSKTAINTAQPKQTTSSMNDLEELSASLNNADNKSESKT 285 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 117/292 (40%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + ++ + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 239 SSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 67/244 (27%), Positives = 116/244 (47%), Gaps = 5/244 (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 + + T+ + ++ +L R+ +VGRLD +T GL++LTNDG A Sbjct: 62 YFLMNKPKRTMCTSEDEFGRQTV--VDLIDCEQRIFTVGRLDYDTSGLIILTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQ--KGSNAWVT 190 + P +VY + +G + + + +K GIV+ + + + + + Sbjct: 120 IIHPRYHIPKVYNLTINGILTSEDMKKIKSGIVLDDGIKTLPAKYRITEKDPQKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+IK++ E ++V RL R L G R + +++ Sbjct: 180 LTIVEGRNRQIKRMMEALGYEVRRLHRSKLAFLHCSDLRQGEYRVLKPFEVKQLRSLAQK 239 Query: 251 EEAQ 254 E + Sbjct: 240 GEMK 243 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 89/235 (37%), Positives = 126/235 (53%), Gaps = 1/235 (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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + + EGKNR ++++ E V RL RI G + + G R ++ K +RE Sbjct: 188 LEITVHEGKNRLVRRMCEKIGHPVLRLKRIKLGTLSIKGVKPGQYRLLNTKEIRE 242 >gi|332752067|gb|EGJ82460.1| ribosomal large subunit pseudouridine synthase F [Shigella flexneri 4343-70] Length = 290 Score = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R ++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRYLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 239 SSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 55/236 (23%), Positives = 115/236 (48%), Gaps = 2/236 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 ++ P R+ K++A G SR++V+++I +V +NG+++ A V + D I V G + Sbjct: 2 KSQKPARIDKILASCGYGSRKDVKKLIKSGQVSINGVIINDAGTLVNPSLDEIIVAGECI 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + +T+ D + ++ VGRLD + EGL+ LT+D Sbjct: 62 FYEDNVYIMMNKPQDVVSSTYDDFETTVIDLLEGEYFHRKLFPVGRLDKDAEGLIFLTDD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G +A L P + + Y V +G++++ + G+ ++ ++ + + + + Sbjct: 122 GKMAHRLLSPKNRVPKTYYVEVYGRLNESDVKAFAAGMELEDFTALPAELDILEKNNNIS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R+ GP +L L G R+++K+ + Sbjct: 182 SAYVTIYEGKFHQIKRMMKARGKEVTYLKRLFLGPLRLDEELEPGMWRKLTKEEVD 237 >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 = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 67/235 (28%), Positives = 118/235 (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 +L + R+ +GRLD ++ GL+LLTNDG + Sbjct: 63 KLYIMLNKPEGYITSVKDEKGRKT-ILDLVKVNERIYPIGRLDYDSSGLILLTNDGDIYN 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|315617385|gb|EFU97991.1| ribosomal large subunit pseudouridine synthase F [Escherichia coli 3431] Length = 290 Score = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 117/292 (40%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGGRDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + ++ + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 239 SSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >gi|324112367|gb|EGC06345.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] Length = 290 Score = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSIRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDVVKVNGRLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKSVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 239 STSEVKPKAKAKPKTAGIKRPVVKMEKTSEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 64/265 (24%), Positives = 110/265 (41%), Gaps = 14/265 (5%) Query: 1 MKDKN-------IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN 53 MK KN I + R++K I+ G SRRE +++I RV V+GI Sbjct: 1 MKQKNNEDKFVIIHNDRGPEIRLNKFISETGFCSRREADKLIENGRVTVDGIKA-VMGTK 59 Query: 54 VMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 V + ++VDG ++K + +KP+G+ T + + R+ +GR Sbjct: 60 VKESADVKVDGKSIKKVDELVYIALNKPVGITCTTEKKV--KGNIVDFVNHKKRIFPIGR 117 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD +++GL+LLTNDG + + + Y V +D+ + + G+ I G Sbjct: 118 LDKDSQGLILLTNDGDVVNKILRAGNNHEKEYIVTVDKPIDEKFIKSMSSGVKILGTITK 177 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 K + + L +G NR+I+++ E + V +L RI + L G Sbjct: 178 KC----IVTKENKNTFRIILTQGMNRQIRRMCEALGYNVVKLNRIRIMNINIERLKIGEW 233 Query: 234 REVSKKILREQLGPHLLEEAQVNLD 258 R ++ K L+ D Sbjct: 234 RNLTSKELKGLNNLISNSGKTKEFD 258 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 97/231 (41%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K +A G SR++V++++ V+V G ++ + +V I V G + Sbjct: 1 MRIDKFLANMGFGSRKDVKKLLKTGAVRVQGQPIKDPSTHVEPESESITVYGEEVEYKPY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T VGRLD +T GLLL+TNDG Sbjct: 61 VYLMMNKPKGVICATEDLEHETVIDLLGEEERHYEPSPVGRLDKDTVGLLLITNDGKFNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + YR G V ++ + G+V+ + + + G+ + + + Sbjct: 121 WLMSPKHHVPKTYRALVEGHVTEEDVGAFSHGVVLDDGYVTKPATLHIL-EAGARSHIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EGK ++K++F+ +V L RI G L L G RE++K+ + Sbjct: 180 ILTEGKFHQVKRMFQAVGKRVLELERIKIGNLLLDPELARGEYRELTKEEI 230 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 83/358 (23%), Positives = 134/358 (37%), 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----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 V+G P+R + + +VT + + + 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 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +GSN W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ Sbjct: 250 EEGGGEGSNLWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMVLPRGLRRGAWMEL 309 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + +R + + + + Sbjct: 310 DDRDIRALMQAAGGSVESSE-------------------PGGGTSSRGRPGSGNAGGFKN 350 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + A + A A G G + + + S + S R K Sbjct: 351 GNGRPAGAQRQGGAAGKSGKAAGKSGRGAGGQGAQPDPMKTSQGYIGHDSFIRQRQDK 408 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 115/238 (48%), Gaps = 2/238 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++ +A AGI SRR+ E +I RVKVNG ++ + D +E+DG L + E Sbjct: 11 RLARYLAAAGITSRRKAETLIQAGRVKVNGRVVRELGFVINEEKDQVELDGWLLHREEPV 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T +D GR TV D L + RV VGRLD +TEGLLLL+NDG + Sbjct: 71 YILLNKPSG-YLCTLADTHGRPTVVDLLRGVTQRVYPVGRLDYDTEGLLLLSNDGDFTHL 129 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + +VY G V + + L+ G++I + +V + ++ + + + Sbjct: 130 MTHPRFEIEKVYEAWVQGMVSRKAIERLRAGVIIDAVKTAPAKVRVLAKRKDRTLMEIRI 189 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 EG+ R++KK+ V L R +G L L G R ++K + + Sbjct: 190 HEGRKRQVKKMCASVGHPVVALKRTRFGDLTLDGLRPGEFRYLTKDEVEYLQNLAKGQ 247 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD + +GL+ LTN G L Sbjct: 63 ESEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDFQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTVGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 75/241 (31%), Positives = 117/241 (48%), Gaps = 3/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVIMDLATTVKSGDVVEIEGSPIYNEEKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D GR TV D LP + R+ VGRLD +T G+L+LTNDG Sbjct: 61 YYLLNKPRGAISSVS-DDKGRKTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDT 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +V + L L +GIVI G + + + + V + Sbjct: 120 MIHPRNEIDKVIWRVSKVLQRKKNLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+N ++KK+FE V++L R G L L G R ++KK + + + Sbjct: 180 TIHEGRNHQVKKMFESVGLLVDKLSRTRLGTVDLKGLRPGEARRLNKKEISQLHNLANTK 239 Query: 252 E 252 + Sbjct: 240 K 240 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 74/232 (31%), Positives = 115/232 (49%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V+VNG + + V D + VDGVPL + Sbjct: 2 ERLQKVMAEAGVASRRASEKLIASGHVQVNGKTVTEMGIKVSEHDEVVVDGVPLHREAHV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + H D R+ V RV VGRLD +T G+LLLTNDG LA Sbjct: 62 YYLLNKPRSVITSAHDDKGRRTVVDILKEEGVAERVYPVGRLDYDTTGILLLTNDGELAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + + Y + G V+ + L L+ G+ + G + L + V Sbjct: 122 RLMHPKFEVEKTYIAKVRGIVNNNDLKQLRIGVEVNGRLTKKAKSRLIETDHKKQTSLVK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EG+ ++K +F+ + V +L R +YGP L L +G RE+ + ++ Sbjct: 182 LTIHEGRYHQVKLMFDAIHHPVIKLHRETYGPLDLNGLQSGEFRELKQDEVK 233 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSIRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDVVKVNGRLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 239 STSEVKPKAKAKPKTAGIKRPVVKMEKTSEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 65/311 (20%), Positives = 120/311 (38%), Gaps = 8/311 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T R++K I+ +GI SRRE +R + + V +NG + V + D ++V+G + + Sbjct: 5 TTTRLNKYISESGICSRREADRFVEKGSVFINGKRAKV-GDQVSAGDTVKVNGQIIDPRD 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L + + + + R+ +GRLD +++GL+ LTN+G L Sbjct: 64 EERLVLIALNKPVGVVCTTEGSEKNNIVDYVNHGERIFPIGRLDKDSQGLIFLTNNGDLV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V + + + KG+ I G ++ K + + Sbjct: 124 NKILRAGNRHEKEYLVTVDKPITDTFIRDMAKGVPILGEVTRKCKIV----KETPTLFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ + F + + RL R+ + L G R+ S+ L L Sbjct: 180 TLVQGLNRQIRRMCDHFGYDIVRLERVRIMNVSMKGLGVGEWRDFSQNELAGILESTADS 239 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 ++ AP + E P +K S +K + R Sbjct: 240 QSAA---APSKKRKPAKTGDRPWYPEKPKSAYSSRKKSPSGTPKAKNGGASGDKPSRPPK 296 Query: 312 SNVWMAKGIHS 322 S V Sbjct: 297 SGVAGRTKKRR 307 >gi|325684334|gb|EGD26503.1| ribosomal small subunit pseudouridine synthase A [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 241 Score = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 99/231 (42%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +A + SR +V +I +V VNG + A V + V+G + + Sbjct: 3 RLDKFLANMKVGSRSQVHEIIKAGQVTVNGKVCRSAKQKVKEDAEVLVNGQAVIYQQYHY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L T + ++ VGRLD +T GLLLLTNDG LA L Sbjct: 63 FLLNKPAGVLSATEDSRQKTVLDLLKDQDRYQKIAPVGRLDKDTTGLLLLTNDGQLAHQL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGD--MQVTLDTQKGSNAWVTV 191 P + Y G D++ + G+ ++ +++ + + + + Sbjct: 123 LAPEYHVPKTYYALLAGVADEETAKAIAAGLTLKDGTELKPGQLKILRQDKDQEQSEIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV +L R+S GP L L GS R ++++ + Sbjct: 183 TITEGKYHQVKRMFASQGMKVLKLKRLSMGPLTLPADLALGSYRPLTEEEM 233 >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 = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKSFTDWFINEMSSGVKIKDGITKPCKVTRV----DKSTCRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >gi|303242956|ref|ZP_07329414.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] gi|302589505|gb|EFL59295.1| pseudouridine synthase [Acetivibrio cellulolyticus CD2] Length = 250 Score = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 113/233 (48%), Gaps = 4/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QRV ++++ G +RRE+++++ VKV+G +++ + ++V T IE+ G L Sbjct: 3 ETQRVDRILSNFGFGTRREIKQLVKNGEVKVDGEVIKDSGMHVDPKTSKIEISGQVLNYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + + + T + VGRLDI+TEGLLL+TNDG L Sbjct: 63 QFIYVMMNKPAGVISATFDNRHETVVDILPEEYKCFDPFPVGRLDIDTEGLLLMTNDGQL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P + Y G+V + + ++GI++ ++ + ++G ++ V Sbjct: 123 AHELLSPRKHVPKKYFAYIEGEVSAGDVKMFEEGILLDDGYKTLPAELHIL-EQGESSSV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + EGK ++K++FE KV L RI+ G L L G RE+++ L Sbjct: 182 EVIIFEGKFHQVKRMFEAVGKKVKYLKRITMGNLVLDEALATGECRELTENEL 234 >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 = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV++++ + VKVN + + V D I VDG + Sbjct: 1 MRLDKFLSNMGVGTRTEVKQLLKKNSVKVNDKVEKSPKSQVDPEQDEITVDGKIIEYINH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYV-SATYDDINQTVIDLIADYRHLDLFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y+V + + + K GI + Q+ S V Sbjct: 120 NLMSPSKHVSKTYKVTSKYPIKNEDIIAFKNGIELSDGKVKPAQLEKLDHNVS----LVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F + +V L R+ L L +G R ++ + L+ Sbjct: 176 IYEGKYHQVKRMFHSIDNEVLELKRLKISNLTLDENLKSGEYRLLTSEELK 226 >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 = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 56/248 (22%), Positives = 106/248 (42%), Gaps = 6/248 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + TP R++K ++ G SRR +++I Q RV +NG + + + D I VDG + Sbjct: 2 SDTTPTRINKYLSEVGYCSRRAADKLIDQGRVTINGKVP-EMGTKITAADEIRVDGELIG 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K + +L + +D + + R+ +GRLD +EGL+ LT+DG Sbjct: 61 KPKGKHTYLAFNKPVGIVCTTDTGVEKDNIIDFINYPKRIFPIGRLDKPSEGLIFLTDDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + ++ D L + G+ I +V Sbjct: 121 DIVNKILRARNNHEKEYIVSVNKPINSDFLRQMSSGVPILDTVTRPCKVERI----DKYT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 ++ L +G NR+I+++ + ++V RL R+ +L L G R++++ L E Sbjct: 177 FSIILTQGLNRQIRRMCDHLEYRVKRLQRVRIMNVEL-DLEVGKYRDLTEAELSEINRLV 235 Query: 249 LLEEAQVN 256 + Sbjct: 236 EASAKTHD 243 >gi|167464456|ref|ZP_02329545.1| pseudouridine synthase [Paenibacillus larvae subsp. larvae BRL-230010] Length = 250 Score = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 116/242 (47%), Gaps = 7/242 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K+++ G +R E++++ V VNG +++ + V D+IEV+G + Sbjct: 3 ETLRLDKMLSHLGYGTRSELKKLAKNGGVTVNGKVVKDSGWKVYPDEDYIEVNGEQVIFR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + L + T D + V VGRLD +TEGLLLLTNDG L Sbjct: 63 EHVYVLLNKPAGVISATEDMRDRTVVDLLDDHIRVFGVFPVGRLDKDTEGLLLLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD----TQKGS 185 A L P + Y R +G V ++ + + +G+V+ Q+ + ++ Sbjct: 123 AHNLLSPRKHVPKTYYARVNGDVTEEDVRIFSEGVVLDDGYMTMPAQLVVLDSGNPEEEK 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|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 = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 58/272 (21%), Positives = 114/272 (41%), Gaps = 11/272 (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 LRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +++ E+ ++KP G+ T + + + R+ +GRLD +EGL+ +T Sbjct: 58 IQERTEKPIYLAFNKPAGIECTTNL--DVRDNIIDFINYPERIFPIGRLDKASEGLIFMT 115 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + + Y V + + ++ + GI I + ++ S Sbjct: 116 NDGDIVNKILRARNNHEKEYIVTVNHPITDRFIDRMANGIPILETITKKCK----VEQIS 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E+ +++V L R L + G R ++ + E Sbjct: 172 KFVFRIILTQGLNRQIRRMCEYLDYEVTALKRTRIINISL-DVAEGKYRNLTDAEVAELN 230 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 P + + + Sbjct: 231 KLIEPSSKTEEASLPSNKGKFTGKRNYGERNR 262 >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 = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 110/231 (47%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I V+VNG ++ + V D + DG + E Sbjct: 4 MRLDKLLSNMGIGTRKEVKKYIKDGLVEVNGEIVLDPSKTVDTEKDEVLFDGEKVEYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + TH + +V VGRLD +TEGLL++TNDG LA Sbjct: 64 IYVMMNKPQGVISATHDKSEETVIDLLPEEIALRKVFPVGRLDKDTEGLLIITNDGELAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + ++ Y G++ + K+G++++ Q+ + + + V V Sbjct: 124 KLLSPKKKVVKKYYAEVLGKITEKDAEKFKEGVILEDGYRTMPSQLEII-ESSDISKVYV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EGK ++K++FE KV L R+ G QL L G RE++++ + Sbjct: 183 YLTEGKYHQVKRMFEAIGKKVLYLKRLCMGKLQLDENLEPGEWRELTEEEV 233 >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 = 179 bits (453), Expect = 6e-43, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKVKAKPKTAGIKRPLVKMEKTSEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 83/240 (34%), Positives = 122/240 (50%), Gaps = 1/240 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 T +R+ K +ARAG+ASRR+ E +I RV V+G ++ + + VDG + Sbjct: 2 TKERLQKYLARAGVASRRQGEELIRAGRVSVDGRIVTTLGQLIDSEKAEVMVDGRKVLPP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP G VTT +DP GR V D LP R+ VGRLD + GLLLLTNDG L Sbjct: 62 PHCRTIVLNKPYGCVTTMADPQGRRKVIDLLPDQEERLYPVGRLDYDATGLLLLTNDGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + YR GQ L++GI + G QV L + + Sbjct: 122 AHRLMHPRYKVAKTYRATVAGQFSPAARRRLREGITLDGRLTIPEQVRLVKTSSERSVLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + +REG+ +K++ V +L RI+YGP +LG L G+ RE++++ +R Sbjct: 182 LTIREGRYHLVKRLCAAVGCPVLKLKRIAYGPLRLGRLALGTWRELTQEEVRRLKEAVNC 241 >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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 81/259 (31%), Positives = 137/259 (52%), Gaps = 6/259 (2%) Query: 1 MKD---KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK+ KN +++ R+ K +A AG+ASRR E++I + RVKVNG++++ V Sbjct: 1 MKNCTRKNNKEDHMAEVRLQKAMADAGVASRRASEKLILEGRVKVNGVVVKELGTKVKGD 60 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 D IEV+G + + +L++KP G+++ D GR V D +R+ +GRLD + Sbjct: 61 DAIEVNGTLIERERNKVYYLFYKPRGVISAVKDDKGRRVVTDYFEGEKNRIYPIGRLDYD 120 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GD 174 T G+LLLTNDG LA +L P + + Y + G V D L L+KG+ ++ Y Sbjct: 121 TSGILLLTNDGELANLLMHPRYKVDKTYVAKVEGLVQSDDLKRLRKGVKMKDGHYSARAK 180 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + +++ V++ + EG+N ++K +FE V +L R +Y L L++G R Sbjct: 181 AKVISSDRAKNHSIVSLTIHEGRNHQVKNMFEAIGHPVMKLKRETYDFLTLKGLVSGQYR 240 Query: 235 EVSKKILREQLGPHLLEEA 253 E+S + ++ Sbjct: 241 ELSNEEVKTLYENARKNSK 259 >gi|323975348|gb|EGB70451.1| RNA pseudouridylate synthase [Escherichia coli TW10509] Length = 290 Score = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 239 STSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 55/226 (24%), Positives = 96/226 (42%), Gaps = 5/226 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G SR+EV+++I V VN + ++ + ++ D +E++G + E Sbjct: 1 MRLDKFLVNQGFGSRKEVQKLIKAGIVYVNDVPVKDPSFHIDPNTDVVEIEGQEVEYKEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T+ + + I +++ +GRLDI+TEGLL++T+DG LA Sbjct: 61 YYFMLNKPKGYITATYDENYPTVMDLFSAEPIVNKLFPIGRLDIDTEGLLIITSDGVLAH 120 Query: 133 VLELPSTQWLRVYRVRFH---GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +D K + +V + + + Sbjct: 121 RLSHPKWNVEKEYFVIVEGDVSDIDFSKYEKEGIYLKKDKYKTKPFKVNVLKTSFEESEL 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + + EGK IKK+ + +V L R+ GP L L G R Sbjct: 181 LITITEGKYHIIKKIMYALDHEVKYLKRVRIGPLTLDEDLDVGEYR 226 >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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEANSCSRRETDRLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGITKPCKVTRV----DKSTCRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELNDLEVGKWRDITAEELELLIG 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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 129/242 (53%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + Y + +G+++ + L +L+ G+ I +V + K N V + Sbjct: 122 ITHPKHKIKKTYVAKINGKLEDNHLRILRNGVRIDNYKTAKAEVNVVKNKNKSGNTLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EGKNR+++++FE ++V +L R S L L G R ++ ++ + Sbjct: 182 TIHEGKNRQVRRMFEALGYEVIKLKRESIEDLTLEGLKKGEYRPLTIHEVKRLINKAKNG 241 Query: 252 EA 253 E Sbjct: 242 EK 243 >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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 69/239 (28%), Positives = 116/239 (48%), Gaps = 7/239 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K+++ G +R E++++ V VNG +++ + V D+IEV+G + E Sbjct: 12 RLDKMLSHLGYGTRSELKKLAKNGGVTVNGKVVKDSGWKVYPDEDYIEVNGEQVIFREHV 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T D + V VGRLD +TEGLLLLTNDG LA Sbjct: 72 YVLLNKPAGVISATEDMRDRTVVDLLDDHIRVFGVFPVGRLDKDTEGLLLLTNDGKLAHN 131 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD----TQKGSNAW 188 L P + Y R +G V ++ + + +G+V+ Q+ + ++ A Sbjct: 132 LLSPRKHVPKTYYARVNGDVTEEDVRIFSEGVVLDDGYMTMPAQLVVLDSGNPEEEKPAE 191 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + + + EGK ++K++FE + KV L RIS G +L +L G++RE++ K L G Sbjct: 192 IELTIHEGKFHQVKRMFEAVHKKVVYLKRISMGSLKLDPSLSPGASRELTAKELEALQG 250 >gi|288556014|ref|YP_003427949.1| pseudouridylate synthase [Bacillus pseudofirmus OF4] gi|288547174|gb|ADC51057.1| pseudouridylate synthase [Bacillus pseudofirmus OF4] Length = 242 Score = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 73/243 (30%), Positives = 119/243 (48%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KVIA+AGI SRR+ E MI + +VKVNG ++ V V D IEV+GVP+ K E Sbjct: 2 ERLQKVIAQAGITSRRKAETMITEGKVKVNGQVVRELGVKVNPNKDEIEVEGVPIDKEEP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +Y + + + + I RV +GRLD +T GL+LLTNDG A Sbjct: 62 VYYLMYKPQGVISSVKDEKGRKVVTDFL--EIEQRVFPIGRLDYDTSGLILLTNDGEFAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VT 190 L P + +VY + G ++ L L+ G+V++ +V L + V Sbjct: 120 QLMHPKFKIDKVYVAKVKGIPARESLKKLQHGVVLEDGKTAPAKVKLVSMDKKKQTAIVQ 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++FE V +L R Y L ++ G R + ++ + Sbjct: 180 LTIHEGRNRQVRRMFEAIGHPVMKLKREQYSFLNLRSMNPGDVRPLKPIEVKHLRELAVT 239 Query: 251 EEA 253 + + Sbjct: 240 KPS 242 >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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 67/325 (20%), Positives = 132/325 (40%), Gaps = 7/325 (2%) 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 + + V S R+ +GRLD +++GL+LLTNDG + + Sbjct: 63 YIAFNKPVGIVSTTDPNEKANIVKYI--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 Sbjct: 177 QGLNRQIRRMCAYFDYEVLKLERTQIMNIELEGLGLGSWRDLNPGELEVLFDMLEDSNKH 236 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 V+ S++++ + + + + + + K++ A + Sbjct: 237 VDDKGRSVSNKSINKQLELLDIQTDFRKSGLNAKNRAATKNRKRQSPAQASSGTSSFKPK 296 Query: 315 WMAKGIHSSFLSDSGQREENHRRSP 339 G S R Sbjct: 297 KTGSGPRIGKQKASKVSHRGSRNKR 321 >gi|291544370|emb|CBL17479.1| ribosomal large subunit pseudouridine synthase B [Ruminococcus sp. 18P13] Length = 242 Score = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 87/234 (37%), Positives = 125/234 (53%), Gaps = 3/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RK 69 R+ K+IA +G SRR+ E IA +VK NG ++ S D I V+G + K Sbjct: 2 EKTRIQKIIADSGYCSRRKAESFIAAGQVKCNGRPVK-LGDKAGSRDLITVNGERIAIPK 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + +REG+NR+I+++ E +V RL RIS GP +LG L G+ RE++ + LR Sbjct: 181 LITIREGRNRQIRRMCEAVGLEVARLRRISIGPLKLGMLKPGTYRELTAEELRA 234 >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 = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 239 SSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 63/242 (26%), Positives = 102/242 (42%), Gaps = 9/242 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRK 69 R+ K +A +G+ SR EV+ ++ + RV V G + V + DG L Sbjct: 84 NKGMRLDKFLAESGLGSRSEVKVLLKKGRVTVAGEIQRDGRFQVDKNSRQVAFDGQILDY 143 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L + T + + + VGRLD NTEGLL+LTNDG Sbjct: 144 QEYYYYLLNKPQGVVSATKDNVFKTVVQLLSEKDFRKDIFPVGRLDKNTEGLLILTNDGA 203 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------Q 182 L L P + Y R G+V + +N +G+ ++ G ++ ++ Q Sbjct: 204 LGHDLTQPKKHVEKEYFARIDGKVTDEIINKFAEGLTLKNGEKARPGELFVEKTYKGDSQ 263 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 G + + V + EGK ++K++FE V L RI G L L G+ R ++ + + Sbjct: 264 SGWVSEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLTIEEI 323 Query: 242 RE 243 Sbjct: 324 EN 325 >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 = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKVKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >gi|315166874|gb|EFU10891.1| conserved hypothetical protein [Enterococcus faecalis TX1341] Length = 257 Score = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 63/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T + + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRNETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G + G ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >gi|311032169|ref|ZP_07710259.1| pseudouridine synthase F (ribosomal large subunit) [Bacillus sp. m3-13] Length = 235 Score = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 67/242 (27%), Positives = 117/242 (48%), Gaps = 7/242 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +G+ASRR +++I + +VK+NG + + V D + V+G +R A Sbjct: 1 MRINKFISDSGVASRRGADKLIEEGKVKINGKVAQIGGQ-VNPGDEVLVNGQIIRIARDN 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KPIG+ +T +L + R+ +GRLD +EGL+LLTNDG + Sbjct: 60 VYIALNKPIGITSTTEKKV--KGNIIDLVNHPLRLSHIGRLDKESEGLILLTNDGDIINE 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 QV 255 + Sbjct: 234 EW 235 >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 = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 83/357 (23%), Positives = 143/357 (40%), Gaps = 6/357 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 176 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 234 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 355 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 414 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ S R + + + + + + Sbjct: 415 EAQVRKLMATVGLKAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQPR 474 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + S S + SG + S+ + + K Sbjct: 475 RGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPKREGGAGAK 531 >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 = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 64/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G + G ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTVEDCQLFAQGFALKDGEMVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >gi|160881056|ref|YP_001560024.1| pseudouridine synthase [Clostridium phytofermentans ISDg] gi|160429722|gb|ABX43285.1| pseudouridine synthase [Clostridium phytofermentans ISDg] Length = 477 Score = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 73/357 (20%), Positives = 136/357 (38%), Gaps = 13/357 (3%) Query: 3 DKNIVQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 K T + R++K ++ +GI SRRE + IA+ V ++G + V+ Sbjct: 5 TKRSFDTEETGEKAVRINKYLSESGICSRREADTRIAKGEVTIDGEVA-VMGSKVLPGQK 63 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + + + + E+ L +HKP G+V T + + R+ +GRLD ++E Sbjct: 64 VVLGKKEVSREEKMVLIAFHKPKGIVCTTEKRE--PDNIIDYIKYSQRIYPIGRLDKDSE 121 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL+ LTN+G + + + Y V + + L + G+ I + Sbjct: 122 GLIFLTNNGDIVNKILRAGNHHEKEYIVTVNKPITAAFLKGMAGGVPILDTVTKPCTLEA 181 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L +G NR+I+++ E F++KV +L+RI LG L G R ++ K Sbjct: 182 I----DKVTFRIILTQGLNRQIRRMCEHFDYKVTKLVRIRIMNVNLGRLKVGGYRNLTDK 237 Query: 240 IL---REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 L +EQ+ E + D V + R K+ Sbjct: 238 ELEGIKEQIELSNNEALNLEPDDEFPIERVNVANIAKTHGNNVATGKRRTKDKYFAEKKD 297 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 +K+ ++ + K + F S + SF + + S++ Sbjct: 298 DKKRSDATRNKAEVNKFASKNKSEGNKFGSKNSSEGNKFGSKNSFEGNKFGSKNSSE 354 >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 = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 83/357 (23%), Positives = 143/357 (40%), Gaps = 6/357 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 176 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 234 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 355 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 414 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ S R + + + + + + Sbjct: 415 EAQVRKLMATVGLKAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQPR 474 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + S S + SG + S+ + + K Sbjct: 475 RGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPKREGGAGAK 531 >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 = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 127/247 (51%), Positives = 174/247 (70%) 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 WLTVSLSEGKNREVRRVLQHLGLTVTRLIRIAYGPFALADLPRGAVEEINAKVLREQLGL 244 Query: 248 HLLEEAQ 254 + Sbjct: 245 DAPPRIK 251 >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 = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 61/291 (20%), Positives = 112/291 (38%), Gaps = 5/291 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + Sbjct: 4 TQSIRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVMPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + DG + + SR+ +GRLD +++GL+ LTN G L Sbjct: 63 DAEDLVFIALNKPVGIVSTTEDGERDNIVDFVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIELFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A ++ + + K+K Sbjct: 239 SSSEAKPKAKAKPKTQAIKRPVVKAPQSEEKGRGKPAGKRFTQPGRKKKGR 289 >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 = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 64/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G + G ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >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 = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 107/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIENNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRI----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTSEELD 223 >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 = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 68/238 (28%), Positives = 112/238 (47%), Gaps = 5/238 (2%) 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 + + T++ + ++ + L R+ +VGRLD +T G+LLLTNDG A Sbjct: 62 YYLMNKPKKSMCTSNDEFGRKTVIE--LVEGTERIFTVGRLDYDTSGVLLLTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWVT 190 + P +VY + +G + + + LK GIV+ + + + + Sbjct: 120 IIHPRYHLPKVYNLTINGILKPEDMRKLKNGIVLDDGYKTMPAKFKITEKDLKKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + EG+NR+IK++ E ++V RL R L G R + +++ Sbjct: 180 LTIYEGRNRQIKRMMEALGYEVRRLHRKQIAFLGCSDLRQGEYRTLKPFEVKKLRTLA 237 >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 = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 65/302 (21%), Positives = 111/302 (36%), Gaps = 6/302 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +G SRRE +R+I + RV +NG + V D +EVDG ++ + Sbjct: 1 MRLNKFISDSGFCSRREADRLIEEGRVLINGRRCKT-GQQVEDKDFVEVDGQRIKAKRQK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 T + + + ++ +GRLD + GL+ +TNDG + Sbjct: 60 ERVYLAFNKPEGITCTTEGSVKGNIVDFINYPEKIFPIGRLDKFSNGLIFMTNDGDIVNK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V V + L + GI I +VT K S + L Sbjct: 120 ILRAGNAHEKEYVVTIDRPVTDEFLRKMSNGIPILDTVTKKCKVT----KVSKNTFRIIL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ E+ +V L R LG L G+ R ++ K + E Sbjct: 176 TQGLNRQIRRMCEYLACRVLSLQRTRIMKVDLGKLKPGTWRHLNPKEMAEINQMIESSSN 235 Query: 254 QVNLDAPIYSSETLV-RDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 RP + KK+S ++ G + + R Sbjct: 236 TQEASKDSNKQGRRSLPKRPVARQNMKTSSQSHKKSSPKRRGQTSGRPSKQNSKSRPQRK 295 Query: 313 NV 314 Sbjct: 296 RR 297 >gi|315146884|gb|EFT90900.1| conserved hypothetical protein [Enterococcus faecalis TX4244] Length = 257 Score = 178 bits (452), Expect = 8e-43, Method: Composition-based stats. Identities = 63/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G ++ ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >gi|323439505|gb|EGA97226.1| ribosomal large subunit pseudouridine synthase B [Staphylococcus aureus O11] Length = 245 Score = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 76/243 (31%), Positives = 127/243 (52%), Gaps = 3/243 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K IA +G SRR+ E +I++ + KVNG + V +D IEV+G+ + Sbjct: 2 TKELERLQKRIANSGYTSRRKAETLISEGKAKVNGTTVTELGTKVKPSDTIEVEGIKIEL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 -EDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNA 187 ++ P Q + Y + G + ++++ L+KGI ++ + V + + Sbjct: 121 FTNLMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQPAEVKVKKQDKDKNTT 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+NR+++++ E F +V +L RI YGP + L AG R ++ ++ Sbjct: 181 LVEITITEGRNRQVRRMLEHFGHQVTKLSRIEYGPLNVVGLNAGEGRVLTPHEVKVMRHL 240 Query: 248 HLL 250 Sbjct: 241 AEH 243 >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 = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKVKAKPKTAGIKRPLVKMEKTSEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEYFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTVGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 110/231 (47%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + + TD I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIINTETDEILFDGKKIYYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + VGRLD +TEGLLL+TNDG LA Sbjct: 64 IYIMMNKPEGVISATYDPIEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y + G V++ + +GIV++ + + + + V V Sbjct: 124 KLLSPKKNVIKKYYAKILGFVNESDIKAFNEGIVLEDGYKTLPANLEILSSSDV-SKVYV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 183 YIREGKYHQIKRMFESVGKKVIYLKRLAMGNLTLDENLKPGEWRELSEEEL 233 >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 = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 75/248 (30%), Positives = 115/248 (46%), Gaps = 9/248 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A+ G+ASRR E MIA RV VNG +++ V V D + VDG + + Sbjct: 1 MRLQKYMAQCGVASRRGSEAMIADGRVMVNGSVVDTPGVQVTPGDVVFVDGKLIAPERKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T+ R +L + R+ ++GRLD +TEGLL+LTNDG L Sbjct: 61 YLLLNKPRGVVTTSEDVHAERRI--LDLVAAEVRLYAIGRLDKDTEGLLILTNDGDLTFR 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-------QGICYGDMQVTLDTQKGSN 186 L PS +VY GQ+ L L++G+VI + +VT+ +K + Sbjct: 119 LTHPSYHLDKVYEAVVKGQLTAPALAALREGVVIPLDDAGTKTYRTQPAEVTVLRRKRGS 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +++ L EGK R+I+K+ + V L R + G TL G R + + + Sbjct: 179 TRLSITLCEGKKRQIRKMCAAVGYPVVALRRTAIGDIADDTLKPGEWRRLRPDEVAKLRR 238 Query: 247 PHLLEEAQ 254 E Sbjct: 239 AVQGEGDA 246 >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 = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 109/230 (47%), Gaps = 8/230 (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 + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGIICTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELE 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 = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 59/279 (21%), Positives = 118/279 (42%), Gaps = 12/279 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----RKA 70 R++K ++ AG SRR +++I Q RV +NG ++ + D ++VDG + ++ Sbjct: 8 RINKFLSEAGYCSRRAADKLIDQGRVTING-VVPEMGTKIAPGDEVKVDGELIATEEKEK 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + TT + + + + + R+ +GRLD +EGL+ LT+DG + Sbjct: 67 PNVYIAFNKPIGIVCTTDTKREKNNIIDYI--NYPERIFPIGRLDKPSEGLIFLTSDGDI 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V+ + + D + + KGI I + ++ Sbjct: 125 VNKILRARNNHEKEYIVKVNKPLQPDFVKKMSKGIPILDTVTREC----FVEQTGENEFR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+ + V +L RI L + G R ++K L+E Sbjct: 181 IILTQGLNRQIRRMCEYLGYAVTKLKRIRIMNVPL-DIPVGKWRHLTKAELKEIDRLVNT 239 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 +++ + I + P+ R +K S Sbjct: 240 SSKTEEASQLSENNDNKIAKPKGIKPKNPNKHKRPRKKS 278 >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 = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 110/230 (47%), Gaps = 8/230 (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 + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--HYPERIFPVGRLDKASEGLILLTNDGGIAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L +G R+++ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNGLESGKWRDITAEELE 223 >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 = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 107/230 (46%), Gaps = 8/230 (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 + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R +L L G R ++ L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRERIMNIELDDLEVGKWRNITDGELE 223 >gi|258591956|emb|CBE68261.1| Uncharacterized RNA pseudouridine synthase aq_1464 (RNA-uridine isomerase) (RNA pseudouridylate synthase) [NC10 bacterium 'Dutch sediment'] Length = 282 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 80/258 (31%), Positives = 122/258 (47%), Gaps = 2/258 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ + +ARAG+ SRR E++I RV+VNG + + V D + D P+ ++ Sbjct: 25 ERLQRYLARAGLGSRRSCEQLILDGRVRVNGRIASQLGTKVSPGLDTVTCDHKPVTSSQS 84 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 + HKP G++T+ SDP GR + D LP 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 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + +G+ EI+++ + V RL RI GP LG L G R+++ L + L Sbjct: 205 IVHQGRYHEIRRMCDAIGHPVLRLQRIRVGPIVLGKLPKGCWRQLTPAELADIRRACLNA 264 Query: 252 EAQVNLDAPIYSSETLVR 269 + + Sbjct: 265 ARRQTVGRRTARRPESEG 282 >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 = 178 bits (452), Expect = 1e-42, 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|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 = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 73/341 (21%), Positives = 130/341 (38%), Gaps = 34/341 (9%) 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 + V +GRLD +EGL+LL Sbjct: 61 GSAPGKSDRVYIAYNKPVGITCTTERSVQGNIVDAIDHHQRI--FPIGRLDKPSEGLILL 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 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 P ++ + K Sbjct: 235 NIAISGS-----------------------TGSPPKKSSQSAAKKRKPQHRLKGTGSDAK 271 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 R++ S +K S S R+ R+SP+ +R Sbjct: 272 PARKSTKSRHSSSKNKDSGSDSRRSARKPGSRKSPTSSKRR 312 >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 = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 ESEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTVGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >gi|327480926|gb|AEA84236.1| pseudouridine synthase [Pseudomonas stutzeri DSM 4166] Length = 375 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 97/363 (26%), Positives = 152/363 (41%), Gaps = 27/363 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+AR GIASRR+VE+ I + RVKVNG + V S D I VDG L++ E Sbjct: 14 GEKLQKVLARLGIASRRDVEKWIVEGRVKVNGAVAT-LGQRVDSHDAIAVDGRLLKREET 72 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + T + + R I++GRLDINT GLLL T D Sbjct: 73 SQVVRRVLIYNKPDGEICTRNDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFTTD 132 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSN 186 G LA L PS + R Y VR G+VD + + LK G++++ + +G N Sbjct: 133 GELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKTGVMLEDGPARFTDIQEAPGGEGFN 192 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL---- 241 W + EG+NRE+++++E V+RL R+ +GP + L G RE+S+ + Sbjct: 193 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLPMGRWREMSQAEVDILS 252 Query: 242 ---------------REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 + + ++ ++R V D + Sbjct: 253 EEVGLKPIALPSMKAKTKEKIDRMQRKVAKPLGRGERRSRVLRPAHEADMPVADKPRAAR 312 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + S++ K TPV R + + S ++ + P F +RS Sbjct: 313 DDKSERKPRGSDKPRGTPVAERPGDTRKGGKRHEGGGRSSGPARKPAGEGQRPGFGRERS 372 Query: 347 LRR 349 R Sbjct: 373 KRP 375 >gi|206601589|gb|EDZ38072.1| Pseudouridine synthase, Rsu [Leptospirillum sp. Group II '5-way CG'] Length = 583 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 98/345 (28%), Positives = 160/345 (46%), Gaps = 12/345 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A G+ASRR E MI VKVNGI++ V TD + VDG + Sbjct: 18 IRLQKLLAHRGLASRRNAEEMIRGGLVKVNGIVVTVPGTKVHPETDRVTVDGKNVPVEPE 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+L++KP G+V+T DPDG++T+ D P I + +I VGRLDI +EG+LLLTN+G LA+ Sbjct: 78 PFLFLFYKPKGVVSTLHDPDGKTTLKDFFPRI-NPLIHVGRLDIQSEGVLLLTNNGDLAQ 136 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + R Y V+ G V + L+ L+ + + G +++ + +N+W + Sbjct: 137 RILHPRYEIPRTYLVKVQGVVTPEHLDRLRSGKVRLDGRPVQPLELEQERLTETNSWYRI 196 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EG+NRE++++F+ ++ V +L RI++G L L G R V+ + + L Sbjct: 197 TLTEGRNREVRRLFDALHYFVLKLTRIAFGNLDLTGLEPGEYRLVTPEEIDLLL-----S 251 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 A+ I E R + PD R ++ + + + Sbjct: 252 GARWKRKEAIPPPERSPRKPNFAAASSPDFRRRSVRSRPTFPDRAFSGPVDGNQEEDHFP 311 Query: 312 SNVWMAKGIHSSFLSDSGQREEN----HRRSPSFPSKRSLRRTSA 352 S G R ++ H R P K+ + Sbjct: 312 RQARQGYSSRPDTRSRGGTRSDSEMFFHDRPPHRSDKKQESGGPS 356 >gi|295110375|emb|CBL24328.1| ribosomal large subunit pseudouridine synthase F [Ruminococcus obeum A2-162] Length = 310 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 75/314 (23%), Positives = 137/314 (43%), Gaps = 9/314 (2%) 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 DGKPVEKEEREVLLLFYKPRGIVCSTKKQRRETTVTEYIDY-PTRIYPVGRLDKDSEGLL 119 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+TN G L + + Y+V +V + + ++ G+ I G + + Sbjct: 120 LMTNQGELVNRIMRAGNYHEKEYQVTVDHEVTDEFVRHMQTGVPILGTVTRPC---IVRK 176 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK--- 239 G N+ T+ L +G NR+I+++ E+ + V L R+ L L G+ RE+ + Sbjct: 177 TGRNS-FTIVLTQGLNRQIRRMCEYHGYHVRTLKRVRIMNLTLDGLKCGAYREIRRDEWS 235 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L+E + E S + ++ ++ G+ + Sbjct: 236 ELKELIRNSSSETITETGGHHGNSRSNPNERTGSEAERGGKGILSGRQRDHEQQGVRRAV 295 Query: 300 KLATPVHRRNLASN 313 + + N + Sbjct: 296 QRTGADRKNNRNRS 309 >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 = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTVGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 70/243 (28%), Positives = 108/243 (44%), Gaps = 5/243 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q R+ +A G+ASRR E IA RV VNG ++ V+ D + VDG + Sbjct: 18 QSQPESLRLQVYLAHCGVASRRSCETYIADGRVSVNGTVVTVPGTKVLPDDTVCVDGKRV 77 Query: 68 RKAERTRL-WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 E R L + + + ++ P R+ +VGRLD+ + GL+L TN Sbjct: 78 TLEETKRYVLLNKPAGFVCSLSDEKGRQTAASLLEPHYSERLYNVGRLDMFSAGLVLFTN 137 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS++ + Y V V KGI + + Y ++ Sbjct: 138 DGEFAARVSHPSSEMEKEYVVDTSLPVPPALAEKFVKGIRVDNVFYRCKSAERL----NS 193 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + L EGKNREI++VFE FN V +L+RI G + L G R+++ + + L Sbjct: 194 RRMRIVLIEGKNREIRRVFEAFNIGVKQLVRIRIGNLNIQGLGPGEFRDLTAAEVADILA 253 Query: 247 PHL 249 Sbjct: 254 LCR 256 >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 = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 112/229 (48%), Positives = 157/229 (68%), Gaps = 2/229 (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 RLWIYYKPVGLITTHKDPLSRKTVFEQL-TGLPRVISIGRLDLNSEGLLLLTNSGDLARQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ELPS + RVY VR +G+ D + K + I GI Y + L Q SN+W V L Sbjct: 121 FELPSNRLKRVYHVRAYGKSDILLKSD-YKNLEIDGIFYNPHSIKLFKQNKSNSWFEVVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+F KVN+LIRI YG F + L G+ +E++ KIL Sbjct: 180 FEGKNREIRRIFEYFGLKVNKLIRIQYGSFTIDNLKPGAYKEINNKILE 228 >gi|221314557|ref|ZP_03596362.1| pseudouridine synthase [Bacillus subtilis subsp. subtilis str. NCIB 3610] Length = 229 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 75/226 (33%), Positives = 120/226 (53%), Gaps = 3/226 (1%) 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 +++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELR 226 >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 = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 105/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T+ D + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLMMNKPAGVISATYDKRDETVIDLLYMEDQVFEPFPVGRLDKDTVGLLLLTNDGDLNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY + + + + + G+ + ++ + ++ V V Sbjct: 122 KLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSRVEV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++FE KV L R S+G L L G +E+S+ L Sbjct: 182 TVQEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSESEL 232 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 80/239 (33%), Positives = 120/239 (50%), Gaps = 8/239 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R++K +A+AG+ SRR+ + IA RV+VNG L+ + V V D + VDG + Sbjct: 27 PESCRLNKFLAQAGVCSRRKADTYIAAGRVQVNGSLVTQLGVQVHPGQDEVRVDGRVVEL 86 Query: 70 AERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLL 123 E L HKP+ +VTT DP GR TV D L + R+ VGRLD +EGLLL Sbjct: 87 PEAQSAGHDYILLHKPVQVVTTAKDPQGRRTVLDLLPSQTFTRRIFPVGRLDFMSEGLLL 146 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ 182 LT+DG LA L P +VY V V ++ + + G+ + +G + V Sbjct: 147 LTSDGELANRLTHPRWHVEKVYEVTLREAVTEEHMRQMSSGMRLSEGEQLAPVDVQRRKT 206 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + L +G NR+I+++ + RL RI GP +LG L G R ++ + Sbjct: 207 AADTSSLELTLHQGVNRQIRRMCRDLGLTILRLKRIRQGPVRLGKLPQGHWRHLTATEI 265 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >gi|320179014|gb|EFW53973.1| 23S rRNA pseudouridine synthase F [Shigella boydii ATCC 9905] Length = 290 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRVGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >gi|327438231|dbj|BAK14596.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 234 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 112/234 (47%), Gaps = 7/234 (2%) 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 + + R+ +GRLD ++EGLLLLTNDG + Sbjct: 60 VYIVLNKPVGITSTTEKQIEGNVV--DFVNHRLRIFHIGRLDKDSEGLLLLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ + ++ + G+ I +V +K S+ + L Sbjct: 118 ILRAENHHEKEYVVQVDKPITDQFIHDMSSGVEILDTTTLPCRV----EKVSSKVFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +G NR+I+++ + V RL RI +G L G R+++ K E Sbjct: 174 EQGLNRQIRRMCSALGYSVQRLQRIRIMNIHIGNLKVGQWRDLTDKERNELFQL 227 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 76/240 (31%), Positives = 120/240 (50%), Gaps = 3/240 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ K ++ G SRR+ E I RV+VNG +V D + VDG + Sbjct: 2 SAKEMRLQKYLSECGETSRRKAEIWITAGRVQVNGRPAR-LGQSVHPSKDLVTVDGRAVA 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +KP G VTT D R V D L + +RV +GRLD ++EGLLLLT+DG Sbjct: 61 PSP-KVYIALNKPRGYVTTLHDELDRRCVTDLLKGVETRVYPIGRLDRDSEGLLLLTDDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A L P ++Y V +V ++++ L+ GI + G +VT+ + Sbjct: 120 AFANALTHPRHHVPKIYHVSVRPRVTEEQVARLQNGIELDGRMTAPAKVTVLRSGSDRSV 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ E +V RL R++ G +LG L +G RE++ K +R Sbjct: 180 LELVLYEGRNRQIRRMCEALGLEVARLSRVAVGTVKLGGLRSGQWRELTDKEVRALERAA 239 >gi|205374450|ref|ZP_03227246.1| pseudouridylate synthase (ribosomal small subunit pseudouridine synthase A) [Bacillus coahuilensis m4-4] Length = 236 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G SR+EV+ ++ V VNG + +V + D + V G + E Sbjct: 1 MRIDKLLANMGYGSRKEVKSLLKSGNVVVNGTGCKDGKQHVNPSQDEVFVHGEKVVYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T D VGRLD +TEGLL++TNDG L+ Sbjct: 61 IYLLMNKPQGVISATEDLRDETVIDLLEPDHRVFNPFPVGRLDKDTEGLLIITNDGQLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + +G+ + + + G + + + Sbjct: 121 QLLSPKKHVPKTYYAEVKGVVTEEDVAAFSEGVTLDDGYHTKPGDLVIL-SSGEMSEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + EGK ++K++FE KV L RI GP L L G RE+S++ + + Sbjct: 180 TITEGKFHQVKRMFESVGKKVVYLQRIKMGPILLDENLELGEYRELSQEEIDQ 232 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 110/229 (48%), Positives = 157/229 (68%), Gaps = 2/229 (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 + K + I GI Y + L +NAW + L Sbjct: 121 FELPSNKLKRVYHVRAYGNPDILLKSE-YKNLEIDGILYNPYSIKLLRGNNTNAWFEIVL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+F KVN+LIR+ YG F +G L G +E++ KIL Sbjct: 180 FEGKNREIRRIFEYFGLKVNKLIRVQYGSFTIGNLKPGDYKEINNKILE 228 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 118/231 (51%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K++++AG+ASRR E +I + RV+V+G + + V+ + I V+G + Sbjct: 39 EEPVRLQKLLSQAGVASRRASEDLIKRGRVQVDGETVTEMGLKVLPSARITVNGQRIHTD 98 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++W ++KP+G V+T D R + D + RV VGRLD+ T GL+LLTN+G L Sbjct: 99 AALQVWAFNKPVGTVSTMQPEDDRPCLGDWATKLPQRVFHVGRLDVATSGLILLTNNGDL 158 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + Y GQV +L++G+ ++ L + ++ V Sbjct: 159 ANRLVHPRYEVPKTYVAMVQGQVKPGLGKVLRRGVELEDGVTKVDTFKLVEVRRGSSIVQ 218 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L GKNR ++++ V+ L R + G +LG L G R ++ L Sbjct: 219 LTLHSGKNRVVRRLLSEVGHPVSALTRTAIGTLRLGDLKEGHFRLLTGSDL 269 >gi|255012441|ref|ZP_05284567.1| ribosomal large subunit pseudouridine synthase B [Bacteroides sp. 2_1_7] Length = 495 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P++ + + L + T+ + + + + R+ VGRLD NT G Sbjct: 307 TFNEKPVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTG 366 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 367 VLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISYA 426 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 427 SED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNERE 485 Query: 241 L 241 + Sbjct: 486 V 486 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 105/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T+ D + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLMMNKPAGVISATYDKRDETVIDLLYMEDQVFEPFPVGRLDKDTVGLLLLTNDGDLNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY + + + + + G+ + ++ + ++ V V Sbjct: 122 KLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSRVEV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++FE KV L R S+G L L G +E+S+ L Sbjct: 182 TVQEGKYHQVKRMFEARGKKVIYLKRTSFGNLPLDESLEEGEYKELSESEL 232 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 89/360 (24%), Positives = 145/360 (40%), Gaps = 19/360 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+AR G+ SRR+VE IA+ RV VNG + V S D I VDG +R+ E Sbjct: 13 GEKLQKVLARLGVGSRRDVEVWIAEGRVNVNGSVA-SLGQRVDSHDAITVDGHLIRREEA 71 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + T + R I+VGRLDINT GLLL T D Sbjct: 72 AESVRRVLIYNKPEGEVCTRDDPEGRPTIFDRLPRLRTGRWINVGRLDINTTGLLLFTTD 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSN 186 G LA L PS + R Y VR G+V ++ + L G++++ + +G N Sbjct: 132 GELANRLMHPSYEMDREYAVRVRGEVTEEMIERLLNGVMLEDGPAKFSDIQQAPGGEGFN 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR--- 242 W + EG+NRE+++++E V+RL R+ +GP L L G RE+ ++ + Sbjct: 192 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMGRYREMDQREIDILS 251 Query: 243 --------EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 G + + +RP + + + + Sbjct: 252 EEVGLKPVALPGMTTKAREKAERQQRKQARPLARSERPEAGRKRAPRREDGENAARRAPA 311 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R+ +A+ S + + R + + K + R+ K+ Sbjct: 312 SRPARGPQPSAERKGREQGTPVAERPRESNRKPRPSKPRDERPASAPGDKPAARKPQVKR 371 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 101/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR EV++++ +++V VNG + + D I G L + Sbjct: 1 MRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADQIRCQGQTLSYEKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATEDNHHKTVLDLLDKTAWDKETFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P + YR + G + + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVDKTYRAKVAGLMTTTDVAAFANGIDLKDFTCQPAQLVILEINEAERTSVVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + ++EGK +IK++ + KV L R+S GP QL L G R ++ L Sbjct: 181 ITIKEGKFHQIKRMVQACGKKVTDLQRLSMGPLQLDKQLALGEWRRLTDDEL 232 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 119/237 (50%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L + + Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLLAQEKP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + + R+ +GRLD+ TEGLLLLTNDG A+ Sbjct: 62 VYYLLNKPKGVITSVSDPQGRETVLDYIKNETK-RIYPIGRLDLYTEGLLLLTNDGEFAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V D L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKALKAL 237 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 114/231 (49%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +RV K++ARAG SRR E +I RVK+NG + D I VDG + Sbjct: 4 ERVQKILARAGYGSRRACEELILAGRVKINGQTA-VLGSKADPSRDQILVDGQKIPLQPP 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+++ +L + + SVGRLD +EGL+LLTNDG LA Sbjct: 63 PVYIMLHKPQGVLSDVEVHKDPRPTVRDLVPVEGHLFSVGRLDYESEGLILLTNDGELAN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + YRV + D+ +L + G+V++ QV ++ G AW+ V Sbjct: 123 RLTHPRYGHEKEYRVLVGTRPDERQLEAWRHGVVLEDGYRTAPAQVRVEGVAGKGAWLRV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 LREG+ R+I+++ V R+IRI G LG L G R ++ + +R Sbjct: 183 ILREGRKRQIREMGRLTGLPVLRIIRIRIGSLLLGDLKPGEWRYLTPQEVR 233 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 110/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGKICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEGNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYIVTVDKPFTDWFIDEMSGGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRAFGFTVKKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 83/236 (35%), Positives = 125/236 (52%), Gaps = 1/236 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+I+++ + V RL R G +G L G R ++++ +++ Sbjct: 194 ISEGRNRQIRRMCDSIGHPVVRLKRTKLGSLSIGNLRPGQYRHLTREEIKKLKEDA 249 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 118/231 (51%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K++++AG+ASRR E +I + RV+V+G + + V+ + I V+G + Sbjct: 39 EEPVRLQKLLSQAGVASRRASEDLIKRGRVQVDGETVTEMGLKVLPSARITVNGQRIHTD 98 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++W ++KP+G V+T D R + D + RV VGRLD+ T GL+LLTN+G L Sbjct: 99 AALQVWAFNKPVGTVSTMQPEDDRPCLGDWATKLPQRVFHVGRLDVATAGLILLTNNGDL 158 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + Y GQV +L++G+ ++ L + ++ V Sbjct: 159 ANRLVHPRYEVPKTYVAMVQGQVKPGLGKVLRRGVELEDGVTKVDTFKLVEVRRGSSIVQ 218 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L GKNR ++++ V+ L R + G +LG L G R ++ L Sbjct: 219 LTLHSGKNRVVRRLLSEVGHPVSALTRTAIGTLRLGDLKEGHFRLLTGSDL 269 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 106/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQIIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + + I+ QVT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSGVVKIKDGMTKQCQVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELDNLEVGKWRNVTSEELE 223 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 121/237 (51%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+IA +G SRR+ E++I + +V VNG ++++ V +D I V+G+ L K + Sbjct: 3 ERLQKLIAASGYTSRRKAEQLILEGKVSVNGEVIKQLGVKAEPSDVIIVEGLRLLKENKK 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + + + R V D ++ RV+ VGRLD +T G L+++NDG + Sbjct: 63 YYLFYKPEKVITSMSDE-KDRVCVKDFFEAVNERVVPVGRLDYDTSGALIMSNDGEFINL 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + Y + +G++++ L +L+ G+ I +V + K N V + Sbjct: 122 ITHPKHKIKKTYVAKINGKLEEHHLKILRSGVRIDNYKTSPAEVNIVKNKNKSGNTLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EGKNR+++++FE ++V +L R S L L G R ++ ++ + Sbjct: 182 TIHEGKNRQVRRMFEALGYEVMKLKRESIEDLTLDGLRKGEYRILTIHEVKRLINKA 238 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 113/234 (48%), Gaps = 3/234 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 +R+ KV++ AG SR++V+++I + V+VNG ++ A V D I V G L Sbjct: 3 EKTERLDKVLSMAGYGSRKDVKKIIKRGEVEVNGRVVTDAGTPVAPAVDSISVSGELLIF 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + + + TH + + VGRLD + EGLLLLT+DG Sbjct: 63 KEHIYIMMNKPQGVISATHDRRETTVIDLLEDEFSHRNLFPVGRLDKDAEGLLLLTDDGQ 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + +VY V G++ ++ + K+G+ + ++ + ++ + Sbjct: 123 LAHRLLSPRKKVEKVYYVEVKGRLVEEDVKAFKEGVFLGDYRALPAKLEILEAGEVSSAL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R+S GP +L L G RE++ + +R Sbjct: 183 -VTIYEGKFHQIKRMMKARGKEVTYLKRLSMGPLKLDENLEPGEWRELTDEEIR 235 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 109/228 (47%), Positives = 150/228 (65%), Gaps = 2/228 (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+ D + K + I GI Y + L Q SN+W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKSDILLKSH-YKNLEIDGIFYNPHSIKLLKQNKSNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+F KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYFGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILE 228 >gi|323488402|ref|ZP_08093649.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] gi|323397909|gb|EGA90708.1| pseudouridine synthase [Planococcus donghaensis MPA1U2] Length = 237 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 102/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ G SR+EV+ ++ + V+VNG ++ V+V TD + V G + E Sbjct: 1 MRLDKYLSNMGHGSRKEVKVLLKSKAVEVNGEIVRDPKVHVNEHTDLVSVGGEAVTYTEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T D VGRLD +TEG LLLTNDG LA Sbjct: 61 IYLLMNKPQGVISATEDKYDKTVIDLLGKDEQHFEPFPVGRLDKDTEGFLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ KKG+V+ + + + + + Sbjct: 121 ELLSPKKHVDKTYFAHVEGVVTEEDTEAFKKGVVLDDGYETKPASLNILD-SAVVSKIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++FE +V L R+S GP L L G R ++++ + Sbjct: 180 TITEGKFHQVKRMFESVGKRVVYLKRLSMGPLSLDPELELGEYRHLTEEEM 230 >gi|256752686|ref|ZP_05493537.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] gi|256748448|gb|EEU61501.1| pseudouridine synthase [Thermoanaerobacter ethanolicus CCSD1] Length = 240 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 110/231 (47%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + + TD I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIINTETDEILFDGKKIYYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + VGRLD +TEGLLL+TNDG LA Sbjct: 64 IYIMMNKPKGVISATYDPIEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGDLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y + G V++ + +GIV++ + + + + V V Sbjct: 124 KLLSPKKNVIKKYYAKILGFVNESDIKAFNEGIVLEDGYKTLPANLEILSSSDV-SKVYV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +REGK +IK++FE KV L R++ G L L G RE+S++ L Sbjct: 183 YIREGKYHQIKRMFESVGKKVIYLKRLAMGNLTLDENLKPGEWRELSEEEL 233 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 132/238 (55%), Positives = 168/238 (70%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +R++K +ARAG+ASRR+ ERMI RV +NG + A V + D I +DG P+ Sbjct: 5 ESGERGERIAKYLARAGVASRRDAERMIESGRVALNGTKVLHPATFVAAGDIILIDGSPV 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + RTRLW YHK GL+TTH DP+GR T+F+ +P RV+SVGRLD+N+EGLLLLTND Sbjct: 65 GEPSRTRLWRYHKRAGLLTTHRDPEGRPTIFERMPPELPRVVSVGRLDLNSEGLLLLTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LAR LELP+T WLR YRVR HG VD +L LK GIV+ G+ YG + +D+ KGSN+ Sbjct: 125 GALARQLELPTTGWLRRYRVRVHGTVDPARLAALKGGIVVDGVRYGPISAEIDSTKGSNS 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 W+ VGL EGKNREI+KV + RLIRI+YGPFQLG L G+ EV+ K+LREQL Sbjct: 185 WLAVGLNEGKNREIRKVMAALGLETTRLIRIAYGPFQLGNLPRGAVAEVNPKVLREQL 242 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 110/230 (47%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A + SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKLCSRRETDRLIKAGRVAINGEICTH-GALVSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >gi|262091774|gb|ACY25362.1| pseudouridine synthase family [uncultured actinobacterium] Length = 237 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 75/229 (32%), Positives = 115/229 (50%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K+IA AGI SRR + +I RV VNGI++ 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+ ++ L ++ S W+ V Sbjct: 124 RATHPSFGLEKTYIIEFDGILPTGVDKVLLKGVELEDGMGR----VLTFKQLSPKWIEVS 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ I+++ E V RLIR +GP LG G R+++ L Sbjct: 180 IHEGRYHIIRRLMEAVGVNVLRLIRTKFGPISLGDTPEGRWRDLNDGEL 228 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 84/354 (23%), Positives = 148/354 (41%), Gaps = 17/354 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + + ++ KV+A AG+ SRR++E +I RV VNG ++ D + ++ Sbjct: 167 RRDLTADDDAPKLHKVLAEAGLGSRRDMEELIIAGRVSVNGEPA-HIGQRILPADQVRIN 225 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G +++ L + +V+T+ S ++ ++VGRLD NTE Sbjct: 226 GKLIQRKVSNKPPRVLVYHKPAGEIVSTNDPEGRPSVFERLPTMKAAKWLAVGRLDFNTE 285 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T G LA L P R Y VR G++++ L G+ ++ ++ Sbjct: 286 GLLLFTTSGDLANRLMHPRYGIDREYAVRTLGELEEGMRQKLLAGVELEDGLAQFSKIAD 345 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ + Sbjct: 346 GGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYGTLTLPKNLKRGRWEEMEE 405 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R+ L LE+ V+ + + + + D+ + ++ SQ L Q Sbjct: 406 HAVRDLLAMSGLEKKSVDGAPKGRN--SPADRQNGNRAPRVDNGMGLPRSPSQWGNLGGQ 463 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + G ++ + + S FP RR++ Sbjct: 464 GRPQG---------QNGKPAGGRQGQGQPRSRQPDPLQTSLGFPGMGQPRRSNG 508 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKTKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 60/285 (21%), Positives = 107/285 (37%), Gaps = 15/285 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK- 69 R++K I+ +G SRRE +++I V VNG D + V+G ++ Sbjct: 2 TDGIRLNKFISDSGYCSRREADKLIEDDLVLVNGQPPT-LGTRCHPGDVVYVEGKRIKSR 60 Query: 70 -----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 Y+KP + T + + R+ +GRLD +EGL+LL Sbjct: 61 ANAGSQADREYIAYNKPTHITCTTEADVVGNIISAV--GYKKRIFPIGRLDKMSEGLILL 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + + Y V + + + G+ I G ++ + Sbjct: 119 TSDGDIVNKILRAENAHDKEYLVTVDKPITDKFIEKMGNGVPILGTKTLPCKINMQ---- 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG NR+I+++ E+F ++V +L R+ LG L G R+++ L + Sbjct: 175 GEFMFKIILTEGLNRQIRRMCEYFGYEVTKLKRVRIMNITLGNLKPGEWRKLTANQLTDI 234 Query: 245 LG--PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 H +A I + I R + Sbjct: 235 NNAIEHSSGDAAPKGAKLIRRKPKKPSQQERAIKSKTPKVVRTPR 279 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 145/336 (43%), Positives = 199/336 (59%), Gaps = 1/336 (0%) 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 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVW 315 N DA I + R + + ++ + + + + Sbjct: 403 NFDAEISKPFSNKPVRRTEPRQEEAERPKIMREGDHRPIGEGGLIKNRKRREGSRDEALG 462 Query: 316 MAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 E R P R + Sbjct: 463 KLSTSPDRGERPEKSFGERGPR-PERGGFGDKPRGN 497 Score = 36.7 bits (83), Expect = 6.0, Method: Composition-based stats. Identities = 13/120 (10%), Positives = 23/120 (19%), Gaps = 4/120 (3%) Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 E RE GP + + R R ++ Sbjct: 26 EGKPYEKRE--GPRKPYAPRGDRPVAAEGERKPYEKREGPRKPYAPRGDRPMSAEGERKP 83 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDS--GQREENHRRSPSFPSKRSLRRTSA 352 K++ P R G G R + + ++ Sbjct: 84 YEKREGPRKPYAPRGDRPAASAEGGERRFDRPKRDFGDRPKRDFNDRPKRDFGDRPQGAS 143 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 82/251 (32%), Positives = 125/251 (49%), Gaps = 2/251 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 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 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-G 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 LGPHLLEEAQV 255 L + +Q Sbjct: 241 LTISREDGSQA 251 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 61/274 (22%), Positives = 113/274 (41%), Gaps = 10/274 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---E 71 R++K I+ +GI SRRE +R+I + RV +NG + V + D + VD L+ E Sbjct: 12 RLNKAISDSGICSRREADRLIEEGRVTINGKTAKV-GDRVSAFDEVIVDDRRLKLNKTGE 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++KP G+V T + + + R+ +GRLD +EGL+ LT+DG + Sbjct: 71 RPVYIAFNKPRGIVCTTEPDVKDNIIDYI--NFPKRIFPIGRLDKPSEGLIFLTSDGNIV 128 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + + + KG+ I QV K + Sbjct: 129 NKILRAGNNHEKEYIVTVDKPITDEFIKGMMKGVPILDTVTKKCQVF----KEGELVFRI 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G R+++K+ E+F + V +L R L L G+ R ++ + L+ + Sbjct: 185 ILTQGLYRQVRKMCEYFGYHVTKLKRTRIMNISLAKLPLGTWRYLTPEELQGIMDMVDSS 244 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 + + + ++ + Sbjct: 245 SGTEEASFENTEFKKEQKHIRSKPQDLKNKKRDE 278 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 56/241 (23%), Positives = 108/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + + P R++K +A AG+ SRRE + I V VNG ++ V +D + Sbjct: 5 IEYKELNVDPDAPIRLNKFLANAGVCSRREADEFITAGVVSVNGTVVTELGTKVKRSDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + ++ + R+ VGRLD NT G Sbjct: 65 KFHEQPVSIERKVYVLLNKPKDYVTTSDDPQNRKTVMDLVKNVCRERIYPVGRLDRNTTG 124 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LL TNDG LA L P ++Y V V + + +GI ++ + Sbjct: 125 VLLFTNDGELASKLTHPKFLKKKIYHVTTDKNVTAADMRQIAEGITLEDGEIKADAIEYA 184 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + + GKNR ++++FE ++V +L R+ + + G R ++++ Sbjct: 185 SPTDKKQ-IGIEIHSGKNRIVRRIFEALGYRVVKLDRVLFAGLTKKNVRRGDWRFLTEQE 243 Query: 241 L 241 + Sbjct: 244 V 244 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 109/230 (47%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 71/278 (25%), Positives = 129/278 (46%), Gaps = 7/278 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ AG+ SRRE +R+I ++RV V+G + V I+VDG +++ E+ Sbjct: 1 MRLNKYLSDAGVCSRREADRLIEEKRVLVDGKPA-VQGMQVEDFQEIKVDGKAIKREEKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++HKP G+ T + ++ + + RV GRLD ++EGLLLLTN G L Sbjct: 60 VLLVFHKPKGIECTANPNVKKNVISYI--NYPIRVYYAGRLDKDSEGLLLLTNQGELVNQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V ++ L +++G+ + G +V +K S + L Sbjct: 118 IMKAGSYHEKEYLVTVDKPVTEEFLQSMREGVPVLGTITRKCKV----EKESEKVFRITL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ + ++V +L RI +LG L GS RE +K+ L E + Sbjct: 174 TQGLNRQIRRMCNYLGYEVVKLKRIRIMNIELGNLPIGSYREATKEELDELKRQISEKAE 233 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 + + + R + + + Sbjct: 234 KRQETDFHKGKKPVKNAGKYRNPSKVRKQKRQEASRNG 271 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 65/244 (26%), Positives = 114/244 (46%), Gaps = 5/244 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I++ RV VNG + V D IEVDG + K ++ Sbjct: 2 ERLQKVIAAAGITSRRKAEVLISEGRVAVNGETITELGYKVKRGDLIEVDGKAIEKEDKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T+ + ++ +L R+ +VGRLD +T G+++LTNDG A Sbjct: 62 YFLMNKPKRTMCTSDDEFGRQTV--VDLVDCRQRIFTVGRLDYDTSGVIILTNDGDFANE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWVT 190 + P +VY + +G + + + +K GIV+ + + + + Sbjct: 120 IIHPRYHIPKVYNLTINGILTPEDMKKIKAGIVLDDGIKTLPAKYRMTEKDTEKNQCSFD 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+IK++ E ++V RL R L G R + +++ Sbjct: 180 LTIVEGRNRQIKRMMEALGYEVRRLHRSRLAFLHCSDLRQGEYRVLKPFEVKQLRSLAQK 239 Query: 251 EEAQ 254 E + Sbjct: 240 GEMK 243 >gi|262091731|gb|ACY25320.1| ribosomal large subunit pseudouridine synthase B [uncultured actinobacterium] Length = 240 Score = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 70/236 (29%), Positives = 116/236 (49%), Gaps = 10/236 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 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+ VGRLD ++EGLLL+TNDG Sbjct: 62 RPDLVYYLLNKPVDVISTAIDTHDRETVVDFVPADPRV-YPVGRLDGDSEGLLLITNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFH---GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 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|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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 86/231 (37%), Positives = 120/231 (51%), Gaps = 1/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 TP+R+ KV+ARAG+ SRR E IA RV V+G + + V I DG PLR Sbjct: 2 TPERLQKVLARAGVGSRRRAEEFIAAGRVTVDGRRVTEMGLRVDPEKQAITFDGRPLRLP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP G VTT +DP GR V L R+ VGRLD +TEG LLLTNDG L Sbjct: 62 ENKVTVLLNKPAGYVTTMADPQGRPMVGSLLKEPGLRLFPVGRLDFDTEGALLLTNDGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + R Y+ G L L++GI ++G V ++G + Sbjct: 122 AHRLLHPSFEIKRTYQATVEGTPGAQALRALRQGIELEGRRTHPAMVKTLRRRGEQTVLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ R+++K+ V L R++YG +LG L GS R ++ + + Sbjct: 182 IIIHEGRKRQVRKMLAAVGHPVLHLKRVAYGDLRLGRLPLGSYRRLNHEDI 232 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 142/338 (42%), Positives = 198/338 (58%) 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 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVW 315 N DA + + R + E + + ++ ++ + + Sbjct: 464 NFDADVTKPFSNKPVRRTEVREPEPERPKFTRDGERRPIGEGGLIKNRKRREGSRDEALG 523 Query: 316 MAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 S R + Sbjct: 524 KLSTSPDRNAEKSFGERAPRPERSFGDKPRGNFGDKPR 561 >gi|311281430|ref|YP_003943661.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308750625|gb|ADO50377.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 292 Score = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 61/294 (20%), Positives = 114/294 (38%), Gaps = 5/294 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 TQSTRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVAPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + DG + + SR+ +GRLD +++GL+ LTN G L Sbjct: 63 DAEDLVFIALNKPVGIVSTTEDGERNNIVDFVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPVTDEFIRAMGAGVPILGTV----TKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L E Sbjct: 179 ITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLAGIPPGEWRDLTDDELIELFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 ++ A + + + + +++K S +K Sbjct: 239 SSSEAKPKAKAKPKTAAGAVKKPAGNGGKNMAKTPAEMANRKRFTSPGRKKKGR 292 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P++ + + L + T+ + + + + R+ VGRLD NT G Sbjct: 307 TFNEKPVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTG 366 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 367 VLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISYA 426 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 427 SED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNERE 485 Query: 241 L 241 + Sbjct: 486 V 486 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P++ + + L + T+ + + + + R+ VGRLD NT G Sbjct: 307 TFNEKPVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTG 366 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 367 VLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISYA 426 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 427 SED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNERE 485 Query: 241 L 241 + Sbjct: 486 V 486 >gi|315170764|gb|EFU14781.1| conserved hypothetical protein [Enterococcus faecalis TX1342] Length = 257 Score = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 63/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGNVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G ++ ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >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 = 178 bits (450), Expect = 1e-42, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 ESEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRPGNDHEKEYLVTVDKPITDEFIRGMGPGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTVGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 57/249 (22%), Positives = 109/249 (43%), Gaps = 8/249 (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 + R+ +GRLD ++EGL+ LT++ Sbjct: 61 KPIQDHVYIAFNKPVGIVSTTDT-KAEKNNMIDYIGHQQRIFPIGRLDKDSEGLIFLTSE 119 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + + + GI I + +K S Sbjct: 120 GDIVNKILRSKNNHEKEYIVTVDKPITDRFIQKMGAGIPILDTVTDPCK----VEKISKV 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+++ E+ ++V +L RI L + G R+++ L+E Sbjct: 176 KFRIILTQGLNRQIRRMCEYLGYEVRQLKRIRIMNVHL-DIPVGKWRDLTASELKELNDL 234 Query: 248 HLLEEAQVN 256 V+ Sbjct: 235 VSESSKTVD 243 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 168/340 (49%), Positives = 214/340 (62%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R Sbjct: 47 SEAKAERISKVMARAGVASRRDIERMIMEGRVTLNGKVLDTPVVNVTLADRIEVDGVPIR 106 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDG Sbjct: 107 GIERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDG 166 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GLAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN W Sbjct: 167 GLARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNVW 226 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 +T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP Sbjct: 227 ITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVVEVRGRTLRDQLGPR 286 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 L+EEA+ N DAPIY++ + + + + ++ LS+ Sbjct: 287 LIEEAKANFDAPIYNAPAVAAEEETEAAAPEKRERPRRDEDKRERALSRLDTKRDDRRGA 346 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + G Q R + + + + Sbjct: 347 GRRDDDRRDGGRKDDDKPKRSQPPGQRRSANVWMAPGARP 386 Score = 41.3 bits (95), Expect = 0.21, Method: Composition-based stats. Identities = 18/120 (15%), Positives = 31/120 (25%), Gaps = 6/120 (5%) Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 RE + +R P +E + +S + DRP+ D R + Sbjct: 430 VREEDGEWIRSSEQPRRKDEDE------GFSRKRSFGDRPSRGERPFGDKPRGDRRPRAD 483 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + A+ R+ G S + R P R + Sbjct: 484 GDERPRAARASAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDRRPREEGDERPRAARS 543 Score = 39.4 bits (90), Expect = 0.82, Method: Composition-based stats. Identities = 11/112 (9%), Positives = 21/112 (18%), Gaps = 3/112 (2%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 G + D P + + + + + Sbjct: 508 PFGDRPSRGDRPFGDKPRGDRRPREEGDERPRAARSFAGEGRSERPRGERSFAGKSAGGK 567 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR---SPSFPSKRSLRRTSA 352 P + G SF + + R P+ R R Sbjct: 568 PSSDKPRGKGFGAKPGGSKSFSGKPKGKPGSDRPGGDRPAGGLSRGGARGKG 619 Score = 39.4 bits (90), Expect = 0.91, Method: Composition-based stats. Identities = 10/102 (9%), Positives = 25/102 (24%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + EE + + + + D +R ++ K ++ + Sbjct: 429 RVREEDGEWIRSSEQPRRKDEDEGFSRKRSFGDRPSRGERPFGDKPRGDRRPRADGDERP 488 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 R ++ + G R R + R Sbjct: 489 RAARASAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDRRP 530 Score = 37.9 bits (86), Expect = 2.4, Method: Composition-based stats. Identities = 8/109 (7%), Positives = 25/109 (22%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A + + + P + + + ++ Sbjct: 472 DKPRGDRRPRADGDERPRAARASAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDRRPR 531 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 R A+ + +G + ++ PS R + Sbjct: 532 EEGDERPRAARSFAGEGRSERPRGERSFAGKSAGGKPSSDKPRGKGFGA 580 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 128/237 (54%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G V ++ L L +G+VI G + + + + V + Sbjct: 146 MIHPRNEIDKVYLARVKGVVTKESLRPLTRGVVIDGKKTKPARYRIIRVEPDKNRSIVEL 205 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG++ ++KK+FE V++L R +G + L G R +SKK + + Sbjct: 206 TIHEGRHHQVKKMFEAVGHLVDKLSRTQFGSLDVRGLKPGEARRLSKKEVSQLHHLA 262 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 86/231 (37%), Positives = 120/231 (51%), Gaps = 1/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 TP+R+ KV+ARAG+ SRR E IA RV V+G + + V I DG PLR Sbjct: 2 TPERLQKVLARAGVGSRRRAEEFIAAGRVTVDGRRVTEMGLRVDPEKQAITFDGRPLRFP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +KP G VTT +DP GR V L R+ VGRLD +TEG LLLTNDG L Sbjct: 62 ENKVTVLLNKPAGYVTTMADPQGRPMVGSLLKEPGLRLFPVGRLDFDTEGALLLTNDGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + R Y+ G L L++GI ++G V ++G + Sbjct: 122 AHRLLHPSFEIKRTYQATVEGTPGAQALRALRQGIELEGRRTHPAMVKTLRRRGEQTVLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ R+++K+ V L R++YG +LG L GS R ++ + + Sbjct: 182 IIIHEGRKRQVRKMLAAVGHPVLHLKRVAYGDLRLGRLPLGSYRRLNHEDI 232 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 75/242 (30%), Positives = 128/242 (52%), Gaps = 3/242 (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 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EGKNR+I+++FE ++V +L R + L L G R ++ ++ + Sbjct: 182 TIHEGKNRQIRRMFETLGYEVLKLKREAIEDLTLEGLKKGEYRVLTIHEVKRLINKANNG 241 Query: 252 EA 253 E Sbjct: 242 EK 243 >gi|260685750|ref|YP_003216883.1| pseudouridine synthase [Clostridium difficile R20291] gi|260211766|emb|CBE02116.1| pseudouridine synthase [Clostridium difficile R20291] Length = 258 Score = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 61/252 (24%), Positives = 105/252 (41%), Gaps = 22/252 (8%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ERTRLWL------------------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 E L + + T D +L + VG Sbjct: 63 EYIYLIMQNSVKQEPCDFSHGRFRMNKPDGYISATTDKYDPTVLDLIDLSYLAFEPFPVG 122 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-C 171 RLD +TEGLL+LTNDG L+ + P + Y + G V ++ + +G+V+ Sbjct: 123 RLDKDTEGLLVLTNDGKLSHRVLSPKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDGYK 182 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLA 230 Q+ + + + + + + EGK ++K++FE KV L R+S G +L L Sbjct: 183 TMPSQLNIL-KSDDESEIELTIHEGKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLEL 241 Query: 231 GSTREVSKKILR 242 G RE++ + ++ Sbjct: 242 GEYRELTDEEVK 253 >gi|257870825|ref|ZP_05650478.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257804989|gb|EEV33811.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 241 Score = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 64/241 (26%), Positives = 106/241 (43%), Gaps = 5/241 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G SR+EV++ I + V VNG ++ V D + G +R + Sbjct: 1 MRLDKFLADMGYGSRKEVKQAIKKGVVAVNGQQVKSDKFQVAEQEDQVSFAGELVRYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +++ +DP+ + VGRLD +TEGLLL+TNDG LA Sbjct: 61 FYYLLNKPAG-VISATTDPEKTVLDLFAAEDYRRDLFPVGRLDKDTEGLLLITNDGQLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 L P + Y G + ++ + +GI + G Q+T+ ++ + +T Sbjct: 120 RLLSPKKHVEKEYYAEVRGIMTEEDRHQFLQGIELDGETLMPAQLTILKVDEQAETSTIT 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 + L EGK ++K++ + +V L R G QL L G R V++K L + Sbjct: 180 LILHEGKFHQVKRMVQAVGKEVTYLKRTRMGGLQLPKDLALGEYRSVTEKELAQLSAEPA 239 Query: 250 L 250 Sbjct: 240 E 240 >gi|410137|gb|AAA67493.1| ORFX13 [Bacillus subtilis subsp. subtilis str. 168] Length = 229 Score = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 74/226 (32%), Positives = 119/226 (52%), Gaps = 3/226 (1%) 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 +++ D GR V D +I R+ +GRLD +T GLLLLTNDG A Sbjct: 62 YFLLYKPRG-VISAAQDDKGRKVVTDFFKNIPQRIYPIGRLDYDTSGLLLLTNDGEFANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y + G ++ L L++GI ++ + L +K + + + Sbjct: 121 LMHPKYEIDKTYVAKVKGIPPKELLRKLERGIRLEEGKTAPAKAKLLSLDKKKQTSIIQL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + EG+NR+++++FE +V +L R Y L L G RE+ Sbjct: 181 TIHEGRNRQVRRMFEAIGHEVIKLKREEYAFLNLRGLHTGDARELR 226 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 120/237 (50%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L + + Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLLAQEKP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 62 VYYLLNKPKGVITSVSDPQGRETVLDYIKNETK-RIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V D L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGIEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKALKAL 237 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 72/229 (31%), Positives = 123/229 (53%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L +R+ +GRLDI+T GL++LT+DG + Sbjct: 61 NTYIALNKPMGIVSTVKDEKDRKTV-VDLIDGSTRLYPIGRLDIDTTGLIILTDDGAITN 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|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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 100/231 (43%), Gaps = 3/231 (1%) 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 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L T GRLD +TEG LLLTNDG LA Sbjct: 62 IYVMMNKPQGVLSATEDSRQQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQLAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y VR + + + L++G+VI+G V T+ + + Sbjct: 122 RLLSPKKHVPKTYEVRLTSPLSPEDIIDLERGVVIEGGYKTKPAAVKTITESPDETVIHL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K + + +V L R+S G L L G RE++++ L Sbjct: 182 TITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSLDPELKPGEFRELTEEEL 232 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 79/294 (26%), Positives = 135/294 (45%), Gaps = 6/294 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+++ AG+ASRR E +I RV V+G+ + 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 AQVNLDAPIYS-----SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ + S R + D R + + K L + K+ Sbjct: 243 SEEDCRRGCRPSGHDGSGRSRGMRRARPAPREDAACRPQDDDHGKRPLQRHKRR 296 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 106/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T+ D + +VGRLD +T GLLLLTNDG L Sbjct: 62 IYLMMNKPAGVISATYDKRDETVIDLLYMEDQVFEPFTVGRLDKDTVGLLLLTNDGDLNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY + + + + + G+ + ++ + ++ V V Sbjct: 122 KLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSSRVEV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++FE KV L R S+G L L G +E+S+ L Sbjct: 182 TVQEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSESEL 232 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 107/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 54/238 (22%), Positives = 102/238 (42%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D K G+ + G + + + V + Sbjct: 131 ITAPKHHCEKTYVVTLEQPIATDVAEKFKTGVQLNGEKELTKPATLEVI----TPTEVKL 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + EGK ++K++F V L R G L L G R ++++ + P Sbjct: 187 TISEGKYHQVKRMFAAVGNHVVALHRERIGDITLDDALAPGEYRPLTEEEINSIHLPK 244 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 54/238 (22%), Positives = 102/238 (42%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D K G+ + G + + + V + Sbjct: 121 ITAPKHHCEKTYVVTLEQPIATDVAEKFKTGVQLNGEKELTKPATLEVI----TPTEVKL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + EGK ++K++F V L R G L L G R ++++ + P Sbjct: 177 TISEGKYHQVKRMFAAVGNHVVALHRERIGDITLDDALAPGEYRPLTEEEINSIHLPK 234 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 81/254 (31%), Positives = 125/254 (49%), Gaps = 5/254 (1%) 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 + T D ++ +L RV VGRLD NT GLLLLTNDG + + Sbjct: 62 YYMLYKPTGVVSTVEDDKGRKTV--VDLVPPGHRVFPVGRLDYNTSGLLLLTNDGEFSNL 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDM--QVTLDTQKGSNAWVT 190 L P + + Y V+ G D + L+KG+V+ G G ++ +K + A + Sbjct: 120 LLHPKYKVPKRYIVKIKGVPDYYHVKGLEKGVVLPDGFKTGKARVEMRDIDKKKNTAILE 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG NR+++++ E +V +L R +G L L +G RE+SKK + + Sbjct: 180 MVIYEGHNRQVRQMVETLGAEVIKLKREQFGFLTLAGLTSGDWRELSKKEVNQLRELADP 239 Query: 251 EEAQVNLDAPIYSS 264 A Sbjct: 240 VAAPTKRRKNTKKR 253 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 68/237 (28%), Positives = 120/237 (50%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L + + Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLLAQEKP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 62 VYYLLNKPKGVITSVSDPQGRETVLDYIKNETK-RIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V D L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDDDLQIIANGVELEDGITAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKALKAL 237 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 53/241 (21%), Positives = 111/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K + ++ + P R++K ++ AG+ SRRE + +I + + VNG ++ + D + Sbjct: 191 VKYREVLADPNEPIRLNKFLSNAGVCSRREADLLIEKGEITVNGEVVTELGRRITRQDEV 250 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + L + T+ + + + R+ VGRLD NT G Sbjct: 251 IYKDKRVEIESKVYVLLNKPKNCVTTSDDPECRTTVMDIVRYACPERIYPVGRLDRNTTG 310 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LL+TNDG LA L PS + ++Y V + V + + + G+ + Sbjct: 311 VLLITNDGDLASKLTHPSFKKKKIYHVWLNKDVSIEDMQKIADGVELDDGEIH-ADAISY 369 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + G+NR ++++FE ++V +L R+ + L G R ++++ Sbjct: 370 VKEDDLSQVGIEIHSGRNRIVRRLFEHLGYRVVKLDRVYFAGLTKKNLPRGKWRYLNEQE 429 Query: 241 L 241 + Sbjct: 430 V 430 >gi|330830315|ref|YP_004393267.1| Pseudouridine synthase [Aeromonas veronii B565] gi|328805451|gb|AEB50650.1| Pseudouridine synthase [Aeromonas veronii B565] Length = 230 Score = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R ++I Q V V+GI++++ A ++ IE DGV L +R Sbjct: 1 MRLDKFLCDCSDLTRSLAGKLIRQGEVMVDGIVVKQPAFHINEQSQIEFDGVLLTLEQRN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V ++ DPD + F ++ VGRLD++T GL+L+T+DG + Sbjct: 61 RYFMLHKPEGYVCSNEDPDHPTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V V D + L +G+ ++ Q+ + + Sbjct: 121 ITSPRHECAKTYHVWLADPVSPDAIALFAEGVYLRNETDKTRPAQLEIL----GECEARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G RE++ + + Sbjct: 177 TIHEGKYHQVKRMFASIGNKVVGLHRERVGGLTLDDELAPGEYRELTAEEI 227 >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 = 178 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 69/237 (29%), Positives = 109/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR E++IA V+VNG + V + D IEVDG+PL + ++ Sbjct: 2 ERLQKVMAEAGVASRRASEKLIATGHVQVNGQTVTTLGTKVTAKDKIEVDGIPLHREKQV 61 Query: 74 RLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + I R+ VGRLD +T GLLLLTNDG LA Sbjct: 62 YYLLNKPRGVISSAHDEKGRRTVVDILREDEIEERIYPVGRLDYDTTGLLLLTNDGTLAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 + P + Y + G + D L L+ G+ + G + L ++ + V Sbjct: 122 KMMHPKFAVDKTYVAKVKGLISNDDLKQLRTGVKVDGRRTKPAKTRLKGTDREKKTSIVQ 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG ++K++ V +L R SYG L + G RE+ + ++ Sbjct: 182 LTIHEGHYHQVKRMLAAVGHPVIKLHRESYGFLNLQGVQPGDYRELRPEEVKRLNRL 238 >gi|328554622|gb|AEB25114.1| 16S pseudouridylate synthase [Bacillus amyloliquefaciens TA208] Length = 239 Score = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 100/231 (43%), Gaps = 3/231 (1%) 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 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L T GRLD +TEG LLLTNDG LA Sbjct: 61 IYVMMNKPQGVLSATEDSRQQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y VR + + + L++G+VI+G V T+ + + Sbjct: 121 RLLSPKKHVPKTYEVRLTSPLSPEDIIDLERGVVIEGGYKTKPAAVKTITESPDETVIHL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K + + +V L R+S G L L G RE++++ L Sbjct: 181 TITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSLDPELKPGEFRELTEEEL 231 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 68/253 (26%), Positives = 112/253 (44%), Gaps = 22/253 (8%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ + +ARAG+ASRR E++I+ RV VNG + VM DH+ VDG Sbjct: 24 TMRLQRFLARAGVASRRGSEKLISAGRVCVNGKQVRVLGTKVMPQYDHVTVDGKEYVLGN 83 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGL 130 L +KP ++TT SDP G V +P VGRLD +T G+LL T +G + Sbjct: 84 DHVYLLLNKPSQVLTTMSDPFGFPCVASLVPCDDYPGLFPVGRLDSDTTGVLLFTTNGNM 143 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV- 189 L PS + Y G++ ++ L +GI+++ + TQ + Sbjct: 144 GNRLLHPSHHVWKTYVALIEGKLTSSQMQKLSQGIMLEDGMTSPCFIRTITQDEPCTHLD 203 Query: 190 ------------------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA- 230 + + EG+N ++K++ + V +L R +GP L + Sbjct: 204 KNHSLFDDMRLNAASSLCELKIHEGRNHQVKRMLQEIGHPVIKLHRFQFGPLCLNAQIPL 263 Query: 231 GSTREVSKKILRE 243 GS R +++ + + Sbjct: 264 GSWRMCTQQEIHD 276 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 86/370 (23%), Positives = 143/370 (38%), Gaps = 20/370 (5%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K +++ ++ KV+A+AG+ SRR++E++I + +V VNG + + + D I++ Sbjct: 280 KRVLRPEPEAPKLHKVLAQAGVGSRRDMEQLIQEGQVSVNGEVA-HIGMRIAQGDQIKIA 338 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P++ L + +VT H + + +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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G N W V + EG+NRE++++F+ V+RLIRI Y L L G E+ Sbjct: 459 GGGEGINHWYRVVITEGRNREVRRLFDAVGLTVSRLIRIRYATVVLPRGLKRGVWVELDD 518 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV--------------PDDFTR 284 +R+ A+ P + Sbjct: 519 NDVRQIRQIANGPRAERGEREERGPRADRAERGPRDGQQPGRGAGKGKGGGQGQGQGPQM 578 Query: 285 MKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + + G Q++ PV + + +G + E P+ Sbjct: 579 SQGGQNAPGGRGNQQRGNKPVGKGGQGGQGFERRGPDGRPGAPRSGGAEWRDERPARDGN 638 Query: 345 RSLRRTSAKK 354 S ++ Sbjct: 639 VSREPPRERE 648 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 138/353 (39%), Positives = 188/353 (53%), Gaps = 9/353 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K +ARAGIASRREVER+I +V VNG +L AV V D I VDG P+ A Sbjct: 78 ERTERIAKAMARAGIASRREVERLIGLGKVAVNGRILATPAVLVTRDDKITVDGKPIGAA 137 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + TR+W YHKP GL+T+H+DP GR TVFD LPS RVISVGRLD+ TEGLLLLTNDG L Sbjct: 138 QATRVWRYHKPAGLITSHNDPAGRPTVFDALPSGLPRVISVGRLDLATEGLLLLTNDGEL 197 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--------Q 182 +R LELP T +R YR R G++ Q++L+ LK G+V+ G+ YG ++ T+D + Sbjct: 198 SRALELPETALVRQYRARARGRITQEQLDKLKDGVVVDGVRYGPVEATIDKAKEKTEGEK 257 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +N W++V + EGKNRE++KV E VNRLIR++YGPFQLGTL GS EV +++R Sbjct: 258 SSANLWLSVSITEGKNREVRKVLESIGLTVNRLIRLAYGPFQLGTLPVGSVEEVGPRVIR 317 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E L H+ E + + R I + + + Sbjct: 318 EMLAEHIRPENLPTGNTVATPTPIPGRRTGTPIVRGKSGSAMSDPSRKPSRVRAAETAAE 377 Query: 303 TPVH-RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + W R + R R + ++ Sbjct: 378 DGAEFGKPARKEGWAKAKPKFEHKKTFKPRARPGDDEGTEGGDRPRRPFTPRE 430 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 59/240 (24%), Positives = 104/240 (43%), Gaps = 5/240 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ K +A G+ SR+EV+ +I + ++VNG +++ V D + G + Sbjct: 5 KRMRLDKFLADMGLGSRKEVKGLIKKGTIEVNGQVVKSDKAQVNEFEDAVTYLGEIITYQ 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L+ + T + D + VGRLD +TEGLL+LTNDG Sbjct: 65 KDFYYILHKPAGVISATQDNHDQTVIDLLEDQDYREDLFPVGRLDKDTEGLLILTNDGVF 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKG--SNA 187 A L P + Y G + ++ + L +G++I ++ +D + Sbjct: 125 AHQLLSPKKHVEKEYLAEVSGIMTEEDIRLFAEGLIIDGDEQTLPAKLQIDQVDQETETS 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + + L EGK ++K++ + +V L RI G F L L G R ++K+ L + Sbjct: 185 IIRLILHEGKFHQVKRMVKAVGKEVLYLKRIRMGKFWLPKDLNKGQYRPMTKEELEQVRE 244 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 92/348 (26%), Positives = 144/348 (41%), Gaps = 13/348 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG+ SRRE+E +I++ RV VNG + V + D I VDG + Sbjct: 2 SEKLQKVLARAGVGSRREMETVISEGRVSVNGKVAT-LGDRVEAKDVIRVDGHQISVPTL 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + T H + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSK---KILRE 243 W V L EG+NRE+++++E +V+RL+RI YG +L L G E+ LR+ Sbjct: 181 WFNVTLCEGRNREVRRLWESLEVQVSRLMRIRYGDIKLDKTLPRGGWAELELPQVNYLRK 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF---TRMKKNSSQKNGLSKQKK 300 + + ++V S + + + K + Sbjct: 241 MVSLLPEDRSKVFGVEDRRSEFKQAAQIRRAVRRHRERTVLQGEEVAGEAPAMPRPKVPR 300 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 A PV R W R + R + ++ R Sbjct: 301 AAPPVKRERDDEVSWENARKRLRDGEPRKARPNANNRQRITRAGKTGR 348 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 93/357 (26%), Positives = 150/357 (42%), Gaps = 14/357 (3%) 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 DHIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D I VDG +++ E R + + T + 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 GDMQVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLA 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+ + + R + + R + + Sbjct: 240 GRWREMSQGEIDILAAEVGLQPVALPEMKLKAKDKLERLQRKSTRPLGRGERVRTLRPAQ 299 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + G + R++ S + R E + + K Sbjct: 300 EGQGERPARPAREEAPRKSGR---GSTVAERPSEMRKRPARPEGDKPAGRGRGKPRG 353 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 100/231 (43%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ + V VN L++ + DHIEV G + Sbjct: 1 MRIDKLLSNTGFGSRKEVKGLLKKGGVTVNSELIKDGKRQIDPSEDHIEVFGEVIEYKPF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T D VGRLD +T G +LLTNDG LA Sbjct: 61 IYLMMNKPKGVISATEDVTDKTVVDLLATEHALYDPFPVGRLDKDTTGFMLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + + YRV + L G+ + ++T N + + Sbjct: 121 QLTSPKKKVDKTYRVHIDAPLTSADEASLIAGVELDDGYITKPAKLTY---GNDNTVIFL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F+ KV L R + GP +L +LL G RE++ + + Sbjct: 178 TITEGKFHQVKRMFQALGRKVINLKRETIGPLKLDPSLLLGEYRELTDEEV 228 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 66/270 (24%), Positives = 120/270 (44%), Gaps = 1/270 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD P+ Sbjct: 199 EAGEPIRLNKFLSNSGLCSRRMADQYIAAGRVKVNGAVISELGSQVLPTDQVMVDDKPVS 258 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + T R+ + + R+ +GRLD NT G+LLLTNDG Sbjct: 259 LEAKVYVLLNKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTNDG 318 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P+ + ++Y V +V + + ++ G ++ ++ T + ++ Sbjct: 319 DLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ-THDK 377 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R Sbjct: 378 VGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRMGV 437 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 +E + SE Sbjct: 438 KEQEDNGVAPTTKVYHKHQETPDHPFASEE 467 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 65/302 (21%), Positives = 121/302 (40%), Gaps = 14/302 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V V D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYIEQGNVFINGKRAAV-GVQVFPGDVVKVNGQTIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L + + DG + + RV +GRLD +++GL+LLTN G Sbjct: 62 RNEEDLVLIALNKPVGVISTTEDGEQNNIVDFVNHSKRVFPIGRLDKDSQGLILLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +K S Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTV----TKKCKVKKESTFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R+ L L G R++++ L E Sbjct: 178 RITLVQGLNRQIRRMTKHFGYEVTKLERVRIMNISLKGLPQGEWRDLTEDELIELFKL-- 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 ++ + + + + KK + + +K+ A P ++ Sbjct: 236 -------IENSSSDEKPAKKAPVKRVEAKRVSISGPKKAEKPDSNAAARKRFAQPGRKKK 288 Query: 310 LA 311 Sbjct: 289 GR 290 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 113/228 (49%), Positives = 157/228 (68%), Gaps = 2/228 (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+ D + K + I GI Y + L Q SN+W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKSDILLKSN-YKNLEIDGIFYNPHSIKLLKQNKSNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGKNREI+++FE+F KVN+LIRI YG F +G L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYFGLKVNKLIRIQYGSFTIGNLKPGDYKEINNKILE 228 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 67/242 (27%), Positives = 125/242 (51%), Gaps = 4/242 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA G+ASRR+ E +I + +V+VNG + V + D ++V+G L + + Sbjct: 2 ERLQKFIASCGVASRRKAEELITEGKVQVNGRKVTELGVKIDPQKDKVKVNGQLLAQEKP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + + D + + R+ +GRLD+ TEGLLLLTNDG LA+ Sbjct: 62 VYYLLNKPKGVITSVSDPQGRETVL-DYIKNESKRIYPIGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V + L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDEDLQVIANGVKLEDGMTAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKALKALGTD 240 Query: 251 EE 252 ++ Sbjct: 241 KK 242 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 139/354 (39%), Positives = 188/354 (53%), Gaps = 12/354 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E +R++K +ARAGIASRREVER+I +V VNG +L+ A V D I VDG P+ Sbjct: 94 EPKRSERIAKAMARAGIASRREVERLIGLGKVAVNGRILDTPATLVTRDDVITVDGKPIA 153 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 A+ TR+W Y+KP+GL+T+H+DP GR TVFD LPS RVISVGRLDINTEGLLLLTNDG Sbjct: 154 AAQATRVWRYNKPVGLLTSHNDPQGRPTVFDALPSGLPRVISVGRLDINTEGLLLLTNDG 213 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------- 181 L+R LELP T +R YR R G+V Q L+ LK G+ + G+ YG ++ ++D Sbjct: 214 ELSRALELPETALVRQYRARARGRVTQADLDKLKDGVTVDGVRYGPVEASIDKATTKEDG 273 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + +N W++V + EGKNRE++KV E VNRLIR++YGPFQLGTL GS EV +++ Sbjct: 274 SQAANLWISVQIAEGKNREVRKVLESVGLTVNRLIRLAYGPFQLGTLAVGSVEEVGPRVI 333 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII-----SEVPDDFTRMKKNSSQKNGLS 296 RE LG H+ + + + R D +R Sbjct: 334 RELLGEHIRPDNLPQGNTVETPAPIPGRRTGAPKVTGTSGSAMSDPSRKPSRVRAAATAQ 393 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + A E + P++ R Sbjct: 394 VEGAERANRPPKKAGWAKAAAPNPRGPSTKKPWAPREGAAPTGDRPARVFKPRD 447 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 124/240 (51%), Gaps = 7/240 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G + Sbjct: 2 SSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNPL 60 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 K L + + + H ++ + R + VGRLD+NT GLL+ TN Sbjct: 61 KSKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+N Sbjct: 121 NGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLAKFTKIQFRGGEGTN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 +W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E L Sbjct: 181 SWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEFL 240 >gi|195952397|ref|YP_002120687.1| pseudouridine synthase [Hydrogenobaculum sp. Y04AAS1] gi|195932009|gb|ACG56709.1| pseudouridine synthase [Hydrogenobaculum sp. Y04AAS1] Length = 239 Score = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 64/230 (27%), Positives = 115/230 (50%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+++ ++ AG+ SRR+ + I + VKVN +++ + D +E G ++ + Sbjct: 1 MRLNRFLSLAGVCSRRKADEYIEKGYVKVNNNIVKELGTTINPDEDIVEFRGRIVKAQK- 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|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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 101/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR EV++++ +++V VNG + + D I G L + Sbjct: 1 MRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISCQGQTLSYEKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATEDNHHKTVLDLLDKIAWDKEAFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P + YR + G + + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILETNEAERTSVVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + ++EGK ++K++ + KV L R+S GP QL L G R ++ L Sbjct: 181 ITIKEGKFHQVKRMVQACGKKVTDLQRLSMGPLQLDKQLALGEWRRLTDDEL 232 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 81/236 (34%), Positives = 118/236 (50%), Gaps = 1/236 (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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +A V + L EG+NR ++++ + V RL R GP LG L G+TR + + L Sbjct: 181 SAVVELVLHEGRNRIVRRLLDAAGHPVQRLTRTRVGPVLLGQLRPGATRVIDGEEL 236 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 63/293 (21%), Positives = 113/293 (38%), Gaps = 5/293 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + Sbjct: 4 DSSIRLNKYISESGICSRREADRFIEQGNVFLNGKRAT-IGDQVMPGDVVKVNGRLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + D + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVFIALNKPVGIVSTTEDSERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V D + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDDFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L L G R+++ L + Sbjct: 179 ITLIQGLNRQIRRMCEHFGYEVTKLERTRIMNVGLSGLPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++ A ++ I + + + ++ +KK Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKIEKSAEKEKSRPAANGKRFTSPGRKKKGR 291 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 82/352 (23%), Positives = 145/352 (41%), Gaps = 7/352 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 174 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 232 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 353 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 412 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS-EVPDDFTRMKKNSSQKNGLS 296 +R+ + L+ ++ R +P+ + + + + Sbjct: 413 DAQVRKLMATVGLKAPSEEKGKRGGAAGPTERRQPDPMQTSMGFISREPVLTTHGQLDQP 472 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 ++ S S + + +G + +R R+ Sbjct: 473 RRGGGRRGGPGLPGLSGYGSLPVAPSGYGNRAGGGRDGNRTGGGRDGNRAGG 524 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 59/248 (23%), Positives = 112/248 (45%), Gaps = 6/248 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +QE R++K ++ G SRR +R+I + RV++NG+ + V D IEVDGV Sbjct: 1 MQEQTEGIRLNKYLSEIGHCSRRAADRLIEEGRVQINGVQV-IMGQKVTPLDRIEVDGVL 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + +++ + +D + + +R+ +GRLD +EGL+LLTN Sbjct: 60 VEDLQERNVYIAFNKPIGIVCTTDTRVEKDNIIDYINYPTRIFPIGRLDKPSEGLILLTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y V + V + + + GI I ++ Sbjct: 120 DGDIVNKILRARNNHEKEYIVTVNKPVTTEFVEKMANGIPILDTITRKC----VVEQIHK 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E+ +++V +L RI +L + G R+++KK + E Sbjct: 176 NQFRIILTQGLNRQIRRMCEYLDYRVVKLKRIRIMNIEL-NVGVGKYRDLTKKEMVELQN 234 Query: 247 PHLLEEAQ 254 + Sbjct: 235 LIADSDKH 242 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 58/241 (24%), Positives = 108/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + + P R++K +A AG+ SRRE + I V VNG ++ V TD + Sbjct: 5 IEYKELNVDPDAPIRLNKFLANAGVCSRREADEFITAGVVSVNGTVVTELGTKVKRTDEV 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + ++ + R+ VGRLD NT G Sbjct: 65 KFHEQPVSIERKVYVLLNKPKDYVTTSDDPQNRKTVMDLVKNVCRERIYPVGRLDRNTTG 124 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LL TNDG LA L P ++Y V V + + +GI ++ + Sbjct: 125 VLLFTNDGELASKLTHPKFLKKKIYHVTTDKNVTAADMRQIAEGITLEDGEIRADAIDYA 184 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + GKNR ++++FE ++V +L R+ + + G R ++++ Sbjct: 185 SPTDKKQ-VGIEIHSGKNRIVRRIFEALGYRVVKLDRVLFAGLTKKNVRRGDWRFLTEQE 243 Query: 241 L 241 + Sbjct: 244 V 244 >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 = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR +V++++ +++V VNG + + D I G L + Sbjct: 1 MRLDKFLVGAGIGSRNDVKQLLKKKQVTVNGEIETSPKTQIDEKIDKIVCQGENLSYEKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + V VGRLDI+T GLL LTN+G LA Sbjct: 61 VYYMLNKPKGVISATEDNHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLFLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P ++YR + G + + + KGI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVDKLYRAKVAGIMTAEDVEHFAKGIELKDFTCQPAQLEILEIDEAAKTSLVA 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + ++EGK ++K++ +V L R+S GP QL L G R ++ + L Sbjct: 181 ITIKEGKFHQVKRMVLACGKEVTDLERLSMGPLQLDENLSLGEWRRLTAEEL 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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 65/237 (27%), Positives = 102/237 (43%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNFLKAGRVTVNGKKEKSAKLQIDEETDEICFDGKKLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATENPKHKTVLDLMDDYACAKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + Y + G + + + KGI ++ ++ L + + + V Sbjct: 121 ALLSPKRHVDKTYMAQVKGIMTDEDIETFAKGIPLKDFTCQPAKLELVSIDTEENKSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + EGK ++K++ + +V L R++ G L L G R +SK+ L L Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRVTMGTLTLDEELKRGEWRRLSKEELEGLLE 237 >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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 57/234 (24%), Positives = 105/234 (44%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVAVNGQVETSPKTQIDENQDQIAFQGQVLTHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDARHKTVLDLLDDTARHKQVFPVGRLDIDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P ++Y+ + G ++Q+ + +KGI ++ ++ + + + + V Sbjct: 121 AMLSPKKHVDKIYQAKVDGIMNQEDILAFEKGIELKDYTCQPAKLEIISVDRATGTSLVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK ++K++ +V L R+S GP L L G+ R ++++ L Sbjct: 181 ITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSLPNDLEVGAWRRLTEEELEA 234 >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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 64/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G + G ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 105/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G +R+E+++++ + V VN ++ + + + D I ++G + + Sbjct: 2 ERLDKVLSNLGYGTRKEIKQVVKKGFVTVNDEKVKDSGLQIDPEKDTIVINGEKVEYKKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + T+ D + VGRLD +T GLLLLTNDG L Sbjct: 62 IYLMMNKPAGVISATYDKRDETVIDLLYMEDQVFEPFPVGRLDKDTVGLLLLTNDGDLNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY + + + + + G+ + ++ + +A V V Sbjct: 122 KLISPKYHVDKVYYAEINAPITEKDIKAFENGVTLDDGYKCMSAKLKVIENLEDSARVEV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++FE KV L R S+G L L G +E+S+ L Sbjct: 182 TVQEGKYHQVKRMFEARGKKVVYLKRTSFGNLPLDESLEEGEYKELSESEL 232 >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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 55/224 (24%), Positives = 102/224 (45%), Gaps = 3/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV++ G SR+E++ + + ++V+G +++ + V I+V+G + + Sbjct: 2 ERLDKVLSNLGYGSRKEIKAFVKKGEIEVDGKVVKDNGIKVDPNKSIIKVNGEEINYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T + D + VGRLD +TEGLLL+TNDG L Sbjct: 62 IYIMMNKPAGVVSATFDNYDETVIDLLDYEYTVFDPFPVGRLDKDTEGLLLITNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y VD+ + KKGI + ++ + + + + V + Sbjct: 122 RLTSPKWHVDKTYYAEIDKMVDEKDVEKFKKGITLDDGYKCLPAKLEILSSDENGSEVNI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 ++EGK ++K++FE V L R++ G L L G+ R Sbjct: 182 TIQEGKFHQVKRMFEARGKNVVYLKRLTMGNISLDEELDEGTYR 225 >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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 72/242 (29%), Positives = 128/242 (52%), Gaps = 3/242 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + P + + Y + +G+++ + L +L+ G+ I +V + K N V + Sbjct: 122 ITHPKHKIRKTYVAKINGKLEDNHLRILRNGVRIDNYKTAKAEVNIVKNKNKSGNTLVRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EGKNR+++++FE ++V +L R S L L G R ++ ++ + Sbjct: 182 TIHEGKNRQVRRMFEALGYEVMKLKRESIEDLTLEGLKKGEYRTLTIHEVKRLINKAKNG 241 Query: 252 EA 253 E Sbjct: 242 EK 243 >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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 63/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G ++ ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EGK ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >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 = 177 bits (448), Expect = 2e-42, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 109/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ G SR+E + + + ++V+G +++ ++V + ++++G + + Sbjct: 2 ERLDKIISNLGYGSRKEAKVLARKGLIEVDGKIIKDSSVTIDPEKSIVKINGEEIFYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + TH D L VGRLD +T GLLLLTNDG Sbjct: 62 IYLMMNKPTGVISATHDSKDETVIDLLELDHQIFNPFPVGRLDKDTVGLLLLTNDGEFNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P +VY + +V++ KKG+V+ + ++ + + + V + Sbjct: 122 RMISPKWHVDKVYYAKIDKEVNEKDQQAFKKGVVLDDGYKCLEAKLDIISASPEGSEVRI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++EGK ++K++FE + KV L R +G L L G RE+S + L Sbjct: 182 TIQEGKYHQVKRMFEACDKKVVYLKREEFGGLILDENLEEGEYRELSDEEL 232 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 81/355 (22%), Positives = 141/355 (39%), Gaps = 6/355 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 175 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 233 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 354 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 413 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 +R+ + L+ + + R + + + + + + Sbjct: 414 DTQVRKLMATVGLKAPSEEKGKRGGTGQAERRQPDPMQTSMGFIGREPVLTAHGQLDQPR 473 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + S S F + +G + +R Sbjct: 474 RGSGRRGGPGLPGLSGYGSLPVAPSGFGNRAGGGRDGNRAGGGGRDGNRAGGGRG 528 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 80/234 (34%), Positives = 129/234 (55%), Gaps = 2/234 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 R+ K++A G+ASRR+ E +I Q +VKVNG + + V TDH+ V G + Sbjct: 2 QDQKIRLQKMLADCGVASRRKAEELIQQGKVKVNGHVAQ-IGDKVNPKTDHVTVAGRRIV 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + HKP G V+T SD GR V + + I +RV VGRLD ++EGLLL+TNDG Sbjct: 61 ASRQYYYIMLHKPRGYVSTMSDEMGRKCVAELVKDIPARVYPVGRLDRDSEGLLLMTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A ++ PS + YRV + +++L L+ G+ I G+ + +++ Sbjct: 121 EFANLIMHPSKHVPKTYRVTVRPDISEEQLALMNVGMEIDGVRTAPADAWVISREPGRVV 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + LREG+NR+I+K+ E +V RL R++ G +LG L G R ++ ++ Sbjct: 181 LEIILREGRNRQIRKMCEQLGVEVARLKRVAVGQVKLGMLQPGKWRNLTLDEVK 234 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 124/240 (51%), Gaps = 7/240 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G + Sbjct: 2 SSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNPL 60 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 K L + + + H ++ + R + VGRLD+NT GLL+ TN Sbjct: 61 KGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+N Sbjct: 121 NGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLAKFTKIQFRGGEGTN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 +W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E L Sbjct: 181 SWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEFL 240 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLNGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKTAEKGGCPASNGKRFTSPGRKKKGR 290 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 61/293 (20%), Positives = 117/293 (39%), Gaps = 5/293 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R + Q V +NG V D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYVEQGNVFINGKRAAV-GDQVYVGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + L L + + DG S + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDESDLILIALNKPVGIISTTEDGESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +V +K + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTVTKKCKV----RKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 ++ L +G NR+I+++ + F ++V +L R L L G R++ L E Sbjct: 178 SITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGLPIGEWRDLRDDELIELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + + + S+ + + ++KK Sbjct: 238 NSSSDEKPQKKPKAKPVVAKKPAISRSKPAEKSETNSAGRKRFTQPGRKKKGR 290 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 109/230 (47%), Gaps = 8/230 (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 + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 54/308 (17%), Positives = 117/308 (37%), Gaps = 5/308 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+ +G SRRE ++ I Q V +NG+ + V D + V+G L++ Sbjct: 3 ESIRLNKFISDSGYCSRREADKYIEQGSVFINGVRAK-IGTQVTRRDKVVVNGHTLQQKS 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + T + G + R+ +GRLD +++GL+ LT++G + Sbjct: 62 QEEEIYIALNKPPGVTSTTEKGVVDNIVDYVGHPQRIFPIGRLDKDSQGLIFLTSNGDIV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V + D + + G+ I G+ ++ S+ + Sbjct: 122 NKILRAGNEHQKEYLVTVDKPITPDFIAKMATGVPILGVVTKKC----IVEQISSNVFKI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E+F + V +L R +L + G RE+++ +R Sbjct: 178 VLIQGLNRQIRRMCEYFQYNVTKLERTRIMNIELKGIPLGEWRELTESEMRILNDMLKDS 237 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 +++ + + S+ + K + + + Sbjct: 238 KSETDRVSQKASAVGQKPKSKPTPPKKKPIVAAKKTGTQKPRSFGSKPGTGGKSASSRGK 297 Query: 312 SNVWMAKG 319 + + Sbjct: 298 KSTSRGRR 305 >gi|268610237|ref|ZP_06143964.1| pseudouridine synthase [Ruminococcus flavefaciens FD-1] Length = 247 Score = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 84/248 (33%), Positives = 130/248 (52%), Gaps = 3/248 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + R+ K+IA +G+ SRR+ E +I++ RVK+NG ++ D I +DG Sbjct: 1 MGDKVEKIRIQKMIADSGVCSRRKAEELISRGRVKLNGHPVK-LGDKCGYKDIITIDGER 59 Query: 67 --LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + K + 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 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + ++EG+NR+I+K+ E +V RL R S GP +LG L G+ R+++ + LR Sbjct: 180 GRVVLLMTIKEGRNRQIRKMCEAVGLEVARLRRTSIGPIKLGMLKPGTYRDLTAEELRAI 239 Query: 245 LGPHLLEE 252 E+ Sbjct: 240 RNAIGKEK 247 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) 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 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 54/247 (21%), Positives = 105/247 (42%), Gaps = 6/247 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R++K ++ AG SRR +++I + V +NG + V D + V G + + Sbjct: 2 DTQLKRINKFLSEAGYCSRRNADKLIEEGAVTINGKIP-EMGTKVGPDDEVRVKGELITE 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++L + +D + + R+ +GRLD +EGL+LLTNDG Sbjct: 61 PNSNFVYLAFNKPRGIVCTTDTRREKDNIIDYINYPERIFPIGRLDKYSEGLILLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + + D + + G+ I ++ + Sbjct: 121 IVNKILRARNNHEKEYIVHLNKPIKGDFIQKMGDGVPILDTVTKKC----FVEQIGKSSF 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F++KV L RI +L T G R ++ L+E Sbjct: 177 KIILTQGLNRQIRRMCEYFDYKVAGLKRIRIMNVKLDT-EKGKWRHLTPNELKEIQELVS 235 Query: 250 LEEAQVN 256 + + Sbjct: 236 HSDKTHD 242 >gi|295100099|emb|CBK89188.1| ribosomal small subunit pseudouridine synthase A [Eubacterium cylindroides T2-87] Length = 230 Score = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ G +R +V+ +I V + G +++A V + VD P+ + Sbjct: 1 MRLDKFLSHMGYGTRNKVKNIIKNGWVTIEGKTIKKADHQVKEDQIVYVDDTPVSYIQYE 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + T+ + +PSI + VGRLDI+TEGLLL+ NDG L Sbjct: 61 YYILNKPSGYVSATEDN--VHPTIMELIPSIRKDLYPVGRLDIDTEGLLLVCNDGQLTHD 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V F G + ++ + + + + + + + + + + Sbjct: 119 LLSPKKHVQKKYYVEFEGTLPENAVEIFNQPMDLDDFIAKPSTLEILDTNKA----YLTI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EGK ++K++F+ +V L R+S+GP +L L G R +S + Sbjct: 175 SEGKFHQVKRMFQKIGCEVTYLQRVSFGPLELKNLEIGQARALSPDEIE 223 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) 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 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVSILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVIAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 80/356 (22%), Positives = 140/356 (39%), Gaps = 8/356 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D ++V+ Sbjct: 87 KRVLSPQPETPKLHKVLAQAGLGSRLEMEQLILEGRISVNAEPA-HIGQRIQFGDTVKVN 145 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + 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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 266 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMLLPRGLKRGAFVELDE 325 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + + E++ + + D P R + S G Sbjct: 326 RDIWALTNAVTRSESRADPRGAPKHPGHVRGDEGGEFR--PGRGPRRNERSRGDRGRLPA 383 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + ++ + + +RR + S + Sbjct: 384 PESGQADDFQPADADAEQEPNELQPPMHRTDSAPRGNRRRGGKGRGQGGNPGSPPR 439 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 60/301 (19%), Positives = 114/301 (37%), Gaps = 13/301 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSTRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + R+ +GRLD +++GL+ LTN G L Sbjct: 63 EADDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 ++ + +M+ ++ + K+ P ++ Sbjct: 239 SSSEAK--------PKARPKAKAATPGIKRPVVKMENSNDKGRPAGNGKRFTQPGRKKKG 290 Query: 311 A 311 Sbjct: 291 R 291 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 108/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQLHNEKSLTKPAQLEVIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G +L L G R ++ + + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVLELHRERIGDIKLDDDLAPGEYRPLTPEEIASVGAPH 234 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 110/231 (47%), Gaps = 7/231 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K IA AG+ SRR+ R+I Q V VNG + + V + D I V+ L Sbjct: 2 NDGIRLAKYIANAGLCSRRQASRLIDQGLVTVNGGIADHICF-VGTDDVITVNDELLVYQ 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L++KP+G+ + D S + L R+ +GRLD ++ GL++LTNDG L Sbjct: 61 TEQVYYLFNKPVGIDSRLLPNDSASLIH--LLPSEIRIYPIGRLDKDSYGLMILTNDGEL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + YRV +D + N + +GI + G V + + Sbjct: 119 YHQMNHPDHHQEKEYRVSVERPIDANFCNKMAQGIPVDGQLTQPCSVW----QTAENEFH 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+K+ + +KV L RI +G L AG + ++K + Sbjct: 175 IVLTQGLNRQIRKMAKHCGYKVVDLERIRIANLAIGDLSAGEFKTLTKADI 225 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 91/235 (38%), Positives = 133/235 (56%), Gaps = 2/235 (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 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--A 187 +A L P ++ +VY + G DKL LK G+VI+G +VT++ + Sbjct: 122 IANQLMHPKSRVDKVYIAKVAGIATDDKLAPLKHGVVIKGRKTAPARVTIERIDKDKKTS 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L EG+N ++K + + V +L R Y F L L +G R+++ ++ Sbjct: 182 MVRVILHEGRNHQVKNMLQKVGLPVEKLTREQYAFFDLTGLQSGEYRKLTSPEIK 236 >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 = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 65/232 (28%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAER 72 R+ K+++ G +R+EV+ I + V VNG + + + D I + + + Sbjct: 4 MRIDKLLSNTGFGTRKEVKGFIKEGLVTVNGRTVNDPGLIIETDKDDIIFNDEKIFYRKY 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + +V GRLD +TEGLLLLTNDG LA Sbjct: 64 IYIMMNKPRGVISATYDPSEKTVLDLLPDDIKARKVFPAGRLDKDTEGLLLLTNDGILAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G +D+D ++L GIV+ + + GS + V V Sbjct: 124 KLLSPKKHVYKKYYAEISGFIDEDDISLFSNGIVLDDGYKTMPAYLEII-SSGSISKVYV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++EGK +IK++FE KV L R+S G L L G RE++ L+ Sbjct: 183 SIKEGKYHQIKRMFESLGSKVIYLKRLSMGYLNLDENLKEGEWRELTDNELK 234 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 102/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + +V VNG++ + +A + D I DG PL + Sbjct: 1 MRLDKFIAENTGLTRSQASKALRAGQVTVNGVVEKNSATKISEQDEICFDGEPLAWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP V +H D D + + +++ GRLD +T GL+LLT+DG + Sbjct: 61 QYFMLYKPQNCVCSHDDGDYPTVFQFFDYPLTTKLHCAGRLDADTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ +GI+++G L+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYATQFAEGILLRGEKTATKPAQLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F KV L R G L L G R +++ + Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGDVVLDENLAEGEFRALTEDEI 227 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 96/359 (26%), Positives = 150/359 (41%), 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 VPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 +R + + + + + + + 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 + A + R R E P + N+ + S+ Sbjct: 241 KELKELCQTADIPVPDRKFSAGLQDFRDRQRRRL----ESPGSKRSSRPNTKVPDARSRP 296 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF---PSKRSLRRTSAKK 354 + A + S + R P SK++ R ++ Sbjct: 297 SSAHFDPEVTVGKAATPNAPKARMNTRSAPNFDNGSDTRQPKPRQQASKKTNSRNKDRR 355 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 84/256 (32%), Positives = 129/256 (50%), Gaps = 6/256 (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 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINT 118 + DG P+ R L +KP G V T SD GR T D L 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 AV----NRRKLRIVLVEGKNREIRRVLDSFNCTIKRLVRVRIGNLELGTLKAGEFRDLTV 236 Query: 239 KILREQLGPHLLEEAQ 254 + + LG + Sbjct: 237 QERQALLGLAAQNDNS 252 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 112/292 (38%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG V+ D ++V+G + Sbjct: 4 TQSTRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVVPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + DG + + SR+ +GRLD +++GL+ LTN G L Sbjct: 63 DAEDLVFIALNKPVGIVSTTEDGERDNIVDFVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYIVTVNKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F + V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGYDVTKLERTRIMNVSLSGIPLGEWRDLTDDELIELFRLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTQAIKRPVVKAPPAEEKGRGKPANGKRFAQPGRKKKGR 290 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 81/261 (31%), Positives = 120/261 (45%), Gaps = 13/261 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 E P R+ + +ARAG+ASRR E +++ RV VNG + V D + VDGVP Sbjct: 22 DERVVPMRLQRFLARAGVASRRGSEALMSAGRVSVNGEVKTELGTKVDPAIDQVAVDGVP 81 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLT 125 + + +KP G++TT SDP GR V D +P VGRLD++T GLLL T Sbjct: 82 VVLGVGAAYLMLNKPAGVLTTMSDPHGRPCVADIMPVRSYPGLFPVGRLDMDTTGLLLFT 141 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG- 184 DG L L PS + Y G + L L++GIV+ + L ++ Sbjct: 142 TDGDLGHALLHPSRHVWKTYVAVVDGVCREGDLEPLRRGIVLDDGPCQPARCALRDERDV 201 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V + +REG+ ++K++ V RL R+ +GP +L L GS R Sbjct: 202 RDIAPRGLRAGTTAVRIEIREGRKNQVKRMLSKIGHPVLRLHRLRFGPLELNDLPCGSWR 261 Query: 235 EVSKKILREQLGPHLLEEAQV 255 E++ + +EE Sbjct: 262 ELTPTEVAALQSTPAVEEISA 282 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 103/229 (44%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + +V VNG++ + +A + D I DG PL + Sbjct: 1 MRLDKFIAENTGLTRSQASKALRAGQVTVNGVVEKNSATKISEQDEICFDGEPLAWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP V +H D D + + +++ GRLD +T GL+LLT+DG + Sbjct: 61 QYFMLYKPQNCVCSHDDGDYPTVFQFFDYPLTTKLHCAGRLDADTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ +GI+++G TL+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYATQFAEGILLRGEKTLTKPATLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F KV L R G L L G R +++ + Sbjct: 179 SEGRYHQVKRMFAALGNKVVALHRWRIGNVVLDETLAEGEFRALTEDEV 227 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 92/353 (26%), Positives = 148/353 (41%), Gaps = 14/353 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG+ SRRE+E MI RV ++G + I +DG + E Sbjct: 2 SEKLQKVLARAGLGSRRELETMIQAGRVSIDGQKAKLGDRLENVDARIRIDGHVVSVKES 61 Query: 73 TRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 T + + L T H R+ SR +SVGRLD NT GLLL T D Sbjct: 62 TDVICRVLAYHKPEGELCTRHDPEGRRTVFDRLPKIKDSRWVSVGRLDANTAGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y R G ++ + L G+ ++ V +G N Sbjct: 122 GELANRLMHPSRKVEREYMCRIFGDINDKMVKNLVTGVKLEDGEARFEDVMYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + EG+NRE++++++ V+RL R+ YG L L G E+ K LR+ Sbjct: 182 TFYVVINEGRNREVRRLWDSQGVTVSRLKRVRYGDIFLEKALPRGGWMELELKEVNYLRD 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E+ +++D + + D+ T +N++ KK Sbjct: 242 MVELPHEKESLLDVDKESRKRAKSKSQKIRRAVKRHDERTTEDRNTAGGRRGRNNKKPVG 301 Query: 304 ---PVHRRNLA--SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 P ++ + S KG S +G + + SP+ + +S R Sbjct: 302 GSLPTAKKPTSIESAKPAGKGKPKGKPSANGAKPIRTKFSPNGKAPKSAPRQR 354 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) 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 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVIAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >gi|330866214|gb|EGH00923.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. 0893_23] Length = 408 Score = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 91/354 (25%), Positives = 140/354 (39%), Gaps = 15/354 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQPSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATP-----VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + + P R + + S P Sbjct: 302 PATGDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 355 Score = 38.6 bits (88), Expect = 1.4, Method: Composition-based stats. Identities = 17/91 (18%), Positives = 24/91 (26%), Gaps = 2/91 (2%) Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E + +D S P + + K+ A P +R Sbjct: 317 SERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAERPSEMNKRPAKPGPKRVG 376 Query: 311 AS--NVWMAKGIHSSFLSDSGQREENHRRSP 339 N G + SGQR RR P Sbjct: 377 IKLVNDDAPSGKRRGPPAGSGQRPGFGRRKP 407 >gi|324328441|gb|ADY23701.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 229 Score = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 109/234 (46%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE + +I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDSLIKAGRVAINGEICTH-GALVNEGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEGNIIDYI--NYPGRIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R +L L G R+++ + L +G Sbjct: 174 LTQGMNRQIRRMSRVFGFTVKKLKRERIMNIELNDLEVGKWRDITAEELELLIG 227 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D + + G+ + G ++ S V + Sbjct: 121 ITSPKHHCEKTYLVTLEQPLAPDTADNFQAGVQLHGEKNLTRPAT----LEQISEHQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++ + + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVALHRERIGAITLDDALEPGEYRPLTPEEV 227 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 89/360 (24%), Positives = 143/360 (39%), Gaps = 19/360 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+AR G+ SRR+VE IA+ RV VNG + V S D I VDG +R+ E Sbjct: 13 GEKLQKVLARLGVGSRRDVEVWIAEGRVNVNGSVA-SLGQRVDSHDAITVDGHLIRREEA 71 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + T + R I+VGRLDINT GLLL T D Sbjct: 72 AENVRRVLIYNKPEGEVCTRDDPEGRPTIFDRLPRLRTGRWINVGRLDINTTGLLLFTTD 131 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSN 186 G LA L PS + R Y VR G+V ++ + L G++++ + +G N Sbjct: 132 GELANRLMHPSYEMDREYAVRVRGEVSEEMIERLLDGVMLEDGPAKFSDIQQAPGGEGFN 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR--- 242 W + EG+NRE+++++E V+RL R+ +GP L L G RE+ ++ + Sbjct: 192 HWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMGRYREMDQREIDILS 251 Query: 243 --------EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 G + + +RP + + Sbjct: 252 EEVGLKPVALPGMTTKAREKAERQQRKQARPLARSERPEAGRKRAPRREDGDNAGRRTPA 311 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R+ +A+ S + + R + + K + R+ K+ Sbjct: 312 SRSSRGPQPGAERKGREQGTPVAERPRESNRKPRPSKPRDERPAGAPGDKPAARKPQVKR 371 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 67/336 (19%), Positives = 122/336 (36%), Gaps = 10/336 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRR+ +R I Q V +NG V++ D ++V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVYLNGKRAAV-GDQVVAGDTVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + + + R+ +GRLD +++GL+ LT++G Sbjct: 62 KEADDFVFIVLNKPVGIVSTTESSEKNNIVDFVRHSVRIFPIGRLDKDSQGLIFLTSNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + L G+ + G VT K + Sbjct: 122 LVNKVLRAGNNHEKEYLVTVNKPLTDSVIEGLAGGVPMLGKMTKKCPVT----KVAPNVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E F ++V +L R L G R+++ K L + Sbjct: 178 NITLVQGLNRQIRRMCEHFGYEVVKLERTRIMNVSLKGTPVGDWRDLTPKEL--SVLLKS 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 +E++ P S R P + +++ N + P + Sbjct: 236 VEDSSSQDSKPAKKSRNAPRKNPRTDDSSKAKSSSKTAGAAKGNKKHSKDGARKPAGSKG 295 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 W R S SKR Sbjct: 296 KD---WRPFSDGKKSGGKGKPATNGKRPSKGRGSKR 328 >gi|271500910|ref|YP_003333935.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344465|gb|ACZ77230.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 232 Score = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 103/232 (44%), Gaps = 7/232 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D + G+ + + + S V + Sbjct: 121 ITSPKHHCEKTYLVTLEQPLAADTAEKFQAGVQLHNEKNLTRPATLEVL----SEHQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TITEGRYHQVKRMFAAIGNHVVALHRERIGAITLDDTLEPGEYRPLTQEEVD 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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 61/244 (25%), Positives = 107/244 (43%), Gaps = 7/244 (2%) 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 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVT 178 L+L+T+DG + + P + Y V V D KG+ + + Sbjct: 121 LVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVAADTAEQFAKGVQLHNEKDLTKPAVLE 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + + V + + EG+ ++K++F V L R G L L G R ++ Sbjct: 181 VI----TPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAIVLDDDLEPGEYRPLT 236 Query: 238 KKIL 241 ++ + Sbjct: 237 EEEI 240 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 102/234 (43%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + + Sbjct: 1 MRIDKYLANMNVGSRKEVHQLIKKGVVAVNGKTVKTLKEKINENDVVTVNGEEIAYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T + + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPKGVLSATEDRSQKTVISLLDPQDRYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWVT 190 L P+ +VYR G D++ G+++ G ++ + Q N + + Sbjct: 121 LVAPNKHVAKVYRAEIAGVADEETAKAFASGMMLGDGTKLKPAKLKILKQDRENATSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK +IK++F KV L R+S G L L G E+S ++ Sbjct: 181 IEISEGKYHQIKRMFGAVGMKVTALDRLSMGNLHLQSDLKRGKYVELSLDEIKN 234 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 70/233 (30%), Positives = 117/233 (50%), Gaps = 4/233 (1%) 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 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L L T VGRLD + EGLLLLTNDG L Sbjct: 65 EYIYLMLNKPQGVLSATEDRYAKVVVDLLPPRYRAFHPFPVGRLDKDAEGLLLLTNDGEL 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P ++Y G V + + ++GI++ ++T+ + G+ + V Sbjct: 125 AHRLLSPKKHVSKMYYAVVDGIVTETDVEAFRQGIILNDGYRTMPGELTIL-RSGTESEV 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EGK ++K++FE + +V L RI+ GP +L L G RE++++ + Sbjct: 184 ELTIYEGKYHQVKRMFEAVSKRVLYLKRIAMGPLRLDELLRPGEYRELTEEEI 236 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 91/246 (36%), Positives = 139/246 (56%), Gaps = 4/246 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N +R+ KV+A+AGIASRR E +I Q RVKVNG ++ V+STD I Sbjct: 1 MNRNNERGRPRQEERLQKVLAQAGIASRRHAEEIILQGRVKVNGEVIRTLGTKVVSTDRI 60 Query: 61 EVDGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 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 DTQKGSNA--WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 + KG + + + EG+NR+++++F+ + ++ L R+ +GP +L +L G+ R + Sbjct: 181 VSPKGRGSLPTYEITIHEGRNRQVRRMFKAVGFPLSTLKRLRFGPLELDPSLAPGAFRTL 240 Query: 237 SKKILR 242 SK ++ Sbjct: 241 SKTEIQ 246 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V S D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKSGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 239 SSSEAKPKAKAKPKTVGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 81/237 (34%), Positives = 129/237 (54%), Gaps = 3/237 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTV 191 + P + +VY R G V ++ L L +G+VI G + + + + V + Sbjct: 120 MIHPRNEIDKVYLARVKGVVTKESLRPLTRGVVIDGKKTKPARYRIIRVEPDKNRSIVEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG++ ++KK+FE V++L R +G + L G R +SKK + + Sbjct: 180 TIHEGRHHQVKKMFEVVGHLVDKLSRTQFGSLDVRGLKPGEARRLSKKEVSQLHHLA 236 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 84/249 (33%), Positives = 136/249 (54%), Gaps = 1/249 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR I++ FE +V RLIR + LG L G R + +++ L P Sbjct: 183 ISEGRNRVIRRAFEQLGHEVLRLIRTAVADLHLGNLREGDYRLLKGWEVQQLLTPRKRSG 242 Query: 253 AQVNLDAPI 261 +++ + Sbjct: 243 SKILPEKEK 251 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 109/230 (47%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I R +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRACINGEVCTH-GALVNEGDIVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++++ G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKSFTDWFIDMMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELE 223 >gi|222085015|ref|YP_002543544.1| pseudouridylate synthase [Agrobacterium radiobacter K84] gi|221722463|gb|ACM25619.1| pseudouridylate synthase [Agrobacterium radiobacter K84] Length = 680 Score = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 173/367 (47%), Positives = 227/367 (61%), Gaps = 26/367 (7%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+SKV+ARAG+ASRR++ERMI RV++NG+LL+ VNV D IEVDG+P+R Sbjct: 48 DGKAERISKVMARAGVASRRDIERMIMDGRVRLNGVLLDSPVVNVTLADKIEVDGMPIRG 107 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTNDGG Sbjct: 108 IERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGG 167 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LARVLELP+T WLR YRVR HG++DQD L+ LK+GI + G+ YG ++ TLD +GSN W+ Sbjct: 168 LARVLELPTTGWLRRYRVRAHGEIDQDALDKLKEGIAVDGVLYGSIEATLDRTQGSNVWI 227 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNREIK V +VNRLIRISYGPFQLG L G EV + LR+QLGP L Sbjct: 228 TMGLREGKNREIKNVLGALGLEVNRLIRISYGPFQLGDLPEGRVLEVRGRTLRDQLGPRL 287 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK---------- 299 +E+A+ N DAP+Y++ + + ++ +++ Sbjct: 288 VEDAKANFDAPLYNASAPAGEDEAEAKPERAAKEERPRRDRERPEDKRERALGRLDTKRD 347 Query: 300 ----------------KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 + P +NVWMA G + + +N R + Sbjct: 348 DRRDEGRREGGHKEDDRPKRPPLGARRNANVWMAPGARPLGEKAAAKAAKNTRTAAKRGE 407 Query: 344 KRSLRRT 350 +R+ Sbjct: 408 PERPQRS 414 Score = 39.8 bits (91), Expect = 0.63, Method: Composition-based stats. Identities = 14/108 (12%), Positives = 22/108 (20%), Gaps = 3/108 (2%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK---NGLSKQKKLA 302 P + + SE DRP D K + + Sbjct: 506 RPEGSDRPRAKSFQGEARSERPRGDRPFGDKPRGDRPYGDKPRGDRPYGDKPRGDRAFSD 565 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 P R + S +R R P + + Sbjct: 566 RPTGDRRPRAEGDERPRARSFDGEQRSERPRGDRPFGDRPPRGDRPQG 613 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 72/239 (30%), Positives = 122/239 (51%), Gaps = 4/239 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+IA +G+ SRR+ E I Q RVKV+G ++ V IEVDG + E Sbjct: 3 RLQKIIAASGLTSRRKAEEWILQGRVKVDGQVVTELGVKPRKGALIEVDGKAI-AREDKV 61 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP ++ T +D R TV D + + RV VGRLD +T G+L++TNDG A + Sbjct: 62 YYVMNKPKKVLCTLNDEHDRRTVVDLMMDVPQRVFPVGRLDYDTTGVLIMTNDGEFANEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWVTV 191 P +VY V +G + +++ L++G+V+ ++ + + + Sbjct: 122 IHPRYHIAKVYEVTINGILKTEEIKQLEQGVVLDDGIKTLPAKLWVTNKDFAHEQTMFEL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 ++EG+NR+IK++ E F ++V RL R S GP + L G R + +++ Sbjct: 182 TIQEGRNRQIKRMLEVFGYEVRRLHRRSLGPITVRGLNPGEYRLMKPFEVKQLRRLANE 240 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 82/352 (23%), Positives = 145/352 (41%), Gaps = 7/352 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 174 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 232 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 353 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 412 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS-EVPDDFTRMKKNSSQKNGLS 296 +R+ + L+ ++ R +P+ + + + + Sbjct: 413 DAQVRKLMATVGLKAPSEEKGKRGGAAGPTERRQPDPMQTSMGFISREPVLTTHGQLDQP 472 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 ++ S S + + +G + +R R+ Sbjct: 473 RRGGGRRGGPGLPGLSGYGSLPVAPSGYGNRAGGGRDGNRTGGGRDGNRAGG 524 >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 = 176 bits (447), Expect = 3e-42, Method: Composition-based stats. Identities = 64/227 (28%), Positives = 103/227 (45%), Gaps = 7/227 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++K I+ GI SRRE ++ I RV +NG++ + V S D + +DG PLR Sbjct: 2 DSISLNKYISETGICSRREADKFIEAGRVSLNGVVATK-GNRVASGDTVLLDGKPLRSNP 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +HKP GL T D T + R+ +GRLD ++EGL+ LTNDG + Sbjct: 61 KRIYLAFHKPKGLTCTTDLRD--RTNVIAYINHPQRIFPIGRLDKDSEGLIFLTNDGDIV 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V D + + GI I G ++ + + Sbjct: 119 NKILRSRNGHEKEYIVVVDKPFAPDFIRRMSNGIPILGTTTKKC----VVEQKGQSTFRI 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L +G NR+I+++ E+ ++V +L RI +L L G R S+ Sbjct: 175 ILTQGLNRQIRRMCEYMGYEVKKLKRIRIMSIKLDDLAPGKWRYFSE 221 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 65/270 (24%), Positives = 119/270 (44%), Gaps = 1/270 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R++K ++ +G+ SRR ++ IA RVKVNG ++ V+ TD + VD + Sbjct: 199 EAGEPIRLNKFLSNSGLCSRRMADQYIAAGRVKVNGAVISELGSQVLPTDQVMVDDKLVS 258 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + T R+ + + R+ +GRLD NT G+LLLTNDG Sbjct: 259 LEAKVYVLLNKPKNCVTTLTDPEGRRTVMDLVHNACTERIYPIGRLDRNTTGILLLTNDG 318 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P+ + ++Y V +V + + ++ G ++ ++ T + ++ Sbjct: 319 DLAVRLMHPAFRKKKIYEVALDKEVTVEHMQMIAHGFELEDGEIHADAISYITGQ-THDK 377 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + G+NR ++++FE ++V L R+ Y L G R ++ + +R Sbjct: 378 VGIEIHSGRNRIVRRIFEHLGYRVVHLDRVYYAGLTKKDLPRGRWRYLTPEEVRYLRMGV 437 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 +E + SE Sbjct: 438 KEQEDNGVAPTTKVYHKHQETPDHPFASEE 467 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 57/296 (19%), Positives = 113/296 (38%), Gaps = 5/296 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TNSSTRLNKYISESGICSRRDADRYIEQGHVFINGKRA-GIGDQVFAGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + +G + + +RV +GRLD +++G++ LTN G Sbjct: 62 RDADDLVLIALNKPVGIVSTTENGEKDNIVDYVNHSTRVFPIGRLDKDSQGIIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVNKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E F ++V +L R L L G R+++ L E Sbjct: 178 RITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGLPLGEWRDLTDDELIELFKAIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 ++ + ++S + ++ + Sbjct: 238 DSSSEAKPTKKAKPKAKPAAAKSPPNKGAKPAGKSSSADASSRKRFTQPGRKKKGR 293 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 HSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A ++ I + + + K+K Sbjct: 238 GSSSEAKPKAKAKPKTAGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 108/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GELVSDGDVVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 RILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 111/229 (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 KVYIALNKPEGYVSTVKDERGRKTILDIVKVN-ERIFPIGRLDYNTSGLIILTNDGDVYN 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|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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K ++ + P R++K ++ AG+ SRRE + I + VKVN +++ + D + Sbjct: 247 IKYKEVLADPNEPIRLNKFLSNAGVCSRREADEFIQKGAVKVNDVVVTELGTKITRQDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P++ + + L + T+ + + + + R+ VGRLD NT G Sbjct: 307 TFNEKPVQIESKVYIVLNKPKNCVTTSDDPQERLTVMDLVKNACQERIYPVGRLDRNTTG 366 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L PS + ++Y V V + + + G+ ++ ++ Sbjct: 367 VLLLTNDGDLASKLTHPSFKKKKIYHVWLDKNVAIEDMEKIANGLELEDGEIHADAISYA 426 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + G+NR ++++FE + V +L R+ + L G R ++++ Sbjct: 427 SED-DKSQVGIEIHSGRNRIVRRIFESLGYHVTKLDRVYFAGLTKKNLGRGKWRYLNERE 485 Query: 241 L 241 + Sbjct: 486 V 486 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 111/233 (47%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + +G+ SR +V++++ + +V VNG + A + +D I VDG L + Sbjct: 1 MRLDKFLVESGLGSRSQVKQLLKKGQVWVNGAAVTSAKTQINERSDQIVVDGQTLVYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLD++T GLLLLTN+G L+ Sbjct: 61 VYYLLNKPKGVISATEDDRHKTVLDLLDDTARQKEVFPVGRLDVDTHGLLLLTNNGQLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P +VY+ + G +DQ + +GI ++ Q+ + + + V Sbjct: 121 AMLSPKRHVAKVYQAQVAGLMDQADVERFAQGIELKDFTCQPAQLEILERDEGAKTSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R+S GP QL +L G R ++++ ++ Sbjct: 181 ITLSEGKFHQVKRMVLACGKEVTDLQRLSMGPLQLDPSLELGQWRRLTEEEMQ 233 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 72/230 (31%), Positives = 113/230 (49%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 KVYIALNKPEGYVSTVKDERGRKTILDIVKVN-ERIFPIGRLDYNTSGLILLTNDGDVYN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY G D++ GI I G + + V + Sbjct: 123 KIIHPREEIDKVYIAVIKGIPSHDEIKNFCNGIDIGGYVTSKASFEILEKLNDKCKVKII 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++++ E V L R+S G L T+ G R +++ ++ Sbjct: 183 IHEGKNRQVRRMCEKIGHPVIALKRVSVGKISLNTIKRGEWRYLNESEIK 232 >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 = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 110/232 (47%), Gaps = 8/232 (3%) 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 EENVYIAFNKPVGIVCTTDTKREKNNIIDYIKYPK-RIFPIGRLDKPSEGLILLTSDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + L ++ G+ I G + ++ Sbjct: 121 VNKILRARNNHEKEYIVRVDKPITNKFLEQMRAGVPILGTVTRKCE----VEQLDKMQFR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ E+ ++V +L RI L L G RE++ ++ Sbjct: 177 IVLTQGLNRQIRRMCEYLGYEVKKLKRIRIMNIHL-DLPIGKWRELTPNEMK 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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 60/269 (22%), Positives = 114/269 (42%), 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 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + ++L + +D + R+ +GRLD +EGL+ LT+ Sbjct: 58 ITERKTDFVYLAFNKPVGIVCTTDTRVEKDNIIDFIKYPKRIFPIGRLDKPSEGLIFLTD 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKG 184 DG + + S + Y V + Q + + GI ++ +K Sbjct: 118 DGDIVNKILRASNNHEKEYIVTVDKPISQTFIKRMAGGIYLEDLDKTTKKCT----VRKI 173 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + ++ L +G NR+I+++ E+ ++V L R+ +L + G RE + + L+ Sbjct: 174 DSQTFSIILTQGLNRQIRRMCEYLTYEVTSLKRVRIMNIKL-DVPIGEYREFTAEELKTL 232 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 + + P + R + N Sbjct: 233 NMLLEDSDKNYSETTPAKKVHKINRRKTN 261 >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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 107/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV ++G + V D I +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAIDGEICTH-GALVSDGDVITIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----GQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELHELEVGKWRSVTAEELE 223 >gi|295692648|ref|YP_003601258.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|295030754|emb|CBL50233.1| Pseudouridine synthase [Lactobacillus crispatus ST1] Length = 236 Score = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 104/234 (44%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + + Sbjct: 1 MRIDKYLANMNVGSRKEVHQLIKKGVVAVNGKTVKTLKEKINENDVVTVNGEEIAYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T +L + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLVNKPKGVLSATEDRNQKTVISLLDLQDQYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWVT 190 L P+ +VYR + G D++ G+++ G ++ + Q N + + Sbjct: 121 LLAPNKHVAKVYRAQIAGVADEETAKAFASGMMLGDGTKLKPAKLKILKQDRENATSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK +IK++F KV L R+S G L L G E+S ++ Sbjct: 181 IEISEGKYYQIKRMFGAVGMKVTALDRLSMGNLHLPSDLKRGKYVELSLDEIKN 234 >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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 111/234 (47%), Gaps = 7/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R ++I Q V V+GI++++ A ++ +E DGV L +R Sbjct: 1 MRLDKFLCDCSDLTRSLAGKLIRQGEVTVDGIVVKQPAFHINEQSQVEFDGVMLTLDQRN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V ++ DPD + F ++ VGRLD++T GL+L+T+DG + Sbjct: 61 RYFMLHKPEGYVCSNEDPDHPTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V V QD ++L G+ ++ Q+ + + + Sbjct: 121 ITSPRHECAKTYHVWLADPVHQDAISLFADGVFLRNETEKTRPAQLEIL----AECEARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQ 244 + EGK ++K++F KV L R G L L G RE++ + + + Sbjct: 177 TIHEGKYHQVKRMFASIGNKVVGLHREQIGTLALDEALAPGEYRELTAEEIAQF 230 >gi|291531258|emb|CBK96843.1| ribosomal large subunit pseudouridine synthase B [Eubacterium siraeum 70/3] Length = 251 Score = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 118/233 (50%), Gaps = 3/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL-RK 69 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + Sbjct: 2 EKVRLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPV-SLGDKADPKNDIVTVNGEKIASL 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|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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 64/245 (26%), Positives = 111/245 (45%), Gaps = 5/245 (2%) Query: 1 MKDKNIVQENF----TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK + E P R++K +A AG+ SRRE + I V VNG ++ V+ Sbjct: 240 MKKRIEYSEENIDPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVTELGTKVLR 299 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 TD ++ P+ ++ + L + T+ ++ + + R+ VGRLD Sbjct: 300 TDEVKFHDNPVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDR 359 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT G+LLLTNDG +A L P +VY V V L + +G+ ++ Sbjct: 360 NTTGVLLLTNDGDMASKLTHPKFLKKKVYHVHLDKNVTAHDLEQIAQGVTLEDGEIHADA 419 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + V + + GKNR ++++FE ++V +L R+ + L G R + Sbjct: 420 VEYADEH-DKSQVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFL 478 Query: 237 SKKIL 241 ++K + Sbjct: 479 TEKEV 483 >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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 58/293 (19%), Positives = 115/293 (39%), Gaps = 5/293 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TNSSTRLNKYISESGICSRRDADRYIEQGNVFINGKRASV-GAQVFAGDEVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + +G + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDEEDLVLIALNKPVGIITTMEEGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ + G +K S Sbjct: 122 LVNKILRAGNNHEKEYVVTVDKPITDEFITGMGAGVPMLGTV----TKKCKVKKESTFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 178 RITLVQGLNRQIRRMTKHFGYEVTKLERTRIMNVNLKGLPLGEWRDLTDDELIELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ + T + ++ + + + ++KK Sbjct: 238 NSSSEDKPAKKGQAKTTPAKKPAASGAKTSEKPNANPASRKRFTQPGRKKKGR 290 >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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 91/354 (25%), Positives = 140/354 (39%), Gaps = 15/354 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATP-----VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + + P R + + S P Sbjct: 302 PATGDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 355 >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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 63/302 (20%), Positives = 118/302 (39%), Gaps = 13/302 (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 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ VGRLD +++GL+ LTN G Sbjct: 80 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPVGRLDKDSQGLIFLTNHGD 139 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V V + + + G+ I G +K + Sbjct: 140 LVNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 195 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E F + V +L R L + G R+++ L + Sbjct: 196 RITLVQGLNRQIRRMCEHFGYDVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 255 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 ++ + + ++K++ + S K+ +P ++ Sbjct: 256 RSSSEAK--------TKTKATPKPKTAGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKK 307 Query: 310 LA 311 Sbjct: 308 GR 309 >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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) 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 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPTSSGKRFTSPGRKKKGR 289 >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 = 176 bits (446), Expect = 4e-42, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 107/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R ++ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELGVGKWRNIATEELE 223 >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 = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 64/245 (26%), Positives = 111/245 (45%), Gaps = 5/245 (2%) Query: 1 MKDKNIVQENF----TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK + E P R++K +A AG+ SRRE + I V VNG ++ V+ Sbjct: 240 MKKRIEYSEENIDPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVTELGTKVLR 299 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 TD ++ P+ ++ + L + T+ ++ + + R+ VGRLD Sbjct: 300 TDEVKFHDNPVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDR 359 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT G+LLLTNDG +A L P +VY V V L + +G+ ++ Sbjct: 360 NTTGVLLLTNDGDMASKLTHPKFLKKKVYHVHLDKNVTAHDLEQIAQGVTLEDGEIHADA 419 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + V + + GKNR ++++FE ++V +L R+ + L G R + Sbjct: 420 VEYADEH-DKSQVGIEIHSGKNRIVRRIFESLGYRVTKLDRVQFAGLTKKNLRRGDWRFL 478 Query: 237 SKKIL 241 ++K + Sbjct: 479 TEKEV 483 >gi|188996649|ref|YP_001930900.1| pseudouridine synthase [Sulfurihydrogenibium sp. YO3AOP1] gi|188931716|gb|ACD66346.1| pseudouridine synthase [Sulfurihydrogenibium sp. YO3AOP1] Length = 244 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 68/242 (28%), Positives = 121/242 (50%), Gaps = 4/242 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K IA++GI SRR+ + +I + +VKVNG +++ + D +EV+G ++ E+ Sbjct: 3 VRLNKYIAQSGICSRRKADELIKEGKVKVNGEIIKDLGAKINPEKDIVEVEGNIIKPVEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP+G ++ +L +I + VGRLD N+EGLL+LTNDG Sbjct: 63 KIYIKIYKPVGYLSAVGKDKFGRKTLTDLLKELNIKENLFPVGRLDYNSEGLLILTNDGE 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + +VY V +VD++ LN +KKG +++ + +V + + W+ Sbjct: 123 FANKIAHPKHKIKKVYHVEVVPKVDEETLNQMKKGAILEDGFFKPDKVEILKHTKDSTWL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + GK R +++ FN KV RL+R+ + L + ++ K +R Sbjct: 183 LFEIHSGKKRILRRYVSKFNHKVKRLVRVKIDSISIENLKPHQFKHLTDKEVRSIYERDS 242 Query: 250 LE 251 E Sbjct: 243 AE 244 >gi|327462777|gb|EGF09099.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1057] Length = 242 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEASLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ GP QL + L G R +++ + Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDSALALGEWRRLTEAEI 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 = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 62/299 (20%), Positives = 112/299 (37%), Gaps = 13/299 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRRE +R I Q V +NG VM D ++V+G + E Sbjct: 6 SIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVMPGDVVKVNGRLIEPREA 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + D + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EELVFIALNKPVGIVSTTEDSERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + + G+ I G +K + + Sbjct: 125 KILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E+F ++V +L R L L G R+++ L Sbjct: 181 LIQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLAGLPPGEWRDLTDDELITLFKLIENSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 ++ A + P K + + K+ +P ++ Sbjct: 241 SEAKPKAKAKPKT--------AGIKRPVVKIEKPKEKEKARPAANGKRFTSPGRKKKGR 291 >gi|330889215|gb|EGH21876.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. mori str. 301020] Length = 396 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 90/355 (25%), Positives = 142/355 (40%), Gaps = 10/355 (2%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + P + + + P+ + R Sbjct: 302 PATGDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPAETNSRGTP 356 >gi|332993044|gb|AEF03099.1| RNA pseudouridine synthase family protein [Alteromonas sp. SN2] Length = 246 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 62/247 (25%), Positives = 110/247 (44%), Gaps = 11/247 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +R++K I+ G+ SRRE +++I Q RV +N L V D ++VDG ++ Sbjct: 6 TKRLNKYISDTGLCSRREADKLIEQNRVTINDKLP-ELGTKVAQGDKVKVDGKLVKAVAE 64 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +Y+KPIG+ T + + R+ VGRLD +EGL++LT+DG Sbjct: 65 DKSDRIYLVYNKPIGITCTTERHVKGNIIDAI--KHKQRIFPVGRLDKPSEGLIILTSDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + + + + KG+ I G +V Sbjct: 123 DIVNKILRAENSHDKEYEVTVNQPISERFVQKMAKGVPILGTVTKPCKVNA----RGKFQ 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 ++ L +G NR+I+++ EF ++V +L R +LG L G R +++K L + Sbjct: 179 FSIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELGNLKPGQWRNLTEKELNQLNNAV 238 Query: 249 LLEEAQV 255 Sbjct: 239 QQSSKTA 245 >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 = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 59/251 (23%), Positives = 111/251 (44%), Gaps = 8/251 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-R 68 R++K ++ G SRR +++I Q RV +NG + ++S D + VDG + Sbjct: 2 TQKETRINKYLSEVGYCSRRAADKLIDQGRVTINGKVP-EMGTKIISGDEVRVDGELISE 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E+ ++KPIG+V T + + D + R+ +GRLD ++GL+ LTNDG Sbjct: 61 PKEKPVYLAFNKPIGIVCTTDTRVEKDNIIDFINYPK-RIFPIGRLDKPSQGLIFLTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V +++ L+ + G+ I ++T + + Sbjct: 120 DIVNKILRARNHHEKEYLVTVDKPINKKFLDQMASGVPILDTVTRKCEIT----EVNKYQ 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E+ + V +L RI +L + G R ++ L+E Sbjct: 176 FKIILTQGLNRQIRRMCEYLGYNVKKLKRIRIMNVKL-DMPIGKWRNLTNSELQEINRLV 234 Query: 249 LLEEAQVNLDA 259 N Sbjct: 235 SGSSKTHNKIK 245 >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 = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 125/242 (51%), Gaps = 4/242 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K IA GIASRR+ E +I + +V+VNG + V + D ++V+G L + + Sbjct: 2 ERLQKYIASCGIASRRKAEELITEGKVQVNGRKVTELGVKINPQKDKVKVNGQLLAQEKP 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + + D + + R+ VGRLD+ TEGLLLLTNDG LA+ Sbjct: 62 VYYLLNKPKGVITSVSDPQGRETVL-DYIKNESKRIYPVGRLDLYTEGLLLLTNDGELAQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L PS + Y VR G+V + L ++ G+ ++ + N V Sbjct: 121 NLTHPSKGVEKTYEVRIKGRVRDEDLQVIANGVKLEDGMTAPATIVDLGFDDHNGVHEVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+NR+++++FE F ++++ L RI+Y LG + G++R+++ + ++ Sbjct: 181 ITIHEGRNRQVRRMFEHFGYRIHNLKRIAYAGLTLGGVKRGASRQLTIREVKALKALETG 240 Query: 251 EE 252 ++ Sbjct: 241 KK 242 >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 = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 108/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GELVSDGDVVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKVSEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + + Sbjct: 118 RILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >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 = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 108/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQLHNEKSLTKPAQLEVIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G +L L G R ++ + + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVLELHRERIGAIKLDDDLAPGEYRPLTPEEIASVGAPH 234 >gi|16801498|ref|NP_471766.1| hypothetical protein lin2436 [Listeria innocua Clip11262] gi|16414958|emb|CAC97663.1| lin2436 [Listeria innocua Clip11262] Length = 233 Score = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVIYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNLSETVIDLLEQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + G+ + + + T + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDDSLELGEYRPLTENEL 227 >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 = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 72/232 (31%), Positives = 119/232 (51%), Gaps = 3/232 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ KV+A AG+ASRR+ E++I + V+VNG ++++ V + D IEVDGVPL++ + Sbjct: 2 EEERLQKVMAEAGVASRRKSEKLITEGHVRVNGKVIKQLGTKVTAHDKIEVDGVPLQREK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + D R TV D P + R+ VGRLD +T G +L+TNDG LA Sbjct: 62 MVYFLLNKPRGVITSVS-DDKKRKTVMDFFPDVVERIYPVGRLDYDTSGAVLMTNDGTLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWV 189 L P ++ + Y + G V+ L L+ G+VI + L + + V Sbjct: 121 NGLTHPKFKFEKTYTAKVKGIVNSLDLKKLENGLVIDHKKTAKAKAHLISTDDEKKTSIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++ + EG+N ++K +F V +L R SY + + +G R + + Sbjct: 181 SLTIHEGRNHQVKNMFMAVGHPVQKLRRDSYSFLNIDGVQSGKWRALKVNEI 232 >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 = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 65/240 (27%), Positives = 111/240 (46%), Gaps = 10/240 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ K++ G SR ++++ + Q + VNG ++ + + V D IEV+G + Sbjct: 7 QTQRLDKILTHMGYGSRSDIKKQVKQGMITVNGRTIKDSGLQVHPYQDQIEVNGELVVFR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + L+ P + T + + VGRLD +TEGLLLLTNDG L Sbjct: 67 EFIYIMLHKPPGVISATEDTRERTVLDLLSAEERHFEPFPVGRLDKDTEGLLLLTNDGKL 126 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN--- 186 A L P + Y G V ++ + G+ + Q+T+ + + Sbjct: 127 AHELLSPRRHVPKTYEATVSGHVTEEDILQFTAGVELDDGYVTLPAQLTILRHEQPHQAD 186 Query: 187 ----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +++++ + EGK ++K++FE KV L R + GP +L L GS RE++ + L Sbjct: 187 GEVTSYISLVIHEGKFHQVKRMFEAIGKKVTYLKRTAMGPLKLDDQLPLGSYRELTSEEL 246 >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 = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 57/293 (19%), Positives = 119/293 (40%), Gaps = 5/293 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + + Sbjct: 16 STRLNKYISESGICSRREADRYIEQGLVLINGKRA-SIGDQVFAGDEVKVNGRLIEAQDN 74 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L L + + DG + + +R+ +GRLD +++GL+ LTN G L Sbjct: 75 SELVLIALNKPVGIVSTTDDGEKDNIVDYVNHSTRIFPIGRLDKDSQGLIFLTNHGDLVN 134 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + ++ + G+ I G +K + + Sbjct: 135 KILRAGNDHEKEYLVTVNKPITDEFIHGMGAGVPIMGQK----TKKCKVKKEAPMVFRIT 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 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 ++ A + + + + ++ + ++ + Sbjct: 251 SEAPPKAKQNKPKKQISSNAKALGIHIPQTKTKETENNSRKRFAQPGRKKKKR 303 >gi|158520075|ref|YP_001527945.1| pseudouridine synthase [Desulfococcus oleovorans Hxd3] gi|158508901|gb|ABW65868.1| pseudouridine synthase [Desulfococcus oleovorans Hxd3] Length = 241 Score = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 73/233 (31%), Positives = 113/233 (48%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ AG+ SRR E IA+ RV VNG ++ V D + DG + AE Sbjct: 10 IRLQKFLSGAGVCSRRRAEVYIAEGRVAVNGQVVTELGTKVDPESDDVMFDGHRVTLAES 69 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G VT+ + + L ++ RV VGRLD + GLLL+T+DGGL + Sbjct: 70 HVYIALNKPPGYVTSCLQKQETTVME--LVAVDQRVFPVGRLDKPSCGLLLMTSDGGLHQ 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y V V L+ +++G+VI G +V S+ + Sbjct: 128 RLSHPSFDHEKEYDVACDRPVSDADLDAMRRGMVITGRKTRPAKVKRL----SDRRFLII 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L+EG+NR+I+++ E +V L RI LG L G R ++++ + L Sbjct: 184 LQEGRNRQIRRMAEMLGNRVVLLRRIRIAHIHLGDLAEGRWRYLTEEEKKALL 236 >gi|291558038|emb|CBL35155.1| ribosomal large subunit pseudouridine synthase B [Eubacterium siraeum V10Sc8a] Length = 251 Score = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 119/233 (51%), Gaps = 3/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + + Sbjct: 2 EKVRLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPV-SLGDKADPKNDIVTVNGEKIASS 60 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 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|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 = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 52/230 (22%), Positives = 99/230 (43%), 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 MRLDKYLCDALGATRKEATKIIKSGDVTVNDIVQKSGAVKVTDDCIVEWQGREIQKPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGFVCSHEDGFNQ-TAFMLLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 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|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 = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 126/238 (52%), Positives = 167/238 (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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 TVGLREGKNREI++ E+ +VNRLIR SYGPF+L L G E+ K +++QLG Sbjct: 182 TVGLREGKNREIRRAMEYVGLRVNRLIRTSYGPFKLDDLKPGDVEEIKAKTIKDQLGL 239 >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 = 176 bits (445), Expect = 5e-42, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 124/240 (51%), Gaps = 7/240 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G + Sbjct: 2 SSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNPL 60 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 K L + + + H ++ + R + VGRLD+NT GLL+ TN Sbjct: 61 KGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+N Sbjct: 121 NGELANQLMHPKYGLEREYAVRVHGQVSQEALNNLLKGVMLDDGLAKFTKIQFRGGEGTN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 +W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E L Sbjct: 181 SWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLAMPRFLSRGQFYELTPKEVTEFL 240 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDQHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P + YR + G + Q + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKTYRAQVAGLMKQADVERFAAGIELKDFTCQPAQLKILELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ GP QL L G R ++++ + Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLAMGPLQLDPALALGEWRRLTEEEI 232 >gi|222110298|ref|YP_002552562.1| pseudouridine synthase [Acidovorax ebreus TPSY] gi|221729742|gb|ACM32562.1| pseudouridine synthase [Acidovorax ebreus TPSY] Length = 435 Score = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 80/338 (23%), Positives = 135/338 (39%), Gaps = 8/338 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D I+V+ Sbjct: 101 KRVLLPQPETPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQIKVN 159 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 160 GKPIRFRIAPPPVRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTE 219 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y R G + ++ L +G+ ++ V Sbjct: 220 GLLLFTSSGELANKLMHPRFGLEREYAARVLGALSTEEKQRLLEGVPLEDGMASFGSVED 279 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 280 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLELDE 339 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + +R + A S + + + S P + ++ + Sbjct: 340 RDIRALMQAAGATLDG--GGARPTSGQGRGGRKGDRRSAGPGKASGSGRDKTGGRAGRSP 397 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 A P + + + R Sbjct: 398 SPNAQPDPMKTSLGYIGADSFSRHRQQQRNNGPRRGGR 435 >gi|218674407|ref|ZP_03524076.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium etli GR56] Length = 277 Score = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 147/230 (63%), Positives = 176/230 (76%) 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + Sbjct: 228 TMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGR 277 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 92/342 (26%), Positives = 150/342 (43%), Gaps = 13/342 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----- 67 +++ KV+AR G+ SRRE++ +IA RV+VNG + V +++DG + Sbjct: 2 SEKLQKVLARQGLGSRRELDALIAAGRVEVNGKVAAV-GDRVEGPLTVKIDGKVVLTPLS 60 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K + L Y + T D + 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 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +G LE +++ + S + +K + + ++ + Sbjct: 241 AVGLKALESSEIARTSLASMSNDKKHALEKFAKHKANIKAAGRKALNASHNPFRKGRADD 300 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + + G S R++N R + F Sbjct: 301 KDRNPYGSRSGKYVYG---DAKRSSYGRKDNGRFAKRFSKND 339 >gi|325686573|gb|EGD28599.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK72] Length = 242 Score = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + P ++YR + G ++Q + GI ++ + + ++ ++ V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEDSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALALGEWRRLTTDELE 233 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 104/235 (44%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L + Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T D + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRDETVIDLLTDQDYRVDLFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL--DTQKGSNAWV 189 L P + Y G V + L +G + G ++ + ++ + V Sbjct: 121 QLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTSVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ V L R+ G L L G R +++ L++ Sbjct: 181 RLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAELQQ 235 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 105/235 (44%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L + Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T D + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL--DTQKGSNAWV 189 L P + Y G V + L +G + G ++ + ++ + V Sbjct: 121 QLLSPKKHVDKEYLAEVEGLVTVEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTSVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ V L R+ G L L G R +++ L++ Sbjct: 181 RLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAELQQ 235 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 71/337 (21%), Positives = 128/337 (37%), Gaps = 19/337 (5%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N + R++K I+ +GI SRR+ +R I Q V +NG V++ D ++V+G + Sbjct: 3 NASSTRLNKYISESGICSRRDADRFIEQGNVYLNGKRAAV-GDQVVAGDTVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + + + R+ +GRLD +++GL+ LTN+G Sbjct: 62 KEADDFVFIVLNKPVGIVSTTESSEKNNIVDFVRHSVRIFPIGRLDKDSQGLIFLTNNGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + L G+ + G VT K + Sbjct: 122 LVNKVLRAGNNHEKDYVVTVNKPITDSFIEGLAGGVPMLGKMTKKCPVT----KVAPNVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E F ++V +L R L G R+++ + L L Sbjct: 178 NITLVQGLNRQIRRMCEHFGYEVVKLERTRIMNVSLKGTPVGDWRDLTPQELSVLL---- 233 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + D+ SS + R D + K SS+ G +K R Sbjct: 234 ----KSIEDSSSESSTPAKKSRNTPRKNARTDTSEKPKVSSKPKGAAKGNAKHPKDGARK 289 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 A + + S ++ + P+ KR Sbjct: 290 PAGSKGK------DWRPFSDGKKSGGKGKPATNGKRP 320 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 111/234 (47%), Gaps = 8/234 (3%) 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-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +HKP+G+ T + + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAKHIEGNIIAYI--NYPERIFPVGRLDKASEGLILLTNDGKIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V ++ + G+ I+ +VT ++ + Sbjct: 118 QILHGDHGHEKEYVVTVDKSFTDGFIHGMSCGVKIKDGMTKPCKVTRV----DDSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ +LG L G R ++ + L+E G Sbjct: 174 LTQGMNRQIRRMSRAFGYTVTKLKRVRIMNIKLGELEVGKWRYLTDEELQELRG 227 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 65/245 (26%), Positives = 112/245 (45%), Gaps = 7/245 (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 + + + I GRLD ++EGLLL+TN+G Sbjct: 61 GNEMVLLAVNKPAGIVCTEEKKEKHNIIRFLNYPTRITYI--GRLDKDSEGLLLMTNNGD 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y+V + V ++ + + +G+ I +V Sbjct: 119 IINKMMRAGNRHEKEYKVTVNKPVTREFIEKMGQGVPILDTVTRPCKVKAI----GKYKF 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F +KV RL R+ QLG+L G REV+ +RE Sbjct: 175 NIVLTQGLNRQIRRMCEYFGYKVTRLERVRVMNIQLGSLKPGEYREVTDDEIRELYELIK 234 Query: 250 LEEAQ 254 + Sbjct: 235 DSSNE 239 >gi|167587342|ref|ZP_02379730.1| pseudouridine synthase [Burkholderia ubonensis Bu] Length = 389 Score = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 77/320 (24%), Positives = 131/320 (40%), Gaps = 6/320 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 66 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 124 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 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+ + R + + + + + Sbjct: 305 DAQVRKLMATVGLKAPSEEKGKRGSGGQAERRQPDPMQTSMGFIGREPVLTTHGNLEQPR 364 Query: 298 QKKLATPVHRRNLASNVWMA 317 + S Sbjct: 365 RGPRRGAAGGFAGPSGFGGG 384 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 91/343 (26%), Positives = 149/343 (43%), Gaps = 8/343 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEGLIKSGRVSVNGQVAKLGERLEDENSVIRIDGHTITGKAS 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G +E+ + + L Sbjct: 182 TFYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWKELDLQEV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + + T + + ++ R ++ ++ G S Q K P Sbjct: 241 ELVELQPEKETLLDLDPANTSRKRERSRSQKIRRAVKRHEERANAPKGRSNQTKRKKPAT 300 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 R + + ++ + ++ + + P+ P+K R+ Sbjct: 301 RGTTTPDSGRSAPA-TNGKPQATKKPKLNNGRPAKPAKPRSRK 342 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 77/247 (31%), Positives = 127/247 (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--QGICY---GDMQVTL 179 TNDG A+ L P + + Y V+ G + L L+ G+ + + 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|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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >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 = 176 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 92/249 (36%), Positives = 131/249 (52%), Gaps = 1/249 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 T R+ KV+A+AGIASRR E +I Q RV VNGI++ V V D I VD V + Sbjct: 2 TKVRLQKVLAQAGIASRRGAEEVIRQGRVVVNGIVVTELGVKVDPHADRITVDRVTIAMV 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L KP VTT DP GR TVFD +P +R+ VGRLD + EGLLLLTNDG L Sbjct: 62 ESRVYLLLFKPRCCVTTARDPQGRKTVFDFVPDAGARLFPVGRLDFDAEGLLLLTNDGLL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L+ P + Y V G L+ L+ G++++ +VT+ + + Sbjct: 122 ANRLQHPRYGVTKTYEVAAMGHPTPAALDRLRTGVMLEEGMTAPAEVTVIGSSPRSTRLR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+IK++ E V + R+++GP +LG+L G +R + + L Sbjct: 182 IVLHQGWNRQIKRMGEAVGHPVLSIKRVAFGPLKLGSLKPGGSRHLKSGEVELLYKLVHL 241 Query: 251 EEAQVNLDA 259 ++ Q N D Sbjct: 242 DKEQRNADG 250 >gi|318606383|emb|CBY27881.1| ribosomal small subunit pseudouridine synthase A [Yersinia enterocolitica subsp. palearctica Y11] Length = 235 Score = 176 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 108/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEQPIADDTAQQFTDGVQLHNEKSLTKPAQLEVIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G +L L G R ++ + + PH Sbjct: 177 TISEGRYHQVKRMFAAAGNRVLELHRERIGDIKLDDDLAPGEYRPLTPEEIASVGAPH 234 >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 = 176 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 105/235 (44%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L + Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T D + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL--DTQKGSNAWV 189 L P + Y G V + L +G + G ++ + ++ + V Sbjct: 121 QLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTSVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ V L R+ G L L G R +++ L++ Sbjct: 181 RLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAELQQ 235 >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 = 176 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 72/232 (31%), Positives = 129/232 (55%), Gaps = 3/232 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-A 70 R++K +A G+ SRRE++++I + +++VNG ++ A V V D IEV G + K Sbjct: 2 EEIRINKYLASLGVGSRREIDKLIEEGKIRVNGEVI-SAGVKVTDKDIIEVKGKKISKDI 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ ++ +KP+ ++++ D GR TV D + R+ +GRLD NT GL+LLTNDG L Sbjct: 61 EKKVYYMLNKPLEVLSSAKDDRGRKTVVDIVKC-KERIFPIGRLDYNTTGLILLTNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P ++ + Y V+ G++ + L+ G+ ++ V L +++ + + Sbjct: 120 FNRVIHPRSEVYKEYYVKVLGEIKDSSIKKLEDGVELEDGITLPAYVKLISRERGKSELM 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V +REG+NR+++++ E N V L R G LG L G RE+++ ++ Sbjct: 180 VSIREGRNRQVRRMLEAVNTPVLVLRRERIGKLSLGKLKVGEYRELTESEVK 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 = 176 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 60/301 (19%), Positives = 114/301 (37%), Gaps = 13/301 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSTRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGRLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + R+ +GRLD +++GL+ LTN G L Sbjct: 63 EADDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 ++ + +M+ ++ + K+ P ++ Sbjct: 239 SSSEAK--------PKARPKAKAATPGIKRPVVKMENSNDKGRPAGNGKRFTQPGRKKKG 290 Query: 311 A 311 Sbjct: 291 R 291 >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 = 176 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 105/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V +NG + + A V D I DG L E Sbjct: 1 MRLDKFLAETTGLTRSQAAKVLRQSAVTINGKIEKSGAAKVSPDDEIYYDGERLTWVENG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + HKP G + +H D D + + + + S GRLD++T GL+LLT+DG + Sbjct: 61 QYIMLHKPQGYICSHEDGDHPTIYQFFDYPLSTCLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + Y V V+ + +GI+++G ++ + + V + Sbjct: 121 ITSPKHHYPKTYLVTLADPVEANYAQACAEGILLRGEKEPTKPAELEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGNLVLDDDLGEGEFRPLTEEEI 227 >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 = 176 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 108/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I R +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRACINGEVCTH-GALVNEGDIVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEDNIIDYI--DYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVAVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRVNQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELE 223 >gi|257083600|ref|ZP_05577961.1| pseudouridine synthase [Enterococcus faecalis Fly1] gi|256991630|gb|EEU78932.1| pseudouridine synthase [Enterococcus faecalis Fly1] Length = 244 Score = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 105/235 (44%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L + Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T D + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTL--DTQKGSNAWV 189 L P + Y G V + L +G ++ ++ + ++ + V Sbjct: 121 QLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEVVKPSRLVIETINEEEGTSVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ V L R+ G L L G R +++ L++ Sbjct: 181 RLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRPLTEAELQQ 235 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 81/349 (23%), Positives = 140/349 (40%), Gaps = 7/349 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 31 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 89 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 210 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 269 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ S R + + + + + + Sbjct: 270 EAQVRKLMATVGLKAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQPR 329 Query: 298 QKKLATPVHRRNLASNVWMAK-GIHSSFLSDSGQREENHRRSPSFPSKR 345 + S G R+ + R+ + Sbjct: 330 RGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPK 378 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 111/231 (48%), Gaps = 8/231 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKA 70 R++K ++ G SRR ++++ + R+K+NG + V D +EVDG P+ Sbjct: 2 EKTRINKYLSEVGYCSRRAADKLLEEGRIKINGKIP-ELGTKVSDEDLVEVDGKPIREPQ 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ +++KP+G+V T ++ + D + R+ +GRLD +EGL+LLT+DG + Sbjct: 61 EKPVYIVFNKPVGIVCTTDTKREKNNIVDYINHPK-RIFPIGRLDKPSEGLILLTSDGDI 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y VR + L ++ G+ I + +K Sbjct: 120 VNKILRARNNHEKEYLVRVDKPITPKFLEKMRNGVPILDTITRKCK----VEKIDEMNFR 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ E+ ++V +L RI +L L G R+++ L Sbjct: 176 IILTQGLNRQIRRMCEYLGYEVKKLKRIRIMNIKL-DLPVGKWRDLTDDEL 225 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 71/320 (22%), Positives = 131/320 (40%), Gaps = 10/320 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M +K I + T R++K ++ AG+ SRRE +++ RV V G + + + + Sbjct: 1 MDEKRITTD-QTTIRINKYLSAAGVCSRREADQLTDAGRVTVAGKEIGT-GERIPADAEV 58 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG P++ R L L++KP G+V + +TV + L RV VGRLD ++EG Sbjct: 59 FLDGRPVKAETRQVLLLFYKPRGIVCSTKKQRQETTVTEFLDY-PVRVYPVGRLDKDSEG 117 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTN G L + + Y V ++ + + + G+ I G Sbjct: 118 LLLLTNQGDLVNRIMRAGNYHEKEYEVTVDKKITETFIRKMSSGVPILGTVTRPCT---V 174 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + G + ++ L +G NR+I+++ E+ + V L RI L L G RE+ Sbjct: 175 YKTGDKS-FSIILTQGLNRQIRRMCEYLGYHVCTLKRIRIMNLTLDGLKCGEYREICGDE 233 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT---RMKKNSSQKNGLSK 297 ++ ++ + + R +E + ++ + + Sbjct: 234 WKKLNELIRDSSSETVIRTGGQHGKISGRTNKRTGAEAERSGKGILSGRPGDHEQQRVRR 293 Query: 298 QKKLATPVHRRNLASNVWMA 317 + +RN + Sbjct: 294 TVRSTGKNGKRNRNRSGRQP 313 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 81/349 (23%), Positives = 140/349 (40%), Gaps = 7/349 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 31 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRI 89 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 210 DGGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPIPLPRGLKRGRWEELD 269 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + +R+ + L+ S R + + + + + + Sbjct: 270 EAQVRKLMATVGLKAPSEEKGKRGGSGPAERRQPDPMQTSMGFISREPVLTTHGQLDQPR 329 Query: 298 QKKLATPVHRRNLASNVWMAK-GIHSSFLSDSGQREENHRRSPSFPSKR 345 + S G R+ + R+ + Sbjct: 330 RGGGRRGGPGLPGLSGYGSLPVSPSGHGNRSGGGRDVDGNRASYGAGPK 378 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 106/231 (45%), Positives = 151/231 (65%), Gaps = 2/231 (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 + N + I GI Y + L Q +N+W V L Sbjct: 122 EMPSSKLKRVYNVRAYGNANFLLKNN-YNNLKIDGIFYNPYSIKLLRQNKNNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNREI+++FE+F KVN+LIR+ YG ++G L G +E+S KIL++ + Sbjct: 181 EGKNREIRRIFEYFGLKVNKLIRVQYGALKIGNLKPGDYKEISNKILKKII 231 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 82/360 (22%), Positives = 132/360 (36%), Gaps = 11/360 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ KV+A AGI SRRE+E +I RV VNG V D + V+G Sbjct: 115 KYLNSEAVMPKLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVNG 173 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P+ K + + +V+ S + +SVGRLD+NTEG Sbjct: 174 KPIARPNAKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEG 233 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A + P R Y VR G++D + L +GI ++ Sbjct: 234 LLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEYL 293 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 GSN W V L+EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 294 GGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDIVLPRNLRRGRWEELDGS 353 Query: 240 -----ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 +++ L E S ++ + + + R+ + + G Sbjct: 354 LVTALMVQLGLLRDGDESEGRRKSRQPQSHDSALPPGFGTLERNGMNGARIGRRGKLQGG 413 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 H + R + + +R +K Sbjct: 414 RPGSAAACPSDPFGTGLMITGGYANGHPLGNDSAAGRGGKGKPAKGKAGGDKPQRGQGRK 473 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 82/360 (22%), Positives = 132/360 (36%), Gaps = 11/360 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ KV+A AGI SRRE+E +I RV VNG V D + V+G Sbjct: 115 KYLNSEAVMPKLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVNG 173 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P+ K + + +V+ S + +SVGRLD+NTEG Sbjct: 174 KPIARPNAKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEG 233 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A + P R Y VR G++D + L +GI ++ Sbjct: 234 LLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEYL 293 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 GSN W V L+EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 294 GGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDIVLPRNLRRGRWEELDGS 353 Query: 240 -----ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 +++ L E S ++ + + + R+ + + G Sbjct: 354 LVTALMVQLGLLRDGDESEGRRKSRQPQSHDSALPPGFGTLERNGMNGARIGRRGKLQGG 413 Query: 295 LSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 H + R + + +R +K Sbjct: 414 RPGSAAACPSDPFGTGLMITGGYANGHPLGNDSAAGRGGKGKPAKGKAGGDKPQRGQGRK 473 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 91/354 (25%), Positives = 140/354 (39%), Gaps = 15/354 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATP-----VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + + P R + + S P Sbjct: 302 PATGDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 355 >gi|332346017|gb|AEE59351.1| 23S rRNA pseudouridylate synthase F YjbC [Escherichia coli UMNK88] Length = 277 Score = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 58/276 (21%), Positives = 107/276 (38%), Gaps = 5/276 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 ++ A ++ + + Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKNGGKRRSPG 274 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 56/238 (23%), Positives = 109/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D +G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAQQFTEGVQLHNEKSLTKPAQLEVIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 L EG+ ++K++F +V L R G +L L G R ++ + + PH Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVVELHRERIGDIKLDDDLAPGEYRPLTAEEIASVGAPH 234 >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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 56/242 (23%), Positives = 108/242 (44%), Gaps = 7/242 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 8 KVDLMRLDKFLSQQLGVSRALVARELRAKRVTIDGEIVKSGAIKLTPEQDVRFDGNPLQQ 67 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG Sbjct: 68 TVGPRYFMLNKPQGYVCSTEDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQ 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNA 187 + + P + Y V V D G+ + Q+ + + Sbjct: 128 WSHRITSPRHHCEKTYLVTLEHPVADDTAQQFTDGVQLHNEKSLTKPAQLEVIEPQ---- 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 V + + EG+ ++K++F +V L R G +L L G R ++ + + Sbjct: 184 LVRLTISEGRYHQVKRMFGAVGNRVLELHRERIGDIKLDDDLAPGEYRPLTAEEIASVGA 243 Query: 247 PH 248 PH Sbjct: 244 PH 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 = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 107/230 (46%), Positives = 148/230 (64%), Gaps = 2/230 (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 + K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKYDILLKSN-YKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGNFTIDNLKPGDYKEINNKILENN 230 >gi|312876843|ref|ZP_07736820.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] gi|311796358|gb|EFR12710.1| pseudouridine synthase [Caldicellulosiruptor lactoaceticus 6A] Length = 230 Score = 175 bits (444), Expect = 7e-42, Method: Composition-based stats. Identities = 72/222 (32%), Positives = 115/222 (51%), Gaps = 2/222 (0%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLY 78 +A+ GIASRR+ E +I Q RVKVNG + + V D +EVDG + + + Sbjct: 1 MAQCGIASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRISLQMQKVYIML 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G++++ D GR TV D + + 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|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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 60/301 (19%), Positives = 115/301 (38%), Gaps = 13/301 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSTRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGRLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + R+ +GRLD +++GL+ LTN G L Sbjct: 63 EADDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 ++ + +M+ ++ + + K+ P ++ Sbjct: 239 SSSEAK--------PKARPKAKAATPGIKRPVVKMENSNDKGRPAANGKRFTQPGRKKKG 290 Query: 311 A 311 Sbjct: 291 R 291 >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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 82/233 (35%), Positives = 119/233 (51%), Gaps = 3/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ K+IA +G SRR+ E I Q VKVNG + D + V+G + + Sbjct: 2 EKVRLQKIIADSGYCSRRKAEEYIEQGCVKVNGRPV-SLGDKADPKNDIVTVNGEKIASS 60 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 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|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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 103/234 (44%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG ++ ++ +D I G P+ Sbjct: 265 DPNEPLRLNKYLANAGVCSRREADEFIQAGVVTVNGEVVNELGTKILRSDVITFKGQPVT 324 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ ++ + R+ VGRLD NT G+LLLTNDG Sbjct: 325 LEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGICPERIYPVGRLDRNTTGVLLLTNDG 384 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY V L + GI ++ + Sbjct: 385 DLASKLTHPKFLKKKVYHVYLDKPATPQTLQQISDGIELEDGEIK-ADAIEYADSLDQSQ 443 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + GKNR ++++FE ++V +L R+ + L G R ++++ + Sbjct: 444 VGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNLRRGDWRFLTEQEVD 497 >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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ER 72 ++++ I++A SRRE +R+I RV +NG + V + D + +DG + K + Sbjct: 1 MKINQFISKALSCSRRETDRLIKANRVAINGEICTH-GALVAADDIVSIDGKTIEKEAKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KIYIAFHKPVGITCTAAEHIEGNIIEYI--NHPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT ++ + Sbjct: 118 QILHGDHEHEKEYIVTVDKPFTDWFIDSMSRGVKIKDGMTKPCKVT----GVDHSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ F + V +L R+ L L G R VS++ L E + Sbjct: 174 LTQGMNRQIRRMSRAFGYTVTKLKRVRIMNITLDGLEVGEWRNVSEQELIELMR 227 >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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 75/284 (26%), Positives = 123/284 (43%), Gaps = 3/284 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + T QR+ +V+A G+ASRR+ E +I RV V+G+++ V I VDG Sbjct: 1 MSVTMTEQRLQRVLAAHGVASRRKAEELILAGRVTVDGVVVRELGRKVDPERQEICVDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 PL R + L+ + TT + ++ + +L + RV+ VGRLD ++ GLLLLT Sbjct: 61 PLHSEPRRYIVLHKPVGYITTTADEYGRKTVL--DLVQVPERVVPVGRLDRDSSGLLLLT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L + P + + Y V G + L++G+ + G ++ + Sbjct: 119 NDGDLIYRITHPRYELEKEYEVLVDGFPPPEVEEALRRGVPVDGRPVRIRRLEAIRVEPQ 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V + EG+NR I++VFE + V RL R+ GP +LG L G R+++ + Sbjct: 179 GTVYRVVIHEGRNRIIRRVFERVGYPVLRLQRVRVGPLRLGDLPPGRWRDLTASEVAALR 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 L E + P + + Sbjct: 239 RAVGLPEFPEGAVGRERKARGGRGMPARRGDRRPSGVRKEHRRR 282 >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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV++ + VNG +++ V D + V G + E Sbjct: 1 MRIDKLLSNMGYGSRKEVKKHLKGGGTVVNGEVVKDPKFQVDPESDTVTVHGEEVVYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + P L T + VGRLD +TEGLLL+TNDG L+ Sbjct: 61 IYLMMNKPPGVLSATEDAEGETVIDLLEMEDQIFNPFPVGRLDKDTEGLLLITNDGQLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G+V ++ ++ +G+ + ++ + G + + + Sbjct: 121 QLLSPKKHVPKTYFAVIEGEVTEEDVSAFAEGVTLDDGYETKPGELEII-SSGIRSEINL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++FE +V L RI+ G L L G RE++ + + Sbjct: 180 TITEGKFHQVKRMFESVGKRVIYLKRITMGLLPLDETLELGEYRELTDEEVE 231 >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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 85/239 (35%), Positives = 126/239 (52%), Gaps = 2/239 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+I+RAG+ASRR+ E +IA RV V+G ++ + T 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 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSNAWVTV 191 L P + YR + G++ + L L+ GI + +V + + + V V Sbjct: 123 ALLHPRFLVHKTYRAKVAGELTPEALKKLRSGIELADGMTAPAEVRVYGVTEKGLSDVEV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 L EG+NR+++++FE V L R + L + G++R ++K + Sbjct: 183 TLHEGRNRQVRRMFEAVGCDVRALKRTRFAQLTLDGVKRGASRPLTKAEVEALYRLAEE 241 >gi|163942282|ref|YP_001647166.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|163864479|gb|ABY45538.1| pseudouridine synthase [Bacillus weihenstephanensis KBAB4] Length = 229 Score = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 108/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I R +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRACINGEVCTH-GALVNEGDIVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T ++ + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAAEHIEDNIIDYI--DYPERIFPVGRLDKASEGLILLTNDGAIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT Q + + Sbjct: 118 QILHGDHEHEKEYVVAVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRVNQ----STFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L AG R+++ K L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVTKLKRVRIMNIELNELEAGKWRDITPKELE 223 >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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 118/238 (49%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+I+ AG+ SRR+ E +I + RVKVNG + + S D IEV+G ++K Sbjct: 3 ERLQKIISHAGVCSRRKAEELIKEGRVKVNGHTVTKLGTEADSVRDCIEVNGKVIKKERL 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + R+ I RV VGRLD ++EGLLL+TNDG L Sbjct: 63 KYFLFNKPDKVITSMTDPAGRRTVSDYF-SQIKERVFPVGRLDYHSEGLLLMTNDGDLDY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 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|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 = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 58/266 (21%), Positives = 108/266 (40%), Gaps = 7/266 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + EN R++K ++ G SRRE +++I R+ VNG + V S D I VDG Sbjct: 1 MSEN-KLTRINKFLSEVGYCSRREADKLIDAGRITVNGNIP-EMGTKVSSEDEIRVDGKI 58 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + ++L + +D + + +R+ +GRLD +EGL+ LTN Sbjct: 59 VGEQKDPPVYLIFHKPVGIVCTTDTRVEKDNIIDYINYPTRIFPIGRLDKASEGLIFLTN 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y V +D + + GI I + ++ Sbjct: 119 DGDIVNKILRARNNHDKEYIVDVDKPIDASFVKRMSDGIPILDTITRKCE----VEQLGK 174 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E+ ++ V RL R+ L + G R + L+E Sbjct: 175 KRFKIILTQGLNRQIRRMCEYLDYNVTRLKRVRIMNINL-DIPVGKYRAFTTAELKELNS 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRP 272 ++ + + P Sbjct: 234 LLEGSSKTFEPESQTGNKPEIRPSGP 259 >gi|288918462|ref|ZP_06412813.1| pseudouridine synthase [Frankia sp. EUN1f] gi|288350102|gb|EFC84328.1| pseudouridine synthase [Frankia sp. EUN1f] Length = 308 Score = 175 bits (444), Expect = 8e-42, 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|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 = 175 bits (444), Expect = 9e-42, Method: Composition-based stats. Identities = 84/235 (35%), Positives = 125/235 (53%), Gaps = 1/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ KV+A AG+ SRR E +IA RV+V+G+ + R V V T I VDG + A Sbjct: 32 VRLQKVLAAAGVGSRRACEELIAAGRVEVDGVPVTRLGVRVDPQTAVIRVDGKRIPPATP 91 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+VTT SDP GR V D + + RV VGRLD ++EGLLLLTNDG L Sbjct: 92 FAYFALNKPRGVVTTMSDPRGRPCVGDLVADLPVRVFHVGRLDTDSEGLLLLTNDGRLTH 151 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y G++ + ++LL+ G+ + V + + G+ V V Sbjct: 152 RLTHPSHAVPKTYVADVEGRLGRTGVHLLRSGVDLADGPAQADAVRILERYGARTLVEVV 211 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EG+ ++++ V RL+R + GP LG L G+ R+++ + L E L Sbjct: 212 VHEGRTHLVRRMLAAVGHPVRRLVRTAIGPVALGQLRPGARRQLTPRELGELLDL 266 >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 = 175 bits (444), Expect = 9e-42, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 117/238 (49%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K+I+ AG+ SRR+ E +I RVKVNG + + S D IEV+G ++K Sbjct: 3 ERLQKIISHAGVCSRRKAEELIKDGRVKVNGHTVTKLGTEADSVRDCIEVNGKVIKKERL 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + R+ I RV VGRLD ++EGLLL+TNDG L Sbjct: 63 KYFLFNKPDKVITSMTDPAGRRTVADYF-SQIKERVFPVGRLDYHSEGLLLMTNDGDLDY 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 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|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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSIRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIES 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPTSSGKRFTSPGRKKKGR 289 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDIVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 89/349 (25%), Positives = 153/349 (43%), Gaps = 20/349 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGV 65 V + R+ K +A G+ SRR E I RV V+G ++ + IEVDG Sbjct: 16 VDDESHLIRLQKFLAATGLGSRRHCEEYIETGRVSVDGDVITELGAKIDPETQFIEVDGE 75 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +R R L L T + R V D P+ R+ +VGRLD N+EGL+L+T Sbjct: 76 RVRLQPRRYYLLNKPSGFLCTNNDPAGRRRVV-DLFPNDGQRLFTVGRLDENSEGLILVT 134 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA+ L P + R Y V+ G ++KL+ L+KG+ + + + ++G Sbjct: 135 NDGELAQRLAHPRYRVARTYHVQVVGNPPREKLDELRKGVRFKEGVFRVSGLKYLKKQGK 194 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +A++ + L EG+NREI+++ KV +L+RI +GP LG L G +R +S L++ Sbjct: 195 SAFLELTLHEGQNREIRRMMARIGHKVIQLVRIRFGPLNLGKLKTGESRRLSDTELKKLR 254 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + + +R R + P +K+ +++G + Sbjct: 255 QLLNEKHS------------PDIRHRKGKKNAAPAKTRAPRKSVGKRSGERGAAAGKSVS 302 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + + + +G++ P +R + + K+ Sbjct: 303 ERISGGKKTGGKRSV------STGRKPAADSSKPKTTGRRIIGDVAEKR 345 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 113/230 (49%), Gaps = 1/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K +A GIASRREV++MI + +K+NG + V D I + G + K Sbjct: 2 EEMRINKYLASLGIASRREVDKMIEEGSIKINGEKAT-PGIKVSDKDEIYIRGKKIEKHT 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ V + S D +L + R+ +GRLD NT GL++LTNDG L Sbjct: 61 EKKVYYILNKPLEVLSSSKDDRGRKTVVDLINCKERIFPIGRLDYNTSGLIILTNDGELF 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ G++ ++ + LLK G+ + V + ++ + V Sbjct: 121 NRIIHPKAEIFKEYYVKVLGEIKENNVELLKNGVELDDGITLPANVRILRREKGKTELLV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +REG+NR+++++ + N V L R G LG L G RE++ + Sbjct: 181 AIREGRNRQVRRMMDKINHPVITLRREKIGNLSLGNLKLGEYRELTNDEI 230 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 108/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSSGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRVFGFTVTKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 124/240 (51%), Gaps = 7/240 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 + +R+ K++++AG+ SRRE+ER I V+VNG + + +D I V G + Sbjct: 2 SSERLQKILSQAGLGSRREMERWIDNGWVQVNGKPAK-LGDSAGPSDKISVKGKLIPNPL 60 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 K L + + + H ++ + R + VGRLD+NT GLL+ TN Sbjct: 61 KGKQNIRVLLYHKPVGEVSSRHDPKFEKTVFDNLPHLRQGRWVQVGRLDLNTSGLLIFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G LA L P R Y VR HGQV Q+ LN L KG+++ ++ +G+N Sbjct: 121 NGELANQLMHPKYGLEREYAVRVHGQVSQESLNNLLKGVMLDDGLGKFTKIQFRGGEGTN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 +W V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + E L Sbjct: 181 SWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLSRGQFYELTPKEVTEFL 240 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 165/349 (47%), Positives = 215/349 (61%), Gaps = 8/349 (2%) 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 QVNLDAP---IYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL-----ATPV 305 V+ D P +S+ + + S+ D + K + G K+++ P Sbjct: 424 GVDFDGPINKPFSNAPVEGRQDARPSKKSDWVSAGGKVDRKTFGEKKREEALGRLDTKPR 483 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + +G S E+ + K R + Sbjct: 484 GKFGDKPGDDRRRGDRRSDGPKRSFGEDRGGKGGGRFDKHDKREGFGDR 532 Score = 38.2 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 18/100 (18%), Positives = 27/100 (27%), Gaps = 2/100 (2%) Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + R + E D ++ + G + P + SN Sbjct: 504 PKRSFGEDRGGKGGGRFDKHDKREGFGDRVSGARSGGDRPGGDRDGPSRKPEGQGRRMSN 563 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 VWMA G D G R KR+L + Sbjct: 564 VWMAPGSKP--ERDPGARPAKTDGDGPKTGKRALADPKRR 601 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 66/302 (21%), Positives = 132/302 (43%), Gaps = 9/302 (2%) 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 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + L + + + + + RV +GRLD +++GL+ LT+ Sbjct: 58 IAPRDEADLVFIALNKPVGIVSTTENTERDNIVDFVNHSERVFPIGRLDKDSQGLIFLTS 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G L + + Y V + + + L ++ G+ + G+ +V ++ S Sbjct: 118 NGDLVNKILRAGNNHDKEYVVTVNKPITEAFLQGMRAGVPMLGVITKKCKV----EQVST 173 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E FN++V +L R S L L G R++ ++ L + Sbjct: 174 FVFKIILVQGLNRQIRRMCEHFNFEVTKLERQSIMNVSLKGLPVGEWRDLDEQELSTLMK 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 +E + + ++ E P+ F + + +K +K K + Sbjct: 234 L--IEHSSSEVKNAPKKAKKKPTQSLRDKIEGPEHFMQGRGAKPKKPAANKGKPSHSRKP 291 Query: 307 RR 308 +R Sbjct: 292 KR 293 >gi|329576942|gb|EGG58425.1| pseudouridylate synthase [Enterococcus faecalis TX1467] Length = 257 Score = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 63/248 (25%), Positives = 109/248 (43%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M ++E R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD Sbjct: 1 MSQAIFLKERGMTMRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L + L+ + T D + + VGRLD +TE Sbjct: 61 IALMGEILTYQKFFYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTE 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVT 178 GLLLLTNDG LA L P + Y G V + L +G + G ++ Sbjct: 121 GLLLLTNDGQLAHQLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLV 180 Query: 179 L--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + ++ + V + ++EG+ ++K++ V L R+ G L L G R Sbjct: 181 IETINEEEGTSVVRLVIQEGEFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGEYRP 240 Query: 236 VSKKILRE 243 +++ L++ Sbjct: 241 LTEAELQQ 248 >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 = 175 bits (443), Expect = 9e-42, Method: Composition-based stats. Identities = 91/354 (25%), Positives = 140/354 (39%), Gaps = 15/354 (4%) Query: 2 KDKNIVQE-NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KDK QE +++ KV+AR G+ SRR+VE I Q R+KVNG V D I Sbjct: 4 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDATV-GQRVDLHDAI 62 Query: 61 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATP-----VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + + P R + + S P Sbjct: 302 PATGDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 355 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 110/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ G SR+E + + + ++V+G +++ ++VN+ ++++G + + Sbjct: 2 ERLDKIISNLGYGSRKEAKLLAKKGLIEVDGKIIKDSSVNIDPEKSIVKINGEEIFYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + TH D L VGRLD +T GLLLLTNDG Sbjct: 62 IYLMMNKPTGVISATHDSKDETVIDLLELDHQIFDPFPVGRLDKDTVGLLLLTNDGDFNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P +VY + +V++ KKG+V+ + ++ + + + V + Sbjct: 122 RMISPKWHVDKVYYAKIDKEVNEKDQEAFKKGVVLDDGYKCLEAKLDIISASPEGSEVRI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++FE + KV L R +G L L G RE+S + L Sbjct: 182 TIQEGKYHQVKRMFEARDKKVVYLKREEFGGLILDETLEEGEYRELSDEEL 232 >gi|260905260|ref|ZP_05913582.1| pseudouridine synthase, Rsu [Brevibacterium linens BL2] Length = 238 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 116/234 (49%), Gaps = 1/234 (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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L G+NR ++++ + V RL+R +GP L G R + + E Sbjct: 181 LHSGRNRIVRRLLKEVGHPVERLVRTKFGPITLDEQRQGKIRPLRSDEIGELFE 234 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 87/360 (24%), Positives = 146/360 (40%), Gaps = 9/360 (2%) 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 DGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG +++ E R + + T + 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 TLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 +G N W + EG+NRE+++++E V+RL R+ +GP L L G RE Sbjct: 184 QQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRWRE 243 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +S+ + L + + R + + R + ++ Sbjct: 244 MSQYEVDVLSAEVGLTPVAMPQLNAKSKDKLERMQRKSSRPVGKSERVRTLRPANGSAAT 303 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSG-QREENHRRSPSFPSKRSLRRTSAKK 354 + + R G S R P+ + + + +K+ Sbjct: 304 PRVSREPQIEGERPGRKPAARPDGERGSRAPRPATGRGTPVADRPADTKRPAKPASKSKR 363 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 71/233 (30%), Positives = 119/233 (51%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA A + SRR+VE +I Q+RVKVN ++ + V ++D + +D V ++K Sbjct: 2 ERLQKFIASANLVSRRKVEILILQKRVKVNNQVVSQLGTKVKASDVVTLDDVLIKKTTLF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L TT D + + S R+ SVGRLD NT GL+L+TNDG + + Sbjct: 62 YYLLNKPQGYLSTTKDDKKRPTVLDLIKESQNQRLYSVGRLDFNTTGLILITNDGEMTQK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK----GSNAWV 189 L P + Y V+ + + + L+LL KG++I + ++ + W+ Sbjct: 122 LTHPCFGIPKEYHVKINVFLTKKDLSLLLKGVIIDHNYLSIPKEINILKQRYLPKPSTWL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + EGKNR+I+K+ E ++V +L R SY + L G+ R + ++ Sbjct: 182 KIVITEGKNRQIRKMMEALGYQVLKLRRYSYAFLTIEGLKTGAYRLLKIHEIK 234 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 51/228 (22%), Positives = 104/228 (45%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ + +A +G +R EV+R+I + VKVNG + + + D ++V + +R Sbjct: 1 MRLDRFLAHSGFGTRSEVKRLIKKGLVKVNGKQAKSPDLKIDEDKDVVQVGEEIVELQKR 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + + + +VGRLD + EGLL++TN+G Sbjct: 61 VYIMMNKPQGYVCSNDDPLSPTIFSLIPENLKYRNLHTVGRLDKDAEGLLIITNNGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V+ +++++K+ + + G+V+ + T+ + V++ Sbjct: 121 KVISPKKHIEKEYIVKLEKELNREKIKVFEDGVVLDDGYKTLPAKYTIL----DDFTVSL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK +IK++FE KV L R+ G +L L G + + + Sbjct: 177 TIYEGKYHQIKRMFESIGNKVVYLKRVRIGRLKLDENLNPGEYKVLDE 224 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V+S D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVSGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNYSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRVGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPTSSGKRFTSPGRKKKGR 289 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 71/232 (30%), Positives = 116/232 (50%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA-E 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 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWV 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|227325901|ref|ZP_03829925.1| 16S rRNA pseudouridylate synthase A [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 231 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 109/231 (47%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P Q + Y V + +D G+ + +K ++ V + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPAT----LEKITDYVVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGGIYLDSELEPGEYRELSAEEI 227 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 105/234 (44%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ ++V VNG + + D I V G L Sbjct: 1 MRLDKFLVDCGVGSRTEVKKLLKNKQVTVNGQVETSPKQQINEKKDQIAVAGQVLSHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN G LA Sbjct: 61 VYYLLNKPKGVISATEDDHHRTVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNKGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G + Q+ + GI ++ Q+T+ + + + V Sbjct: 121 AMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIELKDFTCQPAQLTILSTDEAKQTSLVD 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + +REGK +IK++ + V L R++ GP +L L G R ++ L++ Sbjct: 181 ITIREGKFHQIKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQ 234 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPTSSGKRFTSPGRKKKGR 289 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 100/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG + + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGYGSRREVKPLLKSGSVTVNGTIQKDSKLQVNPEKDQITVHGNPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + + + + + + V Sbjct: 121 NLLSPKKHIDKTYYAKIEGNVTVADIEAFQTGITLDDGYTCKPAHLEII----TPSEINV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V L RIS G +L L G R ++ + L Sbjct: 177 TIQEGKFHQVKRMFAATGKTVTYLKRISMGKLKLDEALRLGEYRSLTDEEL 227 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 110/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ G SR+E + + + ++V+G +++ ++VN+ ++++G + + Sbjct: 2 ERLDKIISNLGYGSRKEAKLLAKKGLIEVDGKIIKDSSVNIDPEKSIVKINGEEIFYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + TH D L VGRLD +T GLLLLTNDG Sbjct: 62 IYLMMNKPTGVISATHDSKDETVIDLLELDHQIFDPFPVGRLDKDTVGLLLLTNDGDFNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P +VY + +V++ KKG+V+ + ++ + + + V + Sbjct: 122 RMISPKWHVDKVYYAKIDKEVNEKDQEAFKKGVVLDDGYKCLEAKLDIISASTEGSEVRI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++FE + KV L R +G L L G RE+S + L Sbjct: 182 TIQEGKYHQVKRMFEARDKKVVYLKREEFGGLILDETLEEGEYRELSDEEL 232 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 66/238 (27%), Positives = 105/238 (44%), Gaps = 4/238 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + Sbjct: 8 EKDIEMRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKIA 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L + T + + VGRLD +T GLLLLTNDG Sbjct: 68 YQQYHYFLLNKPKGVISATEDRSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTNDG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN- 186 LA L P+ +VYR + G D + +G+++ G ++ + Q N Sbjct: 128 ALAHELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQDNN 187 Query: 187 -AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + + + ++EGK +IK++F KV L R+S G L L G +E+ ++ Sbjct: 188 LSQIEIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEIDLAEIK 245 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 90/355 (25%), Positives = 140/355 (39%), Gaps = 16/355 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATPV------HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + ++ R + + S P Sbjct: 302 PATGGERAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 356 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 86/246 (34%), Positives = 123/246 (50%), Gaps = 10/246 (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 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------ISVGRLDINTEGL 121 + HKP G+VTT DP+GR TV + + 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 REQLGP 247 Sbjct: 316 AALQQE 321 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 133/244 (54%), Positives = 173/244 (70%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + R++K +AR+G+ASRR+ ERMIA+ RV++NG ++ A V + D ++ Sbjct: 3 QDHSSSASAERGDRIAKWLARSGVASRRDAERMIAEGRVQLNGAVVNHPATFVGAGDIVQ 62 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V+G + +RTRLW YHKP GLVTTH DP+GR TVF++LP RVISVGRLD+N+EGL Sbjct: 63 VNGSVVGAPDRTRLWRYHKPDGLVTTHRDPEGRPTVFESLPPGLPRVISVGRLDLNSEGL 122 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG LAR LELPS W+R YRVR G VD+ L L +G G+ YG ++ LD+ Sbjct: 123 LLLTNDGELARRLELPSNGWIRRYRVRVFGVVDERMLASLARGSEFDGVRYGPIEAHLDS 182 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 KG NAW+TV LREGKNRE++KV + N V+RLIR SYGPFQLGTL G EV+ K++ Sbjct: 183 AKGDNAWLTVSLREGKNREVRKVMQGLNLHVSRLIRTSYGPFQLGTLTRGELEEVTGKVI 242 Query: 242 REQL 245 REQ+ Sbjct: 243 REQV 246 >gi|323254500|gb|EGA38311.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] Length = 289 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 63/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V+S D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVSGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNYSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRVGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPTSSGKRLTSPGRKKKGR 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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 64/243 (26%), Positives = 115/243 (47%), Gaps = 7/243 (2%) 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 + ++ + I GRLD ++EGLLL+TN+G + Sbjct: 73 RMVLLAVNKPTGIVCTEEKREKKNIIRFLNYPTRITYI--GRLDKDSEGLLLMTNNGDII 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y+V + +V ++ + + +G+ I +V +K + Sbjct: 131 NKMMRAGNCHEKEYKVTVNKEVTKEFVRKMSEGVPILDTVTRPCKV----EKTGKYKFRI 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E+F ++V RL R+ +LG L +G REV+ + L E Sbjct: 187 ILTQGLNRQIRRMCEYFGYQVTRLERVRVMNIELGNLKSGEYREVTGRELDELYEQLKGS 246 Query: 252 EAQ 254 Sbjct: 247 SNN 249 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 130/231 (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 + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSASSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 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|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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 102/241 (42%), Gaps = 9/241 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKA 70 R+ K +A +G+ SR EV+ ++ + RV V G + V + DG L Sbjct: 30 KDMRLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQVAFDGEILDYQ 89 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + T + + + VGRLD NTEGLL+LTNDG L Sbjct: 90 EYYYYLLNKPQGLVSATKDNLFKTVVQLLSEKDFREDIFPVGRLDKNTEGLLILTNDGAL 149 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------QK 183 L P + Y R G+V + +N +G+ ++ G ++ ++ Q Sbjct: 150 GHDLTQPKKHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGELFIENIYEGESQS 209 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 G + + V + EGK ++K++FE V L RI G L L G+ R ++ + + Sbjct: 210 GWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLTTEEIE 269 Query: 243 E 243 Sbjct: 270 N 270 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 120/239 (50%), Gaps = 7/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 +R+ K++++AG+ SRRE+ER I V+VNG ++ + D I V G + Sbjct: 4 ERLQKILSQAGLGSRREMERWIENGWVQVNGKPVK-LGDSASEEDKITVKGKLIPNPLKV 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K L + + + H ++ 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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 V L EG+NRE+++++E +V+RLIRI YG + L G E++ K + + L Sbjct: 183 YHVTLNEGRNREVRRLWESQGLEVSRLIRIRYGTITMPRYLSRGQHYELTPKEVSDLLA 241 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 111/237 (46%), Gaps = 2/237 (0%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R++K I+ AGI SRRE + +I R+ VNG + V +TD ++ Sbjct: 10 KVASDQINYVRLNKWISNAGICSRREADELIQAGRITVNGEKITTLGYQVKNTDIVKFRD 69 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L+ + + L + T R+ + + RV VGRLD NT GLL+L Sbjct: 70 KVLKPNKHVYILLNKPRNCITTAFDPERRRTVLDFVKGACQERVYPVGRLDRNTTGLLVL 129 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA+ L PS Q ++Y+V + L +K GI ++ +++ +G Sbjct: 130 TNDGDLAQKLAHPSYQIKKIYQVELASPIQPKDLAAIKAGICLKDGIVQVDSISIV--QG 187 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + GKNR I+++FE +++ L R+ Y L R ++ + + Sbjct: 188 DESKLGIEIHSGKNRIIRRLFEHLGYQIINLDRVMYANLTKKELPRSKWRFLTNQEV 244 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 63/290 (21%), Positives = 118/290 (40%), Gaps = 11/290 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK- 69 T +R++K I+ +G SRRE +++I + RVK+NG + V+ D + VDG + Sbjct: 4 STGKRLNKYISDSGFCSRREADKLIEKSRVKINGTIP-ELGTKVLPGDIVLVDGRAINAV 62 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 Y+KPIG+ T + + R+ +GRLD +EGL+ LT+ Sbjct: 63 AENKSDRIYIAYNKPIGITCTTERDVRGNIIDAI--RHKKRIFPIGRLDKPSEGLIFLTS 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + + + Y V + + + +++G+ I V + S Sbjct: 121 DGDIVNKILRAENAHDKEYLVTVDKPLSERFVERMQRGVPILDTITKPCIVKVQ----SR 176 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 ++ L +G NR+I+++ E+ ++V L R L L G R +S + ++E Sbjct: 177 FVFSIILTQGLNRQIRRMCEYLGYEVQALQRTRIMQVTLKNLKPGQWRNLSVQEMQEINQ 236 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + P T + ++ + K+ N + Sbjct: 237 AVSHSSKTAQITTPANPPNTRKIYNQSGSTKKIFVNVKKTKSKPSANSRT 286 >gi|330960474|gb|EGH60734.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. maculicola str. ES4326] Length = 408 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 92/354 (25%), Positives = 142/354 (40%), Gaps = 15/354 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT-----RMKKN 288 RE+S+ + + L + + + + + R + + R Sbjct: 243 REMSQYEV-DILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAG 301 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + +Q ++ R + + S P Sbjct: 302 APTGERAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 355 Score = 38.6 bits (88), Expect = 1.4, Method: Composition-based stats. Identities = 17/91 (18%), Positives = 24/91 (26%), Gaps = 2/91 (2%) Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E + +D S P + + K+ A P +R Sbjct: 317 SERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAERPSDMNKRPAKPGPKRVG 376 Query: 311 AS--NVWMAKGIHSSFLSDSGQREENHRRSP 339 N G + SGQR RR P Sbjct: 377 IKLVNDDAPSGKRRGPPAGSGQRPGFGRRKP 407 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 89/233 (38%), Positives = 137/233 (58%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 +R+ KV+A+AGIASRR E +I Q RVKVNG ++ V+STD I VDG L Sbjct: 16 ERLQKVLAQAGIASRRHAEEIILQGRVKVNGEVIRTLGTKVVSTDRIVVDGRLLSIPQND 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L HKP G +T+ +DP GR TV + +P I RV VGRLD +T GLLLLTNDG LA Sbjct: 76 YAYYLLHKPTGYITSVTDPQGRKTVMELMPKIPRRVYPVGRLDYDTSGLLLLTNDGDLAH 135 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVT 190 L PS + YRV ++ + L L+KG++++ ++ + KG + Sbjct: 136 RLMHPSYGVEKTYRVEVGEKIPEQALKRLEKGVLLEDGKTAPARIREVSPKGRGSLPTYE 195 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EG+NR+++++F+ + ++ L R+ +GP +L +L G+ R +SK ++ Sbjct: 196 ITIHEGRNRQVRRMFKAVGFPLSTLKRLRFGPLELDPSLAPGAFRTLSKTEIQ 248 >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 = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 127/233 (54%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 R+ KV+A+AGIASRR E +I + RV+VNG ++ V D I VDG + Sbjct: 35 KPEGIRLQKVLAQAGIASRRASEGLITEGRVEVNGHIVVELGTRVDPEHDSIRVDGARIP 94 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R L +KP G+V+T DP+GR T+ + +P R+ VGRLD TEGL++LTNDG Sbjct: 95 PPRRHMYLLLNKPRGVVSTMDDPEGRPTLAEYVPRH-QRLFHVGRLDTETEGLIILTNDG 153 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L PS + + Y V G +D + L+KG+ ++ +V L ++ + Sbjct: 154 EFGHRLSHPSYEVRKTYLVDAEGLMDNRTIRRLEKGLTLEDGPIKPDRVKLVSRGPVHTM 213 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + L G+NR ++++ + V +L RI GP +LG L G TRE+S++ L Sbjct: 214 LQITLHSGRNRIVRRMMDSVGHPVRQLARIGIGPVRLGNLAVGETRELSREEL 266 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 173/378 (45%), Positives = 230/378 (60%), Gaps = 31/378 (8%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDG+P+ Sbjct: 46 ESEAKAERISKVMARAGVASRRDIERMIMEGRVTLNGKVLETPVVNVTLADRIEVDGMPV 105 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTEGLLLLTND Sbjct: 106 RGIERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTEGLLLLTND 165 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 166 GGLARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNV 225 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP Sbjct: 226 WITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGRTLRDQLGP 285 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK---------- 297 L+EEA+ N DAPIY++ + + ++ + ++ LS+ Sbjct: 286 RLIEEAKANFDAPIYNAPAVAAEEEAEVAAPEKRERPRRDEDKRERALSRLDTKRDDRRG 345 Query: 298 ---------------------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 +K + + ++NVWMA G + + +N + Sbjct: 346 DDRRGGARRDDDRRDGGRRDDEKPKRSEPLGQRRSANVWMAPGARPLGEKAAAKAAKNAQ 405 Query: 337 RSPSFPSKRSLRRTSAKK 354 + + + + + Sbjct: 406 TARRRGEQAPAKSAAFDR 423 Score = 41.3 bits (95), Expect = 0.23, Method: Composition-based stats. Identities = 16/125 (12%), Positives = 29/125 (23%), Gaps = 5/125 (4%) Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLV-----RDRPNIISEVPDDFTRMKK 287 RE + +R P +E + + +RP+ D R + Sbjct: 435 VREEDGEWIRSSEQPRRKDEGEGFGRKRSFGDRPAREDRGFGERPSRGDRPFGDKPRGDR 494 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + A+ R+ G S + R P Sbjct: 495 RPRADGDERPRATRASAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDRRPREDGDERP 554 Query: 348 RRTSA 352 R + Sbjct: 555 RAARS 559 Score = 39.0 bits (89), Expect = 1.2, Method: Composition-based stats. Identities = 13/108 (12%), Positives = 26/108 (24%), Gaps = 1/108 (0%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH- 306 + EE + + + D R + ++ + P Sbjct: 434 RVREEDGEWIRSSEQPRRKDEGEGFGRKRSFGDRPAREDRGFGERPSRGDRPFGDKPRGD 493 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 RR A + +S +R R PS+ + Sbjct: 494 RRPRADGDERPRATRASAGEGRSERPRGDRPFGDRPSRGDRPFGDKPR 541 Score = 38.2 bits (87), Expect = 1.9, Method: Composition-based stats. Identities = 9/105 (8%), Positives = 19/105 (18%), Gaps = 1/105 (0%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 G + D P R E P + ++ Sbjct: 519 PRGDRPFGDRPSRGDRPFGDKPRGDRRPREDGDERPRAARSFAGEGRSERPRGERSFGDK 578 Query: 304 -PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 P + + G + + + + P Sbjct: 579 APGGKPSGDKPRGKGFGARPGGSKNFSGKPKGGKPGSDRPGGDRP 623 Score = 37.1 bits (84), Expect = 4.4, Method: Composition-based stats. Identities = 8/109 (7%), Positives = 25/109 (22%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A + + + P + + + ++ Sbjct: 488 DKPRGDRRPRADGDERPRATRASAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDRRPR 547 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 R A+ + +G + ++ PS R + Sbjct: 548 EDGDERPRAARSFAGEGRSERPRGERSFGDKAPGGKPSGDKPRGKGFGA 596 Score = 36.3 bits (82), Expect = 7.2, Method: Composition-based stats. Identities = 9/109 (8%), Positives = 23/109 (21%), Gaps = 4/109 (3%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 ++ + + E R + + + + + + R Sbjct: 485 PFGDKPRGDRRPRADGDERPRATRASAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDR 544 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHR----RSPSFPSKRSLRRTSA 352 R + S +R R ++P R Sbjct: 545 RPREDGDERPRAARSFAGEGRSERPRGERSFGDKAPGGKPSGDKPRGKG 593 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 129/231 (55%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 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 + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 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|156340515|ref|XP_001620471.1| hypothetical protein NEMVEDRAFT_v1g223077 [Nematostella vectensis] gi|156205434|gb|EDO28371.1| predicted protein [Nematostella vectensis] Length = 275 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 65/240 (27%), Positives = 109/240 (45%), Gaps = 1/240 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + R++K IA +G+ SRRE + IA V VNG ++ V TD I Sbjct: 31 QSSTKKSSPEDGIRLNKYIANSGVCSRREADTYIASGNVVVNGKVITEMGFKVKPTDDIR 90 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG + E+ + L + T D ++ + + R+ VGRLD NT GL Sbjct: 91 FDGTAISPEEKKYVLLNKPKNYITTMDDDRGRKTVMDLVQNAARERIYPVGRLDRNTTGL 150 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL TNDG LA+ L P ++Y +++ L+ ++ ++I+G + Sbjct: 151 LLFTNDGDLAKKLTHPKHNVQKLYHASLDRKLEVKDLHKMRDEVIIEGKRV-FIDEVDYV 209 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + G+NR ++K+FE F +KV +L R+ + L G RE++ + + Sbjct: 210 AGEKKTEVGIKIHSGRNRIVRKIFEHFGYKVVKLDRVIFAGLTKKNLPRGRYRELTTQEV 269 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 107/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + Q+ + + V + Sbjct: 121 VTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLHNEKSLTKPAQLDVIEPQR----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G L L G R ++ + + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTAEEIASVGAPH 234 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 62/237 (26%), Positives = 112/237 (47%), Gaps = 8/237 (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 + +T +V L + + VGRLD +TEGLLL+ Sbjct: 61 EEVFYREFFHVLLNKPAGYVTSTQDR--DGPSVTHLLEMVRDDWMPVGRLDKDTEGLLLI 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L P + + Y Q + G ++G ++TL G Sbjct: 119 TTDGELAHRLTHPRWKVPKRYYAELAEPATQADVEAFAAGFELEGEPLQPAELTL----G 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 + V + +REG+ ++K++F +V L R+++GP +L L G +R ++ + Sbjct: 175 KDRRVELVIREGRYHQVKRMFAARGNRVVYLKRVAFGPLELPEDLELGESRYLTAEE 231 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 112/230 (48%), Gaps = 1/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K +A GIASRREV++MI + +KVNG + V D I + G + K Sbjct: 2 EEMRINKYLASLGIASRREVDKMIEEGAIKVNGEKAA-PGIKVSDEDEIYIKGKKIEKNT 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ V + S D +L R+ +GRLD NT GL++LTNDG L Sbjct: 61 EKKVYYILNKPLEVLSSSKDDRGRKTVVDLIKCKERIFPIGRLDYNTSGLIILTNDGELF 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + G++ ++ LL+KG+ + V + ++ + V Sbjct: 121 NRIIHPKAEIFKEYYAKVFGEIKEENAELLRKGVELDDGMTLPANVKILRRERGKTELLV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +REG+NR+++++ + N V L R G LG L G RE++ + + Sbjct: 181 AIREGRNRQVRRMLDKINHPVITLRREKIGDLSLGNLKLGEYRELTNEEV 230 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 58/282 (20%), Positives = 111/282 (39%), Gaps = 5/282 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSTRLNKYISESGICSRREADRFIEQGNVFINGKRAT-IGDQVKPGDLVKVNGRLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + R+ +GRLD +++GL+ LTN G L Sbjct: 63 EADDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLTGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 ++ A + + ++ + + ++ Sbjct: 239 SSSEAKPKARPKAKAATPGIKRPVVKMENSNDKGRPAGNGKR 280 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 105/233 (45%), 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+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITSTTELHI--RGNIVDFVGHKERIFPIGRLDKDSEGLILLTNDGDVVNP 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + + G+ I G QVT + + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPVTAEFVKGMSSGVRILGSMTLPCQVTRV----AERVFRIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ E F + V +L RI LG L G R++++ E G Sbjct: 174 TEGKNRQIRRMCEAFGYHVRKLQRIRIMNIHLGQLPTGKWRDLTETEKAELFG 226 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 108/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+E++ I + V +N ++++ V D I + E Sbjct: 4 MRIDKLLSNMGYGSRKEIKNFIKECLVAINDVIIDDPGFTVQPDKDVITFRNEKVSYKEY 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + +V GRLD +TEGLLL+TNDG L+ Sbjct: 64 IYIMMNKPKGVICATYDPSERTVVDLLPHHIKSRKVFPAGRLDKDTEGLLLITNDGELSH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G +D+D +L +GI++ + + G+ + V + Sbjct: 124 KLLSPKKHVFKKYYAEVLGFIDEDDASLFSEGILLDDGYKTMPATLEII-SSGNISKVYI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +REGK +IK++FE + KV L R+S G +L L G RE++++ ++ Sbjct: 183 SIREGKYHQIKRMFEAIDSKVIYLKRLSIGKLKLDENLKEGEWRELNEEEIK 234 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 106/234 (45%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G SR++V++++ V NG + + +V D I V + ++ Sbjct: 1 MRIDKLLAHCGYGSRKDVKQLLKDGLVTSNGKKIRSSGAHVDPEKDEIYVGDEKINYSKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + TV D + + VGRLD++TEGLLL+TNDG LA Sbjct: 61 VYYMLNKPDGYVSATEDN--VYPTVIDLIKEYHPGLFPVGRLDVDTEGLLLITNDGQLAH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P T + Y V+ G++ +N KGI ++ + + V Sbjct: 119 RLLSPRTHVPKTYYVKVKGRLGIGDINAFTKGIPLEDFTCMP-SYLKIIKSDEISECEVT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 + EGK ++K++F+ +V L RIS G +L L G R ++ + + L Sbjct: 178 IYEGKFHQVKRMFQACGKEVVYLKRISMGELKLDENLKLGHYRPLTDEEINSIL 231 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 62/301 (20%), Positives = 129/301 (42%), Gaps = 6/301 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R++K I+ +G SRRE ++ I ++V VNG + + +V D + V+ + ++ Sbjct: 2 ERKETIRLNKFISDSGYCSRREADQYIENRQVYVNGRIAKV-GQHVQLHDQVVVNNIEIK 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + T + T + S R+ +GRLD +++GL+LLT+DG Sbjct: 61 PRDKEMAIYIALNKPVGITCTTDPNDPTNIIDFLSFGERIFPIGRLDKDSQGLILLTSDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + + Y V + D ++ G+ I G+ +K + Sbjct: 121 DIVNKILRAGNKHEKEYIVTVDKPITDDFCTKMENGVPILGVNTKKCT----VEKLNTNT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E+F+++V +L R L + G R+++K+ L E Sbjct: 177 FKIILIQGLNRQIRRMCEYFDYRVTKLERTRIMNIDL-NVPIGQYRDLTKEELMELKRLT 235 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 E A +++ + ++ + R+ + + + K K P +R Sbjct: 236 AQSEQHEKAKANKKTAKKKSTTKKTVLEKDTTPKKRITRKPKSQPRIGKSKPPEKPKRKR 295 Query: 309 N 309 Sbjct: 296 R 296 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 119/271 (43%), Positives = 156/271 (57%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K +ARAG+ASRREVER+I V VNG L A V + I+V ++ Sbjct: 35 SEGERIAKYLARAGVASRREVERLIEAGEVTVNGQKLTSPAFKVTGREAIKVGRKVIQAP 94 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +RLW YHKP GL+TT +DP GR T+FD LP R ++VGRLD+ TEGLLLLTNDG L Sbjct: 95 DASRLWRYHKPSGLITTTNDPAGRRTIFDELPKSLPRTVTVGRLDLTTEGLLLLTNDGEL 154 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 AR LELP + R YRVR G V Q K++ L GI ++G+ Y ++ D + G+N+W+T Sbjct: 155 ARFLELPKSALERTYRVRAKGTVTQLKIDELASGITVEGVKYQPIKAVFDREMGANSWLT 214 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 V L EGKNRE++K E VNRLIR+SYGPF L L G EV +L L Sbjct: 215 VTLTEGKNREVRKALESVGLTVNRLIRVSYGPFLLADLKPGQVDEVPPDLLETALALLGH 274 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 E + L R P+ + Sbjct: 275 EVDTAPEKPAPAAKSRLGRRGPSARVKGKRS 305 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 121/238 (50%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D + I R+ VGRLD +T GLLL+TNDG A + Sbjct: 62 YFLFYKPRGTVSAVTDDKGRTTVADYF-ADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 238 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 107/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + Q+ + + V + Sbjct: 121 VTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLYNEKSLTKPAQLDVIEPQR----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G L L G R ++ + + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTTEEIASVGAPH 234 >gi|312622542|ref|YP_004024155.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] gi|312203009|gb|ADQ46336.1| pseudouridine synthase [Caldicellulosiruptor kronotskyensis 2002] Length = 233 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 105/230 (45%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D +EVDG ++ +++ Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIREGIVTVNGKQIVEVDFKINPEEDIVEVDGRVVKFSKQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + + + + +VGRLD + EGLL++T+DG Sbjct: 61 IYIMMNKPKGYVCSNEELASLTVFSLISDDLKYRDLHTVGRLDKDAEGLLIITDDGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + + Y VR +VD++KL + GI++ + T+ + V + Sbjct: 121 RVISPKKRIEKEYLVRLEKEVDEEKLKEFENGIILDDGYKTLPAKYTII----DSTTVKL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++K++FE KV L R+ G L +L G R + ++ Sbjct: 177 CIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDQSLKPGEYRVMKEEE 226 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 67/226 (29%), Positives = 111/226 (49%), Gaps = 7/226 (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 +L + RV ++GRLD +++GL+LLTNDG + + Sbjct: 64 YLALNKPVGITSTTEKNV--KGNIVDLVNHPLRVFNIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 Q + Y V + + L + +G+ I G +V ++ S + L Sbjct: 122 LRAENQHEKEYIVSVDKPITPEFLTQMSEGVKILGTKTLPCKV----EQLSKFDFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V RL R+ LG L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYEVFRLQRVRIMNIHLGNLPVGQWRDLTKKE 223 >gi|323167301|gb|EFZ53010.1| ribosomal large subunit pseudouridine synthase F [Shigella sonnei 53G] Length = 291 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 60/292 (20%), Positives = 113/292 (38%), Gaps = 5/292 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + S +++ A Sbjct: 239 SSSEAKPKAKAKPKTAGIKRPVVKMEKRRKKAVARRPTVSVLPRRGVKRRGA 290 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 63/296 (21%), Positives = 119/296 (40%), Gaps = 8/296 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R + Q V +NG V + D ++V+G + Sbjct: 3 TNSSTRLNKYISESGICSRRDADRYVEQGNVFINGKRAAV-GDQVYAGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + DG + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDEDDLVLIALNKPVGIISTTEDGEHDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +K S Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTV----TKKCKVKKESTFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPQGEWRDLTDDELIELFKLI- 236 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 E + +AP+ S + P + N++ + ++ + Sbjct: 237 --ENSSSDEAPVKKSPPKSVTNKKPVINGPKKTEKPDGNAAARKRFAQPGRKKKGR 290 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 81/338 (23%), Positives = 136/338 (40%), Gaps = 8/338 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D I+V+ Sbjct: 113 KRVLLPQPETPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQIKVN 171 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 172 GKPIRFRIAPPPVRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTE 231 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y VR G + ++ L +G+ ++ V Sbjct: 232 GLLLFTSSGELANKLMHPRFGLEREYAVRVLGALSTEEKQRLLEGVPLEDGMASFGSVED 291 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 292 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLELDE 351 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + +R + A S + + + S P + ++ + Sbjct: 352 RDIRALMQAAGATLDG--GGARPTSGQGRGGRKGDRRSAGPGKASGSGRDKTGGRAGRPP 409 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 A P + + + R Sbjct: 410 SPNAQPDPMKTSLGYIGADSFSRHRQQQRNNGPRRGGR 447 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 88/354 (24%), Positives = 146/354 (41%), 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 L P L T + + ++GRLD Sbjct: 61 HQEILVDGQRLKFGKRVYYMLNKPPGVLSTNFDPAGRTRVIDMVPQDVRL--FTIGRLDR 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 SKKILREQLGPHLLEEAQVNLDAPIYSSETL-VRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + A S T R+ P R ++ Sbjct: 239 KSAETKALRDAAFGVGAGKPKKPKPRKSSTPGEREGPIFPETKTIAKGRAGAKPTETGAK 298 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 S+ T ++ ++ A SS + + R+ + S S + Sbjct: 299 SRATGKPTGAASKDRSTYKKSAGTGSSSRAAGKPAGSSSKDRASASKSSDSAPK 352 >gi|330989187|gb|EGH87290.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. lachrymans str. M301315] Length = 408 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 90/354 (25%), Positives = 139/354 (39%), Gaps = 15/354 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VD +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATP-----VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + + P R + + S P Sbjct: 302 PATGDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 355 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDIVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPTSSGKRFTSPGRKKKGR 289 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 115/236 (48%), Gaps = 5/236 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AG+ SRR +R+I + RV VNG V ++D + VDG + Sbjct: 2 EAVRINKYLSEAGVCSRRGADRLIEEGRVSVNGNHAF-LGSVVKNSDEVRVDGNLVTPVI 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L ++KP G+V T +DP + + R+ VGRLD +EGL+LL+NDG L+ Sbjct: 61 KKILIAFNKPRGIVCTTADPKSKDVNIIEYINYPERIFPVGRLDKESEGLILLSNDGDLS 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V D + L + +G+ I + ++ + Sbjct: 121 NKIMKARNFHEKEYEVEVDKPFDDEFLKKMSEGVPILDTITRKCTL----KRTGKTSFNI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 L +G NR+I+++ E+F +KV +L RI +LG L +G+ R ++ K E + Sbjct: 177 ILTQGLNRQIRRMCEYFGYKVLKLKRIRIMNIKLGNLKSGTYRNITDKEYEELIKE 232 >gi|297583540|ref|YP_003699320.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297141997|gb|ADH98754.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 236 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 59/236 (25%), Positives = 105/236 (44%), Gaps = 5/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 RV K++A G SR++V++++ + VNG +++ A +V TD + G P+ E Sbjct: 1 MRVDKLLAHVGYGSRKDVKQLLKKGLFTVNGEVVKSAKAHVDPETDDLAFGGEPILYREH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ L T + + VGRLD +T GLLLLTNDG A Sbjct: 61 LYVMMHKPAGVLSATEDVSERTVVDLLEEEDRLFQPFPVGRLDKDTTGLLLLTNDGKWAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P+ + + Y V V + + L++G+ + + S + + + Sbjct: 121 GITSPARKIPKTYEVLTAEPVTDEMADQLQQGVTLDDGYETRPA--GVAFPDESRSRLYL 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EGK ++K++ V+ L RI G L L AG+ RE+++K + Sbjct: 179 TIDEGKYHQVKRMLAAVGNHVDGLKRIRIGGLPLDESLEAGTYRELTEKEIEAFQN 234 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 80/348 (22%), Positives = 132/348 (37%), Gaps = 11/348 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----KA 70 ++ KV+A AGI SRRE+E +I RV VNG V + D + V+G + K Sbjct: 3 KLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAANDQVRVNGKLISRPNAKK 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +V+ + + +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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK-----ILREQ 244 V L+EG+NRE++++FE V+RLIR +G L +L G E+ +++ Sbjct: 182 VTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDLVLPRSLRRGRWEELDASLVSALMVQLG 241 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L E S ++ + + + R+ + + G S + Sbjct: 242 LLRDEEESGGRRKSRQPQSHDSALPPGFGTMERNGMNGARIGRRGKLQGGRSASSATSPS 301 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 H + + P+ K + Sbjct: 302 DPFGTGLMFAGGYANGHPLGNDAPSKAKPAGASKPARGRKPGSGGGTQ 349 >gi|313622662|gb|EFR93029.1| RNA pseudouridine synthase family protein [Listeria innocua FSL J1-023] Length = 233 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPEKDQVTVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + G+ + + + T + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK +IK++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQIKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTENEL 227 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 102/241 (42%), Gaps = 9/241 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKA 70 R+ K +A +G+ SR EV+ ++ + RV V G + V + DG L Sbjct: 30 KDMRLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQVAFDGEILDYQ 89 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + T + + + VGRLD NTEGLL+LTNDG L Sbjct: 90 EYYYYLLNKPQGLVSATKDNLFKTVVQLLSEKDFREDIFPVGRLDKNTEGLLILTNDGAL 149 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------QK 183 L P + Y R G+V + +N +G+ ++ G ++ ++ Q Sbjct: 150 GHDLTQPKKHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGELFIENIYKGESQS 209 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 G + + V + EGK ++K++FE V L RI G L L G+ R ++ + + Sbjct: 210 GWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLTTEEIE 269 Query: 243 E 243 Sbjct: 270 N 270 >gi|312863597|ref|ZP_07723835.1| pseudouridylate synthase [Streptococcus vestibularis F0396] gi|311101133|gb|EFQ59338.1| pseudouridylate synthase [Streptococcus vestibularis F0396] Length = 243 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 106/234 (45%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG L + D I L Sbjct: 1 MRLDKFLVDCGVGSRSQVKNFLKKKQVTVNGQLETSPKTQIDENKDRIAYLDQELTHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATENPRHKTVLDLLDDTARHKQVFPVGRLDIDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + P ++Y+ + G +D++ + +KGI ++ ++ + + S +WV Sbjct: 121 AMLSPKKHVDKIYQAKVAGVMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNESTSWVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK ++K++ +V L R+S GP L L G+ R ++++ L Sbjct: 181 ITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSLPNDLELGTWRRLTEEELEA 234 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 54/236 (22%), Positives = 108/236 (45%), Gaps = 13/236 (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+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTTERHIRGNIIDFI--NHPERIFPIGRLDKDSEGLILLTNDGSIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQKGSNA 187 + + + Y V + ++ + + KG+ I + ++ ++ Sbjct: 118 ILAEENKHEKDYIVTVNKKITPSFIEGMSKGVKIYNPVKNKDTMTKRCKLVRI----NDR 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ F ++V +L R+ L L G R ++++ +++ Sbjct: 174 TFKITLCQGLNRQIRRMCTHFGYRVVKLKRVRIMNLTLKDLTIGKWRNLTEEEVKD 229 >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 = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 108/234 (46%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ ++V VNG + + D I V G L Sbjct: 1 MRLDKFLVDCGVGSRTEVKKLLKNKQVTVNGQVETSPKQQIDEKSDQIAVAGQVLSHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYVLNKPKGVISATEDDRHRTVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 V+ P ++YR + G + Q+ + GI ++ + Q+T+ + + + V Sbjct: 121 VMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIELKDLTCQPAQLTILSTDEAKQTSLVD 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + +REGK ++K++ + V L R++ GP +L L G R ++ L++ Sbjct: 181 ITIREGKFHQVKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQ 234 >gi|313617518|gb|EFR89863.1| RNA pseudouridine synthase family protein [Listeria innocua FSL S4-378] Length = 233 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 100/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVIYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNLSETVIDLLEQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G+V + + G+ + + + T + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGEVTAEDVEAFSAGVTLDDGYTCKPAHLEIITPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTENEL 227 >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 = 174 bits (441), Expect = 1e-41, Method: Composition-based stats. Identities = 59/293 (20%), Positives = 114/293 (38%), Gaps = 5/293 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + + Sbjct: 5 SSTRLNKYISESGICSRRDADRYIEQGNVFINGKRASV-GAQVFAGDVVKVNGQLIEPRD 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L + + +G + + RV +GRLD +++GL+ LTN G L Sbjct: 64 EDDLVLIALNKPVGIITTMEEGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + + + + G+ + G +K + + Sbjct: 124 NKILRAGNNHEKEYVVTVDKPITDEFIAGMSAGVPMLGTV----TKKCKVKKEAPFVFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 180 TLVQGLNRQIRRMCKHFGFEVTKLERTRIMNVNLKGLPLGEWRDLTDDELVELFKLLENS 239 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 ++ + V + S +S+K + +K Sbjct: 240 SSEDKPAKKAKAPAKAVAAKKPQKSAAKPAEKADAAGASRKRFVQPGRKKKGR 292 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + GI + ++ + T + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTATDVEAFAAGIELDDGYTCKPARLEIITPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTETEL 227 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 104/235 (44%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I G L + Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIAFMGEILTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T D + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL--DTQKGSNAWV 189 L P + Y G V + L +G + G ++ + ++ + V Sbjct: 121 QLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTSVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ V L R+ G L L G R +++ L++ Sbjct: 181 RLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAELQQ 235 >gi|302188863|ref|ZP_07265536.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae 642] Length = 409 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 90/355 (25%), Positives = 141/355 (39%), Gaps = 16/355 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKKLATPV------HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + ++ R + + + S P Sbjct: 302 PATGGERAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPPKTSRGTP 356 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 115/241 (47%), Gaps = 13/241 (5%) 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 RV GRLD ++EGLL++TNDG L Sbjct: 61 VVLAVNKPAGIVCT--GDMKVKNNIIRFLHYPVRVTYAGRLDKDSEGLLIMTNDGELINS 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC------YGDMQVTLDTQKGSNA 187 + + Y VR ++ + + + +G+ IQ + +V ++ Sbjct: 119 MMRARYHHEKEYHVRVDKEITSEFVRQMSEGVHIQDVEKNLDAVTRPCEV----KQIGKY 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 ++ L +G NR+I+++ E +KV +L+RI +LG+L +G+ R++ + L++ Sbjct: 175 TFSIILTQGLNRQIRRMCEALGYKVTKLVRIRIMNVELGSLKSGAVRKIEGQELKKLYEQ 234 Query: 248 H 248 Sbjct: 235 A 235 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 61/292 (20%), Positives = 113/292 (38%), Gaps = 5/292 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 6 SIRLNKYIGESGICSRRDADRYIEQGNVFINGKRASV-GDRVFAGDVVKVNGQLIEPRNE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + +G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVVIALNKPVGIISTTEEGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V ++ + L G+ + G +K S + Sbjct: 125 KILRAGNDHEKEYLVTVNKPVTEEFIRGLGAGVPMLGTV----TKKCKVKKESTFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V++L R L L G R+++ L E Sbjct: 181 LVQGLNRQIRRMSEHFGYEVSKLERTRIMNVSLKGLPPGEWRDLTDDELIELFKLIENSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 ++ T + ++ T + +K +K Sbjct: 241 SEDGTAKKTKPKATTAKKPAASGAKGGAKATGNANPAPRKRFAQPGRKKKGR 292 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 58/228 (25%), Positives = 111/228 (48%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ GI SRR ++ I RV +NG L + S+D ++VDG + + + Sbjct: 1 MRINKFLSETGITSRRGADKFIEAGRVTINGNLA-ELGSKIESSDEVKVDGKVIEQPNQQ 59 Query: 74 R-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP+G+ +T + V + + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 YVYLALNKPVGITSTTERHIEGNIV--DFVNHAERIFHIGRLDKDSEGLILLTNDGDIVN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V+ + + L+ +++G+ I + +K S+ + Sbjct: 118 EILRVENEHEKEYVVKVDMPITESFLSKMEEGVEILDTKTLPAKA----EKLSSYTFKLT 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 LR+G NR+I+++ ++V L R+ LG L G R+++ Sbjct: 174 LRQGLNRQIRRMCTALGYEVRSLKRVRIINIFLGDLPVGEWRDLTDVE 221 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 109/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + ++ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAQQFTDGVQLHNEESLTKPARLEVIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 L EG+ ++K++F +V L R G +L L G R ++++ + PH Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVLELHRERIGEIKLDDDLAPGEYRPLTEEEIASVGAPH 234 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 109/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + +D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEHPLAEDTAQQFADGVQLHNEQSLTKPAQLEVIEPQ----VVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G +L L G R ++ + + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVLELHRERIGEIKLDDDLAPGEYRPLTAEEIASVGAPH 234 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 106/230 (46%), Positives = 148/230 (64%), Gaps = 2/230 (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+ D + K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKSDILLKSN-YKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILENH 230 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 69/345 (20%), Positives = 128/345 (37%), Gaps = 15/345 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 ++K I+ G SRRE + +I RV +N D +EVDG + A Sbjct: 2 DQSISLNKFISDTGYCSRREADNLITSGRVLLNDRPAA-LGNRYKPGDTVEVDGSLITAA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ + T + + + R+ +GRLD ++EGL+ LTNDG + Sbjct: 61 KKEKRVYLALNKPPGITTTTELHIKDNIISFVNYPQRIFPIGRLDKDSEGLIFLTNDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + Y VR + +D + L+ + +G+ I +V + Sbjct: 121 INKILRAANNHEKEYVVRVNKPIDTNFLHQMSQGVPILDTRTLPCKVQM----TGRQTFR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+ + V L R+ +L L G R +S+ + + Sbjct: 177 ITLTQGLNRQIRRMCEYLGYTVVGLQRVRIMNVRLDKLPLGKWRYLSEAEI------AFI 230 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 +E+ + R V + ++ + + K++A P R Sbjct: 231 KESVADSTKVSG-ESKPSGARRKTAKPVEEKEHLRTGSTPKNKPATGHKRVAAPAKHREE 289 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRS--PSFPSKRSLRRTSAK 353 +M K S + HR P+F K K Sbjct: 290 QEPAFMPKN-KPSAGHNRAAAPAKHREQQEPAFTPKNKSSTHKHK 333 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 54/234 (23%), Positives = 108/234 (46%), Gaps = 8/234 (3%) Query: 11 FTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 PQ R++K ++ AG SRR +++I Q+RV +NG++ + D + VDG + Sbjct: 2 SEPQLTRINKFLSEAGYCSRRAADKLIEQRRVTINGVVPA-MGTKIAPGDEVRVDGELIS 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ++L + +D + + SR+ +GRLD +EGL+ LT+DG Sbjct: 61 DPKEKPVYLAFNKPIGIVCTTDTKVEKDNIIDYINYPSRIFPIGRLDKPSEGLIFLTSDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + D + + GI I G + ++ + Sbjct: 121 DIVNKILRARNNHEKEYEVTVNRPITSDFIQKMGNGIPILGTLTRKCK----VEQLTKYT 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ E+ +++V +L R L + G R ++++ L+ Sbjct: 177 FKIILTQGLNRQIRRMCEYLDYRVVKLKRTRIMNVSL-DIPVGKWRHLTEEELQ 229 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 87/357 (24%), Positives = 152/357 (42%), Gaps = 13/357 (3%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M ++++ TP +++ KV+AR G+ SRR+VE I+Q R+KVNG+ V Sbjct: 1 MSEQDLQNTEITPPAGEKLQKVLARIGVGSRRDVEAWISQGRIKVNGVEAT-LGQRVDLH 59 Query: 58 DHIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D I VDG +++ E R + + T + 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 GDMQVTLDTQ-KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLA 230 + +G N W + EG+NRE+++++E V+RL R+ +GP L L Sbjct: 180 KFTDIQKAPGGEGFNHWYHCVVMEGRNREVRRLWESQGMVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE+++ + + L + + + + + + R + + + Sbjct: 240 GRWREMTQGEI-DILAAEVGLQPVALPAMNLKAKDKMERLQRKSTRPMGRSERVRSLRPA 298 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 Q+ + ++ P + A S + + + + + K Sbjct: 299 QEA-AAAERPARQPREEAPRKGSRGSAVAERPSEMRKRPAKTDGDKPAGRGRGKPRG 354 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 62/250 (24%), Positives = 110/250 (44%), Gaps = 1/250 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K I + P R++K +A AG+ SRRE + I V VNG ++ ++ TD + Sbjct: 201 IEYKEINYDPNEPLRLNKFLANAGVCSRREADEFIQAGVVSVNGEIVTELGTKILRTDVV 260 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ ++ + L + T+ ++ + + R+ VGRLD NT G Sbjct: 261 KFHDQPVNIEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNACPERIYPVGRLDRNTTG 320 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V L + +GI ++ V Sbjct: 321 VLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNVTAHDLAQIAEGIQLEDGEIKADDVQYA 380 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 381 HPTDKKQ-VGIEIHSGKNRIVRRIFESLGYRVQKLDRVQFAGLTKKNLKRGDWRYLTEEE 439 Query: 241 LREQLGPHLL 250 + Sbjct: 440 VDRLRMGAYE 449 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 62/292 (21%), Positives = 116/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVAVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A T ++ I + + + K+K Sbjct: 238 RSSSEAKPKAKAKPKTTGIKRPVVAIEKSNEKARPTSSGKRFTSPGRKKKGR 289 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 78/231 (33%), Positives = 120/231 (51%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + Sbjct: 4 ERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIERESHH 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y +++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 64 TYLFYKPRG-VISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGELANL 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + +VY + G + D++ LKKG+ I QV + V + Sbjct: 123 LMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPAQVKVLKTNPRAQTQIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG ++K++F+ N V++L R Y L L +G RE++ K + Sbjct: 183 TIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNHKEVD 233 >gi|52424446|ref|YP_087583.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] gi|52306498|gb|AAU36998.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] Length = 246 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 52/232 (22%), Positives = 106/232 (45%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V+VNG +++ ++ + D + +G L E Sbjct: 17 MRLDKFLAENTGLTRSQAAKILRQGNVQVNGQVVKSGSLKITPQDEVLFEGESLEWLEDG 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G V +H D + + + ++ + GRLD +T GL+LLT+DG + Sbjct: 77 VYIMLNKPQGYVCSHDDGEYPTVYQFFDYPLAGKLHTAGRLDADTSGLVLLTDDGKWSHR 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ + ++GI+++G + + + V + Sbjct: 137 VTSPKYHCQKTYLVTLADPVESNYRQACEQGILLRGEKEPTKPAILEII----DDYNVNL 192 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G +L L G R ++ + ++ Sbjct: 193 TISEGRYHQVKRMFAALGNKVVGLHRWKIGNIELDEDLPEGEFRVLTAEEIQ 244 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 105/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + +KG+ + G ++ + + V + Sbjct: 131 ITAPKHHCEKTYLVTLEEPIGEGVAEQFQKGVQLNGEKDLTKPAKLEIL----TPTEVKL 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + EGK ++K++F V+ L R G L L G R ++++ + P Sbjct: 187 TISEGKYHQVKRMFAAVGNHVSALHRERIGDITLDETLAEGEYRPLTEEEINSIHLPQ 244 >gi|325688986|gb|EGD30994.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK115] Length = 242 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 64/232 (27%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 V+ P ++YR + G ++Q GI ++ Q+ + + + V Sbjct: 121 VMLSPKKHVEKIYRAQVAGLMNQADEERFAAGIELKDFTCQPAQLKILELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ GP QL L G R +++K + Sbjct: 181 ITLAEGKFHQVKRMVASCGKEVTDLQRLTMGPLQLDPALALGEWRRLTEKEI 232 >gi|254818897|ref|ZP_05223898.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium intracellulare ATCC 13950] Length = 247 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 111/236 (47%), Gaps = 4/236 (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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R GP LG GS R + + + Sbjct: 183 KTLVRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGPVSLGKQRPGSFRALGRDEI 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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 71/222 (31%), Positives = 116/222 (52%), Gaps = 2/222 (0%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLY 78 +A+ G+ASRR+ E +I Q RVKVNG + + V D +EVDG + + + Sbjct: 1 MAQCGVASRRKCEEIILQGRVKVNGKTVNQLGFKVDPEKDVVEVDGKRISLQMQKVYIML 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G++++ D GR TV D + + 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|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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 83/237 (35%), Positives = 118/237 (49%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A GIASRR+ E +I +V VNG +++R V D IEV G PL Sbjct: 5 IRLQKLLAEHGIASRRKAEALIVSGQVCVNGTVVDRLGTRVDPQIDLIEVFGQPLHCMPP 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGG 129 L HKP+G ++T DP GR TV D L + VGRLD ++ G L+++NDG Sbjct: 65 LLYVLLHKPVGWLSTCFDPRGRRTVLDLLPAEWRTGQGLHPVGRLDCDSSGALIVSNDGE 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P Q + YRV G+ L + G+V++G VT+ ++ + Sbjct: 125 FTFRLTHPRHQLPKTYRVWVRGRPTAAVLGRWRAGVVLEGQKTLPAAVTVVSRAAEATEL 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V L EG+NR+I+KV E V RL R + GP L L G+ R +S + L Sbjct: 185 EVVLVEGRNRQIRKVAELLGHPVERLHRTAIGPVALAGLPPGAHRLLSASQIERLLQ 241 >gi|328944867|gb|EGG39027.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1087] Length = 242 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIAVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPRGVISATEDDRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + P ++YR + G ++Q + GI ++ + + ++ ++ V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEDSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ GP QL L G R ++++ + Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALALGEWRRLTEEEM 232 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R ++I Q V V+GI++++ A ++ +E DGV L +R Sbjct: 1 MRLDKFLCDCSDLTRSLAGKLIRQGEVMVDGIVVKQPAFHINEQSQVEFDGVTLTLDQRN 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V ++ DPD + F ++ VGRLD++T GL+L+T+DG + Sbjct: 61 RYFMLHKPEGYVCSNEDPDHPTVFFLMDEPAMGKLHVVGRLDLDTTGLVLVTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V V D + L +G+++ + Q+ + + Sbjct: 121 ITSPRHECAKTYHVWLADPVSPDAIALFAEGVLLRSETEKTRPAQLEIL----GECEARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G RE++ + Sbjct: 177 TIHEGKYHQVKRMFAAIGNKVVGLHRERVGGLTLDEELAPGEYRELTADEI 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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 107/231 (46%), Gaps = 3/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G +R+E++ ++ VK+NG +++ +++ + IEV G + + Sbjct: 9 RIDKILANLGFGTRKEIKAVVKNGEVKINGTVIKDSSMKIDPDKSTIEVGGNVVEYKKNI 68 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + T + D + VGRLD +TEGLLL+TNDG L Sbjct: 69 YLLMNKPQGVVSATFDNYDETVIDILEPEYQAFKPFPVGRLDKDTEGLLLITNDGELNHR 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 + P +VY +D+ +N KKGI ++ ++ + A V V Sbjct: 129 MISPKNHVDKVYYAEIDKYLDERDVNRFKKGIQLKDGYKCLPGKLHIIESDEDGAKVEVT 188 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++EGK ++K++F V L RI +GP L L G RE+SK + Sbjct: 189 IQEGKFHQVKRMFNALGKNVVYLKRIKFGPIDLDKDLNLGQYRELSKNEIE 239 >gi|332365802|gb|EGJ43559.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK355] Length = 242 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDETADEIIVSGQRLIYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISVTEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFICQPAQLKIVELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + L EGK ++K++ +V L R+ GP QL + L G R +++ + Sbjct: 181 ITLAEGKFHQVKRMVASCGKEVTDLQRLRMGPLQLDSALSLGEWRRLTEAEI 232 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 53/265 (20%), Positives = 103/265 (38%), Gaps = 6/265 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R++K ++ G SRR +++I Q RV +NG + + D + V+G + Sbjct: 2 EERKQTRINKYLSEVGYCSRRAADKLIEQGRVTINGRIP-EMGTKISQGDEVHVNGELIS 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +++ + +D + + SR+ +GRLD +EGL+ LTNDG Sbjct: 61 APTEKPVYIAFNKPVGIVCTTDTRVEKDNIIDYINYPSRIFPIGRLDKPSEGLIFLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + + G+ I ++ S Sbjct: 121 DIVNKILRARNNHEKEYEVWVDRPITPSFIQQMGNGVPILDTVTRTCH----VEQLSRFS 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E +++V RL R L + G R ++++ ++E Sbjct: 177 FKIILTQGLNRQIRRMCEALDYEVTRLKRNRIMNVSL-DVEEGKWRYITEEEMKEIYVLV 235 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPN 273 E + L R Sbjct: 236 ADSEKTQAEKDAEPKFKDLRSSRNR 260 >gi|304395011|ref|ZP_07376895.1| pseudouridine synthase [Pantoea sp. aB] gi|304357264|gb|EFM21627.1| pseudouridine synthase [Pantoea sp. aB] Length = 292 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 57/295 (19%), Positives = 111/295 (37%), Gaps = 5/295 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TDSSTRLNKYISESGICSRRDADRYIEQGNVFINGKRASV-GAQVFAGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + +G + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDEDDLVLIALNKPVGIITTMEEGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ + G +K + Sbjct: 122 LVNKILRAGNNHEKEYVVTVDKPITDEFIAGMSAGVPMLGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 178 RITLVQGLNRQIRRMCKHFGFEVTKLERTRIMNVNLKGLPLGEWRDLTDDELVELFKLLE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 ++ + +S+K + +K Sbjct: 238 NSSSEDKPAKKAKAPAKAAAASKPQKRAAKPAEKADANGASRKRFVQPGRKKKGR 292 >gi|326407871|gb|ADZ64942.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. lactis CV56] Length = 273 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 102/241 (42%), Gaps = 9/241 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKA 70 R+ K +A +G+ SR EV+ ++ + RV V G + V + DG L Sbjct: 30 KDMRLDKFLAESGLGSRSEVKILLKKGRVTVAGEVQRDGRFQVDKNSRQVAFDGEILDYQ 89 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + T + + + VGRLD NTEGLL+LTNDG L Sbjct: 90 EYYYYLLNKPQGLVSATKDNLFKTVVQLLSEKDFREDIFPVGRLDKNTEGLLILTNDGAL 149 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------QK 183 L P + Y R G+V + +N +G+ ++ G ++ ++ Q Sbjct: 150 GHDLTQPKRHVEKEYFARIDGKVTDEIVNKFAEGLTLKNGEKARPGELFIENIYKGESQS 209 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 G + + V + EGK ++K++FE V L RI G L L G+ R ++ + + Sbjct: 210 GWISEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLTTEEIE 269 Query: 243 E 243 Sbjct: 270 N 270 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 70/265 (26%), Positives = 120/265 (45%), Gaps = 8/265 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AG+ SRRE + +I Q RV V+G V I VD +R+ + Sbjct: 4 EKIRLNKYLSDAGVCSRREADSLILQGRVTVDGRKAVT-GEKVSVDQQIRVDNREIRQGQ 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +KP G++ T + + + RV VGRLD++++GL+LLTN G L Sbjct: 63 PKVLLLLNKPRGIICTAKNQ---KDNIVDFVNYPIRVYPVGRLDVDSQGLILLTNQGELV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y+V V ++ L+ + KG+ I G Q+ +K + Sbjct: 120 NKIMRAGNYHEKEYQVTVDHPVTKEFLSKMAKGVPILGTVTRPCQIKRTGEKS----FQI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E+F ++V RL R +LG L G+ REV+ + RE + Sbjct: 176 ILTQGLNRQIRRMCEYFGYRVVRLNRTRIMNLKLGKLPVGAYREVTSEEWRELQRLLVDS 235 Query: 252 EAQVNLDAPIYSSETLVRDRPNIIS 276 + + ++ Sbjct: 236 SSVPCRKTGGIYGHSSGENQRAGTK 260 >gi|213163156|ref|ZP_03348866.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] Length = 289 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 60/292 (20%), Positives = 114/292 (39%), Gaps = 5/292 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G +++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWHDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ A ++ I + + + K+K Sbjct: 238 GSSSEAKPKAKAKPKTAGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 289 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 57/234 (24%), Positives = 103/234 (44%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDSRHKTVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVT 190 + P ++Y+ + G +D++ + +KGI ++ ++ + + S + V Sbjct: 121 AMLSPKRHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSLVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK ++K++ +V L R+ GP L L G R ++++ L Sbjct: 181 ITIAEGKFHQVKRMVAACGKEVADLQRLKMGPLSLPNDLELGDWRRLTQEELDA 234 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 57/234 (24%), Positives = 103/234 (44%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDSRHKTVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVT 190 + P ++Y+ + G +D++ + +KGI ++ ++ + + S + V Sbjct: 121 AMLSPKKHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSLVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK ++K++ +V L R+ GP L L G R ++++ L Sbjct: 181 ITIAEGKFHQVKRMVAACGKEVADLQRLKMGPLSLPNDLELGDWRRLTQEELDA 234 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 79/231 (34%), Positives = 127/231 (54%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A AG+ASRR+ E++IA+ VKVNG +++ V D IEVD VP++ E+ Sbjct: 4 ERLQKVMAEAGVASRRKSEKLIAEGHVKVNGRVVKELGTKVEQHDRIEVDEVPIQ-REQN 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G++T+ SD R TV D P + R+ VGRLD +T G +L+TNDG LA Sbjct: 63 VYFLLNKPRGVITSVSDDKNRKTVMDFFPDVTERIYPVGRLDYDTSGAVLMTNDGELANR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P ++ + Y + G V+ L L++G+VI + L + + V + Sbjct: 123 LMHPKFKFEKTYTAKVKGLVNGSALKRLEEGVVIDHRKTAKAKAKLISTDLEKKTSIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+N ++KK+F V +L R SY + + +G R + ++ Sbjct: 183 TIHEGRNHQVKKMFMAVGHPVQKLHRNSYSFLSIDDVQSGKWRALKLSEVK 233 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 87/347 (25%), Positives = 144/347 (41%), Gaps = 13/347 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + PQR+ K++A AG SRRE+E +IA R+ +NG E A V +D + +D PL Sbjct: 23 DPDAVPQRLHKLLALAGFGSRREMETLIASGRITINGKTAEVGASVV-PSDVVRLDSRPL 81 Query: 68 ----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + +V+ + S + 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 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 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 ALLE-------WAELAVPKAVPRQLSPREKEKLGKVFTPKARKSRFDPEAHLESRGPRRV 314 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 T + + + S + + R + P+++ + R Sbjct: 315 TKAREEGMRQELGKQQAGRRSRHGAETEEAQRPSRQGAKPARKPVNR 361 >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 = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 108/235 (45%), Positives = 153/235 (65%), Gaps = 2/235 (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 + N K + I GI Y + L Q SN+W V L Sbjct: 122 EMPASKLKRVYNVRAYGNPNILLKNN-YKNLKIDGIFYNPHSIKLLRQNKSNSWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 EGKNREI+++FE+F +VN+LIRI YG ++G L G+ +E+S KIL +QL Sbjct: 181 EGKNREIRRIFEYFGLQVNKLIRIQYGALKIGNLKPGNYQEISNKILEKQLVMCF 235 >gi|257086025|ref|ZP_05580386.1| pseudouridine synthase [Enterococcus faecalis D6] gi|256994055|gb|EEU81357.1| pseudouridine synthase [Enterococcus faecalis D6] Length = 244 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 105/235 (44%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L + Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T D + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL--DTQKGSNAWV 189 L P + Y G V + L +G + G ++ + ++ + V Sbjct: 121 QLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEMVKPSRLVIETINEEEGTSVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ V L R+ G L L G R +++ L++ Sbjct: 181 RLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAELQQ 235 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 61/287 (21%), Positives = 113/287 (39%), Gaps = 5/287 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R I Q V +NG + V D ++V+G + Sbjct: 6 STRLNKYISESGICSRRDADRYIEQGNVFINGKRVA-LGDRVFPGDVVKVNGQLIEPRNE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + +G + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGIVSTTEEGEKDNIVDFVNHSTRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + YRV + V D + L G+ + G +K + + Sbjct: 125 KILRAGNDHEKEYRVTVNKPVTDDFIRGLGAGVPMLGTV----TKKCKVKKEAPFVFRIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R + L G R+++ L E Sbjct: 181 LVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSMAGLPPGEWRDLTDDELVELFKSIEGSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 ++ + +E P +K +Q K + Sbjct: 241 SEAKPAKKAKPAVKKPAGSAPKSTEKPAGNAAARKRFAQPGRKKKGR 287 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 237 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 296 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ +T + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 297 KFHDEPVSIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 356 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 357 VLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYA 416 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 417 SET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQE 475 Query: 241 L 241 + Sbjct: 476 V 476 >gi|227112086|ref|ZP_03825742.1| 16S rRNA pseudouridylate synthase A [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 231 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 109/231 (47%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P Q + Y V + +D G+ + +K ++ V + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPAT----LEKITDYVVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGGIYLDSELEPGEYRELSAEEI 227 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 108/231 (46%), Gaps = 9/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A G +R+EV +++ ++V+VNG++++ N+ TD + V G ++ Sbjct: 1 MRIDKFLAHMGFGTRKEVRKLLKARKVEVNGVVVKDPGYNLNVDTDKVIVKGEEVKYKPF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T +L + ++ VGRLDI+TEGLL+LT+DG LA Sbjct: 61 VYFMLNKPKGYVSATVDRRYPTVV---DLVPVHRKIFPVGRLDIDTEGLLILTDDGQLAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y ++++ + +K GI ++ + L + G T+ Sbjct: 118 HLTSPKKEVEKEYYFELDKPLEEEDFSKIKTGIRLEDNYLTKPAR--LLGKVGDKHG-TI 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F V L RI G L L G RE++ + + Sbjct: 175 VITEGKYHQVKRMFLALGKTVVYLKRIRIGGLILDNKLSPGEYRELTPEEI 225 >gi|86130476|ref|ZP_01049076.1| pseudouridylate synthase [Dokdonia donghaensis MED134] gi|85819151|gb|EAQ40310.1| pseudouridylate synthase [Dokdonia donghaensis MED134] Length = 260 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 55/265 (20%), Positives = 103/265 (38%), Gaps = 6/265 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R++K ++ AG SRR +++I Q RV +NG + + D + V+G + Sbjct: 2 EEKKQTRINKYLSEAGYCSRRAADKLIDQGRVTINGKVP-EMGTKITEGDEVRVNGELIT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +++ + +D + + SR+ +GRLD +EGL+ LTNDG Sbjct: 61 SSTEKPVYIALNKPVGIVCTTDTRVEKDNIIDFINYPSRIFPIGRLDKPSEGLIFLTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + Y V + + + G+ I ++ S Sbjct: 121 DIVNKILRARNNHEKEYEVWVDKPITPSFIQQMSNGVPILDTVTRKCH----VEQLSRFS 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E +++V RL R +L + G R +S + E Sbjct: 177 FKIILTQGLNRQIRRMCEALDYEVTRLKRNRIMNIEL-DVPVGKWRYISDTEMEEINRLV 235 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPN 273 L R+R Sbjct: 236 EDSAKTHTDAPKEPRHPNLRRNRNR 260 >gi|315103786|gb|EFT75762.1| conserved hypothetical protein [Propionibacterium acnes HL050PA2] Length = 245 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 110/241 (45%), Gaps = 2/241 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 2 SNEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRI 61 Query: 68 R-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + T R+ VGRLD T GL+LLTN Sbjct: 62 PTARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGIRLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD ++ L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQASEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLLD 241 Query: 247 P 247 Sbjct: 242 L 242 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 105/235 (44%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A GI SR+E+++++ ++ V VNG +++ A V TD I + G L + Sbjct: 1 MRLDKFLADVGIGSRKEIKQLLKKKVVTVNGDVVKEAKTQVNEETDQIALMGEILTYQKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T D + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYMLHKPQGVISATEDQRDETVIDLLTDQDYRADLFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTL--DTQKGSNAWV 189 L P + Y G V + L +G ++ ++ + ++ + V Sbjct: 121 QLLSPKKHVDKEYLAEVEGLVTAEDCQLFAQGFALKDGEIVKPSRLVIETINEEEGTSVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ V L R+ G L L G R +++ L++ Sbjct: 181 RLVIQEGKFHQVKRMLATVGKPVTYLKRLRMGELWLDETLELGGYRPLTEAELQQ 235 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDSKHRTVLDLLDDIARTKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y G + Q+ + KGI ++ ++ + + + + V Sbjct: 121 ALLSPKRHVDKTYLAHVEGIMTQEDVETFVKGIPLKDFTCQPAKLEIVSVDSVKNQSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEELE 233 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 53/231 (22%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + Y V + D G+ + G + V + Sbjct: 121 ITSPKHECDKTYLVTLEHPLADDTAEQFAHGVQLHGEKDLTKPATLEQLDAN----VVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G +L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGAIELDEDLAPGEYRPLTEEEI 227 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 121/238 (50%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D + I R+ VGRLD +T GLLL+TNDG A + Sbjct: 62 YFLFYKPRGTVSAVTDDKGRTTVADYF-ADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 238 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 61/243 (25%), Positives = 120/243 (49%), Gaps = 5/243 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++K +++AGI SRR+ + + + RV+V+G + V+ + DG P++ Sbjct: 12 KTEDAVRINKYLSQAGICSRRQADTYVEEGRVEVDGEVAVS-GTKVLPGQSVTFDGKPVK 70 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E +HKP G+V T S + + + + +R+ VGRLD +++GL+LLTNDG Sbjct: 71 IQEDLIFLAFHKPRGIVCTASKEEKDNIIDYI--NYPTRIYPVGRLDKDSQGLILLTNDG 128 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A + + Y V + ++ + ++ ++ + + I + + + + Sbjct: 129 EAANQIMKARNYHEKEYEVTVNKRITNEFIHDMRNPVPLDEINAVTRRCKVIKEGPN--E 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E F ++V +L R+ +LG L G R+++ LRE Sbjct: 187 FRIILTQGLNRQIRRMCEHFGYRVTKLKRVRVMNIKLGDLKEGRYRKLTPDELRELKKEL 246 Query: 249 LLE 251 E Sbjct: 247 KSE 249 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 59/241 (24%), Positives = 104/241 (43%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 83 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEV 142 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + L + T+ R+ + + R+ VGRLD NT G Sbjct: 143 KFHDQAVSIERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTG 202 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI + Sbjct: 203 VLLLTNDGDLASKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIQ-ADAISY 261 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 262 TDDFKKDEVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQE 321 Query: 241 L 241 + Sbjct: 322 V 322 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 82/250 (32%), Positives = 126/250 (50%), Gaps = 16/250 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC----------------YGDMQV 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 KKILREQLGP 247 + +R Sbjct: 241 EDEVRSLCSL 250 >gi|289810128|ref|ZP_06540757.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 256 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 57/257 (22%), Positives = 107/257 (41%), Gaps = 5/257 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSET 266 ++ + + Sbjct: 238 GSSSEAKPKGQSEAEDR 254 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 56/238 (23%), Positives = 108/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + Q+ + + V + Sbjct: 121 VTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLHNEKSLTKPAQLDVIEPQR----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 +REG+ ++K++F +V L R G L L G R ++ + + PH Sbjct: 177 TIREGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLTAEEIASVGAPH 234 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 61/288 (21%), Positives = 110/288 (38%), Gaps = 5/288 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 6 SIRLNKYIGESGICSRRDADRYIEQGNVFINGKRAAV-GDRVFAGDVVKVNGQLIEPRNE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 DDLVIIALNKPVGIVSTTEGGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V + + L G+ + G +K S + Sbjct: 125 KILRAGNDHEKEYLVTVNKPVTAEFIRGLGAGVPMLGTV----TKKCKVKKESTFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F + V +L R L L G R+++ L E Sbjct: 181 LVQGLNRQIRRMSEHFGYDVTKLERTRIMNVSLKGLPPGEWRDLTDDELIELFKLIENSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ T + ++V + + G K+ + Sbjct: 241 SEDAAVKKAKPKATAAKKPAASGAKVTSSANAAPRKRFAQPGRKKKGR 288 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 109/230 (47%), Gaps = 1/230 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R++K +A AG+ SRRE + I V VNG ++ VM TD ++ + ++ Sbjct: 243 PVRLNKFLANAGVCSRREADEYIQAGSVTVNGQVVTELGTKVMRTDEVKFGDNLVSLEKK 302 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ ++ + + R+ VGRLD NT G+LLLTNDG LA Sbjct: 303 VYILINKPKDCVTTSDDPQQRKTVLDLVKNACPERIYPVGRLDRNTTGVLLLTNDGDLAS 362 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY V V Q+ L + +GI ++ ++ ++ V + Sbjct: 363 KLTHPKFLKKKVYHVFLDKPVAQEDLQKIAEGIELEDGEIHADEIAYANEEDKKQ-VGIE 421 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + GKNR ++++FE ++V +L R+ + L G R +++K + Sbjct: 422 IHSGKNRIVRRIFEHLGYRVIKLDRVQFAGLTKKNLRRGDWRFLTEKEVD 471 >gi|205374821|ref|ZP_03227614.1| tRNA pseudouridine synthase A [Bacillus coahuilensis m4-4] Length = 235 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 64/227 (28%), Positives = 111/227 (48%), Gaps = 7/227 (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 +L + R+ ++GRLD ++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITSTTEKGV--KGNIIDLVNHPLRIFNIGRLDKESDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + Q+ L+ + G+ I G ++ ++ S + L Sbjct: 118 ILRAENKHEKEYFVSVDKPITQEFLDNMASGVKILGTKTLPCKI----EQISKYDFQITL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V RL R LG L G R++SKK Sbjct: 174 TQGLNRQIRRMCEALGYEVYRLQRTRIMNIHLGNLPVGQWRDLSKKE 220 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 50/231 (21%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V + + G+ + G Q+ + + + + Sbjct: 121 ITSPKHHCKKTYLVTLECPVAAETADKFLAGVQLNGEKTVTKPAQLEILEPQIA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVTALHRERIGEIILAPELEPGEYRSLTEQEI 227 >gi|254775517|ref|ZP_05217033.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium avium subsp. avium ATCC 25291] Length = 247 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 108/236 (45%), 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 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 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|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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 65/298 (21%), Positives = 115/298 (38%), Gaps = 8/298 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 NESMRLNKYISESGICSRREADRFIEQGHVFINGKRA-GIGDQVQVGDLVKVNGQVIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + G + + +RV +GRLD +++GL+ LTN G L Sbjct: 63 EADSLVLIALNKPVGIVSTTEAGEKDNIVDFVNHSTRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V V + + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPVTDEFVRGMAAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L RI L L G R+++ L + Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERIRIMNVSLKGLPVGEWRDLTDDELIDLFKLI-- 236 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 E + P + P S P + +++ + G ++ Sbjct: 237 -EDSSSEVKPAKGDKPKAAKAPAAQSAKPGQGKKPRRDDDHEIGGRPNVPGPEAFEKK 293 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 108/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+I+ G SR++V+ + ++V+G++++ +A+ V I+++G + + Sbjct: 2 ERLDKIISNLGYGSRKDVKSFAKKGIIEVDGLIVKDSAMLVDPEKSVIKINGEEVLYRKY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + TH + D NL +GRLD +T GLLLLTNDG L Sbjct: 62 IYIMMNKPDGVISATHDNRDETVIDLLNLEHQVFDPFPIGRLDKDTVGLLLLTNDGELNH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY VD+ + K GI + + + + + + + + Sbjct: 122 RLISPKWHVDKVYYAEIDKSVDEKDIKAFKDGITLDDGYKCLEANLEILSSSNDGSEIRL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++EGK ++K++FE KV L R +G L L G RE++ + L Sbjct: 182 TIQEGKFHQVKRMFEAVGKKVTYLKREEFGGLLLDPDLEEGEYRELTDEEL 232 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 73/239 (30%), Positives = 110/239 (46%), Gaps = 4/239 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGV 65 + R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG Sbjct: 1 MMVEAQGIRLQKVLSQAGIASRRAAEKLIVDGRVEVDGQVVTELGTRVDPDAAVIRVDGA 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLL 122 + E +KP G+ +T SD GR + D + + VGRLD TEGL+ Sbjct: 61 RVVLDESQVYLALNKPRGVHSTMSDDRGRPCIGDLIERRVRGNKNLFHVGRLDAETEGLI 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG LA L PS + + Y G + + L+ GI + + + Sbjct: 121 LLTNDGELAHRLMHPSHEVPKTYLATVTGSIPRGLGKTLRAGIELDDGMARVDEFAVVDA 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R GP LG GS R + + + Sbjct: 181 IPGKTLVRVTLHEGRNRIVRRLLAAAGFPVESLVRTDIGPISLGKQRPGSIRALGRDEV 239 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 103/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDQIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDNKHRTVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ ++ KGI ++ ++ L + + + V Sbjct: 121 ALLSPKRHVDKTYLAQVEGIMSQEDVDTFAKGIPLKDFTCQPAKLELVSVDPEKNQSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLALDENLERGEWRRLTKEELE 233 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 61/243 (25%), Positives = 120/243 (49%), Gaps = 5/243 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++K +++AGI SRR+ + + + RV+V+G + V+ + DG P++ Sbjct: 7 KTEDAVRINKYLSQAGICSRRQADTYVEEGRVEVDGEVAVS-GTKVLPGQSVTFDGKPVK 65 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E +HKP G+V T S + + + + +R+ VGRLD +++GL+LLTNDG Sbjct: 66 IQEDLIFLAFHKPRGIVCTASKEEKDNIIDYI--NYPTRIYPVGRLDKDSQGLILLTNDG 123 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A + + Y V + ++ + ++ ++ + + I + + + + Sbjct: 124 EAANQIMKARNYHEKEYEVTVNKRITNEFIHDMRNPVPLDEINAVTRRCKVIKEGPN--E 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E F ++V +L R+ +LG L G R+++ LRE Sbjct: 182 FRIILTQGLNRQIRRMCEHFGYRVTKLKRVRVMNIKLGDLKEGRYRKLTPDELRELKKEL 241 Query: 249 LLE 251 E Sbjct: 242 KSE 244 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 56/225 (24%), Positives = 97/225 (43%), Gaps = 1/225 (0%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ + + + Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAVSIERKIYVL 61 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T+ R+ + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 62 LNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTGVLLLTNDGDLASKLTH 121 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P ++Y V + + + + GI + T V + + G Sbjct: 122 PKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIQ-ADAISYTDDFKKDEVGIEIHSG 180 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 KNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 181 KNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQEV 225 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 106/234 (45%), Gaps = 10/234 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 R++K I++ G SRRE R+IA R+ +NG + E+ V D + +DG + E Sbjct: 1 MRINKYISQTGFCSRRETNRLIASGRITINGKVCEK-GAEVEPEDIVLIDGQEIPHNDSE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L + T + +G + SR+ ++GRLD +EGL+LLTNDG + Sbjct: 60 PVYLALNKPMGIVCTAAEEVEG---NIIRYVNYPSRIFAIGRLDKASEGLILLTNDGDIV 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + + +G+ I + +V S A + Sbjct: 117 NKMMRSEHDHEKEYVVTVDRPVTDEFMRRMSQGVEILDVVTKPCEVFRQ----SEAVFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L +G N +I+++ + ++V +L RI L L G R + ++ L + L Sbjct: 173 ILTQGLNLQIRRMCKALGYRVLKLERIRIMNITLDQLERGKWRHLEERELHKLL 226 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 82/355 (23%), Positives = 132/355 (37%), Gaps = 6/355 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ KV+A AGI SRRE+E +I RV VNG V D + V+G Sbjct: 108 KYLNSEAVMPKLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPNDQVRVNG 166 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P+ K + + +V+ S + +SVGRLD+NTEG Sbjct: 167 KPIARPNAKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEG 226 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A + P R Y VR G++D + L +GI ++ Sbjct: 227 LLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDDAQRKSLTEGIELEDGKAAFGSFEYL 286 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 GSN W V L+EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 287 GGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDIVLPRNLRRGRWEELDGS 346 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 ++ + L + S + D + M + G + Sbjct: 347 LVTALMVQLGLLRDGDESEGRRKSRQPQSHDSALPPGFGTLERNGMNGARIGRRGKLQGG 406 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + + + + G R P+K ++ Sbjct: 407 RPGSAAACPSDPFGTGLMITGGYANGHPLGNDSAAGRGGKGKPAKGKAGGDKPQR 461 >gi|327330001|gb|EGE71755.1| ribosomal large subunit pseudouridine synthase B [Propionibacterium acnes HL097PA1] Length = 245 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 110/241 (45%), Gaps = 2/241 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 2 SNEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVDQGRRVDPERDEIRVDGSRI 61 Query: 68 R-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + T R+ VGRLD T GL+LLTN Sbjct: 62 PTARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGIRLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD ++ L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLLD 241 Query: 247 P 247 Sbjct: 242 L 242 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 64/260 (24%), Positives = 121/260 (46%), Gaps = 10/260 (3%) Query: 7 VQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++EN T + R++K ++ AG+ SRRE +R+I +V V+G + V + + V Sbjct: 1 MRENQTTETTVRLNKFLSEAGVCSRREADRLIENGKVTVDGKRA-EMGMRVSPSQRVCVG 59 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 +R+ L +KP+G+V T + + +RV +GRLD ++EGLLL Sbjct: 60 KKEVRQKNEMVLLAVNKPVGIVCTEEKKE--KNNIIRFLNYPTRVTYIGRLDKDSEGLLL 117 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +TN+G + + Q + Y+V + V ++ + + +G+ I +V + Sbjct: 118 MTNNGDIINKMMRAGNQHEKEYKVTVNKPVTKEFIEKMAEGVPILDTVTRKCKVEML--- 174 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E+ +KV RL RI LG L G R+V++ +++ Sbjct: 175 -GKYKFRIILTQGLNRQIRRMCEYLGYKVTRLERIRVMNITLGELKPGEYRKVTEAEIQK 233 Query: 244 QLGPHLLEEAQVNLDAPIYS 263 + + Sbjct: 234 LYELIKDSSNETVIPKKQEQ 253 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 63/296 (21%), Positives = 120/296 (40%), Gaps = 8/296 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 2 SNSSIRLNKYISESGICSRRDADRYIEQGNVFINGKRA-VIGDQVYAGDVVKVNGQLIDA 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + D + + R+ +GRLD +++GL+ LTN G Sbjct: 61 RDEDDLVLIVLNKPVGIISTTEDSEHNNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNQGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V ++ + L G+ + G +K S Sbjct: 121 LVNKVLRAGNDHEKEYVVTVNKPVTEEFILGLGAGVPMLGTV----TKKCKVKKVSTFVF 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ ++F ++V +L R L L G R+++ L +G Sbjct: 177 NITLVQGLNRQIRRMCQYFGYEVTKLERTRIMNINLKGLPLGEWRDLNDDEL---IGLFK 233 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L E + +T S P + NS+ + ++ + Sbjct: 234 LIENSSSEGKTAKKVQTKSVTHKKTNSNGPKKAEKPDGNSASRKRFAQPGRKKKGR 289 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 107/230 (46%), Positives = 147/230 (63%), Gaps = 2/230 (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+ D + K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKSDILLKSN-YKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILENN 230 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 62/237 (26%), Positives = 105/237 (44%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++ G +R E+++ Q V+VNG +++ V+V D I +G + E Sbjct: 1 MRLDKLLGNLGYGTRSEIKKYCKQGFVRVNGAEAKKSDVHVDPENDEIVFNGELVNYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + T D + VGRLD +TEGLL++TNDG L+ Sbjct: 61 VYLLLNKPAGYVSATFDKYDPTVIDLIGEEYLPFEPFPVGRLDKDTEGLLVITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQ----VTLDTQKGS-N 186 + P + Y +VD + + +KG+ I + + + + GS Sbjct: 121 RVLSPKNHVPKKYYAIIDKEVDDMDVRIFEKGVYIGEDYTTKPSKLEVLNPFEFEDGSLG 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + V V + EGK ++K++FE +V L RI G +L L G RE++ + + Sbjct: 181 SEVHVTISEGKFHQVKRMFEAVGKEVVYLQRIQMGGLELDEELDLGEYRELTPEEVE 237 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 71/241 (29%), Positives = 127/241 (52%), Gaps = 1/241 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+++ +A G+ SRR+VE I R+ VNG L++ + ++ D + +DG P++ A Sbjct: 38 KTLRLNRYLADCGLGSRRKVEEFITTGRIAVNGNLVQDLSRQIIPGKDKVTLDGKPIQPA 97 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + +KP G V + +D GR TV+ LP ++ GRLD +EGLL TND L Sbjct: 98 KEKFYLILNKPRGYVVSQNDELGRKTVYSLLPPKGKQLAYAGRLDKESEGLLFFTNDTAL 157 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 +L P + +VYRV + ++ +LN+L+KG+ I+G + + ++ + + Sbjct: 158 INLLTHPKNKVEKVYRVDINRPLNNMELNMLRKGVEIEGGKTLPAGIFVKSKNANGMTLK 217 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EG+ R+I+++ E KV L R+ +GP +L L G R + ++ L Sbjct: 218 IVITEGRKRQIRQMIEAVGAKVTYLKRLQFGPLKLKDLPVGRWRLLEPGEVKALLSLKKE 277 Query: 251 E 251 + Sbjct: 278 K 278 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 74/337 (21%), Positives = 133/337 (39%), Gaps = 3/337 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ +V+A G+ASRR+ E +I RV V+G ++ V V I VDG LR R Sbjct: 2 ERLQRVLAAHGVASRRKAEELITAGRVTVDGQVVRELGVRVDPERQEIRVDGKRLRPERR 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L P + T + R+ + +L + RV+ GRLD T GLLLLTNDG L Sbjct: 62 RYIMLNKPPGYITTVSDERGRRTVM--DLVQVPERVVPAGRLDRPTAGLLLLTNDGDLLF 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 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 A P + +R + S +++ + Sbjct: 240 ASAGRPLPEPGRRSDPGERRGEPRRSGPTRRGERPAPSGARPPARRGERRGGPGTGPRER 299 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 G + + +R Sbjct: 300 FGRGRGGERGARRPPGRRDRRPGGGRQDHRGERGGPP 336 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 59/256 (23%), Positives = 105/256 (41%), Gaps = 5/256 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYIEQGNVFINGKRAAV-GDQVYVGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + DG S + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDENDLVLIALNKPVGIISTTEDGESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +K + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGLGAGVPMLGTV----TKKCKVKKEAAFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 ++ L +G NR+I+++ + F ++V +L R L L G R+++ L E Sbjct: 178 SITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGLPQGEWRDLTDDELTELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSE 265 + S Sbjct: 238 NSSSDEKPYKKAESQS 253 >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 = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 75/239 (31%), Positives = 118/239 (49%) 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V L EG+ ++++ V L+R GP +LG G R ++K + + Sbjct: 246 EVILHEGRKHIVRRMLAEAGHPVLSLVRTQIGPIRLGDTKPGKFRRLTKGEVGDLHTAA 304 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 134/244 (54%), Positives = 170/244 (69%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 KD + R++K + R+G+ASRR+ ERMI + RV++NG ++ A V D ++ Sbjct: 3 KDASPAPTTPHGDRIAKWLGRSGVASRRDAERMIEEGRVRLNGDIVRHPATFVSDGDIVQ 62 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VD + +RTRLW YHKP GLVTTH DPDGR TVF +LP RVISVGRLD+N+EGL Sbjct: 63 VDDKVIAAPDRTRLWRYHKPDGLVTTHRDPDGRPTVFASLPEGMPRVISVGRLDLNSEGL 122 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG LAR LELPS W+R YRVR G V++D+L L +G V +G+ YG ++ LD+ Sbjct: 123 LLLTNDGELARKLELPSNGWIRRYRVRVFGVVNEDQLADLAQGSVFEGVHYGPIEAALDS 182 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G NAW+TV LREGKNREI+KV N V+RLIR SYGPFQLGTL EV+ K+L Sbjct: 183 SRGDNAWLTVSLREGKNREIRKVMRGLNLHVSRLIRTSYGPFQLGTLEREELEEVTGKVL 242 Query: 242 REQL 245 REQ+ Sbjct: 243 REQV 246 >gi|332093194|gb|EGI98254.1| ribosomal small subunit pseudouridine synthase A [Shigella boydii 5216-82] Length = 231 Score = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDPKHRTVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ + KGI ++ ++ + + + V Sbjct: 121 ALLSPKRHVDKTYLAQVEGIMSQEDVETFAKGIPLKDFTCQPAKLEFVSVDPEKNQSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ F +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVAFCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEELE 233 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + ++ + + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVVAEDVTAFADGITLDDGYTCKPARLEIINPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTETEL 227 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 76/238 (31%), Positives = 120/238 (50%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E +I + +V VNG ++ V V ++ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAETLIKEGKVTVNGKVVTELGVKVSGSERIEVEGIQLTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D + I R+ VGRLD +T GLLL+TNDG A + Sbjct: 62 YFLFYKPRGTVSAVTDDKGRTTVADYF-TDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKIRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 238 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D + G+ + G + + S V + Sbjct: 121 ITSPKHHCEKTYLVTLDQPLAPDTAEKFQAGVQLHGEQSLTRPATLEII----SEHQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L AG R ++ + + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVALHRERIGAITLDDALEAGEYRPLTPEEI 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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 130/347 (37%), Positives = 184/347 (53%), Gaps = 4/347 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K +A AG+ SRRE ER+I + V VNG +L+ AA V + I V+G + Sbjct: 31 SKGERIAKWLAAAGVCSRREAERLIEEGLVAVNGQVLDSAAFKVTGNEKITVEGKRVGGP 90 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++TRLW +HKP GLVTT+SDP+GR TVF++LP RV+++GRLD+NTEGLLLLTNDG L Sbjct: 91 DKTRLWRFHKPKGLVTTNSDPEGRPTVFEHLPKKLPRVMTIGRLDLNTEGLLLLTNDGEL 150 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 AR LELP+T R YR R G++ Q +L+ L++G++ +G+ Y + TLD KG N W+ Sbjct: 151 ARTLELPTTGLKRCYRARAFGKITQAELDKLQEGVLFEGVVYRSIIATLDKTKGDNNWID 210 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI-LREQLGPHL 249 + L EGK RE ++ E VNRLIR+SYGPF+LG L+ G E+ L E Sbjct: 211 MTLTEGKKREARRALESVGLIVNRLIRVSYGPFELGDLVEGGVAEIPAGELLSEFGDSIS 270 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + P E + R + T K + + +K P R Sbjct: 271 RKRRPDPASVPQSYLEPDTKRRRTKGRDEDTSQTAPAKKPAATIKPLRGEKFEKPSSGRE 330 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRR---SPSFPSKRSLRRTSAK 353 A + H G R P+ P + + + AK Sbjct: 331 PAQRSHKRQTPHRYAALREGAETNPEPRDFSKPAKPGEAVVPASLAK 377 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 57/238 (23%), Positives = 110/238 (46%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + +D +G+ + Q +K + V + Sbjct: 121 VTSPKHHCEKTYLVTLEHPLAEDTAQQFAEGVQLHNEKDLTRPAQ----LEKIEDTLVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G + L G R ++++ + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGAIVMDEDLAPGEYRPLTEEEIASVGAPH 234 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 107/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D G+ + Q+ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLEHPVADDTAEQFAVGVQLHNEPTLTKPAQLEVIEPQQ----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G + L G R ++++ + PH Sbjct: 177 TISEGRYHQVKRMFGAVGNRVVALHRERIGAIVMDDDLAPGEYRPLTEEEIASVGAPH 234 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRVEKSPKTQIDETADEIIVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G + Q ++ GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMKQADVDRFAAGIELKDFTCQPAQLKVLELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ GP QL + G R ++++ + Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPAVALGEWRRLTEEEM 232 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 76/242 (31%), Positives = 116/242 (47%), 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 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGL 130 + +KP G +TT SDP GR TV + +PS 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|297570484|ref|YP_003691828.1| pseudouridine synthase [Desulfurivibrio alkaliphilus AHT2] gi|296926399|gb|ADH87209.1| pseudouridine synthase [Desulfurivibrio alkaliphilus AHT2] Length = 240 Score = 173 bits (439), Expect = 3e-41, 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|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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 59/263 (22%), Positives = 115/263 (43%), Gaps = 11/263 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN T R++K ++ G SRRE ++++ + R+ +NG ++ V D + VDG Sbjct: 1 MEENLT--RINKFLSETGHCSRREADKLLDEGRITING-IVPEMGTKVSHHDEVRVDGKL 57 Query: 67 LRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +R+ E+ ++KP+G+ T + + V + R+ +GRLD +EGL+ +T Sbjct: 58 VREKTEKPVYLAFNKPVGIECTTNLDVRYNIVDFI--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-DIPVGRYRDLTDAEITELN 230 Query: 246 GPHLLEEAQVNLDAPIYSSETLV 268 P + Sbjct: 231 NLIEPSSKTEEASFPKVEAPKRR 253 >gi|332884211|gb|EGK04479.1| hypothetical protein HMPREF9456_00806 [Dysgonomonas mossii DSM 22836] Length = 289 Score = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 64/297 (21%), Positives = 125/297 (42%), Gaps = 10/297 (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 + + R+ +GRLD +++GL++LTN+G + Sbjct: 60 VFIAYNKPVGIVSTTDLDE--PNNIIDAVGHDERIFPIGRLDKDSQGLIILTNEGDMVNK 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 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL--SKQKKLATPVHRR 308 + + + + +++G K R+ Sbjct: 233 KTESAPKKKTKPQEAKTPQPKGKSANSYKEKKTPTGYKESGSGMRNGKSSVKKKTRK 289 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 65/241 (26%), Positives = 110/241 (45%), Gaps = 6/241 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRRE +RM+ Q R+ VNG + V D I VDGV +RK E Sbjct: 4 RINKYLSEVGFCSRREADRMLEQGRITVNGNIP-EMGTKVSGEDEILVDGVSIRKVEEEH 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +++ + +D + R+ +GRLD +EGL+LLT+DG + + Sbjct: 63 VYIALNKPVGIVCTTDTKRERDNIVEFVNHPKRIFPIGRLDKPSEGLILLTSDGDIVNKI 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y VR + L+ ++ G+ I GI + ++ + L Sbjct: 123 LRARNNHEKEYIVRVDKPISPQFLHKMRNGVPILGIITNKCE----VEQIDTLSFRIILT 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I+++ E+ ++V +L RI +L L G R++S + L E E Sbjct: 179 QGLNRQIRRMCEYLGYEVKKLKRIRIMNIKL-DLPIGKWRDLSAQELAELNALLGDSEKT 237 Query: 255 V 255 V Sbjct: 238 V 238 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 77/232 (33%), Positives = 122/232 (52%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG +++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVKELGVKVSGTERIEVEGIQLTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D + I R+ VGRLD +T GLLL+TNDG A + Sbjct: 62 YFLFYKPRGTVSAVTDDKGRTTVADYF-ADIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQ 232 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 100/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + ++ + T + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTAEDVEAFAAGIELDDGYTCKPARLEIITPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKSVSYLKRISMGNLQLDESLALGEYRPLTEAEL 227 >gi|313623106|gb|EFR93379.1| ribosomal large subunit pseudouridine synthase B [Listeria innocua FSL J1-023] Length = 244 Score = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 76/238 (31%), Positives = 121/238 (50%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGVTSRRKAEKLIQEGKVTVNGKVVTELGVKVTGTERIEVEGIQLTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D + I R+ VGRLD +T GLLL+TNDG A + Sbjct: 62 YFLFYKPRGTVSAVTDDKGRTTVADYF-TDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLAREEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 238 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 65/226 (28%), Positives = 109/226 (48%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I++ RV VNG + + V D I V G LR A Sbjct: 5 RLNKFISESGKASRRGADKLISEGRVTVNGKVAKV-GDQVKPGDDIRVSGQQLRIARNNV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T +L + R+ VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITSTSEKKV--KGNIIDLVNHPLRIHHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + + +G+ I G +VT S + L Sbjct: 122 LRAENKHEKEYIVAVDKPITPEFIKNMSEGVKILGTKTLPCKVTQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V RL R L L G R+++KK Sbjct: 178 QGLNRQIRRMCEVLGYEVYRLQRTRIMNIHLNNLPVGQWRDLTKKE 223 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 78/231 (33%), Positives = 121/231 (52%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + Sbjct: 4 ERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIERESHH 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y +++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 64 TYLFYKPRG-VISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGELANL 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + +VY + G + D++ LKKG+ I QV + V + Sbjct: 123 LMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPAQVKVLKTNPRAQTQIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG ++K++F+ N V++L R Y L L +G RE+++K + Sbjct: 183 TIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNRKEVD 233 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 61/242 (25%), Positives = 108/242 (44%), Gaps = 1/242 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I+ V VNG ++ V+ +D + Sbjct: 242 IEYKETHIDPNEPIRLNKYLANAGVCSRREADEFISAGVVSVNGTVVTELGTKVLRSDEV 301 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + ++ + L + T+ ++ + R+ VGRLD NT G Sbjct: 302 KFHDQLVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTG 361 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P +VY V V ++ L + GI ++ Sbjct: 362 VLLLTNDGDLASKLTHPKFLKKKVYHVHLDKNVAEEDLQKIASGIELEDGEIH-ADAIEY 420 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V + + GKNR ++++FE ++V RL R+ + L G R ++++ Sbjct: 421 ADDRDKKQVGIEIHSGKNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLRRGDWRFLTEQE 480 Query: 241 LR 242 + Sbjct: 481 VE 482 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 115/235 (48%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R++K ++ AG SRRE +R++ RV ++G + V + VDG + R Sbjct: 4 ERINKYLSEAGYCSRREADRLVEAGRVTIDG-VAAVCGSKVADGQKVCVDGKEVSGRSRH 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++KP G+V T +D G + + D + R+ VGRLD ++EGL+L+TNDG + Sbjct: 63 ILLAFNKPAGIVCTTTDKQGSNNIVDFIGY-PERIYPVGRLDKDSEGLILMTNDGAMMDR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVTV 191 + + + Y VR + V + + + G+ ++ +K + + Sbjct: 122 ILRSTNGHEKEYIVRVNKPVTDEFVKGMSDGVYLKELDRTTKVC----VVEKVTKFCFRI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L +G NR+I+++ E F +KV +L RI LG L G R+V+ + E + Sbjct: 178 VLTQGLNRQIRRMCENFGYKVMKLKRIRIMNIMLGDLKQGCYRDVTDEEYAELVR 232 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 56/225 (24%), Positives = 97/225 (43%), Gaps = 1/225 (0%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ + + + Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTVSIERKIYVL 61 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T+ R+ + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 62 LNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKLTH 121 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P ++Y V + + + + GI + T V + + G Sbjct: 122 PKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIQ-ADAISYTDDFKKDEVGIEIHSG 180 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 KNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 181 KNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQEV 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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 65/226 (28%), Positives = 109/226 (48%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K I+ +G ASRR +++I++ RV VNG + + V D I V G LR A Sbjct: 5 RLNKFISESGKASRRGADKLISEGRVTVNGKVAKV-GDQVKPGDDIRVSGQQLRIARNNV 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +KP+G+ +T +L + R+ VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITSTSEKKV--KGNIIDLVNHPLRIHHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + + + +G+ I G +VT S + L Sbjct: 122 LRAENKHEKEYIVAVDKPITPEFIKNMSEGVKILGTKTLPCEVTQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V RL R L L G R+++KK Sbjct: 178 QGLNRQIRRMCEVLGYEVYRLQRTRIMNIHLNNLPVGQWRDLTKKE 223 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 76/238 (31%), Positives = 121/238 (50%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AGI SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGITSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D + I R+ VGRLD +T GLLL+TNDG A + Sbjct: 62 YFLFYKPRGTVSAVTDDKGRTTVADYF-TDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW--VTV 191 L P + + Y R G +++ + L++G+VI G +V + + + V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKNKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 238 >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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 97/352 (27%), Positives = 149/352 (42%), Gaps = 13/352 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAE 71 +R+ K++A AG+ASRR+ E +I RV+VNG ++ ++DHI VDG L+ E Sbjct: 23 GERLQKILASAGVASRRKAEELILAGRVQVNGQVVTEMGFKADAASDHIRVDGKLLQGPE 82 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDG 128 + R ++ +KP G VTT SDP+GR TV + R+ VGRLD +EGLLL+TNDG Sbjct: 83 KLRYFMLNKPKGYVTTVSDPEGRHTVMEFFHGRGKGGERLYPVGRLDYASEGLLLMTNDG 142 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-------CYGDMQVTLDT 181 LA L S+ +VY V+ G+ +++L ++ GI+I Sbjct: 143 ALANTLTKASSHVEKVYLVKVSGRPTEEQLEQIRAGIMIDRGRPGEGRVMTAPA-GVRMV 201 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + N W + L EG+NREI+K+FE V ++ RI YGP L + G RE++ + + Sbjct: 202 RDAENPWFELTLIEGRNREIRKMFEETGHFVEKIRRIGYGPLVL-DVEPGEVRELNPEEV 260 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + A A T++ G + Sbjct: 261 DSLRRAAQRKRAPKPKAATKTKRLTMLPKAKPARKSATGGRPGRAGAGRPAAGRPGRAGQ 320 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + S E RS + + R + Sbjct: 321 GGQNARSGQGGASSERPARKLAPEGASRATERAGSRSGAKAGNKPAARPGTR 372 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 58/224 (25%), Positives = 96/224 (42%), Gaps = 3/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G SR+EV+ ++ V ++G + +V + V G P+ E Sbjct: 1 MRLDKLLANSGYGSRKEVKAVVKAGAVMIDGKPAKDVKEHVDPDTQEVTVYGEPVDYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + L T + GRLD +TEG LLLTNDG LA Sbjct: 61 IYLMMNKPQGVLSATEDSRQQTVVDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V Q+ ++ ++ L+ G+ I+G + + T N + + Sbjct: 121 RLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIEGGYKTKPAKAEIKTNDSGNTVIYL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++ + +V L R+S G L L G R Sbjct: 181 TITEGKYHQVKQMAKAVGNEVVYLKRLSMGRVSLDPALAPGEYR 224 >gi|332637861|ref|ZP_08416724.1| ribosomal large subunit pseudouridine synthase B [Weissella cibaria KACC 11862] Length = 255 Score = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 123/240 (51%), Gaps = 11/240 (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 VYFLLNKPRGVVTTTNDDKGRQTVMDIV-DEPERVYPVGRLDYDTTGVLLLTNDGELANR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--------CYGDMQVTLDTQKGS 185 L PS + +VY + G ++L L+ G+ ++ + + + Sbjct: 122 LMHPSYRIDKVYVAKVKGIPTNEQLEQLRHGVTVRTKQNGRYTTFKAAPARAEITSTNTK 181 Query: 186 NAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 N V + + EGK ++K++ + +V +L R YG L L G R + + ++ Sbjct: 182 NHTAIVKLTIHEGKYHQVKEMMKAVGHEVLKLTRERYGMLDLAGLTPGEYRPLRYEEVQA 241 >gi|223940522|ref|ZP_03632370.1| pseudouridine synthase [bacterium Ellin514] gi|223890803|gb|EEF57316.1| pseudouridine synthase [bacterium Ellin514] Length = 235 Score = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 80/233 (34%), Positives = 122/233 (52%), Gaps = 2/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A AG+ASRR ER+I RV VNG + V D I +DG PLR + Sbjct: 2 VRLQKFLAEAGVASRRASERIILGGRVSVNGDTVRELGTKVDPIHDSIALDGAPLRLKRK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D + D LP+ + + SVGRLD ++EGL+ LTNDG + Sbjct: 62 LYVALNKPRGYVCSRKDDRKR-KVIGDLLPAEWDNLYSVGRLDSDSEGLIFLTNDGEFSL 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + L+ Y G+V+Q+ L K GIV +G + + + S + V + Sbjct: 121 HLTHPRYRVLKKYLATVEGRVEQEMLQRFKHGIVHEGEKLKVDRARTLSVQNSTSLVELE 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 L EGKNREI+++FE V+RL+R+ G +LG L +G R +++ ++ L Sbjct: 181 LTEGKNREIRRLFESQGLTVSRLVRMQIGKIKLGELRSGKWRMLTEAEIKSLL 233 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 107/230 (46%), Positives = 148/230 (64%), Gaps = 2/230 (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 + K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKSDVLLKSN-YKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILENN 230 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 107/230 (46%), Positives = 148/230 (64%), Gaps = 2/230 (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 + K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKSDILLKSN-YKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILENN 230 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 110/241 (45%), Gaps = 2/241 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 2 SNEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRI 61 Query: 68 R-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + T R+ VGRLD T GL+LLTN Sbjct: 62 PTARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGIRLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD ++ L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIHRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLLD 241 Query: 247 P 247 Sbjct: 242 L 242 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 106/233 (45%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A G +R+ V+ ++ + V VNG++ + +V TD IEV G ++ E Sbjct: 1 MRLDKLLANMGFGTRKTVKNVLKAKEVTVNGLVEKDGKTHVNPETDKIEVSGEVIQYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T VGRLD +TEGLL+LTNDG LA Sbjct: 61 MYFMLHKPQGVVSATTDHVHKTVIDLLQPQDQVMDPFPVGRLDKDTEGLLILTNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQK--GSNAWV 189 L P + Y G VD+ + + GI + ++ + + ++ + Sbjct: 121 NLLSPKKHVDKCYEAIIEGVVDEQDVQAFENGITLDDGFNCQSAKLEILSVDFEKESSVI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + EGK ++K++FE + V L R+S G QL L G R+++K+ L Sbjct: 181 QVTIHEGKFHQVKRMFEAVDKSVIYLKRLSMGSLQLDETLELGEYRQLTKEEL 233 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 81/319 (25%), Positives = 123/319 (38%), Gaps = 1/319 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ K +A AG+ASRR+ E +I RVKVN + V D + VDG + + Sbjct: 9 PDGVRLQKYLAEAGVASRRKAEELILAGRVKVNARAVTVLGSKVDPARDLVTVDGRLVSR 68 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +E +L +KP G VTT SDP+GR T + L + RV SVGRLD + EG +L T+DG Sbjct: 69 SETRSYYLLYKPPGCVTTASDPEGRPTALEYLRGVKERVFSVGRLDFDAEGAVLFTDDGE 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P R Y V+ G+ L L G+ ++ ++ + N W+ Sbjct: 129 LANRLAHPRYGHRRTYLVKVRGEPPPAALERLVAGVRLEDGPARALEAVPHERAERNVWI 188 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V + EG+ +K++ E +V RL R +G + L G R ++ +R Sbjct: 189 RVVVGEGRFHLVKRLCEAVGLQVQRLYRPEFGGITVEGLRPGQFRPLAPVEVRALKTAVG 248 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 L + R + K+ R Sbjct: 249 LAGGAPAVAPRELPRAARRHGHGPPAPPELAPARREGERGEPGRREGKELPPRGEPRVRG 308 Query: 310 LASNVWMAKGIHSSFLSDS 328 + Sbjct: 309 RGEDAGRGPRGEQRQRGRG 327 >gi|320667979|gb|EFX34882.1| 16S rRNA pseudouridylate synthase A [Escherichia coli O157:H7 str. LSU-61] Length = 231 Score = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D + KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTADQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 66/240 (27%), Positives = 106/240 (44%), Gaps = 4/240 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG Sbjct: 1 MFEKDIEMRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNK 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + L + T + + VGRLD +T GLLLLTN Sbjct: 61 IAYQQYHYFLLNKPKGVISATEDRSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG LA L P+ +VYR + G D + +G+++ G ++ + Q Sbjct: 121 DGALAHELLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQD 180 Query: 186 N--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 N + + + ++EGK +IK++F KV L R+S G L L G +E+ ++ Sbjct: 181 NNLSQIEIQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEIDLAEIK 240 >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 = 173 bits (438), Expect = 3e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRYHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >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 = 173 bits (438), Expect = 3e-41, 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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVIELHRERIGEIILDPALEPGEYRPLTEQEV 227 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 76/238 (31%), Positives = 121/238 (50%), Gaps = 3/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA AG+ SRR+ E++I + +V VNG ++ V V T+ IEV+G+ L K E Sbjct: 2 ERLQKVIANAGVTSRRKAEKLIQEGKVTVNGKVVTELGVKVSGTERIEVEGIQLTKEEHR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + D + I R+ VGRLD +T GLLL+TNDG A + Sbjct: 62 YFLFYKPRGTVSAVTDDKGRTTVADYF-TDIPERLYPVGRLDYDTSGLLLMTNDGDFANL 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 L P + + Y R G +++ + L++G+VI G +V + + A V + Sbjct: 121 LMHPKNEVSKTYIARIKGIPEREVIRELERGVVIDGRKTAPAKVKVRSSDKAKDKAIVEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 181 TIHEGRNRQVRKMFEAVGFEVQKLAREEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 238 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 240 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 299 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ +T + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 300 KFHDEPVSIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 359 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 360 VLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYA 419 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 420 SET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQE 478 Query: 241 L 241 + Sbjct: 479 V 479 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 63/242 (26%), Positives = 104/242 (42%), Gaps = 4/242 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 KN+ R+ K + AGI SR EV++++ +++V VNG + + D I Sbjct: 2 KNVRIGKGKKMRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISC 61 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 G L + L + T + + + V VGRLDI+T GLL Sbjct: 62 QGQTLSYEKYVYYMLNKPKGVISATEDNHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLL 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTN+G LA + P + YR + G + + GI ++ Q+ + Sbjct: 122 LLTNNGKLAHAMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILET 181 Query: 183 KGS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 + + V + ++EGK ++K++ + KV L R+S P QL L G R ++ Sbjct: 182 NEAERTSVVEITIKEGKFHQVKRMVQACGKKVTDLQRLSMVPLQLDKQLALGEWRRLTDD 241 Query: 240 IL 241 L Sbjct: 242 EL 243 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 107/230 (46%), Positives = 148/230 (64%), Gaps = 2/230 (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 + K + I GI Y + L Q +N W V L Sbjct: 122 ELPSSRLKRVYHVRAYGKSDVLLKSN-YKNLEIDGIFYNPHSIKLLKQNKTNCWFEVVLF 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EGKNREI+++FE+ KVN+LIRI YG F + L G +E++ KIL Sbjct: 181 EGKNREIRRIFEYCGLKVNKLIRIQYGSFTIDNLKPGDYKEINNKILENN 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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEV 227 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 38 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 97 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 98 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 157 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 158 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 213 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 214 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 264 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 239 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 298 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ +T + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 299 KFHDEPVSIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 358 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 359 VLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYA 418 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 419 SET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQE 477 Query: 241 L 241 + Sbjct: 478 V 478 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 58/226 (25%), Positives = 101/226 (44%), Gaps = 1/226 (0%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I+ V VNG ++ V+ +D ++ + ++ + Sbjct: 2 NKYLANAGVCSRREADEFISAGVVSVNGTVVTELGTKVLRSDEVKFHDQLVSLEKKVYVL 61 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T+ ++ + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 62 LNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTGVLLLTNDGDLASKLTH 121 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P +VY V V ++ L + GI ++ V + + G Sbjct: 122 PKFLKKKVYHVHLDKNVAEEDLQKIASGIELEDGEIH-ADAIEYADDRDKKQVGIEIHSG 180 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 KNR ++++FE ++V RL R+ + L G R ++++ + Sbjct: 181 KNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLRRGDWRFLTEQEVE 226 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 237 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 296 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ +T + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 297 KFHDEPVSIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 356 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 357 VLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYA 416 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 417 SET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQE 475 Query: 241 L 241 + Sbjct: 476 V 476 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 56/238 (23%), Positives = 109/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAQQFADGVQLHNEKSLTKPAQLEVIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 L EG+ ++K++F +V L R G +L L G R ++ + + PH Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVLELHRERIGAIKLDDDLAPGEYRRLTAEEIASVGAPH 234 >gi|294775216|ref|ZP_06740740.1| pseudouridylate synthase [Bacteroides vulgatus PC510] gi|294450921|gb|EFG19397.1| pseudouridylate synthase [Bacteroides vulgatus PC510] Length = 488 Score = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 116/241 (48%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+I+ + P R++K +A AGI SRRE + I V VNG ++ + TD + Sbjct: 240 IEYKDILTDPNEPIRLNKFLANAGICSRREADEFITAGVVSVNGEVVTELGTKIKRTDEV 299 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ +T + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 300 KFHDEPVSIERKTYILLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 359 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + G+ + ++ Sbjct: 360 VLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIAAGVTLDDGEIHADAISYA 419 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 420 SET-DKSQVGIEIHSGKNRIVRRIFESLGYKVIKLDRVYFAGLTKKGLRRGDWRYLTEQE 478 Query: 241 L 241 + Sbjct: 479 V 479 >gi|213424484|ref|ZP_03357281.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] Length = 267 Score = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 59/269 (21%), Positives = 110/269 (40%), Gaps = 5/269 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K + Sbjct: 122 LVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L + G R+++ L + Sbjct: 178 RITLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEV 278 ++ A ++ I + Sbjct: 238 GSSSEAKPKAKAKPKTAGIKRPVVAIEKR 266 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 120/231 (51%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRRE E+MI RV+V+G ++ + V S + + VD P+ + Sbjct: 4 ERLQKVIAQAGIASRREAEKMILAGRVRVDGQVVTKLGTKVSSIEQVVVDNQPIERESHH 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y +++ D GR TV D + R+ VGRLD +T GLLL+TNDG LA + Sbjct: 64 TYLFYKPRG-VISAVKDNKGRKTVADYFTDLPYRLYPVGRLDYDTSGLLLMTNDGELANL 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTV 191 L P + +VY + G + D++ LKKG+ I +V + V + Sbjct: 123 LMHPRNEVDKVYVAKIKGILQPDEIKALKKGVQIGRYKTKPARVKVLKTNPRAQTQIVQL 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG ++K++F+ N V++L R Y L L +G RE++ K + Sbjct: 183 TIHEGHYHQVKEMFKAVNHLVDKLSRERYSFLDLQGLTSGQYRELNHKEVD 233 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 62/242 (25%), Positives = 113/242 (46%), Gaps = 7/242 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ GI +R+EV +I RV VN + A + D ++VDG + E+ Sbjct: 1 MRLDRYLSNRGIGTRKEVRALIKHGRVTVNDRTVLDPAYKLSDKDVVKVDGKVIDLPEKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + Y + +T S + VGRLD + EGLLL+TNDG A Sbjct: 61 YILFYKPAGYVTSTRDP---HSETIMEFLPDIKGIFPVGRLDKDAEGLLLVTNDGEFAHR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V+ G++ +DKL L++G+ ++ + + +K SN V + + Sbjct: 118 VISPRWKVEKEYVVKVEGEITEDKLEKLRRGVSLRDGFFAKAKHV---EKISNDTVKIVI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EGK ++K++ K L R+ G +L + G R +S++ +R+ + +E Sbjct: 175 TEGKYHQVKRMMAAVGLKTIHLKRVRIGGLRLPQEMKPGEYRFLSEEEVRQVFEGNDQKE 234 Query: 253 AQ 254 + Sbjct: 235 DR 236 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 91/354 (25%), Positives = 136/354 (38%), Gaps = 14/354 (3%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + L+ + R + + + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 294 GLSKQKKLATP-----VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + + P R + + S P Sbjct: 303 PANSDRAPRQPQITGSERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTP 356 Score = 38.6 bits (88), Expect = 1.4, Method: Composition-based stats. Identities = 17/91 (18%), Positives = 24/91 (26%), Gaps = 2/91 (2%) Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E + +D S P + + K+ A P +R Sbjct: 318 SERDRPRGGDSTQRPSPRKDSGKPGSRAPRPADNSRGTPVAERPSEMNKRPAKPGPKRVG 377 Query: 311 AS--NVWMAKGIHSSFLSDSGQREENHRRSP 339 N G + SGQR RR P Sbjct: 378 IKLVNDDAPSGKRRGPPAGSGQRPGFGRRKP 408 >gi|315648476|ref|ZP_07901575.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315276170|gb|EFU39516.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 253 Score = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 68/244 (27%), Positives = 118/244 (48%), Gaps = 8/244 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDG 64 + + T QR+ KV++ G SR E+++M Q + VNG +++ +V TD IE +G Sbjct: 1 MSAKGRTTQRLDKVLSNLGFGSRAELKKMAKQGSIVVNGTVMKDPGKHVDPYTDIIEFEG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ E + L+ P + T D + + VGRLD +TEGLLLL Sbjct: 61 ETIQYREYVYIMLHKPPGVVSATEDLRDRTVLDLLDKDYLVFEPFPVGRLDKDTEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQK 183 TNDG LA L P + Y G+V ++ L G+ + ++ + + + Sbjct: 121 TNDGKLAHELLSPRKHIPKTYEAIVEGRVGEEDARLFAAGVTLDDGYATMPAELVIHSHE 180 Query: 184 GSN-----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 + + +++ + EGK ++K++FE KV L R+S G +L L G+ RE++ Sbjct: 181 ERDDGVILSRISLTIHEGKFHQVKRMFEAVGKKVVYLKRVSMGELRLDKSLEIGTYRELT 240 Query: 238 KKIL 241 ++ L Sbjct: 241 EEEL 244 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 105/234 (44%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I L Sbjct: 1 MRLDKFLVDCGVGSRSQVKNFLKKKQVIVNGQVETSPKTQIDENKDRITYLDQELTHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + RV VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDPRHKTVLDLLDDTARHKRVFPVGRLDIDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + P ++Y+ + G +D++ + +KGI ++ ++ + + S +WV Sbjct: 121 AMLSPKKHVDKIYQAKVAGVMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNESTSWVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK ++K++ +V L R+S GP L L G+ R ++++ L Sbjct: 181 ITIAEGKFHQVKRMVAACGKEVTELQRLSMGPLSLPNDLELGTWRRLTEEELEA 234 >gi|309810348|ref|ZP_07704183.1| pseudouridylate synthase [Dermacoccus sp. Ellin185] gi|308435661|gb|EFP59458.1| pseudouridylate synthase [Dermacoccus sp. Ellin185] Length = 303 Score = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 77/232 (33%), Positives = 121/232 (52%), Gaps = 1/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRK 69 R+ KV+A+AG+ SRR E +IA+ RV+V+G ++ + I VDG ++ Sbjct: 63 EEGTRLQKVLAQAGVGSRRHCENLIAEGRVEVDGQVVTELGTRIDPESAVIHVDGDRIQL 122 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + ++KP G+V+T D +GR V + L R+ VGRLD +TEGLLLLTNDG Sbjct: 123 DDTLVYLAFNKPTGVVSTMQDEEGRPCVGEYLEGRTERLFHVGRLDYDTEGLLLLTNDGN 182 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L+ P +VY G V +D +++GI ++ + + A V Sbjct: 183 LANRLQHPRYGVEKVYLATIPGPVPRDLGKRMREGIELEDGPAAVDSFKVVDSQPGMALV 242 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+NR ++++FE V L R GP ++G L G R ++K+ + Sbjct: 243 EIVLHEGRNRIVRRMFEEVGHPVIALARPQVGPVKVGDLRPGKMRPLNKREV 294 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 59/288 (20%), Positives = 112/288 (38%), Gaps = 7/288 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRR+ +R I Q V +NG + V D ++V+G + Sbjct: 6 STRLNKYISESGICSRRDADRYIEQGNVFINGKRVT-LGDQVFPGDVVKVNGQLIEPRNE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + +G + + +R+ +GRLD +++GL+ LTN G L Sbjct: 65 DNLIFIALNKPVGIVSTTEEGEKDNIVDFVNHSTRIFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V D + L G+ + G +K + + Sbjct: 125 KILRAGNDHEKEYLVTVNKPVTDDFIRGLGAGVPMLGTV----TKKCKVKKEAPFVFRIV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R + L G R+++ L E +E Sbjct: 181 LVQGLNRQIRRMCEHFGYEVTKLERTRIMNVGMAGLPPGEWRDLTDDELVELF--KSIEG 238 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + + + S + + G K+ + Sbjct: 239 SSSEAKPAKKAKPAAKKPASAPKSVEKPAGGAPARKRFAQPGRKKKGR 286 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 65/239 (27%), Positives = 114/239 (47%), Gaps = 7/239 (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 +L + R+ +GRLD +++GL+L Sbjct: 69 GEQLRIARDHVYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLIL 126 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG + + + + Y V + D L + G+ I G ++T Sbjct: 127 LTNDGDIVNEILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL--- 183 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 S + L +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 184 -SKYEFQIILTQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 241 >gi|269302650|gb|ACZ32750.1| RNA pseudouridine synthase [Chlamydophila pneumoniae LPCoLN] Length = 235 Score = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 106/236 (44%), Gaps = 4/236 (1%) 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 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ L ++ G V D + RV +VGRLD T GL+L+TNDG A Sbjct: 62 KVYFMVHKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFTVGRLDKETSGLILVTNDGEFA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS+ + Y ++ V L L +G I G + VT + V + Sbjct: 122 NKIIHPSSGITKEYLLKVSRDVSAKDLEKLMEGTFIDGKHVRPVSVTKIRRG----TVKI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EGK EI+ + + L RI G LG L G RE++ L + Sbjct: 178 VVSEGKKHEIRLFADAAGLPILELKRIRIGSLVLGGLRYGEYRELTDAELGTYMKL 233 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L+ G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLVPGEYRPLTEEEI 227 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 107/236 (45%), Gaps = 4/236 (1%) 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 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ L ++ G V D + RV +VGRLD T GL+L+TNDG A Sbjct: 62 KVYFMVHKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFTVGRLDKETSGLILVTNDGEFA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS+ + Y ++ V L L +G I G + VT + V + Sbjct: 122 NKIIHPSSGITKEYLLKVSRDVSAKDLGKLMEGTFIDGKHVRPVSVTKIRRG----TVKI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EGK EI+ + + + L RI G LG L G RE++ L + Sbjct: 178 VVSEGKKHEIRLFADAAGFPILELKRIRIGSLVLGGLRYGEYRELTDAELGTYMKL 233 >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 = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 104/229 (45%), Gaps = 2/229 (0%) 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 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + ++ VGRLD +TEGLLL+TN+G L Sbjct: 61 KYFLLNKPAGVVSAVSDKEHQTVIDLIKEADCVPKLYPVGRLDRSTEGLLLITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+ ++ + T + V Sbjct: 121 RMLHPKYHVAKTYYVEVNAFLADDVPAFFENGVSFDDGTICKPAKLEIITASPEKSSAYV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK +IKK+F + KV L R+++G FQLG L +G RE++ Sbjct: 181 TISEGKFHQIKKMFLAYGVKVTYLKRLTFGEFQLGDLPSGQYRELTSTE 229 >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 = 173 bits (438), Expect = 4e-41, 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|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 = 173 bits (437), Expect = 4e-41, Method: Composition-based stats. Identities = 65/247 (26%), Positives = 113/247 (45%), Gaps = 4/247 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R+ +A++G SRR E++I RVKVN ++ V D + VDGV Sbjct: 2 KTEYPIRLQSFLAKSGWGSRRSCEQLIIDGRVKVNSQVVRELGTKVDKDDAVYVDGVLAE 61 Query: 69 KAERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ERT + + + + + + + ++GRLD + GL+L TND Sbjct: 62 PNERTYYYALHKPAGYVCSNADPNESYFARDLIDVPERNLLFNIGRLDKESTGLVLFTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G +++++ PS + + Y V + + L + GI I +++ + + Sbjct: 122 GEISQLITHPSYEIEKEYLVNTDRTIMIEDLQEARHGIRIDDG--RPYRISR-YKLETKR 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 WV + L EG+NREI+K+F + + V +LIRI G +LG L R V+K + + Sbjct: 179 WVRIILTEGRNREIRKIFTYLGYDVKKLIRIRIGTLELGDLAPAQFRRVTKDEIMSIVSN 238 Query: 248 HLLEEAQ 254 + Sbjct: 239 ARNKGQG 245 >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 = 173 bits (437), Expect = 4e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|291485437|dbj|BAI86512.1| hypothetical protein BSNT_04375 [Bacillus subtilis subsp. natto BEST195] Length = 239 Score = 173 bits (437), Expect = 4e-41, Method: Composition-based stats. Identities = 58/224 (25%), Positives = 96/224 (42%), Gaps = 3/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G SR+EV+ ++ V ++G + +V + V G P+ E Sbjct: 1 MRLDKLLANSGYGSRKEVKAVVKAGAVMIDGKPAKDVKAHVDPDTQEVTVYGEPVDYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + L T + GRLD +TEG LLLTNDG LA Sbjct: 61 IYLMMNKPQGVLSATEDSRQQTVVDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V Q+ ++ ++ L+ G+ I+G + + T N + + Sbjct: 121 RLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIEGGYKTKPARAEIKTNDSGNTVIYL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++ + +V L R+S G L L G R Sbjct: 181 TITEGKYHQVKQMAKAVGNEVVYLKRLSMGRVSLDPALAPGEYR 224 >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 = 173 bits (437), Expect = 4e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 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 = 173 bits (437), Expect = 4e-41, Method: Composition-based stats. Identities = 86/246 (34%), Positives = 123/246 (50%), Gaps = 10/246 (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 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------ISVGRLDINTEGL 121 + HKP G+VTT DP+GR TV + + 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 REQLGP 247 Sbjct: 316 AALQQE 321 >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 = 173 bits (437), Expect = 4e-41, Method: Composition-based stats. Identities = 65/241 (26%), Positives = 110/241 (45%), Gaps = 3/241 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K++NI + P R++K +A AG+ SRRE ++ I VKVNG ++ V+ +D I Sbjct: 264 KEENI--DPNEPLRLNKFLANAGVCSRREADQFIQSGMVKVNGNVVTELGTKVLRSDEII 321 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P+ ++ + + + T+ ++ + R+ VGRLD NT G+ Sbjct: 322 FHDQPVTLEKKVYVLINKPKDYVTTSDDPQQRKTVMDLVKGVCPERIYPVGRLDRNTTGV 381 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG LA L P +VY V +V + L + G+ + Sbjct: 382 LLLTNDGDLASKLAHPKFLKKKVYHVFLDKEVTEHDLQQIATGVTLDDGEVH-ADAIEYA 440 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE ++V RL R+ + L G R +++K + Sbjct: 441 NDKDKTQVGIEIHSGKNRIVRRIFESLGYRVVRLDRVQFAGLTKKNLKRGDWRFLTEKEV 500 Query: 242 R 242 Sbjct: 501 D 501 >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 = 173 bits (437), Expect = 4e-41, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 106/236 (44%), Gaps = 4/236 (1%) 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 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ L ++ G V D + RV +VGRLD T GL+L+TNDG A Sbjct: 62 KVYFMVHKAIGYLCSSEKKFPGTKLVIDLFAHLPYRVFTVGRLDKETSGLILVTNDGEFA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS+ + Y ++ V L L +G I G + VT + V + Sbjct: 122 NKIIHPSSGITKEYLLKVSRDVSAKDLGKLMEGTFIDGKHVRPVSVTKIRRG----TVKI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + EGK EI+ + + L RI G LG L G RE++ L + Sbjct: 178 VVSEGKKHEIRLFADAAGLPILELKRIRIGSLVLGGLRYGEYRELTDAELGTYMKL 233 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 129/231 (55%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 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 + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 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|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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 100/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + GI + ++ + T N V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTLADVEAFAAGIELDDGYTCKPARLEIITPNEIN----V 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F KV+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKKVSYLKRISMGNLQLDESLGLGEYRPLTESEL 227 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 101/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR EV++++ +++V VNG + + D I G L + Sbjct: 1 MRLDKFLVEAGIGSRTEVKQLLKKKQVLVNGKVEISPKTQIDEKADRISCQGQTLSYEKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVISATEDNHHKTVLDLLDKTAWDKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P + YR + G + + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVDKTYRAKVAGLMTTADVAAFANGIDLKDFTCQPAQLVILETNEAERTSVVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + ++EGK ++K++ + KV L R+S P QL L G R ++ L Sbjct: 181 ITIKEGKFHQVKRMVQACGKKVTDLQRLSMVPLQLDKQLALGEWRRLTDDEL 232 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 85/243 (34%), Positives = 119/243 (48%), Gaps = 13/243 (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 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV------------ISVGRLDINT 118 L HKP G+VTT DP GR TV D S + 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 KIL 241 + + Sbjct: 314 EEI 316 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAMLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|218660352|ref|ZP_03516282.1| putative ribosomal large subunit pseudouridine synthase B [Rhizobium etli IE4771] Length = 296 Score = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 150/264 (56%), Positives = 183/264 (69%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+ Sbjct: 33 ESEAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVPI 92 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R ERTRLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLDINTEGLLLLTND Sbjct: 93 RGIERTRLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLDINTEGLLLLTND 152 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP+T WLR YRVR HG++DQ+ L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 153 GGLARALELPATGWLRRYRVRAHGEIDQEALDKLKDGIAVDGVLYGSIEATLDRTQGSNV 212 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV P Sbjct: 213 WITMGLREGKNREIKNVMGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGPHAARSARP 272 Query: 248 HLLEEAQVNLDAPIYSSETLVRDR 271 + + + + R Sbjct: 273 APDRGSPRRISMHRSTMRRPLPPR 296 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 105/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D L KG+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAALFAKGVQLNNEKDLTKPAQLEVI----TPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G +L L G R +++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPELAPGEYRPLTEDEI 227 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 137/356 (38%), Positives = 194/356 (54%), Gaps = 16/356 (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 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ------ 298 L ++ E + + R I + + + + Sbjct: 326 LADYIRPENLPTGNTVETPAPIPGRRVSTPIVKGRSGSAMSDPSRKPSRVRAAETAQADA 385 Query: 299 -KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 ++ P + A SF G + R + ++ + R + Sbjct: 386 VERRERPPKKEGWAKAAPKTGHPKKSFKPREGAPTDGERPARTYKPREEGDRPARA 441 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 109/231 (47%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + Y V + +D G+ + +K ++ V + Sbjct: 121 ITSPKHECEKTYLVTLEQPLAEDTAAQFTAGVQLHSEKNLTKPAS----LEKVTDYVVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGGISLDSELEPGEYRELSAEEV 227 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 109/231 (47%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + Y V + +D G+ + +K ++ V + Sbjct: 121 ITSPKHECEKTYLVTLELPLAEDTAEQFTVGVQLHNEKNLTKPAT----LEKITDHVVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGGICLDSELEPGEFRELSAEEV 227 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 84/363 (23%), Positives = 140/363 (38%), Gaps = 12/363 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D + Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPAHV-GQRIQFGDIV 208 Query: 61 EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +V+G P+R + + +VT + + + 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 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 V +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E Sbjct: 329 VEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWVE 388 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + ++ + ++E + R N S + + + Sbjct: 389 LDQADIQALMSAAGVKERAPVERNNGGARGANNRGGRNSRSGGRGNGMNADRAPQGRREG 448 Query: 296 SK------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 P S S G + + R S + SL R Sbjct: 449 GGQRRGEWDGNRPAPSGMLGDNPRNKSGGRSGGSGRSQGGGQPDPMRTSVGYIGGDSLSR 508 Query: 350 TSA 352 Sbjct: 509 ARQ 511 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 83/348 (23%), Positives = 138/348 (39%), Gaps = 12/348 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + ++ KV+A AG+ SRR++E +I RV VNG ++ TD + Sbjct: 162 KARRELTAEDDAPKLHKVLADAGLGSRRDMEELIVAGRVSVNGEPA-HIGQRILPTDQVR 220 Query: 62 VDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 ++G +++ L + +V+ S S+ ++VGRLD N Sbjct: 221 LNGKLIQRKIAKSLPRVLTYHKPAGEIVSRDDPEKRPSVFDRLPLLKNSKWLAVGRLDFN 280 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL TN G LA L P R Y VR G++++ L G+ + ++ Sbjct: 281 TEGLLLFTNSGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVDLGDGIGQFSKI 340 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 +G N W V + EG+NRE++++FE V+RLIR YG L +L G E+ Sbjct: 341 VDGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAVVLSQSLKRGRWDEL 400 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP------DDFTRMKKNSS 290 + +R L L+ S P+ + +K S Sbjct: 401 EENAVRNLLRLSGLDNKDDKKTQGKTRSRNASGQYPDFPKSQSLSIRELQLQGQHQKKSP 460 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 S + + P+ + + + G+ + RR Sbjct: 461 GGQKGSPRNRQPDPLQTAFGYAGMGQNPPKGGTGQRARGRGQPGQRRR 508 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 94/265 (35%), Positives = 136/265 (51%), Gaps = 3/265 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++ARAGIASRR+ E +I RVKVNG +++ + V D I VD P++ + Sbjct: 137 TERIQKILARAGIASRRKAEELIIDGRVKVNGKIIKMEEILVKPHDIITVDDKPIKVDKP 196 Query: 73 TRLWLYH-KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + D +ISVGRLD TEGL+L TNDG LA Sbjct: 197 KIWMHFKNPQVLTSEYDPDGRDCLLPIIRKVIGIDHLISVGRLDYYTEGLILFTNDGELA 256 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R L LP + RVY+VR G+ + L KG+VI + Y + V ++++ SN W+ + Sbjct: 257 RYLTLPQNLFFRVYKVRIFGKFTDEMKFSLAKGMVINEVFYRPVSVQVESETDSNTWLRI 316 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS-KKILREQLGPHL 249 L+EGK REI+ + E+FN KV RLIR++YGP+ L L G T EV K L+ + + Sbjct: 317 TLQEGKKREIRTLLEYFNVKVLRLIRVAYGPYVLPNSLKHGETIEVPIKDELKPFINKYN 376 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNI 274 E E ++ N Sbjct: 377 STERLKKTLQEQKKIENFNKNNVNK 401 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 109/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D +G+ + Q ++ + V + Sbjct: 121 ITSPKHHCEKTYLVTLEHPLAADTAQQFAEGVQLHNEKDLTRPAQ----LEQIEDKLVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G + L G R ++++ + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVLELHRERIGAIVMDEDLAEGEYRPLTEEEIASVGAPH 234 >gi|297585561|ref|YP_003701341.1| pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297144018|gb|ADI00776.1| pseudouridine synthase [Bacillus selenitireducens MLS10] Length = 237 Score = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 58/227 (25%), Positives = 106/227 (46%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ G SRR +++I + +V +NG + V D + V+G P+ + Sbjct: 3 VRINKYVSETGKTSRRGADKLIQEGKVTINGKPAQ-LGDQVEPGDDVIVNGEPVHIVKEN 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T +L + R+ +GRLD ++EGL+LLTNDG + Sbjct: 62 VYIALNKPVGITSTTERKV--KGNIIDLVNHPLRIFHIGRLDKDSEGLILLTNDGDIVNE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + L + +G+ I +V S + L Sbjct: 120 ILRAENKHEKEYIVTVNKPITPEFLKQMSEGVDILDTTTLPCKVKKL----SKYEFNITL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ + + V RL+R LG L G R++SKK Sbjct: 176 TQGLNRQIRRMCDALGYDVQRLLRTRIMNIHLGKLPPGQWRDLSKKE 222 >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 = 173 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >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 = 172 bits (436), Expect = 6e-41, Method: Composition-based stats. Identities = 76/237 (32%), Positives = 121/237 (51%), Gaps = 1/237 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R++K +A G+ASRR+ E +I++ +V VNG ++ + D ++V G + Sbjct: 2 EEKMRINKYLASCGVASRRKCEEIISRGKVTVNGEVVRELGTIINVEKDLVKVYGKEVSL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + ++ +KP G+++ G TV D L R+ VGRLD +T GL++LTNDG Sbjct: 62 DTKKVYYMLNKPQGVISASKSKYGEETVVDLLGKKEHRLFPVGRLDKDTTGLIILTNDGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A L P + + Y G+VD L+ LK+G+VI G +V L G N+ V Sbjct: 122 FAYKLTHPKYEKEKTYEALVKGKVDSKSLDKLKQGVVIDGKKTSRAKVRLVKMIGVNSLV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L EG+ R++KK+ E KV +L R LG L G R+++K + + L Sbjct: 182 EITLIEGRKRQVKKMCEKVGHKVIKLNRTMENGLSLGDLEIGEYRKLTKNEVSKLLK 238 >gi|295105192|emb|CBL02736.1| ribosomal small subunit pseudouridine synthase A [Faecalibacterium prausnitzii SL3/3] Length = 233 Score = 172 bits (436), Expect = 6e-41, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 97/230 (42%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R E + M+A+ RV+VNG + ++ + D + VDG PLR + Sbjct: 1 MRLDKYLAETAQCTRSEAKTMLAKGRVQVNGAVCKKGDTQLKDNDTVTVDGAPLRYQKFV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + + D + GRLD + G +LLT+DGG A Sbjct: 61 YLMLNKPEGVVSASTDKRDTTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFAHD 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKGSNAWVTVG 192 + P + Y V + Q+ G+ + +VT + G V V Sbjct: 121 ILSPRHHVSKTYTVTIDTPLTQEMRTGFAAGVTLADGTALSPAEVTALSPDG--CTVRVV 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 LR+G +IK++F + VN L R + G L L G RE+S + + Sbjct: 179 LRQGVYHQIKRMFGVYGAGVNALHREAIGGLALDAQLAPGQWRELSDEEV 228 >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 = 172 bits (436), Expect = 6e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPDLAPGEYRPLTEEEI 227 >gi|302533645|ref|ZP_07285987.1| pseudouridine synthase [Streptomyces sp. C] gi|302442540|gb|EFL14356.1| pseudouridine synthase [Streptomyces sp. C] Length = 239 Score = 172 bits (436), Expect = 6e-41, Method: Composition-based stats. Identities = 70/230 (30%), Positives = 112/230 (48%), Gaps = 1/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+VDG+ + Sbjct: 2 EGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVTEQGKRVQPKDEIKVDGLTVATQS 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + T + + D + + +R+ VGRLD TEG++LLTN G LA Sbjct: 62 FLFFALNKPAGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y G + +D LK+GI ++ + Q G N V V Sbjct: 121 HRLTHPKYGVQKTYVAAITGSLPRDIGKRLKEGIELEDGYARADNFRVVDQVGKNYLVEV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ ++++ + V++L+R S+GP +LG +G R ++ + Sbjct: 181 TLHEGRKHIVRRMLAEAGFPVDKLVRTSFGPIELGDQKSGWLRRLTNTEV 230 >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 = 172 bits (436), Expect = 6e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLVSPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >gi|330980378|gb|EGH78489.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 408 Score = 172 bits (436), Expect = 6e-41, Method: Composition-based stats. Identities = 96/371 (25%), Positives = 151/371 (40%), 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 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 + + Q+N + + R + Sbjct: 243 REMSQYEVDILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGAP 302 Query: 291 QKNGLSKQKKL----------------ATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 G ++ P + + + +S + +R + Sbjct: 303 ATGGERAPRQPQITGSERDRPRGGDSTQRPSRKDSGKPGSRTPRPADNSRGTPVAERPSD 362 Query: 335 HRRSPSFPSKR 345 + P+ P + Sbjct: 363 MNKRPAKPGPK 373 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGIMLDADLAPGEYRPLTEEEI 227 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 107/231 (46%), Gaps = 3/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 R+ KV+A G +R+EV+ ++ VK++G++++ ++ + + IEV+ + + Sbjct: 3 RLDKVLANLGYGTRKEVKAIVKSGAVKIDGLVVKDNSMKIDPDECKIEVEETVVEYKKNI 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + T + + VGRLD +T+GLLL+TNDG L Sbjct: 63 YILMNKPEGVVCATFDNYQETVIDILEPKYQAFKPFPVGRLDKDTKGLLLITNDGELNHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTVG 192 L P +VY +VD D + K GIV++ ++ + + A V V Sbjct: 123 LISPKNHVDKVYYAEIDKKVDMDDIRKFKMGIVLKDEYTCMPAELKIIESDENGARVEVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK +IK++F V L RI +GP L L G RE+ + + Sbjct: 183 VQEGKFHQIKRMFNSLGKNVIYLERIKFGPLSLDDNLQEGEYRELYGEEIE 233 >gi|327468371|gb|EGF13856.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK330] Length = 242 Score = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDEAADDIVVSGQRLIYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEASLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPALALGEWRRLTADELE 233 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 61/291 (20%), Positives = 113/291 (38%), Gaps = 5/291 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + + Sbjct: 5 SSTRLNKYISESGICSRRDADRYIEQGNVFINGKRAA-IGDQVYAADVVKVNGQLIEPRD 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 64 EDDLVLIALNKPVGIISTTEDGEQDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + V + + L G+ + G +K + + Sbjct: 124 NKILRAGNDHEKDYVVTVNKPVTDEFILGLSAGVPMLGTV----TKKCKVKKEATFVFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ F ++V +L R L L G R+ + L E Sbjct: 180 TLVQGLNRQIRRMCSHFGYEVTKLERTRIMNINLKGLPQGEWRDFTDDELIELFKLIEHS 239 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ S + +V + + + ++KK Sbjct: 240 SSEDKPTKKAQSKPAAEKKPSIKRPKVAEKSDGNAASRKRFAQPGRKKKGR 290 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 54/230 (23%), Positives = 102/230 (44%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D +EVDG + + + Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIREGIVTVNGKRIVEVDFKINPEEDVVEVDGRVAKFSRQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + + + + +VGRLD + EGLL++T+DG Sbjct: 61 IYIMMNKPKGYVCSNDDPASLTVFSLISDDLKYRDLHTVGRLDKDAEGLLIITDDGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + + Y VR +VD++KL + GI++ + T+ + V + Sbjct: 121 RVISPKKRIEKEYLVRLEKEVDEEKLKEFENGIILDDGYKTLPAKYTII----DSTTVKL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++K++FE KV L R+ G L L G + + ++ Sbjct: 177 CIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDQNLKPGEYKVIDREE 226 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 118/234 (50%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 ++ R+ KV+A+AG+ASRR E +IA RV V+G+++ V I VDG+ + Sbjct: 5 DSSEGVRLQKVLAKAGVASRRASEELIAAGRVSVDGVVVRELGRRVDPDTAVIHVDGIRV 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + +KP G+ +T SD GR V D + R+ VGRLD +TEGLLLLTND Sbjct: 65 QVRDDLVYLALNKPRGVHSTMSDAQGRPCVGDYVADRPERLFHVGRLDADTEGLLLLTND 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + Y G V + L+ G+ + + + + + Sbjct: 125 GDLAHKLMHPSFHVTKTYLAEVEGAVARGLGKRLRAGVQLSDGPVTADAFRIKDVRPNRS 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L EG+ ++++ V +L+R + G +LGT G+ R ++++ + Sbjct: 185 LVEIVLHEGRKHIVRRLLAEVGHPVRKLVRTAIGEVRLGTTKPGTLRTLTQQEI 238 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 60/242 (24%), Positives = 107/242 (44%), Gaps = 1/242 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ ++ TD + Sbjct: 233 IEYKEEHTDPNEPIRLNKYLANAGVCSRREADEFIQAGVVTVNGQVITELGTKIVRTDEV 292 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ ++ + L + T+ ++ + + R+ VGRLD NT G Sbjct: 293 KFHDQPVTLEKKVYVLLNKPRDYVTTSDDPQQRKTVMELVKGACPERIYPVGRLDRNTTG 352 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LL TNDG LA L P +VY V +V + + GI + Sbjct: 353 VLLFTNDGDLASKLTHPKFLKKKVYHVFLDKEVTMHDMQQIATGITLDDGEIH-ADAIEY 411 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + G+NR ++++FE ++V RL R+ + L G R +++K Sbjct: 412 AKDNDKKQVGIEIHSGRNRIVRRIFESLGYRVVRLDRVQFAGLTKKYLRRGDWRFLTEKE 471 Query: 241 LR 242 + Sbjct: 472 VD 473 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 53/234 (22%), Positives = 98/234 (41%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ AGI SRR ++ I R+K+NG+ V D +EVD + Sbjct: 1 MRINKFLSEAGICSRRGADKWIEAGRIKINGVKA-ELGSKVTEGDSVEVDNKVVTLNTDK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 T + + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 GYVYIKLNKPRGITSTTERHIKGNIVDFVGHSERIFHIGRLDKDSEGLILLTNDGDIVNE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D + + +G+ I +V +K + + L Sbjct: 120 ILRKEGRHEKEYIVTVDKPITDDFVKQMSEGVAILDTVTLPAEV----EKLNTKTFKIIL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +G NR+I+++ E ++V +L RI + L G +++++ E Sbjct: 176 TQGLNRQIRRMTEALGYEVKQLRRIRVMNILVDDLKLGEWKDLTEAEKDELFSM 229 >gi|291522303|emb|CBK80596.1| ribosomal large subunit pseudouridine synthase F [Coprococcus catus GD/7] Length = 261 Score = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 65/263 (24%), Positives = 121/263 (46%), Gaps = 8/263 (3%) Query: 3 DKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K+I+ EN R+++ ++ AG SRRE +R+I RV V+G V + Sbjct: 5 KKDILHENEDKSDVRLNRFLSDAGFCSRREADRLIEAGRVTVDGTKA-ELGTRVRPGQVV 63 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +V +R+ +R L ++KP G+V T D + R+ +GRLD ++EG Sbjct: 64 KVGSKVVRQNDRMVLIAFNKPRGIVCTT-DRVREKNNIIDYIHYPERIYPIGRLDKDSEG 122 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+LLTNDG + + S + Y VR + ++ + + + KG+ I + Sbjct: 123 LILLTNDGTIVNHILKASQYHEKEYIVRVNKKITDEFIQGMSKGVPILDTVTRPCTLRRI 182 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ L +G NR+I+ + F++ V +L R+ +LG+L G R+V+ + Sbjct: 183 ----DDYTFSIILTQGLNRQIRYMCRHFDYHVTKLKRVRIMNIRLGSLPVGKWRDVTAEE 238 Query: 241 LREQLGPHLLEEAQVNLDAPIYS 263 L + + + + + Sbjct: 239 LEQLKRQFIANDRRNQSNRRKSR 261 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 61/242 (25%), Positives = 109/242 (45%), Gaps = 1/242 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ VM TD + Sbjct: 266 IEYKEENYDPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVMRTDEV 325 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + ++ + L + T+ ++ + + R+ VGRLD NT G Sbjct: 326 YFQDKLVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTG 385 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P +VY V + + L + GI ++ + Sbjct: 386 VLLLTNDGDLASKLTHPKFLKKKVYHVFLDKAITANDLQKISDGIELEDGEIKADAIEYA 445 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 446 DPQ-DQTQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEKE 504 Query: 241 LR 242 + Sbjct: 505 VD 506 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 92/371 (24%), Positives = 143/371 (38%), 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILR------------EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 RE+S+ + + ++ L + Sbjct: 243 REMSQYEVDILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 282 FTRMKKNSSQKN-------GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + Q P + + + +S + +R + Sbjct: 303 PATGDRTPRQPQITGSERDRPRGGDSTQRPARKDSGKPGSRAPRPADNSRGTPVAERPSD 362 Query: 335 HRRSPSFPSKR 345 + P+ P + Sbjct: 363 MNKRPAKPGPK 373 Score = 39.4 bits (90), Expect = 0.92, Method: Composition-based stats. Identities = 18/100 (18%), Positives = 27/100 (27%), Gaps = 2/100 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R P + + + +D S P + + K+ Sbjct: 308 RTPRQPQITGSERDRPRGGDSTQRPARKDSGKPGSRAPRPADNSRGTPVAERPSDMNKRP 367 Query: 302 ATPVHRRNLAS--NVWMAKGIHSSFLSDSGQREENHRRSP 339 A P +R N G + SGQR RR P Sbjct: 368 AKPGPKRVGIKLVNDDAPSGKRRGPPAGSGQRPGFGRRKP 407 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKSYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 84/363 (23%), Positives = 141/363 (38%), Gaps = 12/363 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D + Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPAHV-GQRIQFGDIV 208 Query: 61 EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +V+G P+R + + +VT + + + 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 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 V +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E Sbjct: 329 VEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWVE 388 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + ++ + ++E + + R N S + + + Sbjct: 389 LDQADIQALMSAAGVKERAPVERSSGGARGANNRGGRNNRSGGRGNGMNADRAPQGRREG 448 Query: 296 SK------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 P S S G + + R S + SL R Sbjct: 449 GGQRRGEWDGNRPAPSGMLGDNPRNKSGGRSGGSGRSQGGGQPDPMRTSVGYIGSDSLSR 508 Query: 350 TSA 352 Sbjct: 509 ARQ 511 >gi|253996068|ref|YP_003048132.1| pseudouridine synthase [Methylotenera mobilis JLW8] gi|253982747|gb|ACT47605.1| pseudouridine synthase [Methylotenera mobilis JLW8] Length = 374 Score = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 87/346 (25%), Positives = 143/346 (41%), Gaps = 13/346 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----R 68 QR+ K++A AG+ SRR++E +IA RV VNG + E V D + +D PL Sbjct: 36 TQRLHKLLALAGLGSRRDMEELIASGRVTVNGKVAEV-GAGVTEHDVVRLDSRPLRLPFE 94 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + +V+ S + 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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V LREG+NRE++++FE F V+RL+R+ +GP L R K+L+ + Sbjct: 215 YQVILREGRNREVRRLFEAFQLPVSRLMRVRFGPV---NLPP---RVKRGKMLKLEQKEV 268 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + +L P L + + V R ++ S+ + +R Sbjct: 269 VGLLEWADLPVPKAPLRQLTQREKLKSTAVFTPKVRKQRVSALDRPPRDAAEGEAGGYRG 328 Query: 309 NLASNVWMAKGIH--SSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 S A ++ R+ + +P K R Sbjct: 329 KPGSARGPATKKPIARKPAANRRVRQSSDLNAPQMQKKSDRNRGRG 374 >gi|239997156|ref|ZP_04717680.1| RNA pseudouridine synthase family protein [Alteromonas macleodii ATCC 27126] Length = 252 Score = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 62/237 (26%), Positives = 108/237 (45%), Gaps = 11/237 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 P+R++K I+ G+ SRRE +++I Q RV VN V D ++VDG + Sbjct: 2 SEQAPKRLNKYISDTGLCSRREADKLIEQNRVTVNNQPP-ELGTKVGPGDTVKVDGKVVG 60 Query: 69 K----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 +Y+KPIG+ T + + R+ VGRLD +EGL++L Sbjct: 61 AVASDKSDRVYIVYNKPIGITCTTERHVKGNIIDAI--GHKERIFPVGRLDKPSEGLIIL 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + + Y V + + + +N + +G+ I G + Sbjct: 119 TSDGDIVNKILRAENAHDKEYEVTVNQPISERFVNRMSRGVPILGTVTKPC----VVKPT 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 T+ L +G NR+I+++ EF ++V +L R +LG+L G R ++ + L Sbjct: 175 GKNTFTIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELGSLKPGQWRNLTSREL 231 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 120/241 (49%), Gaps = 6/241 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + ++ + R++K IA+ G+ SRR + ++ RV VNG + + V DH+ VDG Sbjct: 1 MSDDSSLMRLNKFIAQCGVTSRRGADDLVFGGRVAVNGEKADSPGIKVDPARDHVTVDGR 60 Query: 66 PLRKAER--TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--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 L 241 L Sbjct: 241 L 241 >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 = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 108/236 (45%), 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 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 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|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 = 172 bits (435), Expect = 7e-41, Method: Composition-based stats. Identities = 71/231 (30%), Positives = 130/231 (56%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 R++K ++ GIASRR +++ I + R+KVNG ++ ++V D I +D + ++ E Sbjct: 1 MRINKFLSSLGIASRRAIDKYIEEGRIKVNG-VITSTGIDVTEDDEIYIDNKKIETKRIE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ +++ SD GR TV D + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSASSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++ + Y ++ G+V ++++ LKKG++++ +++ + + + Sbjct: 119 NRLVHPKSEIYKKYYIKVFGEVKKEEIEELKKGVLLEDGKTLPAKISGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G RE++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLKEGKYRELTKEEIE 229 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 114/234 (48%), Gaps = 9/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G+ SRRE ++ IA RV +NG+ V D I VDG PL + ++ Sbjct: 1 MRINKFISETGVCSRREADKWIAANRVTINGVPA-ELGSTVEEGDEIRVDGKPLGEKKKG 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T + + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTTEK--HVKGNIIDFVNHPERIFPIGRLDKDSQGLILLTNDGDIVNQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y VR + V + + + G+ I G +VT ++ + L Sbjct: 118 ILRAENNHEKEYVVRVNKPVTDEFVKGMAGGVRILGTKTKPCKVTRI----NDHVFRIIL 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|300121522|emb|CBK22041.2| Pseudouridine synthase [Blastocystis hominis] Length = 271 Score = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 91/232 (39%), Positives = 126/232 (54%), Gaps = 6/232 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IAR+G+ SRRE ER I RV +NG ++ A+NV D I VD PL +R Sbjct: 10 SMRIAKRIARSGVCSRREAERWIEMGRVTLNGKVITSPAINVTQQDIIHVDNKPLSPIQR 69 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGL 130 TR+ + +K G + T SD R T+FD L ++ VG+LD +TEGLLLLTNDG Sbjct: 70 TRVIIANKLDGELVTTSDSQHRLTIFDRLRKTGLECHIMPVGQLDFHTEGLLLLTNDGDY 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----N 186 AR LE PS R YR + +G+ D ++ L +I G Y V D + S Sbjct: 130 ARYLEHPSNAIPRRYRAKVYGRWDDSRVLALSHSNIIDGKRYKGCLVKRDLDRSSANAME 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W T+ + EGK E+K + F V +L+R ++G + LG L+ G REV Sbjct: 190 HWCTIQVTEGKYHEVKNLLGFVGLNVEKLVRTNFGAYSLGNLVPGEFREVKP 241 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + GI + ++ + T + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDDGYTCKPARLEIITPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKSVSYLKRISMGNLQLDESLALGEYRPLTEAEL 227 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 74/233 (31%), Positives = 118/233 (50%), Gaps = 1/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+A+AG+ SRR E+++A+ V+VNG + + + V TD I VDG L Sbjct: 6 STDGIRLQKVLAQAGLGSRRRCEQLMAEGHVEVNGEITTQMGIRVDPATDVIHVDGRRLP 65 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L +KP G+VT+ +D GR + L R+ VGRLD +T GLL++TNDG Sbjct: 66 PPSDHVYVLLNKPRGVVTSMADERGRPDLRSLLADRTERLFHVGRLDTDTSGLLMMTNDG 125 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS ++ + Y G VD LK G+ + + + + Sbjct: 126 DLAHRLAHPSFEFTKTYVALVEGVVDPAVGTRLKSGVELDDGPATVDRFRIKDTSQGRSL 185 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L G+NR ++++ V L R ++GP +L L +G R++++ L Sbjct: 186 VELDLHMGRNRIVRRLLAEVGHPVVELTRTAFGPLRLAGLGSGRARDLTRDEL 238 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 64/241 (26%), Positives = 109/241 (45%), Gaps = 1/241 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + T R++K IA +G+ SRRE + I V+VNG L+ V D + DG + Sbjct: 66 SDESTGIRLNKYIANSGVCSRREADTYIEHGSVEVNGNLVTEMGYKVQPDDVVRFDGTGI 125 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + L + T D ++ + + R+ VGRLD NT GLLL TND Sbjct: 126 TPEQKKYILLNKPKNYITTMDDDRGRKTVMDLISNATKERIYPVGRLDRNTTGLLLFTND 185 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA+ L P ++Y +++ L L+ ++I+G + + Sbjct: 186 GELAKKLTHPKHDVRKLYHASLDKKLELKDLEKLRGEVLIEGKKV-FIDAVSYVDGQPKS 244 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + G+NR ++K+FE +KV++L R+ + L G RE++ + L Sbjct: 245 EVGIEIHSGRNRIVRKIFEHLGYKVSKLDRVIFAELTKRNLPRGRWRELTNQELSNLQML 304 Query: 248 H 248 Sbjct: 305 K 305 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 108/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER- 72 ++++ I+ A SRRE +R+I RV +N + V D + +DG + K E+ Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINSEICTH-GALVSDGDRVTIDGQVIVKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIINYI--NYPERIFPVGRLDKASEGLILLTNDGGIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V ++ + +G+ I+ +VT + + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVTRV----DQSTFRIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 174 LTQGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELE 223 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDTKHRTVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ ++ KGI ++ ++ L + + + V Sbjct: 121 ALLSPKRHVDKTYLAQVKGIMTQEDVDAFAKGIPLKDFTCQPARLELVSVDPEKNQSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLVLDENLEQGEWRRLTKEELE 233 >gi|325497996|gb|EGC95855.1| 16S rRNA pseudouridylate synthase A [Escherichia fergusonii ECD227] Length = 231 Score = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 101/231 (43%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEV 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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 93/319 (29%), Positives = 132/319 (41%), Gaps = 10/319 (3%) 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 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L + Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLPLPKGLPRGGWAELP---LNDIN 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L E + + R + N I + ++ Sbjct: 239 YLRELVELDAETVSKLPVERERRRMKANQIRRAVKRHGQGGSAAAAAPNRRSGSANKGTS 298 Query: 306 HRRNLASNVWMAKGIHSSF 324 R A+N + Sbjct: 299 STRGSAANKGTSNRGAKRG 317 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 107/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A A + +R+EV+++I +RV+VN + + + D + VD L E Sbjct: 1 MRLDKYLAHAQLGTRKEVKKLIRSKRVRVNDEICTKEDRQLQKEDCVYVDDELLVYDELV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L LY +++ D + + + VGRLDI++EGLLL+TNDG LA Sbjct: 61 YLMLYKPQG-VISATEDRVHTTVMDIFDAPLPKNCFPVGRLDIDSEGLLLITNDGQLAHQ 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + + L LL+ I + Q + + + Sbjct: 120 LLSPKKHVDKTYYVECEKTLSSEDLQLLESGTIQLDKEHVLPAQAKRISANS----LYLT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++K++ + KV L RIS G QL L G R +S++ +R Sbjct: 176 IQEGKFHQVKRMLQACGNKVCYLKRISMGSLQLDKSLAPGEWRYLSEEEIR 226 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 84/241 (34%), Positives = 123/241 (51%), Gaps = 2/241 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 + R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 2 SDEQGIRLQKVLAQAGLASRRAAEEMIAAGRVEVNGELIVEQGRRVDPEHDEIRVDGSRI 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTN 126 A R ++ +KP G+V+T DP+ R + D VGRLD T GL+LLTN Sbjct: 62 PTARRHVYYVLNKPRGVVSTMDDPESRPCLSDLEGVPRGIRLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD + L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGDEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V V L EG+NR ++++ + V RL R + GP +L L G RE++++ L + L Sbjct: 182 SLVEVSLHEGRNRIVRRMMDSVAHPVRRLSRTAIGPVRLKRLSRGDMRELTREELGQLLD 241 Query: 247 P 247 Sbjct: 242 L 242 >gi|291522211|emb|CBK80504.1| ribosomal small subunit pseudouridine synthase A [Coprococcus catus GD/7] Length = 250 Score = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 73/247 (29%), Positives = 115/247 (46%), Gaps = 11/247 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A + +R EV+ +I + V VNG ++ + V D + G P+ Sbjct: 6 RLDKYLADMSVGTRSEVKNLIKKGLVTVNGEVIRKPEYKVDIEKDDLVCRGEPVAYQTLV 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +++ +DP ++ + + VGRLD +TEGLLL+TNDG LA Sbjct: 66 YYMLNKPAG-VISATNDPKQKTVLDLITDKSRKDLFPVGRLDKDTEGLLLITNDGDLAHQ 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDMQVTLDTQKGSNAWV 189 L P +VYR R GQV + L KG+ I ++ + G + + Sbjct: 125 LLSPKKHVDKVYRARIEGQVTAEDAALFAKGLGIDDEDGAWRAMPAKLNIL-SSGPESEI 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LREQL 245 + +REGK +IK++FE + KV L R+S G +L L G RE+++ L+E Sbjct: 184 EITIREGKFHQIKRMFEAVDKKVVYLKRLSMGSLRLDETLALGEYRELTEDEVQALKESK 243 Query: 246 GPHLLEE 252 G EE Sbjct: 244 GHTNDEE 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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 78/264 (29%), Positives = 127/264 (48%), Gaps = 5/264 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV--PLRKA 70 QR+ KV+A GI SRRE ER+IA +VKVNG + + D + +DG + + Sbjct: 4 QRIQKVLADQGICSRREAERLIAAGKVKVNGRPV-GLGDKMDPDYDKVSIDGKNVRIVRK 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + HKP G +TT SD GR TV D + + + + VGRLD ++EGLLL+T+DG Sbjct: 63 RQYTYIMLHKPRGYLTTRSDDRGRKTVMDLVADVPAMLRPVGRLDKDSEGLLLMTDDGAF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 +L PS ++YRV + + ++++ + G+V+ + + T + + Sbjct: 123 INLLTHPSGGVGKLYRVTVNPRATEEQVVQMASGVVLDDGVRTQPCVIHVVTDEPGRTVL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG+NR+I+++ +V RL R + GP +LG L G RE+ K + Sbjct: 183 EITLHEGRNRQIRRMCSAVGLQVVRLKRSAEGPVKLGMLQPGEYRELKKSEVSALRNAAQ 242 Query: 250 LEEAQVNLDAPIYSSETLVRDRPN 273 + R Sbjct: 243 KNTRSAPVREENAPRRPGPLPRKK 266 >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 = 172 bits (435), Expect = 8e-41, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++ V VNG L+ V TD + VDG + + Sbjct: 1 MRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTIPKQQVKETDLVAVDGNKIAYQQYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDRSQQTVISLLKTKDRYQGIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWVT 190 L P+ +VYR + G D + +G+++ G ++ + Q N + + Sbjct: 121 LLAPNKHVAKVYRAKIAGVPDPETAKKFAQGLILGDGTKLKPAKLKILKQDQDNNLSQIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK +IK++F KV L R+S G L L G +E+ ++ Sbjct: 181 IQIQEGKYHQIKRMFGAVGMKVLELDRVSMGKLHLPADLKRGEYKEIDLAEIK 233 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 104/230 (45%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D IEVDG + +++ Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIREGIVTVNGKQIVEVDFKINPEEDIIEVDGRVAKFSKQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + + + + +VGRLD + EGLL++T+DG Sbjct: 61 IYIMMNKPKGYVCSNEELASLTVFSLISDDLKYRDLHTVGRLDKDAEGLLIITDDGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + + Y VR +VD++KLN + GI++ + T+ + V + Sbjct: 121 RVISPKKRIEKEYLVRLEKEVDEEKLNEFENGIILDDGYKTLPAKYTII----DSTTVKL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++K++FE KV L R+ G L +L G R + + Sbjct: 177 CIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDQSLKPGEYRVMKVEE 226 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 67/240 (27%), Positives = 111/240 (46%), Gaps = 10/240 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ KV+ G SR +++R + Q + VNG + + + + V D IEV+G + Sbjct: 7 QTQRLDKVLTHMGYGSRSDIKRQMKQGMITVNGKITKDSGLQVHPYQDQIEVNGERVVFR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + L+ P + T + + VGRLD +TEGLLLLTNDG L Sbjct: 67 EYIYIMLHKPPGVISATEDSRERTVLDLLSAEERHFEPFPVGRLDKDTEGLLLLTNDGKL 126 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN--- 186 A L P + Y G V ++ ++ G+ + Q+T+ + Sbjct: 127 AHELLSPRRHVPKTYEATVSGHVTEEDIHQFTAGVELDDGYVTLPAQLTILRHEHPYQAD 186 Query: 187 ----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +++++ + EGK ++K++FE KV L R + GP +L L GS RE++ + L Sbjct: 187 GGVISYISLVIHEGKFHQVKRMFEAVGKKVTYLKRTAMGPLKLDEQLPMGSYRELTNEEL 246 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 89/364 (24%), Positives = 145/364 (39%), Gaps = 11/364 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K+ + +++ KV+AR G+ SRR+VE IA R+KVNG + V D I Sbjct: 4 INQKDDQEIGPAGEKLQKVLARIGVGSRRDVESWIAAGRIKVNGKDAT-LGLRVDMHDAI 62 Query: 61 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 +DG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE+S+ L ++G + Q+N + + + R + Sbjct: 243 REMSQYEVDVLSAEVGLTPVAMPQLNAKSKDKLDRMQRKSSRPMARTERVRTLRPANGAP 302 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 G ++ R + R E + + R + Sbjct: 303 IGAGPRPVREPQIEGERPGRKPAARPDGERGPRSPRPANGRTERGEGRGTPVADRPVDTK 362 Query: 351 SAKK 354 K Sbjct: 363 RPAK 366 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 81/243 (33%), Positives = 131/243 (53%), Gaps = 2/243 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++AG++SRR+ E+++ + RV VNG ++ DHI+VDG L+ + Sbjct: 4 ERLQKILSQAGVSSRRQAEKLMQEGRVTVNGSVITELGSKADLDRDHIKVDGRLLKAPKH 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP G VTT DP+GR TV D L + RV VGRLD ++EGLLLLTNDG LA Sbjct: 64 QIYIALNKPKGTVTTVHDPEGRETVMDLLHRVKERVYPVGRLDYHSEGLLLLTNDGELAN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + +T + Y V+ G + ++ + G+ + G + L ++ N W V Sbjct: 124 SIMSAATHLEKTYVVKVTGTLTAEQEEKFRTGVPLSGRRTLPAGLKLLSR-AENPWYEVK 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EG+N +I+ +F F V +L R+ GP +LGTL G+ R + ++ + + Sbjct: 183 LTEGRNNQIRMMFRHFGKLVEKLKRVRIGPIELGTLKTGAFRYLDEEDVAKLKRAIQRSS 242 Query: 253 AQV 255 + Sbjct: 243 QKP 245 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 73/234 (31%), Positives = 115/234 (49%), Gaps = 1/234 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 R+ KV+A AG+ASRR+ E +I RVKV+GI++ + + VDG + Sbjct: 9 DDGVRLQKVLASAGVASRRKAEELIRDGRVKVDGIVVREMGTRIDPENAVVHVDGNRITT 68 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +K G+++T SD GR + L R+ VGRLD+ +EGLLLLTNDG Sbjct: 69 RTDLVYLALNKERGVLSTMSDELGRPHIGQMLEDRSERLFHVGRLDMESEGLLLLTNDGD 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + Y G + +D LK G+ ++ + + A V Sbjct: 129 LAHRLTHPSYGVAKTYVAEVPGPIPKDLGRRLKAGVELEDGPAKVDSFDVMDLHHNRAVV 188 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + EG+ ++++ E + V+RL+R GP QLG G+ R+++ + + Sbjct: 189 EVVIHEGRKHIVRRLLEAVDRPVSRLVRTQIGPVQLGHQRPGTLRKLNPVEVSQ 242 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 84/313 (26%), Positives = 131/313 (41%), Gaps = 7/313 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 P+R+ K++ARAG+ SRRE+E + R+ VNG + +D E+DG L A Sbjct: 56 PERIQKLLARAGVGSRREIEGWMDAGRLLVNGKPVT-PGQKATVSDVFELDGKRLEVAAA 114 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + T + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL R+ YG L L G E+ +K + Sbjct: 235 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGSIFLPSRLTVGKWEELDQKAVDLLSR 294 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L + V P ++ + R + S G K + Sbjct: 295 TVGLAKMAVPQQTPDEAAAQARQQRKAAPVTNRSNRAASSPGSKSGQGARKWAVADSKPQ 354 Query: 307 RRNLASNVWMAKG 319 R + +G Sbjct: 355 RSGGKARNDKPRG 367 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 57/238 (23%), Positives = 107/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V +D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEHPVAEDTAQRFADGVQLHNETSLTKPAQLEIIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 L EG+ ++K++F +V L R G L L G R ++ + + PH Sbjct: 177 TLSEGRYHQVKRMFGAVGNRVLALHRERIGAMILDDDLAPGEYRPLTAEEIASVGAPH 234 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 71/243 (29%), Positives = 120/243 (49%), Gaps = 2/243 (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 +L +RV VGRLD ++ GLL+LTNDG Sbjct: 61 IYIAINKPIGYASTVKDKFADK-KVVDLIKSDTRVYPVGRLDKDSHGLLILTNDGEFTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 120 LTHPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENVKNDTKYRVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEE 252 EG+NR+I+++F+F N V L R+ G +++ L +G + + K L G + + Sbjct: 180 FEGRNRQIRRMFDFINHPVLDLKRVQIGNYKMDNSLKSGEYKLLKSKDLDLIRGNNDRSK 239 Query: 253 AQV 255 Sbjct: 240 TSK 242 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 63/247 (25%), Positives = 110/247 (44%), Gaps = 7/247 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N P R++K ++ AG+ SRR+ +R + Q R+ V+G + V + I VDG + Sbjct: 31 SNGEPMRLNKFLSDAGVCSRRQADRYVEQGRILVDGEPAQ-MGQKVHAGQDIRVDGKRVS 89 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + +KP G+V T + + R+ VGRLD ++EGL+L+TNDG Sbjct: 90 VSRKQIVLAVNKPKGIVCTTEKRE--KDNIVDFIGYPERIYPVGRLDKDSEGLILMTNDG 147 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + Y V + V L + +G+ I +V Sbjct: 148 ELMNEILKARNYHEKEYEVTINRPVTNVFLKQMSEGVEILDTVTRPCKVKRTGV----YT 203 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V L R+ LG+L G RE++ + L + Sbjct: 204 FRIILTQGLNRQIRRMCEACGYRVRELKRLRIMNIHLGSLPTGKYREITGEELSKLEKLA 263 Query: 249 LLEEAQV 255 + V Sbjct: 264 GRKPGGV 270 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 59/238 (24%), Positives = 105/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV + D +G+++ G Q+ + S V + Sbjct: 121 ITSPKHHCEKTYRVELENDIADDVAKRFAEGVMLNGEKYPTKPAQLEVI----SPKEVLL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F V L R G L L G RE+++ + + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVCGLHRERIGDIWLDDDLAPGEYRELTEDEINSVIVPR 234 >gi|312127717|ref|YP_003992591.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] gi|311777736|gb|ADQ07222.1| pseudouridine synthase [Caldicellulosiruptor hydrothermalis 108] Length = 233 Score = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 102/230 (44%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I V VNG + + D +EVDG ++ + R Sbjct: 1 MRLDKFLTHCGFGSRSQVKKLIRGGIVTVNGKRIVEVDFKINPEEDVVEVDGRIVKFSRR 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + + + + +VGRLD + EGLL++T+DG Sbjct: 61 IYIMMNKPKGYVCSNDDPASLTVFSLISDNLKYRDLHTVGRLDKDAEGLLIITDDGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + + Y VR +VD+++L + GI++ + T+ + V + Sbjct: 121 RVISPRKRIEKEYLVRLEKEVDEERLKEFENGIILDDGYKTLPAKYTII----DSTTVKL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + EGK ++K++FE KV L R+ G L L G R + ++ Sbjct: 177 CIYEGKYHQVKRMFEAIGNKVVDLKRLRIGGLNLDESLKPGEYRVMKEEE 226 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 102/230 (44%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K +A AG+ASRR+ + +I V VNG + V V D +EV G + ++ Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFAGSVTVNGRVATGPFVTVDEEFDSVEVGGQRIGAEKK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ 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 + + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVTARDLETLMAGTVIDGKVVRPVSVKKVRRG----TIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK EI+ E ++ L RI G LG L G RE++ L Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELTDSELD 229 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 59/291 (20%), Positives = 106/291 (36%), Gaps = 5/291 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 NQSTRLNKYISESGICSRREADRYIEQGNVFINGKRAA-IGDQVAPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + + DG + + SR+ +GRLD +++GL+ LTN G L Sbjct: 63 NEEDLVFIALNKPVGIVSTTEDGERDNIVDFVNHSSRIFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + D + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYVVTVNKPITDDFIRGMGAGVPILGTV----TKKCKVKKEAPFAFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L E Sbjct: 179 ITLVQGLNRQIRRMCEHFGFEVTKLERTRIMNVSLSGIPLGEWRDLNGDELIELFKLIEN 238 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + ++ + K+K Sbjct: 239 SSSDAKPKTKAKPKTQGIKRPVVNAPASAEKERNKPAGKRFVQPGRKKKGR 289 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 98/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNFLKSGRVTVNGKKEKSAKLQIDEETDEICFDGQKLDYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDPKHKTVLDLLDDYARAKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + Y + G + + KGI ++ ++ L + + V Sbjct: 121 ALLSPKRHVDKTYLAQVKGIMTDTDVETFAKGIPLKDFTCQPAKLELVSIDTEKDQSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R +SK+ L Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLTLDEDLKRGEWRRLSKEELE 233 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + + VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEIFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVEIFAEGIPLKDFTCQPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|310659128|ref|YP_003936849.1| pseudouridylate synthase [Clostridium sticklandii DSM 519] gi|308825906|emb|CBH21944.1| pseudouridylate synthase [Clostridium sticklandii] Length = 236 Score = 172 bits (435), Expect = 1e-40, Method: Composition-based stats. Identities = 58/234 (24%), Positives = 107/234 (45%), Gaps = 13/234 (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 VYIALYKPVGITCTTEEHIEGNIVDYV--NYKERIFPIGRLDKDSEGLILLTNDGDIVNR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG------ICYGDMQVTLDTQKGSNA 187 + + Y V +D L + +G+ I ++ ++K Sbjct: 118 ILREENHHEKEYIVTVDKPLDSKTLKQMSQGVRIYNPVKNTYTTTKPCKIHKISEKS--- 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ + F +KV +L R+ L L G R +++ + Sbjct: 175 -FKIVLSQGLNRQIRRMCQHFGYKVRKLKRVRILNITLDGLSYGKWRFLNQAEV 227 >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 = 172 bits (435), Expect = 1e-40, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 109/231 (47%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P Q + Y V + +D G+ + +K ++ V + Sbjct: 121 ITSPKHQCEKTYLVTLEQPLAEDTAAQFTAGVQLHNEKNLTKPAT----LEKITDHVVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G RE+S + + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGDIWLDSELEPGEFRELSDEEI 227 >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 = 172 bits (435), Expect = 1e-40, Method: Composition-based stats. Identities = 79/244 (32%), Positives = 121/244 (49%), Gaps = 2/244 (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+ + + + R+ VGRLD +TE Sbjct: 61 IHVDGLRVETRPEMRYYALNKPRGVVS-TMADERGRKSLADYVDVPERLFHVGRLDTDTE 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 ILRE 243 + E Sbjct: 240 EVGE 243 >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 = 172 bits (435), Expect = 1e-40, Method: Composition-based stats. Identities = 64/230 (27%), Positives = 108/230 (46%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A GI +R+EV+ I + V+VNG ++++ V D I DG + Sbjct: 3 MRLDKLLANYGIGTRKEVKSYIRKGFVEVNGEIIKKDDYKVDYQKDEIIFDGELIEYRPY 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + + D + + + + VGRLDI+TEGLLL++NDG A Sbjct: 63 VYLMLNKPKGYV-SATKDNVHPTVIDLIVGYENYDLFPVGRLDIDTEGLLLISNDGDFAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P+ +VY R G +++ + K G+++ + + + V + Sbjct: 122 RLMSPNRNHAKVYVARIAGIMNEFDILAFKDGVILDNGYKCKPANLKILEVFDDSCEVEI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++KK+ E N KV L RIS + +L G RE++K+ Sbjct: 182 EIFEGKFHQVKKMVEACNKKVTYLKRISIKGLTIDRSLQLGDFRELTKEE 231 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 58/224 (25%), Positives = 96/224 (42%), Gaps = 3/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G SR+EV+ ++ V ++G + +V + V G P+ E Sbjct: 1 MRLDKLLANSGYGSRKEVKAVVKAGAVMIDGKPAKDVKAHVNPDTQEVTVYGEPVDYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + L T + GRLD +TEG LLLTNDG LA Sbjct: 61 IYLMMNKPQGVLSATEDSRQQTVVDLLTPEEMRFEPFPAGRLDKDTEGFLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V Q+ ++ ++ L+ G+ I+G + + T N + + Sbjct: 121 RLLSPKKHVPKTYEVHLKSQISREDISDLETGVYIEGGYKTKPARAEIKTNDSGNTVIYL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++ + +V L R+S G L L G R Sbjct: 181 TITEGKYHQVKQMAKAVGNEVVYLKRLSMGRVSLDPALAPGEYR 224 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 106/234 (45%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG +++ V+ TD + + Sbjct: 274 DPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRTDEVYFQDKLVS 333 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ ++ + + R+ VGRLD NT G+LLLTNDG Sbjct: 334 LEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLLLTNDG 393 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY V V + L + GI ++ + + Sbjct: 394 DLASKLTHPKFLKKKVYHVFLDKAVTANDLQKISDGIELEDGEIKADAIEYADPQ-DQTQ 452 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + GKNR ++++FE ++V +L R+ + + G R +++K + Sbjct: 453 VGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEKEVD 506 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 93/371 (25%), Positives = 144/371 (38%), 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILR------------EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 RE+S+ + + ++ L + Sbjct: 243 REMSQYEVDILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 282 FTRMKKNSSQKN-------GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + Q PV + + + +S + +R + Sbjct: 303 PATGDRTPRQPQITGSERDRPRGGDSTQRPVRKDSGKPGSRAPRPADNSRGTPVAERPSD 362 Query: 335 HRRSPSFPSKR 345 + P+ P + Sbjct: 363 MNKRPAKPGPK 373 Score = 39.0 bits (89), Expect = 1.1, Method: Composition-based stats. Identities = 18/100 (18%), Positives = 28/100 (28%), Gaps = 2/100 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R P + + + + +D S P + + K+ Sbjct: 308 RTPRQPQITGSERDRPRGGDSTQRPVRKDSGKPGSRAPRPADNSRGTPVAERPSDMNKRP 367 Query: 302 ATPVHRRNLAS--NVWMAKGIHSSFLSDSGQREENHRRSP 339 A P +R N G + SGQR RR P Sbjct: 368 AKPGPKRVGIKLVNDDAPSGKRRGPPAGSGQRPGFGRRKP 407 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 81/356 (22%), Positives = 136/356 (38%), Gaps = 8/356 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D I+V+ Sbjct: 103 KRVLLPQVDSPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPAHV-GQRIQFGDQIKVN 161 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 162 GQPIRFRIDPPPARVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQHGKWQSVGRLDLNTE 221 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y R G + +++ L G+ ++ + Sbjct: 222 GLLLFTSSGELANSLMHPRFGLEREYAARVLGALSKEEKQRLTDGVQLEDGVAAFGSIED 281 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 282 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMVLPRGLKRGAWVELDQ 341 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF--TRMKKNSSQKNGLS 296 ++ ++ P N + + + Sbjct: 342 ADIQSLASAAGMQARAPAAPKPPAGGRRGGPADRNTVRREGGGRYFDGNRPAPNAMLDGP 401 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + K A G Q+ + R S + SL R Sbjct: 402 RAKPAAKGGKADGGQGQGKGQGGAGGRGKGGGSQQPDPMRTSVGYIGSDSLSRARQ 457 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 79/231 (34%), Positives = 130/231 (56%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A AGIASRR E MI RV V+G+ + + 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|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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 75/236 (31%), Positives = 110/236 (46%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+++AGIASRR E++I RV+V+G ++ V I VDG + Sbjct: 3 DTEGIRLQKVLSQAGIASRRAAEKLIIDGRVEVDGRVVTELGTRVDPDASVIRVDGARVV 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 125 E +KP G+ +T SD GR + D + VGRLD +TEGL+LLT Sbjct: 63 LDESLVYLALNKPRGMHSTMSDDRGRPCIGDLVERKVRGNKNLFHVGRLDADTEGLILLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G V + LK GI + + Sbjct: 123 NDGELAHRLMHPSHEVPKTYLATVTGSVPRGIGKKLKAGIELDDGPARVDDFAVVDAIPG 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R GP LG GS R +++ + Sbjct: 183 KTLVRVVLHEGRNRIVRRLLGAAGFPVEALVRTDIGPVSLGKQRPGSIRALNQGEV 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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + ++ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTRPAELEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVALHRERIGAIALDADLAPGEYRPLTEEEI 227 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 103/230 (44%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ +V +NG+ D + V+G P+ Sbjct: 1 MRINKFISETGFCSRREADKLVESGQVTINGVKA-VLGSQAEPGDDVRVNGRPIAAKRSK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + T + + R+ +GRLD ++EGL+LLT+DG + Sbjct: 60 HVY-IALNKPVGITCTTETHVKGNIVDFVGHPERIFPIGRLDKDSEGLILLTSDGDIVNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + +G+ I G +VT S+ + L Sbjct: 119 ILRAEGKHEKEYIVTVDRPITPSFVKAMSEGVKILGEMTLPCKVTRV----SDRVFRIIL 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 EGKNR+I+++ ++V RL RI LG G+ R+++++ RE Sbjct: 175 TEGKNRQIRRMCSALGYEVRRLQRIRIMNIHLGQQKVGTWRDLTEQEKRE 224 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 140/329 (42%), Positives = 196/329 (59%), Gaps = 3/329 (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 EAQVNLDAP---IYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 A + + P + + ++ ++ ++ + + V Sbjct: 268 AAGADFEGPLFNHNDEDEAPKAGKPRGAKARYAAAEGAEDRHRRRPIDVEPGEGRSVTAG 327 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRR 337 +A + +++ E RR Sbjct: 328 VVADRKGRQVLVQRVRSTEAEPEPEGRRR 356 Score = 39.0 bits (89), Expect = 1.0, Method: Composition-based stats. Identities = 15/124 (12%), Positives = 37/124 (29%) Query: 227 TLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 + G R V+ ++ ++ G +L + + +A R E + R Sbjct: 315 DVEPGEGRSVTAGVVADRKGRQVLVQRVRSTEAEPEPEGRRRPQREVERREAEREAARAP 374 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + ++ ++ P A + + + + + PS P + Sbjct: 375 RAPRGRSEGGERTFRKRPSRPFEEAPGGEEERPMRARPARTPSRDRQIGGPRPSRPREDR 434 Query: 347 LRRT 350 R Sbjct: 435 APRD 438 Score = 35.9 bits (81), Expect = 9.6, Method: Composition-based stats. Identities = 9/94 (9%), Positives = 19/94 (20%) Query: 257 LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWM 316 R E P R + + + + ++ R + Sbjct: 532 RVKSEQHRGRPDRFEERGEGERPARPFRERAPRPEGDRAPRGERPFRERTPRAEGDRPFR 591 Query: 317 AKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 +G +R SF + Sbjct: 592 ERGPRPEGDRPFRERGPRPEGERSFRPRAPRPEG 625 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 60/263 (22%), Positives = 115/263 (43%), Gaps = 10/263 (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 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + ++ ++L + +D + + R+ +GRLD +EGL+LLT+ Sbjct: 58 IGERKQGFVYLAFNKPVGIVCTTDTRVEKDNIIDYINYPKRIFPIGRLDKPSEGLILLTD 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKG 184 DG + + S + Y V + Q + + GI I+ G + +K Sbjct: 118 DGDIVNKILRASNNHEKEYIVTVDKPISQTFVARMAGGIYIEELGKRTKKCE----VKKI 173 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 ++ L +G NR+I+++ E+ N++V L R+ +L + G RE++K+ + Sbjct: 174 DKFTFSIILTQGLNRQIRRMCEYLNYEVQTLKRVRIMNIKL-DMPLGKYRELTKEEFKTL 232 Query: 245 LGPHLLEEAQVNLDAPIYSSETL 267 + Sbjct: 233 SNLISESKKTFEAKQHTPRRNRR 255 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G ++ AA ++ + DG PL + Sbjct: 33 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGP 92 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 93 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHR 152 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 153 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 208 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 209 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 259 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 89/320 (27%), Positives = 135/320 (42%), Gaps = 10/320 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I Q RV V+G + V + I +DG L E Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIQQGRVSVDGKVATLGDRVDVTPSTKIRLDGRILPITE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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 + + +++ ++ + R + S ++ Sbjct: 242 ELVELDVETVSKLPVEKDRRRVKANQIRRAVKRHTEVAGRQQTAGRQGSARKSSTRQNTG 301 Query: 303 TPVHRRNLASNVWMAKGIHS 322 S A Sbjct: 302 NTASSGAPVSGRRRAPAKRG 321 >gi|304397506|ref|ZP_07379384.1| pseudouridine synthase [Pantoea sp. aB] gi|304355124|gb|EFM19493.1| pseudouridine synthase [Pantoea sp. aB] Length = 239 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV + D G+ + Q+ + T V + Sbjct: 121 ITSPRHHCEKTYRVTLESPISDDTAAQFTAGVQLHNEKSLTKPAQLEVITPTD----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F +V L R G L L G R +++ + Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVIELHRERIGDIVLDEDLEPGEYRALTEDEI 227 >gi|229060031|ref|ZP_04197402.1| Pseudouridine synthase [Bacillus cereus AH603] gi|228719250|gb|EEL70858.1| Pseudouridine synthase [Bacillus cereus AH603] Length = 227 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 61/227 (26%), Positives = 107/227 (47%), 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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRINHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEITQL----SKYEFEIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKE 220 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 67/250 (26%), Positives = 110/250 (44%), Gaps = 5/250 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K++A G +R EV+ I + RV VNG + + A V + D I +DG P+ Sbjct: 2 ETIRLDKLLAATGAGTRSEVKNAIRKGRVTVNGAVCKSADSKVDADKDVICLDGAPVVYT 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 LY + T D + + + + VGRLD++TEGLLL+TNDG L Sbjct: 62 RYEYHMLYKPAGCV-TAVRDARYPTVMDYISSARKKDLFPVGRLDLDTEGLLLITNDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y R G+V + + ++GI I + ++ + G + V Sbjct: 121 AHRLLAPGWHVDKTYYARVQGEVTAEDIRRFQEGIDIGEKRPTMPAELEILAA-GQESEV 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 V + EGK ++K++F V L R+ G L L AG +R ++++ Sbjct: 180 RVTIHEGKYHQVKRMFAAIGKPVLYLKRLRMGSLTLDENLQAGGSRLLTQEETEALHSLA 239 Query: 249 LLEEAQVNLD 258 + + Sbjct: 240 ASDIRKGEAH 249 >gi|229030086|ref|ZP_04186150.1| Pseudouridine synthase [Bacillus cereus AH1271] gi|228731256|gb|EEL82174.1| Pseudouridine synthase [Bacillus cereus AH1271] Length = 248 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 67/242 (27%), Positives = 115/242 (47%), Gaps = 7/242 (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 +L + R+ +GRLD +++G Sbjct: 60 RVNGEQLRIARDHVYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDG 117 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+LLTNDG + + + + Y V + D L + G+ I G ++T Sbjct: 118 LILLTNDGDIVNEILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL 177 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 S + L +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 178 ----SKYEFNIILTQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKE 233 Query: 241 LR 242 R Sbjct: 234 KR 235 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 76/229 (33%), Positives = 124/229 (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 +L R+ VGRLD ++ GLLLLTNDG LA Sbjct: 60 KYYLLNKPIGYSSTAKAQFQEKIV-LDLIDSKERIYPVGRLDKDSFGLLLLTNDGDLAFR 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + Y V+ + + L L GI+++G + + + V V L Sbjct: 119 LTHPSHNVEKEYIVKVDKTLKESDLKKLSSGIMLEGKITRKARFEML--DFKSNIVKVFL 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +EG+NR+I+K+F+ ++ V L RI++G +LG L G+ RE+SK+ + Sbjct: 177 KEGRNRQIRKMFKTLDYNVISLERIAFGKIKLGKLKVGNYRELSKEEIE 225 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 70/243 (28%), Positives = 113/243 (46%), Gaps = 7/243 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 + +N R+ KV+A+AG+ASRR E +IA RV V+G ++ V + VDG Sbjct: 1 MTTQNSDGVRLQKVLAQAGVASRRAAEELIAAGRVSVDGEIVREMGRRVDPDTAVVHVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTT------HSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + +KP G+++T 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 Query: 239 KIL 241 + Sbjct: 241 AEV 243 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 104/232 (44%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G +R EV++ + + V VNG + + A + D +++ G + E Sbjct: 2 MRLDKFLAHMGQGTRTEVKQSLKKGNVTVNGKVEKSAKTQIDPHHDVVQIHGHQIDYVET 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + + DP + + + + VGRLD +TEGLLL+TNDG + Sbjct: 62 VYLMLNKPKGYI-SATEDPKQATVIDLIKDYKYLDLFPVGRLDKDTEGLLLITNDGQFSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V V +D + K+G+++ ++T+ S V Sbjct: 121 NLMNPNKHVAKTYLVTSKYPVTKDNQYMFKQGVMLSDGLTKPAELTIIDDYHS----KVT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + EG+ +IK++F +V L RI +L L G R +++ + + Sbjct: 177 IYEGRYHQIKRMFHSIENEVLELKRIQIANLRLDEELDEGQYRVLTQTDIEQ 228 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 109/241 (45%), Gaps = 2/241 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 2 SNEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRI 61 Query: 68 R-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + T R+ VGRLD T GL+LLTN Sbjct: 62 PTARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGIRLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD + L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V V L EG+NR ++++ + V RL R + GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTAIGPVRLKRLGRGDMRELTHEELGQLLD 241 Query: 247 P 247 Sbjct: 242 L 242 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 IISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 227 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 83/338 (24%), Positives = 138/338 (40%), Gaps = 9/338 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 E +R+ KV+A AG SRR E I RV ++G++ + V V + + VDG L Sbjct: 32 EASAGERLQKVLASAGYGSRRACEEYIEMGRVTIDGVVAKELGVRVDLSRQKVAVDGEKL 91 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R E+ + L T + P++ +VGRLD TEGLL++TND Sbjct: 92 RVEEKRYFLFHKPAGVLCTNSDPAGRTRVIDCFPPNVGRL-FTVGRLDDGTEGLLIVTND 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 VLEITMREGQNREIRRLLARVGHKVMKLKRTHFGPIKLGDLERGAHRKLSEEEL------ 264 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + + R R + TR + + G + + +L Sbjct: 265 -SKLQDVITGKWKEPAPRKPQRTRDAGKATSAGGVTRASSSRAGSAGATPRARLERTALP 323 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + + S + + + P +R Sbjct: 324 ATGLEPLTIPGSKLKRLGSSKALKSQVLNSPEANPKRR 361 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 57/238 (23%), Positives = 109/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V +D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLEHPVAEDTAQRFADGVQLHNETSLTKPAQLEIIEPQ----LVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 L EG+ ++K++F +V L R G +L L G R ++ + + PH Sbjct: 177 TLSEGRYHQVKRMFGAVGNRVLALHRERIGAMKLDDDLAPGEYRPLTAEEIASVGAPH 234 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 98/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTDPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + GI + + + T N V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDDGYTCKPASLEIITPNEIN----V 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTEAEL 227 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 82/268 (30%), Positives = 132/268 (49%), Gaps = 2/268 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++ARAG+ASRR E +IA RV V+G ++ + I +DG P+ +AE Sbjct: 4 ERLQKILARAGVASRRAAEELIAAGRVAVDGQIVRQPGHKADPDTQSIAIDGKPIARAEA 63 Query: 73 TRLW-LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 W + + T H + P 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 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 LREG+ REIK +++ V RL+R+ GP +LG L G+ R +S ++ Sbjct: 184 VLREGRKREIKLMWKARGLNVIRLVRVGLGPLRLGDLPPGAVRRLSPAEIQALRRQCHAL 243 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVP 279 + + S R+ P+ S Sbjct: 244 SGCKDSADGVQKSARGARNAPSKKSTGR 271 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 124/240 (51%), Gaps = 11/240 (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 VYFLLDKPRGVVTTNSDDKGRQTVMDIV-DEPERVYPVGRLDYDTTGALLLTNDGDLANK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------YGDMQVTLDTQKGS 185 L P + +VY + G ++L L+ G+ ++ + + + Sbjct: 122 LMHPKYRIDKVYVAKVKGIPTNEELEKLRHGVTVKTVQNGRHYTFNAAPAHAEILSTDKK 181 Query: 186 NAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + + EGK ++K++ + +V +L R YG L L G R + + ++ Sbjct: 182 KHTAIVKLTIHEGKYHQVKEMLKSVGHEVIKLTRERYGMLDLTGLTPGEYRPLRHEEVQA 241 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 72/243 (29%), Positives = 110/243 (45%), Gaps = 4/243 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G SR+EV++ + + V VNG ++ ++ T D + V + E Sbjct: 1 MRLDKFLAHHGYGSRKEVKQFLKKTEVTVNGKRVQDGKQAIVPTSDIVRVQDEVILYQEY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 W+ HKP G ++ D V VGRLD +TEGLLLLT+DG LA Sbjct: 61 -VYWMLHKPSGYISATEDQAKTVLDLLKPKDAGRAVFPVGRLDKDTEGLLLLTDDGQLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P +VY G V D ++ KKGIV+ ++ + G + + Sbjct: 120 ELLSPKKHVNKVYEATIEGVVTGDDVHAFKKGIVLEDDYQCKPAKLEILQVNGVKTDIRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK +IK++F + KV L RI G QL L G R ++ + L + L Sbjct: 180 TIQEGKYHQIKRMFLAVDKKVIYLKRIQMGSLQLDENLARGEYRPLTVEELEQLSKKRLE 239 Query: 251 EEA 253 + Sbjct: 240 IQE 242 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 58/234 (24%), Positives = 104/234 (44%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I G L Sbjct: 1 MRLDKFLVDCGVGSRSQVKTFLKKKQVTVNGQVETSPKTQIDEDKDQIAYLGQELTHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDSRHKTVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVT 190 + P ++Y+ + G +D++ + +KGI ++ ++ + + S + V Sbjct: 121 AMLSPKKHVDKIYQAKVAGIMDEEDILAFEKGIKLKDHTCQPAKLEIVSVDRNASTSLVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK ++K++ KV L R+ GP L L G+ R ++++ L Sbjct: 181 ITVAEGKFHQVKRMVAACGKKVADLQRLKMGPLSLPNDLELGAWRRLTQEELDA 234 >gi|31789454|gb|AAP58568.1| pseudouridylate synthase [uncultured Acidobacteria bacterium] Length = 317 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 80/261 (30%), Positives = 125/261 (47%), Gaps = 5/261 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK--- 69 +R+ K+IA AGIASRR E++I V VNG ++ + DHI+V G + Sbjct: 57 ERLQKIIATAGIASRRHAEQLITAGEVTVNGKVVTELGTKADAQNDHIKVRGKLINPTLK 116 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L +KP G +++ SDP+GR TV + LP+ RV VGRLD NTEGLLLLTNDG Sbjct: 117 RVEKNYILLNKPRGYLSSVSDPEGRPTVLELLPASLGRVYPVGRLDFNTEGLLLLTNDGD 176 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAW 188 + + +VY + G + + L++G+ + ++ L + SNAW Sbjct: 177 FTNFITSARNKVDKVYEAKVKGVPTEASVERLRRGVTLDDGVRTAPAKIRLLGETESNAW 236 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V L EGKN++I+++F+ V +L R G + L G R +S+ ++ Sbjct: 237 FEVLLHEGKNQQIRRMFDLIGHSVVKLRRSRIGGLRDDELKPGKWRRLSEYEVKLLTTTR 296 Query: 249 LLEEAQVNLDAPIYSSETLVR 269 + + + Sbjct: 297 SRTRKKPPQKTHAAGHGSSRQ 317 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 153/361 (42%), Positives = 205/361 (56%), Gaps = 14/361 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 +F +R++K +ARAG+ SRRE E+ IA+ RV VNG++L AA NV D I +DG P+ Sbjct: 81 TSSFEGERIAKAMARAGVCSRREAEQWIAEGRVAVNGVVLPNAAFNVKEGDRITIDGAPM 140 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLL 124 ++ ERTRL+L+HKP G VTT DP+GR TVF L RV+SVGRLDINTEGLLLL Sbjct: 141 QERERTRLFLFHKPAGYVTTAHDPEGRPTVFAFLEERHGELPRVVSVGRLDINTEGLLLL 200 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDGGLAR LELP+T W R YRVR HG DQ +L+ L+KG+ I G+ Y ++ L+ +G Sbjct: 201 TNDGGLARTLELPATGWTRRYRVRVHGDTDQAQLDELRKGVTIDGVVYAPIEARLERVQG 260 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +NAW+ + L EGKNREIK+V V RLIR+SYGPFQLG L G+ EV KILREQ Sbjct: 261 ANAWIAMSLTEGKNREIKRVMAHLGLDVTRLIRVSYGPFQLGELAEGAVEEVKLKILREQ 320 Query: 245 LGPHLLEEAQVNLDAPIYSSETLV----RDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 LG L E A V+ +P+ R+R R +++ G + + Sbjct: 321 LGKSLAELAGVDFSSPVRERTATEEQEMRERAEKRPRKHVSVLRKQRDEKSGKGPRARIE 380 Query: 301 LATPVHRRNLA-------SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R+ A A+ ++ + + R P R+ R + Sbjct: 381 RGATADRKGRAVVVERVTPTARKAESETTTRNARRFEAMRGEGRRPGPEGGRAERPAREE 440 Query: 354 K 354 + Sbjct: 441 R 441 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 80/362 (22%), Positives = 137/362 (37%), Gaps = 20/362 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +++ KV+ARAG SRRE+E MI RV ++G++ + + + +DG + Sbjct: 5 SEKLQKVLARAGQGSRREIELMIQSGRVSIDGVVAKLGDRLDDFSVLVRIDGHKIDLVSP 64 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L T H R+ R +SVGRLD NT GLLL T D Sbjct: 65 SEEVCRVLAYNKPEGELCTRHDPEGRRTVFDRLPRLSSGRWVSVGRLDANTSGLLLFTTD 124 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G+++++ + L +G+ ++ V +G N Sbjct: 125 GELANRLMHPSRSVEREYMVRVFGEINENMVKNLVQGVELEDGMARFEDVVYSGGEGMNH 184 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LRE 243 V + EG+NRE++++++ V+RL R+ YG L + G E+ K LRE Sbjct: 185 TFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDIYLTKDMPRGGWMELELKEVNYLRE 244 Query: 244 QLGPHLLEEAQVN-----LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + E + + VR ++E P ++ ++ Sbjct: 245 VVELEAEENTMLTVEGLKRKRGVRQIRRAVRRHEERVTETPRGRRGRTNTPDERRSSTRN 304 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS------FPSKRSLRRTSA 352 + + S + R + ++ + Sbjct: 305 SEAEGQNVPVGKRKPSGKPSTAKPTRGKPSAGKPAQGNRRKTDDCNEPAGKRKPSGNGAQ 364 Query: 353 KK 354 ++ Sbjct: 365 RR 366 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 104/229 (45%), Gaps = 2/229 (0%) 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 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + ++ VGRLD +TEGLLL+TN+G L Sbjct: 61 KYFLLNKPAGVVSAVSDKEHQTVIDLIKEADRVPKLYPVGRLDRSTEGLLLVTNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+ ++ + T + V Sbjct: 121 RMLHPKYHVAKTYYVEVNAFLADDAPAFFENGVSFDDGTICKPAKLEIITASPETSSAYV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK +IKK+F + KV L R+++G FQLG L +G RE++ Sbjct: 181 TISEGKFHQIKKMFLAYGVKVTYLKRLTFGEFQLGDLPSGQYRELTSTE 229 >gi|298707966|emb|CBJ30337.1| pseudouridine synthase [Ectocarpus siliculosus] Length = 468 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 72/349 (20%), Positives = 128/349 (36%), Gaps = 14/349 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA-- 70 +R+ K ++ AG+ SRR+ E+MI RV+VNG +++ V V D + VDG + Sbjct: 35 ERLQKFLSHAGLDSRRQCEQMILDGRVRVNGKMVKELGVKVNPRRDQVHVDGNRVSMRPD 94 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + L + T + + V + R++ VGRLD ++ GLLLLTN+ Sbjct: 95 SEIKWVALNKPKGVICTVSDELGRPTAVASIPRGLEMRLVPVGRLDRDSCGLLLLTNENS 154 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI---CYGDMQVTLDTQKGSN 186 L PS + YRV + + ++ V + Sbjct: 155 WINPLTHPSYGHEKTYRVALTSGYPTTEEWDVLTQGMLLDGDPNPTRPCIVEVVNYDRRT 214 Query: 187 --AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + +REGKNR+I+++FE +V + R+S+GP +L L G RE+ + + + Sbjct: 215 RVTTVDIIIREGKNRQIRRMFEGIGHEVKSITRVSHGPIRLKNLRPGEWRELEQWEIEKL 274 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L +P + + +SQ+ + + Sbjct: 275 KNL-----TTKTLKSPAKQLAPTPTRAEGRHRQAAAAGRMSSRMTSQQQYHGSEYRRDAL 329 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + V R + S + + Sbjct: 330 DEEEDEWNQVGAWDRSGVRKAVAPSARAGAPATTASARGGGTPPQGEPA 378 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 111/239 (46%), Gaps = 4/239 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 + R+ KV+++AGIASRR E+MI RV+V+G ++ V I VDG + Sbjct: 2 TDNDGIRLQKVLSQAGIASRRVAEKMIRDGRVEVDGRIVTELGTRVDPAASVIRVDGARI 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLL 124 + +KP G+ +T SD GR V D + VGRLD +TEGLLLL Sbjct: 62 TVDDTLVYLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLL 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + + Y G V + L++G+ ++ + Sbjct: 122 TNDGELAHRLMHPSFEVPKSYVATVLGSVPKGLGRKLREGVELEDGPVQVDDFAVVDTTP 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V V L EG+ ++++ + V L+R G LG GS R +++K + E Sbjct: 182 GRTLVRVTLHEGRKHIVRRLLAEVGFPVQELVRTDIGTVSLGDQRPGSIRVLTQKEIGE 240 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 56/225 (24%), Positives = 97/225 (43%), Gaps = 1/225 (0%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ + + + Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQAVSIERKIYVL 61 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T+ R+ + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 62 LNKPKDTVTTSDDPQARRTVMDLVKGACSERIYPVGRLDRNTTGVLLLTNDGDLASKLTH 121 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P ++Y V + + + + GI + T V + + G Sbjct: 122 PKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIH-ADAISYTDDFKKDDVGIEIHSG 180 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 KNR ++++FE +KV +L R+ + L G R ++++ + Sbjct: 181 KNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQEV 225 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 106/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D + G+ + Q ++ V + Sbjct: 121 ITSPKHHCEKTYLVTLEQPLAADTASHFAAGVQLHNEKDLTRPAQ----LEQLDEHRVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G +L L G R ++++ + PH Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVDLHRERIGAIRLDDDLAPGEYRPLTEEEIASVGAPH 234 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 111/228 (48%), Gaps = 1/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGI SRR + I+ V VNG ++ V TD + DG L ++ Sbjct: 154 VRLNKYIADAGICSRRNADMYISAGNVTVNGEVMTTLGYRVKPTDEVRFDGKLLSSEKKE 213 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + TT+ + ++ + + R++ VGRLD T GLLLLTNDG L + Sbjct: 214 YILLNKPKGFITTTNDEKGRKTVMDLVANATNVRILPVGRLDRATTGLLLLTNDGELTKK 273 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ ++Y V ++D ++ G+ ++ +++ K N + + + Sbjct: 274 LTHPTHGVRKIYHVILDRKLDYKDFMKVQDGLELEDGLIEVDEISYVNDKPKN-EIGIKI 332 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G+NR ++++FE ++V +L R+ + L G R ++++ + Sbjct: 333 HSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQQEV 380 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 64/292 (21%), Positives = 118/292 (40%), Gaps = 8/292 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I+ +GI SRRE +R I Q V +NG V + D ++V+G + + Sbjct: 6 STRLNKYISESGICSRREADRYIEQGLVLINGKRA-GIGDRVTAGDEVKVNGRLIEAQDN 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L L + + +G + + +RV +GRLD +++GL+ LTN G L Sbjct: 65 SELVLIALNKPVGIVSTTDEGEKDNIVDYVNHSTRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + + + + G+ I G +K + + Sbjct: 125 KILRAGNSHEKEYLVTVDKPITDEFIRGMGAGVPILGQK----TKKCKVKKEAAMVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI---LREQLGPHL 249 L +G NR+I+++ E+F ++V +L RI L L G R+++ L + + Sbjct: 181 LVQGLNRQIRRMCEYFGYEVTKLERIRIMNVSLAGLPVGEWRDLTDDELIKLFDAIEASS 240 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 E + + P + + I + T K+KK Sbjct: 241 SEAPKQKQNKPKKQISSNAKALGIHIPKTKAKETENNTRKRFAQPGRKKKKR 292 >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 = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 90/305 (29%), Positives = 133/305 (43%), Gaps = 8/305 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 P+R+ K++ARAG+ SRREVE I R+ +NG + V D I++DG L A Sbjct: 22 PERIQKLLARAGVGSRREVESWIEAGRLSINGKPV-EPGQKVTVNDRIDLDGKRLDIAAG 80 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + T + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL R+ YGP L L G E+ +K + + L Sbjct: 201 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRLSVGKWEELDQKAV-DSLS 259 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + +TL R R P + + +K P Sbjct: 260 KAVDLKPVEIPAKTPSEQKTLDRKRRKQAGTGPRKSGGARWQVDSAGPSTGRKSSGKPPA 319 Query: 307 RRNLA 311 R Sbjct: 320 RSGKR 324 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 51/230 (22%), Positives = 96/230 (41%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN ++ + +V V +E G + K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNDVVQKSGSVKVTDDCTVEWQGREIHKPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGFVCSHEDGFNQ-TAFMLLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V D GI ++ + ++ V + + Sbjct: 120 ITSPKHKCEKTYRVWLADPVQDDYAEKFANGIQLRNEKDLTLPAQMELVDAQENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 EGK ++K++F KV L R G +L TL G R ++++ + Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGDIELCDTLEPGEYRYLTQQEID 229 >gi|222640395|gb|EEE68527.1| hypothetical protein OsJ_26969 [Oryza sativa Japonica Group] Length = 1502 Score = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 67/252 (26%), Positives = 114/252 (45%), Gaps = 19/252 (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 EVDGVPLRKA-------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 VDG PLR R +KP+G+ T + R+ +GR Sbjct: 1311 LVDGQPLRARVARKPGARRHVYIALNKPVGVTCTTETSV--KGNIVDFVGHEQRIFPIGR 1368 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD ++EGL+L+T++G + + + Y V + V + L + +G+ I Sbjct: 1369 LDKDSEGLILMTSNGDIVNQILRAENGHQKEYLVAVNKPVTDEFLRGMARGVRIHDQMTL 1428 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + + G + L++G NR+I+ + F ++V +L R+ ++G L G Sbjct: 1429 PCKTSRIAKFG----FRITLQQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKIGALKPGQW 1484 Query: 234 REVSKKILREQL 245 R ++++ L+ L Sbjct: 1485 RNLTEQELQGLL 1496 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 73/277 (26%), Positives = 126/277 (45%), Gaps = 5/277 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 ++E R+ K +A AG+ASRR+ E +I V+VNG ++ V D + V G Sbjct: 24 LREQRDGVRLQKFMASAGVASRRKAEELITAGVVRVNGQVVRELGTRVFPERDRVTVRGE 83 Query: 66 PLRKAERTRLWLYHKPIGLVTT--HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L + + D GR TV L + R+ VGRLD ++ G+LL Sbjct: 84 PIQAESKVYYVLNKPDGVVSSAAGSVDERGRPTVISLLHGVSERLYPVGRLDFHSRGVLL 143 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGD-MQVTLDT 181 LTNDGGLA L P ++ Y V+F G++ +++ LL+ G+ + ++ Sbjct: 144 LTNDGGLAEALTHPRHGVVKTYHVKFQGKLTEEQEQLLRDGVELDDGAITRPVAELFAFR 203 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + +N W +G+REG NR+I+++ E V +LIR++ G + G R ++ + Sbjct: 204 ETATNVWYQIGIREGLNRQIRRMGEAIGHPVLKLIRVAIGDITADGVPEGEFRALNATEV 263 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 + L L + + + Sbjct: 264 GQLLANVKLAPEGRRGRSGGAGRPRGGQRDRPKAKKS 300 >gi|152967064|ref|YP_001362848.1| pseudouridine synthase [Kineococcus radiotolerans SRS30216] gi|151361581|gb|ABS04584.1| pseudouridine synthase [Kineococcus radiotolerans SRS30216] Length = 322 Score = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 77/240 (32%), Positives = 119/240 (49%), Gaps = 1/240 (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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V V L EG+ ++++ E + V +L+R+ GP LG L G R +++ +++ + Sbjct: 261 VEVVLHEGRKHIVRRMLEAEGYPVLKLVRVQMGPIVLGDLKPGKNRRLTRGEVQQLMAVA 320 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 82/358 (22%), Positives = 139/358 (38%), Gaps = 10/358 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + ++ KV+A AG+ SRR++E +I RV VNG ++ TD + Sbjct: 185 NGRRDLTAEDDAPKLHKVLADAGLGSRRDMEELIVAGRVSVNGEPA-HIGQRILPTDAVR 243 Query: 62 VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 ++G ++ K L + +V+ S + ++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 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V + EG+NRE++++FE V+RLIR YG L TL G E+ Sbjct: 364 ADGGGEGVNKWYRVTIGEGRNREVRRMFEAVGLTVSRLIRTRYGAMTLPQTLRRGRWEEL 423 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + +R + LE+ S + P K + G + Sbjct: 424 EENAVRNLMAACGLEKQAGE----GKSGNGGHAGKGQGNGNGPRGNAMQNKGPQKGRGGN 479 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + ++ N G + ++ + + + FP R ++ Sbjct: 480 YGNQGGNYGNQGGNYGNQGGGYGGGNKGGQPKSRQPDPLQTALGFPDAGQRRNNRPQR 537 >gi|324326400|gb|ADY21660.1| RNA pseudouridine synthase family protein [Bacillus thuringiensis serovar finitimus YBT-020] Length = 235 Score = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 68/235 (28%), Positives = 111/235 (47%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +RV K++AR GIASRR E++I RV +NG ++ D + VDG PL+ E Sbjct: 3 ERVQKILARWGIASRRGAEKLILAGRVTLNGKPVQLGDQADPEGDRLCVDGKPLKATERP 62 Query: 72 -RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTNDG 128 ++ + T + + P + +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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L EG+NR+I++V E + V +L R++ G LG L G R ++K +++ Sbjct: 183 IDIMLTEGRNRQIRRVAEQLGFPVVKLHRLAIGNLHLGDLQRGQARPLTKAEIKQ 237 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 146/344 (42%), Positives = 199/344 (57%), Gaps = 3/344 (0%) 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 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E A V+ P + T + P K ++ Sbjct: 265 EAAAVDFVGPAGDALTPPPEEPAPRPPRQKSLRNQKAFRDEERPRRDSGPFRKAEGGGRP 324 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A +A+ + + ++ +P S R A + Sbjct: 325 AGAGLLARRRGPDPAAFDPAQPRKNKPAPGPRKHISSLRAEASE 368 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 70/229 (30%), Positives = 117/229 (51%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IAR+G SRR+ + +I VKVN +++ ++V D +EVDG L ++ Sbjct: 2 MRINKFIARSGYTSRRKADELIKNGLVKVNYKIIKEPGIDVKENDLVEVDGQILEIEDKF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L LY + + + + L + R + GRLD ++EGLL++TNDG Sbjct: 62 YLKLYKPVGFITSNFDPYNDKDLNN--LLDLDKRFFAAGRLDKDSEGLLIITNDGDFTNE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + + Y V+ ++ +++L +KGI I + K +N V + Sbjct: 120 IIHPSKKLDKTYIVKVSKLLNNKEISLFEKGIDIGNGEVTSDSKIVLIDKKTN-KYKVTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++FE+F+ KV L RIS GP QL + TR+ + L Sbjct: 179 HQGYNRQIRRMFEYFSSKVINLKRISIGPIQLSNMKPYETRQFTADELE 227 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 75/237 (31%), Positives = 111/237 (46%), Gaps = 4/237 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 E R+ KV+++AGIASRR E++I RV+V+G ++ V I VDGV + Sbjct: 8 EQERGIRLQKVLSQAGIASRRAAEKLIIDGRVEVDGQVVTELGTRVDPDTSLIRVDGVRV 67 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLL 124 + +KP G+ +T SD GR + D + VGRLD +TEGL+LL Sbjct: 68 ILDDSLVYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGNKNLFHVGRLDADTEGLILL 127 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + + Y G V + L+ GI ++ + Sbjct: 128 TNDGELAHRLMHPSHEVPKTYLATVAGTVPRGLGKKLRAGIELEDGPVRVDGFAVVDAIP 187 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+RI G LG GS R + + + Sbjct: 188 GKTLVRVTLHEGRNRIVRRMLAAVGFPVQALVRIDIGGVSLGEQRPGSVRALRRDEI 244 >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 = 171 bits (433), Expect = 1e-40, 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 +L R+ VGRLD +TEGL+LLTNDG Sbjct: 62 GKVYFMLYKPTGVISAAKDDRGRKTV-VDLVKYQERIYPVGRLDFDTEGLILLTNDGDFF 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|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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 105/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G SR+++++++AQ+ V +N + + V D + V G + Sbjct: 1 MRIEKYLADTGWGSRKDIKQLLAQKIVTINDQVCSKGGTQVTPGSDCVAVGGQLVPYQRY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T + + VGRLDI+T GLLLLTN+G LA Sbjct: 61 HYYLLNKPEGILSATEDRHHQTVIDWLGEGYQHLDLFPVGRLDIDTTGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVT 190 L P + + Y G VDQ + + G+ + ++T+ +Q + + Sbjct: 121 QLLSPKKKVDKTYTATIRGLVDQADIAAFEAGLDLGDFTSLPAELTVLSQDVDQGTSQIQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 V ++EGK ++K++F+ +V L R++ GP +L L G R ++++ Sbjct: 181 VIIQEGKFHQVKRMFQAVGKEVLSLHRLAMGPLRLESDLAHGQWRSLTEQE 231 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 82/374 (21%), Positives = 146/374 (39%), Gaps = 27/374 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + + ++ KV+A AG+ SRR++E +I RV VNG +++ D + ++ Sbjct: 197 RRDLTADDDAPKLHKVLAEAGLGSRRDMEELIISGRVSVNGEPA-HIGQRILAQDQVRIN 255 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G ++ K L + +V+ S + ++VGRLD NTE Sbjct: 256 GKLIQRRVSKKPPRVLVYHKPAGEIVSHDDPDGRPSVFERLPNMKAGKWLAVGRLDFNTE 315 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T G LA L P R Y VR G++++ L G+ + +V Sbjct: 316 GLLLFTTSGDLANRLMHPRYNIDREYAVRTLGELEEGMRQKLLAGVELDDGVAQFSRVAD 375 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ + Sbjct: 376 GGGEGVNKWYRVTIGEGRNREVRRMFEAIGLTVSRLIRTRYGAMVLPPNLKRGRWEEMDE 435 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSET-------LVRDRPNIISEVPDDFTRMKKNSSQ 291 +R+ L LE+ + S+ + + ++ Sbjct: 436 HSVRDLLKISGLEKTVGKSEPSRGRSDEHDSEGGVNGNRIERAPATARHGAPNGNRANAP 495 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHS--------------SFLSDSGQREENHRR 337 + G + K + P + +G + + ++ + + Sbjct: 496 EPGQWQGKGRSGPARGPGGFAGQGQPRGPGAYPAQGQGGQGQGRGAPAKARSRQPDPMQT 555 Query: 338 SPSFPSKRSLRRTS 351 + FP RR++ Sbjct: 556 ALGFPGMGQPRRSN 569 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 57/224 (25%), Positives = 94/224 (41%), Gaps = 10/224 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 R++K I+ G SRRE R+IA R+ +NG + A V D + +DG + E Sbjct: 1 MRINKYISETGFCSRRETNRLIAAGRITINGNVC-EAGAEVEPQDIVLIDGEAIPLNSSE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L + T G + + SR+ ++GRLD +EGL+LLTNDG + Sbjct: 60 PVYLALNKPIGIVCTAAEQVAGNIISYV---NYPSRIFAIGRLDKASEGLILLTNDGSIV 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + G+ I + +V S + Sbjct: 117 NQMMRSEHGHEKEYVVTVDKPVTNEFTQAMSCGVEILNVITKPCKVDR----TSEYEFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 L +G N +I+++ + ++V +L R+ L L G R Sbjct: 173 ILTQGLNLQIRRMCKALGYRVLKLERVRIMNITLDHLERGQWRH 216 >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 = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 68/231 (29%), Positives = 129/231 (55%), 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 + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 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|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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 75/254 (29%), Positives = 126/254 (49%), Gaps = 8/254 (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+ + L SRV GRLD ++EGL Sbjct: 76 VEGEQAVRSQERILLVVNKPRGVVCTTDKTWGDTTLEE-LVDYPSRVFYAGRLDKDSEGL 134 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTL 179 +L+TNDG L + + + + Y V+ VD L + KG+ + +V Sbjct: 135 ILMTNDGELQDKIMRAANRHEKEYLVKVDRTVDDTFLKKMAKGVYLRELDTVTRPCRV-- 192 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +K + L +G NR+I+++ ++V L R+ +LG L AG RE + + Sbjct: 193 --EKTGRRAFRIVLTQGLNRQIRRMCAALGYQVQELRRVRIMNIRLGGLPAGQYREATDE 250 Query: 240 ILREQLGPHLLEEA 253 LRE + Sbjct: 251 ELREICALAEAGKP 264 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ + +++V VNG + + D I L Sbjct: 1 MRLDKFLVDCGLGSRSQVKIYLKKKQVTVNGQVETSPKTQIDEKKDQIAYQSQELTHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPKGVISATEDARHKTVLDLLDETARHKQVFPVGRLDIDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 + P ++Y+ + G +D+ + +KGI ++ ++ + + + + V Sbjct: 121 AMLSPRKHVDKIYQAKVAGVMDEADMQAFEKGIELKDHTCQPAKLEILSVDQAVKTSTVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V + EGK ++K++ +V L R+S G L L G+ R ++++ L Sbjct: 181 VTIAEGKFHQVKRMVAACGKEVTDLQRLSMGSLVLPDDLEIGTWRRLTQEELD 233 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 71/237 (29%), Positives = 107/237 (45%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K +A AG+ASRR E++IA V+VNG + V + D IEVDGVPL + + Sbjct: 2 ERLQKAMAEAGVASRRASEKLIATGHVQVNGQTVTTLGTKVAARDRIEVDGVPLHREKHV 61 Query: 74 RLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + I R+ VGRLD +T GLLLLTNDG LA Sbjct: 62 YYLLNKPRGVISSAHDEKGRRTVVDILREDEIEERIYPVGRLDYDTTGLLLLTNDGALAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 L P + Y + G V D L L+ G+ + G + L ++ + V Sbjct: 122 KLMHPKFAVDKTYVAKVKGLVSNDDLKRLRTGVKVDGRRTQPAKARLKATDREKRTSIVQ 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + EG ++K++ V +L R SYG L + G RE+ + ++ Sbjct: 182 LTIHEGHYHQVKRMLAAVGHPVIKLHRESYGFLTLQGVQPGDYRELRPEEVKRLTRL 238 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYIMNKPKGVISATEDSKHRTVLDLLDDLARTKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ + KGI ++ ++ + + + V Sbjct: 121 ALLSPKRHVDKTYLAQVKGIMSQEDVETFAKGISLKDFTCQPAKLEILSVDSGKDESQVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVSYCGKEVVDLQRLTMGTLALDENLERGEWRRLTKEELE 233 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMATGVKILGTKTLPCEITQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 56/249 (22%), Positives = 103/249 (41%), Gaps = 7/249 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 P R++K G SRR+ +++I V VNG + D + V+G + + Sbjct: 2 EPIRINKYFTTIGFCSRRKADKLIEAGYVTVNGKRP-EMGQKIDPAKDKVRVNGKLVGQE 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E ++L + +D + + SR+ +GRLD +EGL+ LTNDG + Sbjct: 61 EEKPVYLVFNKPVGIVCTTDTHVEKDNIIDYINYPSRIFPIGRLDKPSEGLIFLTNDGDI 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + D +N +K GI I + + +K ++ Sbjct: 121 VNKILRARNHHEKEYIVTVDRVISDDFVNRMKSGIPILDTVTRECE----VEKITDYMFK 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E+ ++V L RI L + G R+ + + +E Sbjct: 177 IVLTQGLNRQIRRMCEYLGYEVLTLKRIRIMNVTL-DIPVGEYRDFTDQEFKELQDLLED 235 Query: 251 EEAQVNLDA 259 E + Sbjct: 236 SEKTAPENN 244 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 93/370 (25%), Positives = 155/370 (41%), Gaps = 17/370 (4%) Query: 1 MKDKNIVQEN--FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M D++ + +++ KV+AR G+ SRR+VE I Q+R+KVNG+ V D Sbjct: 1 MNDQDHKDQEIGPAGEKLQKVLARIGVGSRRDVEAWITQKRIKVNGVEAT-LGQRVDLHD 59 Query: 59 HIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 I +DG +++ E R + + T + 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 DMQVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAG 231 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 180 FTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMG 239 Query: 232 STREVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 RE+S+ L ++G + Q+N + + + T Sbjct: 240 RWREMSQYEVDILSAEVGLTPVAMPQMNAKSKDKLERMQRKSSRPVARTERVARTLRPAL 299 Query: 289 SSQKNGLSKQKKLATPVHRR----NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + G ++ RR + + + R E R + + +K Sbjct: 300 DAPATGGRISRQPQIEGERRPTAPSRQEGERAPRTPRPAPAGGRSNRGEADRPADNASTK 359 Query: 345 RSLRRTSAKK 354 R + + K+ Sbjct: 360 RPAKPAANKR 369 >gi|300714626|ref|YP_003739429.1| Pseudouridine synthase [Erwinia billingiae Eb661] gi|299060462|emb|CAX57569.1| Pseudouridine synthase [Erwinia billingiae Eb661] Length = 292 Score = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 60/297 (20%), Positives = 106/297 (35%), Gaps = 7/297 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TNSSIRLNKYIGESGICSRRDADRYIEQGNVFINGKRAAV-GDQVYAGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L + + +G N + RV +GRLD ++GL+ LTN G Sbjct: 62 RNEDDLVLIALNKPVGIISTTEEGERDNIVNFVNHSKRVFPIGRLDKESQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +K + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKLVTDEFIAGLGAGVPMLGTV----TKKCKVKKEAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G RE + L E Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVSLKGLPIGEWREFTDDELIELFKL-- 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 +E + + + + + Q Sbjct: 236 IEHSSSEENPEKKAKPKAKPAAVKKPTIAGPKTAEKPTANGAARKRFVQPGRKKKGR 292 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 107/233 (45%), Gaps = 1/233 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I VKVNG ++ VM TD + P+ Sbjct: 248 DPTVPVRLNKFLANAGVCSRREADEFIQAGVVKVNGEVVTELGTKVMRTDEVVFHDQPVS 307 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ ++ + R+ VGRLD NT G+LLLTNDG Sbjct: 308 LEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKNVCPERIYPVGRLDRNTTGVLLLTNDG 367 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY V V + + +GI ++ + + N Sbjct: 368 DLASKLTHPKYLKKKVYHVFLDKNVTAHDMQKIAEGIELEDGEVHADAIEYAHETDKNQ- 426 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE ++V +L R+ + L G R ++++ + Sbjct: 427 VGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNLRRGDWRFLTEEEV 479 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTDLFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + GI + + + T N V Sbjct: 121 NLLSPKKHIDKTYYAKIDGDVTAADVEAFAAGIELDDGYTCKPASLEIITPNEIN----V 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDESLELGEYRPLTEAEL 227 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 72/236 (30%), Positives = 107/236 (45%), Gaps = 2/236 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 65 + R+ KV+A AGI SRR E +IA RV VNG + V I VDG Sbjct: 1 MTAEPEGVRLQKVMAAAGIGSRRACENLIAAGRVTVNGKKAQ-LGNRVDPQHAVIHVDGE 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + + +KP G V+T D R + + I RV VGRLD +EGLLLLT Sbjct: 60 RVITDTKLVHFALNKPRGYVSTMDDELKRPDLNEFTAGISERVFHVGRLDTESEGLLLLT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L L PS + + YR + G L G+V++ + + Sbjct: 120 NDGELGNRLTHPSYEIAKTYRCQVTGYAGPAIARRLAAGVVLEDGPVTVDDFKVIDEHAD 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A V + + EG+ ++++ VNRL+R + G +L L G+ R++ + Sbjct: 180 QALVEIVVHEGRKHVVRRLLAEVGLPVNRLVRTAIGDIRLANLKPGTLRKLRPDEI 235 >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 = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 110/231 (47%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AG+ +R+EV+ I + RV VNG + + + D + +D + E Sbjct: 1 MRLDKYLAHAGLGTRKEVKLAIRKGRVSVNGEVCRKDDRKIQEGVDVVCLDKEEI-YYEA 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +V+ SDP + + + VGRLD++TEGLLL+TNDG LA Sbjct: 60 VVYIMLNKPQDVVSATSDPTYETVLDCIDAFLPKDCFPVGRLDMDTEGLLLITNDGKLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V + + L+ IV+ +V + + + + Sbjct: 120 RLLSPKHHVEKTYLVDLAQPLQEGDQKKLENGSIVLDEEPVLPARVEIL----EDTQILL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EG+ ++K++ +V L RI+ GP +L L +G R +S++ + Sbjct: 176 HIQEGRFHQVKRMLHAIGNEVVHLKRIAMGPLRLDEALASGEWRYLSEEEI 226 >gi|157371821|ref|YP_001479810.1| pseudouridine synthase [Serratia proteamaculans 568] gi|157323585|gb|ABV42682.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 266 Score = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 55/258 (21%), Positives = 102/258 (39%), Gaps = 5/258 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++K I+ +GI SRR+ +R I +V +N E V D + V+G + Sbjct: 2 PTQSSIRLNKYISDSGICSRRQADRYIKLGKVFINDNQAEV-GAPVFIGDVVSVNGQRIE 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + S + + R VGRLD +++GL+ LTN G Sbjct: 61 PRNDADLVLIALNKPVGIITSMGKHVPNNIGDFVNHSQRTFPVGRLDKDSQGLIFLTNRG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + Y V + + + + G+ I G QV ++ + Sbjct: 121 ELVNKILRAGNNHQKEYLVTVDKPLTDEFIQGMGAGVPILGKVTHKCQV----EQEAPQV 176 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L +G NR+I+++ ++F ++V +L R+ L L G R++S+ E Sbjct: 177 LRITLVQGLNRQIRRMCKYFGYQVTKLERVRIMNISLQGLALGEWRDLSEDERTELFKLL 236 Query: 249 LLEEAQVNLDAPIYSSET 266 ++ Sbjct: 237 EHSSSEEPDLPQRDEIPP 254 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >gi|332359960|gb|EGJ37774.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1056] Length = 242 Score = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIVVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAQLKIVELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ G QL + L G R ++++ + Sbjct: 181 ITLAEGKFHQVKRMVASCGKEVTDLQRLTMGSLQLDSALALGEWRRLTEEEM 232 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 108/231 (46%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D L KG+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAALFAKGVQLNNEKDLTKPAQLEVI----TPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G +L L G R +++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPELAPGEYRPLTEDEI 227 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 81/373 (21%), Positives = 142/373 (38%), Gaps = 23/373 (6%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D ++V+ Sbjct: 86 KRVLSPQPETPKLHKVLAQAGLGSRLEMEQLILEGRISVNAEPA-HIGQRIQFGDTVKVN 144 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + 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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 265 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMVLPRGLKRGAFVELDE 324 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + E++ + + P R + + + L Sbjct: 325 NDIHALTSAVSRSESRPDPRGEAAGPGQSEGEGGVQQRRGPRRNERPRSGAGRPRNLDAG 384 Query: 299 KKL-------ATPVHRRNLASNVWMAKG----------IHSSFLSDSGQREENHRRSPSF 341 + + P R ++ + + + P Sbjct: 385 QSGVQQPLDDSQPPMNRTDSAPRGNRRNAGGGAGPRGRSQGGNSGPGARFGQAGAGGPQG 444 Query: 342 PSKRSLRRTSAKK 354 +R R + K Sbjct: 445 QKRRDDRNPRSDK 457 >gi|301156469|emb|CBW15940.1| 16S rRNA pseudouridylate 516 synthase [Haemophilus parainfluenzae T3T1] Length = 232 Score = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 61/236 (25%), Positives = 110/236 (46%), Gaps = 7/236 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P Q + Y V V+ + ++GI+++G ++ + + V + Sbjct: 121 ITSPKHQCEKTYLVTLADPVENHYASACEEGILLRGEKEPTKPAKLEVL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G +L L G R ++++ + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVALHRWRIGNVELDESLEEGEFRPLTQEEIDNLVK 232 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 69/254 (27%), Positives = 117/254 (46%), Gaps = 10/254 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK+ N R+++ +A GIASRR ++++ + RV VNG ++ + V D Sbjct: 1 MKN----STNSEEVRINRFLALCGIASRRAADQLVLEGRVMVNGTVITQPGTKVNPDKDE 56 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + VDG + E ++++ V + S + + + + RV VGRLD T Sbjct: 57 VIVDGQKYAQPESRKVYILFNKPRNVISTSSDEKNREMVLDYIDVKERVFPVGRLDRKTT 116 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV 177 GL+LLTNDG LA L PS+ + Y + L L G+ ++ + Sbjct: 117 GLILLTNDGTLANKLMHPSSNVKKEYIAVLGEKFPASMLPQLTGGMRLKDTGEKVRPCRA 176 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L + V + + EGKN +++++FE ++V RL R++Y +G L G R +S Sbjct: 177 KLLDEG---MQVLLSIHEGKNHQVRRMFETLGYEVKRLERVAYAGLTIGELRRGEWRYLS 233 Query: 238 KKILREQLGPHLLE 251 + +RE Sbjct: 234 RNEVRELYKLAESP 247 >gi|288553832|ref|YP_003425767.1| pseudouridine synthase [Bacillus pseudofirmus OF4] gi|288544992|gb|ADC48875.1| pseudouridine synthase [Bacillus pseudofirmus OF4] Length = 233 Score = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 59/223 (26%), Positives = 104/223 (46%), Gaps = 4/223 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLWLY 78 ++ G SR+EV++++ V++N +++ + V + V G + L L Sbjct: 2 LSNMGYGSRKEVKKVLKSGSVRINEKVIKDGSYKVDPDQSDVTVHGELVEYKPYVYLMLN 61 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 + T + + + VGRLD +TEG+LLLTNDG + L P Sbjct: 62 KPQGVISATEDNHHKTVIDLLDESYLLYDPFPVGRLDKDTEGMLLLTNDGKFSHSLMSPK 121 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGK 197 + Y + G V ++ + L KKG+ + +T+ T G + V + + EGK Sbjct: 122 KHVKKTYYAKVKGTVTEEDIGLFKKGVTLDDGYVTKPADLTIITA-GEQSEVELTITEGK 180 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 ++K++FE + KV L RIS G +L +L G RE++++ Sbjct: 181 FHQVKRMFEAVDKKVTFLKRISIGGLKLDPSLEKGMVRELTEE 223 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 56/234 (23%), Positives = 105/234 (44%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A A I +R EV ++I + + VNG +++ + ++ TD +E G + + Sbjct: 1 MRLDRFLANAKIGTRSEVRKIIKKGEISVNGEIVKNISFHINETDIVEYMGKTVVPYRKI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + S ++ GRLD + EGLL+LTNDG Sbjct: 61 YLIFNKPAGFV--SDKTNAQPSVFDLIDHPFIDQMHVAGRLDRDVEGLLILTNDGLFTHR 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y + F G + +K+ +++ GIV+ + ++ L + T+ + Sbjct: 119 LISPKFHVEKEYMIWFEGNLTAEKIQIVENGIVLAQNRFKPAKIKLLSSNIM----TLTI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EGK ++KK+ + ++ RI G LG + G+ RE+ + L E + Sbjct: 175 TEGKYHQVKKMIKIMGLTYRKIKRIRIGNINLGNMSTGNYRELDENELNELMNL 228 >gi|311031252|ref|ZP_07709342.1| ribosomal small subunit pseudouridine synthase A [Bacillus sp. m3-13] Length = 236 Score = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 61/224 (27%), Positives = 103/224 (45%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G +R+EV++++ VKV+G +++ A V+V + V + E Sbjct: 1 MRLDKMLANSGFGTRKEVKKLLKTGVVKVDGNVVKDAKVHVDPEVQEVTVHDDIVEYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ P L T VGRLD +TEGLLLLTNDG LA Sbjct: 61 IYLMMHKPPGLLSATEDHRQETVVDILQEEDKMFEPFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G+V + + KKG+ + ++ + + G + + + Sbjct: 121 QLLSPKKHVPKTYYAKIDGEVTTEDMEAFKKGVTLDDGYETLPAELVIL-EAGPESQIEI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K++F+ V L R+S G +L L G R Sbjct: 180 TIVEGKFHQVKRMFQAVGKTVTYLKRLSMGELKLDEDLELGEYR 223 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 65/229 (28%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G +VT S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVTQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 126/231 (54%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 71 R++K ++ GIASRR ++R I + R+ VNG +++ D+I +DG + E Sbjct: 1 MRINKFLSTLGIASRRTIDRYIEEGRITVNGNTATT-GMDISGNDNIFIDGKKIETNIDE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ ++++ SD GR TV D + + +GRLD T GL+LLTNDG L Sbjct: 60 EKIYFMLNKPLEVLSSSSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGDLF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y V+ G++ ++++ LKKG+++ +++ + + + Sbjct: 119 NRIVHPKSEIYKKYYVKIFGEIKKEEIEELKKGVLLDDGKTLPAKISGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G RE++ + + Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLKREKIGELSLGDLPEGKYRELTVQEVE 229 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 60/292 (20%), Positives = 115/292 (39%), Gaps = 5/292 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + R++K I+ +GI SRR+ +R I Q V +NG V S D ++V+G + Sbjct: 5 SSTRLNKYISESGICSRRDADRYIEQGNVFINGKRAA-IGDQVFSGDVVKVNGQLIEPRN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L + + G + + RV +GRLD +++GL+ LTN G L Sbjct: 64 EEDLVLIALNKPVGIVSTTESGERDNIVDYVNHSKRVFPIGRLDKDSQGLIFLTNHGDLV 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + Y V + + D + + G+ I G +K + + Sbjct: 124 NKILRAGNEHEKEYLVTVNKPITDDFIRGMGAGVPILGTV----TKKCKVKKEAPFVFRI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E+F ++V +L R+ L + G R+++ L + Sbjct: 180 TLVQGLNRQIRRMCEYFGFEVTKLERVRIMNVNLSGIPLGEWRDLTDDELIKLFEMIEKS 239 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 E++ + + + S ++ +KK Sbjct: 240 ESEAKPKKSAKPKTSTAGKTGSKPNAGSKPKGMADTASRKRFTQPGRKKKRR 291 >gi|152978349|ref|YP_001343978.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] gi|150840072|gb|ABR74043.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] Length = 231 Score = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 110/235 (46%), Gaps = 7/235 (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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D D + + ++ + GRLD +T GL+LLT+DG + Sbjct: 61 QYFMLNKPQGYVCSHEDGDYPTVYQFFDYPLAGKLHTAGRLDADTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ + + ++GI+++G ++ + + V + Sbjct: 121 VTSPKHYCEKTYLVTLADPVESNYQSACEQGILLRGEKEATKPAKLEII----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 + EG+ ++K++F KV L R G L L G R ++++ + L Sbjct: 177 TITEGRYHQVKRMFAALGNKVVALHRWRVGTVVLDDDLEEGGFRALTQQEIEALL 231 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 107/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 71 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 130 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 131 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 190 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI ++ Sbjct: 191 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIH-ADAISY 249 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 250 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 309 Query: 241 L 241 + Sbjct: 310 V 310 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 107/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 72 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 131 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 132 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 191 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI ++ Sbjct: 192 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIH-ADAISY 250 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 251 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 310 Query: 241 L 241 + Sbjct: 311 V 311 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 59/254 (23%), Positives = 110/254 (43%), Gaps = 11/254 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL- 67 + P+R++K I+ G+ SRRE +++I Q+RV VN + D ++VDG + Sbjct: 2 SDQAPKRLNKYISDTGLCSRREADKLIEQKRVSVNNHPP-ELGTKIGPNDIVKVDGKIVG 60 Query: 68 ---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +Y+KPIG+ T + + +R+ VGRLD +EGL++L Sbjct: 61 AVAKDKSDRVYIVYNKPIGITCTTERHVKGNIIDAI--GHKARIFPVGRLDKPSEGLIIL 118 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG + + + Y V + + + + + +G+ I G + Sbjct: 119 TSDGDIVNKILRAENAHDKEYEVTVNQPISERFVKRMARGVPILGTVTKPC----VVKPT 174 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 T+ L +G NR+I+++ EF ++V +L R +L L G R +++ L Sbjct: 175 GKNTFTIILTQGLNRQIRRMCEFLGYEVTKLKRTRIMHLELKALKPGQWRNLTQHELTTL 234 Query: 245 LGPHLLEEAQVNLD 258 + Sbjct: 235 QNAVKASSKTAPSN 248 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 65/229 (28%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G +VT S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVTQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 222 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 72/249 (28%), Positives = 123/249 (49%), Gaps = 5/249 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D + 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 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD--MQVTLDTQKGSNAW 188 + P ++L+ Y+ GQV++ ++N L KG+ I ++ + + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQINQLIKGVYIDNDYLTKAYSAKLVKYDKLKNTSI 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + EGK +KK+FE ++ +L R ++ L G RE+ ++ G + Sbjct: 184 VELTINEGKKHHVKKMFESIQAQLLKLKRTKIEFLEIADLKPGQYRELKTHEVKRLYGIY 243 Query: 249 LLEEAQVNL 257 + N Sbjct: 244 HSLKQNNNK 252 >gi|322835106|ref|YP_004215133.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321170307|gb|ADW76006.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 290 Score = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 58/293 (19%), Positives = 116/293 (39%), Gaps = 5/293 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYIEQGNVFINGRRAAV-GAQVFAGDVVKVNGQIIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + +G + + RV +GRLD +++GL+LLTN G Sbjct: 62 RDEEDLVLIALNKPVGIITTMEEGERDNIRDFVNHSKRVFPIGRLDKDSQGLILLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + + G+ + G +K + Sbjct: 122 LVNKILRAGNDHEKEYIVTVNKPITDEFIAGMGAGVPMLGTV----TKKCKVKKEAPMVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F + V +L R+ L L G R+++ L E Sbjct: 178 RITLVQGLNRQIRRMTKHFGFDVTKLERVRIMNINLKGLPLGEWRDLTDDELIELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ S + ++ + + + ++KK Sbjct: 238 NSSSEDKPAKKGPSKPAQAKKPAVTKTKNSEKPEANSASRKRFAQPGRKKKGR 290 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 117/231 (50%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AG+ASRR+ E MI +VKVNG ++ + V S D + VD + + Sbjct: 5 ERLQKRIAQAGVASRRKAEEMIVNGQVKVNGKIITKLGKKVSSDDIVYVDNKKINEESFE 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + S P+ S + L +R+ SVGRLD +T G+LLLTNDG L + Sbjct: 65 YYLLNKPAGYVSSNRSYPNQPSVIE--LIKTKTRIFSVGRLDQDTTGVLLLTNDGELTQK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--MQVTLDTQKGSNAWVTV 191 L P + R Y G V++D+L L K I G Y ++ QK + + + Sbjct: 123 LTHPKHRIKRTYAAWVKGIVNEDELEQLTKPIRFDGEIYFPQAARILKVDQKRQESLIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKN EIKK+ +F V +L R + +G L G R +S++ + Sbjct: 183 TIAEGKNHEIKKILDFIGHPVIKLNRDMFDGITIGNLKKGQYRALSEQEVE 233 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + Y + G + Q+ + KGI ++ ++ L + + + + Sbjct: 121 DLLSPKRHVDKTYLAQVKGIMTQEDVETFAKGIPLKDFTCKPARLELVSIDAEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELE 233 >gi|325697447|gb|EGD39333.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK160] Length = 242 Score = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIVVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAQLKIVELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 181 ITLAEGKFHQVKRMVASCGKEVTDLQRLTMGPLQLDPALALGEWRRLTADELE 233 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 66/238 (27%), Positives = 105/238 (44%), Gaps = 4/238 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E R+ K +A + SR+EV +I ++ V VNG L+ V D + VDG + Sbjct: 11 EKDIEMRIDKYLANMNVGSRKEVHSLIKKKVVTVNGELVTAPKQQVKEDDLVVVDGNEIA 70 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L + T + + VGRLD NT GLLLLTNDG Sbjct: 71 YQQYHYFLLNKPKGVISATEDRSQQTVISLLKTKDRYQGIAPVGRLDKNTTGLLLLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN- 186 LA L P+ +VYR + G ++ + GI + G ++ + Q + Sbjct: 131 ALAHELLAPNKHVTKVYRAKISGVASEETIKTFASGITLGDGTKLKPAKLEILAQDKVHD 190 Query: 187 -AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + + + ++EGK +IK++F KV L RIS G L L G +E+++ ++ Sbjct: 191 LSQIEIQIQEGKYHQIKRMFGAVGMKVLELDRISMGKLSLPTDLKRGQYQEITRDKIK 248 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 96/368 (26%), Positives = 157/368 (42%), Gaps = 16/368 (4%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 +DG +++ E R + + T + 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 QVTLDTQ-KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ +GP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPMGRW 242 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE+S+ L ++G + Q+N + + + T ++ Sbjct: 243 REMSQYEVDILSAEVGLTPVAMPQMNAKSKDKLERMQRKSSRPVARTERVARTLRPALNA 302 Query: 291 QKNGLSKQKKLATPVHRR----NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 G ++ RR + + + R E R + + +KR Sbjct: 303 PATGGRISREPQIEGERRPTAPSRQEGERAPRTPRPAPAGGRSNRGEADRPADNASTKRP 362 Query: 347 LRRTSAKK 354 + + K+ Sbjct: 363 AKPAANKR 370 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 67/240 (27%), Positives = 115/240 (47%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 QRV K++++ G+ASRR E MI RV++NG ++ D +EVDG ++ +R Sbjct: 3 QRVQKILSQWGVASRRHAEDMIVAGRVRLNGEIVT-LGDKADPNCDRLEVDGKLIQPNQR 61 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTND 127 + + + T + + + S + + VGRLD N+ G LLLTND Sbjct: 62 PQLLYILMNKPIGVVCTCNDPQNRSIVLDFLPKAFSQGTGIHPVGRLDFNSSGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y V G +++L ++G+++ G QV + + + Sbjct: 122 GELTLRLTHPRYHLPKTYEVWVQGYPTEERLQQWREGVMLMGKKTLPAQVEVIRRSRQHT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + V L EG+NR+I+++ + + V RL R + GP L +L +G R ++ +R Sbjct: 182 CLKVVLTEGRNRQIRRIVQHLGFHVLRLHRTAIGPLVLSSPNESSLPSGQHRLLTPSEIR 241 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 93/374 (24%), Positives = 143/374 (38%), Gaps = 29/374 (7%) 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-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 ++ E T L + T + R I++GRLDINT GLL Sbjct: 65 KREEITGSVRRVLIYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLL 124 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT- 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 LREQLGPHLLEEAQVNLDAPIYSSETLVRDR--------------PNIISEVPDDFTRMK 286 + L + + R E + R Sbjct: 245 VDILSAEVGLAPQALPAMKEKTREKLDRLQRKSAKPVEVRGKRVLRPAKDEAGAEGARPS 304 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREE-------NHRRSP 339 + + +G + + S + R + P Sbjct: 305 RAPRRDDGEQRAPRGPRKEGGERRESGRGTPVAERPGDVKKRQPRPAVELADRPARKPRP 364 Query: 340 SFPSKRSLRRTSAK 353 + P KR + Sbjct: 365 AAPGKRPPAGDGQR 378 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKFQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDINT GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDINTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 VL P + Y + G + Q+ + +GI ++ ++ + + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPARLEILSTDAEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMATGVKILGTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 72/249 (28%), Positives = 123/249 (49%), Gaps = 5/249 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D + 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 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD--MQVTLDTQKGSNAW 188 + P ++L+ Y+ GQV++ ++N L KG+ I ++ + + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQINQLIKGVYIDNDYLTKAYSAKLVKYDKLKNTSI 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + EGK +KK+FE ++ +L R ++ L G RE+ ++ G + Sbjct: 184 VELTINEGKKHHVKKMFESIQAQLLKLKRTKIEFLEIADLKPGQYRELKTHEVKRLYGIY 243 Query: 249 LLEEAQVNL 257 + N Sbjct: 244 HSLKQDNNK 252 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 81/348 (23%), Positives = 141/348 (40%), Gaps = 13/348 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +++ KV+ARAG SRRE+E MI RV ++G++ + + + +DG + Sbjct: 2 SEKLQKVLARAGQGSRREIELMIQSGRVSIDGVVAKLGDRLDDLSVLVRLDGHKIDLVSP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L T H R+ R +SVGRLD NT GLLL T D Sbjct: 62 SDEVCRVLAYNKPEGELCTRHDPEGRRTVFDRLPRLSSGRWVSVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G+++++ + L +G+ ++ V +G N Sbjct: 122 GELANRLMHPSRSVEREYMVRVFGEINENMVKNLVQGVELEDGMARFEDVVYSGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 V + EG+NRE++++++ V+RL R+ YG L + G E+ L+E Sbjct: 182 TFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDIYLTKDMPRGGWMEL---ELKEVNY 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + E + + T+ + R + + ++ + + P Sbjct: 239 LREVVELEAE----ENTMLTVEGQKRKRGVRQIRRAVRRHEERVTETPRGRRGRTSNPDE 294 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 RR+ N + + + + + PS + + +K Sbjct: 295 RRSSTRNSEVEGQNAPAGKRKPSGKPSTAKPTRGKPSAGKPAQGNRRK 342 >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 = 171 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 83/281 (29%), Positives = 126/281 (44%), Gaps = 1/281 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ +K++ E +V RL R +G +G L G R + + +R LE Sbjct: 184 VGEGRFHLVKRLCEAVGLQVQRLFRPEFGGIGVGGLRPGKFRRLQPEEVRALRQRVGLES 243 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 + R + P + S Sbjct: 244 GTPARGPSVRELPKAARRHGHGPPAAPGAAPAPAEPGSPDE 284 >gi|301320594|gb|ADK69237.1| pseudouridylate synthase [Mycoplasma mycoides subsp. mycoides SC str. Gladysdale] Length = 252 Score = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 71/249 (28%), Positives = 122/249 (48%), Gaps = 5/249 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D + 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 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD--MQVTLDTQKGSNAW 188 + P ++L+ Y+ GQV++ ++N L KG+ I ++ + + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQINQLIKGVYIDNDYLTKAYSAKLVKYDKLKNTSI 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + EGK +KK+F+ ++ +L R ++ L G RE+ ++ G + Sbjct: 184 VELTINEGKKHHVKKMFDSIQAQLLKLKRTKIEFLEIADLKPGQYRELKTHEVKRLYGIY 243 Query: 249 LLEEAQVNL 257 + N Sbjct: 244 HSLKQNNNK 252 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 107/234 (45%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG +++ V+ +D + P+ Sbjct: 269 DPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVVLFQEKPVS 328 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ ++ + + R+ VGRLD NT G+LLLTNDG Sbjct: 329 LEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLLLTNDG 388 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY V V + L + GI ++ + + Sbjct: 389 DLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEYADPQ-DQTQ 447 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + GKNR ++++FE ++V +L R+ + + G R +++K + Sbjct: 448 VGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEKEVD 501 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 78/303 (25%), Positives = 133/303 (43%), Gaps = 12/303 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ + +ARAGIASRR+ E +I RV +N + V D + +DG +R ++ Sbjct: 3 GMRLQQFLARAGIASRRKAEDLIRAGRVTINEQVA-SIGAVVQPGDIVRLDGERVRMPQK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G TTH D V++ +P +VGRLD +TEGLLLLTNDG L + Sbjct: 62 KVVIALHKPKGYTTTHEDEHAEKIVYELVPKHPGL-HAVGRLDKDTEGLLLLTNDGHLTQ 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDK-LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P Q ++YR +K L +G+V+ ++ + V + Sbjct: 121 HLTHPRNQVPKLYRAWCKNGRVSEKACQQLVQGVVLGDGLAQALE-----AHPTRNGVKL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EG+ RE++++ + V RL+R++ GP +LG L AG R ++ ++ Sbjct: 176 VLTEGRKREVRRMLNKVGYPVERLVRLAVGPIELGELEAGEWRYLTPDEIK----LLYTS 231 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + + + + ++ S+++ + + H R Sbjct: 232 AQLPRPKTQAQKPTPTPKAKTGTRPQKSTVESSSERLSTRQRQGTNRGSTDRQAHTRAGR 291 Query: 312 SNV 314 +N Sbjct: 292 TNK 294 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 111/236 (47%), Gaps = 4/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A GI +R+EV+ +I + VKVNG+++++ V D I D + Sbjct: 3 MRLDKLLANYGIGTRKEVKSLIRKGFVKVNGMIIKKDDFKVDHEIDEIVFDDELIEYRPY 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D + + + VGRLD++TEGLLL+TNDG + Sbjct: 63 VYIMLNKPAGYI-SATKDNLHPTVLELIEGYENYDLFPVGRLDLDTEGLLLITNDGDFSH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L PS ++Y G +D+ + K GI++ G + + + + V + Sbjct: 122 KLLAPSRNHSKIYFANIAGVMDEQDIQAFKDGIILNTGYHCKPANLEIINKNNDSCDVRI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++KK+ E +V L R+S +L +L G RE+S + L + + Sbjct: 182 EIFEGKFHQVKKMVEVCGKEVIYLKRLSIRNLELDRSLSLGDFRELSNEELVDLME 237 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 72/246 (29%), Positives = 120/246 (48%), 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 EVDGVPLRKAERTRL-WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 D ++ + R 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|254385863|ref|ZP_05001182.1| pseudouridine synthase [Streptomyces sp. Mg1] gi|194344727|gb|EDX25693.1| pseudouridine synthase [Streptomyces sp. Mg1] Length = 260 Score = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 69/232 (29%), Positives = 110/232 (47%), Gaps = 1/232 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+VDG+ + Sbjct: 21 EEEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVQPKDEIKVDGLTVAT 80 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 81 QSYLFFALNKPAGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHGE 139 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y G + ++ LK GI ++ + Q G N V Sbjct: 140 LAHRLTHPKYGVKKTYVAAITGPLPREIGKRLKDGIELEDGYARADHFRVVDQVGKNYLV 199 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V +L+R S+GP +LG +G R ++ + Sbjct: 200 EVTLHEGRKHIVRRMMAEAGFPVEKLVRTSFGPIELGDQKSGWLRRLTNTEV 251 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 102/230 (44%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K +A AG+ASRR+ + +I V +NG + V V D+IEV G + ++ Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFAGSVTINGKVAAGPFVTVDEEFDYIEVGGQRIGAEKK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ L ++ 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 + V + + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVTAKDLESLMSGTMIDGRIVRPVSVKKVRRG----TIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK EI+ E ++ L RI G LG L G RE++ L Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELTDAELD 229 >gi|254496468|ref|ZP_05109345.1| pseudouridine synthase [Legionella drancourtii LLAP12] gi|254354324|gb|EET12982.1| pseudouridine synthase [Legionella drancourtii LLAP12] Length = 252 Score = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 121/241 (50%), Gaps = 7/241 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 + +R+ K++++AG+ SRRE+ER I V+VNG ++ + D I V G + Sbjct: 2 SSERLQKILSQAGLGSRREMERWIENGWVQVNGKPVK-LGDSASGDDKITVKGKLIPNPL 60 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 K L + + + H ++ R + VGRLD+NT GLL+ TN Sbjct: 61 KIKQNTRILLYHKPVGEISSRHDPKFEKTVFDRLPHLRQGRWVQVGRLDLNTSGLLIFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G LA L P R Y VR HGQV Q+ L +L+KG+ + ++ G+N Sbjct: 121 NGELANQLMHPRYGLEREYAVRVHGQVTQEMLTVLQKGVELDDGPAKFSRLESRGGDGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIRI YG + L T E++ K + + L Sbjct: 181 TWYHVTLNEGRNREVRRLWESQGVEVSRLIRIRYGMLTMPRFLGRAQTYELTPKEVTDFL 240 Query: 246 G 246 Sbjct: 241 A 241 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 112/228 (49%), Gaps = 1/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGI SRR + I+ V VNG ++ V TD + DG L ++ Sbjct: 177 VRLNKYIADAGICSRRNADMYISSGNVTVNGEVMTTLGYRVKPTDEVRFDGKLLSSEKKE 236 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + TT+ + ++ + + +R++ VGRLD T GLLLLTNDG L + Sbjct: 237 YILLNKPKGFITTTNDEKGRKTVMDLVANATSARILPVGRLDRATTGLLLLTNDGELTKK 296 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ ++Y V ++D ++ G+ ++ +++ K N + + + Sbjct: 297 LTHPTHGVRKIYHVILDRKLDYKDFMKIQDGLELEDGFIEVDEISYVNDKPKN-EIGIKI 355 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G+NR ++++FE ++V +L R+ + L G R ++++ + Sbjct: 356 HSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQQEV 403 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 83/242 (34%), Positives = 123/242 (50%), Gaps = 6/242 (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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + L EGKNREI+++ +++ L R+SY QLG L AG RE++ L + Sbjct: 181 FAELVLIEGKNREIRRMMRAIGYEIRDLKRVSYCQIQLGDLPAGEFRELTPNELNKLRQA 240 Query: 248 HL 249 Sbjct: 241 VH 242 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + + Sbjct: 1 MRIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVNYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ ++YR + G D + + G+ + G ++ + Q ++ + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILVQDEEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + +REGK +IK++F KV L RIS G +L L G+ E+S + Sbjct: 181 IKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELSLDDV 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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 104/232 (44%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G +R EV++ + + V VNG + + A + D +++ G + E Sbjct: 2 MRLDKFLAHMGQGTRTEVKQSLKKGNVTVNGKVEKSAKTQINPHHDVVQIHGHQIDYVET 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + + DP + + + + VGRLD +TEGLLL+TNDG + Sbjct: 62 VYLMLNKPKGYI-SATEDPKQATVIDLIKDYKYLDLFPVGRLDKDTEGLLLITNDGQFSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V V +D + K+G+++ ++T+ S V Sbjct: 121 NLMNPNKHVAKTYLVTSKYPVTKDNQYMFKQGVMLSDGLTKPAELTIIDDYHS----KVT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + EG+ +IK++F +V L RI +L L G R +++ + + Sbjct: 177 IYEGRYHQIKRMFHSIENEVLELKRIQIANLRLDEELDEGQYRVLTQTDIEQ 228 >gi|124515286|gb|EAY56796.1| Pseudouridine synthase, Rsu [Leptospirillum rubarum] Length = 616 Score = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 93/343 (27%), Positives = 159/343 (46%), Gaps = 3/343 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K++A G+ASRR E MI VKVNGI++ V TD + VDG + Sbjct: 18 IRLQKLLAHRGLASRRNAEEMIRGGLVKVNGIVVTVPGTKVHPETDRVTVDGKTVPVEPE 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+L++KP G+V+T DPD ++T+ D P I + +I VGRLDI +EG+LLLTN+G LA+ Sbjct: 78 PFLFLFYKPKGIVSTLHDPDEKTTLKDFFPQI-NPLIHVGRLDIQSEGVLLLTNNGDLAQ 136 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + R Y V+ G V + L+ L+ + + G +++ + +N+W + Sbjct: 137 RILHPRYEIPRTYLVKVQGVVKPEHLDRLRSGKVRLDGRPVQPLELEQERLTETNSWYRI 196 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L EG+NRE++++F+ ++ V +L RI++G L L G R V+ + + L + Sbjct: 197 TLTEGRNREVRRLFDALHYFVLKLTRIAFGNLDLAGLEPGEYRLVTPEEIALLLSGARWK 256 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + + + +R +G + + P R+ Sbjct: 257 RKESIPPPERSPRKPNPATPSSPDFRRHSFRSRTTSPDRTFSGPADGDQEEDPFPRQTGQ 316 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + +R N R +K+ +S K+ Sbjct: 317 GHRSRPDTRSRGLSQSDSERFFNGRPRHRSDNKQQSGPSSQKR 359 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 63/237 (26%), Positives = 102/237 (43%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K + + SR EV+ + RV VNG + A + + TD I DG L E Sbjct: 1 MRLDKYLVACAVGSRTEVKNFLKAGRVMVNGKKEKSAKLQINEETDEICFDGQKLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDSKHKTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 L P + Y + G + Q+ + +GI ++ ++ ++ + + V Sbjct: 121 ALLSPKRHVDKTYLAQVGGIMTQEDVETFAQGIPLKDFTCQPAILELVSIDREKNQSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLTLDEGLKRGEWRRLTKEELEALLE 237 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D G+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAHGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGDIRLDDDLEPGEYRPLTEEEI 227 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 120/237 (50%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K IA++GI SRR+ + +I + VKVNG +++ + D +EV+G ++ E+ Sbjct: 3 VRLNKYIAQSGICSRRKADELIKEGIVKVNGEIIKDLGAKINPEKDVVEVEGNIIKPVEK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP+G ++ +L +I + VGRLD N+EGLL+LTNDG Sbjct: 63 KIYIKIYKPVGYLSAVGKDKFGRKTLTDLLKELNIKENLFPVGRLDYNSEGLLILTNDGE 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + ++Y V +V++++LN +KKG +++ + +V + + W+ Sbjct: 123 FANKIAHPRHEIRKIYHVEVVPKVNEERLNQMKKGAILEDGFFKPDKVEILKHTKDSTWL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + GK R +++ FN KV RL+R+ + L + ++ K ++ Sbjct: 183 LFEIHSGKKRILRRYVSKFNHKVRRLVRVKIDSISIENLKPHQFKHLTDKEVKSIYE 239 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 55/234 (23%), Positives = 110/234 (47%), Gaps = 6/234 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N R++K +++AG SRRE ++++ Q RV +NG + V S D + VDG + K Sbjct: 2 NKESIRINKYLSQAGFCSRREADKLMEQGRVTINGEYI-EMGTKVNSGDKVYVDGKLVEK 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +++L V ++ + +R+ +GRLD +EGL+L+TNDG Sbjct: 61 ETEEKVYLAVYKPKGVVCTTNSKVEKNNIVDFVDYPTRIFPIGRLDKMSEGLILMTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + Y V + + D + ++KG+ I + +K + Sbjct: 121 IVNHILRARHFHDKEYLVTVNKTITDDFIEKMRKGVPILDTMSRRCE----VEKLGDRSF 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ E +++V L R L + G+ R ++++ +++ Sbjct: 177 KIVLTQGLNRQIRRMCEALDYRVRTLKRTRIKNITL-DVEKGNYRNLTEEEIKD 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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + + Sbjct: 1 MRIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVNYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ ++YR + G D + + G+ + G ++ + Q ++ + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILAQDEEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + +REGK +IK++F KV L RIS G +L L G+ E+S + Sbjct: 181 IKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELSLDDV 232 >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 = 170 bits (431), Expect = 2e-40, Method: Composition-based stats. Identities = 71/243 (29%), Positives = 120/243 (49%), Gaps = 2/243 (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 +L +RV VGRLD ++ GLL+LTNDG Sbjct: 61 IYIAINKPIGYASTVKDKFADK-KVVDLIKSDTRVYPVGRLDKDSHGLLILTNDGEFTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 120 LTHPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENVKNDTKYRVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEE 252 EG+NR+I+++F+F N V L R+ G +++ L +G + + K L G + + Sbjct: 180 FEGRNRQIRRMFDFINHPVLDLKRVQIGNYKMENSLKSGEYKLLKSKDLDLIRGNNDRSK 239 Query: 253 AQV 255 Sbjct: 240 TSK 242 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 71/243 (29%), Positives = 120/243 (49%), Gaps = 2/243 (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 +L +RV VGRLD ++ GLL+LTNDG Sbjct: 61 IYIAINKPIGYASTVKDKFADK-KVVDLIKSDTRVYPVGRLDKDSHGLLILTNDGEFTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + ++Y V G+ ++ ++ LK GI++ G ++ ++ V + Sbjct: 120 LTHPKFEHKKIYEVLVKGKPNKTEIKQLKDGILLDGYKLKKSKIEFIENIKNDTKYRVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEE 252 EG+NR+I+++F+F N V L R+ G +++ L +G + + K L G + + Sbjct: 180 FEGRNRQIRRMFDFINHPVLDLKRVQIGNYKMENSLKSGEYKLLKSKDLDLIRGNNDRSK 239 Query: 253 AQV 255 Sbjct: 240 TSK 242 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 53/238 (22%), Positives = 101/238 (42%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + + + S V + Sbjct: 121 ITSPRHHCEKTYLVTLESPLADDTAAQFTAGVQLHNEKYLTKPATLEVV----SECQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F V L R G + L G R ++ + + + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVALHRERIGAIVMDEDLGEGEYRPLTAEEIASVVVPR 234 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 109/233 (46%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMST----DHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG + + + D IE+DG P+ Sbjct: 1 MRLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLDELLNCLDRIELDGAPIT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E W+++K +G + D T +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 QTETLAYWVFNKAVGTDCRLLEQDE--TSLVHLLPKAPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y VR + + + G+ + + QV + Sbjct: 119 ELTHKLMHPCFAHSKTYHVRLDRPFTDEFVEQMASGVRYKDVQTLPCQVRRLSSDS---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ +KV L R++ L +L G+ R ++ + + Sbjct: 175 FEIVLTQGLNRQIRRMAIALGYKVIDLQRVALMTLTLESLAEGAMRPLTPQEV 227 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 62/227 (27%), Positives = 107/227 (47%), 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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRINHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I +VT S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVTQL----SKYEFEIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKE 220 >gi|262182363|ref|ZP_06041784.1| putative pseudouridylate synthase [Corynebacterium aurimucosum ATCC 700975] Length = 286 Score = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 81/245 (33%), Positives = 127/245 (51%), Gaps = 4/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 ++ KN +R+ KV+A+AG+ASRR E +I + RV+VNG ++ + V D Sbjct: 33 VEGKNKKNSQNQGERLQKVLAKAGVASRRHAEILIDEGRVEVNGQVIIKQGTRVDPNKDV 92 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDI 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|21324194|dbj|BAB98819.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Corynebacterium glutamicum ATCC 13032] Length = 252 Score = 170 bits (431), Expect = 3e-40, 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|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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 90/321 (28%), Positives = 131/321 (40%), Gaps = 9/321 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKSGRVSVNGIVAKLGERLEDEQAVVRIDGHVVSVKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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-TLLAGSTREVSKKILREQLGP 247 V + EG+NRE+++++E + V+RL R+ YG L L G E+ L++ Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIYLDKKLPRGGWMEL---ELKDVNYL 239 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L E + + I + + + ++ R ++ S G S P Sbjct: 240 RELVELRPEKETMIELNNSSRKRDRARSQKIRRAVKRHEERVSTPKGRSNNAARRKPSKA 299 Query: 308 RNLASNVWMAKGIHSSFLSDS 328 S S Sbjct: 300 AGQTSKTNSRNQAGSRSKPQR 320 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKSITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 103/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLAQSKEVFPVGRLDIDTHGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 VL P + Y+ + G + Q+ + KGI ++ ++ + + + + + Sbjct: 121 VLLSPKRHVDKTYQAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 85/359 (23%), Positives = 140/359 (38%), Gaps = 11/359 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 185 KRALSADDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 243 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 364 GGGEGTNRWYHVALAEGRNREVRRMFEAVGLTVSRLIRTRHGPIVLPRGLKRGRWEELED 423 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII-----SEVPDDFTRMKKNSSQKN 293 +R + L+ + ++ D + P R + + Sbjct: 424 NQVRALMSAVGLKGPGEDKAERSKATPRRQPDPMQTALGYISYDAPGPQRRFGRGARGGA 483 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + A G +G + + + K R + Sbjct: 484 NWTSSTPPVPGYTGFAAAHGHGNMTGGKHDNRDVNGNQASGKGGNRAQKGKPRGGRGAQ 542 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 102/233 (43%), Gaps = 6/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A + +R EV+ +I ++RV VN ++ + + D + VDG + E Sbjct: 3 IRLDKYLADMQVGTRSEVKELIRKKRVTVNDNIVTKPESKINTDGDSVNVDGNAVGYHEY 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ D + + + VGRLD +TEGLL++TNDG +A Sbjct: 63 EYFMLNKPAG-VVSATDDNTCTTVIDLIKNKNRKDLFPVGRLDKDTEGLLIITNDGAMAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLD--TQKGSNAWV 189 L P + Y + G++ ++ G+ + + + + + Sbjct: 122 DLLSPKKHVDKTYYAKVKGKISDMEVKQFADGLFVDEELTALPAILKVLSYNSDKDYSEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + EGK ++K++F +V L RI++G L L G R ++K+ + Sbjct: 182 HVTIHEGKFHQVKRMFTAIGSEVLFLKRITFGALPLDESLKTGEYRALTKEEI 234 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 106/230 (46%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S I V + E Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLIRSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + + + +GRLD +TEGLL++TN+G L Sbjct: 61 SYYLLYKPSGVVSAVRDSEHKTVIDLISEKDKVEGLYPIGRLDRDTEGLLIITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G +++D + ++G+V ++T+DT + + Sbjct: 121 RMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+G +L L G R + Sbjct: 181 TITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRLDMNLKPGQYRRLRDSE 230 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 68/226 (30%), Positives = 111/226 (49%), 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+ D ++ + R+ +GRLD NT G+++LTNDG + + P Sbjct: 61 NKPTGYVS-TVKDDRGRNTILDIVKVKERIYPIGRLDYNTSGIIILTNDGEVYNKVAHPK 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|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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 84/308 (27%), Positives = 126/308 (40%), Gaps = 13/308 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+A AGI SRR++E IA+ R+ VNG V +D I DG +R++ Sbjct: 12 EKLHKVLADAGIGSRRDMEERIAEGRISVNGEPAHV-GQRVTPSDVIRFDGRIVRRSALE 70 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + +V+ + +R I+VGRLD NTEGLLL T+ Sbjct: 71 NNDVPKVLIYHKPAGEIVSKDDPEGRPTVFDHLPRIGGARWIAVGRLDFNTEGLLLFTDS 130 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR G + + + L KGI + + KG N Sbjct: 131 GNLANFLMHPRHEIEREYAVRVQGTMSPEAKDKLLKGIKLDDGIAKFTTLEEGGGKGFNR 190 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE++++FE V+RLIR+ YG +L L G TR +S + Sbjct: 191 WYNVTLSEGRNREVRRMFEAVGLPVSRLIRVKYGNLELPSDLPRGKTRRMSTEE-----T 245 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ + P + + S + + P+ Sbjct: 246 EKWLDSISYKKGMSTAPAPRAPERTPRPAASRAPASAPKAGRKFGQRDTSSAIRSSRPMR 305 Query: 307 RRNLASNV 314 R Sbjct: 306 SRGTRGPK 313 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 101/245 (41%), Positives = 145/245 (59%), Gaps = 7/245 (2%) Query: 2 KDKNIVQENFT----PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMS 56 KDK I E +R++KV++R+G+ASRR+ + MI + RVKVNG++ V Sbjct: 94 KDKIIENEQDEIKGHKERLNKVLSRSGVASRRKADEMIREGRVKVNGVVTTLENDHFVSI 153 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLD 115 D +EVDG ++K + KP LVT S V + I+VGRLD Sbjct: 154 IDEVEVDGKIIKKPMPRMWMHFKKPKVLVTHSEVEGRESLVPILKKVLKKDHLITVGRLD 213 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +EGL+LLTNDG L+R LE P ++ R YRVR G++ Q+ ++ KGIVI I Y + Sbjct: 214 YYSEGLILLTNDGNLSRYLEHPDNEFERTYRVRIFGKITQEMQDIFTKGIVIDNIKYKPI 273 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 +V +D + +N+WV + ++EGKNREI+K+ E+FN KV RLIR+ YGP++L L G T Sbjct: 274 EVIVDKESKNNSWVVIKIKEGKNREIRKILEYFNIKVLRLIRVGYGPYELPESLKHGETI 333 Query: 235 EVSKK 239 E+ K Sbjct: 334 EIPLK 338 >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 = 170 bits (431), Expect = 3e-40, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 113/234 (48%), Gaps = 2/234 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 +E R++K I+ AGI SRRE ++ IA +VKVN ++ V D + +G P+ Sbjct: 48 KELKEGIRLNKFISNAGICSRREADKHIADGKVKVNNKVVTELGFKVKPMDDVAFEGKPI 107 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + + L + T ++ + + R+ VGRLD NT GLLL TND Sbjct: 108 KREKLVYVLLNKPKGFITTMDDPKGRKTVMDLIATAGDERIYPVGRLDRNTTGLLLFTND 167 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA+ L P + ++Y+V + ++ +++GI ++ + + T + Sbjct: 168 GELAKKLTHPKHKIKKIYQVELDKPITEEDFLKIQEGITLEDGEVKVDNLAILTPDAKS- 226 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + +R G+NR +++ FE + V +L R ++ L G R + +K + Sbjct: 227 -IGMEIRMGRNRIVRRTFEHLGYDVVKLDRTTFAGLTKKDLARGKWRFLKEKEV 279 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 83/235 (35%), Positives = 125/235 (53%), Gaps = 1/235 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 N R+ KV+A AG+ SRR E +IA RV+V+G ++E + V T IEVDG Sbjct: 5 DANAEGVRLQKVLAAAGVGSRRHSEELIAAGRVRVDGRVVETQGMRVDPQTAIIEVDGER 64 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + +KP+G+++ SD GR TV D + + VGRLD+++EGLLL+TN Sbjct: 65 VVTRAGLVHLALNKPVGVLSAMSDDRGRPTVADLVTDAGPGLFHVGRLDVDSEGLLLVTN 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + + Y V G V +D L++G+ + V + GS Sbjct: 125 DGELAHRLSHPSFEVAKTYLVEVAGPVGRDVPRRLREGVELADGPVRADAVRIVGSAGSR 184 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + L EG+NR ++++ E + V RL+R GP LG+L G TR +S+ + Sbjct: 185 VMLEITLHEGRNRVVRRLMEAVDHPVRRLVRTRIGPVHLGSLRVGRTRHLSRGEV 239 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 63/237 (26%), Positives = 104/237 (43%), Gaps = 4/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGKVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDPKHRTVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + Y V+ G + Q +++ +GI ++ ++ L + + + + Sbjct: 121 ALLSPKRHVNKTYLVQVKGIMTQGDVDIFAEGIPLKDFTCQPARLELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V + EGK ++K++ + +V L R++ G L L G R ++K+ L L Sbjct: 181 VTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELENLLA 237 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 60/235 (25%), Positives = 107/235 (45%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R+EV++ I Q +V VNG +++ A + T D + + G + Sbjct: 2 MRLDKYLAEMGVGTRQEVKKQIRQGKVTVNGTVVKAADTKIDETCDEVTIGGRNISYVSY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ D + + + VGRLD +TEGLLL+TNDG LA Sbjct: 62 EYYMLNKPGG-VVSATEDRRDTTVIDLIKDKKRKDLFPVGRLDKDTEGLLLITNDGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWV 189 L P +VY + G V ++ + +GI I + ++ + + + + Sbjct: 121 RLLAPKKHVDKVYYAKIDGMVTEEDVKRFAEGIDIGAEEEEMTRPAKLDI-MKSAEESEI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + EGK ++K++F +V L R GP L L G R ++++ + Sbjct: 180 RLTIHEGKFHQVKRMFLAVGKEVTYLKRERMGPLCLDENLKPGEYRLLTEEEIEN 234 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 79/242 (32%), Positives = 126/242 (52%), Gaps = 1/242 (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 IL 241 L Sbjct: 241 EL 242 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 106/229 (46%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ GI SR +V+ +I Q+VKVN ++ NV + I G P++ Sbjct: 1 MRIDKLLEEEGIGSRNQVKTLIKSQQVKVNEKVITDGKTNVDPSLQVITASGTPIQAEGH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + ++ ++++ +GRLD +TEGL+LLT++G L Sbjct: 61 HYFILNKPNGVVSARSDGLHQTVIDCLSVEDRYAKLYPIGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + PS + Y VR +GQ+ D L ++GIV + + + + V Sbjct: 121 RMLHPSHHVSKTYLVRVNGQLKDDALVFFEEGIVFHDGTKCKPAHLQILKKDEKCSEAVV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+ LG L G R++++ Sbjct: 181 TISEGKFHQVKKMFLAYGLKVIYLKRISFAGLTLGELPVGQYRKLTELE 229 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 77/262 (29%), Positives = 120/262 (45%), Gaps = 6/262 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K++AR G+ SRRE+E MIA RV +NG+ + D I +DG +R Sbjct: 32 ETSRLQKLLARNGLGSRREIEDMIAAGRVSINGVTAK-PGDRAGPGDMIRIDGKIIRFRL 90 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + +V+ S S+ I++GRLD NT GLL+ T D Sbjct: 91 AALLPRVIIYHKPEGEIVSVRDPQGRPSVFDKLPHIRSSKWIAIGRLDFNTSGLLIFTTD 150 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P Q R Y VR G++ +++ L GI ++ Q+ + G+N Sbjct: 151 GTLANHLMHPRYQMEREYAVRIVGELTPEQITRLTTGIELEDGLAKFDQLLDEGGTGTNH 210 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W + L+EG+NRE++++FE V+RLIR+ +GP L L G E+ + + L Sbjct: 211 WYRIMLKEGRNREVRRMFEALGLTVSRLIRVRFGPVNLPPRLKRGMWIELMDIEVEQLLK 270 Query: 247 PHLLEEAQVNLDAPIYSSETLV 268 A + P + Sbjct: 271 LVSQPGAGIPDKPPSMQAGRRS 292 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 100/230 (43%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D +EVDG ++ + Sbjct: 1 MRLDKFLTHCGFGSRTQVKKLIREGIVTVNGKQIVEVDFKINPEEDVVEVDGRVVKFSRW 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + + + +VGRLD + EGLL++T++G Sbjct: 61 IYIMMNKPKGYVCSNEDPMSLTVFSLISDDLKHRDLHTVGRLDKDAEGLLIITDNGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + + Y VR +VD+++L + GI++ + T+ + V + Sbjct: 121 RVISPKKRIEKEYLVRLEKEVDEERLKEFENGIILDDGYKTLPAKYTII----DSTTVKL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + EGK ++K++FE KV L R G L L G R + ++ Sbjct: 177 CIYEGKYHQVKRMFEAIGNKVVDLKRRRIGGLNLDESLKPGEYRVMKEEE 226 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 107/234 (45%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG +++ V+ +D + P+ Sbjct: 267 DPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVVLFQEKPVS 326 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ ++ + + R+ VGRLD NT G+LLLTNDG Sbjct: 327 LEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLLLTNDG 386 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY V V + L + GI ++ + + Sbjct: 387 DLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEYADPQ-DQTQ 445 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + GKNR ++++FE ++V +L R+ + + G R +++K + Sbjct: 446 VGIEIHSGKNRIVRRIFESLGYRVVKLDRVQFAGLTKKNVRRGDWRFLTEKEVD 499 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 129/231 (55%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 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 + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 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|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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 108/241 (44%), Gaps = 2/241 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 N R+ KV+A+AG+ASRR E MIA RV+VNG L+ V D I VDG + Sbjct: 2 SNEQGIRLQKVLAQAGLASRRAAEDMIAAGRVEVNGELIVEQGRRVDPERDEIRVDGSRI 61 Query: 68 R-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + T R+ VGRLD T GL+LLTN Sbjct: 62 PTARRHVYYVLNKPQGVVSTMDDPEGRPCLSDLEGVPRGIRLFHVGRLDTETSGLILLTN 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + PS + L+ Y G+VD + L KG+ ++ V L + Sbjct: 122 DGEFANRMTHPSYKVLKTYLADVEGRVDDKVIRRLSKGLTLEDGPVKPDAVRLVQAGEEH 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V V L EG+NR ++++ + V RL R GP +L L G RE++ + L + L Sbjct: 182 SLVEVSLHEGRNRIVRRIMDSVAHPVRRLSRTVIGPVRLKRLGRGDMRELTHEELGQLLD 241 Query: 247 P 247 Sbjct: 242 L 242 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRVEKSPKTQIDETADEIVVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQTDEERFAAGIELKDFTCQPAQLKILELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ GP Q L G R +++ + Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQSDPALALGEWRRLTEVEM 232 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 101/231 (43%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGGITLDADLAPSEYRPLTEEEI 227 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 65/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVTQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 63/240 (26%), Positives = 118/240 (49%), Gaps = 4/240 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ + +ASRR+ E++I ++RVKVNG L+ + V V D I VD ++ +E Sbjct: 2 ERLQKILSYSNVASRRKSEKLILEKRVKVNGKLVTKLGVKVSKKDIILVDDQIIKNSENC 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + + + + + R+ VGRLD NT GLLL+TNDG L + Sbjct: 62 YYLINKPSGCISTVKDEKNRPTVIDLIKDTEKKRIYPVGRLDFNTTGLLLITNDGQLTKK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNAWV 189 L PS+ + Y V+ + + +L L++G++I + + + W+ Sbjct: 122 LTHPSSLIEKEYHVKINYCLSSLELKKLQQGVIIDENYLSVPKKIKILKKRLLPKPSTWL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + + EGKN +I+K+ E + + +LIR Y + + G R + +++ Sbjct: 182 QIIITEGKNHQIRKMMEKLGFHILKLIRYRYAFLTIKGIKKGQYRILKIHEIKKLKILKY 241 >gi|312196764|ref|YP_004016825.1| pseudouridine synthase [Frankia sp. EuI1c] gi|311228100|gb|ADP80955.1| pseudouridine synthase [Frankia sp. EuI1c] Length = 285 Score = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 77/235 (32%), Positives = 122/235 (51%), Gaps = 3/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+A AG+ SRR E +I RV+V+G ++ V T IEVDG + Sbjct: 42 SQEGIRLQKVLASAGVGSRRHNEELIDAGRVRVDGKVVREQGRRVDPETAVIEVDGERVV 101 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTN 126 +KP G+V+T SDP+ R T+ D L + VGRLD+++EGLLL+TN Sbjct: 102 TRTGLVHLALNKPRGVVSTMSDPEDRPTISDLLTEFGASAGLFHVGRLDVDSEGLLLVTN 161 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G LA L PS Q + Y+V+ +G + ++ + L + + + Q GS Sbjct: 162 NGDLAHRLTHPSYQVPKTYQVQINGPLRKETMRRLHTRVELSDGPVRVDSARIIDQVGSQ 221 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + L EG+NR ++++ E V RL+R +G LGTL +G R ++ + Sbjct: 222 ILLEIVLHEGRNRIVRRMMEEVGHPVVRLLRTEFGAVHLGTLRSGRARHLTLHEV 276 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 113/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG +++ V +D + Sbjct: 189 IEYKQQFVDPNEPIRLNKYLANAGVCSRREADEFIETGAVTVNGEIVKELGTKVKRSDEV 248 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +G + ++ + L + T + ++ + + R+ VGRLD T G Sbjct: 249 KFNGELVSIEKKVYVLLNKPKDCVTTMDDPQERQTVMDFVKNACDERIYPVGRLDRKTTG 308 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + L + +GI ++ +V Sbjct: 309 VLLLTNDGDLASKLTHPKYDKKKIYHVTLDRNIVKADLEKIAEGIELEDGLIKADEVGYT 368 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + N V + + GKNR ++++FE ++V +L R+ + L G R +S++ Sbjct: 369 DEFKRNQ-VGIEIHSGKNRIVRRIFESLGYRVTKLDRVYFAGLTKKGLRRGQWRYLSEQE 427 Query: 241 L 241 + Sbjct: 428 V 428 >gi|327312548|ref|YP_004327985.1| pseudouridylate synthase [Prevotella denticola F0289] gi|326945115|gb|AEA21000.1| pseudouridylate synthase [Prevotella denticola F0289] Length = 507 Score = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 107/234 (45%), Gaps = 1/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K +A AG+ SRRE + I V VNG +++ V+ +D + P+ Sbjct: 267 DPNEPIRLNKYLANAGVCSRREADEFILSGAVTVNGEVVKELGSKVLRSDVVLFQEKPVS 326 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ ++ + + R+ VGRLD NT G+LLLTNDG Sbjct: 327 LEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKGACPERIYPVGRLDRNTTGVLLLTNDG 386 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY V V + L + GI ++ + + Sbjct: 387 DLASKLTHPKFLKKKVYHVFLDKPVTANDLQKISDGIELEDGEIKADAIEYADPQ-DQTQ 445 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + GKNR ++++FE ++V +L R+ + + G R +++K + Sbjct: 446 VGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNVRRGDWRFLTEKEVD 499 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 65/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVTQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >gi|301793545|emb|CBW35921.1| putative ribosomal small subunit pseudouridine synthase B [Streptococcus pneumoniae INV104] Length = 240 Score = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVMDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 103/231 (44%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKMQVNPDKDEITVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G+V + + +GIV+ ++ + + V Sbjct: 121 NLLSPKKHIDKTYYAKIDGEVLLEDVKAFAEGIVLDDGYICKPARLEIINPN----EIKV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V+ L RIS G QL L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAARGKTVSYLKRISMGQLQLDESLELGEYRPLTETEL 227 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 99/234 (42%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV ++I + V VNG ++ + D + V+G + + Sbjct: 1 MRIDKYLANMNVGSRKEVHQLIKKGLVDVNGKTVKTPKEKINEDDVVTVNGEKVAYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPTGVLSATEDRSQKTVISLLKPEDRYQGIAPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWVT 190 L P+ +VYR + G D + + G+ + G ++ + Q N + + Sbjct: 121 LLAPNKHVAKVYRAQIAGVADDETVKTFASGMTLGDGTKLKPAKLRILKQDRENATSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + + EGK +IK++F KV L R++ G L L G E+S + Sbjct: 181 IEISEGKYHQIKRMFGAVGMKVMALDRLAMGKLCLPADLKRGKYVELSLDEIEN 234 >gi|323466841|gb|ADX70528.1| Pseudouridine synthase [Lactobacillus helveticus H10] Length = 246 Score = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + + Sbjct: 11 MRIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEVNYQKYH 70 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + VGRLD +T GLLLLTNDG L Sbjct: 71 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHE 130 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ ++YR + G D + + G+ + G ++ + Q ++ + Sbjct: 131 LLAPNKHVDKIYRAKIAGVADDETVKTFASGMTLGDGTKLKPAELKILAQDEEHDSSEIE 190 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + +REGK +IK++F KV L RIS G +L L G+ E+S + Sbjct: 191 IKIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGNYIELSLDDV 242 >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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 83/363 (22%), Positives = 140/363 (38%), Gaps = 12/363 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K ++ ++ KV+A+AG+ SR E+E++I + R+ VN + D + Sbjct: 150 MPAKRVLAPQVDSPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPAHV-GQRIQFGDIV 208 Query: 61 EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +V+G P+R + + +VT + + + 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 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 V +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E Sbjct: 329 VEDGGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWVE 388 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + + ++ + ++E + R N S + + + Sbjct: 389 LDQADIQALMSAAGVKERAPVERNNSGARGANNRGGRNSRSGGRGNGMNADRAPQGRREG 448 Query: 296 SK------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 P + S G + + R S + SL R Sbjct: 449 GGQRRGEWDGNRPAPSGMLGDNPRNKPGGRSGGAGRSQGGGQPDPMRTSVGYIGSDSLSR 508 Query: 350 TSA 352 Sbjct: 509 ARQ 511 >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 = 170 bits (430), Expect = 4e-40, Method: Composition-based stats. Identities = 53/231 (22%), Positives = 105/231 (45%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A+ G+ +R EV+ ++ + V NG ++ + + D +EV G + Sbjct: 1 MRIDKFLAQMGVGTRTEVKALLKKGHVLHNGAKIKSSKTQIDPEHDVVEVKGRVIAYEPF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +++ D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYLMMNKPQ-NVISATVDDQHQTVIDIIEGYRHLDLFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V+ + + ++GI ++ + + + V Sbjct: 120 ALMNPNKHVSKTYWVKAKYALKTNDPKRFEEGITLKEGRLQPAHLEIL---DDSMTAFVT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++EGK ++K++F + +V L R+S G L +L G+ R +++ L+ Sbjct: 177 IQEGKYHQVKRMFHAIDNEVVGLKRVSIGDLTLDSSLSPGAYRSLTEDELK 227 >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 = 170 bits (430), Expect = 4e-40, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + + VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEIFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVEIFAEGIPLKDFTCQPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 170 bits (430), Expect = 4e-40, Method: Composition-based stats. Identities = 140/331 (42%), Positives = 195/331 (58%), Gaps = 2/331 (0%) 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 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ--KNGLSKQKKLATPV 305 ++ A + P S +S + + + + V Sbjct: 639 KVIALAGCDFAGPSPSETKPKPRAGKAVSAEEWAVADAAPAPKKTITKRGAVEDRKGRKV 698 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 AS G+R+ R Sbjct: 699 KVERTASEGGDRPLSRGPARRYHGKRDLAPR 729 Score = 36.3 bits (82), Expect = 7.4, Method: Composition-based stats. Identities = 15/109 (13%), Positives = 32/109 (29%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + + D P +S + R + F + + + + + + + Sbjct: 220 GDRDRKFDKGGFDKPRFSKSRDDKPRFDRDRGDKPRFDKPRGDKPRFDRGERSDRPERSG 279 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + +G F S R R P + +R A + Sbjct: 280 DRPKFSRPRDGDRGEQRPFRERSFDRPREDRPRSDRPREDRPQRDRAAR 328 Score = 35.9 bits (81), Expect = 9.5, Method: Composition-based stats. Identities = 10/102 (9%), Positives = 25/102 (24%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ G ++ D P + + + R + F R +++ + + K Sbjct: 227 DKGGFDKPRFSKSRDDKPRFDRDRGDKPRFDKPRGDKPRFDRGERSDRPERSGDRPKFSR 286 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 R R R ++ Sbjct: 287 PRDGDRGEQRPFRERSFDRPREDRPRSDRPREDRPQRDRAAR 328 >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 = 170 bits (430), Expect = 4e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 102/230 (44%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K +A AG+ASRR+ + +I V VNG + V V D +EV G + ++ Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFAGSVTVNGRVAAGPFVTVDEEFDSVEVGGQRIGAEKK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ 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 + + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVTARDLETLMAGTVIDGKVVRPVSVKKVRRG----TIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK EI+ E ++ L RI G LG L G RE++ L Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELTDSELD 229 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 84/277 (30%), Positives = 126/277 (45%), Gaps = 5/277 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG SRRE+ER I RV+VNG + + V D + +DG + Sbjct: 6 ERIQKVLAKAGQGSRREMERAIESGRVQVNGEVAK-LGDKVSEKDELRLDGKKISVEAEK 64 Query: 74 R---LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + T + R I+VGRLDINT GLLL TNDG L Sbjct: 65 VRRVLIYNKPEGEICTRKDPEGRHTVFDRLPRIPGERWIAVGRLDINTSGLLLFTNDGEL 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS Q R Y VR G V Q+ ++ + +G+ ++ V KGSN W Sbjct: 125 ANRLMHPSHQIEREYAVRVLGDVQQENIDAMCEGVELEDGPAKFTDVQFFDGKGSNLWFH 184 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 V + EG+NRE+++++E ++V+RL R+ YG L + AG+ +E++KK + + Sbjct: 185 VVIMEGRNREVRRLWESQGFQVSRLKRVRYGSVFLDSDVRAGTWQEMAKKDIDQLAKTVD 244 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 L A + +R Sbjct: 245 LAPAPWKSIVKHKRDPMKRKMEKQRTRRSVGKTSRKP 281 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 106/230 (46%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S I V + E Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLIRSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + + + +GRLD +TEGLL++TN+G L Sbjct: 61 SYYLLYKPSGVVSAVRDSEHKTVIDLISEKDRVEGLYPIGRLDRDTEGLLIITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G +++D + ++G+V ++T+DT + + Sbjct: 121 RMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+G +L L G R + Sbjct: 181 TITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRLDMNLKPGQYRRLRDSE 230 >gi|196233446|ref|ZP_03132289.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] gi|196222442|gb|EDY16969.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] Length = 237 Score = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 78/242 (32%), Positives = 124/242 (51%), Gaps = 5/242 (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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G R+I+ + ++V RL RI GP ++G + G R ++ K + GP Sbjct: 176 TQGIKRQIRLMLYDLGYEVERLARIRLGPLKIGEMRPGEWRLLTSKEIAALKGPAQPSAP 235 Query: 254 QV 255 + Sbjct: 236 KA 237 >gi|322832033|ref|YP_004212060.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321167234|gb|ADW72933.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 235 Score = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 54/231 (23%), Positives = 107/231 (46%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D + G+ + + Q +K + V + Sbjct: 121 ITSPRHHCEKTYLVTLEHPLADDTAAQFEAGVQLHNEDSLTKPAQ----LEKIEDCLVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F +V L R G + L G R ++++ + Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVVALHRERIGEIVMDEDLEPGQYRPLTEQEV 227 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 140/331 (42%), Positives = 195/331 (58%), Gaps = 2/331 (0%) 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 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ--KNGLSKQKKLATPV 305 ++ A + P S +S + + + + V Sbjct: 644 KVIALAGCDFAGPSPSETKPKPRAGKAVSAEEWAVADAAPAPKKTITKRGAVEDRKGRKV 703 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 AS G+R+ R Sbjct: 704 KVERTASEGGDRPLSRGPARRYHGKRDLAPR 734 Score = 38.6 bits (88), Expect = 1.6, Method: Composition-based stats. Identities = 12/108 (11%), Positives = 27/108 (25%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ G ++ D P + + + R + F R +++ + + K Sbjct: 227 DKGGFDKPRFSKSRDDKPRFDRDRGDKPRFDKPRGDKPRFDRGERSERPERSGDRPKFSR 286 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 R R + R P + R Sbjct: 287 PRDGDRGEQRPFRERSFDRPREDRPRSDRPRSDRPREDRPQRDRAARH 334 Score = 37.9 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 9/102 (8%), Positives = 21/102 (20%), Gaps = 1/102 (0%) Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + + + + ++ P R + Sbjct: 232 DKPRFSKSRDDKPRFDRDRGDKPRFDKPRGDKPRFDRGERSERPERSGDRPKFSRPRDGD 291 Query: 314 VWMAKGIH-SSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + SF R + R P + +R A + Sbjct: 292 RGEQRPFRERSFDRPREDRPRSDRPRSDRPREDRPQRDRAAR 333 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 85/236 (36%), Positives = 120/236 (50%), Gaps = 7/236 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 T +R+ KV+A G+ASRR E +I +V VNG + V D IE G L Sbjct: 2 TTERLQKVLAHWGVASRRHAETLIRSGQVFVNGQRAK-LGDKVDPARDRIEYKGERLNPP 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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A + + L EG+NR+I++V + + V L RI+ GP LG L + R +S+ L Sbjct: 181 RALLEIILHEGRNRQIRRVADQLGYPVLALQRIAIGPVHLGHLRPRAVRPLSRHEL 236 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 53/231 (22%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + V VN + + +V + + D I DG L + Sbjct: 1 MRLDKFIAENTGLTRSQAAKALKSGLVTVNQKVEKSGSVKISAQDEIRYDGELLEWMDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEYPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ ++GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAQRFEEGILLRGEREPCLPAKMEVL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R +++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDEDLQEGEFRPLTEDEM 227 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 63/228 (27%), Positives = 108/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRINHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKR 225 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 58/225 (25%), Positives = 100/225 (44%), Gaps = 1/225 (0%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + +D ++ P+ + + Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVVKFHDEPVSIERKVYVL 61 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T+ + R+ + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 62 LNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTGVLLLTNDGDLASKLTH 121 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P ++Y V + + + + GI ++ T V + + G Sbjct: 122 PKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIH-ADAISYTDDFKKDQVGIEIHSG 180 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 KNR ++++FE +KV +L R+ + L G R +S+ + Sbjct: 181 KNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAEV 225 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 66/229 (28%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G +VT S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVTQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKR 222 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDINT GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDINTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVGKTYLAQVKGIMTQEDVETFAEGIPLKDFTCKPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 114/235 (48%), Gaps = 1/235 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + TP R++K +A +G+ SRR +++I V VNG ++ + +V D I VDG P+ Sbjct: 219 DPKTPLRLNKFLASSGVCSRRVADQLIVDGHVSVNGEIVTQLGKHVTREDFISVDGKPVS 278 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + T+ + + + R+ VGRLD NT GLLLLTNDG Sbjct: 279 IEKKIYVLLNKPRNCVTTSSDPEKRLTAIDLVRNACNERIYPVGRLDRNTTGLLLLTNDG 338 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + ++Y+V V + + + GI ++ ++ + A Sbjct: 339 DLAAKLMHPKYEKKKIYQVTLDKPVSVEHMQQIASGIELEDGEIHADAISYVDENNL-AI 397 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V + + G+NR ++++F+ ++V +L R+ + L G R +++ +R Sbjct: 398 VGIEIHSGRNRIVRRIFKHLGYRVYKLDRVYFAGLTKKDLPRGRWRYLTEDEVRN 452 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 54/230 (23%), Positives = 100/230 (43%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G SR +V+++I + V VNG + + D +EVDG ++ + Sbjct: 1 MRLDKFLTHCGFGSRTQVKKLIREGIVTVNGKQIVEVDFKINPEEDVVEVDGRIVKFSRW 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + + + +VGRLD + EGLL++T+DG Sbjct: 61 IYIMMNKPKGYVCSNEDPMSLTVFSLISDDLKHRDLHTVGRLDKDAEGLLIITDDGEYTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + + Y VR +VD+++L + GI++ + T+ + V + Sbjct: 121 RVISPKKRIEKEYLVRLEKEVDEERLKEFENGIILDDGYKTLPAKYTII----DSTTVKL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + EGK ++K++FE KV L R G L L G R + ++ Sbjct: 177 CIYEGKYHQVKRMFEAIGNKVVDLKRRRIGGLNLDESLKPGEYRLMKEEE 226 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 131/247 (53%), Positives = 167/247 (67%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R++K +AR+G+ASRR+ ER++ + RV++NG + A V + D ++V+G + Sbjct: 18 ERGERIAKWLARSGVASRRDAERLVEEGRVRLNGEPVTHPATFVAAGDIVQVNGAVVEAP 77 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ERTRLW YHKP GLVTTH DP+ R TVF +LP RVISVGRLD+N+EGLLLLTNDG L Sbjct: 78 ERTRLWRYHKPDGLVTTHRDPEKRPTVFASLPPGMPRVISVGRLDLNSEGLLLLTNDGEL 137 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 AR LELPS WLR YRVR G VD+ +L L G V +G+ YG ++ LD++KG NAW+T Sbjct: 138 ARRLELPSNGWLRRYRVRVFGVVDEARLAALAGGSVFEGVRYGPIEAGLDSRKGDNAWLT 197 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 V LREGKNRE++KV N V+RLIR SYGPFQLGTL EV K+LREQ+ Sbjct: 198 VALREGKNREVRKVMRGLNLHVSRLIRTSYGPFQLGTLQRSELEEVPGKVLREQVPGLGP 257 Query: 251 EEAQVNL 257 Sbjct: 258 APRPARR 264 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV + D G+ + Q+ + T V + Sbjct: 121 ITSPRHHCEKTYRVTLESPIGDDTAAQFTAGVQLHNEKDLTKPAQLEVITPTD----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 L EG+ ++K++F +V L R G L L G R +++ + Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVIELHRERIGDIALDDDLEPGDYRALTEDEI 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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ Q+++ VNG + + D + G L Sbjct: 1 MRLDKFLVDCGVGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPGKDRVTFMGEDLVHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPAGVISATEDDHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G +D+ + + GI ++ ++ + +N ++V Sbjct: 121 AMLSPKKHVSKIYRAQVAGIMDEADVARFEAGIALKDFTTLPARLQILEVNEANASSYVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++ +V L RIS GP L +L G R + L Sbjct: 181 IEIAEGKFHQVKRMVAACGKEVADLERISMGPLTLDPSLKLGEWRRLQPSEL 232 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 100/228 (43%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + +D + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 59/225 (26%), Positives = 99/225 (44%), Gaps = 1/225 (0%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 +K +A AG+ SRRE + I V VNG ++ + D ++ P+ + + Sbjct: 2 NKFLANAGVCSRREADEFITAGVVSVNGAVVTELGTKIKRGDEVKFHDQPVSIERKIYIL 61 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T+ R+ + + R+ VGRLD NT G+LLLTNDG LA L Sbjct: 62 LNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKLTH 121 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P ++Y V V + ++ + GI + T V + + G Sbjct: 122 PKFLKKKIYHVHTDKNVTKADMDQIAAGIQLDDGEIH-ADAISYTDDVRRDEVGIEIHSG 180 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 KNR ++++FE +KV +L R+ + L G R +S++ + Sbjct: 181 KNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLSEQEV 225 >gi|332883058|gb|EGK03342.1| hypothetical protein HMPREF9456_01979 [Dysgonomonas mossii DSM 22836] Length = 482 Score = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 59/233 (25%), Positives = 109/233 (46%), Gaps = 1/233 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + TP R++K +A AG+ SRRE + I VKVNG ++++ V D + P+R Sbjct: 242 DPSTPLRLNKYLANAGVCSRREADAFITSGVVKVNGEVVDQLGAKVTRGDLVTFHDQPVR 301 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + T+ + + + + R+ VGRLD NT G+LLLTNDG Sbjct: 302 LESKVYVLLNKPKNCVTTSDDPQNRLTVMDLVKNACPERIYPVGRLDRNTTGVLLLTNDG 361 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + ++Y+V V + + + G+ + + + N Sbjct: 362 DLASKLMHPKFKKKKIYQVTLDRDVAIEDMQAIADGVELDDGEIHADSIAYQAEDVLN-V 420 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + G+NR ++++FE ++V +L R+ + + R +++K + Sbjct: 421 VGIEIHSGRNRIVRRIFEKLGYQVVKLDRVYFAGLTKKNIPRSKWRYLTEKEV 473 >gi|301336267|ref|ZP_07224469.1| ribosomal large subunit pseudouridine synthase B [Chlamydia muridarum MopnTet14] Length = 241 Score = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 66/229 (28%), Positives = 104/229 (45%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K +A AG+ASRR+ + ++ V VNG + V V D +EV+G + ++ Sbjct: 4 VRLNKFLASAGVASRRKCDEIVFAGAVTVNGKVAAGPFVIVDEELDSVEVEGQRIGTEKK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ 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 + V + + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVSARDLETLMAGVVIDGRIVRPVSVKKVRRG----TIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK EI+ E ++ L RI G LG L G RE++ L Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGQYRELTDAEL 228 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. 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|327439180|dbj|BAK15545.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 240 Score = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 61/224 (27%), Positives = 106/224 (47%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G SR+EV+ ++ Q+ V V+G+ ++ +A++V ++ V G + E Sbjct: 5 MRLDKLLANMGYGSRKEVKLLLKQKAVTVDGVTVKDSAMHVNPEKQNVSVFGERVEYVEF 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + P + T D + VGRLD +TEGLLL+TNDG LA Sbjct: 65 IYLMMNKPPGVISATEDRYDQTVIDLLDPEYQHFEPFPVGRLDKDTEGLLLITNDGNLAH 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + +G+ ++ ++ + G + + + Sbjct: 125 NLLSPKKHVPKWYYAKIDGVVTEADIEAFAQGVTLEDGYHTKPGELKIL-VSGEQSEIEL 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 ++EGK ++K++FE KV L R+S G +L L G R Sbjct: 184 MIQEGKFHQVKRMFEAVGKKVTYLKRLSMGTLKLDEELALGEYR 227 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ Q+++ VNG + + D + G L Sbjct: 1 MRLDKFLVDCGMGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPGKDRVTFMGEDLVHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPAGVISATEDDHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G +D+ + + GI ++ ++ + +N ++V Sbjct: 121 AMLSPKKHVSKIYRAQVAGIMDEADVARFEAGIALKDFTTLPARLQILEVNEANASSYVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ +V L RIS GP L TL G R + L+ Sbjct: 181 IEIAEGKFHQVKRMVAACGKEVVDLERISMGPLMLDPTLQLGEWRRLQPSELK 233 >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 = 169 bits (429), Expect = 4e-40, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVTDDTAAQFAKGVQLHNEKELTKPATLEVV----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGAITLDEDLAPGEYRPLTEEEI 227 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 83/233 (35%), Positives = 126/233 (54%), Gaps = 3/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 +R+ KV+ARAG SRR E +I+ RV+V+G +++ V + + VDG L+ Sbjct: 65 DGERLQKVLARAGFGSRRACETLISTGRVRVDGAVVQEQGVRIDPAAQVVHVDGRRLQLD 124 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + +KP G+V+ SDP+GR + + + R+ VGRLD TEGLLLLTNDG L Sbjct: 125 ETKLTLVLNKPRGVVSAMSDPEGRRDLSEFTAAHSQRLYHVGRLDYETEGLLLLTNDGEL 184 Query: 131 ARVLELPSTQWLRVYRVRFHGQ--VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A L PS + + Y RF + + L+ G+ ++ + + Q G A Sbjct: 185 AHRLTHPSFEVAKTYVCRFDAPGGPPRGLVRTLRDGVELEDGPARADRARVLAQDGREAV 244 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++F +++ LIR GP LG L G+TRE+S + L Sbjct: 245 VEVTLHEGRNRIVRRMFASRGFELTALIRTRIGPVLLGDLAPGTTRELSGREL 297 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 65/229 (28%), Positives = 100/229 (43%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V VNG L+++A V TD ++V + + Sbjct: 1 MRIDKYLANMKVGSRKEVHDLIKAKKVTVNGQLVKQAKQQVADTDIVKVADETIAYEQFY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFMLNKPAGVITATEDPQQKTVLDLIEHKDRYQGLSPVGRLDKDTTGLLLLTNDGQLNHN 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V +V + + KG+ + L K + + + Sbjct: 121 LLSPKKHVAKTYFVELDYEVSDELIVNFAKGVTLADG-TKVSPSQLKIDKSNKKQGFITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EGK +IK++F F+ V RL RIS G L LL G R+++K + Sbjct: 180 HEGKFHQIKRMFGLFDLGVVRLKRISMGNLSLDENLLLGKYRKLTKAEI 228 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 100/228 (43%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + +D + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLTDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 61/238 (25%), Positives = 114/238 (47%), Gaps = 7/238 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + I+ +F+ R++K+I++AG+ S+++ + I Q RV VNG + V D + + Sbjct: 21 KQKIIATDFSSMRLNKLISQAGLGSKKQADAWIMQNRVTVNGQVASV-GQKVNQHDQVLL 79 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG P+ + L YHKP+G+V TH + V + ++GRLD +EGL+ Sbjct: 80 DGRPVAWSSEVLLMAYHKPVGVVCTHDLSVANNLVVS--TGLMQHFSAMGRLDKASEGLM 137 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LTN G L + P + Y V + + L +++G+ I G ++ + Sbjct: 138 ILTNQGDLTNHILQPGFAHEKEYWVEVDQPLTEYFLTNMQQGVEIMGQVTRPCEI----E 193 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L +G N++I+++ + ++V RL R+ L L + RE++ Sbjct: 194 ATGEHCFRIVLTQGLNKQIRRMCKSLGYRVLRLQRVRIAQVWLDDLPVNTLRELNDVE 251 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 98/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V +N L+++A V D ++VD + + Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKAKKVTINEKLVKQAKQQVTENDMVKVDNQTITYQQFH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T +S + VGRLD +T GLLL+TNDG L Sbjct: 61 YFMLNKPTGVITATEDPQQKTVLDLIASKDRYSDLAPVGRLDKDTTGLLLITNDGQLNHN 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V ++ + + KG+ + L K + + + Sbjct: 121 LLSPKKHVAKTYFVELDQEIANEVDSAFAKGVALADG-TQVGSAQLIIDKSNKKQGLITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EGK +IK++F F+ V +L RI G L L G RE+++ + Sbjct: 180 HEGKFHQIKRMFGLFDLGVVKLKRIKMGNLSLDENLPQGKYRELTEAEI 228 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 102/228 (44%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP ++ D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKDYISATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + +D + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 106/230 (46%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S I V + E Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLICSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + + + +GRLD +TEGLL++TN+G L Sbjct: 61 SYYLLYKPSGVVSAVRDSEHKTVIDLISEKDKVEGLYPIGRLDRDTEGLLIITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G +++D + ++G+V ++T+DT + + Sbjct: 121 RMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+G +L L G R + Sbjct: 181 TITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRLDMNLKPGQYRRLRDSE 230 >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 = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 89/378 (23%), Positives = 147/378 (38%), Gaps = 26/378 (6%) Query: 1 MKDKNIVQEN---FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MKD++ +++ KV+AR G+ SRR+VE I Q R+KVNG + V Sbjct: 1 MKDQDQNDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQGRIKVNGKDAT-LGLRVDMH 59 Query: 58 DHIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D I +DG +++ E R + + T + R I++G Sbjct: 60 DAITIDGKVIKREEAAETVRRVIMYNKPDGEICTRDDPEGRPTVFDKMPRPKEGRWINIG 119 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDINT GLL+ T DG LA L PS + R Y VR G+VD + + LK G+V++ Sbjct: 120 RLDINTTGLLMFTTDGELANRLMHPSYEMDREYAVRVRGEVDDEMIERLKAGVVLEDGPA 179 Query: 173 GDMQVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLA 230 + +G N W + EG+NRE+++++E V+RL R+ +GP L L Sbjct: 180 RFTDIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLNSDLPM 239 Query: 231 GSTREVSKKI---------LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 G RE+S+ L+ P + +++ L+ S + + + P Sbjct: 240 GRWREMSQYEVDILAAEVGLKPVAMPQMTAKSKDKLERMQRKSSRPMGKTERVRTLRPAA 299 Query: 282 FTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGI------HSSFLSDSGQREENH 335 + + ++ A R R Sbjct: 300 EGAPTGPRPSREPQIEGERPARKPAPRQDGERGPRTPRPANGRTERGEGRGAPAGRGTPV 359 Query: 336 RRSPSFPSKRSLRRTSAK 353 P+ + + + Sbjct: 360 ADRPADTKRPAKPAPKKR 377 >gi|300072082|gb|ADJ61482.1| ribosomal small subunit pseudouridine synthase A [Lactococcus lactis subsp. cremoris NZ9000] Length = 242 Score = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 102/239 (42%), Gaps = 9/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K +A +G+ SR EV+ ++ + RV V G + V + DG L E Sbjct: 1 MRLDKFLAESGLGSRSEVKVLLKKGRVTVAGEIQRDGRFQVDKNSRQVAFDGQILDYQEY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + VGRLD NTEGLL+LTNDG L Sbjct: 61 YYYLLNKPQGVVSATKDNVFKTVVQLLSEKDFRKDIFPVGRLDKNTEGLLILTNDGALGH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------QKGS 185 L P + Y R G+V + +N +G+ ++ G ++ ++ Q G Sbjct: 121 DLTQPKKHVEKEYFARIDGKVTDEIINKFAEGLTLKNGEKARPGELFVEKTYKGDSQSGW 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + V + EGK ++K++FE V L RI G L L G+ R ++ + + Sbjct: 181 VSEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLTIEEIEN 239 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDSKHRTVLDLLDDVARSKGVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ + KGI ++ ++ + + + + + Sbjct: 121 ALLSPKRHVDKTYLAQVKGIMSQEDVETFAKGIPLKDFTCQPARLEIISIDTEKNQSKIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G LG L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGTLALGENLERGEWRRLTKEELE 233 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 117/231 (50%), Gaps = 3/231 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 QR+ K+IA +G+ SRR E+++ Q+RV +NG L + D I VDG L Sbjct: 2 KQQRLQKLIAASGLCSRRHAEQLLLQERVTLNGHLAK-LGDKADPELDKISVDGRVLNSN 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGG 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V LREG+NR+I++V E V L R + L L G R + ++ Sbjct: 181 KVVLREGRNRQIRRVAEQLGHPVLDLQRTAIANVALDALPEGCWRALDERE 231 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 79/349 (22%), Positives = 139/349 (39%), Gaps = 21/349 (6%) 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+ L + VGRLD ++EGLLLLTNDG L Sbjct: 60 VVIALHKPVGVTTTKSDPHAERTVYQ-LVPDVPGLHPVGRLDKDSEGLLLLTNDGDLTLK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQD-KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYR + L +G+ + ++ + + Sbjct: 119 LTHPRYGVRKVYRAWCKHGRVSEADCRRLVEGVALDDGLAQALEAEPTQEGA-----RIV 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EGK RE++++ + V RL+R+ GP +LG L G R ++ + + G L+ Sbjct: 174 MAEGKKREVRRMLGRLGYPVTRLVRLQVGPIKLGKLNPGEWRYLTPEEIGLLQGQKPLKP 233 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN-------------SSQKNGLSKQK 299 + A ++ + + + P + + + + Sbjct: 234 RKKEGWAKAKPAKFAQQREESRAIKPPSRTEQGRAGFTVRTKSPGDTPQAGTDRWARWAR 293 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + R + + S P +R+ Sbjct: 294 ESDRSAQRSGRWGTSRRPYQGKRTAELEPKGLGSKSTSSTKTPGERTRP 342 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V +N L+++A V D ++VD + + Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKAKKVTINEKLVKQAKQQVTENDMVKVDNQTITYQQFH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLL+TNDG L Sbjct: 61 YFMLNKPTGVITATEDPQQKTVLDLIASKDRYPDLAPVGRLDKDTTGLLLITNDGQLNHN 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V ++ + + KG+ + L K + + + Sbjct: 121 LLSPKKHVAKTYFVELDQEIANEVDSAFAKGVALADG-TQVGSAQLIIDKSNKKQGLITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EGK +IK++F F+ V +L RI G L L G RE+++ + Sbjct: 180 HEGKFHQIKRMFGLFDLGVVKLKRIKMGNLSLDENLPQGKYRELTEAEI 228 >gi|221134960|ref|ZP_03561263.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Glaciecola sp. HTCC2999] Length = 331 Score = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 91/331 (27%), Positives = 142/331 (42%), Gaps = 17/331 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 ++ KV+A G+ SRRE+E I Q R+ VNG + V +D I VDG L++ + Sbjct: 2 SDKLQKVLANQGVGSRREMETWIEQGRISVNGTIAT-LGDRVEPSDQIRVDGHLLKRDQK 60 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + ++ R I+VGRLD+NT GLLL TNDG Sbjct: 61 APVCRVLMYNKPEGELCSRTDPLGRQTVFDRLPNIQSGRWIAVGRLDLNTAGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--N 186 LA L P + R Y VR G+V+ L LL+ G+ ++ ++ + N Sbjct: 121 ELANRLMHPRHEVEREYAVRVFGEVEPKTLKLLESGVELEDGLAKFTKIIARPNEEESIN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LR 242 AW V L EG+NRE+++++E +V+RLIR+ YGP L L G+ E+ LR Sbjct: 181 AWYNVSLSEGRNREVRRLWESQGVQVSRLIRLRYGPLSLQKRLPQGAWIELELNDVNALR 240 Query: 243 EQLGPHLLEEAQVNLDAPI------YSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +Q+ E V ++ V+ + ++ P + K Sbjct: 241 KQVQLPPETETLVGVNDNKLNHTKLSRMRKSVKKHKDRNAKAPIKGEGESASDDTKRTSR 300 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSD 327 ++ P RN A + + + S Sbjct: 301 RKPNNGKPQANRNNAKKGNLGRTRAGTGGSR 331 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 106/230 (46%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G ++ + V V S I V + E Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLICSRQVSVDGQIVTKDNVIVDSGLQSIFVGKERVCLKES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + + + +GRLD +TEGLL++TN+G L Sbjct: 61 SYYLLYKPSGVVSAVRDSEHKTVIDLISEKDKVEGLYPIGRLDRDTEGLLIVTNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G +++D + ++G+V ++T+DT + + Sbjct: 121 RMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+G +L L G R + Sbjct: 181 TITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRLDMNLKPGQYRRLRDSE 230 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 73/233 (31%), Positives = 120/233 (51%), Gaps = 1/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A AGIASRR E ++ V+VNG ++ R V D + V G L Sbjct: 18 IRLQKLLALAGIASRRGSEILMLNGEVEVNGEVVTRLGTKVDPGKDVVRVGGKRLPPISG 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G+V+T SDP+GR + D + R+ VGRLD +TEGL++LTNDG A Sbjct: 78 KVYLVLNKPRGVVSTMSDPEGRRNLSDLVADRPERLFHVGRLDTDTEGLIILTNDGDFAH 137 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y G++ + L G+ ++ + + + + + + Sbjct: 138 RLAHPSYEVDKTYVAEVKGEIFPNVRKRLLAGVTLEDGPVTVTKARIMETRKDKSIIELV 197 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+NR ++++ + V RL R GP +LG + G R++S++ L E L Sbjct: 198 IHEGRNRIVRRLLDHLGHPVTRLTRTRIGPVRLGAMKPGDMRDLSREELGELL 250 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I + V VNG +++ V +D + VDG + + Sbjct: 1 MRIDKYLANMNVGSRKEVHVLIKKGIVTVNGDVVKTPKQQVKESDEVLVDGQEINYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLKPQDQYQGITPVGRLDKDTTGLLLLTNDGQLNHK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKG--SNAWVT 190 L P+ ++YR + G D + + + G+ + ++ + +Q ++ + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKIFASGMTLGDSTKLKPAELKILSQDEEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + +REGK +IK++F KV L RIS G +L L G E++ + Sbjct: 181 IRIREGKYHQIKRMFGAVGMKVVELERISMGKLKLPKDLKRGEYIELNLDDV 232 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 83/287 (28%), Positives = 135/287 (47%), Gaps = 1/287 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ R+++++F +V RL R+ + L + GS R ++ + E + Sbjct: 183 IHEGRKRQVRRMFAAIGCRVQRLCRVRFAMLTLDGVSCGSFRHLTSDEIHELKKIAGVMH 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 + + S + D + +Q + K Sbjct: 243 SGEDSRRRRGSCGNDGGRCGSGTRGQCDPARKDAARRAQDDDHGKGA 289 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 106/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V VNG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEYPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ L +GI+++G Q+ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAQMEII----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDESLEEGEYRPLTEQEI 227 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 61/244 (25%), Positives = 111/244 (45%), Gaps = 7/244 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P +VYRV +D + GI + + + + + + Sbjct: 121 ITSPRHHCEKVYRVGVESPIDPSLVEKFAAGIQLHNEKDLTKPATLEIVGPQEA----LL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 + EG+ ++K++F V L R G L L G RE++++ + P L Sbjct: 177 TISEGRYHQVKRMFAASGNHVVTLHRERIGDIVLDADLAEGEYRELTEEEVASIGLPDEL 236 Query: 251 EEAQ 254 ++ + Sbjct: 237 KQPK 240 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 111/228 (48%), Gaps = 1/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGI SRR + I+ V VNG ++ V TD + DG L ++ Sbjct: 154 VRLNKFIADAGICSRRNADMYISAGNVMVNGEVMTTLGYRVKPTDEVRFDGKLLSSEKKE 213 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + TT+ + ++ + + R++ VGRLD T GLLLLTNDG L + Sbjct: 214 YILLNKPKGFITTTNDEKGRKTVMDLVANATNVRILPVGRLDRATTGLLLLTNDGELTKK 273 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ ++Y V ++D ++ G+ ++ +++ K N + + + Sbjct: 274 LTHPTHGVRKIYHVILDRKLDYKDFMKVQDGLELEDGLIEVDEISYVNNKPKN-EIGIKI 332 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G+NR ++++FE ++V +L R+ + L G R ++++ + Sbjct: 333 HSGRNRIVRRIFEHLGYQVEKLDRVVFAGLTKKDLPRGHWRRLTQQEV 380 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 58/227 (25%), Positives = 101/227 (44%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + VKVN +++ ++V D I V+ + Sbjct: 1 MRLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYI-D 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G ++ D + + + VGRLD +TEGLLL+TNDG Sbjct: 60 KVYIMLNKPKGYISATEDEVHPTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ + Y V + Q ++ K GI + +K N V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIELSDGKLKPA----ILKKVDNYVSHVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L GS R +++ Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYRLLTQ 222 >gi|56478942|ref|YP_160531.1| pseudouridylate synthase [Aromatoleum aromaticum EbN1] gi|56314985|emb|CAI09630.1| pseudouridylate synthase [Aromatoleum aromaticum EbN1] Length = 317 Score = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 76/266 (28%), Positives = 121/266 (45%), Gaps = 6/266 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 P+R+ KV+A+ G+ SRRE+E + R+ VNG+ + D ++ +G + Sbjct: 53 EPERLQKVLAQIGLGSRREIEEWVVAGRISVNGLPA-ELGQKIGPGDRVKYNGKLIPLRF 111 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + +V+ + 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 PHLLEEAQVNLDAPIYSSETLVRDRP 272 + + + Sbjct: 292 LPKPQGQAARPGEQVRKTRLHRTTPR 317 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 110/235 (46%), Gaps = 1/235 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + P R++K +A AG+ SRRE + I+ ++ VNG ++ ++ TD I+ G + Sbjct: 287 TDPTEPLRLNKYLANAGVCSRREADNYISSGQITVNGEVVTELGTKILRTDEIKFKGQTV 346 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ L L + T+ + V + R+ VGRLD NT G+LL TND Sbjct: 347 SLEKKVYLLLNKPKDYVTTSDDPQQRKKVVDLVKDACPERIYPVGRLDRNTTGVLLFTND 406 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P +VY V V + L + +GI+++ + + + Sbjct: 407 GDLASKLTHPKFLKKKVYHVFLDKPVAANDLQKIAEGIMLEDGEIKADAIEYASPDDL-S 465 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + GKNR ++++FE ++V +L R+ + + G R +++K + Sbjct: 466 QVGIEIHSGKNRIVRRIFESLGYRVVKLDRVMFAGLTKKNVRRGDWRFLTQKEVE 520 >gi|332830420|gb|EGK03048.1| hypothetical protein HMPREF9455_01298 [Dysgonomonas gadei ATCC BAA-286] Length = 444 Score = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 65/241 (26%), Positives = 115/241 (47%), Gaps = 2/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K + N TP R++K +A AG+ SRRE + I VKVNG ++++ V D + Sbjct: 197 VKYKENIDPN-TPLRLNKYLANAGVCSRREADAYITSGVVKVNGEVVDQLGAKVTRGDLV 255 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P+R + + L + T+ + + + + R+ VGRLD NT G Sbjct: 256 TFQDKPVRLESKVYVLLNKPKNCVTTSDDPQNRLTVMDLVKNACPERIYPVGRLDRNTTG 315 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P + ++Y+V V + + + G+ + + Sbjct: 316 VLLLTNDGDLASKLMHPKFKKKKIYQVTLDRDVAIEDMQAIADGVELDDGEIHADSIAYQ 375 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + N V + + G+NR ++++FE ++V +L R+ + +L G R +S+K Sbjct: 376 AEDVLN-VVGIEIHSGRNRIVRRIFEKLGYQVMKLDRVYFAGLTKKNVLRGKWRYLSEKE 434 Query: 241 L 241 + Sbjct: 435 V 435 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 77/240 (32%), Positives = 124/240 (51%), Gaps = 1/240 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ KVI++AG+ASRR E++I RVKV+G ++ + V + I VDG + Sbjct: 8 EDGVRLQKVISQAGVASRRHAEKLIISGRVKVDGNIVRTLGIRVDPSVQTIHVDGNQIML 67 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ +KP G+V+T DPDGR + + + R+ VGRLD +T GL+LLTNDG Sbjct: 68 DTKSLTIALNKPAGVVSTMDDPDGRPCLAEFVEQYNQRLYHVGRLDTDTAGLILLTNDGE 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L+ L PS + + Y HG+V + L +GI ++ + G V Sbjct: 128 LSHRLMHPSWEVPKTYVATVHGEVPRGLGRKLARGITLEDGPVKVEDFQITDHYGEMTLV 187 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG+NR ++++ + + V L+R +GP +G L +G TR + +L+E Sbjct: 188 QLTLHEGRNRIVRRIMDHVGFPVIELVRTQFGPVHIGRLHSGVTRRIEGPVLQELYRAVN 247 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 106/233 (45%), Gaps = 6/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + I SR +V++ I + V VNG + + + D I+ +G L ++ Sbjct: 1 MRLDKFLVEMNIGSRSQVKQYIKKGMVSVNGTNAASSDMKINEDTDTIKYNGKQLCYSKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + D ++ + + VGRLD++TEGLL++TNDG LA Sbjct: 61 RYFLLNKPAGCV-SATKDNVHQTVIDLLNGENTKDLFPVGRLDLDTEGLLIITNDGRLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWV 189 L P+ + Y G VD ++L K+GI I + + S + + Sbjct: 120 HLLSPAHHIAKTYYADIDGYVDDQTISLFKQGIDIGDDTPTLPASLKIIEADRSTGSSRI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + EG+ ++K++F+ N V L RIS G + L GS RE++ + + Sbjct: 180 ELTITEGRFHQVKRMFQAVNMSVTFLKRISMGNLHIADDLPTGSYRELTPEEV 232 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 82/242 (33%), Positives = 116/242 (47%), Gaps = 8/242 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ +ARAG+ SRR+ E +I Q RV+VNG + V D +EVDG P+ Sbjct: 2 EKPLRLQAFLARAGVGSRRKAEELIRQGRVRVNGKVA-VLGQKVNPGDVVEVDGKPVEPP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + HKP G TT DP + TVFD LP I +GRLD ++EGLLLLTNDG L Sbjct: 61 RERIVLALHKPRGYTTTRHDPHAQKTVFDLLPDIPGL-HPIGRLDRDSEGLLLLTNDGHL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P +VYRV L +G+ ++ + Sbjct: 120 TLRLTHPRYGVRKVYRVYTERGTLPLAICQRLLEGVDLEDGPARALACRPAPGGA----- 174 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG+ RE++++ + + V RLIR+ GP LG L G R++S + + L Sbjct: 175 LLTLAEGRKREVRRMLKAVGYPVKRLIRLQVGPIHLGHLPPGKWRQLSPREVEALLRETP 234 Query: 250 LE 251 +E Sbjct: 235 VE 236 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 79/243 (32%), Positives = 123/243 (50%), Gaps = 4/243 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIE 61 +K+ N +R+ KV+A+AG+ASRR E +I RV+VNG +++R V V D I Sbjct: 57 EKSTQNPNTEGERLQKVLAKAGVASRRHAEVLIDAGRVEVNGKIIKRQGVRVNPNADVIR 116 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINT 118 VDGV + E ++ +KP G+ +T D GR V D + R+ VGRLD +T Sbjct: 117 VDGVRVNVNEDHEYFILNKPRGVQSTMQDDMGRPCVGDMVAEKTASGQRLFHVGRLDADT 176 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLL+LTNDG LA L P + + Y G+ D+ + LK GI + V Sbjct: 177 EGLLILTNDGELANRLMHPKYEVSKTYLATVLGEADKSLVRTLKDGIELDDGMANADFVQ 236 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + + + L EG+ ++++ + + V RL+R QLG + G R ++ Sbjct: 237 IVDKNQGMSLIRLELHEGRKHIVRRMLKAAGYPVQRLVRTKIHTVQLGDMKPGGIRALNS 296 Query: 239 KIL 241 L Sbjct: 297 AEL 299 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 VL P + Y + G + Q+ + KGI ++ ++ + + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 117/231 (50%), Gaps = 3/231 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 QR+ K+IA +G+ SRR E+++ Q+RV +NG L + D I VDG L Sbjct: 2 KQQRLQKLIAASGLCSRRHAEQLLLQERVTLNGHLAK-LGDKADPELDKISVDGRVLNSN 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGG 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V LREG+NR+I++V E V L R + L L G R + ++ Sbjct: 181 KVVLREGRNRQIRRVAEQLGHPVLDLQRTAIANVALNALPEGCWRALDERE 231 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 87/234 (37%), Positives = 129/234 (55%), Gaps = 2/234 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--K 69 R+ K+IA +G SRR+ E++I ++RVKVNG + D + VD + + Sbjct: 11 EKIRLQKIIAESGFCSRRKAEQLIEERRVKVNGHPAKIGDKADPRKDVVTVDDERITVAR 70 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R + HKP G VTT SD GR V D + I R+ VGRLD+N+EGLLL TNDG Sbjct: 71 RPTYRYVMLHKPRGYVTTMSDEKGRRCVADLVADIDERLYPVGRLDVNSEGLLLFTNDGR 130 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA + PS + YRV + ++ L +G+VI G QV + T++ + + Sbjct: 131 LANDIMHPSRHVTKTYRVTVRPDITDEQAARLAEGVVIDGRKTAPAQVHVLTKEPNRVVM 190 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V +REG+NR+I+K+ E +V RL R S GP +LG L G+ R+++ + L+ Sbjct: 191 EVVIREGRNRQIRKMMEAVGLEVARLKRTSLGPIKLGMLKPGAHRDLTAEELKA 244 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 58/291 (19%), Positives = 116/291 (39%), Gaps = 5/291 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + + R++K I+ +GI SRR+ +R I Q V +NG + V D ++V+G + Sbjct: 3 SKSSLRLNKYISESGICSRRDADRYIEQGNVFINGKRVT-LGDRVFPGDVVKVNGQVIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + + DG + + +R+ +GRLD +++GL+ LTN G Sbjct: 62 RNEDNLIFIALNKPVGIVSTTEDGEKDNIVDFVNHSTRIFPIGRLDKDSQGLIFLTNQGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + YRV + + D + L G+ + G +K + Sbjct: 122 LVNKILRAGNGHEKEYRVTVNKPLTDDVIRGLGDGVPMLGTV----TKKCKVKKETPLVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L L G R+++ + Sbjct: 178 RIVLVQGLNRQIRRMCEYFGYEVTKLERTRIMNVSLIGLPLGEWRDLTDDERGQLFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++V + + + + + + G K+ + Sbjct: 238 DSSSEVKSVKKAKPAVKNLAGNNGPRNGNRSGSSLAARKRFTQPGRKKKGR 288 >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 = 169 bits (428), Expect = 5e-40, Method: Composition-based stats. Identities = 53/231 (22%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + V VN + + +V + + D I DG L + Sbjct: 1 MRLDKFIAENTGLTRSQAAKALKSGLVTVNQKVEKSGSVKISAQDEIRYDGELLEWMDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEYPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ ++GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAQRFEEGILLRGEREPCLPAKMEVL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R +++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLQEGEFRPLTEDEM 227 >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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 60/247 (24%), Positives = 110/247 (44%), Gaps = 11/247 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------VPL 67 R++K +A G+ SRRE ++ I RV +NG + V D + +DG + Sbjct: 1 MRLNKFLASIGVCSRREADKAIEAGRVMINGEVA-ELGAMVGEEDLVSLDGRYIATGKDV 59 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K + + + TT + + V + R+ VGRLD ++ GLLLLTN Sbjct: 60 EKVKPIIIAFNKPEGIVCTTSDNDGATNVVDYI--GMKERIYPVGRLDKDSSGLLLLTNQ 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L + + Y V+ + +D D +N + GI + + + + +K + Sbjct: 118 GSLTNSLLRAANYHEKEYIVKVNKDIDDDFINKMSNGIYLYELKTKTRKCKV--KKLNKN 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 ++ L +G NR+I+++ KV +L R+ +L L G+ R +S + +++ Sbjct: 176 TFSIVLTQGLNRQIRRMCLACGMKVQKLNRVRIVNIKLDGLALGAYRNLSDEEIKKLYKE 235 Query: 248 HLLEEAQ 254 + E Sbjct: 236 LGIRENG 242 >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 = 169 bits (428), Expect = 6e-40, 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|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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 58/243 (23%), Positives = 105/243 (43%), Gaps = 13/243 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ +R E ++++ V+VN + + AA+ V + I +DG L Sbjct: 1 MRLDKFICKSTELTRTEAKKVLKSGEVRVNNEVAKNAAMQVHENNLITIDGQQLSARGS- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HK + + ++ D S + + GRLD +T GL+L+T+DG + Sbjct: 60 RYYILHKIVDTICSNVDEIYPSVLHSLEVDKAFDLHIAGRLDADTTGLVLITDDGRWSHN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI------VIQGICYGDMQVTLDTQKG--- 184 + P Q + YRV ++D DKL+ L + +T Sbjct: 120 VISPKKQCQKTYRVWLRSEIDDDKLSALVARFDSGLQLQGEDSLTRPAILTRVEIDNLVD 179 Query: 185 ---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + EGK ++K++F +V L R G LG L G RE+++ + Sbjct: 180 EASYRSEVLLTITEGKYHQVKRMFAAVGNRVVGLHREQIGKITLGDLAPGEWRELTEDEI 239 Query: 242 REQ 244 + Sbjct: 240 TQF 242 >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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 65/229 (28%), Positives = 100/229 (43%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++V VNG L+++A V TD ++V + + Sbjct: 1 MRIDKYLANMKVGSRKEVHDLIKAKKVTVNGQLVKQAKQQVADTDIVKVADETIAYEQFH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLLLTNDG L Sbjct: 61 YFMLNKPAGVITATEDPQQKTVLDLIEHKDRYQGLSPVGRLDKDTTGLLLLTNDGQLNHN 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V +V + + KG+ + L K + + + Sbjct: 121 LLSPKKHVAKTYFVELDYEVSDELIVNFAKGVTLADG-TKVSPSQLKIDKSNKKQGFITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EGK +IK++F F+ V RL RIS G L LL G R+++K + Sbjct: 180 HEGKFHQIKRMFGLFDLGVVRLKRISMGNLSLDENLLLGKYRKLTKAEI 228 >gi|325695507|gb|EGD37407.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK150] Length = 242 Score = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ ++ V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKELVLVNGRAEKSPKTQIDETADEIIVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 + P ++YR + G ++Q GI ++ Q+ + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADEERFAAGIELKDFTCQPAQLKILELDAAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDFALALGEWRRLTTDELE 233 >gi|295098123|emb|CBK87213.1| ribosomal small subunit pseudouridine synthase A [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 235 Score = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 105/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV V D KG+ + + + T V + Sbjct: 121 ITSPRHHCDKTYRVMLESPVSDDTAEQFAKGVQLHNEKDLTKPAVLEILTPTD----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGAIELDPDLAPGEYRPLTEEEI 227 >gi|150391402|ref|YP_001321451.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] gi|149951264|gb|ABR49792.1| pseudouridine synthase [Alkaliphilus metalliredigens QYMF] Length = 243 Score = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 107/234 (45%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ K++A G SR ++ R+ Q V VNG +++ ++ +V D I V + Sbjct: 3 KTQRLDKILANLGHGSRSDIRRLCRQGVVTVNGAVVKSSSQHVEPENDKITVGEEEIYYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E + + + T + V VGRLD +TEGLL+LTNDG L Sbjct: 63 EFVYIMMNKPQDVISATEDFKEKTVVDLLESKYQAFDVFPVGRLDKDTEGLLMLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + +KGI I+ Q+ + + V Sbjct: 123 AHQLLSPKKHVPKTYYAKIEGVVTDADVEAFEKGIFIEENLQTMPSQLKILKADEI-SEV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 V + EGK ++K++F+ + +V L R+S G L L G+ RE+S++ L+ Sbjct: 182 EVTIYEGKYHQVKRMFQATDKEVVYLKRLSMGSLMLDNSLDLGTYRELSEEELQ 235 >gi|291619766|ref|YP_003522508.1| RluF [Pantoea ananatis LMG 20103] gi|291154796|gb|ADD79380.1| RluF [Pantoea ananatis LMG 20103] Length = 297 Score = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 57/299 (19%), Positives = 114/299 (38%), Gaps = 11/299 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 10 TQSSTRLNKYISESGICSRRDADRFIEQGNVFINGKRAAV-GAQVFAGDVVKVNGQLIEP 68 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + +G + + RV +GRLD +++GL+ LTN G Sbjct: 69 RDEDDLVLIALNKPTGIITTMEEGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V V + + + G+ + G +K + Sbjct: 129 LVNKILRAGNNHEKEYVVTVDKPVTDEFIAGMASGVPMLGTV----TKKCKVKKEAPYVF 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L + G R+++ E Sbjct: 185 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGIPLGEWRDLTDDERVELFKL-- 242 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 N + ++ + P + + +K+ + + + R Sbjct: 243 ----LENSSSEDKPAKKTPQKSPAAKKPAKNAVKQGEKSEDKPASRKRFTQPGRKKKGR 297 >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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 133/234 (56%), Gaps = 2/234 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLR 68 + R+ K++A+AG+ASRR E MI + RV VNG ++ V V + ++VDG+ ++ Sbjct: 136 DHDGVRLQKLLAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVDPSKVTVQVDGMTVQ 195 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 ++ ++KP G+V+T DP+GR + D L 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V + GKNR ++++F+ + V RL+R+ GP ++G+ G+ R +SK + Sbjct: 316 LVEVTIHSGKNRIVRRLFDAVGYPVERLVRVEMGPIRIGSQKQGTVRNLSKVEI 369 >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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 105/233 (45%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++ V VNG +++ V D + V+G + + Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVNGEKVAYQQYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDRSQKTVLSLLKPKDRYKDIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ + YR + G D++ + + G+ + G ++ + Q + + 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|317402968|gb|EFV83508.1| pseudouridine synthase [Achromobacter xylosoxidans C54] Length = 469 Score = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 83/353 (23%), Positives = 130/353 (36%), Gaps = 11/353 (3%) Query: 1 MKDK--NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ + + ++ KV+A AGI SRRE+E +I RV VNG V D Sbjct: 98 MEQRLGKYLNSEAVMPKLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPND 156 Query: 59 HIEVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + V+G P+ K + + +V+ S + +SVGRL Sbjct: 157 QVRVNGKPIMRANTKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRL 216 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NTEGLL+ T G +A + P R Y VR G++D+ + L GI ++ Sbjct: 217 DLNTEGLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGVAAF 276 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + GSN W V L+EG+NRE++++FE V+RLIR +G L +L G Sbjct: 277 GALDYLGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDVVLPRSLRRGRW 336 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 E+ ++ + L S+ + + Sbjct: 337 EELDASLVTALMVQLGLLREDDESGGNRRRSKQPQSHDSALPPGFGTMDRNGMNGARIGR 396 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKG---IHSSFLSDSGQREENHRRSPSFPS 343 Q A + + G E N R P+ Sbjct: 397 RGKIQGGRAGSAGQAAACPSDPFGTGLMIAGGYANGHPLAGEANGNRKGGKPA 449 >gi|295090937|emb|CBK77044.1| ribosomal large subunit pseudouridine synthase F [Clostridium cf. saccharolyticum K10] Length = 271 Score = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 66/272 (24%), Positives = 119/272 (43%), Gaps = 6/272 (2%) 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 + VGRLD ++EGL+L+TN Sbjct: 65 ISGKDRPVVLLVNKPRGIVCTTSDRDRAENIVDFIGYPLRV-YPVGRLDKDSEGLILMTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G L + + Y V ++ + LN ++KG+ I V +K Sbjct: 124 QGELVNRILKGRYGHEKEYLVSVDREITEQFLNRMRKGVKILDTVTRPCTV----EKTGE 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E ++V L R+ +L L G RE+++ +E Sbjct: 180 KSFRIILTQGLNRQIRRMCEALGYRVRTLKRVRIMNLRLDGLKTGEYREITRGEWKELTE 239 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 + + D + + R Sbjct: 240 LLEGKGERRKADQKNAEKHSELGQREPEKGGR 271 >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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 62/227 (27%), Positives = 107/227 (47%), 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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRINHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I +VT S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVTQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKE 220 >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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 68/231 (29%), Positives = 129/231 (55%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 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 + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFMLNKPLEVLSSSSDDRGRKTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 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|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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 87/341 (25%), Positives = 135/341 (39%), Gaps = 10/341 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +ARAG+ SRR E ++ RV VNG + + D I VDG + Sbjct: 2 ERLHKFLARAGVDSRRACEELMLAGRVSVNGRVQRELGTQIDPDKDDIRVDGEQITPPTE 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP ++TT DP+G +L +R+ VGRLD ++EGLLLLT+DG L Sbjct: 62 LHYVLLHKPSSVMTTLHDPEG-RQTVADLVKSHNRLFPVGRLDYDSEGLLLLTDDGDLTF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y+ + ++L + G+ + + L + WV V Sbjct: 121 RLTHPSFEVEKEYQALLNQTPSVEQLREWRNGVELDDGKTAPAWIELLNETADGTWVRVV 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+NR+I++V E +V RLIR+ GP LG L AG R ++ + + Sbjct: 181 IHEGRNRQIRRVAEALGLEVRRLIRLREGPLTLGELQAGQWRALTPTEIDRLRMHGKQSK 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP-------- 304 A + + R + I R + Sbjct: 241 AWTPVRPQENAEGGKPRRQVRRIDRSGQLVERRADVEPRLQRAPHFTSQENTMSFEDFSI 300 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 R+ + SD G R + S +R Sbjct: 301 EEERSTDRPRRRPEPRREGGFSDRGPRRDGGSPSDDRGPRR 341 >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 = 169 bits (427), Expect = 6e-40, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 103/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 VL P + Y+ + G + Q+ + KGI ++ ++ + + + + + Sbjct: 121 VLLSPKRHVDKTYQAQVKGIMTQEDVETFIKGIPLKDFTCQPARLEILSTDAEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >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 = 169 bits (427), Expect = 6e-40, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 106/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + V VNG + + + + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAGKALKSGLVTVNGKIEKSGSAKISETDEICYEGECLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEYPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ + L +GI+++G Q+ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYVEKLAEGILLRGEREPCLPAQMEII----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDESLEEGEYRLLTEQEI 227 >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 = 169 bits (427), Expect = 6e-40, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 108/230 (46%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A G +R++V+ ++ + V VN ++ A + + D + V G + + Sbjct: 1 MRLDKFLAHNGFGTRKDVKILVKKGMVTVNHDVVRDAGMVLNLEKDEVFVKGESVSYQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + +P+ +V + + S ++ VGRLD +TEGLLL+TNDG + Sbjct: 61 IYFMMNKPAGYI--CEHNPEMYPSVLELIESYHRDLVFVGRLDADTEGLLLITNDGQFSH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V D L+KG+++ QV + ++ + + Sbjct: 119 RVAHSKSNVHKQYYVELDKPFDLRFCEELEKGMMLGDELLKPAQVEVVGERA----IHLT 174 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++ + +V L RI G +L +L G+ R++S++ + Sbjct: 175 IGEGKYHQVKRMMHACDNEVTYLKRIKIGALELDSSLQPGAYRDLSEEEI 224 >gi|319949182|ref|ZP_08023271.1| pseudouridylate synthase [Dietzia cinnamea P4] gi|319437168|gb|EFV92199.1| pseudouridylate synthase [Dietzia cinnamea P4] Length = 252 Score = 169 bits (427), Expect = 6e-40, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 120/238 (50%), Gaps = 4/238 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 P R+ K++A+AG+ASRR E +IA+ RV+V+G ++ V V T I VDG + + Sbjct: 11 PVRLQKILAQAGVASRRASEDLIARGRVEVDGKIVREMGVKVDPATAVIRVDGTRIVLDD 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDG 128 +KP G TT SD GR V D + R+ VGRLD +TEGLLL+TNDG Sbjct: 71 TLVHLALNKPRGYHTTMSDEMGRPCVGDLVADRIDAGQRLFHVGRLDADTEGLLLVTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + + Y G V + L++G+ ++ Q +L + Sbjct: 131 ELAHRLMHPSYEVSKTYMATVTGVVGKGIGKQLREGVELEDGPAKVDQFSLLDVHDGRSL 190 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V V L EG+ ++++ V L+R +G LG AG+ R+++++ + + Sbjct: 191 VKVVLHEGRKHIVRRLLAEVGHPVESLVRTRFGSVALGDQRAGTFRKLNRREVSDLYE 248 >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 = 169 bits (427), Expect = 6e-40, Method: Composition-based stats. Identities = 83/307 (27%), Positives = 133/307 (43%), Gaps = 10/307 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV V+G + V I VDG ++ Sbjct: 2 SEKLQKVLARAGHGSRREMEALITAGRVSVDGKVAT-LGDRVEVNAVIRVDGHQIKTRAA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + T H + +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-TLLAGSTREVSKKI---LRE 243 W V L EG+NRE+++++E +V+RL+RI YG QL + G +E+ LR Sbjct: 181 WFNVTLTEGRNREVRRLWESQEVQVSRLMRIRYGDVQLDRGIPRGGWQELKLPEVNYLRG 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + E++V+L +S + + + + + K Sbjct: 241 LVNLPNETESKVDLQQDGKTSRHKQAAQIRRAVKRHKEMQGKEPRARATTARRKPTSSTR 300 Query: 304 PVHRRNL 310 + Sbjct: 301 NSGTGSK 307 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 60/293 (20%), Positives = 115/293 (39%), Gaps = 5/293 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYIEQGNVFINGKRAAV-GDQVYVGNVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + + +G S + + RV +GRLD +++GL+LLTN G Sbjct: 62 RDENDLVLIALNKPVGIISTTEEGESDNIVDFVNHSKRVFPIGRLDKDSQGLILLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + V + + L G+ + G +K + Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFIVGLAAGVPMMGTV----TKKCKVKKIAPFVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L L G R++ L E Sbjct: 178 NITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVTLKGLPQGEWRDLLDDELIELFKLIE 237 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + V+ + + + + + ++KK Sbjct: 238 NSSSDEKPVKKTQAKPVAVKKPSTSGPKKAEKSDGISASRKRFAQPGRKKKGR 290 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 101/230 (43%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K +A AG+ASRR+ + +I V VNG V V D +EV G + ++ Sbjct: 4 VRLNKFLASAGVASRRKCDEIIFAGSVTVNGRAATGPFVTVDEEFDSVEVGGQRIGAEKK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ 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 + + + Sbjct: 124 RVIHPSFGITKEYLLKVSRDVTARDLETLMAGTVIDGKVVRPVSVKKVRRG----TIKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK EI+ E ++ L RI G LG L G RE++ L Sbjct: 180 VNEGKKHEIRLFAEAAGLQLLELKRIRIGSLVLGGLPYGKYRELTDSELD 229 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 53/229 (23%), Positives = 99/229 (43%), 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 MRLDKYLCDALGATRREATRIIKSGDVTVNDVVQKSGSVKVTDGCTVEWQGRELQKPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGFVCSHEDGFNQ-TAFMLLDEVKIEELHFAGRLDVDTTGLVLITDDGKWSHR 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|332365597|gb|EGJ43357.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1059] Length = 242 Score = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 102/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++ + + V VNG + + T D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQFLKKGLVLVNGRAEKSPKTQIDETADEIAVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKAFTCQPAQLKILELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTNLQRLTMGPLQLDPALALGEWRRLTTDELE 233 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 65/229 (28%), Positives = 110/229 (48%), Gaps = 6/229 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ K++AR G+ SR+EV R++ +V+V G ++ A +V +EVDG PL Sbjct: 2 RGERLDKLLARLGLGSRKEVARLVRSGQVQVEGQVVRDPAFHVPPGARLEVDGEPLVLRC 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ + + P + + S VGRLD +TEGLLL T DG L Sbjct: 62 HHHILLHKPAGYVTSRREGPSVYALLEGFPTRDLS---PVGRLDKDTEGLLLFTTDGELL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y V ++ ++G+V++G +++ V + Sbjct: 119 HRLTHPRHKVEKRYLVHLERPATREDQEAFREGLVLEGTRLLPAELSW---DQDPTRVEL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 LREG+ ++K++F+ +V L R+S GP LG L G R +S++ Sbjct: 176 VLREGRFHQVKRMFQARGNRVLYLKRLSLGPLTLGDLPVGQARYLSQEE 224 >gi|295093016|emb|CBK82107.1| ribosomal small subunit pseudouridine synthase A [Coprococcus sp. ART55/1] Length = 241 Score = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 107/233 (45%), Gaps = 6/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + GI SR +V++ + + V VNG ++ + V + D I+ +G L + Sbjct: 1 MRLDKFLVEMGIGSRSQVKQYVKKGTVTVNGAPVKSSDVKIDENNDTIKYNGRILNYSRY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + D ++ + + VGRLDI+TEGLLLLTNDG L Sbjct: 61 RYFLLNKPAGCV-SATKDNVHQTVIDLLKGENTKDLSPVGRLDIDTEGLLLLTNDGALTH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKG--SNAWV 189 L P+ + Y G V D +NL G+ I + + + + + + Sbjct: 120 HLLSPAHHIPKTYYAEIDGYVTDDTINLFATGVDIGDEKPTLPADLRILSSDSTAARSEI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EG+ ++K++FE KV L RI+ G ++ L G+ R +S++ + Sbjct: 180 ELIITEGRFHQVKRMFEAVGMKVTFLRRIAMGELKIDESLPTGAYRSLSEEEV 232 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 63/227 (27%), Positives = 108/227 (47%), Gaps = 7/227 (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 +L + R+ VGRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKAV--KGNIIDLVNHPLRINHVGRLDKDSDGLILLTNDGDIINE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPEFLKEMAAGVKILGTKTLPCEITQL----SKYEFQIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V L R QL L G R+++KK Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIQLNNLPVGQWRDLTKKE 220 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 110/231 (47%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + +V+VNG +++ ++ D I VDG + ++ Sbjct: 1 MRLDKYLANMGVGTRSEVKQLLKKNKVQVNGKNEKQSKAHINPDTDEITVDGNLIEYVDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D + + V ++ VGR+ +TEGL+LLTNDG Sbjct: 61 VYIMLNKPAGYI-SATEDEEQSTIVSLIKDFQHMKIFPVGRVGKDTEGLILLTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ ++YRV + D + +G+ + Q + + V Sbjct: 120 DIMSPNKHVSKIYRVEAKNPITDDDIKQFAEGVELSDGKTKPAQ---LERTENEKVAFVS 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +REG+ ++K++F + +V L R+ G +L L GS RE++++ + Sbjct: 177 IREGRYHQVKRMFHAIDNEVLNLKRVQIGKLKLDSNLPKGSYRELTQEEIE 227 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 66/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G +VT S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEVTQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKR 225 >gi|327396520|dbj|BAK13941.1| ribosomal large subunit pseudouridine synthase F [Pantoea ananatis AJ13355] Length = 290 Score = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 57/299 (19%), Positives = 114/299 (38%), Gaps = 11/299 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R I Q V +NG V + D ++V+G + Sbjct: 3 TQSSTRLNKYISESGICSRRDADRFIEQGNVFINGKRAAV-GAQVFAGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + +G + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDEDDLVLIALNKPTGIITTMEEGERDNISDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V V + + + G+ + G +K + Sbjct: 122 LVNKILRAGNNHEKEYVVTVDKPVTDEFIAGMASGVPMLGTV----TKKCKVKKEAPYVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ + F ++V +L R L + G R+++ E Sbjct: 178 RITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLKGIPLGEWRDLTDDERVELFKL-- 235 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 N + ++ + P + + +K+ + + + R Sbjct: 236 ----LENSSSEDKPAKKTPQKSPAAKKPAKNAVKQGEKSEDKPASRKRFTQPGRKKKGR 290 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 60/236 (25%), Positives = 109/236 (46%), Gaps = 7/236 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P Q + Y V V+ + ++GI+++G ++ + + V + Sbjct: 121 ITSPKHQCEKTYLVTLADPVENHYASACEEGILLRGEKEPTKPAKLEVL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G +L L G R ++++ + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVALHRWRIGNVELDESLEEGEFRPLTQEEIDNLVK 232 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P ++Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKIYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVI----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNCVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 103/228 (45%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP ++ D ++ + + +VGRLD +TEGLLL+TNDG Sbjct: 61 -VYIMLNKPKDYISATEDHHSKTVIDLIPEYQHLNIFTVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + +D + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 64/226 (28%), Positives = 108/226 (47%), Gaps = 7/226 (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 +L + RV VGRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRVNHVGRLDKDSDGLILLTNDGDIINEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLKQMAAGVKILGTKTLPCEITQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V L R QL L G R+++KK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIQLNNLPVGQWRDLTKKE 223 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 81/316 (25%), Positives = 134/316 (42%), Gaps = 5/316 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 +++ KV+AR+G+ SRRE+ER I Q+RV ++G V++ IEVDG PL Sbjct: 18 DGEKLQKVLARSGLGSRREMERWIEQERVTIDGKAAR-LGDRVVAAQRIEVDGRPLVASD 76 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L + + + R+ 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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L EG+NRE+++++E V+RL R+ YG + + G +E++ + Sbjct: 197 YYVVLMEGRNREVRRLWESQGLTVSRLKRVRYGDLFVPSKVKKGQWQELAPNEINGLYRM 256 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 ++ V + S+ + + + + S++ + Sbjct: 257 AGMQAKDVEPPSREDRSKHKRMEGKRGRVRGNRHAKSARDKTGAPDKGSRKPSRSRKPGS 316 Query: 308 RNLASNVWMAKGIHSS 323 S KG + Sbjct: 317 GKRESAPVKNKGRSRA 332 >gi|324989740|gb|EGC21683.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK353] Length = 242 Score = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 99/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V++++ + V VNG + + D I V G L + Sbjct: 1 MRLDKFLTENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDEAADDIVVSGQRLIYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDHHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQADVERFAAGIELKDFTCQPAHLKILELDEEKEASLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL L G R ++ L Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDPALALGEWRRLTADELE 233 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 62/251 (24%), Positives = 113/251 (45%), Gaps = 13/251 (5%) 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 R+ GRLD +EGLL++T+DG L Sbjct: 60 TVLAVHKPAGIVCTEDKRV--KNNIIRFLKYPERITYAGRLDKESEGLLIMTDDGELING 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQKGSNA 187 + + Y+V + V ++ +N + G+ + +V ++ Sbjct: 118 MMRSRYGHEKEYKVWVNKPVTEEFVNRMSSGVRLVDKEKGLDEVTRPCEV----RQCGTY 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 T+ L +G NR+I+++ E +KV RL+RI +LG L G+ R+++++ L E Sbjct: 174 IFTIILTQGLNRQIRRMCEALGYKVKRLVRIRIMNIELGNLKPGAYRKLTEQELNELYEQ 233 Query: 248 HLLEEAQVNLD 258 + Sbjct: 234 TEKGKNAGTGR 244 >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 = 169 bits (427), Expect = 7e-40, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 99/230 (43%), Gaps = 7/230 (3%) 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 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTVG 192 P + Y V V D KG+ + + + + V + Sbjct: 125 TSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K+ F V L R G L L G R ++++ + Sbjct: 181 ISEGRYHQVKRXFAAVGNHVVELHRERIGGITLDADLAPGEYRPLTEEEI 230 >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 = 169 bits (427), Expect = 8e-40, 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|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 = 169 bits (427), Expect = 8e-40, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEKIDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLL NDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLANDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 VL P + Y + G + Q+ + +GI ++ ++ + + + + Sbjct: 121 VLLSPKRHVDKTYLAQVKGIMTQEDVETFAEGIPLKDFTCQPAILELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVGYCGKEVVDLQRLTMGTLVLDENLERGEWRRLTKEELE 233 >gi|332359298|gb|EGJ37119.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK49] Length = 242 Score = 169 bits (427), Expect = 8e-40, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 105/233 (45%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQLLKKGLVLVNGRAEKSPKTQIDERADEIVVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + P ++YR + G ++Q + GI ++ Q+ + ++ ++ V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMEQADVERFAAGIELKDFTCQPAQLKILELDEEKESSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL TL G R ++ L Sbjct: 181 ITLAEGKFHQVKRMVAACRKEVTDLQRLTMGPLQLDPTLALGEWRRLTTDELE 233 >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 = 169 bits (427), Expect = 8e-40, Method: Composition-based stats. Identities = 89/321 (27%), Positives = 131/321 (40%), Gaps = 9/321 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKSGRVSVNGIVAKLGERLEDEQAVVRIDGHVVSVKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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-TLLAGSTREVSKKILREQLGP 247 V + EG+NRE+++++E + V+RL R+ YG L L G E+ L++ Sbjct: 183 FYVVINEGRNREVRRLWESQDCTVSRLKRVRYGDIYLDKKLPRGGWMEL---ELKDVNYL 239 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L E + + I + + + ++ R ++ S G S P Sbjct: 240 RELVELRPEKETMIELNNSSRKRDRARSQKIRRAVKRHEERVSTPKGRSNNAARRKPSKA 299 Query: 308 RNLASNVWMAKGIHSSFLSDS 328 + S Sbjct: 300 DGQTNKTNSRNQAGSRSKPQR 320 >gi|229161332|ref|ZP_04289317.1| Pseudouridine synthase [Bacillus cereus R309803] gi|228622146|gb|EEK78987.1| Pseudouridine synthase [Bacillus cereus R309803] Length = 238 Score = 169 bits (427), Expect = 8e-40, Method: Composition-based stats. Identities = 65/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFNIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R++SKK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKEKR 225 >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 = 169 bits (427), Expect = 8e-40, Method: Composition-based stats. Identities = 69/229 (30%), Positives = 106/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + GI SR+EV+++I+ + VNG+ A N+ D IE +G L E Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNGEITVNGMSYILAKDNIDENSDTIEYNGERLEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDFKEDTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY V + + + L++G+ I +V +K S+ + + Sbjct: 121 KLLSPKNHIDKVYYVEIEKNILDEDILKLEQGVDIGNYITQPAKV----EKISDNKIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E N KV L R S+G L L G +EVS + + Sbjct: 177 IKEGKFHQVKKMLEAVNNKVCYLRRESFGKLTLNDLTLGEVKEVSLEDI 225 >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 = 168 bits (426), Expect = 8e-40, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 L P + Y + G + Q+ + KGI ++ ++ + + + + Sbjct: 121 ALLSPKRHVDKTYLAQVKGIMTQEDVETFAKGISLKDFTCQPAILELVSIDPEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVTYCGKEVVDLQRLTMGTLVLDESLQRGEWRRLTKEELE 233 >gi|294340472|emb|CAZ88853.1| putative Pseudouridine synthase [Thiomonas sp. 3As] Length = 562 Score = 168 bits (426), Expect = 8e-40, Method: Composition-based stats. Identities = 85/347 (24%), Positives = 143/347 (41%), 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 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G ++ A+ L + +V+ + ++ +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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 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 + + N D + + G +Q Sbjct: 404 SLVQALQGRSGEAPSGA------GDRPARRPNGQNQGGRRNDSRGSGRGGRGKGQGGDQQ 457 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + R + + + + S S G + P S+R Sbjct: 458 QPGPDSYARTTVEALFGKSPVVRSGGGSWGGAGNFSTGNKPGGQSRR 504 >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 = 168 bits (426), Expect = 8e-40, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVI----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 168 bits (426), Expect = 8e-40, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 105/229 (45%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G L E +NV ++ I V G ++++ Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVETSLQKITVSGKQVKQSSE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + ++ VGRLD +TEGLLL+TN+G L Sbjct: 61 KYFLLNKPAGVVSAVSDKEHQTVIDLIKESDRVPQLYPVGRLDRSTEGLLLITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+ ++ + T + V Sbjct: 121 RMLHPKYHVAKTYYVEVNAFLADDAPAFFENGVSFDDGTICKPAKLEIITASTEESSAYV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK +IKK+F + KV L R+++G FQLG L +G RE++ Sbjct: 181 TISEGKFHQIKKMFLAYGVKVTYLKRLTFGEFQLGDLPSGQYRELTSTE 229 >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 = 168 bits (426), Expect = 8e-40, Method: Composition-based stats. Identities = 82/306 (26%), Positives = 131/306 (42%), Gaps = 7/306 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV V+G + V I VDG ++ Sbjct: 2 SEKLQKVLARAGHGSRREMEALITAGRVSVDGKVAT-LGDRVEVNAVIRVDGHQVKTRAA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + T H + +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-TLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL+RI YG +L + G +E+ + G Sbjct: 181 WFNVTLTEGRNREVRRLWESQEVQVSRLMRIRYGDVKLDRGIPRGGWQELKLPEVNYLRG 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L + +T + I M+ + + ++K Sbjct: 241 LVNLPPETESKVDLQQDGKTSRHKQAAQIRRAVQRHKEMQGKEPRARATTARRKPQASTR 300 Query: 307 RRNLAS 312 S Sbjct: 301 NSGTGS 306 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 49/230 (21%), Positives = 96/230 (41%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I V V+G + + + V +E DG + Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGEVLVDGEVQKSGSFKVPEGGVVEWDGREVGAPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGYNP-TAFVLLDEPKVENLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ + V + + Sbjct: 120 ITSPKHKCKKTYRVWLADAIQPDYVEKFAQGIELRNEREATLPAHLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 EGK ++K++F KV L R G L L G R ++++ + Sbjct: 180 VEGKYHQVKRMFAALGNKVELLHRERIGDIVLDDTLEPGDYRYLTQEEVD 229 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 93/300 (31%), Positives = 137/300 (45%), Gaps = 6/300 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 + R++K +A AG+ SRR + +IA RV VNG ++ A + + D + VDG P+ Sbjct: 4 TDSRLTRINKALASAGVCSRRHADDLIAAGRVTVNGAVVTEAGLRIDPARDALAVDGAPV 63 Query: 68 R-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLL 124 E HK G+VTT SDP+GR TVFD LP R+ VGRLD +EGLLLL Sbjct: 64 NLAPEIPITLALHKKPGVVTTASDPEGRPTVFDGLPEVWRGKRLFPVGRLDFFSEGLLLL 123 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLDTQ 182 T DG LA L P + YRV GQV D L + +G+ + +G ++ Sbjct: 124 TTDGELALRLTHPRWHVPKRYRVTVRGQVTPDMLGTMARGMRLAEGERLAPVAARVVEGP 183 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + + L +G NR+I+++ V RL R+S GP LG L G+ RE++ L Sbjct: 184 AQDRSILEMELHQGVNRQIRRMCRDLGLTVLRLARVSQGPVALGDLPLGACRELTPAELA 243 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L++A V P + P + + G ++ Sbjct: 244 TLRQSVGLDDADVAPAPPRPRPTAEGDTKRPPRPARPPQAGGKRPATKASGGETETGPRR 303 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 71/231 (30%), Positives = 116/231 (50%), Gaps = 4/231 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + T QR+SKV+A AG+ASRR E +I V VNG + V D I G + K Sbjct: 29 DKTKQRLSKVMAAAGVASRRACEMLIFDGCVTVNGEVTLVPQTLVDENDVITCKGQSVGK 88 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + ++ +KPIG + ++ V D ++ R+ +VGRLD +T GL+++TNDG Sbjct: 89 KQNKVYYILNKPIGYICSNKRNKDSKIVLDLFDTVEERLFTVGRLDKDTSGLIIVTNDGH 148 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + PS + Y V+ + +V+ + L+ L G +++ ++V+ + + Sbjct: 149 FANRVIHPSANIHKEYLVKTNEEVEAEHLSALSSGTLVEKTFVRPIRVSKVRRG----TL 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + EGK REI+ + E V L RI G LG L G RE++ + Sbjct: 205 KITIAEGKKREIRLLMESAKLPVLELTRIRIGGLHLGPLQPGEWREMTARE 255 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 94/237 (39%), Gaps = 7/237 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRK 69 R+ K ++ +R +V+ I + RV NG++++ V D I +DG P+ Sbjct: 2 SKTIRLDKYLSDMTSETRSKVKEYIRKGRVTANGVVIKSPETKVDTDNDEICIDGKPVGY 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----SVGRLDINTEGLLLLT 125 E + + +T VGRLD +TEGLLL+T Sbjct: 62 VEYYYYMMNKPQGVITSTEKGRTKTVMDVFKETGTGCPRFNELSPVGRLDKDTEGLLLIT 121 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L L P +VY V + + G+ + ++ + Sbjct: 122 NDGELNHKLLSPKNHVDKVYYAELKSPVKVSDIEIFAGGLDLGDFICKPARLEI-CDDVK 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EGK ++K++FE +V L R+S G +L L G R ++++ + Sbjct: 181 KFAAKITISEGKFHQVKRMFEAVENEVIYLKRLSMGSLKLDDNLELGEVRALTEEEI 237 >gi|291618129|ref|YP_003520871.1| RsuA [Pantoea ananatis LMG 20103] gi|291153159|gb|ADD77743.1| RsuA [Pantoea ananatis LMG 20103] Length = 239 Score = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV V D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYRVTLEAPVSDDTAAQFSAGVQLHNEKSLTKPAQLEVI----TPTEVLL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVVGLHRERIGEIVLDEALEPGEYRPLTEEEI 227 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 85/347 (24%), Positives = 143/347 (41%), 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 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G ++ A+ L + +V+ + ++ +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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 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 + + N D + + G +Q Sbjct: 401 SLVQALQGRSGEAPSGA------GDRPARRPNGQNQGGRRNDSRGSGRGGRGKGQGGDQQ 454 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 + R + + + + S S G + P S+R Sbjct: 455 QPGPDSYARTTVEALFGKSPVVRSGGGSWGGAGNFSTGNKPGGQSRR 501 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 74/260 (28%), Positives = 112/260 (43%), Gaps = 13/260 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR- 68 + +R+ K++A+ GIASRR+ E+MI RV +NG D I+VDG L+ Sbjct: 2 DSGERLQKILAQWGIASRRQAEQMILDGRVWLNGEPAT-LGQKADPHCDRIQVDGRTLQS 60 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-RVISVGRLDINTEGLLLLTN 126 + + L LY + T + + P + + VGRLD T G LL+TN Sbjct: 61 DRPDLLYLLLYKPTGVISTCSDPQGRPTILDLLPPHYRNLGLHPVGRLDSETTGALLITN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L L P Q +VY+V G + L + G+++ G QV L + Sbjct: 121 DGWLTHALTHPCHQVSKVYQVWVSGHPPESVLQQWRDGVMLAGRLTLPAQVRLLERTEIP 180 Query: 187 A---WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSK 238 + + V L EG+NR+I++V + + V L R GP QL TL G R ++ Sbjct: 181 SALTCLEVILWEGRNRQIRRVAKKLGYPVVHLHRTGIGPVQLQATDQPTLAKGHYRHLTP 240 Query: 239 KILREQLGPHLLEEAQVNLD 258 L + Sbjct: 241 GELEALREQVGILSIAAPAR 260 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 105/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V +D +G+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVAEDTAEQFARGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G +L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGAIKLDDDLEPGEYRPLTEEEI 227 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 117/229 (51%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA G SRR+ + +I + RV VN ++V D + +DG ++ R Sbjct: 1 MRLNKFIAETGFCSRRKADELINEGRVTVN-KHEAIIGMDVKPEDVVRIDGERVKLNTRY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP ++ ++ D GR D + S +R+ + GRLD TEGL++++NDG + Sbjct: 60 EYYILNKPKRVLCSNEDKFGRRLAVDFIKS-RARLFTYGRLDFMTEGLIIISNDGEVYNH 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y + +++ + L+ G+VI G +V +K + + + Sbjct: 119 VMHPRKKLYKSYIAKVSREIEDKDIEALQHGVVIDGKRTAPAKV----KKIDKKELRIAI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+K+ E + VN L RI G LG L G R +++ ++ Sbjct: 175 FEGRNRQIRKMLETLGYNVNSLKRIKVGELTLGNLQVGEYRALNEDEIK 223 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 109/236 (46%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K ++ SR + + + Q VKVN L++ A+ V D +E DG L Sbjct: 3 QRLDKFLSEYTGLSRSQATKALRQNLVKVNQQLVKDGALKVSPEDVVEFDGETLEWVSGN 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +L +KP G V +H D + + + SR+ + GRLD++T GL+LLT+DG + Sbjct: 63 QYFLLYKPEGYVCSHDDGEYPTVYQFFDYPLSSRLHTAGRLDVDTTGLVLLTDDGQWSHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + Y V V+ L +GI+++G Q+ + + + + Sbjct: 123 ITSPKYHYKKTYLVTLAAPVEDFYLEQCAQGILLRGEKQPTKPAQIEII----DDYNLNL 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++K++F KV L R G L L G R ++ ++ L Sbjct: 179 TIVEGKYHQVKRMFAALGNKVIALHRWRIGQIILDPQLEEGQYRALTDAEVQSFLK 234 >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 = 168 bits (426), Expect = 9e-40, 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 TRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++KP G++T + D R V D + R+ VGRLD NTEGLL++TNDG L Sbjct: 61 FVYIAFNKPQGVLTAMERAPGDKRPIVADYFRNYPVRLFPVGRLDYNTEGLLIMTNDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-----YGDMQVTLDT--QK 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|310768104|gb|ADP13054.1| 16S rRNA pseudouridylate synthase A [Erwinia sp. Ejp617] Length = 234 Score = 168 bits (426), Expect = 9e-40, 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|304403869|ref|ZP_07385531.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] gi|304346847|gb|EFM12679.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] Length = 260 Score = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 59/242 (24%), Positives = 108/242 (44%), Gaps = 9/242 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 R+ K++A G +R E+++ + Q +V V+G +++ + + + + G + Sbjct: 11 TDKRMRLDKLLANMGYGTRSEIKKAVKQGKVTVDGRVVKDSGLQIKPNEQQVAFSGELVV 70 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L L+ P + T D + + VGRLD +TEGLLLLTNDG Sbjct: 71 YRDVVYLMLHKPPGVVSATEDSRDETVIDLLDADDRILQPFPVGRLDKDTEGLLLLTNDG 130 Query: 129 GLARVLELPSTQWLRVYRVRF--HGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS 185 LA L P + Y R V Q G+ + ++ ++ + S Sbjct: 131 QLAHDLLSPRKHVPKTYFARVLGEEPVGQADRERFAAGVELDDGYVTMPAELEVEQAEQS 190 Query: 186 N----AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + + + + ++EGK +IK++F+ +V L R+S GP L L G+ RE+++ Sbjct: 191 DDGWVSLIRITIQEGKFHQIKRMFQAVGKQVIYLKRLSMGPLHLDETLPIGAYRELTEDE 250 Query: 241 LR 242 + Sbjct: 251 IE 252 >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 = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 142/324 (43%), Positives = 194/324 (59%), Gaps = 3/324 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R++KV++RAG+ SRR+ E + Q RV VNG ++ A++V + D I VDG PL ER Sbjct: 422 GERIAKVVSRAGLCSRRDAEEWVTQGRVAVNGRIINSPALDVTTRDVITVDGKPLPLPER 481 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL++YHKP GL+TTH+DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 482 TRLFMYHKPRGLMTTHADPEGRPTVFDHLPDGLPRLISIGRLDFNTEGLLLLTNDGGLAR 541 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELP T WLR YRVR HG+V Q +L+ LKKG+ + G+ YG + TL+ +G+N W+ Sbjct: 542 TLELPDTGWLRRYRVRAHGEVTQGQLDELKKGVEVDGVKYGSIDATLERDQGANVWLVFA 601 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +REGKNRE++ V +VNRLIR+SYGPFQLG L G EV ++LREQLG + Sbjct: 602 IREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLGELEEGQVEEVKTRVLREQLGEKIAAA 661 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + + I S + D + V + R + + Q+ + RN A Sbjct: 662 SGADFARQIPSKGDVDLDPVVVKKPV---YKRGTVEDRKGRRVLVQRTGSEEARARNEAE 718 Query: 313 NVWMAKGIHSSFLSDSGQREENHR 336 + + + Sbjct: 719 ANGYGPPRRPTRGYKGKRDLKPRD 742 >gi|330966753|gb|EGH67013.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. actinidiae str. M302091] Length = 408 Score = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 92/371 (24%), Positives = 143/371 (38%), 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 KDKQDSQEIGPAGEKLQKVLARIGVGSRRDVEAWITQSRIKVNGKDAT-LGQRVDLHDAI 62 Query: 61 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDTQ-KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIKQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILR------------EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 RE+S+ + + ++ L + Sbjct: 243 REMSQYEVDILSAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVVRTLRPAAGA 302 Query: 282 FTRMKKNSSQKN-------GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + Q P + + + +S + +R + Sbjct: 303 PATGDRTPRQPQITGSERDRPRGGDSTQRPARKDSGKPGSRAPRPADNSRGTPVAERPSD 362 Query: 335 HRRSPSFPSKR 345 + P+ P + Sbjct: 363 MNKRPAKPGPK 373 Score = 39.4 bits (90), Expect = 0.91, Method: Composition-based stats. Identities = 18/100 (18%), Positives = 27/100 (27%), Gaps = 2/100 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R P + + + +D S P + + K+ Sbjct: 308 RTPRQPQITGSERDRPRGGDSTQRPARKDSGKPGSRAPRPADNSRGTPVAERPSDMNKRP 367 Query: 302 ATPVHRRNLAS--NVWMAKGIHSSFLSDSGQREENHRRSP 339 A P +R N G + SGQR RR P Sbjct: 368 AKPGPKRVGIKLVNDDAPSGKRRGPPAGSGQRPGFGRRKP 407 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 110/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G +R E++++I RV V+G +++ + + T + ++G + A++ Sbjct: 2 MRIDKYLAEMGQGTRSEIKKLIRSGRVMVDGETVKKPELKIDETTQKVSLEGKQIGYAKK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY +++ D ++ + + + VGRLD +TEGLLL+TNDG LA Sbjct: 62 EYYMLYKPAG-VISATKDDRDKTVLDLITDKKRNDLFPVGRLDKDTEGLLLITNDGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + G+VD+ + G+ I + G + + + Sbjct: 121 RLLSPKKHVDKVYYAKVQGKVDESDVKAFADGVDIGDDTPAKSADLRILKSGEESEIELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EG+ ++K++F +V L R+S G L L G R ++++ ++ Sbjct: 181 ITEGRFHQVKRMFHAVGKEVIYLKRLSMGSLALDKTLTKGEYRSLTEEEIK 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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 109/234 (46%), Gaps = 7/234 (2%) 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 + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITSTTESHI--KGNIVDFVGHNERIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + L + G+ I G +VT S + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPVTESFLRGMAGGVKILGEMTLPCEVTRM----SERVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EGKNR+I+++ F ++V +L RI +LG+ GS R+++ K E Sbjct: 174 TEGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRIGSWRDLNDKEKEELGRL 227 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 59/227 (25%), Positives = 110/227 (48%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA SRR+ + +I ++VK+NG +LE A V D +E+DG + + Sbjct: 1 MRINKFIATKTAYSRRKADELIKDKKVKINGEVLENLAYTVNDDDEVELDGRIISDIKVK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + V + + + V VGRLD ++ GL+++TNDG LA Sbjct: 61 KYYYLFNKPKNVVSTVSDEFGRYCITDFFPPDISVFPVGRLDYDSTGLIIVTNDGDLANK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + Y G++ + ++ + +G+VI + ++ S + + Sbjct: 121 IAHPSHHVKKTYIATLDGRLSEAQMKIFSEGVVIDSKKTLPAE--IELYDFSETQYKISI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EG+NR+I+K+ + V L RIS G +LG ++ G R+++++ Sbjct: 179 YEGRNRQIRKMIDVLGRNVRELKRISIGKIKLGRIVEGKYRKLTEEE 225 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 151/340 (44%), Positives = 203/340 (59%), Gaps = 4/340 (1%) 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 EAQVNLDAPIYSSETLVRDRPNI----ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 A + + P+ E ++P ++ ++++ A P Sbjct: 268 AAGADFNGPLVEREPEEEAPRRPLGLDKRKLPRAAEVADAKAAVSKPARRERRSAEPEID 327 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 V + K + R+ + +R L Sbjct: 328 PERPPRVPLRKRMQDEERKVVKVGTVADRKGRAVKVERKL 367 Score = 35.9 bits (81), Expect = 9.2, Method: Composition-based stats. Identities = 10/99 (10%), Positives = 20/99 (20%) Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + E P + + + G ++ + R Sbjct: 594 DKPRGERRTDKPFGRPEGGRTRREQPAGEGGFEGRAPRGRGGFAKEGASERPARSGFDKP 653 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 S R + + P + RT A Sbjct: 654 RGERSFGKSEGRPPREDRSPGGKPAGKRPGFGAGPRTGA 692 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 131/246 (53%), Positives = 167/246 (67%) 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 Query: 247 PHLLEE 252 Sbjct: 241 RRHAAS 246 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 62/226 (27%), Positives = 107/226 (47%), Gaps = 7/226 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKAV--KGNIIDLVNHPLRINHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + + L + G+ I +VT S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPEFLEKMAAGVKILDTKTLPCEVTQL----SKYEFQIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V L R +L L G R++SKK Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLSKKE 223 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 107/231 (46%), Gaps = 5/231 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 T R++K ++ AGIASRR+ + +I V +NG + + V V D + V G P+ Sbjct: 2 TKVRLNKFLSAAGIASRRKCDEIIFAGEVTINGRVAQGPFVQVDDQHDRVLVRGKPIAST 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ ++ + T+ G V D + RV +VGRLD T GL+L+TNDG Sbjct: 62 KKVYFMVHKPLGFVCTSERKFPGTKLVIDLFSHLPYRVFTVGRLDKETSGLILVTNDGDF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + PS + Y ++ + V + LN L +G +I G + K + Sbjct: 122 ANKIIHPSYGITKEYLLKVNRDVIEKDLNSLMQGTMIDGKRVRP----VAVSKVRRGTIK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EGK EI+ E ++ L RI G LG L G RE++ + Sbjct: 178 IVVNEGKKHEIRLFAEAAGLQILELKRIRIGSLVLGGLRYGEYRELTDAEI 228 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 81/231 (35%), Positives = 120/231 (51%), Gaps = 1/231 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKA 70 R+ KV+A AG+ SRRE E +I Q RV+V+G ++ V V T + 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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L G+NR ++++F+ V RL+R S GP +LG L G TR +++ + Sbjct: 206 VQLHSGRNRIVRRIFDSLGHPVTRLVRTSIGPIKLGDLKQGRTRVLNRTEV 256 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 109/234 (46%), Gaps = 7/234 (2%) 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 + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALNKPVGITSTTESHI--KGNIVDFVGHNERIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + L + G+ I G +VT S + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPVTESFLRGMAGGVKILGEITLPCEVTRM----SERVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EGKNR+I+++ F ++V +L RI +LG+ GS R+++ K E Sbjct: 174 TEGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRIGSWRDLNDKEKEELGRL 227 >gi|313636574|gb|EFS02285.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri FSL S4-171] Length = 233 Score = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 98/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG++ + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKLQVNPEKDQITVHGNPVIYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + + + + V Sbjct: 121 NLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDDGYTCKPAHLEIMAPN----EIRV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V L R+S G L L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAATGKTVTYLKRLSMGKLMLDESLGLGEYRSLTEDEL 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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 97/231 (41%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG++ + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKSQVNPEKDQITVHGNPVIYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + + + + V Sbjct: 121 NLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDDGYTCKPAHLEIMAPN----EIRV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V L R+S G L L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAATGKTVIYLKRLSMGKLMLDESLGLGEYRSLTEDEL 227 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 174/370 (47%), Positives = 226/370 (61%), Gaps = 26/370 (7%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+ Sbjct: 46 DSDAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLDTPVVNVTLADRIEVDGVPI 105 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R ERTRLWLYHKP GLVTT++DP+GRSTVFDNLP RV+S+GRLDINTEGLLLLTND Sbjct: 106 RGIERTRLWLYHKPTGLVTTNADPEGRSTVFDNLPEELPRVMSIGRLDINTEGLLLLTND 165 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP+T WLR YRVR HG++DQD L+ LK GI + G+ YG ++ TLD +GSN Sbjct: 166 GGLARALELPATGWLRRYRVRAHGEIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSNV 225 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+T+GLREGKNREIK V VNRLIRISYGPFQLG L EV + LR+QLGP Sbjct: 226 WITMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPESHVVEVRGRTLRDQLGP 285 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK---------- 297 L+EEA+ N DAPIY++ + + + + ++ LS+ Sbjct: 286 RLIEEAKANFDAPIYNTTAVAAEEEAEPAAPEKRERPRRDEDKRERALSRLDTKRDDRHG 345 Query: 298 ----------------QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 +K + ++NVWMA G + + +N + + Sbjct: 346 GARKEDDRRDGGRRDDEKPKRPQPLGQRRSANVWMAPGARPLGEKAAAKAAKNAQTARRR 405 Query: 342 PSKRSLRRTS 351 + + Sbjct: 406 GEQAPAKNDR 415 Score = 42.5 bits (98), Expect = 0.094, Method: Composition-based stats. Identities = 13/107 (12%), Positives = 22/107 (20%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P + + DRP+ D R + + +P Sbjct: 506 RPRAARSPAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDRKPRADGDERPRAARTSPG 565 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R+ G S + R P R + Sbjct: 566 EGRSERPRSDRPSGDRPSRGDRPFGDKPRGDRRPREDGDERPRAARS 612 Score = 40.2 bits (92), Expect = 0.52, Method: Composition-based stats. Identities = 11/112 (9%), Positives = 22/112 (19%), Gaps = 1/112 (0%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E + + R + D S G S++ + Sbjct: 566 EGRSERPRSDRPSGDRPSRGDRPFGDKPRGDRRPREDGDERPRAARSFAGEGRSERPRGD 625 Query: 303 TPVHRR-NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P R + S G + + + + P Sbjct: 626 KPSGDRPSGDRPRGKGFAAKPSGAKPGGAKSFSGKPKGTKPGGDRPGGDRPA 677 Score = 40.2 bits (92), Expect = 0.56, Method: Composition-based stats. Identities = 13/126 (10%), Positives = 26/126 (20%), Gaps = 6/126 (4%) Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 RE + +R P +E + + DR + D + Sbjct: 427 VREEDGEWIRSSEQPRGKDEGEGFGRKRGFGDRPAREDRGSGDRPARGDRPFGDRPPRGD 486 Query: 293 NGLSKQKKLATPVHR------RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + + R S + G R R + Sbjct: 487 RPFGDKPRGDRKPRADGDERPRAARSPAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGD 546 Query: 347 LRRTSA 352 + + Sbjct: 547 RKPRAD 552 Score = 39.8 bits (91), Expect = 0.61, Method: Composition-based stats. Identities = 18/133 (13%), Positives = 28/133 (21%), Gaps = 12/133 (9%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE R G + D P R E P + Sbjct: 462 REDRGSGDRPARGDRPFGDRPPRGDRPFGDKPRGDRKPRADGDERPRAARSPAGEGRSER 521 Query: 294 GLSKQKKLATPVH------------RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 + P R+ A + +S +R + R S Sbjct: 522 PRGDRPFGDRPSRGDRPFGDKPRGDRKPRADGDERPRAARTSPGEGRSERPRSDRPSGDR 581 Query: 342 PSKRSLRRTSAKK 354 PS+ + Sbjct: 582 PSRGDRPFGDKPR 594 Score = 38.6 bits (88), Expect = 1.4, Method: Composition-based stats. Identities = 12/102 (11%), Positives = 24/102 (23%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + A + +RP D +R + K ++ + Sbjct: 498 KPRADGDERPRAARSPAGEGRSERPRGDRPFGDRPSRGDRPFGDKPRGDRKPRADGDERP 557 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 R ++ + SG R R + R Sbjct: 558 RAARTSPGEGRSERPRSDRPSGDRPSRGDRPFGDKPRGDRRP 599 Score = 38.6 bits (88), Expect = 1.5, Method: Composition-based stats. Identities = 11/103 (10%), Positives = 17/103 (16%) Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + DRP D R + + + R Sbjct: 459 RPAREDRGSGDRPARGDRPFGDRPPRGDRPFGDKPRGDRKPRADGDERPRAARSPAGEGR 518 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 + G S + R P R Sbjct: 519 SERPRGDRPFGDRPSRGDRPFGDKPRGDRKPRADGDERPRAAR 561 Score = 38.6 bits (88), Expect = 1.5, Method: Composition-based stats. Identities = 9/107 (8%), Positives = 17/107 (15%), Gaps = 1/107 (0%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + D P R E P + + P Sbjct: 576 RPSGDRPSRGDRPFGDKPRGDRRPREDGDERPRAARSFAGEGRSERPRGDKPSGDRPSGD 635 Query: 308 RNLASN-VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R G + + + P ++ Sbjct: 636 RPRGKGFAAKPSGAKPGGAKSFSGKPKGTKPGGDRPGGDRPAGGPSR 682 Score = 38.2 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 10/105 (9%), Positives = 24/105 (22%), Gaps = 1/105 (0%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 ++ + + E R + + + + + + + R Sbjct: 538 PFGDKPRGDRKPRADGDERPRAARTSPGEGRSERPRSDRPSGDRPSRGDRPFGDKPRGDR 597 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R + S +R + S PS R Sbjct: 598 RPREDGDERPRAARSFAGEGRSERPRGDKPSGDRPS-GDRPRGKG 641 Score = 38.2 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 17/108 (15%), Positives = 27/108 (25%), Gaps = 1/108 (0%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + A S +RP D +R + K ++ + Sbjct: 548 KPRADGDERPRAARTSPGEGRSERPRSDRPSGDRPSRGDRPFGDKPRGDRRPREDGDERP 607 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSP-SFPSKRSLRRTSAKK 354 R S + SG R R F +K S + K Sbjct: 608 RAARSFAGEGRSERPRGDKPSGDRPSGDRPRGKGFAAKPSGAKPGGAK 655 >gi|312868136|ref|ZP_07728340.1| pseudouridylate synthase [Streptococcus parasanguinis F0405] gi|311096540|gb|EFQ54780.1| pseudouridylate synthase [Streptococcus parasanguinis F0405] Length = 242 Score = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR EV++++ Q+++ VNG + + D + G L Sbjct: 1 MRLDKFLVDCGVGSRTEVKQLLKQKKIAVNGKKETAGKLQIDPDKDQVTFMGEDLVHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPAGVISATEDDHHQTVLDLLDETARHKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVT 190 + P + YR + G +D+ + ++GI ++ ++ + ++++V Sbjct: 121 AMLSPKKHVSKNYRAQVAGIMDEADVARFEEGIALKDFTTLPARLQILEVNEASASSYVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ +V L RIS GP L TL G R + L+ Sbjct: 181 IEIAEGKFHQVKRMVAACGKEVVDLERISMGPLTLDPTLQLGEWRRLHTSELK 233 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 84/355 (23%), Positives = 146/355 (41%), Gaps = 8/355 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ + R + + + + + ++ Sbjct: 412 AQVRRLMSTVGLKAPTEDKGG-KRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPRR 470 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + A S G R+ + R+ S+ + +R + K Sbjct: 471 GRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 524 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++ V VNG +++ V D + VDG + + Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVDGEKVAYQQYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDKSQKTVLSLLKPKDRYKDIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ + YR + G D++ + + G+ + G ++ + Q + + Sbjct: 121 LLAPNKHVTKKYRAKIAGVADEETVKVFASGMTLGDGTKLKPAELKILMQDKESDQSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK +IK++F KV L RIS G L L G +E++ ++ Sbjct: 181 IEIQEGKYHQIKRMFGAVGMKVIELDRISMGKLVLPANLKRGQYQEITLTDIK 233 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 84/355 (23%), Positives = 146/355 (41%), Gaps = 8/355 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ + R + + + + + ++ Sbjct: 412 AQVRRLMSTVGLKAPTEDKGG-KRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPRR 470 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + A S G R+ + R+ S+ + +R + K Sbjct: 471 GRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 524 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 117/229 (51%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA G SRR+ + +I + RV VN ++V D + +DG ++ R Sbjct: 1 MRLNKFIAETGFCSRRKADELINEGRVTVN-KHEAIIGMDVKPEDVVRIDGERVKLNTRY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP ++ ++ D GR D + S +R+ + GRLD TEGL++++NDG + Sbjct: 60 EYYILNKPKRVICSNEDKFGRRLAVDFIKS-RARLFTYGRLDFMTEGLIIISNDGEVYNH 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y + +++ + L+ G+VI G +V +K + + + Sbjct: 119 VMHPRKKLYKSYIAKVSREIEDKDIEALQHGVVIDGKRTAPAKV----KKIDKKELRIAI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+K+ E + VN L RI G LG L G R +++ ++ Sbjct: 175 FEGRNRQIRKMLETLGYNVNSLKRIKVGELTLGNLQVGEYRALNEDEIK 223 >gi|240173130|ref|ZP_04751788.1| ribosomal large subunit pseudouridine synthase B [Mycobacterium kansasii ATCC 12478] Length = 250 Score = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 109/233 (46%), Gaps = 4/233 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ KV+++AGIASRR E+MI RV+V+G L+ V I VDG + E Sbjct: 9 GIRLQKVLSQAGIASRRAAEKMIIDGRVEVDGKLVTELGTRVDPDVSVIRVDGARVVLDE 68 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDG 128 +KP G+ +T +D GR + D + + VGRLD +TEGL+LLTNDG Sbjct: 69 SLVYLALNKPRGMHSTMADDRGRPCIGDLIERKVRGNKNLFHVGRLDADTEGLILLTNDG 128 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + + Y G V + L+ GI + + Sbjct: 129 ELAHRLMHPSHEVPKTYLATVAGTVPRGLGKKLRTGIELDDGLARVDGFAVVDAIPGKTL 188 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R GP LG GS R + + + Sbjct: 189 VRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGPVTLGKQRPGSVRALGRDEI 241 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 84/351 (23%), Positives = 133/351 (37%), Gaps = 12/351 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E MI RV V+G++ + T ++ VDG + Sbjct: 2 SEKLQKVLARAGQGSRREIELMIQNGRVSVDGVVAKLGDRLEDMTANVRVDGHRIELISS 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L T H R+ 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+ L+E Sbjct: 182 TFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDVYLTKDMPRGGWSEL---ELKEVNE 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 E + + + I + + + + Sbjct: 239 LRATVELPPETETALTVEGQKRKKGIRQIRRAVRRHEERIETGNGNARGRRGRNNDRRNP 298 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRR---SPSFPSKRSLRRTSAKK 354 + ++V + + ++R P KR +A + Sbjct: 299 GASRNADVESQQNERRGSGRSQPVKGRDNRNDSGKPQSSGKRKPSGNAANR 349 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 99/234 (42%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ V TD + G L Sbjct: 1 MRLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNEMTDEVSYQGQRLNYEAF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLL+TNDG LA Sbjct: 61 VYYMLNKPKGVISATEDSSHKTVLDLLDDTARQKAVFPVGRLDKDTHGLLLVTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L P + Y G + Q+ + +GI ++ + + S + V Sbjct: 121 ALLSPKKHVAKQYLAVVDGMMTQEDVKHFAQGITLKDHQCMPAHLDILEINESLKTSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + + EGK ++K++ V+ L RIS GP QL + L G+ R ++ L Sbjct: 181 ITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLTAAELEA 234 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 82/377 (21%), Positives = 138/377 (36%), Gaps = 27/377 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP---------------------NIISE 277 +R + L+ + + P Sbjct: 412 AQVRRLMSTVGLKAPTEDKGGKRGGPVERRQPDPMQTSMGFINREPVLTTHGQLDQPRRG 471 Query: 278 VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 + G + +G+ N Sbjct: 472 RRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRASYGGAGANKRGAGKGGRNPNG 531 Query: 338 SPSFPSKRSLRRTSAKK 354 + + R RT ++ Sbjct: 532 NRAEGGARGGPRTPQQR 548 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V VNG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEYPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ L +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVI----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G L L G R +S++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQEVE 228 >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 = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 63/243 (25%), Positives = 108/243 (44%), Gaps = 14/243 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--------VMSTD 58 ++ N T R++K +A+ G+ SRR R I + + G + + S++ Sbjct: 1 MEHNPTQMRLAKYLAQTGLCSRRAATRYIRDGLITIEGRIANHIDTVTLIETPQGIESSE 60 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + DG P+ E W +HK + T S+ +L R+ VGRLD ++ Sbjct: 61 QLTFDGAPISAVEEKEYWAFHKA--VGTDSRLLIDDSSSLLHLLPATPRLYPVGRLDKDS 118 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLTNDG L + L P ++Y VR D + L + +G+ + + +T Sbjct: 119 RGLLLLTNDGELTQTLMHPDFGHSKIYHVRVDRDFDDNFLQAMAQGVSYRDVTTLPCTLT 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + L +G NR+I+++ + +KV L R+ LG L G R+++ Sbjct: 179 RLAKDQ----FEITLTQGLNRQIRRMSQALGFKVIDLKRVKIQSLALGDLKEGEMRQLTS 234 Query: 239 KIL 241 L Sbjct: 235 SEL 237 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 67/240 (27%), Positives = 112/240 (46%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 QRV K++++ G+ASRR E MI RVK+NG ++ + D +EVDG ++ ++R Sbjct: 3 QRVQKILSQWGVASRRHAEDMIIAGRVKLNGEIVT-LGDKADPSCDRLEVDGRMIQPSQR 61 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVISVGRLDINTEGLLLLTND 127 + + + T + + + + VGRLD N+ G LLLTND Sbjct: 62 PQLLYILINKPVGVVCTCDDPQNRSIVLDLLPKQLSKGTGIHPVGRLDFNSSGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y V G +++L ++G+++ G QV + + N Sbjct: 122 GELTLRLTHPRYHLPKTYEVLIQGHPTEERLQQWREGVMLMGKKTLPAQVEVICRYRQNT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + V L EG+NR+I+ + + + V RL R + G L +L G R ++ +R Sbjct: 182 RLKVILTEGRNRQIRHIVQHLGFHVLRLHRTAIGSLVLSSPNESSLPNGHYRLLTPSEIR 241 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 100/228 (43%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + ++ + K+GI + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEEDIQAFKEGITLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 83/257 (32%), Positives = 131/257 (50%), Gaps = 5/257 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 R+ K +A G+ SRRE E I + RV +NG ++ V V D + VDG + Sbjct: 68 EAPRLQKWLAEQGLCSRREGEVWIQEGRVSINGEVVTELGVKVAKRDRVAVDGQLVTPQR 127 Query: 71 -ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 T + L+ + T R+ SR+I+VGRLDIN+EGL++LT+DG Sbjct: 128 SRDTAIILHKPKSIICTRSDPQGRRTIFDLIENHGSSRLITVGRLDINSEGLIILTSDGQ 187 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLD--TQKGSN 186 LA L PS + RVYRV+ HG + +L ++ + ++ G +++ LD ++G+N Sbjct: 188 LAHGLMHPSREVPRVYRVKTHGILLASQLEQIRTVGVRLEDGPTGPLEIVLDRGREQGNN 247 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +W T+ LREG+NRE++++F+ F +V RL+R+ YG LG L G+ R V+ Sbjct: 248 SWYTITLREGRNREVRRIFDHFGLQVARLLRVGYGGISLGNLEPGAWRPVTVDEWNMLQK 307 Query: 247 PHLLEEAQVNLDAPIYS 263 + A Sbjct: 308 ISKRPIPGESAQAIPER 324 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 64/231 (27%), Positives = 110/231 (47%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ +++A A + SR EV++++ ++RV+VNG + + + + V I VD +P+ + Sbjct: 3 RLDRILANARVGSRSEVKKLVKEKRVRVNGEIAKSSDMRVDENTAEIFVDDIPVTYEKYV 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T TV D + + + GRLD +TEGLL++TNDG LA Sbjct: 63 YYMLNKPAGYISATEGK--NCPTVLDLITEDYKGMFPCGRLDKDTEGLLMITNDGPLAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + Y V + ++ + ++ G+ G+ Y +K S+ T+ + Sbjct: 121 LLSPKKHVEKEYYVEHTLPLTEEDIAKIESGVTYNGVSYKPA----VYKKISDTSCTLTI 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 +EGK EIK +F KV L R+ L L G R ++K+ L + Sbjct: 177 QEGKYHEIKFIFNSVGDKVVYLKRLRMKNLVLDETLKPGEYRPLTKEELED 227 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 86/370 (23%), Positives = 148/370 (40%), Gaps = 19/370 (5%) 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 VDGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 V+G +++ L + +V+ + + ++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 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 382 ADGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 441 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF------------TR 284 S + +R +G L+ + +R +R Sbjct: 442 SAEEVRVLMGLLGLKVPTASAGGGQGGQGGRQGNRRREAQPALTGPMSSGFTGEATFQSR 501 Query: 285 MKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + L ++ +P + +++ + L+ + R P S Sbjct: 502 GMGVENGNRALPAPRRQPSPRQPDPMQTSMGYINVGGPTTLTARTRMGGGGRALPGAGSG 561 Query: 345 RSLRRTSAKK 354 R K+ Sbjct: 562 NGNRAPGNKR 571 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 78/241 (32%), Positives = 111/241 (46%), Gaps = 4/241 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 R+ KV+++AGIASRR ERMI RV+V+G ++ V I VDG + Sbjct: 3 EEQGVRLQKVLSQAGIASRRVAERMIIDGRVEVDGQIVTELGTRVDPAVADIRVDGSRII 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 125 + +KP G+ +T SD GR V D + VGRLD +TEGLLLLT Sbjct: 63 LDDTMVYLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L PS + + Y G V + LK G+ + + Sbjct: 123 NDGELAHRLMHPSFEVPKTYVATVMGTVPRGLGKKLKAGVELDDGPAHVDDFAVVDTVPG 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V V L EG+NR ++++ ++ V L+R G LG GS R +++K + E Sbjct: 183 KTMVKVTLHEGRNRIVRRLLAAVDFPVQELVRTEIGSVSLGDQRPGSIRALTRKEVGELY 242 Query: 246 G 246 Sbjct: 243 Q 243 >gi|289624030|ref|ZP_06456984.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. aesculi str. NCPPB3681] Length = 308 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 87/307 (28%), Positives = 134/307 (43%), Gaps = 10/307 (3%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQPSRPLGKGERVRTLRPAAGA 301 Query: 294 GLSKQKK 300 + + Sbjct: 302 PATGDRA 308 >gi|319744819|gb|EFV97158.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae ATCC 13813] Length = 239 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 106/230 (46%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR V+++I ++V V+G ++ + V V S+ I V + E Sbjct: 1 MRLDKLLGQAGFGSRNHVKKLIRSRQVSVDGQIVTKDNVIVDSSLQSIFVGKERVCLKES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + + + +GRLD +TEGLL++TN+G L Sbjct: 61 SYYLLYKPSGVVSAVRDSEHKTVIDLISEKDKVEGLYPIGRLDRDTEGLLIITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G +++D + ++G+V ++T+DT + + Sbjct: 121 RMLHPKHHVAKTYYVEVNGFLERDAITFFEEGVVFDDGTKCKPAELTIDTANNDKSTARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+G +L L G R + Sbjct: 181 TITEGKFHQVKKMFLAYGVKVIYLRRISFGDLRLDMNLKPGQYRRLRDSE 230 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 62/241 (25%), Positives = 109/241 (45%), Gaps = 5/241 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 I E R++K I+ +G SRR+ +R IA+ V ++G+ V+ + V+G Sbjct: 18 IQHEARESLRLNKYISDSGYCSRRQADRFIAEGVVAIDGVTATV-GQQVLPGQRVTVEGN 76 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + +KP G+ T + + + + +GRLD ++ GL+LLT Sbjct: 77 HVTIDDEKVYIALNKPRGITCTTDGAIEGNIS--DFMNYPKMIFPIGRLDKDSSGLILLT 134 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQK 183 NDG + + + Y V + +D+D + + KG+ I MQVT D ++ Sbjct: 135 NDGDIVNKILREEYGHDKEYIVSVNKTIDEDFITKMSKGVEIYNQQTHRMQVTNPSDVEQ 194 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L +G NR+I+++ + +KV L R+ LG L G R +S L E Sbjct: 195 VAPKTFRIVLNQGLNRQIRRMTKALGFKVTTLNRVRIMNINLGDLKVGEWRYLSVHELEE 254 Query: 244 Q 244 Sbjct: 255 M 255 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 111/229 (48%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +G SRR+ + +I RV +N + V D + +DG + + Sbjct: 1 MRINKYIAESGFCSRRKADELIIDGRVTINKNIA-VIGSEVEDGDIVRIDGEKVTVKKEY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP ++ ++ T+ +L R+ + GRLD TEGL++++NDG + Sbjct: 60 EYYILNKPKRVLC-SNEDRQGRTLAVSLIKSKKRLFTYGRLDYMTEGLIIISNDGDIYNN 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y + + D + LK G+VI G+ +V + + V V + Sbjct: 119 VMHPKKKLYKSYIAKIDSDITDDHIEALKYGVVIDGVRTLPAKV----KTITKREVRVAI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+K+FE + V L R+ G L L G R+++ ++ Sbjct: 175 HEGRNRQIRKMFEVLGYTVKTLRRVKVGELSLKGLEVGKYRKMTDDEIK 223 >gi|126173147|ref|YP_001049296.1| pseudouridine synthase [Shewanella baltica OS155] gi|125996352|gb|ABN60427.1| pseudouridine synthase [Shewanella baltica OS155] Length = 236 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 67/233 (28%), Positives = 110/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMST----DHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG + + + + D IE+DG P+ Sbjct: 1 MRLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLDESLNCLDSIELDGAPIT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K E W+ +K +G + D T L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 KTETLAYWILNKAVGTDCRLLEQDE--TSLIRLLPKAPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y VR + + + + G+ + + QV + Sbjct: 119 ELTHKLMHPSFAHSKTYHVRLNRPFTDEFVEQMASGVRYKDLQTLPCQVRRLSSDS---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ +KV L R++ L +L G+ R ++ K + Sbjct: 175 FEIVLTQGLNRQIRRMSSALGYKVIDLQRVALMTLTLKSLAEGAMRPLTPKEV 227 >gi|283471019|emb|CAQ50230.1| RNA pseudouridine synthase family protein [Staphylococcus aureus subsp. aureus ST398] Length = 231 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 54/228 (23%), Positives = 100/228 (43%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + ++ + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEEDIQAFKEGVTLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 168 bits (425), Expect = 1e-39, 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 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + Y TL+ V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKYLTKPATLEVITP--VQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 107/233 (45%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A +GI +R+EV+ ++ +++ VN ++ + + D ++ + + Sbjct: 1 MRLDKFLANSGIGTRKEVKEILKNKKISVNDAFVKDGKIQIDEEKDIVKYEDNIIYYKPF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T + N + VGRLDI+TEGLLLLTNDG L+ Sbjct: 61 VYIMMNKPAGVISATEDNHHRTVIDLLNDEYRTYDIFPVGRLDIDTEGLLLLTNDGILSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ--KGSNAWV 189 L P + Y V+ + ++ + L+ GI + + +V + + + Sbjct: 121 NLLSPKKHVDKKYYVKISNPLTEEDIKTLENGIKLEENFVTKKAKVKIICNNSEKNENLA 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + + EGK ++K++F+ N +V L R+ G L L G RE++++ L Sbjct: 181 YITISEGKFHQVKRMFKAVNNEVLYLKRVKMGSLSLDEKLKLGEYRELTEEEL 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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 137/321 (42%), Positives = 192/321 (59%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V +D I VDG PL + ER Sbjct: 475 GDRIAKVVARAGLCSRRDAEAWIVEGRVAVNGRVIDSPALDVTYSDVITVDGKPLPERER 534 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 535 TRLFLYHKPRGLMTTHADPEGRPTVFDNLPEDLPRLISIGRLDFNTEGLLLLTNDGGLAR 594 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELP T WLR YRVR HG+V Q +L+ L G+ + G+ YG ++ L+ +G+N W+ Sbjct: 595 ALELPETGWLRRYRVRAHGEVTQAQLDQLASGVEVDGVKYGPIEAKLERDQGANVWLVFA 654 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +REGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG +++ Sbjct: 655 IREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLEIEEGQVEEVKTRVLREQLGEKIIKL 714 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 A+ + P S ++ + K + ++ + + Sbjct: 715 AEADFGGPSPSETRPKPRPGKPVAAEDGPAPKKKAVVKRGAVEDRKGRKVKVERTGSGDR 774 Query: 313 NVWMAKGIHSSFLSDSGQREE 333 + + RE+ Sbjct: 775 DPSRGPARRYHGKREPAPRED 795 Score = 40.9 bits (94), Expect = 0.33, Method: Composition-based stats. Identities = 17/141 (12%), Positives = 33/141 (23%), Gaps = 6/141 (4%) Query: 219 SYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 +G + G G R + + ++ E + P E + Sbjct: 199 RFGDKKFGDKKFGEKRPYTPREGGDKRPYTPREGGEKRPYTPREGGEKRPYAAREGGEKR 258 Query: 279 PDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAK------GIHSSFLSDSGQRE 332 P + S K+ TP G S G + Sbjct: 259 PYTPRDGGEKRSYAPREGGDKRPYTPRGEGFRKDGERSRPTGDRPFGARPSRDGKFGGDK 318 Query: 333 ENHRRSPSFPSKRSLRRTSAK 353 + R +P ++ + Sbjct: 319 KFGRGAPDRGPRKDFGSRPDR 339 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 61/229 (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 RYFMLNKPQGYVCATDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V D KG+ + Y TL+ V + + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKYLTKPATLEVITP--VQVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 173/331 (52%), Positives = 219/331 (66%), Gaps = 3/331 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+R Sbjct: 48 EAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVPIRG 107 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWLYHKP GLVTT++DP+GRSTVFDNLP RV+S+GRLDINTEGLLLLTNDGG Sbjct: 108 IERTRLWLYHKPAGLVTTNADPEGRSTVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGG 167 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LAR LELP+T WLR YRVR HG++DQD L+ LK GI + G+ YG ++ TLD +GSN W+ Sbjct: 168 LARALELPATGWLRRYRVRAHGEIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWI 227 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP L Sbjct: 228 TMGLREGKNREIKNVLGALGLDVNRLIRISYGPFQLGDLPEGHVVEVRGRTLRDQLGPRL 287 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 +EEA+ N DAPIY++ + + + + ++ LS +L T R+ Sbjct: 288 IEEAKANFDAPIYNAAAVAAEEEAEPAAAERRERPRRDEDKRERALS---RLDTKRDDRH 344 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 + + + +R + + S Sbjct: 345 GGARKEDDRRDGGRRDDERPKRPQPLGQRRS 375 Score = 40.9 bits (94), Expect = 0.27, Method: Composition-based stats. Identities = 14/118 (11%), Positives = 28/118 (23%), Gaps = 4/118 (3%) Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 RE + +R P +E + + DR + + + S Sbjct: 430 VREEDGEWIRSSEEPRRKDEGEGFGRKRGFGDRPAREDRGSGDRPARGERPFGDRPSRGD 489 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + R+ + SS +R R P + Sbjct: 490 RPFGDKPRGD----RKPRTDGDERPRAARSSAGDARSERPRGDRPFGDRPPRGDRPFG 543 Score = 39.0 bits (89), Expect = 1.0, Method: Composition-based stats. Identities = 16/129 (12%), Positives = 26/129 (20%), Gaps = 12/129 (9%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE R G + D P R E P ++ + Sbjct: 465 REDRGSGDRPARGERPFGDRPSRGDRPFGDKPRGDRKPRTDGDERPRAARSSAGDARSER 524 Query: 294 GLSKQKKLATPVH------------RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 + P R+ + SS +R + R Sbjct: 525 PRGDRPFGDRPPRGDRPFGDKPRGDRKPRTDGDERPRAARSSAGEGRSERPRSDRPFGDR 584 Query: 342 PSKRSLRRT 350 P + Sbjct: 585 PPRGDRPFG 593 Score = 38.2 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 13/102 (12%), Positives = 23/102 (22%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + A S+ +RP D R + K ++ + Sbjct: 501 KPRTDGDERPRAARSSAGDARSERPRGDRPFGDRPPRGDRPFGDKPRGDRKPRTDGDERP 560 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 R S+ + G R R + R Sbjct: 561 RAARSSAGEGRSERPRSDRPFGDRPPRGDRPFGDKPRADRRP 602 Score = 37.9 bits (86), Expect = 2.4, Method: Composition-based stats. Identities = 9/112 (8%), Positives = 21/112 (18%), Gaps = 1/112 (0%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E + P + R + D S G S++ + Sbjct: 569 EGRSERPRSDRPFGDRPPRGDRPFGDKPRADRRPREDGDERPRAARSFAGEGRSERPRGE 628 Query: 303 TP-VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + G + + + + P Sbjct: 629 RSFGDKPSGDKPRGKGFAAKPGGTKPGGAKSFSGKPKGAKPGGDRPGGDRPA 680 >gi|313632172|gb|EFR99245.1| ribosomal small subunit pseudouridine synthase A [Listeria seeligeri FSL N1-067] Length = 233 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 97/231 (41%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SRREV+ ++ V VNG++ + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRREVKPLLKSGSVVVNGVIQKDSKSQVNPEKDQITVHGNPVIYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + VGRLD +TEGLL++TNDG LA Sbjct: 61 VYFMLHKPQNVVSATEDNLSETVIDLLAQEDTLTNPFPVGRLDKDTEGLLIITNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y + G V + + GI + + + + V Sbjct: 121 NLLSPKKHIDKTYYAKIEGDVTATDVEAFRTGITLDDGYTCKPAHLEIMAPN----EIRV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 ++EGK ++K++F V L R+S G L L G R +++ L Sbjct: 177 TIQEGKFHQVKRMFAATGKTVTYLKRLSMGKLMLDESLGLGEYRSLTEDEL 227 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 77/232 (33%), Positives = 120/232 (51%), Gaps = 1/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ KV+A AG+ SRR E +I RV V+ + + V + + + VDG+ ++ Sbjct: 23 PDGVRLQKVLATAGLGSRRACENLITAGRVTVDDVPVHELGVRIDPDKNVVHVDGLRIQL 82 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP+G+V+T DP+GR T+ + R+ VGRLD ++EGLLLLTNDG Sbjct: 83 DMSLLTLALNKPLGVVSTMHDPEGRPTLAQFVADRPERLFHVGRLDADSEGLLLLTNDGE 142 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + + Y V+ G+V + L KGI ++ + L + + Sbjct: 143 LANRLTHPKYKITKTYTVQVEGRVPANLGTTLLKGIELEDGVATVDKYRLVDATPQASLI 202 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+NR I+++FE + V +L+R GP +LG L G R + + L Sbjct: 203 EVELHEGRNRIIRRMFETAGYPVTQLVRTKIGPIRLGDLRQGRVRVIGQTEL 254 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 51/230 (22%), Positives = 97/230 (42%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN + + A V +E G ++K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNDAVQKSGAFKVTDECVVEWQGREIQKPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGFVCSHEDGFNQ-TAFALLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + +D +GI ++ + LD V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDPIGEDYAEKFAQGIELRSEKEPTLPAQLDIVNQDENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 EGK ++K++F KV L R G +L +L G R ++++ + Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGAIELDYSLEPGEYRFLTEEEID 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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 100/228 (43%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + +D + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 53/235 (22%), Positives = 99/235 (42%), Gaps = 2/235 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R+E R+I V V+G+ + +V V +E DG L+ Sbjct: 1 MRLDKFLCETLGATRKEATRIIKSGTVTVDGVKTKVTSVKVTDDSTVEWDGRELKFHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + S + ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGYVCSHEDSTHP-SALSLLDEVNLEKLHFAGRLDVDTTGLVLITDDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D L+ GI ++ M ++ + + + Sbjct: 120 ITSPKRKCAKTYRVWLADPIGADYAEKLEAGIQLKSEKDLTMPAVMEIVDEEEHELLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 EGK ++K++F KV L R G L +L G R ++++ + G Sbjct: 180 HEGKYHQVKRMFAALGNKVEGLHRAQIGGLGLDYSLEPGEYRYLTEEEVEAVFGE 234 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 96/230 (41%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R E + M+A+ RV+VNG + ++ + TD + VDG L + Sbjct: 1 MRLDKYLAETAQCTRSEAKTMLAKGRVQVNGAVCKKGDTQLKDTDTVAVDGALLTYQKFV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + + D + GRLD + G +LLT+DGG A Sbjct: 61 YLMLNKPEGVVSASTDKRDTTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFAHD 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKGSNAWVTVG 192 + P + Y V + Q+ G+ + +VT + G V V Sbjct: 121 ILSPRHHVSKTYTVTIDTPLTQEMCTGFAAGVTLADGTALSPAEVTALSPDGL--TVRVV 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 LR+G +IK++F + VN L R + G L L G RE+S + + Sbjct: 179 LRQGVYHQIKRMFGVYGAGVNALHREAIGGLALDAQLAPGQWRELSDEEV 228 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 83/355 (23%), Positives = 145/355 (40%), Gaps = 8/355 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++ E V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMLEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ + R + + + + + ++ Sbjct: 412 AQVRRLMSTVGLKAPTEDKGG-KRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPRR 470 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + A S G R+ + R+ S+ + +R + K Sbjct: 471 GRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 524 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 64/241 (26%), Positives = 109/241 (45%), Gaps = 2/241 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 Q R++K +A G+ASRR ++++ + +V VNG + + V D + VDG Sbjct: 4 QVQEEKVRINKYLAMCGVASRRAADQLVLEGKVSVNGHIADEPGFKVDPRNDEVIVDGRL 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E ++++ V T + + + + RV VGRLD + GLLLLTN Sbjct: 64 MATPEARKVYILFNKPRNVITTNHDERDRQQILDFIDVPERVFPVGRLDRKSTGLLLLTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS+Q + Y + L L G+ ++ Sbjct: 124 DGTLAHRLMHPSSQVQKEYLAALDAKFPPAMLQKLTGGMRLKDTGEKVSPCRAKILDDGM 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + V + EGKN +++++F ++V RL R++Y LG L G R +S+ + + Sbjct: 184 SVL-VSIHEGKNHQVRRMFSTLGFEVKRLDRVAYAGLTLGELRRGEWRFLSRNEVEKLYR 242 Query: 247 P 247 Sbjct: 243 L 243 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 94/318 (29%), Positives = 140/318 (44%), Gaps = 12/318 (3%) 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 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +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+ L Sbjct: 181 NQWYTVTLTEGRNREVRRLWESVGVQVSRLIRTRYGDIQLPKGLPRGGWTEL---ELAPT 237 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L + + + + + R + N I +++ S + +G + K A Sbjct: 238 NYLRELVDLPPEITSKVAVEKDRRRTKANQIRRAVKRHSQVAPGSRRPSGKASGKAAAAK 297 Query: 305 VHRRNLASNVWMAKGIHS 322 ++ A Sbjct: 298 PAGKSSARTSGKPSAKRG 315 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 67/229 (29%), Positives = 106/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + GI SR+EV+++I+ + VNG+ N+ D IE +G L E Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNDEITVNGMSDILPKDNIDENSDIIEYNGERLEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDFKENTVMDLLPEWVIRKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY V + + + L++G+ I +V +K S+ + + Sbjct: 121 RLLSPKNHIDKVYYVEIENNILDEDILKLEQGVNIGNYITQPAKV----EKISDNKIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E N KV L R+S+G L L G +EV+ + + Sbjct: 177 IKEGKFHQVKKMLEAVNNKVCYLKRVSFGKLTLNDLTLGEVKEVNLEDI 225 >gi|322715286|gb|EFZ06857.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 231 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVI----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNCVVELHRERIGAITLDENLAPGEYRPLTEEEI 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 = 168 bits (425), Expect = 1e-39, 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|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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 56/238 (23%), Positives = 105/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV+ + D +G+++ G ++ + + + V + Sbjct: 121 ITSPKHHCEKTYRVQLSDDIANDVAEQFAQGVMLNGEKYLTKPAKLEIISPRD----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F V L R G L L G R ++++ + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVCGLHRERVGEIWLDETLEPGEYRPLTEEEINSINVPR 234 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 62/239 (25%), Positives = 102/239 (42%), Gaps = 9/239 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K +A +G+ SR EV+ ++ + RV V G + V + DG L E Sbjct: 1 MRLDKFLAESGLGSRSEVKVLLKKGRVTVAGEIQRDGRFQVDKNSRQVAFDGQILDYQEY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + VGRLD NTEGLL+L+NDG L Sbjct: 61 YYYLLNKPQGVVSATKDNVFKTVVQLLSEKDFRKDIFPVGRLDKNTEGLLILSNDGALGH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDT------QKGS 185 L P + Y R G+V + +N +G+ ++ G ++ ++ Q G Sbjct: 121 DLTQPKKHVEKEYFARIDGKVTDEIINKFAEGLTLKNGEKARPGELFVEKTYKGDSQSGW 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + V + EGK ++K++FE V L RI G L L G+ R ++ + + Sbjct: 181 VSEIRVIIHEGKFHQVKRMFEAVEMYVLYLKRIRMGNLALDSDLALGAYRPLTIEEIEN 239 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 117/231 (50%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AG+ASRR+ E MI +VKVNG ++ + V S D + VD + + Sbjct: 5 ERLQKRIAQAGVASRRKAEEMIVNGQVKVNGKIITKLGKKVSSDDIVYVDNKKINEESFE 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + S P+ S + L +R+ SVGRLD +T G+LLLTNDG L + Sbjct: 65 YYLLNKPAGYVSSNRSYPNQPSVIE--LIKTKTRIFSVGRLDQDTTGVLLLTNDGELTQK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--MQVTLDTQKGSNAWVTV 191 L P + R Y G V++D++ L K I G Y ++ QK + + + Sbjct: 123 LTHPKHRIKRTYAAWVKGIVNEDEIEQLTKPIRFDGEIYFPQAARILKVDQKRQESLIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKN EIKK+ +F V +L R + +G L G R +S++ + Sbjct: 183 TIAEGKNHEIKKILDFIGHPVIKLNRDMFDGITIGNLKKGQHRALSEQEVE 233 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 109/230 (47%), Gaps = 9/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+++ GI SR + ++I RVKVNG L V TD I +D P+++ ER Sbjct: 1 MRINKLLSNKGICSRSQAHQLIVAGRVKVNGQLC-IPGQWVEETDEILLDDRPVKEKERL 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + + + VGRLD +++GL+LLTNDG LA Sbjct: 60 YIILNKPVGIVCTAAEGV---KDNIIRYMNYPAYLFPVGRLDKDSQGLILLTNDGDLASD 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V+ ++D L+ + +G+ + G+ QV+ + + Sbjct: 117 ILEAEKGHEKEYMVQVDRPYEEDFLHKMSQGVNLGDGVITRICQVSAINED----TFRII 172 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L +G NR+I+++ + F + V RL RI LG L G R+++ + Sbjct: 173 LTQGMNRQIRRMTKAFGYNVVRLERIRLLNIALGPLAYGEWRKLTNLEVE 222 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 55/236 (23%), Positives = 104/236 (44%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 R++K ++ G SRR + +I + +V +NG + V D +EV+G + K E Sbjct: 4 RINKYLSEVGYCSRRVADSLIEEGKVTINGEIP-EMGTKVEEGDQVEVEGQRIEKSMKHE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L + TT + + + +R+ +GRLD +EGL+ LTNDG + Sbjct: 63 KIYLVFNKPVGIVCTTDRRVESDNIIDFI--KYPTRIFPIGRLDKPSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + +++D + + G+ I G + ++ + Sbjct: 121 NKILRARNNHEKEYIVSVNRPINRDFIQSMSNGVEILGTITKNC----FVKQLGPKKFRI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 L +G NR+I+++ E ++V L R+ +L + G RE +K+ L E Sbjct: 177 ILTQGLNRQIRRMCESLGFRVKSLKRVRIMNIKL-DVSIGEYREFTKEELFELNKL 231 >gi|327394528|dbj|BAK11950.1| ribosomal small subunit pseudouridine synthase A RsuA [Pantoea ananatis AJ13355] Length = 239 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 103/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV V D G+ + Q+ + + V + Sbjct: 121 ITSPRHHCEKTYRVTLEAPVSDDTAAQFSAGVQLHNEKSLTKPAQLEVI----TPTEVLL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TLSEGRYHQVKRMFAAVGNRVVGLHRERIGEIVLDEALEPGEYRLLTEEEI 227 >gi|295676258|ref|YP_003604782.1| pseudouridine synthase [Burkholderia sp. CCGE1002] gi|295436101|gb|ADG15271.1| pseudouridine synthase [Burkholderia sp. CCGE1002] Length = 589 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 85/356 (23%), Positives = 145/356 (40%), Gaps = 10/356 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 188 KRVLSPDDDAPKLHKVLAEAGMGSRRDMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 246 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 367 GGGEGTNHWYHVALAEGRNREVRRMFEAAGLMVSRLIRTRHGPISLPRGLKRGRWEELED 426 Query: 239 KILR---EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +R +G E + + +A + + Q G Sbjct: 427 NQVRALMASVGLKAPTEERGSRNAAPERRQPDPMQTSMGFINREPVLMSHSRFEQQPRGQ 486 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 ++ + A + + G R+ + R+PS R+ Sbjct: 487 GRRGAAGGGFGAGMGGGAGFGAGAGNRAPGGQRG-RDVDGNRAPSPNGNRARTGGK 541 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 58/294 (19%), Positives = 116/294 (39%), Gaps = 5/294 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R + Q V +NG + V D ++V+G + Sbjct: 2 TDSAIRLNKYISESGICSRRDADRYVEQGNVFINGRRAQV-GDLVSIGDKVKVNGQDIEP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + + + SR+ +GRLD +++GL+ LTN+G Sbjct: 61 RDAENLVFIALNKPVGIVSTTEGSERDNIVDFVNHSSRIFPIGRLDKDSQGLIFLTNNGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + D + + G+ I G+ ++ S Sbjct: 121 LVNKILRAGNNHDKEYVVTVNKPITDDFIKGMGAGVPILGVVTKKC----VVEQVSPFAF 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ E+F ++V +L R L L G R++ K+ L Sbjct: 177 KIVLVQGLNRQIRRMCEYFGFEVTKLERQQIMNVSLKGLPIGEWRDLDKQELDVLFDMIK 236 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++ A + + + S++ G +K + Sbjct: 237 DSSSEDKNAAAKKKPKPKPKVASLRDKIEGPEHFMQHNRSTKHKGQAKGQPKGQ 290 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 84/355 (23%), Positives = 146/355 (41%), Gaps = 8/355 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 173 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 231 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 352 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 411 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ + R + + + + + ++ Sbjct: 412 AQVRRLMSTVGLKAPTEDKGG-KRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPRR 470 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + A S G R+ + R+ S+ + +R + K Sbjct: 471 GRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 524 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 83/341 (24%), Positives = 141/341 (41%), Gaps = 8/341 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 170 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 228 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 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 EAQVRKLMATVGLKAPSEEKGKRGGGQ--AERRQPDPMQTSMGFISREPVLTTHGQLDQP 466 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 ++ S G+ + +R S Sbjct: 467 RRGGRRGGPGLPGLSGYGSLPVASGYGNRAGGRDVDGNRAS 507 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 72/231 (31%), Positives = 129/231 (55%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 R++K ++ GIASRR +++ I + R+KVNG + ++V D I +D + ++ E Sbjct: 1 MRINKFLSSLGIASRRAIDKYIEEGRIKVNGAIP-SIGIDVNEDDEIYIDNKKIETKRIE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP+ +++ SD GR TV D + + +GRLD T GL+LLTNDG L Sbjct: 60 EKVYFILNKPLEVLSASSDDRGRRTVVDLIKTDKRI-FPIGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++ + Y ++ G+V ++++ LKKG++++ +V+ + + + Sbjct: 119 NRLVHPKSEIYKKYYIKVFGEVKKEEIEELKKGVLLEDGKTLPAKVSGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G RE++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLKEGKYRELTKEEIE 229 >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 = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 129/231 (55%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 71 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRTIDKYIEEGRITVNGNTAIT-GMDISENDNIFIDGEKIKTNIDE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+ ++++ SD GR TV D + + VGRLD T GL+LLTNDG L Sbjct: 60 KKVYFMLNKPLEVLSSSSDNRGRKTVVDLIKTDKRI-FPVGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y V+ G++ ++++ LKKG+++ +++ + + + Sbjct: 119 NRIVHPKSEIYKKYYVKILGEIKKEEIEELKKGVLLDDSKTLPAKISGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F +KV L R G LG L G RE++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFGYKVLMLRREKIGELSLGDLPEGKYRELTKQEVE 229 >gi|254495132|ref|ZP_05108056.1| pseudouridylate synthase [Polaribacter sp. MED152] gi|85819482|gb|EAQ40639.1| pseudouridylate synthase [Polaribacter sp. MED152] Length = 282 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 106/236 (44%), Gaps = 1/236 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IA +G+ SRRE + I VKVNG L+ V D ++ DG + ++ Sbjct: 48 GIRLNKYIANSGVCSRREADTYIEHGSVKVNGKLVTEMGYKVQPDDVVQFDGTSITPEQK 107 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + T D ++ + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 108 RYILLNKPKNYITTMDDDRGRKTVMDLVSNASKERIYPVGRLDRNTTGLLLFTNDGDLAK 167 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y ++D L L+ ++I+G + + + Sbjct: 168 KLTHPKHNVRKLYHASLDRKLDLKDLEKLRGEVIIEGRKV-FIDAVSYVDGQPKTEIGIE 226 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + G+NR ++K+FE +KVN+L R+ + L G R ++ + + Sbjct: 227 IHSGRNRIVRKIFEHVGYKVNKLDRVIFAELTKKNLPRGRWRALTNQEVSNLQMMK 282 >gi|315644423|ref|ZP_07897556.1| pseudouridine synthase [Paenibacillus vortex V453] gi|315280173|gb|EFU43466.1| pseudouridine synthase [Paenibacillus vortex V453] Length = 233 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 113/233 (48%), Gaps = 8/233 (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 + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 VYIALYKPVGITSTTELHI--KGNIVDFVGHKERIFPIGRLDKDSEGLILLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + L + G+ I G +VT S + L Sbjct: 118 ILRSEGKHEKEYIVTVDRPLTDTFLRGMSSGVKILGEMTLPCEVTRM----SERVFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ F ++V +L RI +LG+ GS R++++K RE+LG Sbjct: 174 TEGKNRQIRRMCSAFGYEVRKLQRIRIMNIRLGSQRVGSWRDLNEKE-REELG 225 >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 = 168 bits (424), Expect = 1e-39, Method: Composition-based stats. Identities = 91/374 (24%), Positives = 141/374 (37%), Gaps = 29/374 (7%) 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-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 ++ E T L + T + R I++GRLDINT GLL Sbjct: 65 KREEITGSVRRVLIYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLL 124 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT- 181 L T DG LA L PS Q R Y VR G+V ++ L LK G++++ + Sbjct: 125 LFTTDGELANRLMHPSYQMDREYAVRVRGEVTEEMLENLKTGVMLEDGPAKFTDIKEAPG 184 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE----- 235 +G N W + EG+NRE+++++E V+RL R+ +GP L L RE Sbjct: 185 GEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFLTSELTMARWREMDQRE 244 Query: 236 ---------VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 ++ + L + ++ + R E D R Sbjct: 245 VDILSAEVGLTPQALPAMKEKTREKLDRLQRKSAKPVEVRGKRVLRPAKDEAGADSARPS 304 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREE-------NHRRSP 339 + + + + + + R + P Sbjct: 305 RAPRRDEAEQRTPRGPRKEGGERRENGRGTPVAERPGDVKKRQPRPAVELSERPARKPRP 364 Query: 340 SFPSKRSLRRTSAK 353 + P KR + Sbjct: 365 ASPGKRPPSGDGQR 378 >gi|325520892|gb|EGC99873.1| ribosomal large subunit pseudouridine synthase B [Burkholderia sp. TJI49] Length = 328 Score = 168 bits (424), Expect = 1e-39, Method: Composition-based stats. Identities = 77/274 (28%), Positives = 126/274 (45%), Gaps = 6/274 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 38 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 96 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 217 DGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELE 276 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 + +R+ + L+ +E D Sbjct: 277 EAQVRKLMATVGLKAPSEEKGRRGGETERRQPDP 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 = 168 bits (424), Expect = 1e-39, Method: Composition-based stats. Identities = 64/243 (26%), Positives = 117/243 (48%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ AG+ SRRE +R+I +V V+G + V ++V +R Sbjct: 2 VRLNKYLSDAGVCSRREADRLIESGQVSVDGQRA-VPGMKVADGQEVKVGKKVIRSNTEK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V T + ++ + RV GRLD ++EGLL++TNDG L Sbjct: 61 IVLAVNKPAGIVCTEDVREKKNIIRYL--KYPIRVTYAGRLDKDSEGLLIMTNDGDLING 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--DMQVTLDTQKGSNAWVTV 191 + + Y+V + V QD ++ +K+GI I +K ++ Sbjct: 119 MMRARHGHEKEYKVTVNKPVTQDFISKMKEGIRIVDKEKRLDVATRPCKAEKLGKYTFSI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G NR+I+++ E +KV RL+R+ +LG+L G+ R+++++ L+E Sbjct: 179 TLTQGLNRQIRRMCEALGYKVERLVRVRIMNIELGSLKPGAYRKLTEQELKELYEQVKES 238 Query: 252 EAQ 254 + Sbjct: 239 QNA 241 >gi|324117539|gb|EGC11445.1| RNA pseudouridylate synthase [Escherichia coli E1167] Length = 299 Score = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 88/298 (29%), Positives = 132/298 (44%), Gaps = 10/298 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K ++ + +++ KV+ARAG SRRE+E +I RV V+G + + V V I + Sbjct: 2 KATLKGSSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRI 61 Query: 63 DGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG + E L Y L T + + +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---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 LRE + ++V ++ + R R ++ Sbjct: 242 DLAQTNYLRELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 299 >gi|311279823|ref|YP_003942054.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308749018|gb|ADO48770.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 299 Score = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 87/301 (28%), Positives = 135/301 (44%), Gaps = 10/301 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRVSVDGKIATLGDRVEITPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L + Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELD---LAQTN 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L E + ++ + + R + N I +++ ++ G + + Sbjct: 239 YLRELVELKPETESKVAVEKDRRRMKANQIRRAVKRHSQVNSKPARSTGRRASSRNSGSG 298 Query: 306 H 306 Sbjct: 299 S 299 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 119/232 (51%), Gaps = 5/232 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K +++AG+ SRR+ + + Q +V V+G V + +G P+R Sbjct: 6 NSAVRINKFLSQAGLCSRRQADFYVEQGKVTVDGKTA-EPGTKVCEGQEVCFNGKPVRMD 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +T Y+KP G+V T S + + + SR+ VGRLD +++GL+LLTNDG Sbjct: 65 TQTVYLAYNKPKGIVCTSSKEEANNIIDAV--GYPSRIYPVGRLDKDSQGLILLTNDGEA 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + + Y V + ++ D + ++ G+ + + + T+ + + Sbjct: 123 ANEIMKARNYHEKEYEVTVNKRITNDFIQGMRNGVPLSELDTVTRKCTVKKEGPDS--FR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ E+F ++V +L R+ +LG L GS R+++ + ++ Sbjct: 181 IILTQGLNRQIRRMCEYFGYRVTKLRRVRVMNIRLGNLKEGSYRKLTPEEIK 232 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 107/231 (46%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ G SRR V+R++ ++V+VNG + ++NV + V GVP+ Sbjct: 1 MRLDKLLFETGFGSRRTVKRLLKSKQVQVNGQTIMVDSLNVDPQLQEVTVAGVPIDYQPH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + VGRLD +TEGLLLLTN+G L Sbjct: 61 VYYMLHKPAGVVSAVSDAVNQTVIDLIEPSQRVPGLFPVGRLDKDTEGLLLLTNNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L +P + + Y V + +V D GIV G Q+T+ +Q + + V + Sbjct: 121 QLLIPKKEVTKCYEVVVNERVTDDDQLAFTAGIVFDGGVICKPAQLTILSQSDTESRVLL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++KK+F KV L R+S GP QL L GS R + + L Sbjct: 181 EISEGKFHQVKKMFLSVGKKVIYLKRLSMGPLQLDKTLSLGSYRPLHAEEL 231 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + + + Q V +NG + + A V D I DG L + Sbjct: 1 MRLDKFLAEHTGLTRSQATKALRQSAVTINGKIEKSGATKVSPQDAIYFDGELLTWLDVG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +++KP G V +H + + S + +R+ S GRLDI+T GL+LLT+DG + Sbjct: 61 QYLMFNKPQGYVCSHDEDEHPSIYQFFDYPLSARLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ + +GI+++G + + N V + Sbjct: 121 VTSPKHHQPKTYLVTLADPVEANYAQACAEGILLRGEKDPTKPAVLEIL----DNYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++ + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVLGLHRWKIGNLTLDDNLAEGDFRVLNAEEI 227 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 104/228 (45%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V+VN ++ ++ DH+ V+G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGAVEVNDKKIKTPKTHINPNEDHVTVNGSTISYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +++ D ++ + + VGRLD +TEGLLLLTNDG Sbjct: 61 VYIMLNKPKG-VISATEDDSHKTVIDLIPEYSHLGIFPVGRLDKDTEGLLLLTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + Q + + G+ + ++ KG++ V Sbjct: 120 ELMNPNKHVSKTYEVVSKYPIKQADIEAFESGVELSDGKVKPAKLI----KGNDHLSYVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L +L G R ++++ Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRIKIANLELDQSLNDGEFRFLNEQ 223 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 108/234 (46%), Gaps = 3/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + + SR EV++ I Q R+ V+G + + + + VD + Sbjct: 2 MRLDKYLCEMNVGSRSEVKKYIRQGRITVDGKTAVKPEEKIDEHSQKVCVDSRVIGYEAF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY +V+ +D ++ + + VGRLD +TEGLLL+TNDG +A Sbjct: 62 EYYMLYKPSG-VVSATTDRKEKTVLDLIEEKKRKDLFPVGRLDKDTEGLLLITNDGEMAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + G+V + ++ + +G+ I Y ++G+ + + + Sbjct: 121 RLLSPKKHVDKVYYAKIDGKVTEREVQIFSEGLSIGNDEYAKPSALKILKEGNISEIELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 ++EGK ++K++F +V L RIS G L L G R +++K + + Sbjct: 181 IQEGKFHQVKRMFHAVGMEVIYLKRISMGNLVLDESLKKGEYRRLTEKEVEQLC 234 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 109/233 (46%), Gaps = 7/233 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P R++K ++ AG+ SRRE +R+I +VKV+G + V + + + + Sbjct: 12 KKEPVRLNKYLSEAGVCSRREADRLIESGKVKVDGK-AAGMGMKVSPGQEVRIGRKIVSR 70 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +E + +KP G+V T + + RV VGRLD ++ GLLL+TN+G Sbjct: 71 SEEMIVLAVNKPAGIVCTEETRE--RKSIVRFLNYPVRVTYVGRLDKDSRGLLLMTNNGD 128 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y+V + + L + G+ I G +V QK Sbjct: 129 IINKMMRAGNRHEKEYKVTVDKALTPEFLEKMSSGVAILGTVTRPCRV----QKIGKYTF 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 T+ L +G NR+I+++ E ++V L+R +LG L G R+++ K L Sbjct: 185 TIILTQGLNRQIRRMCEVLGYEVKDLVRTRIMNIELGKLKEGEYRKLTDKELD 237 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 63/228 (27%), Positives = 114/228 (50%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A AG+ SRR+ + MI + RV VN + + S D + VDG ++ Sbjct: 1 MRLNKYMADAGVCSRRKADEMIKEGRVTVN-KKEAVLGMEISSGDIVRVDGEKIKLNTVY 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP ++ ++ D GR D + S + GRLD TEGL++++NDG + Sbjct: 60 EYYMLNKPKRVICSNEDRFGRRLAIDYIKSKKRL-FTYGRLDYMTEGLIIISNDGEVYNH 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y + +V++ + K G+VI G +V +K + + + Sbjct: 119 VMHPRKKLYKSYIAKLSREVEEKDMEAWKHGVVIDGKRTAPAKV----KKIDKKEIRIAI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR+I+K+ E + V L R+ G LG L G R ++++ + Sbjct: 175 FEGRNRQIRKMVEILGYTVESLKRVKVGELTLGYLQPGDYRALTEEEV 222 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 102/231 (44%), Gaps = 7/231 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R++K ++ GI SRRE +RMI + R+ ++G + V I VDG + + Sbjct: 10 SERINKYLSAHGICSRREADRMIQEGRITIDGRIAA-MGEMVDDNTIICVDGRKVDNSTP 68 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ + + + + R+ VGRLD ++GL+LLTNDG + Sbjct: 69 PQVVIAFNKPVGIVCTTTDKQGKNNIVDFIGYKERIYPVGRLDKESDGLILLTNDGDMMD 128 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVT 190 L + Y V + +++D + + GI ++ +K S+ Sbjct: 129 RLLRSVNGHEKEYIVSVNKPINKDFIKRMSGGIYLKELDRTTRKC----VVEKISDRTFR 184 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ + V +L RI +LG L G RE+ K L Sbjct: 185 IILTQGLNRQIRRMCAECGYSVTKLTRIRIMNVELGDLKTGEYRELDGKEL 235 >gi|91200876|emb|CAJ73931.1| conserved hypothetical protein [Candidatus Kuenenia stuttgartiensis] Length = 260 Score = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 65/259 (25%), Positives = 119/259 (45%), Gaps = 2/259 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AGI SRRE E +I RV V+G + V + I DG+P+R + Sbjct: 3 ERLQKVLASAGIGSRRECENVILAGRVTVDGERVTALGATVDAGKSVIYCDGMPIRPEAK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T + + + D + ++ R+ ++GRLD +EGL+++TNDG L+ Sbjct: 63 IYYLLNKPKDCLCTNYDELNRLR-AIDIIKNVKQRLYTIGRLDKQSEGLIIITNDGELSN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + G + + + L+ G+ + +++ + + + Sbjct: 122 KLSHPKYEVNKTYFIEIDGYLSNETITALQSGVWLAFGKTQPVRIKKMHRSFKKSRFEMI 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EGKNREI+++ KV L RI G L G R+++++ ++ + Sbjct: 182 LCEGKNREIRRMLADHGHKVRTLRRIKIGSLCDPDLKVGKYRKLTEQEIKSLYSMTEKKP 241 Query: 253 AQVNLDAPIYSSETLVRDR 271 + Y + T + + Sbjct: 242 IEKKSGKQRYDTVTASKKK 260 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 116/231 (50%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K IA+AG+ASRR+ E MI +VKVNG ++ + V S D + VD + + Sbjct: 5 ERLQKRIAQAGVASRRKAEEMIVNGQVKVNGKIITKLGKKVSSDDIVYVDNKKINEESFE 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + S P+ S + L +R+ SVGRLD +T G+LLLTNDG L + Sbjct: 65 YYLLNKPAGYVSSNRSYPNQPSVIE--LIKTKTRIFSVGRLDQDTTGVLLLTNDGELTQK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--MQVTLDTQKGSNAWVTV 191 L P + R Y G V++D+L L K I G Y ++ QK + + + Sbjct: 123 LTHPKHRIKRTYAAWVKGIVNEDELEQLTKPIRFDGEIYFPQAARILKVDQKRQESLIEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK EIKK+ +F V +L R + +G L G R +S++ + Sbjct: 183 TIAEGKTHEIKKILDFIGHPVIKLNRDMFDGITIGNLKKGQYRALSEQEVE 233 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I+ + +R ++ + + V V+G +++ + + + + +DG P+ Sbjct: 1 MRLDKFISESTQLTRSLAKKALHRGEVTVDGQVIKDGSFKLNESQQVCLDGEPISLI-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP + + D S + + GRLD +T GL+L+T+DG + Sbjct: 60 RFIMLHKPADTLCSTVDEVYPSVLNLLDLPHKEDLHIAGRLDADTTGLVLITSDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ + + + G+ + + + L + + Sbjct: 120 VTSPKRECGKTYLVQLADPLKAEWVEQFATGLALRSEEGLTKPATLELL----GSHEARL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R S G L L G R +++ + Sbjct: 176 TITEGKYHQVKRMFAAVGNKVVGLHRESVGEIVLDESLAPGEWRYLTEAEI 226 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 111/230 (48%), Gaps = 5/230 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+SKV+A AGIASRR E +I Q VKVNG +++ V D I V + + Sbjct: 2 ETNRLSKVLAAAGIASRRACEELIFQGLVKVNGEVIKVPQTKVNPEIDTITVRDEVINRK 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E +L +KP G + + + D R+ +VGRLD +T+GLL++TNDG Sbjct: 62 EDKVYYLLNKPPGYICSARKSGQTKIILDLFQDEDHRLFTVGRLDKDTQGLLIVTNDGHF 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + PS + Y + ++ + L + G +++G+ ++V + + Sbjct: 122 ANQIIHPSANIQKEYLAKTDQEISHEHLIAIANGTLVEGVFVKPIRVQKVRKG----TIK 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + EGK RE++ + KV L RI G LG L G+ R +++ Sbjct: 178 IIIGEGKKREVRMLLSAAGLKVQELTRIRLGGLHLGRLPIGNWRPLTETE 227 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 62/234 (26%), Positives = 101/234 (43%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKSGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ KGI ++ ++ L + + + + Sbjct: 121 ALLSPKRHVDKTYLAQVKGIMTQEDAETFAKGIPLKDFTCQPARLELVSVDTKKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 V + EGK ++K++ + +V L R++ G L L G R ++K+ L + Sbjct: 181 VTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELED 234 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V VNG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTVNGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEYPTVFQFFGYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ L +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVI----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G L L G R +S++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQEVE 228 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 70/231 (30%), Positives = 121/231 (52%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 + +L + R+ +GRLD N+ GLLLLT+DG + Sbjct: 64 RTYIMLNKPAGYLTT--CKQPGRKIVLDLIDLPQRLFPIGRLDNNSTGLLLLTDDGRIHH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y V L+ +++G++++G +V + G + T+ Sbjct: 122 RLSHPSFDHEKEYEVETVKDAPDQALDAMRRGMILEGKKTRPAKVK---RTGPRS-FTIV 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L+EG+NR+I+K+ E KV RL R+ +LG L +G R +++K ++ Sbjct: 178 LKEGRNRQIRKMVELTKNKVKRLHRVRMSTIRLGGLPSGKWRRLNEKEIQA 228 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 82/357 (22%), Positives = 142/357 (39%), Gaps = 9/357 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 122 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 180 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 301 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 360 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ ++E R + + + + + ++ Sbjct: 361 AQVRRLMSTVGLKAPVEEKGKRGGAAE--RRQPDPMQTSMGFINREPVLTTHGQLDQPRR 418 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP-SFPSKRSLRRTSAKK 354 + A G R+ + R+P + Sbjct: 419 GRRGPAGGGFGAGLGGGYAGLPGYGGAPRQGGRDVDGNRAPHGGAGANKRGAGKGAR 475 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 52/232 (22%), Positives = 98/232 (42%), Gaps = 6/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E +++ V VN + + AV V +E G L Sbjct: 1 MRLDKFLCDALGATRKEATKILKSGEVTVNEQVQKSGAVKVTEECVVEWQGRELAMQGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGFNH-TAFVLLDEVKMDELHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D L +G+ ++ Q+T+ + V + Sbjct: 120 ITSPKHKCDKTYRVWLADPIGSDYAEKLAEGVQLRNEKELTLPAQMTIVNADEN--EVLL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV +L R G +L L G R ++++ + Sbjct: 178 TIHEGKYHQVKRMFAALGNKVEQLHRERIGAIELDESLEPGEYRYLTQEEID 229 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 98/341 (28%), Positives = 146/341 (42%), Gaps = 3/341 (0%) 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 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + + L EGKNREI+++ KV L R++ GP L L G R + + Sbjct: 299 SILELVLAEGKNREIRRMLARLGHKVMSLTRVAVGPITLKGLRTGEVRVLGTAEVDRLKQ 358 Query: 247 PHLLEEAQVN-LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 LD+ SS RDR S D +R + G ++ + Sbjct: 359 IARNPFPPTESLDSDAGSSAPAQRDRDYDRSAKRSDLSRRSAPGFRLGGGNRFGGGSNRP 418 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 R + + S + + P R Sbjct: 419 LGRPVYTPGNEPPEDRSDRRPNRLGGGNRFGEGGNRPLGRP 459 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 64/257 (24%), Positives = 115/257 (44%), Gaps = 9/257 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R++K ++ AG+ SRRE +R + V ++G++ V+ + G P++K Sbjct: 2 QEPVRINKYLSEAGVCSRREADRQVEAGNVTIDGVVA-SMGAKVLPDQTVLFCGKPVKKE 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +HKP G+V T + + V + R+ +GRLD ++EGLLL+TN+G + Sbjct: 61 EEMILLAFHKPTGIVCTAEKREKNNVVDYI--NYPKRIYPIGRLDKDSEGLLLMTNNGDI 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAW 188 + + Y V + V L L G+ + +V Sbjct: 119 VNRIMRAGNMHEKEYIVTVNKPVTDSFLRGLAGGVPLVELNATTRKCKVW----GIGKRQ 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E+F ++V +L+R +LG L AG+ REV+ + +E + Sbjct: 175 FGIILTQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLKAGTYREVTPQEYKELMRLV 234 Query: 249 LLEEAQVNLDAPIYSSE 265 + Sbjct: 235 KDSSNTTVIHGRDGGDR 251 >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 = 168 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 109/239 (45%), Gaps = 4/239 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 + R+ KV+++AGIASRR E+MI RV+V+ ++ V I VDG + Sbjct: 2 TDNDGVRLQKVLSQAGIASRRVAEKMIRDGRVEVDDRIVTELGTRVDPAESVIRVDGARI 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLL 124 + +KP G+ +T SD GR V D + VGRLD +TEGLLLL Sbjct: 62 TVDDTLVHLAINKPRGMHSTMSDDRGRPCVGDLVEHRVRGNKKLFHVGRLDADTEGLLLL 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + + Y G V + L++G+ + L Sbjct: 122 TNDGELAHRLMHPSYEVPKSYVATVLGSVPRGLGRKLREGVELDDGPVQVDDFALVDTTP 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V V L EG+ ++++ + V L+R G LG GS R +++K + E Sbjct: 182 GRTLVRVTLHEGRKHIVRRLLAEVGFPVQNLVRTDIGGVSLGDQRPGSIRALTQKEIGE 240 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 106/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ G SRR V+R+I ++V+VNG++ +NV + V G +R Sbjct: 1 MRLDKLLFETGFGSRRTVKRLIKSKQVQVNGLIALVDNLNVDPQLQEVIVSGELIRFQPH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + VGRLD +TEGLLLLTN+G L Sbjct: 61 VYYMLHKPAGVVSAVSDVLNQTVIDLIEPSQRVPGLFPVGRLDKDTEGLLLLTNNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L +P + ++ Y + +V + GIV G ++T+ ++ + + V + Sbjct: 121 QLLIPKKEVIKCYEAVVNERVTSEDQFAFASGIVFNGGVKCKPAKLTILSESDAESKVLL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++KK+F KV L R+S GP QL L GS R + + L Sbjct: 181 EISEGKFHQVKKMFLSVGKKVIYLKRLSMGPLQLDKTLPLGSYRALHSEEL 231 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 56/263 (21%), Positives = 113/263 (42%), Gaps = 7/263 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K ++ AG+ SRRE +R+I +V V+G + + ++V + Sbjct: 11 QKKEPVRLNKYLSEAGVCSRREADRLIETGKVSVDGKRA-GMGMKIYPGQTVKVGNKTVS 69 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + +KP G+V T + + RV +GRLD ++ GLLL+TN+G Sbjct: 70 RQDEMIVLAVNKPKGIVCTEERRE--RDSIVRFLNYPVRVTYIGRLDKDSRGLLLMTNNG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + + + Y+V ++ +D L + +G+ I +V +K Sbjct: 128 DIINKIMRAANYHEKEYKVTVDHEITEDFLKKMSRGVAILDTVTRPCKV----EKLGKYT 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E ++V L+R+ L L G R+++ + L E Sbjct: 184 FKIILTQGLNRQIRRMCEALGYEVKDLLRVRVMNITLDGLKEGKYRKLTDRELNELDQLL 243 Query: 249 LLEEAQVNLDAPIYSSETLVRDR 271 + + + Sbjct: 244 EQSSSLPGGRESRQERKDGAGKK 266 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 105/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D + KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTVAQFAKGVQLHNEKDLTKPATLEVI----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 83/341 (24%), Positives = 141/341 (41%), Gaps = 8/341 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 170 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 228 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 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 EAQVRKLMATVGLKAPSEEKGKRGGGQ--AERRQPDPMQTSMGFISREPVLTTHGQLDQP 466 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 ++ S G+ + +R S Sbjct: 467 RRGGRRGGPGLPGLSGYGSLPVASGYGNRAGGRDVDGNRAS 507 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 81/356 (22%), Positives = 131/356 (36%), Gaps = 12/356 (3%) Query: 1 MKDK--NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ + + + ++ KV+A AGI SRRE+E +I RV VNG V D Sbjct: 100 MEQRLGKYLNSDSVMPKLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPND 158 Query: 59 HIEVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + V+G P+ K + + +V+ S + +SVGRL Sbjct: 159 QVRVNGKPIMRTNTKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRL 218 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NTEGLL+ T G +A + P R Y VR G++D+ + L GI ++ Sbjct: 219 DLNTEGLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGVAAF 278 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + GSN W V L+EG+NRE++++FE V+RLIR +G L TL G Sbjct: 279 GALDYLGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDVVLPRTLRRGRW 338 Query: 234 REVSKKILREQLG----PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 E+ ++ + +E+ N P + + + Sbjct: 339 EELDGSLVTALMVQLGLLRDDDESGGNRRRSKQPVSHDSALPPGFGTMDRNGMNGARIGR 398 Query: 290 SQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 K + + + + R P Sbjct: 399 RGKLQGGRVGSAGQAAACPSDPFGTGLMIAGGYANGHPLASEGAGGNRKGGKPGGD 454 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 111/232 (47%), Gaps = 5/232 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ K + G+ SRREV++++ +++VN I+++ N+ + D IE DG L Sbjct: 2 EDKMRLDKFLTECGLGSRREVKKLLDNGKIRVNDIIVKNPQANIKESIDKIEYDGNKLEY 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + K + T + I + VGRLD +TEGLLL TNDG Sbjct: 62 KEFRYYIMNKKGGYITATEDPKEKTVMELLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGK 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + Y + ++ + ++ L++G+ I G + + +K + Sbjct: 122 LGHSLLSPKKHVDKTYYAKLEKEIGEVEIKKLEEGVDIGGYITQPAKAKIVGEK----EI 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + +REGK ++KK+ E N KV L R+++G +L + G RE++ + + Sbjct: 178 ELTIREGKFHQVKKMLEAVNNKVVYLKRVTFGKLELKDMELGEVREINLEDI 229 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 88/298 (29%), Positives = 132/298 (44%), Gaps = 10/298 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEV 62 K ++ + +++ KV+ARAG SRRE+E +I RV V+G + + V V I + Sbjct: 2 KATLKGSSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRI 61 Query: 63 DGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG + E L Y L T + + +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---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 LRE + ++V ++ + R R ++ Sbjct: 242 DLAQTNYLRELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 299 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 67/229 (29%), Positives = 105/229 (45%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K +A +G+ASRR+ + +I V VNG + V V TD ++VDG + ++ Sbjct: 4 IRLNKFLASSGVASRRKCDEIIFSGHVTVNGRVAPGPFVLVDEETDTVKVDGRRVGMTKK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ L ++ G V D + RV +VGRLD T GL+L+TNDG + Sbjct: 64 VYFMVHKPLGYLCSSERTFPGDKLVIDLFSHLPYRVFTVGRLDKETSGLILVTNDGEFSN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + Y ++ V L L +G VI G + +K + + Sbjct: 124 KIIHPSFGITKEYLLKVSRDVTAKNLEDLMEGTVIDGKRVRP----VSVEKIRRGTLKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK EI+ E + L RI G F LG L G RE++ + Sbjct: 180 VNEGKKHEIRLFAEAAGLPILELSRIRIGSFVLGGLRYGEYRELTDAEI 228 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 109/230 (47%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV+ ++ +++ VNG ++ V V TD I DG ++ E Sbjct: 1 MRIDKCLADCGLGTRSEVKSLLKSKKITVNGKVVTNGKVQVNPETDEILFDGEKIQYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T + N V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYIMMNKPKGVVSATEDNLHKTVLDLINPLYFKKGVFPVGRLDIDTHGLLLLTNDGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y+ R G + + ++GIV+ G ++ + + + V + Sbjct: 121 RLLSPKKHVTKIYQARVEGVMTPEDAAAFERGIVLSDGTECMPARLDILSTTQDESIVQI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 L+EGK ++K++ + V L R++ G +L L G +R ++++ Sbjct: 181 HLKEGKFHQVKRMVKACGKNVVDLQRLTMGTLKLDERLALGESRPLTEEE 230 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 84/252 (33%), Positives = 125/252 (49%), Gaps = 7/252 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----R 68 +R+ K++AR G+ SRRE+E I RV+VNG+ + V D + +DG P+ + Sbjct: 3 ERLQKILARGGLGSRREIEAWIKAGRVRVNGVPAQ-LGDKVSVKDRVTIDGRPISPKRLQ 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + + + 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 HLLEEAQVNLDA 259 +E Sbjct: 242 AGMEPRPTQSRP 253 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 89/295 (30%), Positives = 128/295 (43%), Gaps = 12/295 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRVEPGASLKIRIDGHVVPVS 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + +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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 RE +G ++V ++ ++ R K Sbjct: 241 RELVGLAPETVSKVPVEKDRRRTKANQIRRAVKRHTTTKVSKPGSGRRPSKRQQG 295 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVI----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 53/239 (22%), Positives = 101/239 (42%), Gaps = 7/239 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + ++ GI + G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLEQPISEETEEKFLAGIQLNGEKTLTKPAKLEIIEPQI----VRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 + EG+ ++K++F V L R G L L AG R ++ + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGEIYLDPALEAGEYRALTDSEINSIQMPRF 235 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 63/224 (28%), Positives = 100/224 (44%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + V D I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTEFDEILFDGEKINYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + GRLD +TEGLL +TNDG LA Sbjct: 64 IYIMMNKPKGVISATYDPIEKTVIDLLPQELKARNPFPAGRLDKDTEGLLFITNDGNLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y G V++ + K+GIV++ + + + V V Sbjct: 124 KLLSPKKNVIKKYYAEILGFVNERDIKAFKEGIVLEDGYKTLPADLEILLSSEV-SKVYV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 +REGK +IK++FE KV L R++ G L L G R Sbjct: 183 YIREGKYHQIKRMFESVGKKVVYLKRLAMGSLTLDENLKPGQWR 226 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 61/233 (26%), Positives = 107/233 (45%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ + V VNG + ++ T D I V G L + Sbjct: 1 MRLDKFLVENGLGSRSQVKEVLKKGLVLVNGRAEKSPKTHINETADEIVVSGQKLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPKGYISATEDERHKTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 + P ++YR + G ++Q + +GI ++ Q+ + ++ + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMNQSDVEQFARGIELKDFTCQPAQLKIVELDEEKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + L EGK ++K++ +V L R++ GP QL L G R ++K+ ++ Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQLDSGLALGEWRRLTKEEMK 233 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 81/231 (35%), Positives = 129/231 (55%), Gaps = 1/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + EG+NR+++++F +V RL R+ + L L G++R +S + +RE Sbjct: 183 IHEGRNRQVRRMFAAVGCRVLRLRRVRFAMLTLKDLPCGASRPLSAEEIRE 233 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 57/227 (25%), Positives = 101/227 (44%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + VKVN +++ ++V D I V+ + Sbjct: 1 MRLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYI-D 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G ++ D + + + VGRLD +TEGLLL+TNDG Sbjct: 60 KVYIMLNKPKGYISATEDELHPTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ + Y V + Q ++ K GI + +K + V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIELSDGKLKPA----ILKKVDDYVSHVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L GS R +++ Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYRLLTQ 222 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 144/356 (40%), Positives = 196/356 (55%), Gaps = 14/356 (3%) 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 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ- 182 LTNDG LAR LE PS+ W+R YRVR G Q +L+ LK G ++G+ YG M+ T+D Sbjct: 163 LTNDGELARSLEKPSSGWVRRYRVRALGHASQSRLDALKDGTTVEGVIYGPMEATIDKVA 222 Query: 183 ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +N W+TV + EGKNRE++KV E KVNRLIR++YGPFQLG L G EV Sbjct: 223 EKADGRANVWLTVAITEGKNREVRKVLESIGLKVNRLIRLAYGPFQLGNLETGEVEEVGP 282 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +++RE L ++ + + E P + + G + Sbjct: 283 RVIRELL---------ADVVSLKNLPPEGASQTGDAPRERPARGDARGEGFGGRRGGGDR 333 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + S+ F +E + + P F R ++ Sbjct: 334 FDKGDRPDRGDRTSSRPQNARGKPEFAEKREFKERDFDQRPRFEGDGEARDRKPER 389 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 55/227 (24%), Positives = 111/227 (48%), Gaps = 7/227 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AG+ SRRE +R+I +V V+G+ + + V + ++V + K + Sbjct: 19 ESVRLNKYLSEAGVCSRREADRLIESGKVTVDGVTAQ-MGMRVTAGQIVKVGKKTVSKQD 77 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V T + + RV GRLD ++ GLLL+TN+G + Sbjct: 78 EMIVLAVNKPKGIVCTEDQRE--RDSIVRFLNYPVRVTYAGRLDKDSRGLLLMTNNGDII 135 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + + Y+V ++ + + + +G+ I V +K ++ Sbjct: 136 NQMMRAANRHEKEYKVTVDKEITEQFIKKMSEGVPILDTVTRPCTV----KKIGKYTFSI 191 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L +G NR+I+++ F ++V L+RI +LG+L G+ R+++ Sbjct: 192 ILTQGLNRQIRRMCAAFGYEVKDLVRIRIMNIRLGSLKEGAYRKLTD 238 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 83/325 (25%), Positives = 134/325 (41%), Gaps = 9/325 (2%) 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 LRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + + + R+ + +VT + + ++ +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-GTLLAGSTREVSKKIL 241 GSN W V + EG+NRE++++FE V+RLIR +G L L G E+ + Sbjct: 277 DGSNKWYRVTIEEGRNREVRRMFEALGLTVSRLIRSRFGDVHLPRNLKRGRWEELDPSQV 336 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 LG D N + + K+ S Sbjct: 337 ---LGLMECLGLNKKNDEDGRKGRRGPVSHGNALPPGFEKSIDPSKDFSIHKVRKSAGGP 393 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLS 326 + R + S +++ Sbjct: 394 QRGLTGRGVPSQRRGRSTRNNTTNR 418 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 102/231 (44%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V +NG + + A V D I DG L Sbjct: 1 MRLDKFLAEMTDLTRSQATKVLRQSAVTINGKIEKSGAAKVGPNDEICYDGERLAWVAEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +KP G + +H D D + + +R+ S GRLD++T GL+LLT+DG + Sbjct: 61 QYIMLNKPQGYICSHEDGDHPTIYQFFGYPLSARLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ + + +GI+++G + + + V + Sbjct: 121 ITSPKHHQPKTYLVTLADPVEANYVQACTEGILLRGEKDPTKPATLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ +IK++F KV L R G L L G R ++ + Sbjct: 177 TISEGRYHQIKRMFAALGNKVVGLHRWKIGALVLDDSLEEGEYRALTAAEV 227 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 76/235 (32%), Positives = 118/235 (50%), Gaps = 1/235 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 + R+ KV+++AG+ASRR E+MI + RV+VNG ++ V I VDG Sbjct: 10 SPSAEGVRLQKVLSQAGVASRRAAEQMIVEGRVEVNGEIVLELGTRVDPDTAVIHVDGNR 69 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + L +KP G++ T SD GR + D L R+ VGRLD+++EGLLL+TN Sbjct: 70 IMVNADLTHLLLNKPKGILCTMSDDQGRPCIGDYLRERQGRLYHVGRLDVDSEGLLLITN 129 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + L+ Y G + ++ L+ GI ++ L Sbjct: 130 DGELAHRLMHPSYRILKTYLAEVPGPIPKNLGRELRNGIELEDGPVKVDSFKLVDVNEGR 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A V V L EG+ ++++ + V RL+R + G +L T G+ R + +K + Sbjct: 190 ALVEVVLHEGRKHVVRRLLKQVGHPVLRLVRTAVGDVRLTTERQGAIRPLDRKEI 244 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 88/296 (29%), Positives = 135/296 (45%), Gaps = 10/296 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRK 69 +++ KV+AR+G SRRE+E +I Q RV V+G + V ST I +DG + Sbjct: 2 SESEKLQKVLARSGQGSRREIEAVIEQGRVSVDGKVATLGDRVDVTSTTKIRIDGRIIAI 61 Query: 70 AE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L Y L T + +R ++VGRLDINT GLLL Sbjct: 62 KPVEDAVCRVLTYYKPEGELCTRRDPEGRPTVFDRLPRLNNARWVAVGRLDINTSGLLLF 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L PS + R Y +R G+VD+DK L +G+ + +T +G Sbjct: 122 TTDGELANRLMHPSCKIEREYALRVFGEVDEDKQRQLTRGVQLDDGPAAFRSLTFQGGEG 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI--- 240 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + Sbjct: 182 LNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDVTLPKGLPRGGWTELPLEQTNY 241 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 LRE++ L ++ ++ + R + R ++ + NG+ Sbjct: 242 LREKVQLPLESVTKLPVERDRRRLKATQIRRVVKRNSQRAPSRRGGQSIKRNNGVG 297 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 95/325 (29%), Positives = 142/325 (43%), Gaps = 16/325 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG L Sbjct: 28 GEKLQKILARAGHGSRREIEAIIQQGRVSVDGKV-SKLGDRVEVTQSTKIRLDGHLLSIK 86 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + SR ++VGRLD+NT GLLL T Sbjct: 87 ESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 146 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G Sbjct: 147 TDGELANCLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGI 206 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L+ Sbjct: 207 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD---LKAT 263 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L E V S + +DR + + + S + +Q Sbjct: 264 NYLRELVELDVETV----SKLPVEKDRRRVKANQIRRAVKRHTEVSGRQVAGRQGSARKG 319 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSG 329 R+N+ + A S G Sbjct: 320 STRQNVGNAAPAATASRRSGPKKRG 344 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 87/292 (29%), Positives = 129/292 (44%), Gaps = 10/292 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 + +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + Sbjct: 20 SSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLIS 79 Query: 69 KAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L Y L T + + +R I+VGRLD+NT GLLL Sbjct: 80 VRESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLL 139 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR GQVD KL L +G+ ++ + + Sbjct: 140 FTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGE 199 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KK 239 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 200 GINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTN 259 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 LRE + ++V ++ + R R ++ Sbjct: 260 YLRELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 88/345 (25%), Positives = 134/345 (38%), Gaps = 14/345 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + T + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAILGERLEDETAVVRIDGHAVSAKAP 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LR+ Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWVELDLKQVNYLRD 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL-----SKQ 298 + +E ++ S + I V R+ +++ + Sbjct: 242 LVELRPEKETMLDESKDNTSRKRERSRSQKIRRAVKRHEERITTTTAKPKSRVTNGTTTG 301 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 R + ++P Sbjct: 302 GSTGNAPTRARRKPGSSTRNSAQEQSSRQGTRAPSGKAKAPRRQG 346 >gi|310767747|gb|ADP12697.1| 23S rRNA pseudouridylate synthase B [Erwinia sp. Ejp617] Length = 295 Score = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 87/295 (29%), Positives = 128/295 (43%), Gaps = 12/295 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I+ RV V+G L V I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETLISAGRVSVDGKLAT-LGDRVEPGASLKIRIDGHVVPVS 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + +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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 RE +G ++V ++ ++ R K Sbjct: 241 RELVGLAPETVSKVPVEKDRRRTKANQIRRAVKRHTTTKVSKPGSGRRPSKRQQG 295 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 94/307 (30%), Positives = 137/307 (44%), Gaps = 13/307 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEGLIKSGRVSVNGQVAKLGERLEDENSVIRIDGHTVSGKAS 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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 S T + + ++ R ++ ++ G S Q K Sbjct: 242 LVELKPEKETLLDLD----PSNTSRKRERSRSQKIRRAVRRHEERANAPKGRSNQAKRKK 297 Query: 304 PVHRRNL 310 P R Sbjct: 298 PATRGTT 304 >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 = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 91/320 (28%), Positives = 132/320 (41%), Gaps = 9/320 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNAVVRIDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-LLAGSTREVSKKI---LRE 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+ + + I V R+ + ++K Sbjct: 242 LVELRPEKETVLNMAPDAATRKRERTRSQKIRRAVRRHEERISATPGRSGKAPARRKPGG 301 Query: 304 PVHRRNLASNVWMAKGIHSS 323 RN +N + Sbjct: 302 EPSTRNKVANQQQSSRKPRG 321 >gi|329667573|gb|AEB93521.1| ribosomal large subunit pseudouridine synthase B [Lactobacillus johnsonii DPC 6026] Length = 233 Score = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 64/233 (27%), Positives = 106/233 (45%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++ V VNG +++ V D + VDG + + Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVDGEKVAYQQYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDRSQKTVLSLLKPKDRYKGIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ + YR + G D++ + + G+ + G ++ + Q + + Sbjct: 121 LLAPNKHVTKKYRAKIAGVADEETVEIFASGMTLGDGTKLKPAELKILIQDKEADRSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK +IK++F KV L RIS G L +L G +E+S K ++ Sbjct: 181 IEIQEGKYHQIKRMFGAVGMKVIELDRISMGKLVLPTSLKRGEYKEISLKEIK 233 >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 = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 106/232 (45%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + R + V +NG L + +V + TD I +G L + Sbjct: 1 MRLDKFIAENTGLTRSQAARALKSGLVTINGKLEKSGSVKIGDTDEICYEGERLEWVDEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYVCSHDDGEYPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ L +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAKKLAEGILLRGEREPCLPAKMEVI----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F KV L R G L L G R +S++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDENLEEGEYRPLSEQEVE 228 >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 = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 54/241 (22%), Positives = 103/241 (42%), Gaps = 5/241 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + R+ K ++ A I +R EV+++I + RV VN ++ +V D IE Sbjct: 3 KKISKKESEIKSIRLDKFLSNAHIGTRNEVKKIIKEGRVSVNFEIIRNPDFHVKLDDIIE 62 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 +DG + + + + + TT S + + + GRLD + EGL Sbjct: 63 LDGNRIEPHKNVYIIFHKPSGFVSTTSDR--EPSVLNLIDHPYLNELHIAGRLDKDVEGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD-QDKLNLLKKGIVIQGICYGDMQVTLD 180 L+LTNDG L P + Y + V+ + + + + + Sbjct: 121 LILTNDGEFTHNLISPKKHIEKEYWIYTKENVEVTQNMVKMVSEGIELEKGTKTLPGKI- 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +K S +++ + EGK ++KK+ + +++R+ G L L G +E+SK+ Sbjct: 180 -RKVSEKIISLTIVEGKYHQVKKMCISLGIEWEKIVRVRIGNLTLEGLEKGKWKELSKEE 238 Query: 241 L 241 + Sbjct: 239 I 239 >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 = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 75/225 (33%), Positives = 120/225 (53%), Gaps = 4/225 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWLY 78 ++ G+ASRR E MIA RV+VNG++++ V V D I VDG L K + Sbjct: 1 MSNCGVASRRASEEMIAAGRVRVNGVIVKTPGVKVDLQKDIIVVDGKRLEKPAKQYYLFN 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 ++TT D R+TV D ++ R+ VGRLD NTEGLL++TNDG LA +L PS Sbjct: 61 KPKG-VLTTVKDDRERNTVMDYFKNVKDRIYPVGRLDQNTEGLLIMTNDGALANILMHPS 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|154687141|ref|YP_001422302.1| YtzF [Bacillus amyloliquefaciens FZB42] gi|154352992|gb|ABS75071.1| YtzF [Bacillus amyloliquefaciens FZB42] Length = 239 Score = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 58/224 (25%), Positives = 94/224 (41%), Gaps = 3/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A +G SR++V++++ V ++G + +V I V G P E Sbjct: 1 MRLDKLLANSGFGSRKDVKKIVKAGAVMIDGEPAKDVKTHVDPEKQDITVYGEPADYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L T GRLD +TEG LLLTNDG LA Sbjct: 61 IYVMMNKPQGVLSATEDSRQQTVVDLLTPEEQRFEPFPAGRLDKDTEGFLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y VR + + + L++G+VI+G V + T+ + + Sbjct: 121 RLLSPKKHVPKTYEVRLTSPLSPEDIVHLERGVVIEGGYKTKPAAVEIITESPDETVIHL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 + EGK ++K + + +V L R+S G L L G R Sbjct: 181 TITEGKYHQVKLMAKAVGNEVAYLKRLSMGAVSLDPDLKPGEFR 224 >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 = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 75/291 (25%), Positives = 119/291 (40%), Gaps = 14/291 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ + +ARAG+ASRR E ++ RV VNG++ V DHIEVDGVP++ + Sbjct: 29 TMRLQRFLARAGVASRRGSEDLMTAGRVTVNGLVATELGTKVDVDRDHIEVDGVPVKLNQ 88 Query: 72 -RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L LY L T + + F + VGRLD +T GLLL T DG L Sbjct: 89 GAVYLMLYKPTGYLTTMSDPQERPCVADLVPRNRFPGLFPVGRLDRDTTGLLLFTTDGDL 148 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--------- 181 ++ L PS + Y+ GQ+ L+ L++GI + + Sbjct: 149 SQDLLHPSKHVHKTYQALVDGQLTDRDLDQLRRGIELDDGLCQPAICRVINAREAVAVAP 208 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 K V V +REG+ ++K++ + V RL R ++ +L + GS RE++ + Sbjct: 209 QGVKPGTTAVEVIIREGRKNQVKRMLGKIHHPVIRLHRCNFAGLELEGVAKGSWRELTDR 268 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 + + L + Q + + R R Sbjct: 269 EV-QILKSGGIPPKQASAKRNGDKPQDTPASRTRHHGSHGSAPKRNTYRER 318 >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 = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 81/279 (29%), Positives = 130/279 (46%), Gaps = 6/279 (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----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 AE+ L + + ++ 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 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 +N W V L EG+NRE+++++E +V+RL R+ +G L L G +E+ K ++E Sbjct: 184 ANHWYYVALMEGRNREVRRLWESQEIQVSRLKRVRFGGVFLPSKLRQGQWQEMPYKEVQE 243 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 +E + P + R N + P Sbjct: 244 LYKMAGMEALKPQKMMPKELQSMERQQRKNRGIKHPRRS 282 >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 = 167 bits (422), Expect = 2e-39, Method: Composition-based stats. Identities = 83/341 (24%), Positives = 141/341 (41%), Gaps = 8/341 (2%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + + Sbjct: 157 NKRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRI 215 Query: 63 DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G P+++ L + +V+ S P ++ ++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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 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 EAQVRKLMATVGLKAPSEEKGKRGAGQ--AERRQPDPMQTSMGFISREPVLTTHGQLDQP 453 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 ++ S G+ + +R S Sbjct: 454 RRGGRRGGPGLPGLSGYGSLPVASGYGNRAGGRDVDGNRAS 494 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 100/228 (43%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + +D + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVKLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >gi|329725501|gb|EGG61981.1| pseudouridylate synthase [Staphylococcus epidermidis VCU144] Length = 230 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 57/227 (25%), Positives = 101/227 (44%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + VKVN +++ ++V D I V+ + Sbjct: 1 MRLDKFLANMGVGTRSEVKQLLKKGSVKVNQNIVKLPKLHVNPNSDEIMVNDEVVSYI-D 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G ++ D + + + VGRLD +TEGLLL+TNDG Sbjct: 60 KVYIMLNKPKGYISATEDELHPTIIDLLPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ + Y V + Q ++ K GI + +K + V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDKFKSGIELSDGKLKPA----ILKKVDDYVSHVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L GS R +++ Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRIKIAQLELDHNLDLGSYRLLTQ 222 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 79/356 (22%), Positives = 133/356 (37%), Gaps = 29/356 (8%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D ++V+ Sbjct: 139 KRVLPPQVEMPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRVQYGDQVKVN 197 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 198 GRPIRYRIDPPAPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLAHGKWQSVGRLDLNTE 257 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y VR G + ++ L G+ ++ + Sbjct: 258 GLLLFTSAGELANKLMHPRFGLEREYAVRVLGALSNEEKQRLLDGVQLEDGMAAFGSIED 317 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +GSN W V + EG+NRE++++ E V+RLIRI YG L L G+ E+ + Sbjct: 318 GGGEGSNCWYRVTISEGRNREVRRMLESVGHAVSRLIRIRYGSMMLPRGLKRGAWLELDE 377 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + +R + + + R + Sbjct: 378 RDIRALMQAAGADMPRPAGPGAAAGDRKGGGPRKGGGRGQGGPGGPAPRGD--------- 428 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 G + S + + + S + SL R + Sbjct: 429 --------------YFNPPAGGRGKRAAPSSSQPDPMKTSVGYIGSDSLARHRQDQ 470 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 58/238 (24%), Positives = 111/238 (46%), 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 IRLDKFLSEMGVGTRQEVKQYIRKGKVEVDGEIAKRPELKVDETKANVTLDGERIGYASY 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ D ++ + + VGRLD +T GLLL+TNDG LA Sbjct: 67 VYYMLNKPSG-VVSATEDKREKTVIDLIKGQKRKDLFPVGRLDKDTVGLLLITNDGNLAH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNAW 188 L P + Y + G V +D +G+ I + ++ + + + Sbjct: 126 RLLSPKHHVDKCYFAKVQGNVTKDDAEKFAEGVNIGTEDEPEITMPGKLDII-KSDDLSE 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 + + ++EGK ++K++F+ +V L R G L L G R ++++ L+ L Sbjct: 185 IRLTIQEGKFHQVKRMFQAVGKEVVYLKRERMGSLILDDNLAEGEYRMLTEEELKNLL 242 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 84/308 (27%), Positives = 126/308 (40%), Gaps = 13/308 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+A AGI SRR++E IA+ R+ VNG V +D I DG +R++ Sbjct: 54 EKLHKVLADAGIGSRRDMEERIAEGRISVNGEPAHV-GQRVTPSDVIRFDGRIVRRSALE 112 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + +V+ + +R I+VGRLD NTEGLLL T+ Sbjct: 113 NNDVPKVLIYHKPAGEIVSKDDPEGRPTVFDHLPRIGGARWIAVGRLDFNTEGLLLFTDS 172 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR G + + + L KGI + + KG N Sbjct: 173 GNLANFLMHPRHEIEREYAVRVQGTMSPEAKDKLLKGIKLDDGIAKFTTLEEGGGKGFNR 232 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE++++FE V+RLIR+ YG +L L G TR +S + Sbjct: 233 WYNVTLSEGRNREVRRMFEAVGLPVSRLIRVKYGNLELPSDLPRGKTRRMSTEE-----T 287 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ + P + + S + + P+ Sbjct: 288 EKWLDSISYKKGMSTAPAPRAPERTPRPAASRAPASAPKAGRKFGQRDTSSAIRSSRPMR 347 Query: 307 RRNLASNV 314 R Sbjct: 348 SRGTRGPK 355 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 95/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 49/230 (21%), Positives = 100/230 (43%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN ++ + A V +E G ++K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNDVMQKSGAFKVTDACVVEWQGREIQKPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGFVCSHEDGFNQ-TAFALLDEVKMEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + L +G+ ++ + T++ + + + Sbjct: 120 ITSPKHKCEKTYRVWLVDPIGDDYADKLAQGVELRNEKEPTLPATMEVVNHDENELLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 EGK ++K++F KV L R G +L +L G R ++++ + Sbjct: 180 TEGKYHQVKRMFAALGNKVEHLHRERIGAIELDYSLEPGEYRYLTEEEVD 229 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 83/232 (35%), Positives = 121/232 (52%), Gaps = 1/232 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T +R+ K+IA AG+ SRR+ E ++ QQRV+VNG ++ D I VDG PLR E Sbjct: 2 TGERLQKLIAAAGLCSRRKAEELLRQQRVRVNGQIVALGDRADPEQDRICVDGRPLRAPE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGL 130 TRL L +KP+G++++ DP GR TV D +P+ R +GRLD ++ G LLLTN G L Sbjct: 62 ATRLLLLNKPVGVISSCYDPRGRRTVLDLIPNHLRRGLHPIGRLDADSRGALLLTNRGQL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV G L + G+ + G V ++G + Sbjct: 122 TLRLSHPRYAHSKTYRVWLEGDPSPQHLQSWRDGVWLDGQRTQPATVQRLRREGGRTLLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L+EG+NR+I++ + V L RI+ LG+L G R + + R Sbjct: 182 VTLQEGRNRQIRRTADQLGHPVLDLQRIAIAGIPLGSLAEGEWRALHRGEWR 233 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 91/312 (29%), Positives = 131/312 (41%), Gaps = 9/312 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAVVRIDGHTVSAKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---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 VHRRNLASNVWM 316 + Sbjct: 303 GEQGARNKQRQR 314 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 64/244 (26%), Positives = 102/244 (41%), Gaps = 1/244 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KA 70 T QR+ K+IA AG+ SRR E + RV V+G + I VDG PL Sbjct: 2 TRQRLQKLIAAAGLCSRRRAEEWLQAGRVTVDGQVARVGDQADPQQQTIHVDGQPLPSPG 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + + + R+ + P + + VGRLD ++ G LLLT+ G L Sbjct: 62 MARVLLMNKPVGVICSCDDPQGRRTVLDLLPPEHRAGLHPVGRLDADSHGALLLTDLGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV G + L+ ++G+ + G +V G + + Sbjct: 122 TLKLTHPRYSHAKTYRVWVQGVPSEPVLDRWRRGVPLDGRLTRPARVRQLRTWGDRSLLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + LREG+NR+I+++ E + V L R + LG L G + + + L Sbjct: 182 IELREGRNRQIRRMAEALGYPVVDLQRTAIAGLPLGDLAEGCWIWLCEGEWKPLLERAGS 241 Query: 251 EEAQ 254 + Sbjct: 242 MDLP 245 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV+ ++ + +V VN + + ++ T D + V+G + Sbjct: 1 MRLDKFLANMGVGTRTEVKHLLKKGKVTVNTSVEKSPKSHINPTEDIVHVNGKQVEFVNN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D R+ + + VGRLD +TEGLLL+TNDG + Sbjct: 61 VYIMLNKPKGYI-SATHDESNRTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGQFSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y V V + ++ KKGI++ Q+T + S V Sbjct: 120 DLMSPSKHVSKTYEVTSKKPVTKVDIDAFKKGIILSDGPVKPAQLTRINETIS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F +V L R+ L L +G + +S K L+ Sbjct: 176 IYEGKYHQVKRMFHAIENEVLELKRLKIANLALDENLKSGEYKLLSDKELK 226 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 64/257 (24%), Positives = 115/257 (44%), Gaps = 9/257 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R++K ++ AG+ SRRE +R + V ++G++ V+ + G P++K Sbjct: 2 QEPVRINKYLSEAGVCSRREADRQVEAGNVTIDGVVA-SMGAKVLPDQTVLFCGKPVKKE 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L +HKP G+V T + + V + R+ +GRLD ++EGLLL+TN+G + Sbjct: 61 EEMILLAFHKPTGIVCTAEKREKNNVVDYI--NYPKRIYPIGRLDKDSEGLLLMTNNGDI 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAW 188 + + Y V + V L L G+ + +V Sbjct: 119 VNRIMRAGNMHEKEYIVTVNKPVTDSFLRGLAGGVPLVELNATTRKCKVWRI----GKRQ 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+++ E+F ++V +L+R +LG L AG+ REV+ + +E + Sbjct: 175 FGIILTQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLKAGTYREVTPQEYKELMRLV 234 Query: 249 LLEEAQVNLDAPIYSSE 265 + Sbjct: 235 KDSSNTTVIHGRDGGDR 251 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 62/254 (24%), Positives = 107/254 (42%), Gaps = 16/254 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-------- 58 + ++ R++K +A G+ SRR R I ++ ++G L + TD Sbjct: 1 MTQDNPSIRLAKYLAMTGLCSRRAATRYIRDGQITLDGRLANHIDT-ISLTDSDSGFISQ 59 Query: 59 -HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 ++ DGV ++ E + W+ +K + T + +L R+ VGRLD + Sbjct: 60 EILKFDGVLIQGIESKQYWMLNKS--VGTDCRLLPHDPSSLLHLLPASPRLYPVGRLDKD 117 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + G LLLTNDG L + L P + Y V D L + +G+ + + Q+ Sbjct: 118 SRGQLLLTNDGELTQKLMHPDFGHSKTYHVLVDRNFDDSFLISMAQGVSYRDVTTLPCQM 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T + L +G NR+I+++ + +KV L R+ +LG L G RE++ Sbjct: 178 TRLDDDK----FEIILTQGLNRQIRRMSQALGYKVIDLKRVQIQTLKLGELEEGEMRELT 233 Query: 238 KKILREQLGPHLLE 251 L L Sbjct: 234 TNELALLLESCRPS 247 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 111/229 (48%), 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 L+ +++ D ++ + + + VGRLD +TEGLLL+TNDG LA Sbjct: 63 EYYMLHKPAG-VISATEDAREKTVIDLIVSRKRKDLFPVGRLDKDTEGLLLITNDGELAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y + G V Q+ + +G+ I V + G + + + Sbjct: 122 RLLSPKKHVDKTYYAKVQGIVTQEDVRKFAEGVDIHEKKLTAPAVLEVVKSGEVSEILLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + EGK ++K++FE KV L R+S GP QL L+ G RE+++K Sbjct: 182 ICEGKFHQVKRMFEAVGKKVIYLKRLSMGPLQLDETLMPGEYRELTEKE 230 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 58/224 (25%), Positives = 96/224 (42%), Gaps = 10/224 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--E 71 R++K I+ G SRRE R+IA R+ +NG + A V D + +DG P+ E Sbjct: 1 MRINKYISETGFCSRRETNRLIAAGRITINGSVC-EAGAEVEPLDIVLIDGKPIPINHSE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L + T +G + SR+ ++GRLD +EGL+LLTNDG + Sbjct: 60 PVYLALNKPIGIVCTAAEQVEG---NIIRYVNYPSRIFAIGRLDKASEGLILLTNDGSIV 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V V + + +G+ I + +V S + Sbjct: 117 NQMMRSEHGHEKEYVVTVDKPVTDEFTQTMSRGVEILNVITKPCKVDRI----SEYEFRI 172 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 L +G N +I+++ + ++V +L R+ L L G R Sbjct: 173 ILTQGLNLQIRRMCKALGYRVLKLERVRIMNITLDHLERGQWRH 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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 102/231 (44%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVI----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 65/224 (29%), Positives = 102/224 (45%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K+++ GI +R+EV++ I + V VNG ++ A + V D I DG + E Sbjct: 4 MRIDKLLSNIGIGTRKEVKKFIKEGLVLVNGNTVKDAGLIVDTEFDEILFDGEKINYKEF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T+ + VGRLD +TEGLLL+TNDG LA Sbjct: 64 IYIMMNKPKGVISATYDPIEKTVIDLLPQELKARNPFPVGRLDKDTEGLLLITNDGNLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y G V++ + K+GIV++ + + + V V Sbjct: 124 KLLSPKKNVIKKYYAEILGFVNERDIKAFKEGIVLEDGYKTLPADLEILLSSEV-SKVYV 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTR 234 +REGK +IK++FE KV L R++ G L L G R Sbjct: 183 YIREGKYHQIKRMFESVGKKVVYLKRLAMGSLTLDENLKPGQWR 226 >gi|226943690|ref|YP_002798763.1| Pseudouridine synthase [Azotobacter vinelandii DJ] gi|226718617|gb|ACO77788.1| Pseudouridine synthase [Azotobacter vinelandii DJ] Length = 382 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 92/350 (26%), Positives = 149/350 (42%), Gaps = 12/350 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +++ KV+AR G+ SRR++E IA+ RV VNG + V D I +DG LR+ E Sbjct: 13 QGEKLQKVLARMGLGSRRDIEARIAEGRVMVNGTVAT-LGQRVGRHDAIALDGRLLRREE 71 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R L + T + + R +++GRLDINT GLLL T Sbjct: 72 GAELVRRVLIYNKPDGEICTRNDPEGRPTVFDRLPRLKEGRWVNIGRLDINTTGLLLFTT 131 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGS 185 DG LA L PS + R Y VR G+V ++ L LK+G++++ + +G Sbjct: 132 DGELANRLMHPSYEMDREYAVRVRGEVTEEMLETLKRGVMLEDGPARFTDIQEAPGGEGL 191 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W + EG+NRE+++++E V+RL R+ +GP + L G RE+++ + + Sbjct: 192 NHWFHCVVMEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLAMGRWREMTQDEV-DI 250 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK--LA 302 L + E + + E + R + V R + G Q++ Sbjct: 251 LSREVGLEPLALPEMKLRFREKMERLQRKSAKPVGRGGARERVLRPAHEGAEAQERRAPR 310 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 P R + + R RSP+ +R R+ Sbjct: 311 RPKEERAPRGRGTPVAERPAESVRKRPGRPAGE-RSPAESGERPARKPGP 359 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 82/339 (24%), Positives = 133/339 (39%), Gaps = 6/339 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + K ++ ++ KV+A+AGI SRR++E+MI + R+ VNG + + D I Sbjct: 41 LPAKRVLAPEPDAPKLHKVLAQAGIGSRRDMEQMILEGRITVNGEPA-HIGQRIAAGDRI 99 Query: 61 EVDGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G P+R + + +VT + + 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 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +S++ +R + E + R + + + + + Sbjct: 280 LSEQDVRTLRRMTGVGERPEGEAREAREAGGDRRGKRGKRGRGGNAPEGAPRAARPQRRE 339 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + ++ + + + G Sbjct: 340 GGEGPAIPNPLQQTFDKRAIQQERQRKREIPEDGPIPNP 378 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 52/232 (22%), Positives = 98/232 (42%), Gaps = 6/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E +++ V VN + + AV V IE G L Sbjct: 1 MRLDKFLCDALGATRKEATKILKSGEVTVNEQVQKSGAVKVTEECVIEWQGRELAMQGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGFNH-TAFVLLDEVKMDELHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D L +G+ ++ Q+++ + V + Sbjct: 120 ITSPKHKCDKTYRVWLADPIGSDYAEKLAEGVQLRNEKELTLPAQMSIVNADEN--EVLL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV +L R G +L L G R ++++ + Sbjct: 178 TIHEGKYHQVKRMFAALGNKVEQLHRERIGAIELDESLEPGEYRYLTQEEID 229 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 49/231 (21%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T IE G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDLVQKSGAFKLKETSRIEWQGREITAHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFILLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQVDYAEQFTNGIELRGERELTLPAQLEVV----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEEEI 226 >gi|167562943|ref|ZP_02355859.1| RNA pseudouridylate synthase family protein [Burkholderia oklahomensis EO147] Length = 354 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 76/273 (27%), Positives = 123/273 (45%), Gaps = 6/273 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 48 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 106 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 227 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELEE 286 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 +R + L+ +E D Sbjct: 287 AQVRRLMAAVGLKAPTEEKGKRGGVTERRQPDP 319 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 131/321 (40%), Gaps = 8/321 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL----- 67 +R+ K+++RAG+ASRR+VE IA R+ VNG D I +DG PL Sbjct: 4 ERLQKILSRAGVASRRQVEAWIAAGRLTVNGRPA-VLGTRADPARDVIALDGRPLAGLAE 62 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R + + + + + T + + VGRLD ++EGLLLLT+D Sbjct: 63 RLSRKRYVLFHKPRGMVTTLRDPQGRPNVGDFCRRHGLQGLHPVGRLDFDSEGLLLLTDD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + +VY V G +D +L L+ G+++ + + Sbjct: 123 GELTFALTHPRHEVDKVYHVLVRGDLDPARLRRLRDGVLLDDGPARARIARVLRPRPGGG 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 WV V LREG+ R+++++ + W+V RL+R++ GP +LG L AG+ R +S++ + Sbjct: 183 WVEVVLREGRKRQVRRMCQAVGWQVVRLVRVAVGPLRLGRLAAGAWRPLSRQEVESLRVA 242 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV-H 306 L + R + + G + ++ P Sbjct: 243 AGLPPRPDEPAPRHRQAGEGRPARGPAWGRRVPAGLAGRPPGPARPGAAARRVSEGPALQ 302 Query: 307 RRNLASNVWMAKGIHSSFLSD 327 + V + Sbjct: 303 GQGPRGRVSRPPSGRNRRRKA 323 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 101/233 (43%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ V TD++ G L Sbjct: 1 MRLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNELTDNVTYQGQRLNYETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTNDG LA Sbjct: 61 VYYMLNKPKGVISATEDPSHKTVLDLLDDTARQKAVFPVGRLDKDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L P + Y + G + Q+ + +GI ++ + + S + V Sbjct: 121 ALLSPKKHVAKQYLAKVDGTMTQEDVKHFAQGITLKDHQCMPAYLDILEINESLKTSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + EGK ++K++ V+ L RIS GP QL + L G+ R ++ L Sbjct: 181 ITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLTAAELE 233 >gi|167738823|ref|ZP_02411597.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 14] Length = 359 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 76/274 (27%), Positives = 124/274 (45%), Gaps = 6/274 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 49 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 107 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 228 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 287 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 +R + L+ + + P Sbjct: 288 AQVRRLMSTVGLKAPTEDKGGKRGGPAERRQPDP 321 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 90/313 (28%), Positives = 132/313 (42%), Gaps = 13/313 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKIQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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+ T + ++ R ++ + G S Sbjct: 242 LVELRPEKETMLDLNK----DNTSRKRERARSQKIRRAVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 PVHRRNLASNVWM 316 P Sbjct: 298 PKKTAGDQGARSK 310 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 85/319 (26%), Positives = 124/319 (38%), Gaps = 7/319 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ K + L Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + ++ R ++ S G S + Sbjct: 241 ELVELRPEKETVLNTAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGRSSSARRKPGGE 300 Query: 307 RRNLASNVWMAKGIHSSFL 325 + Sbjct: 301 SSTRNKVANKQQSARKPRG 319 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 83/234 (35%), Positives = 133/234 (56%), Gaps = 2/234 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLR 68 + R+ K++A+AG+ASRR E MI + RV VNG ++ V V + ++VDG+ ++ Sbjct: 144 DHDGVRLQKLLAQAGVASRRVCEEMITEGRVTVNGEVVTELGVRVDPSKVTVQVDGMTVQ 203 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTND 127 ++ ++KP G+V+T DP+GR + D L 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V + GKNR ++++F+ + V RL+R+ GP ++G+ G+ R +SK + Sbjct: 324 LVEVTIHSGKNRIVRRLFDAVGYPVERLVRVEMGPIRIGSQKQGTVRNLSKVEI 377 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 68/244 (27%), Positives = 105/244 (43%), Gaps = 20/244 (8%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 P R+SK +A GI SRRE + I Q VKV+G + V+ HIE+D Sbjct: 2 EPVRLSKRLAELGICSRREADSYIEQGWVKVDGQVA-VLGFKVLPHQHIELDPRAKKAQL 60 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y L + +G + P+ + GRLDI Sbjct: 61 ERVTILLNKPVGYVSGQAEKGYKPAAMLAVPANHWEGDKSGIRFSPNHLKGLAPAGRLDI 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G + Sbjct: 121 DSVGLLVLTQDGVVAKRLIGENSTVEKEYLVRVTGELSPEGLKLLNHGLSLDGQPLRPAK 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V+ + + LREGK R+I+++ E V L R+ G LG L G R + Sbjct: 181 VSWQNEDQ----LRFILREGKKRQIRRMCEQVGLYVVGLKRVRIGNVMLGDLPTGQWRYL 236 Query: 237 SKKI 240 + Sbjct: 237 REDE 240 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 81/258 (31%), Positives = 125/258 (48%), Gaps = 5/258 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ + +ARAG+ASRR E +++ RV+VNG++ V D +EVDG+ + Sbjct: 1 MRLQRFLARAGVASRRGSEHLMSAGRVRVNGLVASELGTKVDVGADRVEVDGIEVVFGAP 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 + +KP G +TT SDP GR V + +P VGRLD +T G+LL T DG LA Sbjct: 61 PVYIVLNKPAGYLTTMSDPAGRPCVAELVPIRRFPGLFPVGRLDKDTTGVLLFTTDGDLA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWV 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 LEEAQVNLDAPIYSSETL 267 + +L P S + Sbjct: 240 PADPPAHLGRPGASRKES 257 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 85/319 (26%), Positives = 124/319 (38%), Gaps = 7/319 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ K + L Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + ++ R ++ S G S + Sbjct: 241 ELVELRPEKETVLNTAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGRSGSARRKPGGE 300 Query: 307 RRNLASNVWMAKGIHSSFL 325 + Sbjct: 301 SSTRNKVASKQQSARKPRG 319 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 85/319 (26%), Positives = 124/319 (38%), Gaps = 7/319 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ K + L Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + ++ R ++ S G S + Sbjct: 241 ELVELRPEKETVLNTAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGRSASARRKPGGE 300 Query: 307 RRNLASNVWMAKGIHSSFL 325 + Sbjct: 301 SSTRNKVANKQQSARKPRG 319 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 100/228 (43%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDMISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SGTEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + +D + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDSNLDSGEYRLLTEN 223 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 81/245 (33%), Positives = 127/245 (51%), Gaps = 4/245 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 ++ KN +R+ KV+A+AG+ASRR E +I + RV+VNG ++ + V D Sbjct: 52 VEGKNKKNSQNQGERLQKVLAKAGVASRRHAEILIDEGRVEVNGQVIIKQGTRVDPNKDV 111 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDI 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|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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 108/230 (46%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG SRR+ + +I + +VK+N ++ ++V D +EV+G L ++ Sbjct: 1 MRINKFIAHAGYTSRRKADELILKGKVKINDEVILEPGIDVCDDDRVEVEGKVLSIEKKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + L I R + GRLD ++EGLL++TNDG Sbjct: 61 YIKLYKPVGFITSNFDPYNEKDLNE--LVDIDKRFFAAGRLDKDSEGLLIITNDGEFTNN 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y V+ ++ + +G+ I G D ++ N V Sbjct: 119 LIHPKYKLDKEYIVKVDKKLKDYQEKQFAQGLDIGNGEKTSDAKIEYL----ENNTYRVI 174 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G NR+I+++F+ F KV L RI G L L R ++ L+ Sbjct: 175 IHQGYNRQIRRMFKVFGIKVVSLKRIRIGKISLSNLKEKEYRYFNEDELK 224 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 67/229 (29%), Positives = 120/229 (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 + GRLD TEG++L++NDG Sbjct: 60 EYYLLYKPKKVICTNSDNFARRLAVDFIRSKKRL-FTYGRLDYMTEGIILVSNDGDTYNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y + ++ L L+KGI+I G ++ +K +A V V + Sbjct: 119 VMHPRKKLFKTYIAKLDKPIEDKDLARLEKGILIDGQKTAPAKI----KKTDDAEVKVSI 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+K+FE ++ V L R++ G F++G L G R++++ + Sbjct: 175 FEGRNRQIRKMFENLHYNVKELKRVTIGEFKIGNLKPGEYRKLTEDEIE 223 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 80/321 (24%), Positives = 130/321 (40%), Gaps = 6/321 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ ++ KV+A AG+ SRR++E +I RV VNG ++ TD + Sbjct: 157 NAKRELRAEDDAPKLHKVLADAGLGSRRDMEELIIAGRVSVNGEPA-HIGQRILPTDQVR 215 Query: 62 VDGVPLRKAE----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 ++G L++ + + +V+ S + S+ ++VGRLD N Sbjct: 216 INGKLLQRKVTKSLPKVMLYHKPAGEIVSRDDPEKRASVFDNLPSLKNSKWLAVGRLDFN 275 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLL TN+G LA L P R Y VR G++++ L G+ + + Sbjct: 276 TEGLLLFTNNGDLANRLMHPRYNIEREYAVRTLGELEEGMRQKLLAGVDLGDGIGQFSSI 335 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V + EG+NRE++++FE V+RLIR YG L L G E+ Sbjct: 336 ADGGGEGINKWYRVTIGEGRNREVRRMFESVGLTVSRLIRTRYGVITLPQNLKRGRWDEL 395 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +R + +E + R + + +N S Sbjct: 396 DDNAVRNLMRLSGMEPKGDKSATETAKGRSAGAKRQGQDRKGSFGRSETLSIHEFRNNDS 455 Query: 297 KQKKLATPVHRRNLASNVWMA 317 + KK T + S Sbjct: 456 RSKKGPTSAQKGAPRSRQPDP 476 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 108/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQWRDLTKKEKR 225 >gi|327538428|gb|EGF25099.1| ribosomal large subunit pseudouridine synthase B [Rhodopirellula baltica WH47] Length = 395 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 83/339 (24%), Positives = 139/339 (41%), Gaps = 3/339 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++++A AG SRR+ E +I + RV V+G + V + VDG LR + Sbjct: 26 RINQLLASAGFGSRRQCEELIREGRVDVDGETITELGTTVDPDLQKVRVDGNYLRPQKLV 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + +L RV VGRLDI++EGL+LLTNDG LA+ Sbjct: 86 YYVVNKPVGIVTTNRDPRGRPRVI--DLVPPTERVFPVGRLDISSEGLILLTNDGDLAQK 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++++ + + E Sbjct: 204 KEGKNREIRRILARFGHKVQQLRRVAIGPLKLGDVPRGAYRKLTRDEVDKLRRSIDAAEK 263 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 P + R + + K G K T R + Sbjct: 264 AAKTAPPARPASKQSIKRRPGGASRNVAAKGTGGRPAFKGGRKAVKNSRTTETRSSATGP 323 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + S +P K++ R T+ Sbjct: 324 KTSKPVKKRTLSSGGSTGTVIGADAPKESRKKTERGTNP 362 >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 = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 84/273 (30%), Positives = 128/273 (46%), Gaps = 7/273 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--- 70 +++ KV+AR+G+ SRRE+ER I + RV+VNG + + D +EVDG Sbjct: 4 EKLHKVLARSGVGSRREMERWIKEGRVQVNGQVAT-LGDRISEGDQVEVDGRKTPLIFDN 62 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ER L + T H + P R I++GRLDINT GLLL T DG Sbjct: 63 QAERRVLIYNKPVGEICTRHDPEGRPTVFRHLPPLKEGRWIAIGRLDINTSGLLLFTTDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G VD+ L LK G++++ V +G+N W Sbjct: 123 ELANALMHPSAQIDREYAVRVLGDVDEAMLQRLKDGVLLEDGMARFTDVQFFDGEGANKW 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 + EG+NRE+++++E +VNRL R+ +GP L + +G+ +E++ K + Sbjct: 183 YHCVVMEGRNREVRRLWESQEIQVNRLKRVRFGPLFLPSDVRSGTWKELTVKEVNSLSKM 242 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 L+ + + R + Sbjct: 243 LELKPKRAPKMTADEKQKYQRRFKKQKARRQEG 275 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 63/227 (27%), Positives = 109/227 (48%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K G+ SRRE +R+IA+ RV +NG + + V D + DGV L++ R Sbjct: 1 MRINKFFTEQGLCSRREADRLIAEGRVTINGRVAK-LGDQVSPQDAVARDGVVLQRGNRA 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 YHKP+G+ TT R+ + + +R+ +GRLD ++ GL+LLTNDG + Sbjct: 60 VYLKYHKPVGVTTTTEPHVRRNIIAEI--GHTARIFPIGRLDKDSSGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + R YRV + D+ L + +G+ I G+ + + L Sbjct: 118 ILRVEHGHEREYRVEVDREFDETFLARMARGVTILGVPTRPCTLARL----GPRRFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EG+NR+I+++ + ++V L R+ + L AG +++ Sbjct: 174 TEGRNRQIRRMCQALGYRVVSLHRVRIMHITIDGLHAGQWMDLTHDE 220 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 99/230 (43%), Gaps = 6/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K++ +G +R+E++ + V VNG ++ ++V V + V G + + Sbjct: 2 IRLDKLLGHSGYGTRKEIKSLCKSGDVTVNGEIVRDSSVKVDEGATVIVAGEKVEYEAVS 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L+ + T SRV VGRLDI+T GLLLL+NDG A Sbjct: 62 YLMLHKPAGVVSATQDSRVRTVLDILPSRYAASRVAPVGRLDIDTTGLLLLSNDGTWAHK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 + P +VY + G + D GIV++ + +K + + + Sbjct: 122 VISPKKHVPKVYEAQVEGVIPADVGERFAAGIVLEDGVECLPAR----AEKTAEGRLQIT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++ V L R G L L AG R+++K+ + Sbjct: 178 VCEGKFHQVKRMCSVVGLTVTSLHRSRIGGLALDKNLQAGEYRKLTKEEI 227 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 79/256 (30%), Positives = 128/256 (50%), Gaps = 15/256 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK-- 69 +RV K++++ GIASRR+ E++I RV++NG + D +EVDG ++ Sbjct: 2 TERVQKILSQWGIASRRQAEKLILAGRVRLNGNIA-SLGDKADPHQDLLEVDGTIIQPVN 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTN 126 R L +KP+G+V+T DP R TV + LP + + + VGRLDIN+ G L+LTN Sbjct: 61 RPRPIYILLNKPLGVVSTCHDPQNRPTVLELLPATLNQGTGIHPVGRLDINSTGALVLTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L L P + Y+V G + L ++G+++ G QV + + Sbjct: 121 DGELTLSLTHPRYHLPKTYQVWIDGNPGEQILQQWREGVMLMGKKTQPAQVKVVKRHHQQ 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKI- 240 + V + EGKNR+I+++ + + V +L R + G QL +L +G R + Sbjct: 181 TQLQVVITEGKNRQIRRIVQLLGFNVLKLHRTAIGLIQLNPANEPSLASGDYRFLKTFEI 240 Query: 241 --LREQLGPHLLEEAQ 254 LR + + EA Sbjct: 241 DYLRNHVNLAIGTEAA 256 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 49/238 (20%), Positives = 96/238 (40%), Gaps = 8/238 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +Q + R+ K + A +R+E ++ V V+ ++ + A + T +E G Sbjct: 20 LQADEVSMRLDKFLCDALGTTRKEATMLLKSGEVTVDDLVQKSGAFKLKETSRVEWQGRE 79 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + ++ + + ++ + GRLD++T GLLL+T+ Sbjct: 80 ITAHGPRYIMMHKPDGVVCSHEDG-FNQTAFILLDEVNIQDLHFAGRLDVDTTGLLLITD 138 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKG 184 DG + + P + + YRV + D GI ++G Q+ + Sbjct: 139 DGQWSHRVTSPKHKCEKTYRVWLADPIQADYAEQFTNGIELRGERELTLPAQLEVV---- 194 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 S V + + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 195 SETEVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEEEI 252 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 95/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 79/306 (25%), Positives = 131/306 (42%), Gaps = 7/306 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV V+G + V I VDG ++ Sbjct: 2 SEKLQKVLARAGHGSRREMEALITAGRVSVDGKVAT-LGDRVEVNAVIRVDGHTVKTRAE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + T H + +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-TLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL+R+ YG L + G +E+ + G Sbjct: 181 WFNVTLTEGRNREVRRLWESQEVQVSRLMRVRYGDVTLDRGIPRGGWQELKLPEVNYLRG 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + ++ + I M+ + + ++K + Sbjct: 241 LVNMPPETESKVDLQQDGKSTRHKQAAQIRRAVKRHKDMQGMEPRARSTTARRKPTSSTR 300 Query: 307 RRNLAS 312 S Sbjct: 301 NSGTGS 306 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 67/228 (29%), Positives = 114/228 (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 KVYIMLNKPEGYVTTNKDEKNRKTILDIVKVN-ERIYPIGRLDYDSSGLLLLTNDGDVYN 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|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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 58/293 (19%), Positives = 112/293 (38%), Gaps = 5/293 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K I +GI SRR+ +R I Q V +NG V++ D ++V+G + Sbjct: 6 SIRLNKYIGESGICSRRDADRYIEQGNVFINGKRASV-GDRVLAGDVVKVNGQLIEPRNE 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + +G + + RV +GRLD +++GL+ LTN G L Sbjct: 65 EDLVVIALNKPVGIVSTTEEGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVN 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V + V ++ + L G+ + G +K S + Sbjct: 125 KILRAGNDHEKEYLVTVNKPVTEEFIRGLGAGVPMLGTV----TKKCKVKKESTFVFRIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L +G NR+I+++ E F ++V +L R L L G R+++ L E Sbjct: 181 LVQGLNRQIRRMSEHFGYEVTKLERTRIMNVSLKGLPPGEWRDLTDDELIELFKLIENSS 240 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 ++ + + + N++ + + + Sbjct: 241 SEDGAAKKAKPKASSAKKPAAVSGAKAGAKAGGNANAAARKRFVQPGRKKKGR 293 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 91/320 (28%), Positives = 132/320 (41%), Gaps = 9/320 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNAVVRIDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-LLAGSTREVSKKI---LRE 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+ + + I V R+ + ++K Sbjct: 242 LVELRPEKETVLNMAPDAATRKRERTRSQKIRRAVRRHEERISATPGRSGKAPARRKPGG 301 Query: 304 PVHRRNLASNVWMAKGIHSS 323 RN +N + Sbjct: 302 ESSTRNKVANQQQSSRKPRG 321 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 66/228 (28%), Positives = 102/228 (44%), 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 + + R+ +VGRLD ++EGLLLLTNDG + Sbjct: 60 IYLLLHKPTGIVCTAQRQV--KNNLIDYMNYRERIFAVGRLDKDSEGLLLLTNDGDIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V L + G+ I VT + L Sbjct: 118 IMRVENGHEKEYIVTVDRPYPDTFLKSMASGVEILDQVTEPCTVTRI----DEMTFRIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++G NR+I+++ + F + V RL R+ + L G RE++ + L Sbjct: 174 KQGLNRQIRRMTKEFGYYVTRLRRVRIMNLSIDRLPYGQWRELTDEEL 221 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 106/232 (45%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++ I++ G+ASRR + +I R+KVNG+ + + D + +D + E Sbjct: 1 MRLNLYISKTGVASRRGADSLIEHGRIKVNGVTA-VLGMQITKNDVVTLDNNIIEPLEEK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +KP+G+V+T + + + ++ VGRLD ++ GL+LLTNDG + Sbjct: 60 FYILLNKPVGIVSTTNTAISGN--MITFMNFKEKIFPVGRLDKDSHGLILLTNDGSIVNK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTV 191 + + Y V + D + + G+ I M + + ++ Sbjct: 118 ILRVENGHDKEYHVTLNKPYDDYFIETMTSGVEIYNPVAHEKQMTMPSILKPLDERTFSL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +R+G NR+I+++ + ++V L R+ LG L G R ++ L+E Sbjct: 178 TIRQGLNRQIRRMADSLGYRVESLERVRIMHLTLGDLPVGYWRYLTSDELKE 229 >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 = 166 bits (421), Expect = 3e-39, Method: Composition-based stats. Identities = 84/339 (24%), Positives = 140/339 (41%), Gaps = 3/339 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+++++A AG SRR+ E +I + RV V+G + V + VDG LR + Sbjct: 26 RINQLLASAGFGSRRQCEELIREGRVDVDGETITELGTTVDPDLQKVRVDGNYLRPQKLV 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + +L RV VGRLDI++EGL+LLTNDG LA+ Sbjct: 86 YYVVNKPVGIVTTNRDPRGRPRVI--DLVPPTERVFPVGRLDISSEGLILLTNDGDLAQK 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++++ + + E Sbjct: 204 KEGKNREIRRILARFGHKVQQLRRVAIGPLKLGDVPRGAYRKLTRDEVDKLRRSIDAAEK 263 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 P + R + + K G KK T R + Sbjct: 264 AAKTAPPARPASKQSIKRRPGGASRNVAAKGTGGRPAFKGGRKAVKKSRTTETRSSATGP 323 Query: 314 VWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + S +P K++ R T+ Sbjct: 324 KTSKPVKKRTLSSGGSTGTVIGADAPKESRKKTERGTNP 362 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 + + ++V ++ + R R ++ Sbjct: 242 DLVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQMAGGRRSGGRNN 289 >gi|13472018|ref|NP_103585.1| hypothetical protein mlr2177 [Mesorhizobium loti MAFF303099] gi|14022763|dbj|BAB49371.1| mlr2177 [Mesorhizobium loti MAFF303099] Length = 250 Score = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 68/227 (29%), Positives = 110/227 (48%), Gaps = 1/227 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +IA+ RV+V G ++ AA+ V D I VDG P+ + Sbjct: 19 LNRALSKLGLCSRTQAELLIAEGRVRVGGKVVRDAALRVDLNRDRIVVDGEPVIAERKVY 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + T + V VGRLD +EGLLL+TND A L Sbjct: 79 VMLNKPRGLVTTRDDPQQRDTVYACLEGLDLPFVSPVGRLDKASEGLLLMTNDTHFANRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P++ + Y V+ D+ L L+ G+ + G + L G AW+ + L Sbjct: 139 MDPASHLPKTYHVQVGTVPDEAMLETLRAGVSVDGETLTANSIVLLRSGGRTAWLEIVLD 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ +V RLIRI+ G LG L G+ R ++ + L Sbjct: 199 EGRNRHIRRLLAAHGIEVKRLIRIAIGRLPLGDLAKGTARHLTPEEL 245 >gi|301165765|emb|CBW25337.1| putative RNA pseudouridylate synthase [Bacteriovorax marinus SJ] Length = 343 Score = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 88/272 (32%), Positives = 130/272 (47%), Gaps = 4/272 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK-AER 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL--L 250 L EG+NREI+K+ E V++L R++ + + G R ++KK L +G Sbjct: 185 LGEGRNREIRKICEACGLTVDKLKRVAIEGLTVEGIAPGKFRYINKKQLLSLIGLSEDGR 244 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 + V + L + + D+ Sbjct: 245 KLESVKAWVSSKKTVNLKKKGVQPGTAADDEA 276 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 89/317 (28%), Positives = 135/317 (42%), Gaps = 8/317 (2%) Query: 1 MKDK-NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTD 58 M DK Q+ +++ K++ARAG SRRE+E I + R+ ++G + V + Sbjct: 1 MSDKTQKTQKTERTEKLQKILARAGHGSRREIEGYIQEGRISIDGKTATLGDRIEVKPSI 60 Query: 59 HIEVDGVPLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 I +DG L E L Y L T H + +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 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 E+ + L E ++ A + ++ + + + Sbjct: 241 WTELGLEQTNYLRQLVDLNEETMSKVAVERDQRRIKANQIRRAVKRHSQVGSSRPAGKRP 300 Query: 293 NGLSKQKKLATPVHRRN 309 S+Q + Sbjct: 301 ASSSRQNAGRKAAPKGR 317 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 53/228 (23%), Positives = 94/228 (41%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ SR+EV+ +I +RV++ G L+ N++ +EV+ Sbjct: 1 MRLDKYLSHLQFGSRKEVKALIRDKRVRIAGELVTDPGYNILPGVAVEVNDAQADGPLEV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + VGRLD +T GLLLLT DG L Sbjct: 61 DYLMNKPAGVITATEDPTQSTVLDLIRPHDYRPGLYPVGRLDKDTTGLLLLTTDGNLGHT 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + Y + + + + L+ G+ ++ V + N + + + Sbjct: 121 LLAPNHHVPKTYAAKLAKALTTEMKHQLEHGVALKDFTTAPADVQVVPAT-DNKEIYITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 EGK +IK++ + +V L RI+ GP +L L AG R ++ Sbjct: 180 TEGKYHQIKRMLLAVDNEVVALTRIAMGPLRLPEDLDAGEYRALTDDE 227 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 79/235 (33%), Positives = 127/235 (54%), Gaps = 2/235 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 N R+ KV+A+AG+ SRR E +IA RV+VNG ++ + V T I VDG+ Sbjct: 90 DANEEGIRLQKVLAQAGVGSRRVSEDLIAAGRVEVNGEIVRHQGMRVDPETAVIRVDGMR 149 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + AE + ++KP+G+V+ D R + D + R+ +GRLD++TEGL+LLTN Sbjct: 150 ISTAEGIVHFAFNKPMGVVS-AMDDPDRPNLGDYVRGRNERLFHIGRLDVDTEGLILLTN 208 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + +VYR + +G V +D L++G+ ++ L G N Sbjct: 209 DGELAHRLAHPSYEIRKVYRAQVYGTVPKDLGRRLREGVDLEDGLARVDHFRLLDSVGRN 268 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A V + + EG+NR ++++ + V L+R +GP LG R ++K+ + Sbjct: 269 ALVEITIHEGRNRIVRRIMDAVGLPVRGLVRTKFGPISLGDQKPERMRPLNKEEV 323 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 90/313 (28%), Positives = 132/313 (42%), Gaps = 13/313 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKIQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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+ T + ++ R ++ + G S Sbjct: 242 LVELRPEKETMLDLNK----DNTSRKRERARSQKIRRAVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 PVHRRNLASNVWM 316 P Sbjct: 298 PKKTAGDQGARNK 310 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 95/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLDVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 143/344 (41%), Positives = 199/344 (57%), Gaps = 4/344 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + + +R++KV+ARAG+ SRR+ E I Q RV VNG ++ A++V + D I Sbjct: 354 KRAAPKKADKSGERIAKVVARAGLCSRRDAEDWIMQGRVAVNGRVIGSPALDVTARDVIT 413 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG PL + ERTRL+LYHKP GL+TTH DP+GR TVFD+LP R+IS+GRLD NTEGL Sbjct: 414 VDGQPLPERERTRLFLYHKPRGLMTTHDDPEGRPTVFDHLPDGLPRLISIGRLDFNTEGL 473 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDGGL+R LE P T WLR YRVR HG V Q +L+ LK G+ + G+ YG + TL+ Sbjct: 474 LLLTNDGGLSRALEHPDTGWLRRYRVRAHGDVTQARLDELKNGVEVDGVKYGSIDATLER 533 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G+N W+T +REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++L Sbjct: 534 DQGANVWLTFAIREGKNREVRNVMAHLGLEVNRLIRVSYGPFQLGEIPEGQVEEIKSRVL 593 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 REQLG ++ A D P+ + + + N K + +K Sbjct: 594 REQLGDKIIALAGAQFDKPVQEGDDAEAKLGRDGTPLRSKAA----NKKIKRSAIEDRKG 649 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR 345 V +R+ + + + + + F K Sbjct: 650 RRVVVQRSGSDEARARNEAEAGGYGPPRRPQRRYHGKRDFTPKD 693 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 88/359 (24%), Positives = 150/359 (41%), Gaps = 19/359 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 2 SEKLQKVLARVGLGSRRYMEEVIAAGRVSVNGQVAQV-GERIEPGDELRIDGRKVSFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + + L Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWMELDKNDI-DNLT 239 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG---------LSK 297 + + + + R + ++ F R ++ ++ G + Sbjct: 240 KAVELKPRQGTGLYGMAKRRTERMQEKPMAARRGGFLRQQRRDNEDEGQQQAKPAFNRER 299 Query: 298 QKKLATPVHRRNLASNV--WMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 ++ RR + + +S + R EN ++ + + + +K Sbjct: 300 RENPNGHSQRRQDNAQTGYGQREPRQNSGYAQRDSRPENFGNKGTYGQRDARDENAPRK 358 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 69/285 (24%), Positives = 122/285 (42%), Gaps = 4/285 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ + +++ G+A+RR+ E +I V VNG + V+ D + V G + Sbjct: 2 DEAIRLQRYLSQCGVAARRKAEELITSGVVSVNGQRVTELGTKVVPGRDRVSVRGEAVYP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + L L + TV + L + +RV+ VGRLD +EG+LLLTNDG Sbjct: 62 EEPFYVLLNKPKGCLTAVTDPENR-PTVMEYLHGLPARVVPVGRLDFYSEGVLLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNA- 187 L+ L+ P + Y V+ QV + L +L++G+ ++ Q+ + S Sbjct: 121 LSARLQSPRHHVEKTYHVKVRDQVTERHLEVLRQGVRLEDGTVTRPAQIDMLGGTKSRHD 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+ + L EGK+R+I ++ + V +L R+++G L G RE+++ + + Sbjct: 181 WLVITLTEGKSRQIHRMLGVLGYTVMKLQRVAFGGLTFHGLRVGDARELTQAEVNDLREL 240 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 L + V E R R + + Sbjct: 241 VGLPKDTVARGKWTSRREETERARRSRARARVGMSGGRDGGRDFR 285 >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 = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 69/264 (26%), Positives = 134/264 (50%), Gaps = 2/264 (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 ++ + LY +TT+ DP+GR TV+ L + + VGRLD++T Sbjct: 61 VTLEGKPLKAATKSYILLYKPKG-YLTTYRDPEGRPTVYALLGDVGKWLSPVGRLDLDTS 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 ILREQLGPHLLEEAQVNLDAPIYS 263 + E G + + D Sbjct: 240 EVHELRGQAAKKASGPARDKNRNK 263 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 96/230 (41%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R E + ++++ RV+VNG + ++ + +D + VDG L + Sbjct: 1 MRLDKYLAETAQCTRSEAKALLSKGRVQVNGAVCKKGDTQLKESDTVAVDGRALSYQQFV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + + D ++ GRLD + G +LLT+DG A Sbjct: 61 YIMLNKPEGVVSASTDKRDTTVVDLVGDAYPRRQLFPAGRLDKTSTGFVLLTDDGTFAHD 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKGSNAWVTVG 192 + P + Y V + ++ G+ + +VT + G V V Sbjct: 121 ILAPKRHVSKTYTVVLDTPLTEEMRTGFAAGVTLADGTALSPAEVTALSADG--CTVRVV 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L++G +IK++F + VN L R + G L L G RE+S + + Sbjct: 179 LKQGVYHQIKRMFGVYGAGVNGLHRDAIGGLALDPALAPGQWRELSAEEV 228 >gi|261408369|ref|YP_003244610.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|261284832|gb|ACX66803.1| pseudouridine synthase [Paenibacillus sp. Y412MC10] Length = 253 Score = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 68/238 (28%), Positives = 112/238 (47%), Gaps = 8/238 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 T QR+ KV++ G SR E+++ Q + VNG + + +V D IE +G ++ Sbjct: 7 TTQRLDKVLSNLGFGSRAELKKKAKQGSIVVNGTVTKDPGKHVDPYADIIEFEGETIQYR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L+ P + T D + VGRLD +TEGLLLLTNDG L Sbjct: 67 EYVYLMLHKPPGVVSATEDLRDRTVLDLLDAEYRVFEPFPVGRLDKDTEGLLLLTNDGKL 126 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN--- 186 A L P + Y G+VD++ + G+ + ++ + + + Sbjct: 127 AHELLSPRKHIPKTYEATVEGRVDEEDVRRFAAGVTLDDGYVTLPGELAIHSHEEREDGV 186 Query: 187 --AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + +++ + EGK ++K++FE KV L RIS G +L L G+ RE++++ L Sbjct: 187 QLSRISLTIHEGKFHQVKRMFEAVGKKVVYLKRISMGELRLDENLEIGTYRELTEQEL 244 >gi|320663977|gb|EFX31164.1| 23S rRNA pseudouridylate synthase B [Escherichia coli O157:H7 str. LSU-61] Length = 290 Score = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 88/289 (30%), Positives = 129/289 (44%), Gaps = 10/289 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 290 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 103/229 (44%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G L E +NV + I V G L ++ Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVEPSLQEIMVSGKRLEQSTE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + R+ VGRLD +TEGLLL+TN+G L Sbjct: 61 KYFILNKPAGVVSAVSDKEHQTVIDLIAEADRVPRLYPVGRLDRDTEGLLLITNNGLLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G + +D + G+ + + + + Sbjct: 121 RMLHPKYHVTKTYYVEVNGLLAEDAPAFFENGVTFDDGTVCKPANLEIIEASSEKSSAYI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R+++G F+LG L G RE++ K Sbjct: 181 SIAEGKFHQVKKMFLAYGVKVIYLKRMTFGDFELGDLPRGQYRELNTKE 229 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 65/251 (25%), Positives = 118/251 (47%), Gaps = 6/251 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK + R+++ +A G+ASRR ++++ RV +NG ++ + V + D Sbjct: 1 MKKRTAENREERLVRINRYLAMCGVASRRASDQLVEAGRVMINGSIILEPGLKVDPSVDE 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + VDG L E ++++ V T + + N S+ R+ VGRLD T Sbjct: 61 VIVDGSMLALPEGKKVYILFNKPKNVITTNSDEKNRETVLNYISVKERIYPVGRLDRKTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV 177 G+LLLTNDG LA L PS+ + Y + L L G+ ++ Q Sbjct: 121 GVLLLTNDGNLAHKLMHPSSNVKKEYIAVLDKKFPHTLLLQLTGGMRLKDTGEKVSPCQA 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + V + + EGKN +++++FE ++V++L R++Y ++G L G R + Sbjct: 181 KILDEG---FQVWLSIHEGKNHQVRRMFETLGFEVDKLERVAYAGLKVGDLRRGEWRALD 237 Query: 238 KKILREQLGPH 248 +K +++ Sbjct: 238 RKEIQQLFQQA 248 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 63/244 (25%), Positives = 106/244 (43%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK+++ G+ SRRE + IA+ VKV+G ++ V+ T I ++ Sbjct: 2 EKIRLSKLMSEQGLCSRREADDFIAKGWVKVDGEIVSELGTKVLPTQKITLEKAAQAKQQ 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ + I L+ + + + S + GRLDI Sbjct: 62 GRVTILLNKPVGYVSGQAEEGHKPAILLLDAATRWEQDTAPHRFHRSQLLGLAPAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L + + Y VR G++ + LNLL G+ + G + Sbjct: 122 DSTGLLVLTQDGRIAKQLIGEDSPIEKEYLVRVQGKLVGNGLNLLNHGLSLDGKKLKPAK 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V+ + + L EGK R+I+++ E KV L R+ G +LG L G R + Sbjct: 182 VSWQNEDQ----LRFILNEGKKRQIRRMCEMVGLKVTALKRVRIGKVRLGDLPQGQWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RADE 241 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 62/240 (25%), Positives = 109/240 (45%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ R++K IA AGI+SRRE + +I V VNG ++ V TD + Sbjct: 52 KKLKPAPKDDGTIRLNKYIANAGISSRREADELILTGVVTVNGKVITEMGYKVQPTDEVR 111 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG + + L + TT + + ++ + + +R+ VGRLD T G+ Sbjct: 112 FDGKKISAEKNVYFILNKPKGYITTTKDEKNRQTVLDLMEGATTARIFPVGRLDRQTTGV 171 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL TNDG L + L PS +VY V ++ + ++KGI + + Sbjct: 172 LLFTNDGFLTKKLTHPSHDVKKVYHVTLDRKLSSHDMAEIRKGIRLIPEGVATVDEVSFI 231 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + L G NR ++++FE ++V +L R+S+ L G R ++ + + Sbjct: 232 DGRPHNEIGLELHIGWNRVVRRIFESLGYQVEKLDRVSFAGLTKSKLRQGQYRALTPQEV 291 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 107/231 (46%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + +A + SR++V+++ Q++K+NG + + V I+V G + Sbjct: 1 MRLDKCLEKAKVGSRKQVKKLFKAQQIKINGQAAQSLSQIVDPELQTIQVSGKKVALEGS 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 AYYLLHKPAGVVSAVTDQEHQTVIDLISPQDSREGLYPVGRLDRDTEGLVLITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 + PS +VY V +G + +D G+ + G +T+ ++ T+ Sbjct: 121 RMLHPSHHVDKVYYVEVNGCLAEDASKFFASGVTFLDGTRCQPADLTVLEASLDHSRATI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EGK ++KK+F + KV L RIS+G F+LG L G+ R+++ + Sbjct: 181 KLAEGKFHQVKKMFLAYGVKVTYLKRISFGGFELGDLERGTYRQLTPNEME 231 >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 = 166 bits (420), Expect = 4e-39, 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|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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 83/318 (26%), Positives = 131/318 (41%), Gaps = 9/318 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL----- 67 QR+ K+++RAGIASRR+VE IA R+ VNG D I VDG PL Sbjct: 4 QRLQKLLSRAGIASRRQVENWIAAGRITVNGRPA-VLGTRADPERDVIAVDGRPLADLRQ 62 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R A + + L+ + T S + + VGRLD ++EGLLLLT+D Sbjct: 63 RLARKRYVMLHKPRGMVTTLRDPQGRPSVGDFCRRAGLRGLHPVGRLDFDSEGLLLLTDD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + +VY V G ++ +L L+ G+++ + + Sbjct: 123 GELTFALTHPRHEVDKVYHVLVRGPLEPQRLRRLRDGVLLDDGPARARSARILRPRPGGG 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 WV V LREG+ R+++++ W V RL+R++ GP +LG L AG R +S++ + Sbjct: 183 WVEVVLREGRKRQVRRMCRAVGWDVVRLVRVAVGPLRLGRLTAGQWRPLSRQEVEALRAA 242 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISE--VPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L + + R S + S + G Sbjct: 243 AGLPIHGDEPAPREGGAAPAITSRWRAASPRAGGGIAAGRAETGSARTGGGVPATPGDAG 302 Query: 306 HRRNLASNVWMAKGIHSS 323 + + +G + Sbjct: 303 GKASGGRAAGRQQGRNRG 320 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 85/319 (26%), Positives = 124/319 (38%), Gaps = 7/319 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + VDG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNALVRVDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ K + L Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + ++ R ++ S G S + Sbjct: 241 ELVELRPEKETVLNTAPDAATRKRERTRSQKIRRAVRRHEERVSTAPGRSGSARRKPGGE 300 Query: 307 RRNLASNVWMAKGIHSSFL 325 + Sbjct: 301 SSTRNKVANKQQSARKHRG 319 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 109/231 (47%), Gaps = 7/231 (3%) 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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +KP G V +H D D + + +++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYIMLYKPQGYVCSHDDGDYPTIYQFFDYPLSTKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V ++ + + GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPIESNYQQACEAGILLRGEKELTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G +L L G R +S++ + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGCIELDETLEEGGYRSLSEQEI 227 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 95/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 72/245 (29%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G ++ Sbjct: 2 EPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLKW 60 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL Y + +V+ S + SR +++GRLDINT GLL+LT Sbjct: 61 ADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTS 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G L + PS + R Y VR G + +++ +L + ++++ ++ +G+N Sbjct: 121 GELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V ++EG+NRE++++FE V+RL+R+ +GP L L G E++ + L Sbjct: 181 KWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYELNPAEVANIL 240 Query: 246 GPHLL 250 + Sbjct: 241 KWAEM 245 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 56/240 (23%), Positives = 117/240 (48%), Gaps = 1/240 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K+K V+ R++K IA AGI SRR+ + I V VNG + V +D ++ Sbjct: 15 KNKPKVETVDGGIRLNKYIANAGICSRRDADIYITAGNVTVNGKTITEMGYKVKLSDEVK 74 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG + ++ L V+ + G + + + +R+ +G+L+ + GL Sbjct: 75 FDGRSITPDKKEYYLLNKPKDVFVSGSLNESGMTVLDIVGRATKARLSPIGKLERSAMGL 134 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 ++LTNDG L++ L P ++Y V+ + ++ Q L +++GI ++ + ++ Sbjct: 135 VVLTNDGTLSKSLANPRHGIRQIYHVQLNKELSQVDLEKIRQGITLEDGEIKVVDISYV- 193 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + S V + ++ K+ ++++F+ N+++ L R+ +G L G R ++K+ + Sbjct: 194 ENKSKREVGIEIKSTKSHIVQRLFKSLNYEIKYLDRVVFGTLTKKDLPRGMFRHLTKQEI 253 >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 = 166 bits (420), Expect = 4e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 96/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTALTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 87/236 (36%), Positives = 125/236 (52%), Gaps = 2/236 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ KV+A+AG+ASRR E+MIA RV V+G ++ + V T I VDG L E Sbjct: 10 GVRLQKVLAQAGVASRRAAEQMIADGRVSVDGQVVRGQGMRVDPTAQVIHVDGERLILDE 69 Query: 72 RT-RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP+G+V+T SDP+GR TV D + R+ VGRLDI+T GLLLLTNDG L Sbjct: 70 TKHVVLAINKPVGVVSTMSDPEGRPTVADIVAGYPERLYHVGRLDIDTSGLLLLTNDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + + Y R HG+V L GI ++ + G V Sbjct: 130 ANRLTHPSYEISKTYVARLHGEVRPGVKRRLMAGIELEDGPIAVDGFRVVDTYGDITTVE 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + EG+NR ++++ + + V L+R +GP +L L G++R V L G Sbjct: 190 IVVHEGRNRLVRRMMDAVGFPVRELVRTGFGPIRLDHLQPGTSRRVKGNALTALYG 245 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 90/295 (30%), Positives = 129/295 (43%), Gaps = 12/295 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRVEPAASLKIRIDGHVVPVS 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 RE +G ++V ++ ++ R K Sbjct: 241 RELVGLAPETVSKVPVEKDRRRTKANQIRRAVKRHTTTKVSKPGSGRRPSKRQQG 295 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 70/249 (28%), Positives = 123/249 (49%), Gaps = 5/249 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ + V + I +D + 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 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---QVTLDTQKGSNAW 188 + P ++L+ Y+ GQV++ ++N L KG+ I ++ + + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVNKQQVNQLIKGVYIDNNYLTKAYSSKLIKYDKLKNVSI 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + EGK +KK+FE ++ +L R ++ L G RE+ +++ G + Sbjct: 184 VELTINEGKKHHVKKMFESIQAQLLKLKRTRIEFLEIDNLKPGQYRELKVHEIKKLYGIY 243 Query: 249 LLEEAQVNL 257 + Sbjct: 244 HSLKQNNKK 252 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 53/228 (23%), Positives = 94/228 (41%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ SR+EV+ +I +RV++ G L+ N++ +EV+ Sbjct: 1 MRLDKYLSHLQFGSRKEVKALIRDKRVRIAGELVTDPGYNILPGVAVEVNDAQADGPLEV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + VGRLD +T GLLLLT DG L Sbjct: 61 DYLMNKPAGVITATEDPTQSTVLDLIRPHDYRPGLYPVGRLDKDTTGLLLLTTDGNLGHT 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + Y + + + + L+ G+ ++ V + N + + + Sbjct: 121 LLAPNHHVPKTYAAKLAKALTTEMKHQLEHGVALKDFTTAPADVQVVPAT-DNKEIHITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 EGK +IK++ + +V L RI+ GP +L L AG R ++ Sbjct: 180 TEGKYHQIKRMLLAVDNEVVALTRIAMGPLRLPEDLDAGEYRALTDDE 227 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 107/236 (45%), Gaps = 5/236 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 65 ++ T R++K +A +G+ASRR+ + +I V VNG + V V TD ++VDG Sbjct: 4 MENIMTKVRLNKFLASSGVASRRKCDEIIFSGHVTVNGRVAPGPFVLVDEETDTVKVDGR 63 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + ++ ++ L ++ G V D + RV +VGRLD T GL+L+T Sbjct: 64 RVGMTKKVYFMVHKPLGYLCSSERKFPGDKLVIDLFSHLPYRVFTVGRLDKETSGLILVT 123 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG + + PS + Y ++ V L L G +I G + +K Sbjct: 124 NDGEFSNKIIHPSFGITKEYLLKVSRDVTAKNLEDLMGGTIIDGKRVRP----VSVEKIR 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + EGK EI+ E + L RI G F LG L G RE++ + Sbjct: 180 RGTIKIIVNEGKKHEIRLFAEAAGLPILELSRIRIGSFVLGGLRYGEYRELTDAEI 235 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + + + Q V +NG + + A V D I DG L + Sbjct: 1 MRLDKFLAEHTGLTRSQATKALRQSAVTINGKIEKSGATKVSPQDAIYFDGELLTWLDVG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +++KP G V +H + + S + +R+ S GRLDI+T GL+LLT+DG + Sbjct: 61 QYLMFNKPQGYVCSHDEDEHPSIYQFFDYPLSARLHSAGRLDIDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ + + +GI+++G + + + V + Sbjct: 121 VTSPKHHQPKTYLVTLADPVEANYVQACAEGILLRGEKDPTKPAVLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F KV L R G L L G R ++ + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVLGLHRWKIGNLTLDDNLAEGDFRVLNAEEI 227 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++ + + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTAEEV 226 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 61/236 (25%), Positives = 106/236 (44%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 R+ K + G+ SR EV++++ +++++VNG + +++ D + G L Sbjct: 2 KEASMRLDKYLVDCGVGSRTEVKQVLKKKKIQVNGKVETSPKIHIDPDKDQVTYLGESLF 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E L + T D + + V VGRLDI+T GLLLLTN+G Sbjct: 62 HEEFVYYLLNKPKGVISATEDDHHQTVLDLLDDTARHKEVFPVGRLDIDTHGLLLLTNNG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SN 186 LA + P +VYR + G + Q+ ++ K+GI ++ ++ + ++ Sbjct: 122 KLAHAMLSPKKHVDKVYRAQVAGIMTQEDIDRFKEGIELKDFTTLPAELEMLEVDQEANS 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++ +V L RIS GP L L G R + L Sbjct: 182 CLVQIRIAEGKFHQVKRMVAACGKEVTDLERISMGPLSLDPALKLGQWRRLQSSEL 237 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 53/228 (23%), Positives = 95/228 (41%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ SR+EV+ +I +RV++ G L+ N++ +EV+ Sbjct: 1 MRLDKYLSHLQFGSRKEVKALIRDKRVRIAGELVTDPGYNILPGVAVEVNDAQADGPLEV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + VGRLD +T GLLLLT DG L Sbjct: 61 DYLMNKPAGVITATEDPTQSTVLDLIRPHDYRPGLYPVGRLDKDTTGLLLLTTDGNLGHT 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + Y + + + + L++G+ ++ V + N + + + Sbjct: 121 LLAPNHHVPKTYAAKLAKALTTEMKHQLEQGVALKDFTTAPADVQVVPAT-DNKEIHITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 EGK +IK++ + +V L RI+ GP +L L AG R ++ Sbjct: 180 TEGKYHQIKRMLLAVDNEVVALTRIAMGPLRLPEDLDAGEYRALTDDE 227 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 69/229 (30%), Positives = 107/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + GI SR+EV+++I+ + VNGI A N+ D IE + L + Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNNEITVNGISNISAKDNIDENSDIIEYNEEKLEYKKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKSGYITATEDFKENTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY V + + + L++G+ I +V +K S+ + + Sbjct: 121 KLLSPKNHVDKVYYVEIKNNISDEDIFKLEQGVDIGNYITQPAKV----EKISDNEIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK +IKK+ E N KV L R+S+G +L L G REV+ + + Sbjct: 177 IKEGKFHQIKKMLEAINNKVCYLKRVSFGRLKLNDLALGEVREVNLEDI 225 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 84/235 (35%), Positives = 128/235 (54%), Gaps = 3/235 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLR 68 + R+ KV+A AG+ASRR E MI RV+V+G ++ + V T I VDG+ L+ Sbjct: 102 DPEGVRLQKVMAAAGVASRRVCEEMIEDGRVEVDGSIVTELGLRVNVETAVISVDGIRLQ 161 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTN 126 E +++KP G+V+T DP+GR + D L + ++ VGRLD TEGLLLLTN Sbjct: 162 LKENMIYLVFNKPRGVVSTMDDPEGRRNISDFLKNKYAHERLFHVGRLDQATEGLLLLTN 221 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + + Y V+ G ++ N ++KGI ++ L + Sbjct: 222 DGELANRLTHPSYEVPKTYLVQTKGPMETGVSNQMRKGIELEDGVTKIDAFKLVDSTPGH 281 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L GKNR ++++F+ + V RL+R+ GP +LG GS R + ++ + Sbjct: 282 VLVEVVLHSGKNRIVRRLFDAVGYPVERLVRLQVGPIRLGDQKQGSIRALGQQEV 336 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 101/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K I + SR E +++I + V VNG +++ + D + V+ L + Sbjct: 1 MRLDKYIGHTTLLSRAESKKIIKKG-VLVNGNIVKAPDFKIDELNDEVIVNEKKLIYQKY 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T VGRLD +TEGL+LLTNDG L Sbjct: 60 IYIMMNKPKGVISATEDSISRTVIDLLEEKDCIFEPFPVGRLDKDTEGLMLLTNDGNLGH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + + + LK+GI+++ ++ + T S + + Sbjct: 120 QLTSPKKDVEKQYYVEVNGVLKVEHIPYLKEGIILEDGYKCKSAKLDILTSDVSKSTAYI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++ + +V L R+S G L L G R ++++ L+ Sbjct: 180 YVTEGKFHQVKRMMKALGCEVTYLKRLSIGELVLDETLELGKYRYLTEQELK 231 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEHFAKGVQLHNEKDLTRPAVLEVI----TPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G +L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVGLHRERIGAIELDPELAPGEYRPLTEEEI 227 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 99/233 (42%), Gaps = 2/233 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R E R++ V VNG+ + +V V +E DG L+ Sbjct: 1 MRLDKFLCETTGATRSEATRIVKSGTVTVNGVKTKVTSVKVTDDSTVEWDGRELKFHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + S + ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGYVCSHEDSTHP-SALTLLDEVNLEKLHFAGRLDVDTTGLVLITDDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + L +GI ++ M T++ + + + Sbjct: 120 ITSPKRKCPKTYRVWLDEPIGAYYAEQLTEGIQLKSETGLIMPATMEVVNEEEHELLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQL 245 +EGK ++K++F KV L R G L +L G R ++ + ++ L Sbjct: 180 QEGKYHQVKRMFAALGNKVEGLHRSQIGGLGLDYSLEPGEYRYLTAEEVKAVL 232 >gi|327390694|gb|EGE89034.1| hypothetical protein SPAR5_0271 [Streptococcus pneumoniae GA04375] Length = 240 Score = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 102/234 (43%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDQIHFDGQKLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVT 190 L P + Y+ + G + ++ + +GI ++ ++ L + + + + Sbjct: 121 TLLSPKRHVDKTYQAQVKGMMTREDVETFAEGIPLKDFTCQPAKLELVSIDTEKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 V + EGK +IK++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQIKRMVAYCGKEVMDLQRLTMGTLVLDENLGRGEWRRLTKEELEN 234 >gi|242243012|ref|ZP_04797457.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] gi|242233613|gb|EES35925.1| pseudouridylate synthase [Staphylococcus epidermidis W23144] Length = 230 Score = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 57/227 (25%), Positives = 100/227 (44%), Gaps = 7/227 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + VKVN ++ ++V D I V+ + Sbjct: 1 MRLDKFLANMGVGTRSEVKQLLKKGAVKVNQNKVKSPKLHVNPNSDEIMVNDEVVSYI-D 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G ++ D + + + VGRLD +TEGLLL+TNDG Sbjct: 60 KVYIMLNKPKGYISATEDELHPTIIDLIPEYAHLNIFPVGRLDKDTEGLLLVTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ + Y V + Q ++ K GI + +K + V Sbjct: 120 EVMNPNKHVSKTYEVYSKHPITQFDIDEFKSGIELSDGKLKPA----ILKKVDDYVSHVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 + EGK ++K++F +V L RI +L L GS R +++ Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRIKIAELELDHNLDLGSYRLLTQ 222 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 53/236 (22%), Positives = 103/236 (43%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 R++K ++ G SRR+ +R+I + +V +NG + V D +EV+G ++ K + Sbjct: 4 RINKYLSEVGYCSRRKADRLIEEGKVTINGKIP-EIGAKVEDGDQVEVEGQRIKKSTKQK 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + TT + R+ +GRLD ++EGL+ LTNDG + Sbjct: 63 NIYLAFNKPIGVVCTTDRG--VEPDNIIDFIKYPKRIFPIGRLDKSSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + ++++ + + G+ I + +K + Sbjct: 121 NKILRARNNHEKEYIVSVNRPINREFIQTMSNGVEILETKTKNC----FVKKLGPKKFKI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 L +G NR+I+++ E ++V L R+ +L L G RE +K+ + + Sbjct: 177 ILTQGLNRQIRRMCESLGYRVQSLKRVRIMNIKL-DLPIGKYREFTKEEISDLNAL 231 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 89/288 (30%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +IA RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIAAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R S+ Sbjct: 242 ELVELKPETTSKVAVEKDRRRMKANQIRRAVKRHSQVGSSRRPGGRSN 289 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 56/238 (23%), Positives = 106/238 (44%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV+ + D ++G+++ G Q+ + S V + Sbjct: 121 ITSPKHHCEKTYRVQLSEDIADDVTIQFEQGVMLNGEKSPTKPAQLEII----SPREVLL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F V L R G L L G R +++ ++ P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVCGLHRERVGEIHLDEQLEPGEYRPLTEAEIKSITVPR 234 >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 = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 91/313 (29%), Positives = 131/313 (41%), Gaps = 13/313 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+ARAG SRRE+E +I RV VNG++ + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGVVAKLGERLEDESSVVRIDGHIVSAKVQ 61 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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 T + ++ R ++ S G S Sbjct: 242 LVELRPEKETMLDLSK----DNTSRKRERARSQKIRRAVKRHEERVSTSKGRSNNPARRK 297 Query: 304 PVHRRNLASNVWM 316 P Sbjct: 298 PKKNAGEQGARNK 310 >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 = 166 bits (420), Expect = 5e-39, 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|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 = 166 bits (419), Expect = 5e-39, Method: Composition-based stats. Identities = 89/288 (30%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +IA RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIAAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R S+ Sbjct: 242 ELVELKPETTSKVAVEKDRRRMKANQIRRAVKRHSQVGGSRRPGGRSN 289 >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 = 166 bits (419), Expect = 5e-39, Method: Composition-based stats. Identities = 92/300 (30%), Positives = 136/300 (45%), Gaps = 10/300 (3%) 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 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWTEL---ELPAIN 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L E + + + R + N I T++ + + SK K + Sbjct: 239 YLRELVELKPETVSKMPVERERRRVKANQIRRAVKRHTQVAGSGRRSAPGSKSGKPSKRS 298 >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 = 166 bits (419), Expect = 5e-39, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 98/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + AG+ SR +V+ ++ +++V VNG+ V D + G L Sbjct: 1 MRLDKFLVDAGLGSRSQVKLLLKKKQVSVNGVSQTSPKYQVNEMADEVSYQGQRLNYEAF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLL+TNDG LA Sbjct: 61 VYYMLNKPKGVISATEDSSHKTVLDLLDDTARQKAVFPVGRLDKDTHGLLLVTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVT 190 L P + Y G + Q+ + +GI ++ + + S + V Sbjct: 121 ALLSPKKHVAKQYLAVVDGMMTQEDVKHFAQGITLKDHQCMPAYLDILEINESLKTSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + EGK ++K++ V+ L RIS GP QL + L G+ R ++ L Sbjct: 181 ITIEEGKFHQVKRMVAACGKTVSDLQRISMGPLQLDSALAPGAYRRLTAAELE 233 >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 = 166 bits (419), Expect = 5e-39, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 99/229 (43%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+ G +R +V++ I Q VKVNG++++ + TD + L + E Sbjct: 4 ERLDKVLGNYGFGTRSDVKKEIYQGNVKVNGLVVKDPGYKITLTDIVVYYDETLNRKEFY 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + P + T + + + + +GRLD TEGLLL T DG LA Sbjct: 64 YFMMNKAPDCITATEDPREKTVMDYLSERHRNMNLFPIGRLDKETEGLLLFTTDGTLAHY 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 P + Y V ++ + GI + ++ + TV Sbjct: 124 YTSPKHFVEKEYYAEISAPVTAFDISQFESGITLDDGYKTLPARLAIPDPSNP-HIATVW 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 LREGK R+I+++F+ +V L R+ G +L L GS RE+++ Sbjct: 183 LREGKYRQIRRMFQSLGKEVQYLKRVKMGNLELDRDLEVGSYRELTEAE 231 >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 = 166 bits (419), Expect = 5e-39, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 104/232 (44%), Gaps = 7/232 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V ++ GI + G + + ++ + Sbjct: 121 ITSPKHHCEKTYLVALDRPIEPGTAEHFAAGIQLNGEKELTKPAVLEVLDEQ----LARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F V L R G L +L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVTALHRERIGAIVLDSSLEPGEYRALTQEEVD 228 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 75/280 (26%), Positives = 118/280 (42%), Gaps = 5/280 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---K 69 +++ KV+AR G+ SRRE+ER I Q RV ++G V + I VDG P+ Sbjct: 20 GEKLQKVLARTGLGSRREMERWIEQGRVSIDGKPAT-LGDRVTHRERISVDGRPVNTTPA 78 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + + + + R+ R IS+GRLD NT GLLL T DG Sbjct: 79 QETRCILYHKPTGEVCSRKDPQGRRTVFERLPKLKSGRWISIGRLDYNTSGLLLFTTDGD 138 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS+ R Y VR G+ +D L L G++++ + G N W Sbjct: 139 LANKLMHPSSNIEREYMVRVMGEWKEDMLQRLLDGVMLEDGVARFSDIQDGGGDGINHWF 198 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 V + EG+NRE+++++E V+RL R+ YG + + G E++ K ++ Sbjct: 199 YVVIMEGRNREVRRLWESQGLTVSRLKRVRYGEVFIPSKVKQGQWVELAGKEIKSLYRMA 258 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 L + + + + K Sbjct: 259 DLPLKDMKRGTIKEREKMERQFSKRKGPGGSSARSGRKPR 298 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 58/223 (26%), Positives = 99/223 (44%), Gaps = 4/223 (1%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWLYHKP 81 G SR+EV++++ VK++G ++ A V+V + + G + E L ++ Sbjct: 1 MGYGSRKEVKKLLKDGVVKIDGTPVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMMHKPQ 60 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 + T D L VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITNDGKLSHQLLSPKKHV 120 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y G V ++ + KG+++ +T+ + + + + + EGK + Sbjct: 121 PKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIELVITEGKFHQ 179 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +K++FE KV L R GP L L G RE++ + + Sbjct: 180 VKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 222 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 81/375 (21%), Positives = 137/375 (36%), Gaps = 27/375 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++G Sbjct: 1 MLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRINGK 59 Query: 66 PLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P+++ L + +V+ S P ++ ++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 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 180 GEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDEAQ 239 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRP---------------------NIISEVP 279 +R + L+ + + P Sbjct: 240 VRRLMSTVGLKAPTEDKGGKRGGPVERRQPDPMQTSMGFINREPVLTTHGQLDQPRRGRR 299 Query: 280 DDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + G + +G+ N + Sbjct: 300 GPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRASYGGAGANKRGAGKGGRNPNGNR 359 Query: 340 SFPSKRSLRRTSAKK 354 + R RT ++ Sbjct: 360 AEGGARGGPRTPQQR 374 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 63/227 (27%), Positives = 110/227 (48%), Gaps = 7/227 (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 + V + R+ ++GRLD ++EGL+L+TNDG + Sbjct: 60 VYIAVHKPVGITSTTEKKVKGNLVDMV--NHPLRIFNIGRLDKDSEGLILMTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + ++ G+ I G +V S + L Sbjct: 118 ILRAEGEHEKEYIVSVDKPITPEFVEQMEAGVKILGQKTLPCKVRPL----SKFDFNITL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G NR+I+++ E ++V RL R+ LG L G R++SKK Sbjct: 174 TQGLNRQIRRMCEALGYEVFRLQRVRVMNITLGKLPPGQWRDLSKKE 220 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 57/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 112/233 (48%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ K++ARAG SRR E +I Q RV+VNG ++ V D ++VDG+ + Sbjct: 73 EQEGERLQKILARAGYGSRRSCEELIEQARVEVNGEIVLEQGKRVDPEKDEVKVDGLTVA 132 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 133 TQSYQFFSLNKPAGVVSTMEDNEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 191 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY G + +D LK GI ++ + Q G N Sbjct: 192 ELAHRLTHPKYGVKKVYLAHIVGPIPRDLGKQLKDGIQLEDGYARADHFRVVQQTGKNYL 251 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 252 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 304 >gi|220929584|ref|YP_002506493.1| pseudouridine synthase [Clostridium cellulolyticum H10] gi|219999912|gb|ACL76513.1| pseudouridine synthase [Clostridium cellulolyticum H10] Length = 245 Score = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 58/245 (23%), Positives = 107/245 (43%), Gaps = 13/245 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK K QR+ KV++ G SR ++ + + V V+G +++ + ++V Sbjct: 1 MKQK---------QRLDKVLSNFGFGSRNYIKGAVKKGLVTVDGRIIKDSGIHVDPEVSI 51 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 IE+DG L + + L + T + GRLDI+TE Sbjct: 52 IEIDGERLNYRKYIYIMLNKPQGVISATSDRKQKTVFDILPEEYKCFDLFPAGRLDIDTE 111 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVT 178 GL+L+TNDG L+ + P + Y + G+V+Q+ +G+ + + Sbjct: 112 GLVLMTNDGQLSHEILSPKKHVPKQYYAKVMGRVNQEDAEAFSRGVTLDDGYQTLPAVLE 171 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 + + + + + + EGK ++K++FE KV L R+S G +L L G +E+ Sbjct: 172 IL-KSDDLSEIKLTIVEGKFHQVKRMFEAVGKKVIYLKRLSMGNLRLDESLQLGECKELG 230 Query: 238 KKILR 242 + + Sbjct: 231 ESDIE 235 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 82/240 (34%), Positives = 130/240 (54%), Gaps = 7/240 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL 67 T R++K IA AGIASRR + ++ + +VKVNG L + + V D +EV+G + Sbjct: 2 TEKTTIRLNKYIASAGIASRRGADELVQKGKVKVNGELADSPGIQVDPDNDRVEVNGKLV 61 Query: 68 RKAERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLL 123 + E+++ L HK I VTT DP GR TV D LP VGRLD +EG+LL Sbjct: 62 QHDEKSKDLYILLHKTIETVTTAKDPQGRKTVLDLLPPDVINRRVFPVGRLDFYSEGMLL 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDT 181 LT DG L + P ++Y V G++ + +L++++ G+ ++ +++ + Sbjct: 122 LTTDGELCNRMTHPKWHLPKIYHVTIRGKLSEKELSVMQNGMYLEDKGELLAPVKIKAIS 181 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + G + LR+G NR+I+++F F+ + RL R+ G +LG L G RE+S K L Sbjct: 182 EVGETTKYEMELRQGINRQIRRMFGEFDKTILRLKRVRQGRIELGALKPGKWRELSAKEL 241 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 66/272 (24%), Positives = 118/272 (43%), Gaps = 6/272 (2%) 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 + VGRLD ++EGL+L+TN Sbjct: 77 ISGKDRPVVLLVNKPRGIVCTTSDRDRAENIVDFIGYPLRV-YPVGRLDKDSEGLILMTN 135 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G L + + Y V ++ + LN ++KG+ I V +K Sbjct: 136 QGELVNRILKGRYGHEKEYLVSVDREITEQFLNRMRKGVKILDTVTRPCTV----EKTGE 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E ++V L R+ +L L G RE+++ +E Sbjct: 192 KSFRIILTQGLNRQIRRMCEALGYRVRTLKRVRIMNLRLDGLKTGEYREITRGEWKELTE 251 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 + + D + + R Sbjct: 252 LLEGKGERRKADQKNAGKHSELGQREPEKGGR 283 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 170/329 (51%), Positives = 213/329 (64%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+SKV+ARAG+ASRR++ERMI + RV +NG +L+ VNV D IEVDGVP+R Sbjct: 44 EAKAERISKVMARAGVASRRDIERMIMEGRVTLNGAVLDTPVVNVTLADRIEVDGVPIRG 103 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ERTRLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLDINTEGLLLLTNDGG Sbjct: 104 IERTRLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLDINTEGLLLLTNDGG 163 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LAR LELP+T WLR YRVR HG +DQD L+ LK GI + G+ YG ++ TLD +GSN W+ Sbjct: 164 LARALELPATGWLRRYRVRAHGDIDQDALDKLKDGIAVDGVLYGSIEATLDRTQGSNVWI 223 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 T+GLREGKNREIK V VNRLIRISYGPFQLG L G EV + LR+QLGP L Sbjct: 224 TMGLREGKNREIKNVMGALGLDVNRLIRISYGPFQLGDLPEGHVIEVRGRTLRDQLGPRL 283 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 +EEA+ N DAPIY++ + + R +++ ++ + R Sbjct: 284 IEEAKANFDAPIYNAPAVAAEEEAEAPVPERREQRPRRDEDKRERALSRLDTKRDDRRGG 343 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRS 338 + G + RRS Sbjct: 344 GRRDDDRRDGGRFDDDKPKRPQPLGQRRS 372 Score = 42.5 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 10/115 (8%), Positives = 27/115 (23%), Gaps = 2/115 (1%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + ++ + + + + S + +D D + ++ Sbjct: 415 IEDRPRTQINRVREEDGEWIRSSEQPNRKDEGEGRKRSFGDRPAREDRGFGDRPARGDRR 474 Query: 301 LATPVHRRNL-ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R S+ + G R R PS + + + Sbjct: 475 PREGGDERPRSRSSAGEGRPERPRGDRPFGDRPSRGDR-PSRGDRPFGDKPRGDR 528 Score = 42.1 bits (97), Expect = 0.15, Method: Composition-based stats. Identities = 14/121 (11%), Positives = 29/121 (23%), Gaps = 2/121 (1%) Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 RE + +R P+ +E + + R + + + Sbjct: 426 VREEDGEWIRSSEQPNRKDEGEGRKRSFGDRPAREDRGFGDRPARGDRRPREGGDERPRS 485 Query: 293 NGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + + + P R ++G S + R P R A Sbjct: 486 RSSAGEGRPERPRGDRPFGDRP--SRGDRPSRGDRPFGDKPRGDRKPRGDGDERPRAARA 543 Query: 353 K 353 Sbjct: 544 S 544 Score = 41.3 bits (95), Expect = 0.21, Method: Composition-based stats. Identities = 18/118 (15%), Positives = 28/118 (23%), Gaps = 7/118 (5%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R G E S+ +RP D +R + S + + Sbjct: 467 RPARGDRRPREGGDERPRSRSSAGEGRPERPRGDRPFGDRPSRGDRPSRGDRPFGDKPRG 526 Query: 302 ATPVHR------RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R ++ A+ G R R P R RR + Sbjct: 527 DRKPRGDGDERPRAARASTGEARSERPRGDRPFGDRPSRGDR-PFGDKPRGERRPREE 583 Score = 39.4 bits (90), Expect = 0.78, Method: Composition-based stats. Identities = 12/115 (10%), Positives = 21/115 (18%) Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + + DRP+ D R + Sbjct: 479 GDERPRSRSSAGEGRPERPRGDRPFGDRPSRGDRPSRGDRPFGDKPRGDRKPRGDGDERP 538 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 + A+ R+ G S + R P R + Sbjct: 539 RAARASTGEARSERPRGDRPFGDRPSRGDRPFGDKPRGERRPREEGDERPRAARS 593 Score = 37.9 bits (86), Expect = 2.4, Method: Composition-based stats. Identities = 11/108 (10%), Positives = 23/108 (21%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G H +E+ + + + + R + + + Sbjct: 411 GSHHIEDRPRTQINRVREEDGEWIRSSEQPNRKDEGEGRKRSFGDRPAREDRGFGDRPAR 470 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R SS +R R PS+ + Sbjct: 471 GDRRPREGGDERPRSRSSAGEGRPERPRGDRPFGDRPSRGDRPSRGDR 518 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 87/292 (29%), Positives = 129/292 (44%), Gaps = 10/292 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 + +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + Sbjct: 8 SSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLIS 67 Query: 69 KAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L Y L T + + +R I+VGRLD+NT GLLL Sbjct: 68 VRESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLL 127 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR GQVD KL L +G+ ++ + + Sbjct: 128 FTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGE 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KK 239 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 188 GINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTN 247 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 LRE + ++V ++ + R R ++ Sbjct: 248 YLRELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 299 >gi|213859463|ref|ZP_03385167.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 231 Score = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNRKSLTKPATLEVI----TPVQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 227 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 49/238 (20%), Positives = 96/238 (40%), Gaps = 8/238 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +Q + R+ K + A +R+E ++ V V+ ++ + A + T +E G Sbjct: 20 LQADEVSMRLDKFLCDALGTTRKEATMLLKSGEVTVDDLVQKSGAFKLKETSCVEWQGRE 79 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + ++ + + ++ + GRLD++T GLLL+T+ Sbjct: 80 ITAHGPRYIMMHKPDGVVCSHEDG-FNQTAFILLDEVNIQDLHFAGRLDVDTTGLLLITD 138 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKG 184 DG + + P + + YRV + D GI ++G Q+ + Sbjct: 139 DGQWSHRVTSPKHKCEKTYRVWLADPIQADYAEQFTNGIELRGERELTLPAQLEIV---- 194 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 S V + + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 195 SETEVLLTIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGDYRYLTEEEI 252 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 54/228 (23%), Positives = 101/228 (44%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V VN +++ ++ D I V G + E Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKAHIEPKNDKISVRGELIEYVEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPKGYI-SATEDHHSKTVIDLIPEYQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V + ++ + K+G+ + +T + S V Sbjct: 120 ELMSPNKHVSKKYEVISANPITEEDIQAFKEGVTLSDGKVKPAILTYIDNQTS----HVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 + EGK ++K++F +V L RI +L L +G+ R +++ Sbjct: 176 IYEGKYHQVKRMFHSIQNEVIHLKRIKIADLELDSNLESGNYRLLTEN 223 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 82/239 (34%), Positives = 122/239 (51%), Gaps = 12/239 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR--KA 70 +R+ K++A+ GIASRR+ E MI RV+VNG ++ +D IEVDGV ++ + Sbjct: 3 ERLQKILAQWGIASRRQAEEMILAGRVRVNGNTVQ-LGQKANPASDRIEVDGVRVKSERR 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTND 127 + L +KP G+V+T SDP R+TV D LP + VGRLD+ + G LLLTND Sbjct: 62 PQPVYLLLNKPAGVVSTCSDPAQRTTVLDLLPPKLRAGCGIHPVGRLDVESTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y+V G + L +G+++ QV + + GS Sbjct: 122 GNLTFALTHPRHCVPKTYQVWVEGDPPKSVLQTWSQGVLLSRRMTLPAQVRVQERNGSQT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKIL 241 + V L EG+NR++++V E + V L R + GP L L AG R + + Sbjct: 182 LLEVILYEGRNRQVRRVAEQLGYPVIHLHRTAIGPILLQPPGEPELPAGHYRPLLDSEI 240 >gi|315180431|gb|ADT87345.1| pseudouridine synthase family 1 protein [Vibrio furnissii NCTC 11218] Length = 315 Score = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 86/315 (27%), Positives = 130/315 (41%), Gaps = 7/315 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDENAVVRIDGHAVSAKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ K + L Sbjct: 182 TFYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIFLDKKLPRGGWMELDLKDV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + T + + ++ R ++ + G S + Sbjct: 241 ELVELKPEKTTMLDVSKDNTSRKRERSRSQKIRRAVRRHEERVTAPAGRSGSSRRKDAAS 300 Query: 307 RRNLASNVWMAKGIH 321 R+ + + Sbjct: 301 RQKAGNTSAAPRKGR 315 >gi|282860273|ref|ZP_06269343.1| pseudouridylate synthase [Prevotella bivia JCVIHMP010] gi|282586947|gb|EFB92182.1| pseudouridylate synthase [Prevotella bivia JCVIHMP010] Length = 555 Score = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 59/242 (24%), Positives = 111/242 (45%), Gaps = 1/242 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I +V VNG ++ ++ TD + Sbjct: 307 IEYKEEHIDPTEPLRLNKFLANAGVCSRREADDFILAGQVTVNGEVINELGTKILRTDEV 366 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + ++ + L + T+ ++ + + R+ VGRLD NT G Sbjct: 367 KFQDKLVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDACPERIYPVGRLDRNTTG 426 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LL TNDG LA L P +VY V + ++L + GI ++ + Sbjct: 427 VLLFTNDGDLASKLTHPKFLKKKVYHVFLDKPITANELQKISDGIELEDGEIKADAIEYA 486 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + A V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 487 NPE-DQAQVGIEIHSGKNRIVRRIFESLGYRVVKLDRVMFAGLTKKNVRRGDWRFLTEKE 545 Query: 241 LR 242 + Sbjct: 546 VE 547 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 59/223 (26%), Positives = 100/223 (44%), Gaps = 4/223 (1%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWLYHKP 81 G SR+EV++++ VK++GI ++ A V+V + + G + E L ++ Sbjct: 1 MGYGSRKEVKKLLKDGVVKIDGIPVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMMHKPQ 60 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 + T D L VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSHQLLSPKKHV 120 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y G V ++ + KG+++ +T+ + + + + + EGK + Sbjct: 121 PKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIELVITEGKFHQ 179 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +K++FE KV L R GP L L G RE++ + + Sbjct: 180 VKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 222 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 91/320 (28%), Positives = 131/320 (40%), Gaps = 9/320 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDDNAVVRIDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-LLAGSTREVSKKI---LRE 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+ + + I V R+ + +K Sbjct: 242 LVELRPEKETVLNMAPDAATRKRERTRSQKIRRAVRRHEERISATPGRSGKAPACRKPGG 301 Query: 304 PVHRRNLASNVWMAKGIHSS 323 RN +N + Sbjct: 302 ESSTRNKVANQQQSSRKPRG 321 >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 = 166 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G ++ Sbjct: 2 EPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHVTVKGSIIKLKW 60 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL Y + +V+ S + SR +++GRLDINT GLL+LT Sbjct: 61 ADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTS 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G L + PS + R Y VR G + +++ +L + ++++ ++ +G+N Sbjct: 121 GELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V ++EG+NRE++++FE V+RL+R+ +GP L L G E++ + L Sbjct: 181 KWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYELNPAEVANIL 240 Query: 246 GPHLL 250 + Sbjct: 241 KWAEM 245 >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 = 166 bits (419), Expect = 7e-39, Method: Composition-based stats. Identities = 58/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 166 bits (419), Expect = 7e-39, Method: Composition-based stats. Identities = 87/309 (28%), Positives = 134/309 (43%), Gaps = 8/309 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 P+RV K++ARAG+ SRREVE I R+ VNG+ ++ ++D E+DG L + Sbjct: 21 PERVQKLLARAGVGSRREVEGWIEAGRLLVNGVPVQ-PGQKASTSDRFELDGKLLDVSSA 79 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + + + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL R+ YGP L L G E+ +K + Sbjct: 200 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRLTMGRWEELDQKGVDALSR 259 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISE-VPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L V P + + R + + + ++ P Sbjct: 260 AVGLGSVAVPQKTPGEQAAHDRKRRKSPGKSLQRTRKGGSWQVADGAPPKARSDSRGKPS 319 Query: 306 HRRNLASNV 314 + Sbjct: 320 AGKGRKPAR 328 >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 = 166 bits (419), Expect = 7e-39, Method: Composition-based stats. Identities = 61/242 (25%), Positives = 105/242 (43%), Gaps = 9/242 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A AG +R+ V+ ++ + RV+VNG +++ + D I+VDG + Sbjct: 2 MRLDKFLAHAGFGTRKAVKELVRKGRVEVNGQRVKKDDQKIDERQDQIQVDGRIVTYETE 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + T L + S + VGRLDI+TEGLLL+TNDG LA Sbjct: 62 VYIMLNKPQGVVSATEDSRYETVLDC--LETNRSDLFPVGRLDIDTEGLLLITNDGALAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P + Y V D ++ GI I ++ + + + Sbjct: 120 DLLSPKKHVDKTYEVHLERPWDPQYEAAIQMGIRISDEEVCLPAT----LRQTAEHIILL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++K++ + +V L R++ GP +L L G R + + + Sbjct: 176 TIQEGKFHQVKRMMHACDNEVVYLKRLTMGPLKLDAALQPGQWRNCTPQEIEALKNHKKA 235 Query: 251 EE 252 E+ Sbjct: 236 EK 237 >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 = 166 bits (419), Expect = 7e-39, Method: Composition-based stats. Identities = 68/228 (29%), Positives = 115/228 (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 KVYIMLNKPEGYVTTNKDEKNRKTILDIVKVN-ERIYPIGRLDYDSSGLLLLTNDGDVYN 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|295692663|ref|YP_003601273.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|295030769|emb|CBL50248.1| Pseudouridine synthase [Lactobacillus crispatus ST1] Length = 234 Score = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I + V VNG+ ++ V +D + V+G + + Sbjct: 1 MRIDKYLANMNVGSRKEVHLLIKKGIVAVNGVTVKTPKQQVKESDQVTVNGDAVAYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPKGVLSATEDRSQPTVISLLAPQDRYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ ++YR + G D + + G+ + G ++ + +Q + + Sbjct: 121 LLAPNKHVDKIYRAKIAGVADDETVKTFAAGMTLGDGTKLQPAELKILSQDEEHNRSTTE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + +REGK +IK++F KV L RIS G L L G E+ + + Sbjct: 181 IKIREGKYHQIKRMFGAVGMKVVELERISMGDLTLPANLKRGEYLELKLEDI 232 >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 = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 95/325 (29%), Positives = 142/325 (43%), Gaps = 16/325 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG L Sbjct: 2 GEKLQKILARAGHGSRREIEAIIQQGRVSVDGKV-SKLGDRVEVTQSTKIRLDGHLLSIK 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + SR ++VGRLD+NT GLLL T Sbjct: 61 ESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L+ Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD---LKAT 237 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L E V S + +DR + + + S + +Q Sbjct: 238 NYLRELVELDVETV----SKLPVEKDRRRVKANQIRRAVKRHTEVSGRQVAGRQGSARKG 293 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSG 329 R+N+ + A S G Sbjct: 294 STRQNVGNAAPAATASRRSGPKKRG 318 >gi|254743404|ref|ZP_05201089.1| ribosomal large subunit pseudouridine synthase F [Bacillus anthracis str. Kruger B] Length = 235 Score = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 7/229 (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 +L + R+ +GRLD +++GL+LLTNDG + Sbjct: 60 VYIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + D L + G+ I G ++T S + L Sbjct: 118 ILRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 174 TQGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQRRDLTKKEKR 222 >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 = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 78/268 (29%), Positives = 112/268 (41%), Gaps = 5/268 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---K 69 +R+ K++AR G SRRE+ER I + V VNG + D + + G + Sbjct: 2 TERLQKLLARLGHGSRREIERWIEEGLVTVNGKVA-SLGDQAGPDDKVAIRGRVVPLDVA 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + L T + 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-TLLAGSTREVSKKILREQLGPH 248 V LREG+NRE+++++E V+RL R+ YGP LG L AG R++ + Sbjct: 181 HVTLREGRNREVRRLWEAVGLTVSRLTRVRYGPISLGRDLRAGRWRDLEPGEMGALYAVA 240 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIIS 276 L + R Sbjct: 241 GLPWTPPKIRREDRRPPKPPRTARRPKR 268 >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 = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 78/356 (21%), Positives = 132/356 (37%), Gaps = 29/356 (8%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D ++V+ Sbjct: 141 KRVLPPQVEMPKLHKVLAQAGLGSRLEMEQLILEGRISVNNEPA-HIGQRVQYGDQVKVN 199 Query: 64 GVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 200 GRPIRYRIDPPAPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLAHGKWQSVGRLDLNTE 259 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y VR G + ++ L G+ ++ + Sbjct: 260 GLLLFTSAGELANKLMHPRFGLEREYAVRVLGALSNEEKQRLLDGVQLEDGMAAFGSIED 319 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +GSN W V + EG+NRE++++ E V+RLIRI YG L L G+ E+ + Sbjct: 320 GGGEGSNCWYRVTISEGRNREVRRMLESVGHAVSRLIRIRYGSMMLPRGLKRGAWLELDE 379 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + +R + + + R + Sbjct: 380 RDIRALMQAAGADMPRPAGPGAAAGDRKGGGPRKGGGRGQGGPGGPAPRGD--------- 430 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 G + + + + S + SL R + Sbjct: 431 --------------YFNPPAGGRGQRAAPPSSQPDPMKTSVGYIGSDSLARHRQDQ 472 >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 = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 95/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREIMLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 90/313 (28%), Positives = 131/313 (41%), Gaps = 13/313 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGIVAKLGERLEDENSVVRIDGHIVSAKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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+ T + ++ R ++ + G S Sbjct: 242 LVELRPEKETMLDLNK----DNTSRKRERARSQKIRRAVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 PVHRRNLASNVWM 316 P Sbjct: 298 PKKAAGDQGARNK 310 >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 = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 110/231 (47%), Gaps = 3/231 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 T QR+ K+IA AGI SRR E ++ + RV VN + + D IEVDG PL A Sbjct: 2 TRQRLQKLIAAAGICSRRHAEELMREGRVTVN-QVTAGLGDQADPSIDRIEVDGRPLSHA 60 Query: 71 ERTRL-WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R RL L + + + + S+ + 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|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 = 165 bits (418), Expect = 7e-39, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 104/232 (44%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KAER 72 R+ K + + SR + +++ R+ VN ++++ A +V D + +D PL E+ Sbjct: 1 MRLDKHLHQCLGISRSQASQLLKAGRISVNSLIIKSGAQHVTEQDSVLLDDKPLDTPGEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ HKP G V + D S + + GRLD +T GL+L+TNDG + Sbjct: 61 LYYFMLHKPQGYVCANGDASHPGITRLFDLPCASELHAAGRLDADTTGLVLVTNDGQWSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVT 190 + P Q + YRV + + + KGI+++ Q + + V Sbjct: 121 RVTSPRKQCDKTYRVWLAEPISPETEEIFAKGILLRSETQVTRPAQ----LETITPQEVL 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++F V RL R G L L GS RE++ + + Sbjct: 177 LTIHEGKYHQVKRMFAAVGNHVERLHRERIGELVLDADLPEGSYRELTPEEI 228 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 61/239 (25%), Positives = 104/239 (43%), Gaps = 4/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + + SR +V+ ++ ++ V+VNG + + D + + G L+ Sbjct: 1 MRLDKFLVDCTVGSRSQVKAILKKKEVQVNGQIESSPKRQIDEKKDRVTLAGQLLKHETF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + P+ +V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVVSATEDSQHQTVLDLLDEPAHQKQVFPVGRLDIDTTGLLLLTNNGPLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P +VY+ + G + + + +GI ++ Q+ + + V Sbjct: 121 AMLSPKKHVAKVYQAKVEGLMTDEDVVAFGQGIRLKDFVCRPAQLQILESDQAQGSCLVQ 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + + EGK ++K++ KV L RIS GP L L G R +S + L + G H Sbjct: 181 IEIAEGKFHQVKRMVASRGKKVLELKRISMGPLHLPHDLSEGHYRRLSAQELADLSGFH 239 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 69/228 (30%), Positives = 116/228 (50%), 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 KVYIMLNKPEGYVTTNKDEKNRKTILDIVKVN-ERIYPIGRLDYDSSGLLLLTNDGDVYN 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|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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 59/249 (23%), Positives = 109/249 (43%), Gaps = 9/249 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIE 61 + T R++K +A AG+ SRR V++ I V +NG + + + + D I Sbjct: 13 RNHTQSSTTTSIRINKALANAGVCSRRNVDKYILNGEVTINGKSVTQPGIYIHPDKDIIA 72 Query: 62 VDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDI 116 + G + + + L +Y + + + + + + VGRLD Sbjct: 73 LHGRRVDIQLKNKKYYYLSMYKPIKVISSVKDPQNRLTVLDFIPFPWKNYRLYPVGRLDF 132 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDM 175 +EGLLL+TNDG L + L P +VY V ++ L + KGI + G Sbjct: 133 FSEGLLLITNDGELTQRLTHPRYHISKVYHVLIRERILNTTLKNISKGITLSDGTKLPPA 192 Query: 176 QVTLD--TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V + + + W+ + L++G NR+I+++ + + +LIR+ G L L G Sbjct: 193 KVRVLSSITETNTTWLEITLQQGINRQIRRMCKELGLTILKLIRVKQGNINLSNLQPGEV 252 Query: 234 REVSKKILR 242 R + ++ Sbjct: 253 RPLKNDEIK 261 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 87/289 (30%), Positives = 128/289 (44%), Gaps = 10/289 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGSRRSGGRNNG 290 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 55/227 (24%), Positives = 111/227 (48%), Gaps = 7/227 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AG+ SRRE +R+I +V V+G+ + + V + ++V + K + Sbjct: 14 ESVRLNKYLSEAGVCSRREADRLIESGKVTVDGVTAQ-MGMRVTAGQIVKVGKKTVSKQD 72 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP G+V T + + RV GRLD ++ GLLL+TN+G + Sbjct: 73 EMIVLAVNKPKGIVCTEDQRE--RDSIVRFLNYPVRVTYAGRLDKDSRGLLLMTNNGDII 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + + + Y+V ++ + + + +G+ I V +K ++ Sbjct: 131 NQMMRAANRHEKEYKVTVDKEITEQFIKKMSEGVPILDTVTRPCTV----KKIGKYTFSI 186 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L +G NR+I+++ F ++V L+RI +LG+L G+ R+++ Sbjct: 187 ILTQGLNRQIRRMCAAFGYEVKDLVRIRIMNIRLGSLKEGAYRKLTD 233 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 104/229 (45%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R + +++ Q V VNG + + A V TD I ++G L Sbjct: 1 MRLDKFLAENTGLTRSQANKVLKQSAVTVNGHVEKNGAQKVSQTDEICLEGEHLPWVSAG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +KP G V +H D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYLMLYKPQGYVCSHEDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+ +G++++G TL+ N V + + Sbjct: 121 ITSPKHHCEKTYLVTLADPVESHYQQACAEGMLLRGEKTPTKPATLEILDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F KV L R G +L L G R +S + + Sbjct: 179 SEGRYHQVKRMFAALGNKVVGLHRWKIGQIELDDRLAEGEYRSLSAEEI 227 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 87/289 (30%), Positives = 128/289 (44%), Gaps = 10/289 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 290 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIMLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 101/229 (44%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G L E +NV + I V G + + Sbjct: 1 MRLDKLLGQAGFGSRNQVKKLIRSRQVYVDGRLAEADNLNVEPSLQEITVSGKQVTLSTE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + ++ VGRLD +TEG LL+TN+G L Sbjct: 61 KYFILNKPAGVVSAVSDKEHQTVIDLIVESDRVPKLYPVGRLDRDTEGFLLITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G++ D + G+ ++ + + + Sbjct: 121 RMLHPKYHVTKTYYVEVNGRLADDTPAFFENGVTFDDGTVCKPAKLEIIESSSEKSSAYI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R+++G F+LG L G RE++ Sbjct: 181 TIAEGKFHQVKKMFLAYGVKVTYLKRMTFGEFELGDLPTGHYRELTINE 229 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 138/330 (41%), Positives = 194/330 (58%), Gaps = 2/330 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + +R++KV+ARAG+ SRR+ E I + RV VNG +++ A++V ++D I +DG PL Sbjct: 386 SDKAGERIAKVVARAGLCSRRDAEAWITEGRVAVNGKVIDSPALDVKASDVITIDGKPLP 445 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRL+LYHKP GL+TTHSDP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDG Sbjct: 446 ERERTRLFLYHKPRGLMTTHSDPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDG 505 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GLAR LELP T WLR YRVR HG++ Q +L+ L+ GI + G+ YG + L+ + +N W Sbjct: 506 GLARALELPETGWLRRYRVRAHGEITQAQLDELQNGIEVDGVQYGPIDAKLERDQSANVW 565 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + +REGKNRE++ V +VNRLIR+SYGPFQL L G EV ++LR+QLG Sbjct: 566 LVFAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELGEGEVDEVKTRVLRDQLGEK 625 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ--KNGLSKQKKLATPVH 306 ++ A + P S ++S + + + + + Sbjct: 626 VIALAGCDFAGPSPSETKPKPRAGKVVSAEEWSVVEGAAKPKKTITKRGAVEDRKGRRIK 685 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHR 336 AS+ G+R+ R Sbjct: 686 VERTASDGGERPLSRGPARRYHGKRDLAPR 715 Score = 37.9 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 11/102 (10%), Positives = 19/102 (18%), Gaps = 1/102 (0%) Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 A + + ++ P R Sbjct: 213 DKPRFAKSRDDKPRFDRDRGDKPRFDKPRGDKPRFDRGARSERPERSGDRPKFSRPRDGE 272 Query: 314 VWMAKGIH-SSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + SF R + R P + +R A K Sbjct: 273 RGEQRPFRERSFDRPREDRPRSDRPRSDRPREDRPQRDRAAK 314 Score = 37.1 bits (84), Expect = 4.7, Method: Composition-based stats. Identities = 12/108 (11%), Positives = 26/108 (24%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ G A+ D P + + + R + F R ++ + + K Sbjct: 208 DKGGFDKPRFAKSRDDKPRFDRDRGDKPRFDKPRGDKPRFDRGARSERPERSGDRPKFSR 267 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 R R + R P + + Sbjct: 268 PRDGERGEQRPFRERSFDRPREDRPRSDRPRSDRPREDRPQRDRAAKH 315 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 58/238 (24%), Positives = 101/238 (42%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + L +GI++ G Q+ V + Sbjct: 121 ITSPRHHCEKSYLVTLEQPLAPQTAALFAQGIMLNGETDLTKPAQLEAF----DEHHVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G L L G R +S + L Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVGLHRERIGAIALDAALAPGEYRALSDDEVASALAGR 234 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 88/295 (29%), Positives = 131/295 (44%), Gaps = 12/295 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L V + I +DG + + Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRVEPSVSLKIRIDGHVVPVS 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 RE +G ++V ++ ++T R S K Sbjct: 241 RELVGLAPETVSKVPVEKDRRRTKTNQIRRAVKRHTTTKVSKPGSGRRSSKRQQG 295 >gi|296282690|ref|ZP_06860688.1| hypothetical protein CbatJ_03660 [Citromicrobium bathyomarinum JL354] Length = 252 Score = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 106/240 (44%), Positives = 153/240 (63%), Gaps = 4/240 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + ++ R++K++ARAG+ASRREVERMIA +R+ ++G +E A + + + VDG Sbjct: 1 MAEDERKGDRIAKLLARAGVASRREVERMIADKRIAIDGKTVETPATLLETLRGVTVDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----ISVGRLDINTEGL 121 P+ K E TRL+ +HKP GL+T DP GR T++D L + + + +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|167570132|ref|ZP_02363006.1| RNA pseudouridylate synthase family protein [Burkholderia oklahomensis C6786] Length = 371 Score = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 76/273 (27%), Positives = 123/273 (45%), Gaps = 6/273 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 60 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 118 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 239 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 298 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 +R + L+ +E D Sbjct: 299 AQVRRLMAAVGLKAPTEEKGKRGGVTERRQPDP 331 >gi|148827048|ref|YP_001291801.1| malic enzyme [Haemophilus influenzae PittGG] gi|148718290|gb|ABQ99417.1| malic enzyme [Haemophilus influenzae PittGG] Length = 232 Score = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 58/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQKDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEKNYAEACAEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 67/245 (27%), Positives = 109/245 (44%), Gaps = 6/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ KV+AR G+ SR+EV R++ Q +V+V G +++ V +EV+G PL Sbjct: 2 KGERLDKVLARLGLGSRKEVARLVRQGKVRVLGQVVKDPGFRVPEGAALEVEGRPLEVRR 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ P + + P + + VGRLD + EGLLL T DG L Sbjct: 62 HLHVLLHKPPGFVTSRTEGPSVYALLQGFPTRDL---SPVGRLDKDAEGLLLFTTDGLLL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y V V ++GI++ G ++T W V Sbjct: 119 HRLTHPRHKVAKRYLVHLERPVGPKDQEAFREGILLDGKKTLPAELTPL---EDPTWAEV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L+EG+ +IK++F +V RL R++ GP +LG L G R +++ + L Sbjct: 176 VLKEGRFHQIKRMFRARGNRVLRLKRLALGPLELGDLPPGKARPLTEAEEKALYAAVGLG 235 Query: 252 EAQVN 256 Sbjct: 236 GEDPE 240 >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 = 165 bits (418), Expect = 8e-39, Method: Composition-based stats. Identities = 90/368 (24%), Positives = 149/368 (40%), Gaps = 20/368 (5%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + ++ KV+A AG+ SRRE+E +I RV VNG V + D + V+G Sbjct: 144 KYLNSDALTPKLHKVLADAGVGSRREMEELIVAGRVSVNGEPA-HIGQRVGANDQVRVNG 202 Query: 65 VPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P+ K + + +V+ + + +SVGRLD+NTEG Sbjct: 203 RPIVRPNAKKPPRIILYHKPAGEIVSHDDPEGRATVFARLPKMRVGKWLSVGRLDLNTEG 262 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+LT G LA L P R Y VR G++ +++ + L KGI ++ + Sbjct: 263 LLILTTSGDLANRLMHPRYGAEREYAVRVLGELGEEQQDKLLKGIQLEDGLAQFGSLEYL 322 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +GSN W V L+EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 323 GGEGSNRWYRVTLKEGRNREVRRMFEAAGVTVSRLIRTRFGEVVLPRNLRRGRWEELDSS 382 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L L L + + D S R + S +P F +++N + +S++ Sbjct: 383 -LVTALMLQLGLLREDDSDERGAGSGRGERQPVSHDSALPPGFGTLERNGTNGAKVSRRG 441 Query: 300 KLATPVHRRNLASNV-------------WMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 KL+ +R + H + + Sbjct: 442 KLSGGRPQRAATAQAYPSDPYGTGLMFSGGLPNGHPTAGRGKPGTSKAGGNKAHGNKAGG 501 Query: 347 LRRTSAKK 354 +T+ + Sbjct: 502 RGKTADGR 509 Score = 37.1 bits (84), Expect = 3.8, Method: Composition-based stats. Identities = 6/100 (6%), Positives = 16/100 (16%) Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + ++ S + G ++ + A Sbjct: 473 PNGHPTAGRGKPGTSKAGGNKAHGNKAGGRGKTADGRSQKPAGQARDEGEVRTTAGAGDA 532 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 + S R R+ + Sbjct: 533 RRRGAGARPAKAAGPKSAARPSRGENKAKSAGPRARSGAA 572 >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 = 165 bits (418), Expect = 9e-39, Method: Composition-based stats. Identities = 92/309 (29%), Positives = 131/309 (42%), Gaps = 12/309 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPL 67 + +++ K++AR+G SRRE+E I Q RV V+G + + V I +DG L Sbjct: 4 KTQKSEKLQKILARSGHGSRREIEGYIQQGRVSVDGKIATLGDRIEVQPATKIRLDGRIL 63 Query: 68 RKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 E L Y L T H + + SR I+VGRLD+NT GLL Sbjct: 64 SIKESQKAICRVLAYYKPEGELCTRHDPEGRPTVFDRLPKLLGSRWIAVGRLDVNTCGLL 123 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T DG LA L PS + R Y VR G+VD KL L KGI ++ V Sbjct: 124 LFTTDGELANRLMHPSREVEREYAVRVFGEVDDAKLKQLAKGIQLEDGPAAFRTVAFKGG 183 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI- 240 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + Sbjct: 184 EGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIGLPKGLPRGGWAELGLEQT 243 Query: 241 --LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 LR+ +G H EE + + +R + Sbjct: 244 NYLRQLVGLH--EETVSKVAVERDQRRMKANQIRRAVKRHAQVASRPSAGKRPGSSRQNA 301 Query: 299 KKLATPVHR 307 + R Sbjct: 302 GRTTAQKGR 310 >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 = 165 bits (418), Expect = 9e-39, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ M+ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNMLKSGRVTVNGKKEKSAKLQIDEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPKGVISATEDPKHRTVLDLLDDIARSKEVFPVGRLDIDTHGLLLLTNDGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ KGI ++ ++ L + + + + Sbjct: 121 ALLSPKRHVDKTYLAQVKGIMTQEDAETFAKGIPLKDFTCQPARLELVSVDTKKNQSQIR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L R++ G L L G R ++K+ L Sbjct: 181 VTIAEGKFHQVKRMVGYCGKEVVDLQRLTMGTLVLDENLQRGEWRRLTKEELE 233 >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 = 165 bits (418), Expect = 9e-39, Method: Composition-based stats. Identities = 51/230 (22%), Positives = 97/230 (42%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ +R E +I V VNG + A+ V + I +DG L Sbjct: 1 MRLDKFLCKSTELTRIEATALIVAGEVLVNGQTVTSASTQVHENNRITLDGQVLTPRASR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ L + ++ + I+ GRLD +T GL+L+T+DG + Sbjct: 61 YIMMHKPLDTLSSNVDGDYPSVMNCLDVDKVCDLHIA-GRLDADTTGLVLVTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + P +VYRV ++ D G+ +QG ++ + S V + Sbjct: 120 IINPKYHCEKVYRVSLRDPINDDVAGKFACGVQLQGEASLTLPAKLEVV----SPTEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ ++K++F +VN L R G +L + G R ++ + + Sbjct: 176 TITEGRYHQVKRMFAAVGNRVNGLHRQQVGDIKL-DIGLGQWRYLTTEEI 224 >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 = 165 bits (418), Expect = 9e-39, Method: Composition-based stats. Identities = 141/306 (46%), Positives = 193/306 (63%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++KV+ARAG+ASRR+ E M+ Q RV VNG ++ A++V D I+VDG PL + ER Sbjct: 373 GDRIAKVLARAGLASRRDAEEMVTQGRVTVNGRVINSPALDVTENDVIQVDGAPLPQRER 432 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL+LYHKP GL+TTHSDP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 433 TRLFLYHKPRGLMTTHSDPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTNDGGLAR 492 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VLELP T W R YRVR HG++ Q +L+ L G+ + G+ YG ++ TL+ +G+N W+ V Sbjct: 493 VLELPDTGWTRRYRVRAHGEITQAQLDQLAAGVEVDGVKYGPIEATLERDQGANVWLIVA 552 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +REGKNRE++ V + +VNRLIR+SYGPFQL L G +EV ++LREQLG ++ + Sbjct: 553 IREGKNREVRNVLAYLGLEVNRLIRVSYGPFQLLELPEGEVQEVKTRVLREQLGEKVIAQ 612 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + +L + + D + ++ Q+ G + + R Sbjct: 613 SGADLGPAGKGNREPLPDPKPKPKREVVADRKGRRVLVQRTGSEEARARHEAEARFPGPP 672 Query: 313 NVWMAK 318 Sbjct: 673 RRPKRG 678 Score = 36.3 bits (82), Expect = 7.0, Method: Composition-based stats. Identities = 13/123 (10%), Positives = 32/123 (26%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G + + + P+ ++ DRP + P+ ++ S Sbjct: 152 GERKPYAARERDGDKRPYTPRGEGARDRGDRPRADRSFGDRPPRTGDRPERKFGGERKFS 211 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + ++ R + + G + RSP P + Sbjct: 212 RGAEGDRGERKFGAGPRGPRKEFGDRPQRGETKPWQKRGADGDRPERSPRAPREGGRSFD 271 Query: 351 SAK 353 + Sbjct: 272 RPR 274 >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 = 165 bits (418), Expect = 9e-39, Method: Composition-based stats. Identities = 88/322 (27%), Positives = 129/322 (40%), Gaps = 7/322 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAILGERLEEDNAVVRIDGHVVSVKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ K + L Sbjct: 182 TFYVVINEGRNREVRRLWESQGTTVSRLKRVRYGDIFLDKKLPRGGWMELDLKQV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + ++ R ++ S G S + Sbjct: 241 ELVELRPEKETVLNMAPDAATRKRERTRSQKIRRAVRRHEERISTPAGRSGKAPARRKPG 300 Query: 307 RRNLASNVWMAKGIHSSFLSDS 328 ++ +A SS Sbjct: 301 SGESSTRNKVANQQQSSRKPRG 322 >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 = 165 bits (418), Expect = 9e-39, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 111/232 (47%), Gaps = 1/232 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VDG+ + Sbjct: 177 EQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVDGLTVAT 236 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T ++ D + + +R+ VGRLD TEG++LLTN G Sbjct: 237 QSYQFFSLNKPAGVVATMEDPEGRQNLG-DYVNNRETRLFHVGRLDTETEGVILLTNHGE 295 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y G + +D LK GI ++ + Q G N V Sbjct: 296 LAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVEQTGKNYLV 355 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 356 EVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 407 >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 = 165 bits (418), Expect = 9e-39, Method: Composition-based stats. Identities = 87/288 (30%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNN 289 >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 = 165 bits (417), Expect = 9e-39, Method: Composition-based stats. Identities = 58/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWLEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 165 bits (417), Expect = 9e-39, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 96/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSRVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNIQDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L +G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLESGEYRYLTEEEV 226 >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 = 165 bits (417), Expect = 9e-39, Method: Composition-based stats. Identities = 91/290 (31%), Positives = 134/290 (46%), Gaps = 10/290 (3%) 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 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 E + +++ ++ + R +R + + Sbjct: 242 ELVELKAESTSKLPVERERRRMKANQIRRAVKRHSQHGSSSRRAPAAKRG 291 >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 = 165 bits (417), Expect = 9e-39, Method: Composition-based stats. Identities = 96/325 (29%), Positives = 143/325 (44%), Gaps = 16/325 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG L Sbjct: 28 GEKLQKILARAGHGSRREIEAIIQQGRVSVDGKV-SKLGDRVEVTQSTKIRLDGHLLSIK 86 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + SR ++VGRLD+NT GLLL T Sbjct: 87 ESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 146 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G Sbjct: 147 TDGELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGI 206 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L+ Sbjct: 207 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD---LKAT 263 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L E V S + +DR + + + S + +Q Sbjct: 264 NYLRELVELDVETV----SKLPVEKDRRRVKANQIRRAVKRHTEVSGRQVAGRQGSARKG 319 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSG 329 R+N+ + V A S G Sbjct: 320 STRQNVGNAVPAATASRRSGPKKRG 344 >gi|158316819|ref|YP_001509327.1| pseudouridine synthase [Frankia sp. EAN1pec] gi|158112224|gb|ABW14421.1| pseudouridine synthase [Frankia sp. EAN1pec] Length = 259 Score = 165 bits (417), Expect = 9e-39, Method: Composition-based stats. Identities = 80/242 (33%), Positives = 118/242 (48%), 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 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTE 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|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 = 165 bits (417), Expect = 9e-39, Method: Composition-based stats. Identities = 57/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDEIYFEDQLLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLNKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYATACAEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L +L G R +++ + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGNVVLDQSLDEGEYRPLTQSEIESLVK 232 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 54/226 (23%), Positives = 103/226 (45%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K ++ G SRR +R+I + +V +NG + V D +EV+G+ + K + + Sbjct: 4 RINKYLSEVGYCSRRVADRLIEEGKVTINGKI-SEIGTKVKEDDQVEVEGIIIDKPTKQK 62 Query: 75 LWLYHKPIGL-VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + +D + + +R+ +GRLD N+EGL+ LTNDG + Sbjct: 63 YIYLAFNKPVGIVCTTDRRVEPDNIIDFINYSTRIFPIGRLDKNSEGLIFLTNDGDIVNK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + +++D ++ + G+ I + V K + L Sbjct: 123 ILRARNNHEKEYIVSVNRPINRDFIHNMSNGVKILDTITKNCFVKQLGVKK----FKIIL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G NR+I+++ E ++V L RI +L + G RE +K Sbjct: 179 TQGLNRQIRRMCESLGYRVQSLKRIRIMNIKL-DIPTGKYREFTKD 223 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 69/229 (30%), Positives = 106/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + GI SR+EV+++I+ + VNG+ A N+ D IE +G L E Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNGEIAVNGMSDILAKDNIDENSDTIEYNGERLEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDFKEDTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY V + + + L++G+ I +V +K S+ + + Sbjct: 121 KLLSPKNHIDKVYYVEIEKNILDEDILKLEQGVDIGNYITQPAKV----EKISDNKIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E N KV L R S+G L L G +EVS + + Sbjct: 177 IKEGKFHQVKKMLEAVNNKVCYLRRESFGKLTLNDLTLGEVKEVSLEDI 225 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 103/228 (45%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V+VN ++ + TD + VDG + + Sbjct: 1 MRIDKFLANMGLGTRTEVKQLLKKGLVEVNEKKIKTPKSQIDPETDKVVVDGEEISYVDN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP ++ D ++ + + VGRLD +TEGLLLLTNDG Sbjct: 61 -VYMMLNKPKDYISATEDNAHQTVLDLIPEFSHLGIFPVGRLDKDTEGLLLLTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + Q + K G+ + ++ KG++ V Sbjct: 120 ELMSPKKHVSKTYEVISKYPIKQSDIEAFKLGVELSDGKVKPAELI----KGNDRLSYVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 + EGK ++K++F +V L R+ +L L +G R ++++ Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRVKIANLELDETLNSGEYRFLNEQ 223 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 107/231 (46%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + +A + SR++V+++ Q++K+NG + + V I+V G + Sbjct: 1 MRLDKCLEKAKVGSRKQVKKLFKAQQIKINGHAAQSLSQIVDPELQTIQVSGKKVALEGS 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 AYYLLHKPAGVVSAVTDQEHQTVIDLISPQDSREGLYPVGRLDRDTEGLVLITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 + PS +VY V +G + +D G+ + G +T+ ++ T+ Sbjct: 121 RMLHPSHHVDKVYYVEVNGCLAEDASKFFASGVTFLDGTRCQPADLTVLEASLDHSRATI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EGK ++KK+F + KV L RIS+G F+LG L G+ R+++ + Sbjct: 181 KLAEGKFHQVKKMFLAYGVKVTYLKRISFGGFELGDLERGAYRQLTPNEME 231 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 57/243 (23%), Positives = 104/243 (42%), Gaps = 7/243 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + L KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVELESPLAEGTAELFAKGVQLHNEKDLTKPAVLEVI----TPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLL 250 + EG+ ++K++F V L R G L L G R +++ + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGDILLDDALAPGEYRPLTETEIASVGAPQAR 236 Query: 251 EEA 253 + Sbjct: 237 SKT 239 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 75/238 (31%), Positives = 113/238 (47%), Gaps = 4/238 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 E+ R+ KV+++AG+ASRR E +I RV+V+G ++ V I VDG Sbjct: 4 SEHPDGVRLQKVLSQAGVASRRAAEDLIVAGRVEVDGEVVTELGRRVDPDAAIIHVDGTR 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLL 123 + + +KP G+ +T SD GR V D L + + VGRLD NTEGLLL Sbjct: 64 VNLRDDLIYLALNKPKGVHSTMSDDRGRPCVGDYLRGRYEETPGVVHVGRLDENTEGLLL 123 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG L L PS + L+ Y G V + L+ G + Q + Sbjct: 124 LTNDGDLGHRLMHPSYRVLKTYLAEVDGLVPRGLGKELRNGWELPDGIVKVDQFRVKDMH 183 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + EGK ++++ + V +L+R + G QLG GS R ++K + Sbjct: 184 SGKSLVELVIHEGKKHIVRRLLKDTGHPVLKLVRTAVGDVQLGNQRVGSIRRLTKTEV 241 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 194 EQEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTVA 253 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + + + + D + + +R+ VGRLD TEG+++LTN G Sbjct: 254 AQSYLFFALNKPAGVVSSMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIIMLTNHG 312 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + G N Sbjct: 313 ELAHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYL 372 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 373 VEVTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 425 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 67/229 (29%), Positives = 111/229 (48%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA+AG+ASRR+ E I + V VNG L+ + V D ++V G L E+ Sbjct: 10 MRINKYIAKAGLASRRKSEEYIKKGLVFVNGKKLDDLSYQVKENDEVKVMGKLLEIKEKF 69 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + ++L I R GRLD ++ GL+L+TNDG + Sbjct: 70 YYKLNKPIGFISSN--YDPHNKKDLNSLVKIDQRFFCAGRLDKDSHGLMLITNDGKITNK 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + + Y V+ +++D L +KGI + ++ + V + Sbjct: 128 LIHPSKKIEKTYIVKVDKLLNKDDEALFRKGIKLSDNE-KTSDAKINLIDENRKIYEVII 186 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+++++F +F KV L RI G +LG L G ++++KK L Sbjct: 187 HQGFNRQVRRMFLYFGSKVIDLKRIKIGQIELGKLEDGKYKKLNKKELE 235 >gi|91070007|gb|ABE10933.1| putative pseudouridylate synthase specific to ribosomal small subunit [uncultured Prochlorococcus marinus clone ASNC3046] Length = 240 Score = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 55/236 (23%), Positives = 104/236 (44%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---AE 71 R++K ++ G SRRE +++I + +V +NG + V D +EV G + K E Sbjct: 4 RINKYLSEVGYCSRREADKLILEGKVTINGKIP-EIGAKVEEIDQVEVKGQRIEKSDRQE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L + TT + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 KIYLAFNKPLGIVCTTDRK--VEPNNVIDFIKYPKRIFPIGRLDKLSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V+ + ++ + + + G+ I + ++ + Sbjct: 121 NKILRARNNHEKEYIVKVNRPINSEFIQKMSNGVEILDTITKNCS----VKQLGPRKFKI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 L +G NR+I+++ E ++V L R+ +L + +G RE S++ L+E G Sbjct: 177 ILTQGLNRQIRRMCETLGYRVRSLKRVRIMNIKL-DMPSGKYREFSREELQELNGL 231 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 87/234 (37%), Positives = 130/234 (55%), Gaps = 2/234 (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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + GKNR ++++FE + V +L+R+ GP ++G+ G+ R +SK + Sbjct: 295 LIEVTIHSGKNRIVRRLFEAVGYPVEKLVRVQMGPIRIGSQKQGTVRNLSKVEI 348 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 110/231 (47%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++ I+ GI SRRE + +I Q++VKVNG + V S D IEV+G L+K + Sbjct: 1 MRLNNFISSTGICSRREADELIKQKKVKVNGEIAP-LGYIVNSKDKIEVNGKLLQKKKND 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ T + + R+ +GRLD ++EGL+LLTNDG + Sbjct: 60 IYIALNKPVGITCTTERHI--KGNIIDFINHTERIFPIGRLDKDSEGLILLTNDGSIVNE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--DMQVTLDTQKGSNAWVTV 191 + + Y V + + +N + KG+ I + 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|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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 84/287 (29%), Positives = 123/287 (42%), Gaps = 7/287 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + T +++ KV+ARAG+ SRRE+E IA RVKVNG + V D + D P+ Sbjct: 2 SNTSEKLQKVLARAGLGSRREMETAIADGRVKVNGQVAT-LGDRVELRDKVAFDDRPVAL 60 Query: 70 A-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R + L T R+ R I++GRLDINT GLLL Sbjct: 61 RGADEVPRRVIMYNKPEGELCTRKDPEGRRTVFDRLPRLKGERWIAIGRLDINTSGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L PSTQ R Y VR G+V D + + +G+++ V +G Sbjct: 121 TTDGELANRLMHPSTQIEREYAVRVMGEVTMDHIKAMVEGVMLDDGPARFTDVQEFGGEG 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 N W V + EG+NRE+++++E N V+RL R+ YG L AG E+ + + + Sbjct: 181 INTWFHVVIMEGRNREVRRLWESQNLTVSRLKRVRYGNIFLDKRAKAGEWVELGQDEIDD 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 L +V P + + + Sbjct: 241 LAEQAGLPSRKVPELTPDEKNRWSRDKNKRRPVQGVRKPKSSRSRGR 287 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIMLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >gi|327484245|gb|AEA78652.1| Ribosomal small subunit pseudouridine synthase A [Vibrio cholerae LMA3894-4] Length = 231 Score = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKEASRVEWQGREIMLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGIVCSHEDG-FNQTAFTLLDEVNVEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 226 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 69/234 (29%), Positives = 109/234 (46%), 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 KAERTRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ER + + T V + R+ S GRLD ++EGL+L +ND Sbjct: 62 AEERKVYIMLNKPRGYVCTNADPHADLKAVDLIRLTPPLRLFSAGRLDKDSEGLILFSND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L P + L+VY+VR + +L +++G++ +G + + Sbjct: 122 GDYVARLTHPRHEILKVYQVRVRREFKPAELEQMRRGVLERGELLK----VHAVSRCGDC 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGKNREI+++ RL R+ G +LG L G+ RE++ + Sbjct: 178 TYLITLNEGKNREIRRLTAALGSPTRRLKRLQIGALRLGGLPVGNWRELTPAEI 231 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 193 EQEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTVA 252 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + + + + D + + +R+ VGRLD TEG+++LTN G Sbjct: 253 AQSYLFFALNKPAGVVSSMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIIMLTNHG 311 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + G N Sbjct: 312 ELAHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYL 371 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 372 VEVTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 424 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 90/299 (30%), Positives = 130/299 (43%), Gaps = 12/299 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV--MSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MIA RV V+G + V + I +DG + A Sbjct: 2 SEKLQKVLARAGHGSRREIESMIAAGRVSVDGKIAT-LGDRVESSKSLKIRIDGHLVSIA 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + 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+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITLPKGLPRGGWTELD---LPAV 237 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L E + + R + N I +++ K+ + Sbjct: 238 NYLRNLVELDDETVTKLVVEKDRRRTKANQIRRAVKRHSKVSSTPRAPRRNPGSKRNSG 296 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 47/230 (20%), Positives = 97/230 (42%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I + V+G + + A V + + + Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPEGVEVMWEDRVIGAPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGYNQ-TAFALLDEPKIENLHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D L++GI+++ + L+ + V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 EGK ++K++F KV L R G +L L G R ++++ + Sbjct: 180 VEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEALEPGDYRYLTQEEID 229 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 95/325 (29%), Positives = 142/325 (43%), Gaps = 16/325 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG L Sbjct: 28 GEKLQKILARAGHGSRREIEAIIQQGRVSVDGKV-SKLGDRVEVTQSTKIRLDGHLLSIK 86 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + SR ++VGRLD+NT GLLL T Sbjct: 87 ESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFT 146 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQ+D DK+ L +G+ ++ ++ +G Sbjct: 147 TDGELANRLMHPSREVEREYAVRVFGQIDDDKIKQLSRGVQLEDGPAAFRTISYQGGEGI 206 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L+ Sbjct: 207 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD---LKAT 263 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L E V S + +DR + + + S + +Q Sbjct: 264 NYLRELVELDVETV----SKLPVEKDRRRVKANQIRRAVKRHTEVSGRQVAGRQGSARKG 319 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSG 329 R+N+ + A S G Sbjct: 320 STRQNVGNAAPAATASRRSGPKKRG 344 >gi|148555617|ref|YP_001263199.1| pseudouridine synthase [Sphingomonas wittichii RW1] gi|148500807|gb|ABQ69061.1| pseudouridine synthase [Sphingomonas wittichii RW1] Length = 286 Score = 165 bits (417), Expect = 1e-38, 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|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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 49/231 (21%), Positives = 95/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E G + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKSGEVTVDDVVQKSGAFKLKETSCVEWQGREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLDI+T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNVEDLHFAGRLDIDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYAEQFNRGIELRGERELTLPAQLEVI----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRKRIGQITLDETLEPGEYRYLTEEEV 226 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 87/289 (30%), Positives = 128/289 (44%), Gaps = 10/289 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 290 >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 = 165 bits (417), Expect = 1e-38, Method: Composition-based stats. Identities = 73/251 (29%), Positives = 108/251 (43%), Gaps = 10/251 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--A 70 +R+ K +ARAG+ASRR E +I RV VNG + VM D + VDG + Sbjct: 5 GERLQKRLARAGVASRRAAEDLITAGRVTVNGQIAT-LGRTVMPDDEVRVDGRLIEAPAQ 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E LY + T + R+ + + VGRLD ++EGLLLLT DG L Sbjct: 64 ESVTFLLYKPAGYVTTARDEYGRRNVLSA--MPPIPGLHPVGRLDKDSEGLLLLTTDGQL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YR GQ +L +L+ GI + + Sbjct: 122 TLTLTHPRYGHEKAYRAWTAGQPVAAELRVLETGIELADGPARALSARPARGGA-----L 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 V L EG+NR+++++ + + V+RL+R G LG L G R +S + L + L P + Sbjct: 177 VTLTEGRNRQVRRMLDAIGYPVHRLLRYRVGGLWLGDLEPGEYRLLSPRDLHDLLHPAQV 236 Query: 251 EEAQVNLDAPI 261 Sbjct: 237 PRHVWERAERE 247 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 109/228 (47%), Gaps = 7/228 (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 +L + R+ +GRLD +++GL+LLTNDG + + Sbjct: 64 YIALNKPVGITCTSEKSV--KGNIIDLVNHPLRISHIGRLDKDSDGLILLTNDGDIVNEI 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V + D L + G+ I G ++T S + L Sbjct: 122 LRAENKHEKEYIVSVDKPITPDFLEKMAAGVKILGTKTLPCEITQL----SKYEFKIILT 177 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ E ++V L R +L L G R+++KK R Sbjct: 178 QGLNRQIRRMCEALGYQVYTLKRTRIMNIELNNLPVGQRRDLTKKEKR 225 >gi|319745443|gb|EFV97749.1| ribosomal small subunit pseudouridine synthase A [Streptococcus agalactiae ATCC 13813] Length = 240 Score = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 57/233 (24%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G + + Sbjct: 1 MRLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGTLVSYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + V VGRLDI+T G LLLTN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHKTVLDLLDKTARDKAVFPVGRLDIDTTGFLLLTNNGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 + P + Y + G + +D + KGI+++ ++ Q + + V Sbjct: 121 KILSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKNQSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S G QL L +G R ++ K + Sbjct: 181 ITIKEGKFHQVKRMVAACGKEVLELKRLSMGNLQLDKQLESGQWRRLTIKEIE 233 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 90/313 (28%), Positives = 132/313 (42%), Gaps = 13/313 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIESLIKSGRVSVNGIVAKLGERLEDENSVVRIDGHVVSAKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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+ T + ++ R ++ + G S Sbjct: 242 LVELRPEKETMLDLNK----DNTSRKRERARSQKIRRAVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 PVHRRNLASNVWM 316 P Sbjct: 298 PKKTAGDQGARNK 310 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 66/249 (26%), Positives = 111/249 (44%), Gaps = 6/249 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ +A++G SRR E +I RV +N + V D + VD + A+R Sbjct: 6 PIRLQAYMAKSGCGSRRFCETLITAGRVTINTKRVTELGTKVNEEDVVMVDDQLIEPADR 65 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T + Y + T + + + + + +GRLD + GL+L TNDG +A Sbjct: 66 TYYYALYKPRGYVCTNYDPNEKLYARDLIDIADKNLLFHIGRLDKESSGLILYTNDGDVA 125 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT 190 + + PS + + Y V +V ++ L KGI I Y + + S WV Sbjct: 126 QKIMHPSREIEKEYLVSCSTEVRREDLEEALKGIYIDIPQPYRIKRFEIL----SKKWVR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L EGKNREI+K+F ++ + V +L+R+ G +LG + G R + + L Sbjct: 182 IILTEGKNREIRKIFSYYGYDVKQLVRMRIGCIELGEMQPGQYRALFSSEIEAMLKGETE 241 Query: 251 EEAQVNLDA 259 + + Sbjct: 242 PVKKRKVTW 250 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 87/288 (30%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLVSVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQMSGGRRSGGRNN 289 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 72/245 (29%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G ++ Sbjct: 2 EPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLKW 60 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL Y + +V+ S + SR +++GRLDINT GLL+LT Sbjct: 61 ADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTS 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G L + PS + R Y VR G + +++ +L + ++++ ++ +G+N Sbjct: 121 GELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V ++EG+NRE++++FE V+RL+R+ +GP L L G E++ + L Sbjct: 181 KWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYELNPAEVANIL 240 Query: 246 GPHLL 250 + Sbjct: 241 KWAEM 245 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 82/318 (25%), Positives = 135/318 (42%), Gaps = 12/318 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 +++ KV+AR+G+ SRRE+ER I Q RV ++G V++ IEVDG PL Sbjct: 18 DGEKLQKVLARSGLGSRREMERWIEQDRVTIDGKPA-SLGDRVVAGQRIEVDGRPLAAGD 76 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L + + + R+ 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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L EG+NRE+++++E V+RL R+ YG + + G +E++ + Sbjct: 197 YYVVLMEGRNREVRRLWESQGLTVSRLKRVRYGDLFVPSKVKKGQYQELASNEINGLYRM 256 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + V + + E R K++ G +K + R Sbjct: 257 AGMPAKDVE-------PPSREDRNKHKRMEGKRGRVRGNKHAKDDFGSRDARKEKSGKGR 309 Query: 308 RNLASNVWMAKGIHSSFL 325 + + + K + Sbjct: 310 KPGSKSTSAPKNKRRTRD 327 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 87/234 (37%), Positives = 130/234 (55%), Gaps = 2/234 (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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + GKNR ++++FE + V +L+R+ GP ++G+ G+ R +SK + Sbjct: 295 LIEVTIHSGKNRIVRRLFEAVGYPVEKLVRVQMGPIRIGSQKQGTVRNLSKVEI 348 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 99/232 (42%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR +V+ ++ ++ V VNG + A + S D I G L E Sbjct: 1 MRLDKFLVDAGIGSRSQVKSLLKKKEVLVNGQVESSAKRQIDSDKDQIVFQGQKLVYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + + V VGRLD +T GLLLLTN+G LA Sbjct: 61 LYYMLNKPAGVVSATEDNLHQTVVDLLDDRARQKEVFPVGRLDKDTHGLLLLTNNGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 L P ++Y G + + + GI + + + + V Sbjct: 121 QLLTPKKHVDKIYLAHIEGMMTKKDQEAFENGIQLSDHHCLPATLEVLETDEHKQTCKVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + L+EGK ++K++ + +V L R++ GP +L L G R ++ + + Sbjct: 181 ITLKEGKFHQVKRMVKACGKEVTDLQRLTMGPLKLDNQLQLGQFRRLTDEEI 232 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 89/314 (28%), Positives = 132/314 (42%), Gaps = 7/314 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIRAGRVSVNGKVAVLGERLEDENAVVRIDGHAVSAKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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-TLLAGSTREVSKKILREQLG 246 V + EG+NRE+++++E V+RL R+ YG L L G E+ K + L Sbjct: 182 TFYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIFLDKKLPRGGWMELDLKDV-NYLR 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + T + + ++ R ++ + G S + Sbjct: 241 ELVELKPEKTTMLDVSKDNTSRKRERSRSQKIRRAVRRHEERVTAPAGRSGSSRRKDAAS 300 Query: 307 RRNLASNVWMAKGI 320 R+ +N KG Sbjct: 301 RQKAGNNSSPRKGR 314 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 57/228 (25%), Positives = 108/228 (47%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+++ G SR+EV R I +R+ VNG L V +D I +DG ++ E+ Sbjct: 1 MRINKLLSNYGYCSRKEVSRWIEDKRIIVNGKLC-EQGQWVEESDEILLDGEKIKPKEKV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L P + T+ + D + + V VGRLD +++GL+L+TNDG LA Sbjct: 60 YIALNKPPGIVCTSAREID---NNIIDFLNYKDYVFPVGRLDKDSQGLILMTNDGELANK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V D+ + + G+ I G ++ + ++ L Sbjct: 117 ILSSDSYHEKEYIVTIDRDFDESFIEGMSNGVEILGTITRPCKLRRIDKNI----FSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G NR+I+++ + F + V +L RI + G + ++K+++ Sbjct: 173 TQGLNRQIRRMTKAFGYNVIKLERIRIMNIMSNDIELGQWKFINKEVI 220 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 104/231 (45%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV+++I Q +V V+G + + + S + G + Sbjct: 8 IRLDKYLADMGVGTRTEVKKLIRQGKVTVDGSIEKSPERKIDISHQKVCCMGEAVSYETH 67 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ +D ++ V + VGRLD +TEGLLL+TNDG LA Sbjct: 68 EYYMLNKPAG-VVSATTDRQDKTVVELISSKKRRDLFPVGRLDKDTEGLLLITNDGELAH 126 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + G VD+ + G+ I G + + V Sbjct: 127 RLLSPKKHVDKVYYAKVQGIVDEVDQEIFAVGMSIGNGETALPSKLEILYSGEISEIRVT 186 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++K++F +V L R+S G L L +G R ++K+ L+ Sbjct: 187 IQEGKFHQVKRMFHAVGKEVIYLKRLSMGTLLLDETLKSGEYRALTKEELK 237 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 74/238 (31%), Positives = 116/238 (48%), Gaps = 1/238 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 T +R+ KV+AR G+ SRR E +IAQ RV V+G ++ V I VDG+ ++ Sbjct: 7 PTGERLQKVLARNGVGSRRACEGLIAQGRVSVDGHVVRELGTRVDPVASVIHVDGIRVQT 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP G+V+T D GR + + R+ VGRLD +TEGL+LL+NDG Sbjct: 67 DSSLLTLALYKPPGVVSTMYDDMGRPGLAQYVEDRPERLYHVGRLDQDTEGLILLSNDGE 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + + Y R G V + +L++GI ++ + L N+ V Sbjct: 127 LTHRLTHPKYEVPKTYIARVEGSVTRGLGRVLERGITLEDGPARVDRFILRESAPRNSIV 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L G+NR ++++ V L+R+ +G +G L G TR V+ L + Sbjct: 187 EITLHSGRNRIVRRMMAEVGHPVMELVRMKFGTVVVGHLKPGKTRVVAGSELGALMKL 244 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 114/233 (48%), Gaps = 11/233 (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 + T D + +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 GAEALSYWIFNKA--VGTDCRLLDADKSSLLHLLPTTPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y V+ + + + G+ + + QVT S+ Sbjct: 119 ELTHKLMHPSFAHSKTYHVQLDRPFNDAFIEQMASGVQYKEVRTLPCQVTRL----SDVS 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ +KV L R++ LG+L G R +S + + Sbjct: 175 FEIVLTQGLNRQIRRMSNALGYKVVDLQRVALMTLTLGSLAEGEMRPLSPEEV 227 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 118/241 (48%), Gaps = 1/241 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T QR+ K+IA AGI SRR E ++ Q RVKVNG L + D +EVDG PL++A Sbjct: 2 TRQRLQKLIAAAGICSRRRAEDLLRQHRVKVNGQLAAIGDQADLDQDDVEVDGRPLQRAL 61 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L L P + + ++ + + + VGRLD + G LLL+N G L Sbjct: 62 VPRVLLLNKPPGVICSCRDPQQRKTVLDLVPAHLRDGLHPVGRLDAESRGALLLSNQGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV G + +L ++G+V+ G +VTL ++ + Sbjct: 122 TLQLTHPRYNHCKTYRVTVAGLPPEKQLRQWRRGVVLDGTVTRPAEVTLLEGTTRSSVLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 V LREG+NR+I+++ +V L RI+ G LG++ G RE+S++ + Sbjct: 182 VVLREGRNRQIRRIALSLGHRVLDLQRIAIGDLMLGSVAEGCWRELSRQEWSGLIQHRGR 241 Query: 251 E 251 Sbjct: 242 P 242 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 81/245 (33%), Positives = 125/245 (51%), Gaps = 4/245 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+++ AG+ASRR E + RV VNG D I +DG P+R A Sbjct: 3 ERIQKILSAAGLASRRRAEEYLTAGRVTVNGRTAA-LGEKADPQRDDIRLDGKPVRPAGA 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G VTT SD GR TV + +RV VGRLD+++EGLLL+T+DG + Sbjct: 62 HTYLMLYKPRGYVTTLSDERGRRTVAQLVSGCGARVWPVGRLDLDSEGLLLMTDDGNFTQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-SNAWVTV 191 L PS Q + Y V G VD+ L + + GI ++ + +++G A ++V Sbjct: 122 RLIHPSHQVEKEYLVTVEGDVDRAIPV-LSGPMELDGIPLAPARIGVLSREGADRARLSV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+NR+++++ +V RL R+ G LG L G R ++ + LR LG Sbjct: 181 VIHEGRNRQVRRMCALAGLEVKRLKRVREGGLALGRLRPGEWRRLTPQELRLALGERGST 240 Query: 252 EAQVN 256 + Sbjct: 241 VPGKD 245 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 111/239 (46%), Gaps = 4/239 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPL 67 R+ KV+++AGIASRR E+MI RV+V+G ++ V T I VDG + Sbjct: 2 TEPDGVRLQKVLSQAGIASRRVAEKMILDGRVEVDGHIVTELGTRVDPTAADIRVDGTRV 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLL 124 + +KP G+ +T SD GR + D + VGRLD +TEGL+LL Sbjct: 62 LLDDTLVHLAINKPRGMHSTMSDDRGRPCIGDLVEHRVRGNKGLFHVGRLDADTEGLMLL 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + + Y G V + L+ G+ + + Sbjct: 122 TNDGELAHRLMHPSYEVPKTYVATVLGTVPRGLGKKLRAGVELDDGPARVDDFAVVDAMP 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + V V L EG+ R ++++ + V L+R G LG GS R +++K + E Sbjct: 182 GRSMVRVTLHEGRKRIVRRLLAAVGFPVQELVRTDIGAVSLGEQRPGSIRVLTRKEIGE 240 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 64/249 (25%), Positives = 116/249 (46%), Gaps = 3/249 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK-AE 71 R++K ++ +G+ SRR+ E +I +V+VN ++ + V D ++V+G ++ + Sbjct: 1 MRINKFLSFSGLTSRRKAEDLILSGKVEVNDKVISDLSYKVDPNKDVVKVNGRLVKIRKK 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R L Y L DP G T+ + + + R+ GRLD ++EGLLLLT+DG A Sbjct: 61 RHYLLFYKPRWVLTALGKDPGGLKTLDEYIKDLKIRLFPAGRLDFDSEGLLLLTDDGDFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + ++ Y+V + D + G V+ G + +W+ + Sbjct: 121 HKIHHPSFEVVKKYQVLVNPIFDIVDKEKVLSGCVLMGKYVKPDSFKILKDLSDASWLEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 EG +K+ + + V RLIR++ G F+L + GS R +S++ + + E Sbjct: 181 AFHEGMKHLVKEYLKKMGYSVKRLIRVAIGDFRLTGV-PGSYRWLSEEEVSNFKKRYFGE 239 Query: 252 EAQVNLDAP 260 N Sbjct: 240 MTGDNDGKY 248 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 68/273 (24%), Positives = 107/273 (39%), Gaps = 33/273 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 P R+ K +ARAG ASRR E ++ RV VNG ++ V D + VDG +R A+ Sbjct: 13 PMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDEVAVDGAVVRLAD 72 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L+ + T R+ + + +GRLD +T GLLL + DG L Sbjct: 73 GPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDTTGLLLFSTDGEL 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--- 187 L P + Y G+ + L LL++GI + V + + Sbjct: 133 GNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVRVVEGGAARHAER 192 Query: 188 ----------------------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 V +G+REG+ R++K++ V L R S Sbjct: 193 LLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAAVGHPVLALHRDS 252 Query: 220 YGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +GP +LG L G+ R + + + E Sbjct: 253 FGPLELGDLPRGAWRALDAEEVAALHQAIGRAE 285 >gi|284007498|emb|CBA72981.1| ribosomal large subunit pseudouridine synthase B [Arsenophonus nasoniae] Length = 322 Score = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 83/304 (27%), Positives = 129/304 (42%), Gaps = 10/304 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPL 67 + +++ KV+AR G SRRE+E I R+ V+G L + V + I +DG L Sbjct: 18 KKQKSEKLQKVLARCGYGSRREIESFIQSGRISVDGQLATLGDRIEVKANTKIRLDGHLL 77 Query: 68 RKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 R E L Y L T H + SR I++GRLD+NT GLL Sbjct: 78 RIKEAEKSICRILAYYKPEGELCTHHDPEGRPTVFDRLPKLTGSRWIAIGRLDVNTCGLL 137 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T DG LA L P + R Y VR G+++ K+ L KG+ ++ + Sbjct: 138 LFTTDGELANRLMHPRHEVEREYAVRVFGEINDAKIRQLTKGVQLEDGEASFKTLKFRGG 197 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK--- 238 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 198 EGMNQWFNVTLTEGRNREVRRLWEAVGIQVSRLIRVRYGDIYLPKGLPRGGWTELGLVQI 257 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 LR+ +G +++ ++ + R K ++ + Sbjct: 258 NYLRQLVGLSDETASKIAVEQDRRRIKANQIRRAVKRHTQVSSMRVANKRATGAAKGHNK 317 Query: 299 KKLA 302 Sbjct: 318 PARK 321 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 69/228 (30%), Positives = 116/228 (50%), 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 KVYIMLNKPEGYVTTNKDEKNRKTILDIVKVN-ERIYPIGRLDYDSSGLLLLTNDGDVYN 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|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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 67/229 (29%), Positives = 105/229 (45%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K +A +G+ASRR+ + +I V VNG + V V TD ++VDG + ++ Sbjct: 4 VRLNKFLASSGVASRRKCDEIIFSGHVTVNGRVAPGPFVLVDEETDTVKVDGRRVGMTKK 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ L ++ G V D + RV +VGRLD T GL+L+TNDG + Sbjct: 64 VYFMVHKPLGYLCSSERKFPGDKLVIDLFSHLPYRVFTVGRLDKETSGLILVTNDGEFSN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + Y ++ V L L +G VI G + +K + + Sbjct: 124 KIIHPSFGITKEYLLKVSRDVTAKNLEDLMEGTVIDGKRVRP----VSVEKIRRGTLKII 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK EI+ E + L RI G F LG L G RE++ + Sbjct: 180 VNEGKKHEIRLFAEAAGLSILELSRIRIGSFVLGGLRYGEYRELTDAEI 228 >gi|301062561|ref|ZP_07203199.1| pseudouridylate synthase [delta proteobacterium NaphS2] gi|300443326|gb|EFK07453.1| pseudouridylate synthase [delta proteobacterium NaphS2] Length = 295 Score = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 118/239 (49%), Gaps = 1/239 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 P R++++++ AG+ SRR+ ++ I R+ VNG + D I VDG + Sbjct: 54 EKPWRLNRILSSAGLTSRRKADQWILSGRITVNGKPVNAPGTTAFWGRDDIRVDGQKIPL 113 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +KP G + + DP+GR V D I RV VGRLD +T GLLLLTNDG Sbjct: 114 PPKKVYLMLNKPFGTICSLDDPEGRPLVTDLTKDIPIRVYPVGRLDFDTLGLLLLTNDGE 173 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A L P + Y+V G + + L L+ GI + G + L + + + Sbjct: 174 FAHRLTHPRFHVPKTYKVTVQGAISDEALKRLQTGITLNDGPAGRARTELINRNNEKSIL 233 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + +GK+R+++++ E + V LIRIS+G QLG L G R + + L + Sbjct: 234 RMTITQGKSRQVRRMLEKVGFTVIHLIRISFGTLQLGDLKIGHHRHLDSEELSKLKKMA 292 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 81/271 (29%), Positives = 118/271 (43%), Gaps = 5/271 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K ++ +++ KV+ARAG+ SRRE+E+ I+ RVK++G + V IEV Sbjct: 21 KKTESSKSQKDEKLQKVLARAGLGSRREMEKWISDGRVKLDGRIA-ELGDRVCDNAAIEV 79 Query: 63 DGVPLRKAERTR---LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 DG L +A L + + T R+ R IS+GRLD NT Sbjct: 80 DGQALSRAPAEAVRCLLYHKPTGEVCTRKDPEGRRTVFERLPKVKGGRWISIGRLDYNTS 139 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L PS R Y VR G+ D D L L G+ + + Sbjct: 140 GLLLFTTDGELANALMHPSAVIEREYMVRVMGEWDTDTLQRLIHGVELDDGFARFTDIQD 199 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 G N W V L EG+NRE+++++E V+RL R+ YG + + G E+ + Sbjct: 200 GGGDGINHWFYVVLMEGRNREVRRLWESQGLTVSRLKRVRYGEVFIPSKVKQGKWMELDQ 259 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVR 269 K + L V + + Sbjct: 260 KDVDVLYAMASLPPKSVPNLSVDERKNMDRQ 290 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 112/233 (48%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ K++ARAG SRR E +I Q RV+VNG ++ V D ++VDG+ + Sbjct: 74 EQEGERLQKILARAGYGSRRSCEELIEQARVEVNGEIVLEQGKRVDPERDEVKVDGLTVA 133 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 134 TQSYQFFSLNKPAGVVSTMEDNEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 192 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY G + +D LK GI ++ + Q G N Sbjct: 193 ELAHRLTHPRYGVKKVYLAHIVGPIPRDLGKQLKDGIQLEDGYAKADHFRVVEQTGKNYL 252 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 253 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 305 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 95/229 (41%), Gaps = 7/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K ++ +G SR+EV + Q RV VNG + A V + D ++VD P+ E Sbjct: 6 RLDKWLSHSGQGSRKEVRDLCRQGRVLVNGEICRDGAQLVETGVDRVQVDRQPVCYEEFY 65 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + T F P V VGRLD +T GLLLLTNDG A Sbjct: 66 YIMLHKPRGVISATTDAACRTVLDFLPPPCRTGGVFPVGRLDKDTTGLLLLTNDGVWAHR 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 + P +VY G + +D IV+ G + + V + Sbjct: 126 ILSPKKHCYKVYEATVSGSIPEDLTVRFASRIVLADGTVCLPARALRIDGQ----TVEIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EG+ ++K++ +V L R G L L G R++++ Sbjct: 182 VYEGRYHQVKRMCAAVGLQVLSLHRHKIGALGLDPALSPGQWRKLTEVE 230 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 90/305 (29%), Positives = 128/305 (41%), Gaps = 7/305 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV-NVMSTDHIEVDGVPLRK 69 +++ K++AR+G SRRE+E I Q RV V+G + V I +DG L Sbjct: 6 QKSEKLQKILARSGHGSRREIEGYIQQGRVSVDGKIATLGDRLEVQPATKIRLDGRILNI 65 Query: 70 AERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 E L Y L T H + + SR I+VGRLD+NT GLLL Sbjct: 66 KESQKTVCRVLAYYKPEGELCTRHDPEGRPTVFDRLPKLLGSRWIAVGRLDVNTCGLLLF 125 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T DG LA L PS + R Y VR G+VD KL L KGI ++ + +G Sbjct: 126 TTDGELANRLMHPSREVEREYAVRVFGEVDDAKLKQLAKGIQLEEGPASFRTIAFKGGEG 185 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + Sbjct: 186 MNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIGLPKGLPRGGWTELGLEQTNY 245 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L E V+ A L ++ + + ++ T Sbjct: 246 LRQLVDLNEETVSKVAVGRDQRRLKANQIRRAVKRHAQVASRPSAGKRPGSSRQKAGRTT 305 Query: 304 PVHRR 308 R Sbjct: 306 APKGR 310 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 47/234 (20%), Positives = 99/234 (42%), Gaps = 8/234 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K I + +R ++ + + + +G++++ + V+ + +DG P+ Sbjct: 4 SRPVRLDKFICESTSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPISLV 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP+ + + D S + + GRLD +T GL+L+T+DG Sbjct: 64 -GERYLMLNKPVDTICSTIDEAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQW 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAW 188 + + P + Y V VD+ + + G+ + + + + + Sbjct: 123 SHRITSPKKDCGKRYLVALADPVDESLVGIFAAGVELRNEDGLTKPAVLEIIEPQ----L 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 179 VRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGRIELDSDLAPGEWRYLTSEEI 232 >gi|304396082|ref|ZP_07377964.1| pseudouridine synthase [Pantoea sp. aB] gi|304356451|gb|EFM20816.1| pseudouridine synthase [Pantoea sp. aB] Length = 296 Score = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 91/299 (30%), Positives = 130/299 (43%), Gaps = 12/299 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV--MSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MIA RV V+G + V + I +DG + A Sbjct: 2 SEKLQKVLARAGHGSRREIESMIAAGRVSVDGKIAT-LGDRVESSKSLKIRIDGHLVSIA 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + 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+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDITLPKGLPRGGWTELD---LPAV 237 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L E + + R + N I T++ K+ + Sbjct: 238 NYLRNLVELDDETVTKLVVEKDRRRTKANQIRRAVKRHTKVSSTPRAPRRNPGSKRNSG 296 >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 = 164 bits (416), Expect = 1e-38, 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|297161649|gb|ADI11361.1| putative pseudouridine synthase [Streptomyces bingchenggensis BCW-1] Length = 333 Score = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 67/233 (28%), Positives = 110/233 (47%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 93 EQEGERLQKVLARAGMGSRRACEELIDQARVEVNGKIVTEQGLRVDPEKDEIKVDGLTVA 152 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 153 TQSYLFFALNKPAGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHG 211 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L+ L P + Y G + +D LK GI ++ + G N Sbjct: 212 ELSHRLTHPRYGVTKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVQNTGKNYL 271 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R ++GP LG +G R ++ + Sbjct: 272 VEVSLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPIALGDQKSGWLRRLTNTEV 324 >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 = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 89/236 (37%), Positives = 122/236 (51%), Gaps = 2/236 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ KV+A+AG+ASRR E+MIA RV V+G ++ V V T I VDG L E Sbjct: 10 GVRLQKVLAQAGVASRRASEQMIADGRVSVDGTVVRNQGVRVDPTKQVIHVDGERLILDE 69 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG L Sbjct: 70 TKHIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + Y R HG+V L GI ++ + G V Sbjct: 130 ANRLTHPKYEIRKTYVARLHGEVKPGVKRTLMNGIELEDGPIKVDSFRIVDTYGDITTVE 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + EG+NR ++++ E + V L+R +GP L L G+TR V L G Sbjct: 190 IVVHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRVKGNALSALYG 245 >gi|323525722|ref|YP_004227875.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323382724|gb|ADX54815.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 618 Score = 164 bits (416), Expect = 1e-38, Method: Composition-based stats. Identities = 84/352 (23%), Positives = 142/352 (40%), Gaps = 16/352 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 208 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 266 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 KILREQLGPHLLEEAQVNLDAPIYSSETLVRD----------RPNIISEVPDDFTRMKKN 288 +R + L+ + E D R ++ + + Sbjct: 447 NQVRALMASVGLKAPSEERGGRNAAPERKQPDPMQTSMGFISREPVLMSHHRFEQQPRGQ 506 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPS 340 + + V + G + G R+ + R+PS Sbjct: 507 GRRGAAGGGFGGAGAGLGGGYGNRGVGRSAGGFGGTGAPRGGRDVDGNRAPS 558 >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 = 164 bits (416), Expect = 2e-38, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 187 EQEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVVEQGMRVDVHKDEIKVDGLTVA 246 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + + + + D + + +R+ VGRLD TEG+++LTN G Sbjct: 247 AQSYLFFALNKPAGVVSSMEDPDGRQ-CLGDYVNNRETRLFHVGRLDTETEGIIMLTNHG 305 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + G N Sbjct: 306 ELAHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYL 365 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 366 VEVTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 418 >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 = 164 bits (416), Expect = 2e-38, Method: Composition-based stats. Identities = 85/306 (27%), Positives = 128/306 (41%), Gaps = 7/306 (2%) 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-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L Y L T H + +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-GTLLAGSTREVSKKILR 242 G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + Sbjct: 182 GINQWYNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDINLPKGLPRGGWTELGLEQTN 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L + V A + ++ + + + Sbjct: 242 YLRQLVGLGDEMVTKVAVERDQRRIKANQIRRAVKRHAKVASRPAGKRPASSSRQNAGRK 301 Query: 303 TPVHRR 308 T R Sbjct: 302 TTPKGR 307 >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 = 164 bits (416), Expect = 2e-38, Method: Composition-based stats. Identities = 62/224 (27%), Positives = 99/224 (44%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ VKV+G ++ A V+V I V G + E Sbjct: 1 MRLDKLLSTIGYGSRKEVKGLLKTGAVKVDGTAVKDAKVHVNPDEQEITVHGEAVSYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T L VGRLD +TEGLLLLTNDG LA Sbjct: 61 VYFMLHKPQGVISATEDSLHETVLDLLELDDAVYDPFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y + + V ++ ++G+ + ++ + T G + + + Sbjct: 121 QLLSPKKHVPKTYFAKINAPVTEEDAEAFRQGVTLDDGYVTKSAELKILT-SGVESEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++FE KV L R+S G L L G R Sbjct: 180 TIVEGKFHQVKRMFEARGKKVTYLKRLSMGALLLDESLDLGEYR 223 >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 = 164 bits (416), Expect = 2e-38, 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 ITSPRHHCEKTYLVTLESAISDDTAQQFADGVQLHNEKTLTKPAMLAVIAPN--LVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG+ ++K++F +V L R G +L L G R +S + + Sbjct: 179 SEGRYHQVKRMFAAVGNRVVALHRERIGAIRLDSDLQPGEYRPLSAEEI 227 >gi|330939561|gb|EGH42880.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. pisi str. 1704B] Length = 299 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 87/298 (29%), Positives = 132/298 (44%), Gaps = 10/298 (3%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGST 233 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRW 242 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 RE+S+ + + L + + + + + R + + + Sbjct: 243 REMSQYEV-DILAAEVGLQPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAA 299 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 93/360 (25%), Positives = 144/360 (40%), Gaps = 18/360 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E MI RV V+G + + T + +DG + Sbjct: 2 SEKLQKVLARAGQGSRREIELMIQNGRVSVDGDVAKLGDRLEDMTASVRIDGRRIELVAS 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L T H R+ 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-GTLLAGSTREV---SKKILRE 243 V + EG+NRE+++++ V+RL R+ YG L L G E+ LRE Sbjct: 182 TFYVVITEGRNREVRRLWASQGVTVSRLKRVRYGDIYLSKELPRGGWMELELNDVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG-------LS 296 +G E ++ ++ R E D T ++ + +++ + Sbjct: 242 LVGLQPETETELTVEGQKRKRNVRQIRRAVRRFEERADNTNSRRRNDRRSTTRNSDVEKA 301 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENH--RRSPSFPSKRSLRRTSAKK 354 K P R + K S + + EN+ RR P + A+K Sbjct: 302 GNDKPRRPSTRSSDVDKAGNQKPRRPSTRNSGADKAENNKPRRQPRQNDADNKGGNKARK 361 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 88/236 (37%), Positives = 121/236 (51%), Gaps = 2/236 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 R+ KV+A+AG+ASRR E+MIA RV V+G ++ V V I VDG L E Sbjct: 10 GVRLQKVLAQAGVASRRASEQMIADGRVSVDGTVVRNQGVRVDPAKQVIHVDGERLILDE 69 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG L Sbjct: 70 TKHIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + Y R HG+V L GI ++ + G V Sbjct: 130 ANRLTHPKYEIRKTYVARLHGEVKPGVKRTLMNGIELEDGPIKVDSFRIVDTYGDITTVE 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + EG+NR ++++ E + V L+R +GP L L G+TR V L G Sbjct: 190 IVVHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRVKGNALSALYG 245 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 47/230 (20%), Positives = 97/230 (42%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I + V+G + + A V + + + Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPKGAEVMWEDRVIGAPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGYNQ-TAFALLDEPKIENLHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D L++GI+++ + L+ + V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 EGK ++K++F KV L R G +L L G R ++++ + Sbjct: 180 VEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEALEPGDYRYLTQEEID 229 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 66/229 (28%), Positives = 109/229 (47%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+++ I+ AGI SRR+ + +I + VNG ++ V D I+ +G L++ + Sbjct: 207 IRLNRYISNAGICSRRKADELITAGVISVNGEVVTELGSKVDPAKDEIKYNGERLKREKM 266 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + TT + R+ + + R+ VGRLD NT GLLLLTNDG LA Sbjct: 267 VYVLLNKPKDYITTTDDPQERRTVMQLVANATKERIYPVGRLDRNTTGLLLLTNDGNLAE 326 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y V ++Q N + G+ ++ ++ Q GS V + Sbjct: 327 KLSHPRNNISKIYNVELDKSLNQGDFNKIVFGLELEDGFVKPDDLSYV-QGGSKREVGIQ 385 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + GKNR ++++FE + V +L R+ Y L G R + +K L Sbjct: 386 IHSGKNRIVRRIFESLGYDVVKLDRVVYANLTKKDLPRGRWRYLEEKEL 434 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 103/231 (44%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++ + + VKVN +++ + D I V+ + ++ Sbjct: 1 MRLDKFLANMGVGTRNEVKQSLKKGYVKVNNEVIKSPKTQIDPNEDIITVNDEKIIYIDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L +V+ D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 61 VYIMLNKPSG-VVSATEDDKHQTVIDLIPEYQHLEIFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V V Q + K+G+ + Q+ + + S V Sbjct: 120 DLMSPNKHVPKTYEVVSKNDVTQSDVERFKEGLELSDGLVKPAQLEIIENRRS----RVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F +V +L RI +L +L G R +++ + Sbjct: 176 IYEGKYHQVKRMFHEIENEVLQLKRIKIANLELDTSLKLGEFRLLTENDFK 226 >gi|62261679|gb|AAX78007.1| unknown protein [synthetic construct] Length = 306 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 86/259 (33%), Positives = 124/259 (47%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 27 MRRANQNNDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 84 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I VGRLD Sbjct: 85 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 144 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 265 LELNPSEVNRLRKSVKLKE 283 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 79/235 (33%), Positives = 116/235 (49%), Gaps = 2/235 (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 + + G +V + G +++ + Sbjct: 123 LLHPSHQVEKEYLVWVTGDVETALPI-LSGPMELDGEPLAPAKVARGRESGGVTQLSITI 181 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 +GKNR+++++ +V RL RI G L L G R ++ + L Sbjct: 182 CQGKNRQVRRMCAQAGLEVTRLKRIREGQVSLDRKLKPGQWRPLTAQELAALRKH 236 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 70/247 (28%), Positives = 118/247 (47%), Gaps = 6/247 (2%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 N+ ++ R+++ +A GIASRR ++M+ + RV +NG+L V V+ D + VD Sbjct: 4 NVEKKQNEAVRINRYLAMCGIASRRAADQMVLEGRVTINGVLASEPGVKVVPGKDEVIVD 63 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G + E ++++ V T S + + + + RV VGRLD T G+LL Sbjct: 64 GSKFAQPEGRKIYILFNKPRNVITTSSDERNREMVLDFIDVNERVYPVGRLDRKTTGVLL 123 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDT 181 LTNDG LA L PS+ + Y Q L LL G+ + Q + Sbjct: 124 LTNDGMLANKLMHPSSNVKKEYIAVLDAPFPQASLPLLTGGMRLSDTGEKVSPCQAKI-M 182 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GS W + + EGKN +++++F+ ++V RL R +Y +G L G R +++ + Sbjct: 183 GDGSQVW--ISIHEGKNHQVRRMFKTLGFEVTRLDRPTYAGLTVGDLRRGQWRHLTRTEV 240 Query: 242 REQLGPH 248 ++ Sbjct: 241 QQLRHLA 247 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 84/286 (29%), Positives = 125/286 (43%), Gaps = 7/286 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +++ KV+ARAG SRRE+E IA RVKVNG + + + D + D P+ Sbjct: 2 NTPTEKLQKVLARAGFGSRREMETAIADGRVKVNGQVAT-LGDRIETRDRVTFDERPVNL 60 Query: 70 A-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R + L T R+ 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 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 L +V P + +++ Sbjct: 241 LAQLADLPARKVPELTPDEQNRWSRDKNKRRPVNAMRKPKSSRRSR 286 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 106/231 (45%), Gaps = 2/231 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + +A + SR++V+++ Q++K+NG + + V I+V G + Sbjct: 1 MRLDKCLEKAKVGSRKQVKKLFKAQQIKINGQAAQSLSQIVDPELQTIQVSGKKVALEGS 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 AYYLLHKPAGVVSAVTDQEHQTVIDLISPQDSREGLYPVGRLDRDTEGLVLITNNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D G+ + G +T+ ++ T+ Sbjct: 121 RMLHPSHHVDKFYYVEVNGCLAEDASKFFASGVTFLDGTRCQPAVLTVLEASLDHSRATI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EGK ++KK+F + KV L RIS+G F+LG L G+ R+++ + Sbjct: 181 KLAEGKFHQVKKMFLAYGVKVTYLKRISFGGFELGDLERGAYRQLTPNEME 231 >gi|315022583|gb|EFT35609.1| Ribosomal large subunit pseudouridine synthase B [Riemerella anatipestifer RA-YM] Length = 311 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 60/237 (25%), Positives = 113/237 (47%), Gaps = 1/237 (0%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +VQ+ R++K IA +GI SRRE + +I Q V++NG ++ V TD + DG Sbjct: 70 KLVQQPKDTIRLNKYIANSGICSRREADELIQQGLVEINGKVVTELGYQVQKTDKVVFDG 129 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + + L + TT + ++ + + R+ VGRLD T G++LL Sbjct: 130 QSITPEKPVYVLLNKPKGYISTTKDEKARKTVMDLTANASPYRIFPVGRLDRQTTGVILL 189 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L + L PS ++Y V ++ + + ++ KGI ++ ++ K Sbjct: 190 TNDGHLTKKLTHPSFNIKKIYHVTLDRKLTGEDMAIIAKGIRLEEGVAEVDSISYIDGKP 249 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 N + + + G NR I+++F+ ++V L R+ + + G R +++ + Sbjct: 250 KN-EIGIEIHIGWNRVIRRIFQRLGYEVEALDRVMFAGLTKKNIKRGHWRILTELEV 305 >gi|145636895|ref|ZP_01792560.1| malic enzyme [Haemophilus influenzae PittHH] gi|145269976|gb|EDK09914.1| malic enzyme [Haemophilus influenzae PittHH] Length = 232 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 57/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDMDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 57/234 (24%), Positives = 111/234 (47%), Gaps = 1/234 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ R++K IA AGI +RRE +R I V+VNG + V D ++ DG + Sbjct: 54 TDDSKGIRLNKYIANAGICARREADRYITAGNVEVNGKPMTELGYRVQPNDIVKFDGKNI 113 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + L + TT + ++ + + + + VGRLD T GLLLLTND Sbjct: 114 SAEKKEYILLNKPKGFITTTQDEKGRKTVMELVVGAAQGNIKPVGRLDRLTTGLLLLTND 173 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + L PS ++Y V ++ + +++G+ ++ ++ + + Sbjct: 174 GDLIKKLTHPSHGVRKIYHVILDKKLALPDFHKIQEGLTLEDGFIQVDDISFV-EGAPHN 232 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + G+NR ++++FE + V +L R+ + L G R ++++ + Sbjct: 233 EIGVKIHSGRNRIVRRIFESLGYTVEKLDRVVFAGLTKKDLPRGHWRPLTQQEV 286 >gi|225621236|ref|YP_002722494.1| pseudouridylate synthase [Brachyspira hyodysenteriae WA1] gi|225216056|gb|ACN84790.1| pseudouridylate synthase [Brachyspira hyodysenteriae WA1] Length = 229 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 67/233 (28%), Positives = 110/233 (47%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +ASRRE +R+I VKVNGI+ A V D IE + E Sbjct: 1 MRLNKYIASLNLASRREADRLIQNGNVKVNGIINTNPATQVDENDKIEC--SIEQYKENK 58 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G V + + +G+ ++ + F + VGRLD ++ GL+L TNDG A+ Sbjct: 59 IYIKLNKPRGYVVSSNKNEGKPI-YNLIKKDFDNIYPVGRLDKDSSGLILFTNDGVFAKQ 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + +T + Y VR + L L+ GI + G +V + + L Sbjct: 118 IIGENTNCEKEYYVRVDDNIPDGALQKLEYGISLDGQKLKPAKVKRVNKNS----FHIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ + ++V L R+ L L G+ + ++K+ + L Sbjct: 174 TEGKNRQIRRMCQKVGFEVIILKRLRISGILLEDLKEGTFKSLTKEEIESILK 226 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 91/236 (38%), Positives = 123/236 (52%), Gaps = 2/236 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 R+ KV+A+AGIASRR E+MIA RV V+G ++ V V T I VDG L E Sbjct: 10 GVRLQKVLAQAGIASRRASEQMIADGRVSVDGTVVRTQGVRVDPATQVIHVDGERLILDE 69 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KPIG V+T SDP+GR T+ D + R+ VGRLDI+T GLLLLTNDG L Sbjct: 70 AKHIVLAVNKPIGTVSTMSDPEGRPTIADLIADYPERLYHVGRLDIDTSGLLLLTNDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + + Y R HG+V L GI ++ L G V Sbjct: 130 ANRLTHPSYEIRKTYVARLHGEVKPGVRRRLLAGIELEDGPIAVDSFRLVDTYGDITTVE 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + EG+NR ++++ E + V L+R +GP L L G+TR + L G Sbjct: 190 IVVHEGRNRLVRRMMEAVGYPVRELVRTGFGPISLDHLKQGTTRRIKGNALTALYG 245 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 81/230 (35%), Positives = 119/230 (51%), Gaps = 1/230 (0%) 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 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYLAMNKPRGVVSTMADEKGRTAIADFLGNRVQERVYHVGRLDADSEGLLLLTNDGTLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y G + + L GI + + G A V V Sbjct: 138 HRLTHPSYGVPKTYLCEVSGPIPRTLGRRLAAGIELTDGPATVDAFRVVDTLGRTAQVEV 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ ++++F+ V+RL+R S GP +LG L AG TR ++ + Sbjct: 198 TLHEGRKHIVRRLFDAVGHPVSRLVRTSIGPIRLGDLRAGRTRRLTNAEV 247 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 92/320 (28%), Positives = 134/320 (41%), Gaps = 9/320 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAIVRIDGHTVSAKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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-TLLAGSTREVSKKI---LREQ 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 VHRRNLASNVWMAKGIHSSF 324 + + A S Sbjct: 303 GEQGSRAKQGNSKPQRQSRK 322 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 86/289 (29%), Positives = 128/289 (44%), Gaps = 10/289 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 290 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 76/248 (30%), Positives = 121/248 (48%), Gaps = 5/248 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N ++ R+ + +A+ G+ASRR E +I RV VNG ++ V D + Sbjct: 1 MPVNNSKEKKEDVMRLQQYMAKCGVASRRASEAIICAGRVTVNGTVVTELGTKVDVQDKV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTE 119 VD + E+ L +KP G V + SD GR D L R+ +VGRLD+ + Sbjct: 61 CVDEKEIHLEEKKCYVLLNKPSGYVCSASDEKGRPVAADLLKEAYSERLYNVGRLDMFSS 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GL++ TNDG A L PS + + Y V + + + GI I G+ Y Sbjct: 121 GLIIFTNDGDFAAKLSHPSAELEKEYIVDTSLPMPRFLADDFMDGIRIDGVFYR----CK 176 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D ++ ++ + + L EGKNREI++VFE + + L+RI G +G L G R++++ Sbjct: 177 DARELNSHRMRIVLVEGKNREIRRVFEKYEVGIKSLMRIRIGCVGVGELQFGQFRDLTQD 236 Query: 240 ILREQLGP 247 ++ L Sbjct: 237 EVKALLRL 244 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 87/288 (30%), Positives = 127/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNN 289 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 92/319 (28%), Positives = 133/319 (41%), Gaps = 9/319 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGIVAKLGERLEDENAVVRIDGHTVSAKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LREQ 244 V + EG+NRE+++++E V+RL R+ YG L L G E+ K LRE Sbjct: 183 FYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWMELDLKQVNYLREM 242 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + +E ++ + S + I V R+ + N S++K Sbjct: 243 VELRPEKETLLDENKSNTSRKRERSRSQKIRRAVKRHEERVNSGGGRSNNPSRRKPRKGA 302 Query: 305 VHRRNLASNVWMAKGIHSS 323 + + A + Sbjct: 303 GEQGSRAKQGGKPQRQQRK 321 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 86/261 (32%), Positives = 128/261 (49%), Gaps = 7/261 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ K++A AG+ SRRE+E+ I RV VNG + + D I VDG + Sbjct: 2 SEKLQKILANAGLGSRREIEKWIEGGRVSVNGSIAK-LGERATDKDTIRVDGRIISIISA 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + T + + + 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-LLAGSTREVSKKILREQLG 246 W VGL EGKNRE++K++E +V+RL+R+ YGP L T L G ++ ++ + + Sbjct: 181 WYEVGLAEGKNREVRKLWESQGVEVSRLMRVQYGPISLPTRLSRGRWVDLEEQEINDLAK 240 Query: 247 PHLLEEAQVNLDAPIYSSETL 267 LE + + Sbjct: 241 LVELEVTPRRARPEVQKRQKK 261 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 66/232 (28%), Positives = 108/232 (46%), Gaps = 6/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV+R I + R+ VNG +++ + TD + DG + E Sbjct: 4 IRLDKYLADMGLGTRTEVKRDIKKGRISVNGEIVKSPEYKIDIQTDVVLADGKEIAYEEL 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ D ++ + + VGRLD +TEGLLL+TNDG LA Sbjct: 64 VYYMLNKPQG-VVSATEDRRDKTVLDLISEKKRKDLFPVGRLDKDTEGLLLITNDGELAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y VR + ++ L++G+ I + V + +K A + Sbjct: 123 NLLSPKKHVDKKYFVRLRDALSEEDKKHLEEGVDIGEDKLTLPSHVFVLNEKRDEA--EI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 +REGK +IK++F +V L R+S G L LL G R ++ + + Sbjct: 181 VIREGKFHQIKRMFHAVGNEVVFLKRLSMGSLTLDEALLTGEYRLLTPQEIE 232 >gi|325473332|gb|EGC76527.1| pseudouridine synthase [Treponema denticola F0402] Length = 234 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 115/236 (48%), Gaps = 5/236 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ +AR G+ASRR E +I RV V+G ++ V + I +DG + Sbjct: 3 DEIRLQVYLARCGVASRRASENLILNGRVSVDGKIITELGTKVSGKEKICLDGKQIFPEA 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGL 130 R L +KP G V + +D R L ++ ++GRLD+ + G +L TNDG Sbjct: 63 EKRYILLNKPEGYVCSLADEKDRPIAASLLKDTYTERLYNIGRLDMLSGGAILFTNDGDF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + +E PS++ + Y V + + L +G+ I+G+ Y + + Sbjct: 123 SAKVEHPSSEIEKEYEVITVFEYPDEVLQKFLRGVRIEGVFYKALSAERIAKNKM----R 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L EGKNREI++V +FFN K+ +L R+ G L L +G R ++ + ++ LG Sbjct: 179 IVLIEGKNREIRRVLKFFNIKIKKLTRVRIGCVYLADLPSGKHRPLTSEEIKGLLG 234 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 60/237 (25%), Positives = 113/237 (47%), Gaps = 1/237 (0%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +VQ+ R++K IA +GI SRRE + +I Q V++NG ++ V TD + DG Sbjct: 70 KLVQQPKDTIRLNKYIANSGICSRREADELIQQGLVEINGKVVTELGYQVQKTDKVVFDG 129 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + + L + TT + ++ + + R+ VGRLD T G++LL Sbjct: 130 QSITPEKPVYVLLNKPKGYISTTKDEKARKTVMDLTANASPYRIFPVGRLDRQTTGVILL 189 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L + L PS ++Y V ++ + + ++ KGI ++ ++ K Sbjct: 190 TNDGHLTKKLTHPSFNIKKIYHVTLDRKLTGEDMAIIAKGIRLEEGVAEVDSISYIDGKP 249 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 N + + + G NR I+++F+ ++V L R+ + + G R +++ + Sbjct: 250 KN-EIGIEIHIGWNRVIRRIFQRLGYEVEALDRVMFAGLTKKNIKRGHWRILTELEV 305 >gi|160880922|ref|YP_001559890.1| pseudouridine synthase [Clostridium phytofermentans ISDg] gi|160429588|gb|ABX43151.1| pseudouridine synthase [Clostridium phytofermentans ISDg] Length = 240 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 66/245 (26%), Positives = 108/245 (44%), Gaps = 8/245 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + ++ + R+ K +A + +R EV++MI + RV VNG V S D I VD Sbjct: 1 MSKSNSMLRLDKYLADLSVGTRTEVKQMIRKGRVMVNGNTETSPETKVDSNHDKIFVDSR 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L L +V+ +D + V + + VGRLD +TEGLL++T Sbjct: 61 ELSYVTLEYFMLNKPAG-VVSASNDKKQTTVVDLIDEAKRKDLFPVGRLDKDTEGLLIIT 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKG 184 NDG LA L P +VY + + ++ G+ I ++ +++ Sbjct: 120 NDGDLAHQLLSPKKHVDKVYFAKLRDPLKKEDEEAFAAGLKIDEEFTALPAKLERISEQE 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + V +REGK +IK++FE +V L RIS G L L G RE++++ + Sbjct: 180 A----YVTIREGKFHQIKRMFEATRNEVIYLKRISMGSLVLDESLSLGEYRELTEEEIEA 235 Query: 244 QLGPH 248 Sbjct: 236 LRENR 240 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 127/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDFAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 + ++V ++ + R R ++ Sbjct: 242 GLVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQIAGGRRSGGRNN 289 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 59/223 (26%), Positives = 100/223 (44%), Gaps = 4/223 (1%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWLYHKP 81 G SR+EV++++ VK++GI ++ A V+V + + G + E L ++ Sbjct: 1 MGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMMHKPQ 60 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 + T D L VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSHQLLSPKKHV 120 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y G V ++ + KG+++ +T+ + + + + + EGK + Sbjct: 121 PKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIELVITEGKFHQ 179 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +K++FE KV L R GP L L G RE++ + + Sbjct: 180 VKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 222 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 104/236 (44%), Gaps = 11/236 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---AE 71 R++K ++ G SRRE +R+I + +V +NG + + V +D +EV G ++K + Sbjct: 4 RINKYLSEVGYCSRREADRLIHEGKVTINGKIPK-IGSKVEESDQVEVKGQRIKKITGQK 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + TT + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDRK--VEPNNVIDFIKYPKRIFPIGRLDKLSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V+ + Q++ D + + G+ I + ++ + Sbjct: 121 NKILRARNNHEKEYIVKVNRQINSDFIQSMSSGVEILDTITKNC----FVKQLGPKKFKI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 L +G NR+I+++ E ++V L R+ +L + G RE +K+ L E Sbjct: 177 ILTQGLNRQIRRMCESLGYRVRSLKRVRIMNIEL-DVSTGKYREFTKEELFELNRL 231 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 69/230 (30%), Positives = 114/230 (49%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA+AG+ASRR+ E I + V VNG L+ + V D ++V G L E+ Sbjct: 1 MRINKYIAKAGLASRRKSEEYIKKGLVFVNGKKLDDLSYQVKENDQVKVMGKLLEIKEKF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + ++L I R GRLD ++ GL+L+TNDG + Sbjct: 61 YYKLNKPIGFISSN--YDPHNKKDLNSLVKIDHRFFCAGRLDKDSHGLMLITNDGKITNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVG 192 L PS + + Y V+ +++D L +KGI + D ++ L ++ V Sbjct: 119 LIHPSKKIEKTYIVKVDKLLNKDDEALFRKGIKLSVNEKTSDAKINLI--DENSKIYEVI 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G NR+++++F +F KV L RI G +LG L G ++++KK L Sbjct: 177 IHQGFNRQVRRMFLYFGSKVIDLKRIKIGQIELGKLEDGKYKKLNKKELE 226 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 66/253 (26%), Positives = 117/253 (46%), Gaps = 5/253 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK + N R+++ +A GIASRR ++++ + RV +NG ++ V V + D Sbjct: 3 MKQEK---SNNDGMRINRFLAMCGIASRRAADQLVQEGRVCINGKIVTTPGVKVNPSRDE 59 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + +DG + E ++++ V T S + + + + + R+ VGRLD T Sbjct: 60 VIIDGKRFAQPENRKVYILLNKPRNVITTSSDERQREMVLDFIDVPERIFPVGRLDRKTT 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G++LLTNDG LA L PS+ + Y + L L G+ ++ Sbjct: 120 GVILLTNDGELAHKLMHPSSGVKKEYIAELSERFPAAMLGKLTNGMRLKDTGEKVSPCRA 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + + EGKN +++++F+ ++V RL R++Y Q G L G R +S+ Sbjct: 180 KLLDDGMRVL-LSIHEGKNHQVRRMFDTLGFEVKRLDRVAYAGLQAGELRRGEWRYLSRN 238 Query: 240 ILREQLGPHLLEE 252 +RE E Sbjct: 239 EVRELYRISQEEA 251 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 112/231 (48%), Positives = 150/231 (64%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 PQR++K++ARAG+ASRREVERMI + R+ +NG + A + S + VDG P+ Sbjct: 63 NEPQRIAKLLARAGVASRREVERMIEEGRITLNGEAVSTPATLLSSLHGVAVDGNPVAAP 122 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL+L+HKP G +TT DP GR T++D LP RV+ +GRLD+ TEGLLLLT DG Sbjct: 123 APARLFLFHKPSGFLTTERDPRGRPTIYDKLPPDLPRVMPIGRLDMMTEGLLLLTTDGEF 182 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 R +ELPST R YR R G+V Q++L L G+ I GI YG ++ L+ + G N W+ Sbjct: 183 KRQMELPSTGVPRTYRARAFGEVSQNQLEDLFDGLEIDGIRYGRIEANLERRTGRNQWIE 242 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGKNRE+++V E +VNRLIR SYGPF LG L +G+ EV + L Sbjct: 243 MTLTEGKNREVRRVLEHLGLQVNRLIRTSYGPFHLGELASGAVEEVRQHDL 293 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 66/229 (28%), Positives = 109/229 (47%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+++ I+ AGI SRR+ + +I + VNG ++ V D I+ +G L++ + Sbjct: 207 IRLNRYISNAGICSRRKADELITAGVISVNGEVVTELGSKVDPAKDEIKYNGERLKREKM 266 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + TT + R+ + + R+ VGRLD NT GLLLLTNDG LA Sbjct: 267 VYVLLNKPKDYITTTDDPQERRTVMQLVANATKERIYPVGRLDRNTTGLLLLTNDGNLAE 326 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y V ++Q N + G+ ++ ++ Q GS V + Sbjct: 327 KLSHPRNNISKIYNVELDKSLNQGDFNKIVFGLELEDGFVKPDDLSYV-QGGSKREVGIQ 385 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + GKNR ++++FE + V +L R+ Y L G R + +K L Sbjct: 386 IHSGKNRIVRRIFESLGYDVVKLDRVVYANLTKKDLPRGRWRYLEEKEL 434 >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 = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 127/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 + ++V ++ + R R ++ Sbjct: 242 GLVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQIAGGRRSGGRNN 289 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 58/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQATKAIHQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEED 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 127/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLSQTNYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 + ++V ++ + R R ++ Sbjct: 242 GLVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQIAGGRRSGGRNN 289 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNN 289 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 68/273 (24%), Positives = 107/273 (39%), Gaps = 33/273 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 P R+ K +ARAG ASRR E ++ RV VNG ++ V D + VDG +R A+ Sbjct: 10 PMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDEVAVDGAVVRLAD 69 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L+ + T R+ + + +GRLD +T GLLL + DG L Sbjct: 70 GPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDTTGLLLFSTDGEL 129 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--- 187 L P + Y G+ + L LL++GI + V + + Sbjct: 130 GNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVRVVEGGAARHAER 189 Query: 188 ----------------------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 V +G+REG+ R++K++ V L R S Sbjct: 190 LLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAAVGHPVLALHRDS 249 Query: 220 YGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +GP +LG L G+ R + + + E Sbjct: 250 FGPLELGDLPRGAWRALDAEEVAALHQAIGRAE 282 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 103/231 (44%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A++ SR+EV R + V VN + ++ A+++ D + + G P+ Sbjct: 1 MRLDKYLAQSTGFSRKEVRRFMKAGEVVVNDLEIKDPALHISDEDDVYLSGYPVEAPGEK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L+ + + +LP I GRLD++T GL+L+T++G A Sbjct: 61 YLMLHKPLGCVCSNDDSTHPTVLSLLDLPRAEELTI-CGRLDVDTTGLVLITSNGKWAHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y+V + QD + KG+++ + ++T+ V Sbjct: 120 VTSPKHKTGKRYQVTTADPIPQDAITKFAKGLMLINEKERTKPAELTII----GEYEAEV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F KV L R+S G L L G R ++ + + Sbjct: 176 VLTEGRYHQVKRMFAAIGNKVEELHRVSIGAISLDEDLEPGEFRFLTDEEI 226 >gi|324996011|gb|EGC27922.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK678] Length = 242 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ SR +V++++ + V VNG + + D I V G L + Sbjct: 1 MRLDKFLAENGLGSRAQVKQILKKGLVLVNGRAEKSPKTQIDERADEIVVSGQRLTYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T D + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYLLNKPQGVISATEDDRHQTVLDLLDETARQKEVFPVGRLDIDTHGLLLLTNNGKLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 + P ++YR + G ++Q + GI ++ Q+ + + + V Sbjct: 121 AMLSPKKHVEKIYRAQVAGLMEQADVERFAAGIELKDFTCQPAQLKILELDEAKETSLVE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + L EGK ++K++ +V L R++ GP Q L G R +++ + Sbjct: 181 ITLAEGKFHQVKRMVAACGKEVTDLQRLTMGPLQSDPALALGEWRRLTEVEM 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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 82/318 (25%), Positives = 136/318 (42%), Gaps = 6/318 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL- 67 E +++ KVIAR G+ASRRE E I+ RV+VNG + V + D I VDG + Sbjct: 7 EKAQGEKLQKVIARQGLASRREAEEWISGGRVRVNGKVA-HLGDRVTAEDKISVDGHKIA 65 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L + + + 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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L+EG+NRE+++++E V+RL R+ YG L + G+ +K + Sbjct: 186 NRWFHVVLQEGRNREVRRLWESQGVTVSRLKRVRYGYMFLPSRVRLGNWEMAGQKDVNVL 245 Query: 245 LGPH-LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + +L + + P + + ++K + ++ + Sbjct: 246 YEMAGMQPKTVASLTPHTREKIQRQQGKSGASKPKPSNGRTGARAPARKPAAASDERRSA 305 Query: 304 PVHRRNLASNVWMAKGIH 321 P+ + Sbjct: 306 PLRHSTGRKPGPGRRKPQ 323 >gi|330911132|gb|EGH39642.1| ribosomal large subunit pseudouridine synthase B LSU [Escherichia coli AA86] Length = 291 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 87/288 (30%), Positives = 129/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ +T R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKTNQIRRAVKRHSQVSGGRRSGGRNN 289 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 79/230 (34%), Positives = 120/230 (52%), Gaps = 1/230 (0%) 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 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 +KP G+V+T +D GR+ + D L + + VGRLD ++EGLLLLTNDG LA Sbjct: 84 LVYLAMNKPRGVVSTMADEKGRTAIGDFLGNRVEQRVYHVGRLDADSEGLLLLTNDGTLA 143 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y G + + L G+ + + G A V V Sbjct: 144 HRLMHPSYGVPKTYLCEVSGPIPRSLGRRLAAGVELTDGPATVDAFRVVDTLGKTAQVEV 203 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ ++++F+ V+RL+R S GP +LG L AG TR ++ + Sbjct: 204 TLHEGRKHIVRRLFDAVGHPVSRLVRTSIGPIRLGDLRAGRTRRLTNAEV 253 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 62/224 (27%), Positives = 99/224 (44%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ VKV+G ++ A V+V I V G + E Sbjct: 1 MRLDKLLSTIGYGSRKEVKGLLKTGAVKVDGSAVKDAKVHVNPDEQEITVHGEAVSYREF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T L VGRLD +TEGLLLLTNDG LA Sbjct: 61 VYFMLHKPQGVISATEDSLHETVLDLLELDDAVYDPFPVGRLDKDTEGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y + + V ++ ++G+ + ++ + T G + + + Sbjct: 121 QLLSPKKHVPKTYFAKINAPVTEEDAEAFRQGVTLDDGYVTKSAELKILT-SGVESEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + EGK ++K++FE KV L R+S G L L G R Sbjct: 180 TIVEGKFHQVKRMFEARGKKVTYLKRLSMGALLLDESLDLGEYR 223 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 59/223 (26%), Positives = 100/223 (44%), Gaps = 4/223 (1%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWLYHKP 81 G SR+EV++++ VK++GI ++ A V+V + + G + E L ++ Sbjct: 1 MGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEFVYLMMHKPQ 60 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 + T D L VGRLDI+TEG LL+TNDG L+ L P Sbjct: 61 GVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSHQLLSPKKHV 120 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y G V ++ + KG+++ +T+ + + + + + EGK + Sbjct: 121 PKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIELVITEGKFHQ 179 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +K++FE KV L R GP L L G RE++ + + Sbjct: 180 VKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 222 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 54/238 (22%), Positives = 108/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV+ + D + + G+++ G Q+ + S V + Sbjct: 121 ITSPKHHCEKTYRVQLSEDITDDVIQKFEIGVMLNGEKSPTKPAQLEII----SPREVLL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F V L R G +L L G R +++ + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVCGLHRERVGEIRLDEQLEPGEYRPLTEDEINSITVPR 234 >gi|325201930|gb|ADY97384.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M01-240149] Length = 256 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G ++ Sbjct: 2 EPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLKW 60 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL Y + +V+ S + SR +++GRLDINT GLL+LT Sbjct: 61 ADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTS 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G L + PS + R Y VR G + +++ +L + ++++ ++ +G+N Sbjct: 121 GELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V ++EG+NRE++++FE V+RL+R+ +GP L L G E++ + + Sbjct: 181 KWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYELNPAEVANII 240 Query: 246 GPHLL 250 + Sbjct: 241 KWADM 245 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 89/289 (30%), Positives = 126/289 (43%), Gaps = 8/289 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+A AG+ SRRE+E+ IA R+ VNG + V D + VDG + A Sbjct: 2 SEKLQKVLANAGVGSRREMEKWIASGRISVNGKVAT-LGDRVEPLDQLRVDGNLITAAAK 60 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + + 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 SWYNVSLSEGKNREVRRLWESQGLQVSRLIRVRYGTLNLQNRLPQGGWIELPLTDLNTLR 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 L+ Q +L + VR S + + + K Sbjct: 241 KSVQLDLEQESLIEDKQTKLDHVRLSRMRRSVQKHKVNQGRAKARPKKK 289 >gi|313665476|ref|YP_004047347.1| pseudouridylate synthase [Mycoplasma leachii PG50] gi|312949302|gb|ADR23898.1| pseudouridylate synthase [Mycoplasma leachii PG50] Length = 252 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 69/249 (27%), Positives = 122/249 (48%), Gaps = 5/249 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +R+ KVI+ G SRR E++I + R+KVN ++ + V + I +D + 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 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGD--MQVTLDTQKGSNAW 188 + P ++L+ Y+ GQV + ++N L KG+ I ++ + + + Sbjct: 124 NFIMHPKYEFLKTYQGLCQGQVSKQQVNQLIKGVYIDNNYLTKAYSAKLVKYDKLKNVSI 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + EGK +KK+FE ++ +L R ++ L G RE+ +++ G + Sbjct: 184 VELTINEGKKHHVKKMFESIQAQLLKLKRTKIEFLEIDNLKPGQYRELKIHEIKKLYGIY 243 Query: 249 LLEEAQVNL 257 + Sbjct: 244 HSLKQNNKK 252 >gi|54112711|gb|AAV28989.1| NT02FT0029 [synthetic construct] Length = 271 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 86/259 (33%), Positives = 125/259 (48%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQINDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 74/256 (28%), Positives = 126/256 (49%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ +F P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 85 LKERRSDLSHFEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 143 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 144 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 203 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 204 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 263 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 264 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 323 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 324 ELNPAEVANILKWADM 339 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 85/288 (29%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKLLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNN 289 >gi|224369318|ref|YP_002603482.1| RluB [Desulfobacterium autotrophicum HRM2] gi|223692035|gb|ACN15318.1| RluB [Desulfobacterium autotrophicum HRM2] Length = 230 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 100/231 (43%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AG+ SRR E I + RV VN ++ + D +EVD P+ A Sbjct: 1 MRLQKFLAHAGVCSRRRGEVYILEGRVSVNHKVVISLGTKIDPEIDLVEVDKKPIVLASE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 S V +L I RV +GRLD ++ GLLLLT+DG L Sbjct: 61 KAKIYIALNKPAGVVSSCSHPGEKVVVDLIDIKDRVYPIGRLDKDSVGLLLLTDDGNLHN 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + Y V ++ + L + GIV+ G +V + + Sbjct: 121 RLSHPSFDHEKEYVVETTAPINDEALAQMAAGIVLDGKITRKARVRRLSDNR----FNIV 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L++G NR+I+++ +V L R+ G +LG L G R ++ +R Sbjct: 177 LKQGINRQIRRMVTAVGNRVKLLKRVRMGSVRLGNLGTGKWRYLTDTEVRA 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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 101/231 (43%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV + +D GI + Q+ + T V + Sbjct: 121 ITSPRHHCEKTYRVTLESPLAEDTAEQFAHGIQLHNEKALTKPAQLEVITA----TEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F V L R G L L G R +++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGAIALDPELEPGGYRPLTEDEI 227 >gi|295095683|emb|CBK84773.1| ribosomal large subunit pseudouridine synthase B [Enterobacter cloacae subsp. cloacae NCTC 9394] Length = 291 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 86/289 (29%), Positives = 129/289 (44%), Gaps = 12/289 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + V I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIAT-LGDRVEIVPGLKIRIDGHLISVK 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +R I+VGRLD+NT GLLL T Sbjct: 61 ESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD++KL L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLTQTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 R+ +G ++V ++ + R R ++ Sbjct: 241 RDLVGLTPETTSKVAVEKDRRRMKANQIRRAVKRHSQVSSNRRSGSRNN 289 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 108/232 (46%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A SR E + + Q+RV VNG L++ + V + D + +DG + Sbjct: 1 MRLDKFLANYSSLSRTEATKALKQKRVLVNGDLVKTGSHKVANDDQVWLDGRRIEMNTA- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +KP + ++DP + + +VGRLD++T GLLL+T+DG + Sbjct: 60 VYFMMNKPANYLCANADPQHALVFDLIDEASTYVLHTVGRLDLDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 L P + YRV + D ++G+++ + ++ ++ V + Sbjct: 120 LTSPKHHIPKTYRVWLDEPLVADAEIQCEQGLLLRSESKPTLPAELNRI----TDTEVLI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F +V RL R GP +L L G R ++++ L Sbjct: 176 TISEGRYHQVKRMFAAMGNRVVRLHRERIGPLELDPNLAPGEYRSLTQQELD 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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNN 289 >gi|167824420|ref|ZP_02455891.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 9] Length = 374 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 76/274 (27%), Positives = 124/274 (45%), Gaps = 6/274 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 66 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 124 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 245 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 304 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 +R + L+ + + P Sbjct: 305 AQVRRLMSTVGLKAPTEDKGGKRGGPAERRQPDP 338 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 78/236 (33%), Positives = 120/236 (50%), Gaps = 3/236 (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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 L HKP+ V T +DP+GR TV LP + VGRLD +EGLLLLTNDG LA Sbjct: 61 YYLLLHKPVQTVCTVNDPEGRPTVMAYLPPEVRHLRLYPVGRLDYFSEGLLLLTNDGELA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVT 190 + L P + Y V G V + L +++G+ + + V T + N + Sbjct: 121 QRLTHPRHHQPKTYEVLIRGSVPETALAAMRRGMRLDEGQALLPVDVEAKTAENGNTLLR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ + RL R++ GP LG L G+ R ++ + + Sbjct: 181 MVLHQGVNRQIRRMCRDLGLTILRLRRVAQGPLALGNLKPGAARALTTGEVADLRQ 236 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 68/241 (28%), Positives = 111/241 (46%), Gaps = 3/241 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++K IA AG+ SRR+ + ++ Q RV ++G +++ V + VDG + Sbjct: 17 SSDREGMRINKYIAHAGVCSRRDADDLVEQGRVHIDGERVDQHGTRVREGQTVTVDGEEV 76 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLT 125 E L L + TT D R+ + S + VGRLD NT G+LL++ Sbjct: 77 YPLEFEYLLLNKPKDTISTTDDPKDRRTVLDAIGVPEDNPSGLFPVGRLDRNTTGVLLVS 136 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + ++Y VR V +L+ LK+G+ + QV + Sbjct: 137 NDGDLAHRLMHPRYEIPKIYYVRLQDDVKPHQLDQLKRGVELSDGAAAADQVAYLDPQR- 195 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + L EG+NR+I+++ E + +L R Y G L G R + + +RE Sbjct: 196 KTDIALELHEGRNRQIRRMMEALGHTIVQLERAKYATLTTGRLQRGEWRRLEPEEVRELY 255 Query: 246 G 246 Sbjct: 256 Q 256 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 47/230 (20%), Positives = 97/230 (42%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R++ ++I + V+G + + A V + + + Sbjct: 1 MRLDKYLCDALGATRKQATKIIKSGDITVDGEVQKSGAFKVPKGAEVMWEDRVIGAPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGYNQ-TAFALLDEPKIENLHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D L++GI+++ + L+ + V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDAIQPDYAEKLEQGIILRNESEATLPARLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 EGK ++K++F KV L R G +L L G R ++++ + Sbjct: 180 VEGKYHQVKRMFAALGNKVEYLHRERIGSIELDEALEPGDYRHLTQEEID 229 >gi|302387646|ref|YP_003823468.1| pseudouridine synthase [Clostridium saccharolyticum WM1] gi|302198274|gb|ADL05845.1| pseudouridine synthase [Clostridium saccharolyticum WM1] Length = 262 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 66/246 (26%), Positives = 111/246 (45%), Gaps = 15/246 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++K ++ AGI SRRE +R I +V +NG V+ + ++G ++ Sbjct: 2 ETEGIRLNKFLSEAGICSRREADRFIEAGKVSINGKAAAT-GQKVLPGQSVTINGRTVQA 60 Query: 70 -------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 E HKP G+V T S D + D + R+ VGRLD ++EGL+ Sbjct: 61 GKGDQSHKEEPVFLAVHKPRGIVCTTSHKDRAPNIVDMVDY-PVRIYPVGRLDKDSEGLI 119 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLD 180 L+TN G L + + Y V+ + V D + +KKG+ + + VT Sbjct: 120 LMTNQGSLVNKMMRSGNAHEKEYLVKVNRPVTDDFIRTMKKGVFLPELNVTTKPCFVTKA 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +K + L +G NR+I+++ ++V L R+ +LG L G+ RE+SK+ Sbjct: 180 GEKA----FRIVLTQGLNRQIRRMCSQLGFEVRMLKRMRIMNIELGDLKPGAYRELSKRE 235 Query: 241 LREQLG 246 + Sbjct: 236 YHQMKE 241 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 65/245 (26%), Positives = 113/245 (46%), Gaps = 5/245 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A G+ +R ++++ I++ +V VNG + + A + D + G + AE Sbjct: 4 RLDKYLADMGLGTRSQIKKDISKGQVLVNGTVSKDAGTRIDTEKDQVSYLGQTVTYAEYE 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +V+ D R+ + + VGRLD +TEGLLL+TNDG LA Sbjct: 64 YYMLNKPAG-VVSATEDRHDRTVLDLIDTKQRKDLFPVGRLDKDTEGLLLITNDGALAHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY R G+V + + L +KG+ I + ++ + + + + + Sbjct: 123 LLSPKSHVDKVYFARIEGKVTAEDVFLFQKGVDIGEQALTLPARLEIL-SSDTVSEIRLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLE 251 + EGK ++K++FE KV L R+S G L L G+ R ++ +R E Sbjct: 182 ICEGKFHQVKRMFESVGKKVLYLKRLSMGTLILDDLLPPGAYRTLTAGEIRSLQTISKKE 241 Query: 252 EAQVN 256 Sbjct: 242 TGDKE 246 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 74/256 (28%), Positives = 127/256 (49%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ +F P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 85 LKERRSDLSHFEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 143 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 144 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 203 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 204 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRMLTEEGVMLEDGLAKVE 263 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 264 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 323 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 324 ELNPAEVANILKWADM 339 >gi|167836825|ref|ZP_02463708.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis MSMB43] Length = 358 Score = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 77/300 (25%), Positives = 126/300 (42%), Gaps = 9/300 (3%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 60 KRVLSPEDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 118 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++F+ V+RLIR +GP L L G E+ + Sbjct: 239 GGGEGTNHWYHVALAEGRNREVRRMFDAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 298 Query: 239 KILRE---QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +R +G E + + T + + G Sbjct: 299 AQVRRLMSTVGLKAPTEEKGKRGGATERRQPDPMQTSMGFINREPVLTTHGQLDQPRRGR 358 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 67/229 (29%), Positives = 106/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + GI SR+EV+++I+ + VNG A N+ D IE +G L E Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNDEITVNGFNDISAKDNIDENSDIIEYNGEKLEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDFKENTVMDLLPEWVIRKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + + + L++G+ I +V +K S+ + + Sbjct: 121 RLLSPKNHIDKVYYIEIENNILDKDILKLEQGVDIGNYITQPAKV----EKISDNKIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E N KV L R+S+G +L L G +EV+ + + Sbjct: 177 IKEGKFHQVKKMLEAVNNKVCYLKRVSFGKLKLDDLALGEVKEVNLEDI 225 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 57/233 (24%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G + + Sbjct: 1 MRLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGTLVSYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + V VGRLDI+T GLLL+TN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHKTVLDLLDKTARDKAVFPVGRLDIDTTGLLLITNNGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 + P + Y + G + +D + KGI+++ ++ Q + V Sbjct: 121 KMLSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S G QL L +G R ++ K + Sbjct: 181 ITIKEGKFHQVKRMVAACGKEVLELKRLSMGNLQLDKQLESGQWRRLTIKEIE 233 >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 = 164 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 100/234 (42%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G +R+ V+ ++ + V VNG + + V D I V G + E Sbjct: 1 MRLDKLLANMGFGTRKTVKNVLKAKEVTVNGTMEKDGKTQVDPDKDVIVVSGEAVHYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ + T + VGRLD +TEGLLLLTNDG LA Sbjct: 61 VYFMMHKPQGVVSATIDNLHETVIDLLQPQDQVFDPFPVGRLDKDTEGLLLLTNDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWV 189 L P + Y G V++ + K GI + ++ + + + Sbjct: 121 NLLSPKKHVDKCYEAIIEGLVNEQDIQAFKDGITLNDGFICQSAKLEILSTDLEKEQTLI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 V + EGK ++K++FE + VN L R+S G QL + G+ R ++ + L Sbjct: 181 HVTIHEGKFHQVKRMFEAVDKSVNYLKRLSMGKLQLDETVEIGNYRPLTNEELE 234 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 92/333 (27%), Positives = 141/333 (42%), Gaps = 20/333 (6%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGV 65 + +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG Sbjct: 29 KTKVVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKI-SKLGDRVEVTQATKIRLDGH 87 Query: 66 PLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 L E L Y L T + + SR ++VGRLD+NT G Sbjct: 88 LLSIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSG 147 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ +T Sbjct: 148 LLLFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTITFQ 207 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 208 GGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD-- 265 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L+ L E + + + R + N I + + Sbjct: 266 -LKATNYLRELVELDSETVSKLSVEKDRRRVKANQIRRAVKR--------HTEVAGRQVA 316 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQRE 332 + + NV A ++ S +R Sbjct: 317 GRQGSARKGSTRQNVGNAAPAAATGRRGSNKRG 349 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 74/301 (24%), Positives = 122/301 (40%), Gaps = 6/301 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E++I + R+ VN V D I+V+ Sbjct: 121 KRVLLPQPESPKLHKVLAQAGMGSRLEMEQLILEGRISVNNEPA-HIGQRVQFGDQIKVN 179 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 180 GKPIRFRVAPPPTRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTE 239 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T+ G LA L P R Y VR G + ++ L G+ ++ + Sbjct: 240 GLLLFTSSGELANKLMHPRFGLEREYAVRVLGALSDEERQRLLDGVSLEDGMAAFGSIED 299 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 300 GGGEGANCWYRVTISEGRNREVRRMFEAVGHAVSRLIRIRYGAMMLPRGLKRGAWLELDE 359 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + + + R + + Sbjct: 360 HDIRALMQAAGVPADAGGGARAGRNGRRGERKPMGAKMQGEGRGKAAGRAGRSSGSSQPD 419 Query: 299 K 299 Sbjct: 420 P 420 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 93/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ + V V+ ++ + A + T +E + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKRGEVTVDDVVQKSGAFKLKETSCVEWQDREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLAEPIQADYAEQFTNGIELRGERELTLPAQLEIV----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R +++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEDEV 226 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 74/239 (30%), Positives = 128/239 (53%), Gaps = 1/239 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+A AG+ SRR E+MIA RV+V+G+ + V + + + VDG+P++ Sbjct: 43 TSQGERLQKVLAAAGLGSRRACEQMIADGRVEVDGVPVTELGVRIDPSRQKVAVDGLPVQ 102 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +++KP+G+++T D +GR +V D + R+ VGRLD +T GLLLLTNDG Sbjct: 103 LDDSKVYLVFNKPVGVISTMEDEEGRLSVGDYTYTRKERLFHVGRLDQDTSGLLLLTNDG 162 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L+ PS + Y + G V + NLL++G+ ++ ++ + A Sbjct: 163 ELAHRLQHPSYSVPKTYVAKVPGPVKKGLGNLLREGVELEDGVVKVDDFSVVASQPGWAM 222 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EG+ ++++ E + V L+R G ++G L G+ R V+ L + Sbjct: 223 VQLVIHEGRKHVVRRLLEEVGYPVEELVRTQVGEIRMGDLRPGNLRAVTPDELARTMKL 281 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 57/243 (23%), Positives = 103/243 (42%), Gaps = 7/243 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + L KG+ + + + V + Sbjct: 121 ITSPRHHCEKTYLVALENPLAEGTAELFAKGVQLHNEKDLTKPA----LLEVITPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLL 250 + EG+ ++K++F V L R G L L G R +++ + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGDILLDESLAPGEYRPLTEAEIASVGAPQPR 236 Query: 251 EEA 253 + Sbjct: 237 SKT 239 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 87/298 (29%), Positives = 132/298 (44%), Gaps = 10/298 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIDAGRVSVDGKIAKLGDRVEVNPAMKIRMDGHVVSVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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-GTLLAGSTREVSK---KILR 242 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ LR Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIALPKGLPRGGWAELDLNAINYLR 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 +G +++ ++ + R + + K+G +++ Sbjct: 242 ALVGLKPETVSKMPVERERRRMKANQIRRAVKRHIQVTGSSGRRNAPGSKSGRPSKRR 299 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 90/329 (27%), Positives = 137/329 (41%), Gaps = 16/329 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGV 65 + +++ KV+ARAG SRRE+E +I Q RV V+G + V T I +DG Sbjct: 29 KTKVVGEKLQKVLARAGHGSRREIETIIQQGRVSVDGKI-STLGDRVEVTQATKIRLDGH 87 Query: 66 PLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 L E L Y L T + + SR ++VGRLD+NT G Sbjct: 88 LLSIKESEETVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSG 147 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR G +D +K+ L +G+ ++ ++ Sbjct: 148 LLLFTTDGELANRLMHPSREVEREYAVRVFGLIDDEKIKQLSRGVQLEDGPAAFRTISFQ 207 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 208 GGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD-- 265 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L+ L E S + +DR + + + + + +Q Sbjct: 266 -LKATNYLRQLVEMDSETV----SKLPVEKDRRRVKANQIRRAVKRHTEVAGRQVAGRQG 320 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDS 328 R+N + A Sbjct: 321 SARKGSTRQNTGNAAPAATAGRRGTNKRG 349 >gi|260463018|ref|ZP_05811221.1| pseudouridine synthase [Mesorhizobium opportunistum WSM2075] gi|259031139|gb|EEW32412.1| pseudouridine synthase [Mesorhizobium opportunistum WSM2075] Length = 259 Score = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 65/227 (28%), Positives = 107/227 (47%), Gaps = 1/227 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +I + RV+V G ++ A+ V D I VDG + + Sbjct: 28 LNRALSKLGLCSRTQAELLITEGRVRVGGKVVRDPALRVDLNRDSIVVDGEKVIAERKVY 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + T + + VGRLD +EGLLL+TND A L Sbjct: 88 VMLNKPRGLVTTRDDPQQRDTVYACLEALDLPFISPVGRLDKASEGLLLMTNDTRFANRL 147 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P++ + Y V+ D L L+ G + G + L G AW+ V L Sbjct: 148 MDPASHLPKTYHVQVATVPDAAMLETLRAGATVDGEILTANSIDLLRSGGRTAWLEVVLD 207 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ + +V RLIRI+ G +LG L G+ R ++ + L Sbjct: 208 EGRNRHIRRLLAAHDIEVLRLIRIAIGGLRLGDLAKGTARHLTAEEL 254 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 85/234 (36%), Positives = 127/234 (54%), Gaps = 2/234 (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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ + Sbjct: 344 LIEVVLHSGKNRIVRRLFDAVGFPVLRLVRVKVGPIGLGDQRQGSIRNLGKQEV 397 >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 = 164 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 83/351 (23%), Positives = 133/351 (37%), Gaps = 9/351 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E MI RV V+G++ + + + +DG + Sbjct: 2 SEKLQKVLARAGQGSRREIELMIQNGRVSVDGVVAKLGDRLEDLSVSVRIDGHNIELISS 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L T H R+ R +SVGRLD NT GLLL T D Sbjct: 62 DEEICRILAYNKPEGELCTRHDPEGRRTVFDRLPRLNTGRWVSVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G+V + + + KG+ ++ V +G N Sbjct: 122 GELANRLMHPSRTVEREYMVRVFGEVTEQMVKNVVKGVELEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILRE 243 V + EG+NRE++++++ V+RL R+ YG L + G E+ K LR Sbjct: 182 TFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDVYLTKDMPRGGWSELELKEVNELRA 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + E + ++ R E + + + N Sbjct: 242 TVELPPETETALTVEGQKRKKGIRQIRRAVRRHEERVETGGGRGRRGRGNDRRNPGSSRN 301 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + + R+ +S P ++S K+ Sbjct: 302 AEVEAQSNERRGNGRSQPAKGRDNRDSRDNGKPQSSGRPQTSGKPQSSGKR 352 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 83/274 (30%), Positives = 134/274 (48%), Gaps = 3/274 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 21 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQKNQ 80 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 81 QLYYLALYKPRGYVTTASDELGRKTVMELVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 140 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ ++ + G+V+ + + T + + Sbjct: 141 QAVTHPSGGISKLYRVTVQPRADESQILKMSSGVVLDDGTKTMPCAINVVTDEPGRTVME 200 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + Sbjct: 201 MTLKEGKNREIRRMCEAVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEVSGLRAAAAK 260 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 AQ A + P P + Sbjct: 261 GRAQTRSAALQSKAAARRPKGPVGSGNAPAKRRK 294 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 57/243 (23%), Positives = 103/243 (42%), Gaps = 7/243 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + L KG+ + + + V + Sbjct: 121 ITSPRHHCEKTYLVALESPLAEGTAELFAKGVQLHNEKDLTKPA----LLEVITPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLL 250 + EG+ ++K++F V L R G L L G R +++ + P Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVGLHRERIGDILLDESLAPGEYRPLTEAEIASVGAPQPR 236 Query: 251 EEA 253 + Sbjct: 237 SKT 239 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 57/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 90/313 (28%), Positives = 131/313 (41%), Gaps = 13/313 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E I RV VNGI+ + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIESFIKSGRVSVNGIVAKLGERLEDENSVVRIDGHVVSAKIQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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+ T + ++ R ++ + G S Sbjct: 242 LVELRPEKETMLDLNK----DNTSRKRERARSQKIRRAVKRHEERVNTPKGRSNNPSRRK 297 Query: 304 PVHRRNLASNVWM 316 P Sbjct: 298 PKKSAGDQGARNK 310 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 84/355 (23%), Positives = 146/355 (41%), Gaps = 8/355 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 132 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 190 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 311 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 370 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ + R + + + + + ++ Sbjct: 371 AQVRRLMSTVGLKAPTEDKGG-KRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPRR 429 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + A S G R+ + R+ S+ + +R + K Sbjct: 430 GRRGPAGGGFGAGLGGGYAGLPGYGGASRQGGRDVDGNRA-SYGGAGANKRGAGK 483 >gi|309378850|emb|CBX22555.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 349 Score = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 74/256 (28%), Positives = 126/256 (49%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ +F P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSHFEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 323 ELNPAEVANILKWAEM 338 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 57/237 (24%), Positives = 105/237 (44%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+++ GI SR+E R+I Q R+ VNG L V +D I +D ++ ++ Sbjct: 1 MRINKLLSNYGICSRKEANRIIEQNRIIVNGKLC-IPGQWVEESDEILLDNKRIKPKKKV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T+ D + + + VGRLD +EGL++LTNDG L+ Sbjct: 60 YILLNKPVGITCTSSKDI---KANIIDFVNYRDYIFPVGRLDKKSEGLIILTNDGELSNK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V+ D + + + KG+ ++G+ ++ + L Sbjct: 117 ILESENMHEKEYVVKVDKPFDDEFIENMSKGVQLKGVKTRTC----IVRRIDECTFKIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 +G NR+I+K+ F + V +L RI ++ + GS R ++ L + Sbjct: 173 TQGLNRQIRKMTRAFGYTVVKLKRIRIMNLKIDGIDIGSFRHFTEDELNNIRVMVMK 229 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 87/289 (30%), Positives = 131/289 (45%), Gaps = 12/289 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + V I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIAT-LGDRVEIVPGLKIRIDGHLISVK 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +R I+VGRLD+NT GLLL T Sbjct: 61 ESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD++KL L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLTQTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE +G ++V ++ + R ++ R ++ Sbjct: 241 RELVGLAPETTSKVAVEKDRRRMKANQIRRAVKRHSQVNNNRRAGSRNN 289 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 76/241 (31%), Positives = 120/241 (49%), Gaps = 2/241 (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 +L +RV VGRLD ++ GLL+LTNDG L Sbjct: 61 IYIAINKPIGYTSTVKDKFADK-KVVDLIKFKTRVYPVGRLDKDSHGLLILTNDGELTYE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + +VY V G+ +DK+ LK GIV+ G + N V + Sbjct: 120 LTHPKFEHKKVYEVLVKGRPTKDKIQELKNGIVLDGYKLKKSSIEFIANVKDNTKYMVTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEE 252 EG+NR+I+K+F++ N V L R+ G +++ L +G + + L G + + Sbjct: 180 YEGRNRQIRKMFDYINHPVLDLKRVQIGYYKMEDNLKSGEYVLLKNEDLDLIRGKYDRSK 239 Query: 253 A 253 Sbjct: 240 T 240 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 56/222 (25%), Positives = 100/222 (45%), Gaps = 1/222 (0%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A AGI SRR+ ++ I + VNG ++ V+ +D I P+R ++ + L Sbjct: 1 MANAGICSRRDADKYIQAGVITVNGKVVTELGTKVLRSDDILFHESPVRLEKKVYVLLNK 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 + T+ + ++ + + R+ VGRLD NT G+LLLTNDG LA L P Sbjct: 61 PKGCITTSEDPQERKTVMNLVKGACQERIYPVGRLDRNTTGVLLLTNDGELAAKLTHPQF 120 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 ++Y V V L + GI + + ++ + + + GKNR Sbjct: 121 MKKKIYHVYLDKNVSGVDLQKIADGITLDDGEIKADDIQYASETDKKQ-IGIEIHSGKNR 179 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++++FE + V +L R+ + L G R +++ + Sbjct: 180 IVRRIFESLGYHVVKLDRVYFAGLTKKHLRRGDWRYLTQDEV 221 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 69/231 (29%), Positives = 129/231 (55%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--KAE 71 R++K ++ GIASRR +++ I + R+ VNG +++ D+I +DG ++ E Sbjct: 1 MRINKFLSTLGIASRRTIDKYIEEGRITVNGNTAIT-GMDISENDNIFIDGEKIKTNIDE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ +KP+ ++++ SD GR TV D + + VGRLD T GL+LLTNDG L Sbjct: 60 KKVYFMLNKPLEVLSSSSDNRGRKTVVDLIKTDKRI-FPVGRLDYMTSGLILLTNDGELF 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ + Y V+ G++ ++++ LKKG+++ +++ + + + Sbjct: 119 NRIVHPKSEIYKKYYVKILGEIKKEEIEELKKGVLLDDSKTLPAKISGIKYDKNKTSMYI 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +REG+NR+I+++ E F ++V L R G LG L G RE++K+ + Sbjct: 179 SIREGRNRQIRRMIEKFEYRVLMLRREKIGELSLGDLPEGKYRELTKQEVE 229 >gi|331268777|ref|YP_004395269.1| pseudouridine synthase [Clostridium botulinum BKT015925] gi|329125327|gb|AEB75272.1| pseudouridine synthase [Clostridium botulinum BKT015925] Length = 226 Score = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 105/230 (45%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+++ GI SR+E R+I + R+ VNG + V D I +D P++K E+ Sbjct: 1 MRINKLLSNYGICSRKEANRIIEENRIIVNGEVC-IPGQWVEEYDEILMDNEPIKKKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + + + VGRLD ++EGL+L+TNDG L+ Sbjct: 60 YIALNKPVGITCTAAREV---KDNIIDFLNYPEYIFPVGRLDKDSEGLILMTNDGELSNK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + Q + Y V D + + +G+ + G VT +N + L Sbjct: 117 ILESENQHEKEYIVTVDKPFDDLFIKAMSEGVQLNGPKTRPCIVTRI----NNDTFRIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ F + V +L RI ++ + G + ++ + + E Sbjct: 173 TQGLNRQIRRMTRAFGYTVIKLERIRILNIKINGIDNGKWKYLTDEEITE 222 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ V G ++ Sbjct: 2 EPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHVTVKGSIIKLKW 60 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL Y + +V+ S + SR +++GRLDINT GLL+LT Sbjct: 61 ADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTS 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G L + PS + R Y VR G + +++ +L + ++++ ++ +G+N Sbjct: 121 GELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V ++EG+NRE++++FE V+RL+RI +GP L L G E++ + + Sbjct: 181 KWYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGLPNRLKRGQFYELNPAEVANII 240 Query: 246 GPHLL 250 + Sbjct: 241 KWADM 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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 84/340 (24%), Positives = 135/340 (39%), Gaps = 10/340 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +++ K++A AGI SRR++E +I RV VNG+ V + D I V+G PL + Sbjct: 286 SPDAEKLHKILADAGIGSRRDMEELIIAGRVSVNGLPAHV-GQRVGTEDVIRVNGKPLSR 344 Query: 70 ------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + LVT +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 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 G+N W V + EG+NRE++++F+ V+RL+RI +GP L L G +++ +R Sbjct: 465 GANHWYRVVILEGRNREVRRLFDAVGLTVSRLVRIRFGPIALPPRLQRGRLHALTEAEVR 524 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + A++ A + ET + ++ + Sbjct: 525 QLQQQMRRHVAEMTDGAADAARETRSGNAQGRGKGAGRGNDAPRRQGRGAGKAVQAGAGQ 584 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSD--SGQREENHRRSPS 340 ++ AS G G R + Sbjct: 585 QGSGQQGAASGSPQPSGSRHPARRRMLRGARGRAQQTGEG 624 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 86/289 (29%), Positives = 125/289 (43%), Gaps = 8/289 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----R 68 +++ KV+A AG+ SRRE+E+ IA R+ VNG + V D + VDG + + Sbjct: 2 SEKLQKVLANAGVGSRREMEKWIASGRISVNGKVAT-LGDRVEPVDQLRVDGNLITSAAK 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + + 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-LLAGSTREVSKKILREQL 245 +W V L EGKNRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 SWYNVSLSEGKNREVRRLWESQGLQVSRLIRVRYGTLNLQNRLPQGGWIELPLTDLNTLR 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 L+ Q +L + VR S + + K Sbjct: 241 KSVQLDLEQESLVEDKQTKLDHVRLSRMRRSVQKHKVNQGRAKPRPKKK 289 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 58/233 (24%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G + + Sbjct: 1 MRLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGTLVSYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + V VGRLDI+T GLLLLTN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHKTVLDLLDKTARDKAVFPVGRLDIDTTGLLLLTNNGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 + P + Y V+ G + +D + KGI+++ ++ Q + V Sbjct: 121 KMLSPKKHVDKCYEVKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+ G QL L +G R ++ K + Sbjct: 181 ITIKEGKFHQVKRMVAACGKEVLELKRLRMGNLQLDKQLESGQWRRLTIKEIE 233 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 66/228 (28%), Positives = 111/228 (48%), Gaps = 9/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA IASRRE + +I +VKVNG ++ A V TD +E D + + Sbjct: 1 MRLNKYIASLNIASRREADNLIKDGKVKVNGEIILNPATQVSETDKVECD----KDEKNK 56 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G V + + D T+++ L + V VGRLD ++ GL+LLTNDG A+ Sbjct: 57 IYIKLNKPRGYVVSTNK-DEGKTIYELLNNKLKGVYPVGRLDKDSNGLILLTNDGVFAKK 115 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + ++ + Y V+ + + L L+ GI + G + T+ + L Sbjct: 116 IIGENSNCEKEYYVKVNDNIPDGALKKLEYGISLDGKKLKPAKTKRITKNS----FNIIL 171 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR+I+++ E ++V L R+ L L G ++K+ + Sbjct: 172 TEGRNRQIRRMCEKVGFEVIILKRLRINNIFLNELKEGKFEYLTKEEI 219 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 67/239 (28%), Positives = 103/239 (43%), Gaps = 4/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + AGI SR +V+ ++ ++ V VNG +A + + D + G L E Sbjct: 1 MRLDKFLVEAGIGSRTQVKSILKKKEVFVNGKPESQAKLQIKPNQDQVSFGGQVLVYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTNDG LA Sbjct: 61 LYYLLNKPQGVVSATEDKVHQTVLDLLDDTARRKSVFPVGRLDKDTHGLLLLTNDGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVT 190 L P +VY R G + + + KGI + Q+ ++ V Sbjct: 121 RLLSPKKHVDKVYMARVDGIMTEQDVEAFAKGITLSDHQCLPAQLQIEEVDVERTCCKVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + +REGK +IK++ +V L RIS GP QL L G+ R +++ ++ L Sbjct: 181 ITIREGKFHQIKRMVLACGKEVTDLQRISMGPIQLDDSLALGAFRRLNETEMKALLALK 239 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 78/321 (24%), Positives = 131/321 (40%), Gaps = 9/321 (2%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + V+G Sbjct: 205 RELTAEDDAPKLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVRVNG 263 Query: 65 VPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +++ L + +V+ + + ++VGRLD NTEG Sbjct: 264 KLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEG 323 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 324 LLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAESDRQKLLQGVRLDDGEANFLRCADG 383 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EVS + Sbjct: 384 GGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEVSAE 443 Query: 240 ILR---EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +R LG + + R+ ++ + + Sbjct: 444 EVRVLMGSLGLKVPSASVGGGQGGGRQQGGRRREAQPMLMGPMSSGFTGEATFQSRGQGV 503 Query: 297 KQKKLATPVHRRNLASNVWMA 317 + A P RR + Sbjct: 504 ENGNRALPAARRPSSPRQPDP 524 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 106/238 (44%), Gaps = 4/238 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 R+ KV+++AGIASRR E+MI RV+V+G ++ V + VDG Sbjct: 8 SREPRGIRLQKVLSQAGIASRRAAEKMIVDGRVEVDGHVVTELGTRVDPQVAVVRVDGAR 67 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLL 123 + + +KP G+ +T SD GR + D + VGRLD +TEGL+L Sbjct: 68 VVLDDSLVYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGTKKLFHVGRLDADTEGLML 127 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L PS + + Y G V + L+ GI + + Sbjct: 128 LTNDGELAHRLMHPSHEVPKTYLATVTGSVPRGLGRTLRAGIELDDGPAFVDDFAVVDAI 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R G LG GS R + + Sbjct: 188 PGKTLVRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGAVSLGKQRPGSVRALRSNEI 245 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 89/362 (24%), Positives = 138/362 (38%), Gaps = 23/362 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR E +I RV VN + V D + 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL----------- 241 + EG+ IK++ V RL R SY + L G R + + Sbjct: 184 VAEGRPHLIKRLCAAVGHPVVRLFRPSYAGVGVEGLRPGELRPLKTSEVELLNAVSDGKA 243 Query: 242 -----------REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 R ++ + + + + +S Sbjct: 244 APPTGELRLPPRRHGRAAPGFDSDDEAELSMDDDAPVAAKPARKAPARAAKTATVGGSSL 303 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + G K RR+ + +G R + P RS Sbjct: 304 ARFGRPKGASAEGKPARRSFGGDEGAPRGRSFGGDKAGAPRGRSFGGDEGAPRGRSFGGD 363 Query: 351 SA 352 A Sbjct: 364 KA 365 Score = 39.8 bits (91), Expect = 0.58, Method: Composition-based stats. Identities = 12/111 (10%), Positives = 24/111 (21%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 G + + + R + S+ R + + Sbjct: 354 APRGRSFGGDKAGAPRGRSFGGDEGRPARRSFGSDEGKPARRSFGSDEGRPARRSFGGDE 413 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 RR+ S+ R + P++RS K Sbjct: 414 GKPARRSFGSDEGRPARRSFGGDKAGSPRGRSFGSDEGRPARRSFGGDEGK 464 Score = 38.6 bits (88), Expect = 1.5, Method: Composition-based stats. Identities = 14/123 (11%), Positives = 24/123 (19%), Gaps = 4/123 (3%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 R + +E + + R P + + Sbjct: 383 RSFGSDEGKPARRSFGSDEGRPARRSFGGDEGKPARRSFGSDEGRPARRSFGGDKAGSPR 442 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR----EENHRRSPSFPSKRSLRR 349 G S P R A+ +R +E SF R Sbjct: 443 GRSFGSDEGRPARRSFGGDEGKPARRSFGGDEGRPARRSFGGDEGRPARRSFGGDDGAPR 502 Query: 350 TSA 352 + Sbjct: 503 GRS 505 Score = 37.9 bits (86), Expect = 2.7, Method: Composition-based stats. Identities = 16/99 (16%), Positives = 24/99 (24%), Gaps = 5/99 (5%) Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 +A E R R + R + RR+ Sbjct: 339 KAGAPRGRSFGGDEGAPRGRSFGGDKAGAPRGRSFGGDEGRPARRSFGSDEGKPARRSFG 398 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 S+ + S G + RRS R RR+ Sbjct: 399 SDEG-----RPARRSFGGDEGKPARRSFGSDEGRPARRS 432 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 87/289 (30%), Positives = 128/289 (44%), Gaps = 10/289 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV ++G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSIDGRIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 E + ++V ++ + R R +S Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNSG 290 >gi|332974446|gb|EGK11370.1| ribosomal large subunit pseudouridine synthase B [Kingella kingae ATCC 23330] Length = 390 Score = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 74/255 (29%), Positives = 126/255 (49%), Gaps = 6/255 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +++K P+R+ KV+A +G+ SRRE+E I V+VNG + V D + Sbjct: 127 LREKRTDLSRIEPERLQKVLAASGVGSRREMEEWINNGWVQVNGRVAT-LGEKVSPDDQV 185 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 186 TVKGSAIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 245 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLL+LT G L + PS + R Y VR G++ +++N L +G++++ + Sbjct: 246 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELSPEQMNDLCEGVMLEDGLAKVER 305 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + +G N W V ++EG+NRE++++FE V+RL+R+ +GP L L G E Sbjct: 306 IYEQGGEGVNKWYNVIIKEGRNREVRRLFESQGVTVSRLVRVGFGPIGLPNRLKRGQFYE 365 Query: 236 VSKKILREQLGPHLL 250 ++ + L + Sbjct: 366 LNPAEVANILKWADM 380 >gi|297538013|ref|YP_003673782.1| pseudouridine synthase [Methylotenera sp. 301] gi|297257360|gb|ADI29205.1| pseudouridine synthase [Methylotenera sp. 301] Length = 374 Score = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 81/346 (23%), Positives = 140/346 (40%), Gaps = 13/346 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 QR+ K++A AG+ SRR++E +I+ RV VNG + V D + +D P++ Sbjct: 36 TQRLHKLLALAGLGSRRDMETLISSGRVTVNGAPATQ-GQGVTQFDTVRLDSRPVKLPFI 94 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + +V+ S + I++GRLD+NT GLL+ T G Sbjct: 95 AELPQVLIYHKPEGEIVSQDDPEGRASVFDKLPKVKNGKWIAIGRLDMNTSGLLIFTTSG 154 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA P + R Y VR G++ + ++ LK+GI ++ ++ +G+N W Sbjct: 155 ELANRFMHPRYEVEREYAVRIFGELTEGQMTQLKEGIELEDGPANFDSISAQGGEGANHW 214 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V LREG+NRE++++FE F V+RL+R+ +GP L R +L+ + Sbjct: 215 YQVILREGRNREVRRLFEAFQLPVSRLMRVRFGPV---NLPP---RVKRGTMLKLEQKEV 268 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL--ATPVH 306 + +L P L + + V R ++ S+ + P Sbjct: 269 VGLLEWADLPVPSAPLRQLTQREKLKATTVFMPKVRKQRISALDRVPRTDGEPYSKKPSV 328 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R A + + + + + K R Sbjct: 329 ARKEAPKKPAPRKSENRRVRQTSDLPAPDAQKAGMQKKSDRNRGRG 374 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 64/242 (26%), Positives = 113/242 (46%), Gaps = 2/242 (0%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K KN +++ R++K IA AGI SRR+ + IA V VNG ++ V TD Sbjct: 38 IKRKNTALEKREDGMRLNKYIANAGICSRRDADIYIASGNVSVNGEVVTEMGYKVQLTDE 97 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 ++ DG + + L VT G + + + S++ +G+LD T Sbjct: 98 VKFDGRSITPDKPEYFVLNKSKGVFVTGSVHKGGLTVMDIMAKASKSKLDPIGKLDTQTT 157 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+ TNDG LA+ L P ++Y ++ + QD L +++G+ I+ V+ Sbjct: 158 GLLVFTNDGALAKKLANPKNGIRQIYHIKLDHALSQDDLEKIREGVYIESKKINVTDVSY 217 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + L K ++K+F+ ++++ L R+ YG L G R ++K+ Sbjct: 218 V-KDRPKTEVGMELTSTKPHIVQKIFKSLSYEILNLDRVVYGGLTKKDLPRGRFRTLTKQ 276 Query: 240 IL 241 + Sbjct: 277 EV 278 >gi|325128449|gb|EGC51330.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis N1568] Length = 256 Score = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ V G ++ Sbjct: 2 EPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHVTVKGSIIKLKW 60 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL Y + +V+ S + SR +++GRLDINT GLL+LT Sbjct: 61 ADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTS 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSN 186 G L + PS + R Y VR G + +++ +L + ++++ ++ +G+N Sbjct: 121 GELVQRFAHPSFEVEREYAVRVLGGLTGEQIRVLTEEGVMLEDGLAKVERIREQGGEGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V ++EG+NRE++++FE V+RL+R+ +GP L L G E++ + + Sbjct: 181 KWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYELNPAEVANII 240 Query: 246 GPHLL 250 + Sbjct: 241 KWADM 245 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ I SR +V+++I +R+ ++ + NV I VDG L+ Sbjct: 1 MRLDKLLETCQIGSRGQVKKLINAKRITIDDKVAIDGRQNVDPGLQRIGVDGNILQAKGH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +TEGL+LLT++G L Sbjct: 61 HYFILNKPRGVVSALKDKEHPTVIDCLIEADRFPNLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P+ + Y V +G +D D + + + G V + + + V Sbjct: 121 RMLHPNHHVDKSYYVVVNGFLDDDLPSFFRAGVVFFDGTVCKAAAVEILSAGEKQSVAKV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 L EGK +IKK+F + KV L R+++ F LG L G R ++ + Sbjct: 181 TLSEGKFHQIKKMFLAYGVKVIYLKRMTFAEFTLGNLAEGEYRTLTDQE 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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 67/228 (29%), Positives = 108/228 (47%), Gaps = 1/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGI SRRE + IA V VNG + V TD + DG L++ + Sbjct: 70 IRLNKYIANAGICSRREADTYIAAGNVTVNGKTITEMGYKVQPTDEVRFDGRLLQRERKE 129 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + TT + R+ + + +R++ VGRLD NT GLLL TNDG LA+ Sbjct: 130 YVLLNKPRNFITTTRDEKGRRTVMELISRASNARLVPVGRLDRNTTGLLLFTNDGELAKK 189 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P ++Y V L L++G+ ++ + + S V V L Sbjct: 190 LTHPKHGVRKIYHVELDKTFKSADLGKLREGLELEDGRIEVDEASYIDG-ASKKEVGVEL 248 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G+NR ++++FE ++V +L R+ L G R ++++ + Sbjct: 249 HSGRNRIVRRIFEHLGYQVVKLDRVVLAGLTKKDLPRGHWRHLTEQEV 296 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 79/283 (27%), Positives = 127/283 (44%), Gaps = 10/283 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +++ KV+ARAG+ SRR++E +I + RV V+G ++ V I VDG ++ Sbjct: 2 SEKLQKVLARAGLGSRRKMEVVIQEGRVSVDGKVV-GLGERVTDVQVIRVDGHIVKNLTP 60 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + T + + +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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 W V L EG+ RE+++++E +V+RL+R+ YG L L G E++ K LR+ Sbjct: 181 WFHVVLTEGRTREVRRLWESQGLQVSRLMRVRYGNITLSKQLPQGGWHELNLKEVNYLRK 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 + E++V +D + + + Sbjct: 241 LVDMPKETESKVKVDVTESKFTNPQARIRRAVKKHAQHRKAGE 283 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 86/298 (28%), Positives = 133/298 (44%), Gaps = 10/298 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V ++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIETIIEAGRVSVDGKIAKLGDRVEVTASMKIRLDGHVVSIKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 E + +++ ++ + R R S+ ++ Sbjct: 242 ELVELKPETVSKMPIERERRRVKANQIRRAVKRHTQVAGSGRRSTAGSKPGNKPSKRS 299 >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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 106/238 (44%), Gaps = 4/238 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 R+ KV+++AGIASRR E+MI RV+V+G ++ V + VDG Sbjct: 7 SREPRGIRLQKVLSQAGIASRRAAEKMIVDGRVEVDGHVVTELGTRVDPQVAVVRVDGAR 66 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLL 123 + + +KP G+ +T SD GR + D + VGRLD +TEGL+L Sbjct: 67 VVLDDSLVYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGTKKLFHVGRLDADTEGLML 126 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L PS + + Y G V + L+ GI + + Sbjct: 127 LTNDGELAHRLMHPSHEVPKTYLATVTGSVPRGLGRTLRAGIELDDGPAFVDDFAVVDAI 186 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R G LG GS R + + Sbjct: 187 PGKTLVRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGAVSLGKQRPGSVRALRSNEI 244 >gi|167816044|ref|ZP_02447724.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 91] Length = 358 Score = 163 bits (412), Expect = 3e-38, Method: Composition-based stats. Identities = 76/274 (27%), Positives = 124/274 (45%), Gaps = 6/274 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 60 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 118 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 239 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 298 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 +R + L+ + + P Sbjct: 299 AQVRRLMSTVGLKAPTEDKGGKRGGPAERRQPDP 332 >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 = 163 bits (412), Expect = 3e-38, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 103/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ ++++ VNG V V D I+ +G + + Sbjct: 1 MRLDKFLVECGLGSRTQVKLILKKKQISVNGNSETSPKVQVDEYRDEIKYNGTLVSYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + V VGRLDI+T GLLL+TN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHKTVLDLLDKTARDKAVFPVGRLDIDTTGLLLITNNGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 + P + Y + G + +D + KGI+++ ++ Q + V Sbjct: 121 KMLSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+ G QL L +G R ++ K + Sbjct: 181 ITIKEGKFHQVKRMVAACGKEVLELKRLRMGNLQLDKQLESGQWRRLTIKEIE 233 >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 = 163 bits (412), Expect = 3e-38, Method: Composition-based stats. Identities = 58/238 (24%), Positives = 107/238 (44%), Gaps = 11/238 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +++A SR++ ++++ V VNG +++ A++++ D IE G PL A Sbjct: 1 MRLDKFLSKATELSRKDCKKILHAGEVTVNGEVVKDASLHIDEVGDDIEWAGEPLSVAMG 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L +KP G T + + GRLD++T G LLL++DGG Sbjct: 61 NRYLLLYKPEGFECTLKPKEWPIVTDLIDVPQLGSLRIAGRLDVDTTGALLLSDDGGFLH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQGI--CYGDMQVTLDTQKGSN 186 + P +VY + + + + L KGI+++ +++ + Sbjct: 121 RVTSPKHHVAKVYELTLADPMTEAQQAFAIKELAKGIMLEDEYDKTKPAELSFSDATHA- 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EGK ++K++ +F KV L R S G L L G +R ++ + + + Sbjct: 180 ---KLVLTEGKYHQVKRMMGYFGNKVIELHRASIGNITLAGLEKGESRFLTAEEIDQF 234 >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 = 163 bits (412), Expect = 3e-38, 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|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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 86/289 (29%), Positives = 128/289 (44%), Gaps = 12/289 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I RV V+G + V I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIEAIIEAGRVSVDGKIAT-LGDRVEIVPGLKIRIDGHLISVK 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +R I+VGRLD+NT GLLL T Sbjct: 61 ESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD++KL L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQVDENKLRDLSRGVQLEDGPAAFKTIKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLAQTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 RE + ++V ++ + R R ++ Sbjct: 241 RELVELTPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSSNRRSGSRNN 289 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 89/317 (28%), Positives = 135/317 (42%), Gaps = 12/317 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I Q RV V+G + V T I +DG L Sbjct: 27 GEKLQKVLARAGHGSRREIEAIIQQGRVSVDGKI-STLGDRVEVTQATKIRLDGHLLSIT 85 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + 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-GTLLAGSTREVSKK---IL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K L Sbjct: 206 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKATNYL 265 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE + +++ ++ + R + S + G ++Q Sbjct: 266 RELVELDSETVSKLPVEKDRRRVKANQIRRAVKRHTEVAGRQVAGRQGSARKGSTRQNVG 325 Query: 302 ATPVHRRNLASNVWMAK 318 Sbjct: 326 NAAPAATAGRRGSNKRG 342 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 104/230 (45%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G+L +R +NV ++ I V G L A Sbjct: 1 MRLDKLLGQAGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTITVSGKELEHAPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYLMNKPSGVVSARRDKEHQTVIDLIKPEDQREGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P + Y V + + + + G+V + + + + + + Sbjct: 121 ALLHPRYHVAKRYYVEVNDVLGPEAPAFFESGVVFEDGTVCKPAHLKILSSASDKSCAHI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+G F L L GS R ++++ Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGDFVLDEKLPRGSYRPLTEEE 230 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 84/347 (24%), Positives = 132/347 (38%), Gaps = 9/347 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E MI RV V+G++ + + + +DG + Sbjct: 2 SEKLQKVLARAGQGSRREIELMIQNGRVSVDGVVAKLGDRLEDLSVSVRIDGHNIELISS 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L T H R+ R +SVGRLD NT GLLL T D Sbjct: 62 DEEICRILAYNKPEGELCTRHDPEGRRTVFDRLPRLNTGRWVSVGRLDANTSGLLLFTTD 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS R Y VR G+V + + + KG+ ++ V +G N Sbjct: 122 GELANRLMHPSRTVEREYMVRVFGEVTEQMVKNVVKGVELEDGLARFEDVVYAGGEGMNH 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 V + EG+NRE++++++ V+RL R+ YG L + G E+ L+E Sbjct: 182 TFYVVITEGRNREVRRLWDSQGVTVSRLKRVRYGDVYLTKDMPRGGWSEL---ELKEVNE 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 E + + + I + + + + P Sbjct: 239 LRATVELPPETETALTVEGQKRKKGIRQIRRAVRRHEERVETGAARGRRGRGNDRRNPGS 298 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 RN + + + R+ R P +TS K Sbjct: 299 SRNAEVEAQSNERRGNGRSQPAKGRDNRDSRDNGKPQSAGRPQTSGK 345 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 50/230 (21%), Positives = 96/230 (41%), Gaps = 2/230 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A A+R+E ++I V VN + + A V +E G ++K Sbjct: 1 MRLDKYLCDALGATRKEATKIIKSGDVTVNEQVQKSGAFKVDDHSIVEWQGREVQKPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLFKPDGFVCSHEDGFNQ-TAFMLLDEVRIEDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + + KGI ++ + L+ V + + Sbjct: 120 ITSPKHKCDKTYRVWLADPIQPHYADEFTKGIQLRNEKGLTLPAKLELVDAQENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 EGK ++K++F KV L R G +L +L G R ++++ + Sbjct: 180 NEGKYHQVKRMFAALGNKVEHLHRERIGQIELCESLEPGDYRYLTQEEVD 229 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 127/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIARLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETTSKVAVEKDRRRMKANQIRRAVKRHSQMSGGRRSGGRNN 289 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 57/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACAEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 163 bits (412), Expect = 4e-38, 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|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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 66/242 (27%), Positives = 103/242 (42%), Gaps = 1/242 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T QR+ K+IA AG+ SRR E + RV V+G++ I VDG PL Sbjct: 2 TRQRLQKLIAAAGLCSRRRAEEWLQAGRVTVDGLVASVGDQADPQQQTIHVDGQPLPSRG 61 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L + + + R+ + P + + VGRLD ++ G LLLT+ G L Sbjct: 62 VARVLLMNKPVGVICSCDDPQGRRTVLDLLPPEHRAGLHPVGRLDADSHGALLLTDLGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV G + L+ ++G+ + G +V G + + Sbjct: 122 TLKLTHPRYSHAKTYRVWVKGVPPEPVLDRWRRGLPLDGCLTRPARVRRLRTWGDRSLLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + LREG+NR+I+++ E V L R + LG L G +S+ L Sbjct: 182 IELREGRNRQIRRMAEALGHPVLDLQRTAIAGLPLGDLAEGCWIWLSEGEWEPLLERADP 241 Query: 251 EE 252 + Sbjct: 242 MD 243 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 117/236 (49%), Gaps = 5/236 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ +AR G+ASRR E +I RV V+G ++ + V + I +DG + Sbjct: 3 DEIRLQVYLARCGVASRRASENLILNGRVSVDGKIITELGIKVSGKEKICLDGKQIFPEA 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGL 130 R L +KP G V + +D R L ++ ++GRLD+ + G +L TNDG Sbjct: 63 EKRYILLNKPEGYVCSLADEKDRPIAASLLKDTYTERLYNIGRLDMLSGGAILFTNDGDF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + +E PS++ + Y V + + L +G+ I+G+ Y + ++ Sbjct: 123 SAKVEHPSSEIEKEYEVITVFEYPDEILQKFLRGVRIEGVFYKALSAERISKNKM----R 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L EGKNREI++V +FFN K+ +L R+ G L L +G R ++ + ++ LG Sbjct: 179 IVLIEGKNREIRRVLKFFNIKIKKLTRVRIGCVYLADLPSGKHRPLTSEEIKGLLG 234 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 71/234 (30%), Positives = 109/234 (46%), Gaps = 6/234 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR E +I RV VNG+ + V D + VDG P+ + Sbjct: 2 TERLQKRLARAGVASRRAAEALITSGRVTVNGVTAQ-LGQTVTEADEVLVDGQPIAQRPT 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + T + + + + VGRLD ++EGLLLLT DG L Sbjct: 61 QHVTFALYKPRGFVTTARDELGRRTVLDAMPNVPGLHPVGRLDRDSEGLLLLTTDGDLTL 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYR GQ D+ L L +G+ ++ G +V V Sbjct: 121 TLTHPRYGHEKVYRAWTDGQPDEAALGRLARGMNLEDGPTGPAEVRAAPDGAW-----VT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 +REG+NR+++++ + + V RL+R G L L G RE+ ++ L+E L Sbjct: 176 IREGRNRQVRRMLDAVGYPVTRLVRTRVGGLWLEDLGPGEYRELDERALQELLN 229 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 64/230 (27%), Positives = 111/230 (48%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA+ G ASRR+ E I +V VNG LE + V D +++DG L+ + Sbjct: 1 MRINKYIAKTGFASRRKSEEYIKNGKVFVNGNKLEDLSYQVKEEDEVKIDGKILKIQKNF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + + + + L +I R GRLD ++ GL+++TNDG + Sbjct: 61 YYKLNKPIGYISSNYDPHNEKDLNK--LLNIDERFFCAGRLDKDSHGLMIITNDGKITNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + ++Y V+ ++ + G+ + Q D +++L V Sbjct: 119 IIHPSKKIDKIYIVKVDKKLTAYQEKNFMDGLKLSQKEITSDAKISLI--DKEKITYKVT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G NR+I+++FE+F KV L RI G L L G +++SKK + Sbjct: 177 IHQGYNRQIRRMFEYFKIKVIDLKRIKIGQICLDDLKDGDYKKLSKKEVE 226 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 85/276 (30%), Positives = 124/276 (44%), Gaps = 10/276 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEITPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 E + ++V ++ + R Sbjct: 242 ELVQLAPETTSKVAVEKDRRRMKANQIRRAVKRHSQ 277 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 85/298 (28%), Positives = 129/298 (43%), Gaps = 12/298 (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----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + H + R I+VGRLD+NT GLLL TNDG Sbjct: 61 QPICRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRLGRWITVGRLDMNTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------QVTLDTQ 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 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L + + R S + + + + +K+K Sbjct: 241 NALRNHVQLPDETQTMVNVRQGKLDHARLSRMRRSVKKHKVRKQQGLNKRAGRPAKRK 298 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 89/310 (28%), Positives = 130/310 (41%), Gaps = 9/310 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNGI+ + + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGIVAKLGERLEDENAVVRIDGHTVSAKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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-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 + + ++ S + I V R+ + N +++K Sbjct: 243 VELRPERQTLLDESKANSSRKRERSRSQKIRRAVKRHEERVNSGGGRSNNPARRKPKKGS 302 Query: 305 VHRRNLASNV 314 + Sbjct: 303 GQQGARNKQR 312 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 140/327 (42%), Positives = 193/327 (59%), Gaps = 1/327 (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 HLLEEAQVNLDAPIY-SSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + D P+ V + D+ + + G + + + Sbjct: 604 KIATMSGAQFDKPVREDEGPKVGRDGTPLRSKADNKKIKRSKIEDRKGRTVVVQRSGSDE 663 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREE 333 +R G + + Sbjct: 664 KRARNEAEANGYGPPRKPKRGYHGKRD 690 >gi|297520148|ref|ZP_06938534.1| 23S rRNA pseudouridylate synthase B [Escherichia coli OP50] Length = 281 Score = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 86/276 (31%), Positives = 125/276 (45%), Gaps = 10/276 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 E + ++V ++ + R Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQ 277 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 108/236 (45%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+++AGIASRR ERMI RV+V+G ++ + + + VDG + Sbjct: 19 SEEGIRLQKVLSQAGIASRRVAERMIYDGRVEVDGEIVTEQGRRIDPAVNVVRVDGARVI 78 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI---SVGRLDINTEGLLLLT 125 +KP G+++T SD GR V + +VGRLD +T GL+LLT Sbjct: 79 MNTDLVYLALNKPFGMLSTMSDDRGRPCVGKLIEERVRGNQGVRNVGRLDADTVGLILLT 138 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L L PS + + Y G + + L+ G+ + + Sbjct: 139 NDGELTHRLMHPSYEVPKTYIATVAGTIPRGLGRQLRDGVELADGPAKVDEFKFLGTTDG 198 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L EG+NR ++++ + V L+R G LG GS R + + + Sbjct: 199 QSMVQLTLHEGRNRIVRRMMDAAGHPVVELVRTKIGDVTLGNQRPGSLRALGRDEI 254 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLNKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYSAACAEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 61/245 (24%), Positives = 99/245 (40%), Gaps = 19/245 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK+++ G+ SRRE + I Q V V+G + I +D Sbjct: 2 EKVRLSKLMSAQGMCSRREADVYIEQGWVYVDGQPARELGTKIYPWQEITLDRTAQIKQN 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y L+ S + + GRLDI Sbjct: 62 QQVTILLNKPVGYVSGQPELGYKPAASLICHDSRFHRDRSSLKFTSQHLKNLAPAGRLDI 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 VSLLNQDQ----LRFILQEGKKRQIRRMCELVGLNVSGLKRVRIGQIRLADLPEGKWRYL 237 Query: 237 SKKIL 241 K L Sbjct: 238 GKNEL 242 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E ++ RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESILEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNN 289 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 56/234 (23%), Positives = 97/234 (41%), Gaps = 4/234 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 R+ K + G+ SR +V+ ++ ++ + VN + V + D + G PL Sbjct: 2 TMRLDKFLVETGVGSRSQVKSLLKKKAILVNQEVETSPKVQINEHKDVVTYLGKPLTYEA 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L T + + V VGRLD +T GLLLLTN+G LA Sbjct: 62 FVYYILNKPAGFLSATKDRAQATVIDLLDETARQKDVFPVGRLDKDTRGLLLLTNNGQLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWV 189 L P + Y + G + + KGI ++ ++ + + V Sbjct: 122 HDLLSPKKHVTKEYLAKVAGIMTDADKDDFAKGISLKDHQCLPAKLEVLDKDLSQETCVV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++ ++EGK ++K++ +V L R+S GP +L L G R ++ L+ Sbjct: 182 SITIQEGKFHQVKRMVAACGKEVLELQRLSMGPLRLDPGLAEGDFRRLTSDELQ 235 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 60/227 (26%), Positives = 108/227 (47%), Gaps = 2/227 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K IA +GI SRRE + +IA+ V VNG ++ + V D + G + + Sbjct: 203 RLNKYIANSGICSRREADDLIAKGLVSVNGKVVTELGLKVSKFDRVVYQGKKINPEKPVY 262 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + TT + ++ + + R+ VGRLD NT GLLL TNDG LA L Sbjct: 263 VLLNKPKDFITTTDDPLERKTVMALVGNACEERIFPVGRLDRNTTGLLLFTNDGELAAKL 322 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS Q ++Y+V + + + +G+ ++ + + + + + + Sbjct: 323 SHPSNQIKKIYQVTLDKPLTHNDEKDILEGLTLEDGEVEVDDMQVLSVD--RKILGLEIH 380 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GKNR ++++F ++V L R+ Y L G+ R +S++ + Sbjct: 381 VGKNRIVRRIFAHLGYEVTALDRVMYAGLDKKDLKRGNYRFLSEQEV 427 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 LLFTTDGELANRLMHPSHEVEREYSVRVFGQVDDAMLARLRKGVQLEDGLANFKEIKFTG 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 88/309 (28%), Positives = 127/309 (41%), Gaps = 9/309 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNG++ + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVARLGERLEDENAVVRIDGHIVSAKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + ++ ++ + S + I V R+ N + K Sbjct: 243 VELRPEKQTLLDENKANSSRKRERSRSQKIRRAVKRHEERVNSGGRSNNPARRNPKKGAG 302 Query: 305 VHRRNLASN 313 Sbjct: 303 KANTRSKQR 311 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 48/231 (20%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ + V V+ ++ + A + T +E + Sbjct: 1 MRLDKFLCDALGTTRKEATQLLKRGEVTVDDVVQKSGAFKLKETSRVEWQDREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D KGI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQGDYAEQFTKGIELRGERELTLPAQLEVV----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R +++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDESLEPGEYRYLTEDEV 226 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 98/232 (42%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV ++I + V VN ++++ V +D + V+G + + Sbjct: 1 MRIDKYLANMNVGSRKEVHQLIKKGIVAVNDVIVKTPKQQVKESDQVTVNGDAVAYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLLNKPKGVLSATEDRNQPTVISLLAPQDRYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P +VYR G + + G+ + G ++ + +Q + Sbjct: 121 LLAPGKHVDKVYRAEIAGVANDATVKTFASGMTLGDGTKLQPAELKILSQDEEHDRSTTE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + EGK +IK++F KV L RIS G L L G E+ + + Sbjct: 181 IKICEGKYHQIKRMFGAVGMKVVELERISMGKLSLPANLKRGEYLELKLEDI 232 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 89/300 (29%), Positives = 131/300 (43%), Gaps = 12/300 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E I RV V+G + V I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIEAKIEAGRVSVDGKIAT-LGDRVEIVPGLKIRIDGHLISVK 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +R I+VGRLD+NT GLLL T Sbjct: 61 ESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD DKL L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLAQTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE + ++V ++ + R R NS++++ + Sbjct: 241 RELVELTPETSSKVAVEKDRRRLKANQIRRAVKRHSQTSANPRQGNNSNRRSSTRNKTNG 300 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 89/300 (29%), Positives = 131/300 (43%), Gaps = 12/300 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E I RV V+G + V I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIEAKIEAGRVSVDGKIAT-LGDRVEIVPGLKIRIDGHLISVK 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + +R I+VGRLD+NT GLLL T Sbjct: 61 ESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR GQVD DKL L +G+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKIL 241 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLAQTNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE + ++V ++ + R R NS++++ + Sbjct: 241 RELVELTPETSSKVAVEKDRRRMKANQIRRAVKRHSQTSANPRQGNNSNRRSSTRNKTNG 300 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 122/240 (50%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 QR+ KV+ARAG+ASRR E++IA+ RV+V+G L+ V V T +EVDG + +R Sbjct: 19 QRLHKVLARAGVASRRGSEQLIAEGRVRVDGRLVTEQGVLVDPHTAVVEVDGKRIAVDDR 78 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-----------ISVGRLDINTEGL 121 + +KP G++T SD R + VGRLD +T GL Sbjct: 79 HATYALNKPKGVLTAMSDTRERCVGDLLREAGPDFAADGRAGLPAGLFHVGRLDADTTGL 138 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL++NDG LA L PS + + Y G V + + L+ G+V++ +V L Sbjct: 139 LLVSNDGELAHRLAHPSYEIPKTYIATVRGVVAKRAVEQLRAGVVLEDGPAKADEVCLRG 198 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L EG+NR ++++F+ V L R+ GP +LG L +G+ R +S + Sbjct: 199 SQRDRTVVEITLHEGRNRIVRRMFDEVGHPVIELARLRIGPIRLGDLRSGALRALSSSEV 258 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 72/230 (31%), Positives = 106/230 (46%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ SRR E +I ++RV VNG + + T D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGKVAQ-LGDKADPTRDVILVDGERLQADTR 77 Query: 73 TRLWL-YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + T + + + RV VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYLALNKPRGVVSTMADEKGRAALSDFIGNRVEQRVYHVGRLDADSEGLLLLTNDGDLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + Y G + ++ L GI ++ + G A V + Sbjct: 138 HRLTHPSYGVPKTYLCEVAGPIPRNLGKRLAAGIELEDGPVTVDSFKVVDTLGKTAQVEL 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ ++++ V RL+R S GP +LG L AG TR ++ + Sbjct: 198 TLHEGRKHIVRRLLGEVGHPVFRLVRTSIGPIRLGDLRAGRTRRLTNAEV 247 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 67/250 (26%), Positives = 114/250 (45%), Gaps = 10/250 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK N R+++ +A GIASRR ++++ RV VNG ++ + V T D Sbjct: 1 MKKSN----KDDEVRINRYLASCGIASRRAADQLVLDGRVMVNGTVITTPGIKVSPTRDE 56 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + VDG + E ++++ V T + + + + + RV VGRLD T Sbjct: 57 VIVDGEKFAQPEHRKVYILFNKPRNVITTNSDEKNREMVLDFIDVEERVFPVGRLDRKTT 116 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV 177 G++LLTNDG LA L PS+ + Y + + L L G+ ++ + Sbjct: 117 GVILLTNDGTLAHKLMHPSSNVKKEYIAELSEKFTPNLLPQLTGGMRLKDTGEKVSPCRA 176 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V V + EGKN +++++FE ++V RL R++Y G L G R +S Sbjct: 177 KIL---EDGMQVLVSIHEGKNHQVRRMFETLGFEVKRLERVAYAGLLAGELRRGEWRYLS 233 Query: 238 KKILREQLGP 247 + ++ Sbjct: 234 RNEVQALYKL 243 >gi|295100310|emb|CBK97855.1| ribosomal small subunit pseudouridine synthase A [Faecalibacterium prausnitzii L2-6] Length = 234 Score = 163 bits (411), Expect = 4e-38, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 93/230 (40%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R E + ++A+ RV VNG + + + D + VDG L + Sbjct: 1 MRLDKYLAETAQCTRSEAKALLAKGRVTVNGAVCRKGDTQLKEADAVAVDGKALAYRQFV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + + D + GRLD + G +LLT+DGG A Sbjct: 61 YLMLNKPEGVVSASADKRDTTVVDLVGDAYPRRELFPAGRLDKTSTGFVLLTDDGGFAHD 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKGSNAWVTVG 192 + P + Y V + ++ G+ + +V+ T G V V Sbjct: 121 ILAPKRHVSKTYTVVIDTPLTEEMKAGFAAGVTLADGTALSPAEVSALTPDGL--TVRVL 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 LR+G +IK++F + VN L R + G L L AG RE++ + Sbjct: 179 LRQGVYHQIKRMFGVYGAGVNALHRDAIGGLALDESLAAGQWRELTADEV 228 >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 = 163 bits (411), Expect = 4e-38, Method: Composition-based stats. Identities = 55/236 (23%), Positives = 104/236 (44%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + +++ V VNG + + A + D I + L E Sbjct: 1 MRLDKFIAENTGLTRSQAAKVLKSGVVTVNGNIEKSGAAKISQEDEIYYEDQKLEWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G + +H D + + + +++ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYICSHDDGEYPTVFQFFDYPLMTKLHTAGRLDVDTTGLVLLTDDGKWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+ L +GI+++G Q+ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEDFYAQRLAEGILLRGEKEPTLPAQLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R ++ + + G Sbjct: 177 TISEGRYHQVKRMFAALGNKVEALHRWRIGDVVLDERLEEGEFRSLTSEEIASFNG 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 = 163 bits (411), Expect = 4e-38, Method: Composition-based stats. Identities = 144/321 (44%), Positives = 199/321 (61%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + T +R++KV+ARAG+ASRR+ E M+ Q RV VNG ++ A++V D I+VDG PL Sbjct: 360 KPRKTGERIAKVLARAGLASRRDAEEMVTQGRVSVNGRIINSPALDVTENDEIKVDGAPL 419 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ERTRL+LYHKP GL+TTHSDP+GR TVFDNLP R+IS+GRLD NTEGLLLLTND Sbjct: 420 PERERTRLFLYHKPRGLMTTHSDPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTND 479 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLARVLELP T W R YRVR HG++ Q +L+ L G+ + G+ YG ++ TL+ +G+N Sbjct: 480 GGLARVLELPDTGWTRRYRVRAHGEITQGQLDQLAAGVEVDGVKYGPIEATLERDQGANV 539 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+ V +REGKNRE++ V +VNRLIR+SYGPFQL L G +EV ++LREQLG Sbjct: 540 WLVVAIREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLLELPEGEVQEVKTRVLREQLGE 599 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 ++ ++ +L S+ + D + ++ Q+ G + ++ R Sbjct: 600 KVIAQSGADLGPAGSSNREPLPDPKPKPKREIVADRKGRRVLVQRTGSEEARERHEAEAR 659 Query: 308 RNLASNVWMAKGIHSSFLSDS 328 +S Sbjct: 660 FPGPPRRPKRGYHGKRDISPR 680 Score = 38.6 bits (88), Expect = 1.4, Method: Composition-based stats. Identities = 9/113 (7%), Positives = 27/113 (23%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R++ A + + + + + + ++ + + Sbjct: 76 RDERPRGDRPYAARSGEGEKRAFKPRGDRPKFDRDDRGGEKRPYTPRGNRDDARPAGRSS 135 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + G R+ R + SF + S ++ Sbjct: 136 ERKFGERKPYAPRERDGEKRPYTPRGEGARDRGDRPARSFGDRPSRGGDRPER 188 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 107/230 (46%), Gaps = 2/230 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 P R++K IA + I SRRE + I V VNG ++ ++ TD + + + Sbjct: 160 PMRLNKFIANSNICSRREADEFIQAGVVSVNGQVVTELGTKIVPATDKVHFHDQLVSMEK 219 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + + + T + R+ + + RV VGRLD NT G+LL+TNDG L Sbjct: 220 KIYILMNKPKNIITTLDDPKERRTVLDLIKNACSERVYPVGRLDRNTTGVLLITNDGDLT 279 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + ++Y VR + + + ++ GIV++ ++ ++ + V + Sbjct: 280 SKLIHPKYEKKKIYHVRLDREFESQDMEAMRSGIVLEDGDIKADDISYV-KEDNKKEVGI 338 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + GKNR ++++FE +K+ L R+ + L G R +S+ + Sbjct: 339 EIHSGKNRIVRRMFEHLGYKIVALDRVYFAGLTKKNLPRGKWRYLSESEV 388 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 92/292 (31%), Positives = 135/292 (46%), Gaps = 12/292 (4%) 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 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 E + +++ ++ + ++ + K G Sbjct: 242 ELVELQAETASKLPVERERRRM--KANQIRRAVKRHGQHSGGSRRAPTTKRG 291 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QSKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|229916458|ref|YP_002885104.1| pseudouridine synthase [Exiguobacterium sp. AT1b] gi|229467887|gb|ACQ69659.1| pseudouridine synthase [Exiguobacterium sp. AT1b] Length = 237 Score = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 53/236 (22%), Positives = 104/236 (44%), Gaps = 3/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K++A G SR++V+ ++ Q V+V+ L++ A +V + + V G + Sbjct: 1 MRIDKLLANMGYGSRKDVKILLKQGAVRVDEALVKDAKRHVDPSSEKVTVFGEVVEYRPY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + + VGRLD +T GLLL+TNDG Sbjct: 61 IYFMMNKPEGVISATEDQVETTVIELIDSEYAHYDLFPVGRLDKDTTGLLLITNDGAFNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P +VY G++ + + G+ ++ ++ + ++ G + + + Sbjct: 121 ALMSPRKHVDKVYIAEVDGEMTVEDIKTFANGVELEDGYTTKPARLEILSRSGRRSVIRL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG-PFQLGTLLAGSTREVSKKILREQLG 246 L EGK ++K++ V RL R+ G TL G+ RE++++ ++ L Sbjct: 181 TLSEGKYHQVKRMVAAVGKHVERLERVQIGELELDETLELGAYRELTEEEVQLFLQ 236 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 89/314 (28%), Positives = 134/314 (42%), Gaps = 13/314 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E +I RV VNG++ + + +DG + Sbjct: 3 EKLQKVLARAGHGSRRELEALIKAGRVSVNGVVAKLGERLEDENAIVRIDGHTVSAKAQE 62 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L Y L T H R+ 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 ++ + + T + + ++ R ++ S G S P Sbjct: 243 VELRPEKETLLDENK----ANTSRKRERSRSQKIRRAVKRHEERVSSGGGRSNNPSRRKP 298 Query: 305 VHRRNLASNVWMAK 318 + + Sbjct: 299 KKGAGKPNARNKQR 312 >gi|329939210|ref|ZP_08288584.1| pseudouridine synthase [Streptomyces griseoaurantiacus M045] gi|329302095|gb|EGG45988.1| pseudouridine synthase [Streptomyces griseoaurantiacus M045] Length = 364 Score = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 108/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I RV+VNG ++ V D I+VDG+ + Sbjct: 124 EQEGERLQKVLARAGYGSRRACEELIEDARVEVNGEIVLEQGKRVDPEHDEIKVDGLTVA 183 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 184 TQSYQFFSLNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 242 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + Q G N Sbjct: 243 ELAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYL 302 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 303 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 355 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 95/282 (33%), Positives = 134/282 (47%), Gaps = 10/282 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPL---- 67 +++ KV+ARAG+ SRREVE +IA RV VNG + V V + I VDG + Sbjct: 16 GEKLQKVLARAGVGSRREVETIIAAGRVSVNGKIASLGDRVEVKNDTKIRVDGGLVSLIA 75 Query: 68 -RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 RK L Y L T H + +R +SVGRLDINT GLLL T Sbjct: 76 ARKDICRVLMYYKPEGELCTRHDPEGRATVFERLPQISNARWVSVGRLDINTSGLLLFTT 135 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G V + L L+KG+ ++ +++ +G N Sbjct: 136 DGELANRLMHPSKEVEREYSVRVFGHVTEQMLAKLRKGVQLEDGPASFKKISAQGGQGMN 195 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W +V L EG+NRE+++++E +V+RLIR YG L L G E+ + LR Sbjct: 196 QWFSVTLTEGRNREVRRLWESQGIQVSRLIRTRYGNIDLMKGLPRGGWIELPLEKVNYLR 255 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 + + L E++V+ +R S TR Sbjct: 256 QLVDLPLETESKVDTKNSRSFKSNQIRKAVKQHSLKKRYQTR 297 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 104/229 (45%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + R+ VNG V +D I +DG PL E+ Sbjct: 1 MRINKLFSNFGICSRKETNKIIREGRIIVNGKPCIE-GQWVELSDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + + I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIALNKPVGVVCTAAEEV---KDNIIDYLGIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + +++G+ I G ++ + ++ L Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMEQGVEILGQVTKPCKLKRINEN----TYSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F + V +L RI L + G R ++++ + Sbjct: 173 TQGLNRQIRRMSKVFGFNVVKLERIRILNITLKDIEYGKWRYINREEIE 221 >gi|167582090|ref|ZP_02374964.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis TXDOH] Length = 379 Score = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 77/273 (28%), Positives = 125/273 (45%), Gaps = 6/273 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 73 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 131 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 252 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 311 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 +R + L+ ++E D Sbjct: 312 AQVRRLMSTVGLKAPVEEKGKRGGAAERRQPDP 344 >gi|187928207|ref|YP_001898694.1| pseudouridine synthase [Ralstonia pickettii 12J] gi|187725097|gb|ACD26262.1| pseudouridine synthase [Ralstonia pickettii 12J] Length = 594 Score = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 83/321 (25%), Positives = 138/321 (42%), Gaps = 7/321 (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 VDGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 V+G +++ L + +V+ + + ++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 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 380 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 439 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 S + +R +G ++ + R ++ + N + Sbjct: 440 SAEDVRTLMGTLGMKVPTASSGGGQDRQGNRRRGPAPVLMGPMSSGFAGEANFQSRGMGV 499 Query: 297 KQKKLATPVHRRNLASNVWMA 317 + A P RR + Sbjct: 500 ENGNRAQPAQRRPSSPRQPDP 520 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 69/228 (30%), Positives = 116/228 (50%), 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 KVYIMLNKPEGYVTTNKDEKNRKTILDIVKVN-ERIYPIGRLDYDSSGLLLLTNDGDVYN 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|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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 83/296 (28%), Positives = 133/296 (44%), Gaps = 7/296 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI RV V+G + + V V+ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIETMIEAGRVSVDGKIAKLGDRVEVVQGMKIRLDGHVVSIKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGIPRGGWTELDLPAINYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 L+ V+ + ++ + + +++++ K+ Sbjct: 242 ELVDLQPETVSKLPVERERRRVKANQIRRAVKRHSQVSTGRRSAAGGKPGKPSKRN 297 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 84/243 (34%), Positives = 123/243 (50%), Gaps = 12/243 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ KV+A+ GIASRRE E MI + RV++NG L V D I VDG + Sbjct: 30 RLQKVLAQWGIASRREAEEMIRRSRVQINGTLA-ELGQKVNPERDIITVDGKSVSAQRHH 88 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDG 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-----LLAGSTREVSKKILRE 243 + + L+EG+NR+I++V E + V +L R + G QL T L AG+ R + +R Sbjct: 209 LEIVLQEGRNRQIRRVAEQLGYPVIKLHRTAIGSIQLQTSKQPLLRAGNYRILRDDEIRS 268 Query: 244 QLG 246 Sbjct: 269 LQE 271 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 64/232 (27%), Positives = 113/232 (48%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA IASRRE +++I VK+NGI+ A V + D +E D + Sbjct: 1 MRLNKYIASLNIASRREADKLIQNGNVKINGIVNTNPAYQVSNDDKVECD--INEYKKDK 58 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP G V + + +G+ + + + F+ + VGRLD ++ GL++LTNDG +R Sbjct: 59 IYIKLNKPRGYVVSSNKKEGKPI-YSLIKNDFNNIYPVGRLDKDSSGLIILTNDGVFSRK 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + +T + Y V+ + + L L+ GI + G +V + + L Sbjct: 118 IIGENTNCKKEYFVKVNDNIPDGALKKLEYGISLDGQKLKPAEVKRINKNS----FHIIL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGKNR+I+++ + ++V L R+ L L G+ + ++K + L Sbjct: 174 TEGKNRQIRRMCQKIGFEVIILKRLRIADILLDDLKEGTFKHLTKNEINSVL 225 >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 = 163 bits (411), Expect = 5e-38, 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 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDI 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|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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 67/276 (24%), Positives = 100/276 (36%), Gaps = 47/276 (17%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + P R++K +A G+ SRRE + IA VKVNG V V +D IEVD Sbjct: 1 MTDAPAPIRLNKRMAELGLCSRREADEWIANGWVKVNGKPA-EMGVKVTPSDRIEVDKAA 59 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 P+ + + L T + + F P + Sbjct: 60 KGQQANQVTILINKPIGYVSGQAEDGHEPAVTLFTPQNRWAEDNARFFFSPQQLRGLAPC 119 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------------- 152 GRLDI++ GLL++T DG +AR L + + Y VR Sbjct: 120 GRLDIDSIGLLVMTQDGRIARQLIGEDSVMEKEYLVRVAYHGLGQPAPTGQLVRMDDDDP 179 Query: 153 --------VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 L L+ G+ + G +V + + L EGK R+I+++ Sbjct: 180 VTTNVQAVFPPAMLARLRHGLSLDGQPLKPARVEWQNPEQ----LRFVLTEGKKRQIRRM 235 Query: 205 FEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 E KV L R+ G LG L G R + Sbjct: 236 CELVGLKVVGLKRVRIGKVMLGNLPVGQWRYLGPHE 271 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 52/247 (21%), Positives = 96/247 (38%), Gaps = 5/247 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR +R I V +N L V S D + V+ + Sbjct: 3 TQSSIRLNKYISDSGICSRRHADRHIKLGNVFINDRLAAV-GAQVFSGDRVRVNDRQIAP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + S + + R +GRLD ++GL+ LTN G Sbjct: 62 RDADDLVLIALNKPVGVLTSMGKHERDNIGDFVNHSQRTFPIGRLDKASQGLIFLTNQGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + + Y V + + + + G+ I G +K ++ Sbjct: 122 LVNKILRAGNNHEKEYLVTVNKPLTDAFIQGMGAGVPILGKVTHPC----LVEKEASQVF 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L +G NR+I+++ ++F ++V +L R+ L L G R+ + E Sbjct: 178 RITLVQGLNRQIRRMCKYFGYEVTKLERVRIMNVDLTGLALGEWRDFTADERLELFKLIE 237 Query: 250 LEEAQVN 256 ++ Sbjct: 238 HSSSEEP 244 >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 = 163 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 103/233 (44%), Gaps = 3/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +V+ +AG+ SR +V+R++ +V+V+G + R NV I+V G L + Sbjct: 1 MRLDQVMNQAGLGSRNQVKRLLKSCQVQVDGQVERRPNRNVDPGLQEIKVQGRILTQPAE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L+ L D + VGRLD +T GL+ LT +G L Sbjct: 61 TYWLLHKPQGVLTAVTDDRFTTVIDCLAPQDQAPGLYPVGRLDRSTTGLVFLTTNGPLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 + P + Y+V +G + QD + +GI+I + ++ + + Sbjct: 121 RMLHPQYHVEKEYQVVVNGPLTQDHVASFAQGILIDQNRPCAPAHLVIEASGPQESRARL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 +REGK ++KK+F KV +L R+ G L L G+ R + + L + Sbjct: 181 TIREGKFHQVKKMFLSVGVKVTQLHRLRMGHLVLDQDLAPGAYRPLKPEELDQ 233 >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 = 163 bits (411), Expect = 6e-38, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 108/234 (46%), Gaps = 1/234 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++K IA AGI +RRE +R IA V+VNG + V TD ++ DG + Sbjct: 89 TDQSKGIRLNKYIANAGICARREADRYIAAGNVEVNGKPMTELGYRVQPTDVVKFDGKNI 148 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + L + TT + ++ + + + VGRLD T GLLLLTND Sbjct: 149 SAEKKEYILLNKPKGFITTTQDEKGRKTVMDLVAGAAEGNIKPVGRLDRLTTGLLLLTND 208 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + L PS ++Y V ++ + +++G+ ++ + N Sbjct: 209 GDLMKKLTHPSHGVRKIYHVILDKKLALADFHKIQEGLTLEDGFIQVDDINFVDGAPHN- 267 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + G+NR ++++FE + V +L R+ + L G R ++ + + Sbjct: 268 EIGVKIHSGRNRIVRRIFESLGYVVEKLDRVVFAGLTKKDLPRGHWRTLTAQEI 321 >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 = 163 bits (411), Expect = 6e-38, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + RV VNG V +D I +DG PL E+ Sbjct: 1 MRINKLFSNFGICSRKETNKIIREGRVIVNGKPCIE-GQWVELSDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + + I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIALNKPVGVVCTAAEEV---KDNIIDYLGIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + +++G+ I G ++ + ++ L Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMERGVEILGQVTKPCKLKRINEN----TYSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F + V +L RI L + G R ++++ + Sbjct: 173 TQGLNRQIRRMSKVFGFNVVKLERIRILNITLEDIEYGKWRYINREEIE 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 = 163 bits (411), Expect = 6e-38, Method: Composition-based stats. Identities = 77/235 (32%), Positives = 121/235 (51%), Gaps = 1/235 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 + +R+ KV+ARAG+ SRR VE M+ Q R+ VNG + + V D I VDGV Sbjct: 37 DASAEGERLQKVLARAGVGSRRVVENMVDQGRISVNGKTVAVQGMRVDPERDKIAVDGVR 96 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + +KP G++T SD R TV D + + ++ VGRLD +TEGLLL+TN Sbjct: 97 IELRDDRVTYALNKPPGVITAMSDDRNRPTVGDMVGDLAPGLVHVGRLDQDTEGLLLVTN 156 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + + Y + G V +D L+ G+ ++ + Sbjct: 157 DGELAHRLAHPSYEVKKTYLAQVSGSVPRDMARRLRSGVELEDGPVKVDSFRVVDTHAGQ 216 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V V L EG+ ++++ V+RL R + GP +L + +GS R +S+ + Sbjct: 217 SVVEVVLHEGRKHIVRRLLASVGLPVSRLTRTAVGPVKLERMRSGSIRRLSRAEV 271 >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 = 163 bits (411), Expect = 6e-38, Method: Composition-based stats. Identities = 86/309 (27%), Positives = 125/309 (40%), Gaps = 9/309 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E +I RV VNG + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRRELEALIKSGRVSVNGQVARLGERLEDENAVIRIDGHTVSAKAQ 61 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L Y L T H R+ 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI---LRE 243 V + EG+NRE+++++E V+RL R+ YG L L G E++ K LRE Sbjct: 182 TFYVVINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKLPRGGWMELTLKEVNYLRE 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + +E ++L R + + + +K Sbjct: 242 LVELRPEKETMLDLSQNTSRQRERSRSQKIRRAVRRHEERANAPKGRSNQQRRNKKSAGE 301 Query: 304 PVHRRNLAS 312 R Sbjct: 302 QSARSKTRR 310 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 87/284 (30%), Positives = 128/284 (45%), Gaps = 10/284 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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---LAQTN 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 L E + + + R + N I +++ Sbjct: 239 YLRGLVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQIAGGR 282 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 64/250 (25%), Positives = 102/250 (40%), Gaps = 28/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------- 64 R+SK+++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 3 RLSKLMSELGMCSRREADEWIEKGWVMVDGERIDTLGTKVRPDQRIEIDPAAEAAQMSQV 62 Query: 65 -----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 P+ Y I LVT + +G + ++ GRLDI++ Sbjct: 63 TVLIHKPVGLVSGQAEDGYQPAITLVTPENRWEGDHADIRFSVAHLRQLAPAGRLDIDST 122 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQGI 170 GLL+LT DG +A+ L ++ + Y VR + L LL G+ + + Sbjct: 123 GLLVLTQDGRIAKQLIGGHSEIDKEYLVRVAFGEHTTDVESHFPPESLELLCHGLSLDDV 182 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 QV + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 183 PLKPAQVNWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALPP 238 Query: 231 GSTREVSKKI 240 G R +S Sbjct: 239 GQWRYLSPDE 248 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 90/291 (30%), Positives = 135/291 (46%), Gaps = 10/291 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDH 59 ++ +N + +++ K++ARAG SRRE+E +IA RV V+G + V V S+ Sbjct: 48 IETENKANDKIVGEKLQKILARAGQGSRREIEEVIAAGRVSVDGKIATLGDRVQVSSSTK 107 Query: 60 IEVDGVPLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 I +DG + L Y L T + 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 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 E+ + LRE +G E +V++ + T + Sbjct: 288 EEMGLEQVNYLRELVGLKPETETKVDVTKARRRTSTRQIRKAVKQHTKYRK 338 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 147/339 (43%), Positives = 200/339 (58%), Gaps = 10/339 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R++KV+ARAG+ASRR+ E + Q RV VNG ++ A++V S D I +DG PL Sbjct: 355 SKKTGERIAKVMARAGVASRRDAEEWVTQGRVAVNGRVINSPALDVTSRDVITIDGQPLP 414 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + ERTRL+LYHKP GL+TTH+DP+GR TVFDNLP R+IS+GRLD NTEGLLLLTNDG Sbjct: 415 ERERTRLFLYHKPRGLMTTHADPEGRPTVFDNLPEGLPRLISIGRLDFNTEGLLLLTNDG 474 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 GLAR LELP T WLR YRVR HG+V Q +L+ LK G+ + G+ YG + TL+ +G+N W Sbjct: 475 GLARALELPDTGWLRRYRVRAHGEVTQAQLDALKNGVEVDGVKYGSIDATLERDQGANVW 534 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + +REGKNRE++ V +VNRLIR+SYGPFQL + G EV ++LREQLG Sbjct: 535 LVFAIREGKNREVRNVMAHLGLEVNRLIRVSYGPFQLAEIAEGQVEEVKTRVLREQLGDK 594 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + A N P + + ++ + K L + +K V +R Sbjct: 595 IAALANANFAGTAAE----AETEPKLGRDGTPLRSKKDNKARAKRSLIEDRKGRNVVVQR 650 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + + +++ R + KR L Sbjct: 651 TGSDE------ARARNEAEANGYGPPRRPKRGYHGKRDL 683 Score = 40.2 bits (92), Expect = 0.55, Method: Composition-based stats. Identities = 12/120 (10%), Positives = 22/120 (18%), Gaps = 1/120 (0%) Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT-RMKKNSSQKN 293 E RE + DRP + + Sbjct: 191 ESKPWEKREARPRDDARRESRPSRDGAGRFDKPRFDRPRDDRGGSGRPRFSKPREDRPER 250 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + G F R + R S + + R + + Sbjct: 251 TAGGDRGPRKFDRPQGDRPRYERPTGDRPRFDRPRQDRPDGDRPGGSRNAWQERPRRNDR 310 Score = 36.7 bits (83), Expect = 5.5, Method: Composition-based stats. Identities = 11/103 (10%), Positives = 20/103 (19%) Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 P + E + R + + P R Sbjct: 171 SRGAPDRGPRKEFGDRADRGESKPWEKREARPRDDARRESRPSRDGAGRFDKPRFDRPRD 230 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + S D +R R P + R ++ Sbjct: 231 DRGGSGRPRFSKPREDRPERTAGGDRGPRKFDRPQGDRPRYER 273 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 86/273 (31%), Positives = 135/273 (49%), Gaps = 4/273 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 4 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQKNQ 63 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G VTT SD GR TV D + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 64 QLYYLALYKPRGYVTTASDELGRKTVMDLVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ + L G+V+ + + T + + Sbjct: 124 QAVTHPSGGISKLYRVTVQPRADEATILKLSSGVVLDDGTKTMPCAINVVTDEPGRTVME 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + L + Sbjct: 184 MTLKEGKNREIRRMCESVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEV-NGLRAAAV 242 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 + A S R R + P Sbjct: 243 KGRAQTRSAAQQSKAAERRPRGPVGKNAPRKQK 275 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 85 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 143 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 144 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 203 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 204 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 263 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W + ++EG+NRE++++FE V+RL+R+++GP L L G Sbjct: 264 RIYEQGGEGANKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGLPNRLKRGQFY 323 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 324 ELNPAEVANILKWADM 339 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 91/286 (31%), Positives = 132/286 (46%), Gaps = 10/286 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGV- 65 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 88 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 147 Query: 66 ----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P++K L Y L T + +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-GTLLAGSTREVSKKI 240 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 268 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 327 Query: 241 ---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 LRE +G E +V++ + + Sbjct: 328 VNYLRELVGLPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 373 >gi|167719822|ref|ZP_02403058.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei DM98] Length = 399 Score = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 76/304 (25%), Positives = 131/304 (43%), Gaps = 7/304 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 97 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 155 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 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+ + R + + + + + ++ Sbjct: 336 AQVRRLMSTVGLKAPTEDKGG-KRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPRR 394 Query: 299 KKLA 302 + Sbjct: 395 GRRG 398 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 82/239 (34%), Positives = 123/239 (51%), Gaps = 12/239 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +RV K++++ GIASRR E+MIA +V++NG + TD IEVDG P+ +R Sbjct: 3 ERVQKILSQWGIASRRRAEKMIAAGQVRLNGTTV-HLGQKADPETDVIEVDGKPINPYQR 61 Query: 73 T--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTND 127 L +KP G+V+T D R TV D LP + VGRLD ++ G LLLTND Sbjct: 62 PQSIYLLLNKPAGVVSTCRDSRNRPTVIDLLPDKLTKGQGIHPVGRLDADSTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L PS + Y+V G + L ++G+ + G QV + +KG + Sbjct: 122 GELTFRLTHPSHHIPKTYQVWVRGNPPESVLQTWREGVNLLGKKTLPAQVRVLKRKGQST 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKIL 241 + V L EG+NR+I++V + ++ V L R + GP +L L G R ++ + Sbjct: 182 LLEVVLTEGRNRQIRRVAQLLSYPVIHLHRTAIGPIKLNLPGEPILPCGDYRALNDVEV 240 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 73/241 (30%), Positives = 114/241 (47%), Gaps = 6/241 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K++AR G+ SRRE+E MIA RV +N + D I +DG +R + Sbjct: 31 ETDRLQKLLARNGLGSRREIEAMIAAGRVSINNTTAK-LGDRAGLGDKIRIDGRIIRLSM 89 Query: 72 R----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + +V+ S 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-GTLLAGSTREVSKKILREQLG 246 W + L+EG+NRE++++FE V+RL+R+ +GP L L G E+ + L Sbjct: 210 WYRIVLKEGRNREVRRMFEALGITVSRLMRVRFGPVNLPPRLKRGMWLELVDTEVERLLA 269 Query: 247 P 247 Sbjct: 270 L 270 >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 = 162 bits (410), Expect = 6e-38, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 104/229 (45%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + R+ VNG V +D I +DG PL E+ Sbjct: 1 MRINKLFSNFGICSRKETNKIIREGRIIVNGKPCIE-GQWVELSDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + + I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIALNKPVGVVCTAAEEV---KDNIIDYLGIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + +++G+ I G ++ + ++ L Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMEQGVEILGQVTKPCKLKRINEN----TYSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F + V +L RI L + G R ++++ + Sbjct: 173 TQGLNRQIRRMSKVFGFNVVKLERIRILNITLEDIEYGKWRYINREEIE 221 >gi|317970403|ref|ZP_07971793.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CB0205] Length = 235 Score = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 77/231 (33%), Positives = 116/231 (50%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+IA+AG+ SRR E ++ RV VNG + D I +DG PL + Sbjct: 4 ERLQKLIAQAGVCSRRRAEELLRDGRVTVNGQRAQ-LGDKADPNSDAISLDGQPLGASAE 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 + L +KP G++++ DP+GR V D LP + VGRLD + G LLL+NDG Sbjct: 63 PMVLLLNKPAGVLSSCFDPEGRPIVLDLLPPELARGQGLHPVGRLDFESRGALLLSNDGA 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + YRV GQ Q L+ +G+ + G+ +QV + + + Sbjct: 123 LTLQLTHPRYAHSKTYRVWVQGQPSQRVLDQWARGVSLDGLPSQPVQVRSLSSEQGRTLL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + EGKNR+I++ E V L RI+ GP LG L G R ++ + Sbjct: 183 ELVMGEGKNRQIRRTAELLGHHVLDLQRIAIGPIHLGALPEGRWRRINDQE 233 >gi|284007248|emb|CBA72545.1| ribosomal small subunit pseudouridine synthase A [Arsenophonus nasoniae] Length = 231 Score = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 51/232 (21%), Positives = 103/232 (44%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +V V+ +++ + + + DGV L+ Sbjct: 2 MRLDKFLSQQLTISRGLVIRELRAGKVMVDNEIIKTGSYQITPEMIVSYDGVVLQHIIGP 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + D + + +++ GRLDI+T GL+++T+DG Sbjct: 62 RYFMLNKPQGYVCSTVDSVNLTILSFIDEPAITKLHIAGRLDIDTTGLVIITDDGKWTHK 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V + + GI ++G ++++ + K V + Sbjct: 122 MISPKHHCEKTYLVTLAQPVSTELADKFLAGIWLKGEKLPTKPAKLSIVSSKQ----VRL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F V L R G L L AG R ++++ ++ Sbjct: 178 TISEGRYHQVKRMFAAVGNHVCALHRERIGGIYLDPALRAGEYRSLTQEEIK 229 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W + ++EG+NRE++++FE V+RL+R+++GP L L G Sbjct: 263 RIYEQGGEGANKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 323 ELNPAEVANILKWADM 338 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. 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|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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 89/348 (25%), Positives = 134/348 (38%), Gaps = 7/348 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----LR 68 ++ KV+A G+ SRR++E +I Q RV VNG+ + TD + ++G P ++ Sbjct: 196 TVKLHKVLADVGMGSRRDMEDLIIQGRVSVNGLPA-HIGQRIGPTDQVRINGKPVHRKIQ 254 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + +V+ + R I+VGRLD NTEGLLL T G Sbjct: 255 TKPPRVIMYHKPAGEIVSQSDPEGRPTVFDRLPKPRQGRWIAVGRLDFNTEGLLLFTTSG 314 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P R Y VR G + Q+ LLK GI + +++ + +G+N W Sbjct: 315 ELANRLMHPRYGVEREYAVRILGDLSQENTALLKSGITLDDGQAKFLRLAMGGGEGANRW 374 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L EG+NRE++++FE V+RLIR YG F L L G E+ + + Sbjct: 375 YHVALSEGRNREVRRMFEAVGHTVSRLIRTRYGIFLLPPRLRRGKWEEIEAGGIYNLMKS 434 Query: 248 HLLEEAQV-NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ Q + + R P + S L+ T Sbjct: 435 AGLKMPQPSDKGRSPNPNNRDRRPAGEDFQPDPMQTSVSYWGSRDALTLASGHNGLTHQS 494 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R A F + + R AKK Sbjct: 495 RGGKPGGGGAASEGRGPFRGRTQGGRPGQGAGQGGQGGQGQNRNKAKK 542 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 103/228 (45%), Gaps = 7/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G+ +R EV++++ + V+VN ++ + TD + VDG + + Sbjct: 1 MRIDKFLANMGLGTRTEVKQLLKKGLVEVNEKKIKTPKSQIDPETDKVVVDGEEISYVDN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP G ++ D ++ + + VGRLD +TEGLLLLTNDG Sbjct: 61 -VYMMLNKPKGYISATEDNAHQTVLDLIPEFSHLGIFPVGRLDKDTEGLLLLTNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + Q + K G+ + ++ KG++ V Sbjct: 120 ELMSPKKHVSKTYEVISKYPIKQSDIEAFKLGVELSDGKVKPAELI----KGNDRLSYVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 + EGK ++K++F +V L R+ +L L +G ++++ Sbjct: 176 IYEGKYHQVKRMFHSIENEVLELKRVKIANLELDKTLNSGEYCFLNEQ 223 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 57/228 (25%), Positives = 103/228 (45%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+++ G SRRE RMI + R+ VNG + V D I +D P+ E+ Sbjct: 1 MRINKLLSNYGYCSRRETNRMIEENRITVNGQNCIK-GQWVEEDDIILIDNEPISLKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + T + + + VGRLD ++GL++LTNDG LA Sbjct: 60 YIAFNKPVGITCTLEKTV---KNNIGDYINFSDYIFPVGRLDKESQGLIILTNDGDLANK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + +N + +G+ I G+ QV K S+ + L Sbjct: 117 ILESENKHEKEYIVTLNRPFNDSFINGMSEGVEICGVKTRKCQV----SKISDNVFRIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G N++I+++ + F + V +L RI ++ + G R ++ + L Sbjct: 173 TQGLNKQIRRMSKTFGYTVIKLERIRILNIKIDGIDIGKWRVLTDEEL 220 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 67/244 (27%), Positives = 116/244 (47%), Gaps = 8/244 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 + + R+ K + G +R +V+ M+ + R+ VNG + +A + + D I +DG Sbjct: 1 MAERKKAMIRLDKFLTEMGRGTRSQVKEMVRKGRITVNGQAVRQADLKINPEADQICLDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + A L +V+ D ++ ++ + VGRLDI+TEGLLLL Sbjct: 61 AAVAYARTEYYMLNKPQG-VVSATEDGRYQTVTELITGALRGDIFPVGRLDIDTEGLLLL 119 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK 183 TNDG LA L P +VY R GQ+ +D + G+V++ ++ + Sbjct: 120 TNDGSLAHNLLSPRKHVDKVYFARIEGQLPEDAVGRAAAGLVLEDGTKTLPARLEILEPG 179 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + +REGK ++K++FE +V L R+S GP L L G R ++++ ++ Sbjct: 180 Q----VRLTIREGKFHQVKRMFEAMGCRVTYLKRLSMGPLVLDPALAPGEYRPLTEQEIQ 235 Query: 243 EQLG 246 + G Sbjct: 236 DLQG 239 >gi|602963|gb|AAB59990.1| ORF4 [Escherichia coli str. K-12 substr. W3110] Length = 243 Score = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 81/232 (34%), Positives = 114/232 (49%), Gaps = 7/232 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 237 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELD 233 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 68/241 (28%), Positives = 111/241 (46%), Gaps = 3/241 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++K IA AG+ SRR+ + ++ Q RV ++G +++ V + VDG + Sbjct: 5 SSDREGMRINKYIAHAGVCSRRDADDLVEQGRVHIDGERVDQHGTCVREGQTVTVDGEEV 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLT 125 E L L + TT D R+ + S + VGRLD NT G+LL++ Sbjct: 65 YPLEFEYLLLNKPKDTISTTDDPKDRRTVLDAIGVPEDNPSGLFPVGRLDRNTTGVLLVS 124 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + ++Y VR V +L+ LK+G+ + QV + Sbjct: 125 NDGDLAHRLMHPRYEIPKIYYVRVQDDVKPHQLDQLKRGVELSDGAAAADQVAYLDPQR- 183 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + L EG+NR+I+++ E + +L R Y G L G R + + +RE Sbjct: 184 KTDIALELHEGRNRQIRRMMEALGHTIVQLERAKYATLTTGRLQRGEWRRLEPEEVRELY 243 Query: 246 G 246 Sbjct: 244 Q 244 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + RV VNG V +D I +DG PL E+ Sbjct: 1 MRINKLFSNFGICSRKETNKIIREGRVIVNGNPCIE-GQWVELSDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + + I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIALNKPVGVVCTAAEEV---KNNIIDYLGIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + +++G+ I G ++ + ++ L Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMERGVEILGQVTKPCKLKRINEN----TYSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F + V +L RI L + G R ++++ + Sbjct: 173 TQGLNRQIRRMSKVFGFNVIKLERIRILNITLEDIEYGKWRYINREEIE 221 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 84/289 (29%), Positives = 124/289 (42%), Gaps = 6/289 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----RK 69 +++ KV+ARAGI SRRE+ER I + RVKVN + V TD I V G + Sbjct: 89 EKLQKVLARAGIGSRREMERAIEEGRVKVNDRIAT-LGDRVTLTDKIFVGGQRVVLRTEA 147 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A R + + + H + R ISVGRLD NT GLLL TNDG Sbjct: 148 ARRRVILYNKPEGEICSRHDPEGRPTVYDSLPSLKGERWISVGRLDFNTSGLLLFTNDGE 207 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS+ R Y VR G VD D L +G+++ + +G N W Sbjct: 208 LANKLMHPSSVIDREYLVRIQGDVDDDMKERLLEGVLLDDGVARFTDIVDGAGEGKNRWF 267 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 + EG+NRE+++++E KV+RL R+ Y + + G E++++ +R+ Sbjct: 268 YCVVMEGRNREVRRLWESQGVKVSRLKRVRYANIFIPSHVRVGQWTELTEQEIRDLCMTA 327 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + E +R + K +K K Sbjct: 328 GFDSNNYTRIMRPSREEVAQIERHEKKLRSASSAPKRVKVDLRKRSPRK 376 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 47/234 (20%), Positives = 97/234 (41%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R++ ++I V V+G + + + V +E +G + Sbjct: 1 MRLDKYLCDGLGATRKQATKIIKSGDVTVDGEVQKSGSFKVPEAGVVEWEGRLVGAPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGHNP-TAFVLLDEPKVEKLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ + V + + Sbjct: 120 ITSPKHKCEKTYRVWLADAIQPDYIEKFAEGIELRNESGPTLPAHLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 EGK ++K++F KV L R G L L G R ++++ + + Sbjct: 180 VEGKYHQVKRMFAALGNKVEYLHRERIGSIVLDEALEPGDYRFLTEEEVESVVK 233 >gi|295100683|emb|CBK98228.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii L2-6] Length = 278 Score = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 84/276 (30%), Positives = 136/276 (49%), Gaps = 4/276 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K+++ G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 4 ERIQKIMSEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQKNQ 63 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 64 QMYYLALYKPRGYVTTASDELGRKTVMELVADIPARLYPVGRLDKDSEGLLLMTNDGAFA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ ++ L G+V+ + + T + + Sbjct: 124 QAVTHPSGGISKLYRVTVQPRADEAQILKLSSGVVLDDGTKTMPCAINVVTDEPGRTVME 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L+EGKNREI+++ E +V RL R + G +LG L G RE++K + L Sbjct: 184 MTLKEGKNREIRRMCEAVGLEVIRLKRNAEGVVKLGMLQPGRYRELTKAEV-NGLRAAAA 242 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 + A + S R R + + K Sbjct: 243 KGRAQTRSAALQSRAAARRPRGPVGGNKAAAGKKHK 278 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 78/318 (24%), Positives = 133/318 (41%), Gaps = 6/318 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + V+G Sbjct: 207 LTAEDDAPKLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVRVNGKL 265 Query: 67 LRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +++ L + +V+ + + ++VGRLD NTEGLL Sbjct: 266 IQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEGLL 325 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 326 IFTTSGDIANRFMHPRYGVEREYAVRTLGELAEFDRQKLLQGVRLDDGEANFLRCADGGG 385 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EVS + + Sbjct: 386 EGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEVSAEEV 445 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R +G L+ + S R R + + ++ ++ + Sbjct: 446 RVLMGSLGLKVPSASAGGGQGSRPQGGRRREAQPMLMGPMSSGFTGEATFQSRGQGVENG 505 Query: 302 ATPVHRRNLASNVWMAKG 319 + SN Sbjct: 506 NRALPAARRPSNPRQPDP 523 >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 = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 101/231 (43%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R++ +++ ++RV V+G +++ A+ + +E DG+ LR A Sbjct: 2 IRLDKFLCETVGVTRKQAAKILKEERVTVDGNIIKNGAIKIAEEADVEFDGMSLRLAGPR 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + + ++ GRLD +T GLLLLT+DG + Sbjct: 62 YYMMNKPAGYVCSHDDP-YNPTVFVLLDEIGAEKLHIAGRLDCDTTGLLLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + +VYRV V + +GI ++G Q+ +K V + Sbjct: 121 VTSPKHKCDKVYRVWLDDPVSPETEQCFAEGIKLRGERTETLPAQMQRVGEK----EVLL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R S G L L G RE++ + + Sbjct: 177 TIHEGKYHQVKRMFAAVGNKVVGLHRESVGGLVLDEALEPGEYRELTDEEI 227 >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 = 162 bits (410), Expect = 7e-38, 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|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 = 162 bits (410), Expect = 8e-38, Method: Composition-based stats. Identities = 86/259 (33%), Positives = 124/259 (47%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKRAGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >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 = 162 bits (410), Expect = 8e-38, Method: Composition-based stats. Identities = 61/245 (24%), Positives = 115/245 (46%), Gaps = 9/245 (3%) Query: 1 MKDK--NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M ++ Q+ R++K ++ AG+ SRRE +R+I RV V+G + + ++ Sbjct: 1 MNNRILQEYQKTKEEVRLNKYLSEAGVCSRREADRLIESGRVSVDGKRAQT-GMKIVPGQ 59 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 ++V + K + + +KP G+V T + R+ VGRLD ++ Sbjct: 60 VVKVGKKVVSKQDEMVVLAVNKPAGIVCTEERRE--RNSIVRFLDYPIRITYVGRLDKDS 117 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +GLLL+TN+G + + + + Y+V ++ Q+ L + G+ I +V Sbjct: 118 KGLLLMTNNGDIINKMMRAGNRHEKEYKVTVDKEITQEFLEKMASGVPILDTVTRPCKV- 176 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +K ++ L +G NR+I+++ E ++V LIR+ LG L G R+++ Sbjct: 177 ---EKIGKYTFSIILTQGLNRQIRRMCEALGYQVRELIRVRIMNIHLGRLKEGEYRKLTD 233 Query: 239 KILRE 243 L E Sbjct: 234 AELNE 238 >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 = 162 bits (410), Expect = 8e-38, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 104/229 (45%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + RV VNG V +D I +DG PL E+ Sbjct: 1 MRINKLFSNFGICSRKETNKIIREGRVIVNGKPCIE-GQWVELSDEILLDGKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + + I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIALNKPVGVVCTAAEEV---KDNIIDYLGIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + +++G+ I G ++ + ++ L Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIEKMEQGVEILGQVTKPCKLKRINEN----TYSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F + V +L RI + + G R +++K + Sbjct: 173 TQGLNRQIRRMSKVFGFNVVKLERIRILNITIDNIEYGKWRYINRKEIE 221 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 109/239 (45%), Gaps = 6/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+G+L +R +NV ++ I V G L A Sbjct: 1 MRLDKLLGQAGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQSITVSGKELEHAPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYLMNKPAGVVSARSDKKHQTVIDLIKPEDQREGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+V + Q+ + + + + Sbjct: 121 AMLHPRYHVAKTYYVEVNDILGPDTPAFFESGVVFEDGTICKSAQLEILSSASDKSCARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQLG 246 + EGK ++KK+F + KV L RIS+G F+L + GS R +++ LR LG Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGAFKLDEGIAVGSYRALTEAEKVILRTYLG 239 >gi|318040247|ref|ZP_07972203.1| 16S rRNA pseudouridylate synthase [Synechococcus sp. CB0101] Length = 241 Score = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 75/235 (31%), Positives = 116/235 (49%), Gaps = 3/235 (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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGL 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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + + EG+NR+I++ E V L R++ G +LG L G R + + + Sbjct: 184 LVMHEGRNRQIRRTAELLGHPVLDLQRVAIGSIELGELPEGRWRRLDPQEWPDTH 238 >gi|167919194|ref|ZP_02506285.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei BCC215] Length = 408 Score = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 76/274 (27%), Positives = 124/274 (45%), Gaps = 6/274 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 99 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 157 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 278 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 337 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 +R + L+ + + P Sbjct: 338 AQVRRLMSTVGLKAPTEDKGGKRGGPAERRQPDP 371 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 106/236 (44%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ AV + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGAVQISQEDKIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T G +LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGFVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI++ + ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRREKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVK 232 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 137/320 (42%), Positives = 190/320 (59%), Gaps = 5/320 (1%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-----GSNAW 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 + + + + +R + + +S+ G ++++ Sbjct: 286 IDPRNLPSENETQTRTPMRLRRTDGEGAPRTGRRGGGDRFASKSEGREERRERPLSRDEA 345 Query: 309 NLASNVWMAKGIHSSFLSDS 328 G Sbjct: 346 FRRKYEAKEFGERDFDERPR 365 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 87/321 (27%), Positives = 135/321 (42%), Gaps = 12/321 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVP 66 + +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG Sbjct: 27 DKIVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKI-SKLGDRVEVTQATKIRLDGHL 85 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 L E L Y L T + + SR ++VGRLD+NT GL Sbjct: 86 LSIKESEETVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGL 145 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ + Sbjct: 146 LLFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTIKFQG 205 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 206 GEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKA 265 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LRE + +++ ++ + R + S + ++ Sbjct: 266 TNYLRELVELDSETVSKMPVEKDRRRVKANQIRRAVKRHSEVAGRQVAGRQGSARKSSTR 325 Query: 298 QKKLATPVHRRNLASNVWMAK 318 Q Sbjct: 326 QNVSNATPTATAGRRGSNKRG 346 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 74/229 (32%), Positives = 130/229 (56%), Gaps = 4/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA A SRRE + + + RVKVNG + V V +D +EVDG L ++ Sbjct: 1 MRINKYIATALKISRREADNYVKEGRVKVNGKSITS-FVEVDGSDKVEVDGELLSLNKKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++KP ++++ D +GR+TV D +I ++I VGRLD +EGLL++T+DG A + Sbjct: 60 SYFAFYKPPFVISSTKDNEGRTTVCDFFKNIEEKLICVGRLDYLSEGLLIITSDGEFANL 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + + Y V+ G + + L + KG+ ++ + ++ + S WV + + Sbjct: 120 LMHPRFKIRKTYLVKTKGPIKTETLKAMSKGVNLEDGFFRPIR---IKKTNSPNWVLISI 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G+NR I++ + F+ K+++L RI+ G +LG L G RE++K+ + Sbjct: 177 DTGRNRIIRRFLKKFDIKIDKLKRIAIGNIELGNLRNGEFRELTKQEIE 225 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 82/321 (25%), Positives = 138/321 (42%), Gaps = 7/321 (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----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 V+G +++ L + +V+ + + ++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 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 391 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 450 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 S + +R +G ++ + R ++ + N + Sbjct: 451 SAEDVRTLMGTLGMKVPTASSGGGQDRQGNRRRGPAPVLMGPMSSGFAGEANFQSRGMGI 510 Query: 297 KQKKLATPVHRRNLASNVWMA 317 + A P RR + Sbjct: 511 ENGNRAQPAQRRPSSPRQPDP 531 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 56/235 (23%), Positives = 108/235 (45%), Gaps = 7/235 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E + Sbjct: 4 RLDKFIAENVGLTRSQATKAIRQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWIEEGQ 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + + Sbjct: 64 YFMLNKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHRI 123 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTVG 192 P + Y V V+++ +GI+++G ++ + + V + Sbjct: 124 TSPKHHCEKTYLVTLADPVEENYSAACAEGILLRGEKEPTKPAKLEIL----DDYNVNLT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 180 ISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRPLTQSEIEKLVE 234 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 78/320 (24%), Positives = 133/320 (41%), Gaps = 6/320 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + V+G Sbjct: 209 RELTAEDDAPKLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVRVNG 267 Query: 65 VPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +++ L + +V+ + + ++VGRLD NTEG Sbjct: 268 KLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEG 327 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 328 LLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEFDRQKLLQGVRLDDGEANFLRCADG 387 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EVS + Sbjct: 388 GGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEVSAE 447 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 +R +G L+ + S R R + + ++ ++ + Sbjct: 448 EVRVLMGSLGLKVPSASAGGGQGSRPQGGRRREAQPMLMGPMSSGFTGEATFQSRGQGVE 507 Query: 300 KLATPVHRRNLASNVWMAKG 319 + SN Sbjct: 508 NGNRALPAARRPSNPRQPDP 527 >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 = 162 bits (409), Expect = 8e-38, Method: Composition-based stats. Identities = 69/248 (27%), Positives = 125/248 (50%), Gaps = 3/248 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDT--QKGSNAWVT 190 + P ++ + Y+ G+V + ++N L KG+ I +Q L Q+ + + Sbjct: 122 VMHPRYEFFKTYQGLCKGKVSKQQVNQLLKGVKIEDDYFTKAIQAELLNYDQEKDQSIIE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + + EGK +K++F + +L R ++ L G RE+ +++ G + Sbjct: 182 MTIAEGKKHHVKQMFSAIEANLMKLKRTKIEFLEVDDLEVGRYRELKPHEVKKFYGIYQS 241 Query: 251 EEAQVNLD 258 + + +L Sbjct: 242 TKRKEDLK 249 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 105/230 (45%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+++ GI SR+E R+I + R+ VNG + V D I +D P++K E+ Sbjct: 1 MRINKLLSNYGICSRKEANRIIEENRIIVNGEVC-IPGQWVEEYDEILMDNEPIKKKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + + + VGRLD ++EGL+L+TNDG L+ Sbjct: 60 YIALNKPVGITCTAAREV---KDNIIDFLNYPEYIFPVGRLDKDSEGLILMTNDGELSNK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + + +G+ + G+ VT +N + L Sbjct: 117 ILESENHHEKEYIVTVDKPFDDSFIKGMSEGVQLNGVKTRPCIVTRI----NNDTFRIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ F + V +L RI ++ + G R ++ K + E Sbjct: 173 TQGLNRQIRRMTRAFRYTVIKLERIRILNIKINEIDVGKWRYLTHKEIDE 222 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 92/231 (39%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + V +G +++ + V I +DG + Sbjct: 13 VRLDKFICESTELTRSFAKKALHRGDVTCDGEVVKNSGFKVKVGQTICLDGKVISVV-GP 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP + D + + + GRLDI+T GL+L+T DG + Sbjct: 72 RFLMLNKPADTICATFDIVHPTVIDLLDIEKADTLHIAGRLDIDTTGLVLITTDGQWSHK 131 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V+ ++D + +G+ + + + + + Sbjct: 132 ITSPKKDCSKCYLVKLTDELDASLVETFAQGVELRNEDGLTKPAVLEII----DTHTARL 187 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV L R S G L L G R ++ + + Sbjct: 188 TITEGKYHQVKRMFAAVGNKVVGLHRESVGKIVLDDDLAPGEWRYLTDEEV 238 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 47/234 (20%), Positives = 98/234 (41%), Gaps = 8/234 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K I + +R ++ + + + +GI+++ + V+ + ++G P+ Sbjct: 4 SRPVRLDKFICESTSLTRSLAKKALHRGEITCDGIVVKDSGFKVLEGMQVCLEGEPISLV 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP+ + + D S + + GRLD +T GL+L+T+DG Sbjct: 64 -GERYLMLNKPVDTICSTIDEAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQW 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAW 188 + + P + Y V VD + + G+ + + + + + Sbjct: 123 SHRITSPKKDCGKRYLVTLADPVDGSLVGIFAAGVELRNEDGLTKPAVLEIIEPQ----L 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 179 VRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGRIELDSDLAPGEWRYLTSEEI 232 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 63/267 (23%), Positives = 125/267 (46%), Gaps = 7/267 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN R++K ++ AG+ SRRE +R + + ++G + E V+ + G Sbjct: 1 MEEN--GIRINKFLSEAGVCSRREADRQVELGNITIDGKVAET-GARVLPGQTVLFQGKK 57 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + K E L +HKP+G+V T + + + + R+ +GRLD ++EGLLLLTN Sbjct: 58 VSKEEEMILIAFHKPVGIVCTAEKREKNNVIDYI--NYPKRIYPIGRLDKDSEGLLLLTN 115 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + Y V + V + ++ L G+ + + + + ++ Sbjct: 116 NGDIVNKMMRSGNMHEKEYIVTVNRPVTESFIHGLANGVPLAELNTMTRKCHV--KQIGK 173 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+++ E+F ++V +L+R +LG L G+ R+V+ + R+ L Sbjct: 174 KQFKIILTQGLNRQIRRMCEYFGYRVEKLVRTRIMNIELGDLPVGTYRDVTTEEYRQLLS 233 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPN 273 + + SE + Sbjct: 234 LIKDSSNETVIPKKYPKSERMKEKSKK 260 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 69/242 (28%), Positives = 117/242 (48%), Gaps = 7/242 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + EN P R++K +A AGIASRR + +I RV VNG++ V+ D + +G Sbjct: 1 MPENS-PVRLNKYLADAGIASRRGADALIQGGRVCVNGLIQREPGTRVIPGQDTVLCNGA 59 Query: 66 PLRKAERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGL 121 P+ + + L+ + T + ++ V + + 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 LR 242 ++ Sbjct: 240 IK 241 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 123/237 (51%), Gaps = 4/237 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 +N +R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V D I VDGV + Sbjct: 42 DNPKGERLQKVLAKAGVASRRHAEIMIDAGRVEVNGKIVMQQGVRVDPNVDVIRVDGVRI 101 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLL 124 E TR ++ +KP GL +T SD GR + D + R+ VGRLD +TEGL+L+ Sbjct: 102 NVNEETRYFILNKPRGLQSTMSDELGRPCIGDLIGDRVAAGQRLFHVGRLDADTEGLILI 161 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L P + + Y G+ + LK+G+ ++ V + + Sbjct: 162 TNDGELANRLMHPKYEVRKTYLATVLGEAGNGLVRTLKEGVELEDGLAKADYVQIVDKNQ 221 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V V L EG+ ++++ + + V RL+R QLG + G R ++ L Sbjct: 222 GYSLVRVELHEGRKHIVRRMLKEAGFPVQRLVRTKLHTLQLGEMKPGILRALNSNEL 278 >gi|167620251|ref|ZP_02388882.1| RNA pseudouridylate synthase family protein [Burkholderia thailandensis Bt4] Length = 431 Score = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 78/304 (25%), Positives = 127/304 (41%), Gaps = 9/304 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 129 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 187 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 308 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 367 Query: 239 KILRE---QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +R +G E + + T + + G Sbjct: 368 AQVRRLMSTVGLKAPVEEKGKRGGAAERRQPDPMQTSMGFINREPVLTTHGQLDQPRRGR 427 Query: 296 SKQK 299 Sbjct: 428 RGPA 431 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 78/320 (24%), Positives = 131/320 (40%), Gaps = 8/320 (2%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + V+G Sbjct: 111 RELTAEDDAPKLHKILADAGLGSRRDMEDLIMQGRVSVNGLPA-HIGQRILPTDQVRVNG 169 Query: 65 VPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +++ L + +V+ + + ++VGRLD NTEG Sbjct: 170 KLIQRKLPNKAPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEG 229 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A P R Y VR G++ + L +G+ + ++ Sbjct: 230 LLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAESDRQKLLQGVRLDDGEANFLRCADG 289 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EVS + Sbjct: 290 GGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEVSAE 349 Query: 240 ILREQLGPHLLE--EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 +R +G L+ R+ ++ + + + Sbjct: 350 EVRVLMGSLGLKVPSVSAGGGQGGRPQGGRRREAQPMLMGPMSSGFTGEATFQSRGQGVE 409 Query: 298 QKKLATPVHRRNLASNVWMA 317 A P RR + Sbjct: 410 NGNRALPAARRPSSPRQPDP 429 >gi|325002515|ref|ZP_08123627.1| ribosomal large subunit pseudouridine synthase B [Pseudonocardia sp. P1] Length = 253 Score = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 76/239 (31%), Positives = 115/239 (48%), Gaps = 7/239 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + R+ KV+ARAG+ASRR E +IAQ RV+V+G + + T + VDG + Sbjct: 6 DPDGVRLQKVLARAGVASRRAAEELIAQGRVQVDGETVREMGRRIDPETAVLHVDGARVT 65 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL------PSIFSRVISVGRLDINTEGLL 122 + +KP+GL +T SD GR V D L + R+ VGRLD +TEGLL Sbjct: 66 LRDDQVYLALNKPVGLHSTMSDDLGRPCVGDLLADRVELMNSAQRLFHVGRLDADTEGLL 125 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG L L PS + + Y G++ +D L+ GI ++ L Sbjct: 126 LLTNDGELGHRLMHPSYEVPKTYLAEVEGKIARDLGRRLRDGIELEDGIARVDAFKLVDA 185 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L EG+ ++++ V RL+R + G +LG G R + + + Sbjct: 186 VPGRSTVQLILHEGRKHIVRRMLSEVGHPVQRLVRTAVGEVRLGNQKPGKLRPLDRVEV 244 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 65/234 (27%), Positives = 115/234 (49%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A +GI +R+EV+ +I +++ VN ++ + + + T D I+ + + + Sbjct: 1 MRLDKFLANSGIGTRKEVKEIIKNRKIFVNDKIVMSSDLKIDETKDIIKYENNVINYTKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + +D ++ + ++ VGRLDI+TEGLLLLTNDG LA Sbjct: 61 RYIMLNKPKGYI-SATNDNKQKTVLDLITDFKTYKLFPVGRLDIDTEGLLLLTNDGDLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + D ++ ++KGI I + + K + + + Sbjct: 120 NLLSPKKHVEKKYYVELSQDISSDDISNIEKGIDIGEGIITRLSKII---KVDDNKLYII 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 + EGK ++K++F+ N +V L RIS G L L G RE++ + LR L Sbjct: 177 ITEGKFHQVKRMFKAVNNEVKYLKRISMGSLILDEKLNLGEYRELTYEELRSLL 230 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 71/243 (29%), Positives = 117/243 (48%), Gaps = 6/243 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 E+ R+++ +A GIASRR ++++A RV VNG + + + ++ D + VDG Sbjct: 4 TEDEGGIRINRYLAMCGIASRRAADKLVADGRVTVNGKIADEPGLRILPFKDEVIVDGRK 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 E ++++ V T S + +L S+ RV VGRLD T G++LLTN Sbjct: 64 FVVPEAKKVYILLNKPRNVITTSHDEKDRETILDLVSVEERVYPVGRLDRKTTGVILLTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKG 184 DG LA L PS+ + Y + Q L+ L G+ ++ Q L G Sbjct: 124 DGILAHRLMHPSSNVKKEYVAELDKRFPQGLLSQLVGGMKLKDTGEKVSPCQAKLLD-DG 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 W + + EGKN +++++ E + V +L R++Y + G L G+ R +SK +RE Sbjct: 183 MRIW--ISIHEGKNHQVRRMLETLGFDVTKLERVAYAGLKAGDLRRGAWRHLSKNEVREL 240 Query: 245 LGP 247 Sbjct: 241 YRL 243 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 102/249 (40%), Gaps = 19/249 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + R+SK +A G+ SRRE + IA+ V V+G ++ V I +D Sbjct: 1 MDSQSDKIRLSKRMAELGLCSRREADDYIARGWVSVDGQIISELGSKVSPDQRITLDARA 60 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 P+ Y L+ + P+ + Sbjct: 61 REAQNTRVTILLHKPIGYVSGQAEKGYQPAATLIVPERHWQQDPSRTVWKPAQLQGLAPA 120 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++ ++ L LL G+ + G+ Sbjct: 121 GRLDIDSTGLLVLTQDGRIAKQLIGENSPVDKEYLVRVEGRLSEEGLRLLNHGLALDGVP 180 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V + + L EGK R+I+++ E +V L RI G LG L G Sbjct: 181 LKPARVWWQNRDQ----LRFVLVEGKKRQIRRMCELVGLRVVGLKRIRIGRIMLGDLPQG 236 Query: 232 STREVSKKI 240 R ++ Sbjct: 237 QWRYLAPGE 245 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 75/230 (32%), Positives = 116/230 (50%), Gaps = 1/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-KA 70 T QR+ K+IA AG+ SRR+ E ++ +RV+VNG L + D IEVD PL+ Sbjct: 2 TRQRLQKLIASAGVCSRRKAEDLLRDRRVRVNGQLATLGDQADLDVDTIEVDDRPLQTAP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L P + + R+ + P + + VGRLD + G LLL+N G L Sbjct: 62 QARVLLLNKPPGVICSCRDPQRRRTVLELVPPDLREGLHPVGRLDAESRGALLLSNQGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV G + +LN ++G+V+ G +V L + + + Sbjct: 122 TLQLTHPRYNHRKTYRVTVAGLPSEKQLNQWRRGVVLDGTVTRPAEVNLVKKSPQASVLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V LREG+NR+I++V +V L RI+ G LG++ G RE+S++ Sbjct: 182 VILREGRNRQIRRVALSLGHRVLDLQRIAIGRLTLGSMREGCWRELSRQE 231 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 143/323 (44%), Positives = 187/323 (57%), Gaps = 3/323 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R++KV++RAG+ SRR+ E I + RV VNG ++ A++V D I VDG PL ER Sbjct: 466 GERIAKVVSRAGLCSRRDAEDWITEGRVAVNGRIINSPALDVTERDVITVDGKPLPPPER 525 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL+LYHKP GL+TTH+DP+GR TVFD+LP R+IS+GRLD NTEGLLLLTNDGGLAR Sbjct: 526 TRLFLYHKPRGLMTTHADPEGRPTVFDHLPEGLPRLISIGRLDFNTEGLLLLTNDGGLAR 585 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LELP T WLR YRVR HG+V Q +LN LK G+ + G+ YG + TL+ +G+N W+ Sbjct: 586 TLELPDTGWLRRYRVRAHGEVTQAQLNELKDGVEVDGVKYGPIDATLERDQGANVWLVFA 645 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +REGKNRE++ V +VNRLIR+SYGPFQLG + G EV ++LREQLG + Sbjct: 646 IREGKNREVRNVLAHLGLEVNRLIRVSYGPFQLGEIEEGQVEEVKTRVLREQLGEKIALA 705 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 A N I S D + V R + + Q+ + RN Sbjct: 706 AGANFARQIPSKGDTDLDPVVVKKPV---LKRSTVEDRKGRRVLVQRSGSEEARERNELE 762 Query: 313 NVWMAKGIHSSFLSDSGQREENH 335 + Sbjct: 763 AAGFGPPKRPKRGYKGKRDLAPR 785 Score = 40.2 bits (92), Expect = 0.46, Method: Composition-based stats. Identities = 13/117 (11%), Positives = 22/117 (18%), Gaps = 4/117 (3%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + P + + P +E R + G K+ Sbjct: 211 KRPFTPRPDRGDRPAARSDDRKFGERKPYAPREGAEKRPYSPRPDRGDRPDRGPRKEFGE 270 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP----SFPSKRSLRRTSAKK 354 P R A R P F + R + + Sbjct: 271 RKPYAPREGGEKRPYAPRDRKDGDRPFSPRPSRDGDRPQGERKFGGDKKFGRGAPDR 327 Score = 36.7 bits (83), Expect = 4.9, Method: Composition-based stats. Identities = 15/113 (13%), Positives = 28/113 (24%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + P + + E + P + + ++ Sbjct: 176 KRPYSPRPDRGDRPDRGPRKEFGERKPYAPREGGEKRPFTPRPDRGDRPAARSDDRKFGE 235 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P R A + D G R+E R P P + +R A + Sbjct: 236 RKPYAPREGAEKRPYSPRPDRGDRPDRGPRKEFGERKPYAPREGGEKRPYAPR 288 Score = 36.7 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 17/102 (16%), Positives = 25/102 (24%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + P P +E R + G K+ P Sbjct: 111 RPARSSDRPDRGPRKEFGEKRPYAPREGAEKRPYSPRPDRGDRPDRGPRKEFGERKPYAP 170 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 R A + D G R+E R P P + +R Sbjct: 171 REGAEKRPYSPRPDRGDRPDRGPRKEFGERKPYAPREGGEKR 212 >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 = 162 bits (409), Expect = 9e-38, Method: Composition-based stats. Identities = 100/351 (28%), Positives = 149/351 (42%), Gaps = 11/351 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AGIASRR+ E IA RV VNG ++ V D I VDG P+ K Sbjct: 4 ERLQKVLASAGIASRRDCEEYIAAGRVMVNGKVVRIPGTRVDPEHDEILVDGRPIGKIHH 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + HKP G+V+T DP GR TV +L ++ R+ VGRLD ++EGLLLLT+DG L + Sbjct: 64 RTYVMLHKPAGVVSTTDDPQGRPTVI-DLVNLEQRLFPVGRLDYDSEGLLLLTDDGELTQ 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS Q + YRV + L + G+ + G+ V L + AWV V Sbjct: 123 KLTHPSYQVEKEYRVLLNEAPSPAALRAWRTGVELDGVKTAPAWVELIERTPDGAWVRVI 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EG+ R+I++V ++V RLIR+ GP LG L +G+ R ++ + + Sbjct: 183 LHEGRKRQIREVARVLGYEVRRLIRVREGPLTLGDLPSGTWRFLTDEEVDMLREHAERNA 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ---------KNGLSKQKKLAT 303 A + P + + R+ + Q + + Sbjct: 243 AVAEAEQPRRREQGETQVSGGRRLRRITPSARLLQKGDQVTDTTLPDLDEAVESVQPPPV 302 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 RR+ N + R+ R R + Sbjct: 303 VDERRSSRDNERIRHDERPPRDVRHSGRDGYGREQRDRRGSGDGRGDRRDE 353 Score = 36.3 bits (82), Expect = 6.4, Method: Composition-based stats. Identities = 18/120 (15%), Positives = 29/120 (24%), Gaps = 3/120 (2%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE ++ R GP + + E + + R ++ Sbjct: 439 GGYRE--RREERGGNGPRDFRRDERSGGYRERREERGANGPRDFRRDERGGGYRERREER 496 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 NG ++ R A G + G R R RR Sbjct: 497 GANGPRDFRRDERSGGYRERREERG-ANGPRDFRRDERGGGYRERREERGANGPRDFRRN 555 >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 = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 73/233 (31%), Positives = 118/233 (50%), Gaps = 2/233 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 R+ KV+A AG SRR+ E++I RV V+G ++ V V + I VDG+ L+ Sbjct: 2 PDGVRLQKVLADAGYGSRRKAEQLIEDGRVSVDGQIIIELGVRVDPAKNVIHVDGLRLQL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +KP G+++ SD GR T+ D + + R+ VGRLD+++EGL+LLTNDG Sbjct: 62 DTNKVTLAVNKPAGVISAMSDEKGRPTLADLVRNREERLFHVGRLDLDSEGLILLTNDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNL-LKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + + Y V G ++ L G+ ++ +V + Sbjct: 122 LGNRLAHPKYEVPKTYLVTVSGGDVFPRIVRALLDGVDLEDGPARMDRVKIVQALEGMTM 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L +G+NR ++++F+ + V RL+R GP LG G+ R +S+ + Sbjct: 182 VEVVLHDGRNRVVRRMFDAVDRPVERLVRTKIGPIALGDQRPGTHRVLSRTEV 234 >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 = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 73/256 (28%), Positives = 124/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 323 ELNPAEVANILKWAEM 338 >gi|295105527|emb|CBL03071.1| ribosomal large subunit pseudouridine synthase B [Faecalibacterium prausnitzii SL3/3] Length = 275 Score = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 86/273 (31%), Positives = 135/273 (49%), Gaps = 4/273 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 4 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIQKNQ 63 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G VTT SD GR TV D + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 64 QLYYLALYKPRGYVTTASDELGRKTVMDLVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ + L G+V+ + + T + + Sbjct: 124 QAVTHPSGGISKLYRVTVQPRADEATILKLSSGVVLDDGTKTMPCAINVVTDEPGRTVME 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + L + Sbjct: 184 MTLKEGKNREIRRMCESVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEV-NGLRAAAV 242 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 + A S R R + P Sbjct: 243 KGRAQTRSAAQQSKAAERRPRGPVGKNTPRKQK 275 >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 = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 122/240 (50%), Gaps = 4/240 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 + + +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V D I VDG Sbjct: 55 VDDDKPKGERLQKVLAKAGVASRRHAEILIDAGRVEVNGNVILKQGVKVNPAVDVIRVDG 114 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGL 121 V + E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGL Sbjct: 115 VRVNVNEDQEYFILNKPRGMQSTMSDDLGRPCVGDVVSEKVASGQRLFHVGRLDADTEGL 174 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LTNDG LA L P + + Y G+ D + LK+GI ++ V + Sbjct: 175 LILTNDGELANRLMHPKYEVKKTYLATVLGEADNKLVRQLKEGIELEDGLAKADFVQVVD 234 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V V L EG+ ++++ + + V RL+R QLG + G R ++ L Sbjct: 235 KNQGFSLVRVELHEGRKHIVRRLLKEAGYPVQRLVRTKLHTVQLGDMKPGGLRALNSNEL 294 >gi|153001970|ref|YP_001367651.1| pseudouridine synthase [Shewanella baltica OS185] gi|151366588|gb|ABS09588.1| pseudouridine synthase [Shewanella baltica OS185] Length = 242 Score = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 66/240 (27%), Positives = 111/240 (46%), Gaps = 16/240 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLER-----AAVNVMSTDHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG + ++ D+IE+DG P+ Sbjct: 1 MRLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPVRLGESLNCLDNIELDGAPIT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K E W+ +K +G + D T +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 KTETLAYWVLNKAVGTDCRLLEQDE--TSLIHLLPKAPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y V + + + + G+ + + QV + Sbjct: 119 ELTHKLMHPSFAHSKTYHVHLNRPFTDEFVEQMASGVRYKDVQTLPCQVRRLSSDS---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ-----LGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + ++V L R++ LG L G R +++ + E Sbjct: 175 FEIVLTQGLNRQIRRMSKALGYRVIDLERVAIMTLNLRELALGELQEGQMRRLTESEVAE 234 >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 = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 139/328 (42%), Gaps = 16/328 (4%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVP 66 + +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG Sbjct: 23 DKIVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKI-SKLGDRVEVTQATKIRLDGHL 81 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 L E L Y L T + + SR ++VGRLD+NT GL Sbjct: 82 LSIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGL 141 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ + Sbjct: 142 LLFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTIKFQG 201 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 202 GEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD--- 258 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 L V LD+ S + +DR + + + + + +Q Sbjct: 259 ----LNATNYLRELVELDSETVSKLPVEKDRRRVKANQIRRAVKRHTEVAGRQVAGRQGS 314 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDS 328 R+N+ S Sbjct: 315 ARKSSSRQNVGSAAPATTAGRRGSNKRG 342 >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 = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 86/259 (33%), Positives = 124/259 (47%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >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 = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 148/328 (45%), Positives = 194/328 (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 RNLASNVWMAKGIHSSFLSDSGQREENH 335 A N A G G + Sbjct: 603 EARARNEAEANGYGPPRRPKRGYHGKRD 630 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 82/388 (21%), Positives = 143/388 (36%), Gaps = 39/388 (10%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A AG+ SRRE+E +I RV VNG ++ TD + ++ Sbjct: 178 KRVLAPEDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRILPTDQVRIN 236 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +G L L G E+ + Sbjct: 357 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGSIPLPRGLKRGRWEELDE 416 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R+ + L+ A + + R + + + + + ++ Sbjct: 417 AQVRKLMATVGLKVAADEKGKRGGAGQAERRQPDPMQTSMGFLNREPVLTTHGQLDQPRR 476 Query: 299 KKLATPVHRRNLASNV---------------------------------WMAKGIHSSFL 325 A G Sbjct: 477 GGRRGAQGGGFGAGAGFGGGAAGGGFGGNANGNGNRRGGGDVDGNRLSYGANNGNKRGGG 536 Query: 326 SDSGQREENHRRSPSFPSKRSLRRTSAK 353 G R N R+ + R + Sbjct: 537 KSQGPRGANGNRADGGGNAGGSARGGQR 564 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 64/244 (26%), Positives = 101/244 (41%), Gaps = 16/244 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA- 70 R+ + +ARAG+ASRR E +++ RV+VNG ++ V D + VDGV R + Sbjct: 11 TMRLQRFLARAGVASRRGSENLMSAGRVRVNGRVVSELGSKVTPGIDVVTVDGVECRLSD 70 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L L T + + + 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|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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 83/293 (28%), Positives = 125/293 (42%), Gaps = 7/293 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEGIIQAGRVSVDGKVATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGLPRGGWAEMPLEQLNYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 L V+ + ++ + + + Sbjct: 242 ELVQLPAETVSKLPVERERRRVKANQIRRAVKRHSQISTAPARRTSPKPKRNG 294 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 78/367 (21%), Positives = 140/367 (38%), Gaps = 15/367 (4%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++ ++ KV+A AG+ SRRE+E +I RV VNG ++ TD + Sbjct: 172 PQKRVLAPEDDAPKLHKVLAEAGMGSRREMEELIVAGRVSVNGEPA-HIGQRILPTDQVR 230 Query: 62 VDGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 ++G P+++ L + +V+ S P ++ ++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 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G+N W V L EG+NRE++++FE V+RLIR +G L L G E+ Sbjct: 351 RDGGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGSISLPRGLKRGRWEEL 410 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM---------KK 287 + +R+ + L+ A + + + + + + Sbjct: 411 DEAQVRKLMATVGLKVAADEKGGKRGAGAAERKQPDPMQTSMGFLNREPVLTTHGQLDQP 470 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 + G A G +++ + + R + Sbjct: 471 RRGGRRGAQGGGFGAGLGGGFAGGGASAGGYGGNANGNRRGAGGDVDGNRLSYGANGNKR 530 Query: 348 RRTSAKK 354 + + Sbjct: 531 GGGKSPR 537 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 106/238 (44%), Gaps = 4/238 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVP 66 R+ KV+++AGIASRR E+MI RV+V+G ++ V + VDG Sbjct: 8 SREPRGIRLQKVLSQAGIASRRAAEKMIVDGRVEVDGHVVTELGTRVDPPVAVVRVDGAR 67 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLL 123 + + +KP G+ +T SD GR + D + VGRLD +TEGL+L Sbjct: 68 VVLDDSLVYLALNKPRGMHSTMSDDRGRPCIGDLIERKVRGTKKLFHVGRLDADTEGLML 127 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L PS + + Y G V + L+ GI + + Sbjct: 128 LTNDGELAHRLMHPSHEVPKTYLATVTGSVPRGLGRTLRAGIELDDGPAFVDDFAVVDAI 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+NR ++++ + V L+R G LG GS R + + Sbjct: 188 PGKTLVRVTLHEGRNRIVRRLLAAAGFPVEALVRTDIGAVSLGKQRPGSVRALRSNEI 245 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 76/235 (32%), Positives = 115/235 (48%), Gaps = 4/235 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ KV+A+AG+ASRR E MI Q RV+VNG + + V + D I VDG + Sbjct: 52 TEGVRLQKVLAQAGVASRRHAEIMITQGRVEVNGTRVTTQGMRVDPSRDVIRVDGTRINV 111 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTN 126 E ++++KP G+ +T D R++V L R+ VGRLD +TEGLLLLTN Sbjct: 112 NEELEYFVFNKPRGVQSTMKDEMDRTSVGSYLSERTASGQRLFHVGRLDADTEGLLLLTN 171 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P + + Y G+ + L++GI + V + Sbjct: 172 DGELANRLMHPRYEIAKTYMATVLGEAKPALVKKLREGIELDDGPAKADYVQIVDTHNGQ 231 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V L EG+ ++++ + V RL+R QLG + GS R ++ L Sbjct: 232 SIIRVELHEGRKHIVRRMLKAAGHPVQRLVRTKVHTVQLGDMKPGSLRALNAAEL 286 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 82/293 (27%), Positives = 125/293 (42%), Gaps = 7/293 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWTEMPLEQLNYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 L V+ + ++ + + + Sbjct: 242 ELVQLPAETVSKLPVERERRRVKANQIRRAVKRHSQISSAPARRTSPKSKRNG 294 >gi|320011602|gb|ADW06452.1| pseudouridine synthase [Streptomyces flavogriseus ATCC 33331] Length = 389 Score = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 +R+ K++ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 149 EQEGERLQKILARAGMGSRRACEELIEQARVEVNGEIVLEQGMRVDPQKDEIKVDGLTVA 208 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T ++ D + + +R+ VGRLD TEG++LLTN G Sbjct: 209 TQSYLFFALNKPAGVVSTMGDPDGRQNLG-DYVNNRETRLFHVGRLDTETEGIILLTNHG 267 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + G N Sbjct: 268 ELAHRLTHPKYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYL 327 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 328 VEVTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 380 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 76/237 (32%), Positives = 126/237 (53%), Gaps = 6/237 (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 + L R+ VGRLD ++ GL+LLTNDG LA Sbjct: 61 VVYALHKPAGVVSTAADTHGRRTVTE-LVPQGRRLYPVGRLDADSTGLILLTNDGELANR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + YR G D+ L++G+ ++ +V S + + Sbjct: 120 LTHPRFEVPKTYRATVGGPQIGDRTLRQLREGVRLEDGMTAPARVRRL----SAHVLELT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+ R+++++ E V L+R +GP LG L G +R ++ + +RE Sbjct: 176 IHEGRKRQVRRMCEEVGHPVKSLVRTQFGPLSLGDLGTGRSRRLTAREVRELAEAAN 232 >gi|271500649|ref|YP_003333674.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344204|gb|ACZ76969.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 296 Score = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 86/295 (29%), Positives = 127/295 (43%), Gaps = 10/295 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI R+ V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 E + +++ ++ + R +R N + Sbjct: 242 ELVQLTPETVSKLPVERERRRVKANQIRRAVKRHGQTGAASRPSGNRRSAPKRNG 296 >gi|332993790|gb|AEF03845.1| pseudouridine synthase [Alteromonas sp. SN2] Length = 298 Score = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 90/298 (30%), Positives = 131/298 (43%), Gaps = 15/298 (5%) 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----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + H + R I+VGRLD+NT GLLL TNDG Sbjct: 61 QPVCRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRMGRWIAVGRLDMNTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------TQ 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 --LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 LR+ + + V++ L R R ++ K + Sbjct: 241 NSLRDIVQLPEETQTMVDVRQGKLDHARLSRMRRSVKKHKVRKENGGVKKRVARTPKR 298 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 60/241 (24%), Positives = 103/241 (42%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 253 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEV 312 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + L + T+ R+ + + R+ VGRLD NT G Sbjct: 313 KFHDQAVSIERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACEERIYPVGRLDRNTTG 372 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI + Sbjct: 373 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKSDMEQIAAGIQLDDGEIH-ADAISY 431 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 432 TDDFKKDDVGIEIHSGKNRIVRRIFESLGYKVVKLDRVYFAGLTKKGLRRGEWRYLSEAE 491 Query: 241 L 241 + Sbjct: 492 V 492 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 101/237 (42%), Gaps = 7/237 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V +D +G+ + G ++ V + Sbjct: 121 ITSPRHHCEKTYLVTLEQPLDPQTAEQFAQGVQLHGEKDLTKPARLEAL----DEHQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 + EG+ ++K++F +V L R G L L G R +S + L P Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVALHRERIGAIALDAALAPGEYRALSDDEVASVLAP 233 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 65/229 (28%), Positives = 101/229 (44%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SRREV+ ++ + VNGI+ +N+ D I L + Sbjct: 1 MRLDKFLTECGLGSRREVKEILNTGEITVNGIIANNPQMNIKENSDEIFYQERKLEYKKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L K + D I + VGRLD +TEGLLLLTNDG L Sbjct: 61 RYYILNKKAGYITAVEDSRDQTVMELLPDWVIKKDLAPVGRLDKDTEGLLLLTNDGALNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y + +D+L L+ G+ I G + +A + + Sbjct: 121 KLLSPKNHVEKTYYAELEKDISEDELVKLRNGVDIGGYITMPAKADRI----DSAKIHLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E KV L RIS+G +L L G+ +EV+ + + Sbjct: 177 IKEGKFHQVKKMLEAVGNKVIFLKRISFGKLKLDNLELGAVKEVNIEDI 225 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 92/324 (28%), Positives = 138/324 (42%), Gaps = 16/324 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +I Q RV V+G + V T I +DG L Sbjct: 27 GEKLQKVLARAGHGSRREIETIIQQGRVSVDGKI-STLGDRVEVTQATKIRLDGHLLSIT 85 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + 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-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L+ Sbjct: 206 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD---LKAT 262 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L E S + +DR + + + + + +Q Sbjct: 263 NYLRELVELDSETV----SKLPVEKDRRRVKANQIRRAVKRHTEVAGRQVAGRQGSARKG 318 Query: 305 VHRRNLASNVWMAKGIHSSFLSDS 328 R+N+ S A Sbjct: 319 STRQNVGSAAPAATTNRRGSNKRG 342 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I Q RV+VNG ++ V D ++VDG+ + Sbjct: 118 EQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEVKVDGLTVA 177 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 178 TQSYQFFSLNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 236 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + Q G N Sbjct: 237 ELAHRLTHPKYGVRKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYL 296 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 297 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 349 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 57/228 (25%), Positives = 100/228 (43%), Gaps = 5/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRRE + +I V VNG + V D + V G + ++ Sbjct: 1 MRLNRFIAFNSNYSRREADELIFNGHVTVNGKPVLVPGYEVKDDDKVSVLGKVISRSNFL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + Y L + GR + D +++ GRLD ++EGL+ +NDG + Sbjct: 61 YVKFYKPRGFLTSYGDP-YGRKNLDDFEFFKKTKLAYSGRLDNDSEGLIFFSNDGSIIHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 ++ P + Y V + ++ ++ G+ I G + +K V + Sbjct: 120 MQTPKYDVEKEYIVYTKRPLGDEEKLAMENGLEIDGYKFKKCS----VEKIGRNKYRVII 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EGK R+I+ +F+ FN +V RL+RI LG L G + ++K + Sbjct: 176 TEGKKRQIRNMFKHFNIEVERLVRIRIANITLGELKPGDFKFLTKDEI 223 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 84/304 (27%), Positives = 136/304 (44%), Gaps = 10/304 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + + +++ K++AR+G SRRE+E + + R+ V+G + + V I +DG Sbjct: 9 MSAKPQKTEKLQKILARSGHGSRREIETFLKEGRISVDGKIATLGDRIEVKPATKIRLDG 68 Query: 65 VPLRKAERTRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 L E + Y L T H + + +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 KI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + LRE +G E +V ++ + R K+ SS+ Sbjct: 249 QQTNYLRELVGLEAETETKVAVERDQRRIKANQIRRAVKRHSQVAARPASKRQSSRPTAK 308 Query: 296 SKQK 299 + + Sbjct: 309 RRTR 312 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 79/245 (32%), Positives = 121/245 (49%), Gaps = 7/245 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K IA AG+ SRR+ + +I Q V+VNG +++ V+ D IEV G L Sbjct: 6 VRLNKAIAGAGVCSRRQADDLIQQGVVRVNGEVVDTPGARVVPGRDRIEVRGQLLELDAA 65 Query: 73 TR---LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRLDINTEGLLLLTND 127 + HKP+ +V+T DP GR TV LP R+ VGRLD +EGLL+LT+D Sbjct: 66 PAAFTYVMLHKPVQVVSTVRDPQGRPTVLGILPPDLRGGRLYPVGRLDYFSEGLLILTDD 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN 186 G L L P +VY V+ G V + L +++G+ + +G + V L Sbjct: 126 GDLTNRLTHPRYHLPKVYMVKVRGHVTESTLAPMRQGMTLAEGEKLAPVDVRLLQSDRQA 185 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + L +G NR+I+++ V L R+ GP +LG L G+ R ++ + Sbjct: 186 SLFEMTLHQGVNRQIRRMCRDLGLTVLLLRRVRQGPLELGELPKGAARRLTPHEVAALRR 245 Query: 247 PHLLE 251 LE Sbjct: 246 AAGLE 250 >gi|218663826|ref|ZP_03519756.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli IE4771] Length = 267 Score = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 71/266 (26%), Positives = 119/266 (44%), Gaps = 12/266 (4%) Query: 1 MKDKNIVQENFTPQRVS-----------KVIARAGIASRREVERMIAQQRVKVNGILLER 49 M+D+ Q+ +++ + +++ G SR + ER+IA+ RV V+G + Sbjct: 1 MRDRRPPQKKRERPKLTADAAGKRVTLPRALSKLGYCSRTQAERLIAEGRVSVDGRTVND 60 Query: 50 AAVNVMS-TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + V T I VDG+ + + L L + T H + + Sbjct: 61 PSAWVDLVTAEIRVDGLVIAAEAKIYLMLNKPRGLVTTRHDPEGRPTVYDCLKDFEIPHL 120 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 VGRLD +EGLLL TND A++L P T + Y V+ +D + + + GI Sbjct: 121 SPVGRLDKASEGLLLFTNDTEFAQILLDPITHVTKTYHVQIDRIMDDEAIAAMTSGIRHD 180 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G V Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L Sbjct: 181 GELLTATAVRRLRQGDRNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGEL 240 Query: 229 LAGSTREVSKKILREQLGPHLLEEAQ 254 G+ R ++ L+ E A+ Sbjct: 241 PKGAVRALTAAELQALHRSAGTERAR 266 >gi|312863475|ref|ZP_07723713.1| pseudouridylate synthase [Streptococcus vestibularis F0396] gi|311101011|gb|EFQ59216.1| pseudouridylate synthase [Streptococcus vestibularis F0396] Length = 239 Score = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 64/239 (26%), Positives = 108/239 (45%), Gaps = 6/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+++I ++V V+GIL +R +NV ++ I V G L Sbjct: 1 MRLDKLLGQAGYGSRNQVKKLIRSRQVYVDGILADRDNLNVDASLQTITVSGKELEHTPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD NTEGL+L+TN+G L Sbjct: 61 VYYLMNKPAGVVSARSDKEHQTVIDLIKPEDQRDGLYPVGRLDRNTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+V + Q+ + + + + Sbjct: 121 AMLHPGYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTICKSAQLEILSSASDKSCARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQLG 246 + EGK ++KK+F + KV L RIS+G F+L + GS R +++ LR LG Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGAFKLDEGIAVGSYRVLTEAEKVILRTYLG 239 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 99/229 (43%), Gaps = 4/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + + SR EV+ ++ RV VNG + A + + D I DG L E Sbjct: 1 MRLDKFLVACAVGSRTEVKNLLKAGRVTVNGKKEKSAKLQINEERDEIRFDGQVLEYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + + V VGRLDI+T GLLLLTNDG LA Sbjct: 61 VYYMMNKPQGVISATEDSKHRTVLDLLDDVARSKEVFPVGRLDIDTHGLLLLTNDGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + Q+ + +GI ++ ++ L + + + V Sbjct: 121 ALLSPKRHVDKTYLAQVEGIMTQEDVETFAEGIPLKDFTCQPARLELVSVDPEKNQSLVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSK 238 V + EGK ++K++ + +V L R++ G L L G R ++K Sbjct: 181 VTIAEGKFHQVKRMVAYCGKEVVDLQRLTMGALILDEKLKRGEWRRLTK 229 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R+E +++ + V+VNG +++ A+ V +E G L Sbjct: 1 MRLDKFLCTTLGITRKEAGKILKDKLVEVNGEIVKNGALKVTDDCDVEFSGRTLSLQGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D + R+ GRLD +T GL+L+T+DG + Sbjct: 61 YYMLNKPSGYVCSH-VDDFNPTVFILFDEVAPERMHVAGRLDGDTTGLVLVTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V +++ + ++G+ ++G ++ + +K + + Sbjct: 120 ITSPRHVCEKTYYVETADPIEESYIQAFEEGVQLRGEKELTLPAKLEILEEKVA----LL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G +L L G R +++ + Sbjct: 176 TITEGKYHQVKRMFAAMGNKVELLHRERVGAIELDDDLEPGEYRPLTEDEI 226 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 120/234 (51%), Gaps = 5/234 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++K+IA +G SRRE +R+I V VNG+++ A DH+ V+G L Sbjct: 5 KKELIRLNKLIASSGKYSRREADRLIQNGFVLVNGVVITNPAEKFSINDHVVVNGEKLDF 64 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + Y ++T++ + ++ D +R+ GRLD +EGL++ TNDG Sbjct: 65 NKKVYIKFYKPIK-VLTSYDKYRDKKSLLDIEFFKKNRLGYSGRLDYESEGLIIFTNDGD 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L ++ PS++ + Y V +++ +L L++ G+ + I Y ++ N Sbjct: 124 LIYKIQHPSSRIEKEYIVAVDKILEEKELELIRAGLKTKEIKYLPCKINYL----GNYTY 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L EGK REI+ +F+FF V +L R+ GP ++ L G + +SKK + E Sbjct: 180 NIVLYEGKKREIRNIFKFFKINVKKLKRVRIGPIRIVDLKPGEYKHLSKKEIEE 233 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 86/288 (29%), Positives = 128/288 (44%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V + I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEITPRLKIRIDGHLISVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNN 289 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 107/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + GI SR+EV+++I+ + VNG+ A N+ D IE + L + Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNNEITVNGMSNISAKDNIDENSDIIEYNEEKLEYKKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKSGYITATEDFKENTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY V + + + L++G+ I +V +K S+ + + Sbjct: 121 KLLSPKNHVDKVYYVEIKNNISDEDIFKLEQGVDIGNYISQPAKV----EKISDNKIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK +IKK+ E N KV L R+S+G +L L G REV+ + + Sbjct: 177 IKEGKFHQIKKMLEAINNKVCYLKRVSFGRLKLNDLALGEVREVNLEDI 225 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 76/275 (27%), Positives = 121/275 (44%), Gaps = 9/275 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + + +R+ KV+A+AGI SRRE+E I+ RV VNG + + V D ++VDG + Sbjct: 6 ETSQPGERLQKVLAQAGIGSRREMEEWISAGRVTVNGTVAT-LGMRVAEGDKVQVDGRNV 64 Query: 68 RKA------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 R L + + +V+ + S + I++GRLD NT GL Sbjct: 65 RLQLQTEQTMPRILLYHKQEGEIVSRDDPGERASVFDALPKLRGQKWIAIGRLDFNTSGL 124 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLD 180 L+ T G LA L P + R Y VR GQ+ + + + K I + Q++ + Sbjct: 125 LIFTTSGELANRLMHPRFEVEREYAVRVQGQMTPEHMRQVTKEGIELDDGVVRFEQLSDE 184 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W + L+EG+NR +++ FE V+RL+R+ +G L + G E+ Sbjct: 185 GGEGFNHWYRLVLKEGRNRVVRRTFEALGLPVSRLMRVRFGIIGLPPRIKRGMMAELGDN 244 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI 274 +R L L L R R Sbjct: 245 EVRSILEWVGLPVGVARQVVDDGRRNKLQRARIRK 279 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 49/244 (20%), Positives = 106/244 (43%), Gaps = 7/244 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ SR++V R + ++RV ++ ++ AV ++ + D L+ Sbjct: 1 MRLDRFLSHQLGKSRKQVTRALKEKRVILDSKVITNGAVKLLPEQKVLFDQQLLKYPITG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G + + DP ++ + + GRLDI+ GL+L+T+DG + Sbjct: 61 RYFMLNKPKGYLCSTRDPHHPVVNDFFDETVSGELHAAGRLDIDATGLVLMTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 L P + Y V + D G+ ++ Q+ + T + + Sbjct: 121 LTSPKYHCKKTYWVTLASPISHDPTQNFLDGLRLKNEKTLTRPAQLKIVTPQSM----EL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLL 250 + EG+ ++K++F V L R+ G +L L+ G R ++K+ + + + Sbjct: 177 TITEGRYHQVKRMFAAIGHHVTELHRMQIGSIKLDEALMPGQYRLLTKQEINSIISFEHM 236 Query: 251 EEAQ 254 ++ Sbjct: 237 DQRS 240 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 65/237 (27%), Positives = 112/237 (47%), Gaps = 5/237 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A + +R EV++MI + V V+G+++++ V + G + + Sbjct: 7 RLDKYLADMQVGTRSEVKQMIRKGLVTVDGLIVKKPEEKVDCEKQVVVCSGAIVSYHQYE 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +V+ DP ++ + + GRLD +TEGLLL+TNDG LA Sbjct: 67 YYMLNKPAG-VVSATEDPRDKTVIDLIEDRRRKDLFPAGRLDKDTEGLLLITNDGALAHD 125 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y + G V ++ + L KGI I + +T+ G + +T+ Sbjct: 126 LLSPKKHVDKKYYAKIEGTVTEEDVELFGKGIDIGEKRVTLPAVLTIL-SSGEESEITLT 184 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 +REGK ++K++FE KV L R+S G L LL G R+++++ L + Sbjct: 185 IREGKFHQVKRMFEAVGKKVTYLKRLSMGSLVLDEKLLPGEYRKLTEQELTQLKQMR 241 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 91/284 (32%), Positives = 132/284 (46%), Gaps = 10/284 (3%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVD 63 + +++ K++ARAG SRRE+E +IA RV V+G + V+V +T I +D Sbjct: 66 QDKKTKIVGEKLQKILARAGQGSRRELEEVIAAGRVSVDGKIASLGDRVHVNATTKIRID 125 Query: 64 GVPL-----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 G + +K L Y L T + SR I+VGRLDINT Sbjct: 126 GTLINLVTAQKEICRVLMYYKPEGELCTRADPEGRATVFDRLPRLSGSRWIAVGRLDINT 185 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL T DG LA L PS + R Y VR GQVD L L+KG+ ++ Q+ Sbjct: 186 SGLLLFTTDGDLANRLMHPSHEVEREYSVRVFGQVDDAMLQRLRKGVQLEDGPANFKQIK 245 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ Sbjct: 246 AVGGTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMG 305 Query: 238 KKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 + LR+ +G E +V++ + + Sbjct: 306 LEQVNYLRDLVGLPAETETKVDVTKNRRRTNIRQIRKAVKQHSK 349 >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 = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 85/236 (36%), Positives = 128/236 (54%), Gaps = 4/236 (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 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 125 E +++KP G+V+T DP+GR + D L + ++ 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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ + Sbjct: 336 HVLIEVVLHSGKNRIVRRLFDAVGFPVLRLVRVKVGPIGLGDQRQGSIRNLGKQEV 391 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+ ++ + A + T +E + Sbjct: 1 MRLDKFLCDALGTTRKESTQLLKSGEVTVDDVVQKSGAFKLKETSRVEWQEREITLHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + ++ + GRLD++T GLLL+T+DG + Sbjct: 61 YIMMHKPDGVVCSHEDG-FNQTAFTLLDEVNIEDLHFAGRLDVDTTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + D + +GI ++G Q+ + S V + Sbjct: 120 VTSPKHKCEKTYRVWLADPIQADYADQFTQGIELRGERELTLPAQLEVV----SETEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R +++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVIGLHRERIGQITLDEALEPGEYRYLTEDEV 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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 83/321 (25%), Positives = 138/321 (42%), Gaps = 7/321 (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 VDGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 V+G +++ L + +V+ + + ++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 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EV Sbjct: 380 VDGGGEGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEV 439 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 S + +R +G ++ + R ++ + N + Sbjct: 440 SAEDVRTLMGTLGMKVPTASSGGGQDRQGNRRRGPAPVLMGPMSSGFAGEANFQSRGMGI 499 Query: 297 KQKKLATPVHRRNLASNVWMA 317 + A P RR + Sbjct: 500 ENGNRAQPAQRRPSSPRQPDP 520 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 70/255 (27%), Positives = 110/255 (43%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK IA+ G+ SRRE + I Q V VNG V TD I Sbjct: 1 MNSKISSDHTEDTIRLSKRIAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPTDRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T+ + +G ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 86/259 (33%), Positives = 124/259 (47%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >gi|322412052|gb|EFY02960.1| Ribosomal small subunit pseudouridine synthase A [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 243 Score = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ ++ + VN + V + D + G PL Sbjct: 1 MRLDKFLVETGVGSRSQVKSLLKKKAILVNQEVETSPKVQINEHKDVVTYLGKPLTYEAF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T + + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYVLNKPAGFLSATKDRAQATVIDLLDETARQKDVFPVGRLDKDTRGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVT 190 L P + Y + G + + + KGI ++ ++ + + V+ Sbjct: 121 DLLSPKKHVTKEYLAKVAGIMTEADKDDFAKGISLKDYQCLPAKLEVLDKDVSQETCVVS 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S GP +L +L G R ++ + L+ Sbjct: 181 ITIQEGKFHQVKRMVAACGKEVLELQRLSMGPLRLDPSLAEGDFRRLTSEELQ 233 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 88/337 (26%), Positives = 145/337 (43%), Gaps = 14/337 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG+ SRRE+E +IA+ RV VNG ++ V D I +DG P+ + Sbjct: 2 SEKLQKVLARAGLGSRREMEAVIAEGRVSVNGEMVT-LGTRVEEVDRIRLDGNPVSVVKE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + L T ++ P 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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L A + + I + ++ R K S + G ++ Sbjct: 241 ---YLRTLVSLPPETTARSLERKETRIRQGRIRRSLKNNDARQKPTRSGRLGKEIEETTE 297 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + R + + + + + +R+ Sbjct: 298 SRGKSRTKPTGSGIPLHRGKKGPAKQQRGPKAKKRTR 334 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVMLESPVADDTAEQFTKGVQLHNEKDLTKPAVLEVI----TPTEVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 177 TIIEGRYHQVKRMFAAVGNRVVGLHRERIGEIALDPELEPGEYRPLTEEEI 227 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K I+ + SR E +++I + V VN +L+++ V D + +DG L + Sbjct: 1 MRLDKYISSITVYSRAETKKIIKKG-VLVNNVLVKQPDYQVDEENDQVVIDGKSLFYQKH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T D N + VGRLD +TEGL+LLTNDG LA Sbjct: 60 VYIMMNKPGNIISATEDKKDTTVIDILNEKDRLFKPFPVGRLDKDTEGLMLLTNDGELAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y V G++ + + +++ G+V++ + + T + + Sbjct: 120 KLISPKKDVIKKYYVEVDGELKVEHVTIIRDGVVLEDGYKTKCAALEILTSNTEKSRAYI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++ + V L R+S G L L G R ++ L+ Sbjct: 180 SITEGKFHQVKRMMKSLGVNVTYLKRLSIGSLVLDESLKLGEYRYLTDTELK 231 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 82/240 (34%), Positives = 126/240 (52%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL--RKA 70 +R+ K++A+ GIASRRE E MI RV++NG L V D I +DG L ++ Sbjct: 3 ERLQKILAQWGIASRREAEEMIRHSRVQINGKLA-HLGQKVDPQKDAIAIDGKTLSEKQR 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---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|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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 94/230 (40%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R E + ++ + RV VNG + ++ + D + VDG PL + Sbjct: 1 MRLDKYLAETAQCTRSEAKTLLNRGRVTVNGAVCKKGDTQLREGDSVAVDGAPLAYRQFV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + + D + VGRLD + G +LLT+DGG A Sbjct: 61 YLMLNKPEGVVSASTDKRDTTVVDLIGDAYPRRELFPVGRLDKTSTGFVLLTDDGGFAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-DMQVTLDTQKGSNAWVTVG 192 + P + Y V + ++ +G+ + +V T G V Sbjct: 121 ILAPKRHVSKTYTVVIDTPLTEEMRRGFAEGVTLADGTALSPAEVEALTPDGLTVKVR-- 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 LR+G +IK++F + VN L R + G L L G RE+S + + Sbjct: 179 LRQGVYHQIKRMFGVYGAGVNALHRDAIGGLALDPALAPGQWRELSAEEV 228 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W + ++EG+NRE++++FE V+RL+R+++GP L L G Sbjct: 263 RIREQGGEGANKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 323 ELNPAEVANILKWADM 338 >gi|283769551|ref|ZP_06342447.1| pseudouridylate synthase [Bulleidia extructa W1219] gi|283103819|gb|EFC05205.1| pseudouridylate synthase [Bulleidia extructa W1219] Length = 231 Score = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 109/236 (46%), Gaps = 9/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +V+A A + SR +V+ M+ RV VNG + +++ V D I +D L+ A+ Sbjct: 1 MRLDRVLANASVGSRTQVKNMVKNGRVSVNGKIALASSMMVDPNQDVIRIDDEILQYAKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L LY + T D L + + GRLD +TEGLLL+TNDG LA Sbjct: 61 QYLMLYKPAGYISATEGRYDPTVLE---LVPNYKGLFPCGRLDKDTEGLLLMTNDGRLAH 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + Q+ + +++GI + I Y ++ + + T+ Sbjct: 118 NLLSPKKHVEKEYYVEHQLPLSQEDVLCIERGIRYKNITYKGAKLKIL----DDLQCTII 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 L+EGK EIK +F + KV L RI L L G R +S++ + + Sbjct: 174 LQEGKYHEIKNIFLAIDNKVTYLKRIRMKNLILDETLKKGEYRPLSEEEIGDLKQL 229 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 61/250 (24%), Positives = 112/250 (44%), Gaps = 14/250 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ + + SR EV++MI RV V+G + A + + + +DG + Sbjct: 7 EKAMRLDRYLVEMKKGSRSEVKKMIKSGRVSVDGEICREAERKIQPSASEVSLDGTQVGY 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A L +V+ D ++ V + + VGRLDI+TEGLLL+TNDG Sbjct: 67 AAYEYFMLNKPAG-VVSATEDGRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGK 125 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKG---- 184 LA L P + Y R G++ ++ + K+G+ ++ ++ + Sbjct: 126 LAHRLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDGTRTLPARLVIQKASETAED 185 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 S + + + + EGK ++K++FE +V L R+S G +L L G+ R ++ Sbjct: 186 DGKADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLDESLAPGAYRRLT 245 Query: 238 KKILREQLGP 247 ++ + + G Sbjct: 246 EEEISKLQGE 255 >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 = 161 bits (407), Expect = 1e-37, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 99/231 (42%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + +GI++ G Q+ V + Sbjct: 121 ITSPRHHCEKSYLVTLEQPLAPQTAAQFAEGILLNGETDLTKPAQLEAF----DEHHVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R +S + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVGLHRERIGAIALDAALAPGEYRALSDDEV 227 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 57/236 (24%), Positives = 101/236 (42%), Gaps = 6/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ KV+ G+ SR+E+ R+ + +NG ++ A + HIEV G PL + Sbjct: 19 ERLDKVLGHLGVGSRKEIHRLARAGLITINGKIVADAGFKFDPSQAHIEVAGEPLVYQKF 78 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + +T T + + VGRLD +TEGLLLLT DG L Sbjct: 79 FYLLLNKPAGYITSTKDPSGTPITALLPEEFWRNDWMPVGRLDKDTEGLLLLTTDGELLH 138 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y V + + + + ++G + V + Sbjct: 139 RLTHPRWKVTKRYYVELASPATPEDVAVFAAGTLELEGEPLQPAE---LYLGPDPRKVEL 195 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYG-PFQLGTLLAGSTREVSKKILREQLG 246 LREG+ ++K++F +V L R+++G L G++R+++ ++ Sbjct: 196 VLREGRFHQVKRMFAARGNQVTYLKRLAFGPLQLPPNLPPGASRQLTPDEIKALYE 251 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 89/239 (37%), Positives = 140/239 (58%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + +E R+SK +A + SRRE+ERMI R+ +NG +L V TD I++DG Sbjct: 1 MKKELPEKVRISKFLASYNVGSRREIERMIENGRIYLNGEILTTPVHFVNKTDSIKLDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L + +++ ++KP + + + D R V+D LP F I GRLD+N+EGLL++T Sbjct: 61 LLLFKKFKQIYKFYKPTDCICSKNKQDERKIVYDLLPKRFKNFIFAGRLDVNSEGLLIVT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG +AR LELP +++R YRVR +G ++ K++ L KG I GI Y L + Sbjct: 121 NDGEVARSLELPKNKFVRKYRVRVYGVCEEQKIDNLSKGRKIDGIQYRPFNYKLFNKDKK 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 N W+ + L+EGKNREI+++ + +VN+L R+ +GPF++ L G + K +R+ Sbjct: 181 NFWIEMELKEGKNREIRELMRSIDLRVNKLTRLEFGPFKISNLKPGEIKTAEPKEIRQY 239 >gi|167894529|ref|ZP_02481931.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 7894] Length = 395 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 76/274 (27%), Positives = 124/274 (45%), Gaps = 6/274 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 90 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 148 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ + Sbjct: 269 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIPLPRGLKRGRWEELDE 328 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 +R + L+ + + P Sbjct: 329 AQVRRLMSTVGLKAPTEDKGGKRGGPAERRQPDP 362 >gi|167845952|ref|ZP_02471460.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei B7210] Length = 384 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 76/303 (25%), Positives = 131/303 (43%), Gaps = 7/303 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRRE+E +I RV VNG +M TD + ++ Sbjct: 84 KRVLSPDDDAPKLHKVLAEAGMGSRREMEELIIAGRVSVNGEPA-HIGQRIMPTDQVRIN 142 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 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+ + R + + + + + ++ Sbjct: 323 AQVRRLMSTVGLKAPTEDKGG-KRGGPAERRQPDPMQTSMGFINREPVLTTHGQLDQPRR 381 Query: 299 KKL 301 + Sbjct: 382 GRR 384 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 61/254 (24%), Positives = 112/254 (44%), Gaps = 13/254 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ AG+ SRRE +R+I V V+G + V + V ++ + Sbjct: 2 IRLNKYLSEAGVCSRREADRLIESGVVTVDGKNA-VPGMKVEDGQEVCVGKKRIKSKTKK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+V T + + RV GRLD ++EGLL++TNDG L Sbjct: 61 TVLAVYKPAGIVCTEDKRE--KKNIIRFLNYPLRVTYAGRLDKDSEGLLIMTNDGDLING 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC------YGDMQVTLDTQKGSNA 187 + + Y+V + ++ + + + +G+ I+ +V +K Sbjct: 119 MMRARFSHEKEYKVTVNKEITPEFIEKMSRGVHIRDREKNLDAVTRPCKV----RKNGKY 174 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 ++ L +G NR+I+++ E +KV L RI +LG L G R ++++ L+E G Sbjct: 175 TFSIILTQGLNRQIRRMCEALGYKVTTLKRIRIMNVELGNLKPGEVRGLTEQELKELYGT 234 Query: 248 HLLEEAQVNLDAPI 261 E + Sbjct: 235 VKERENERTGQPSE 248 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 113/239 (47%), Gaps = 1/239 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K + R++K IA +GI SRRE + +I Q V+VNG ++ V TD + Sbjct: 150 NKIEKDVHKDSIRLNKYIANSGICSRREADELITQGLVEVNGKVVTEMGYQVQKTDRVVF 209 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG + + + L + TT D ++ + + R+ VGRLD +T G++ Sbjct: 210 DGQSITPEKPVYVLLNKPKGYISTTKDDKARKTVMDLVANASPYRLFPVGRLDRSTTGVI 269 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG + + L PS ++Y V ++ + L L+ +GI + Q++ Sbjct: 270 LLTNDGHMTKKLTHPSFDAKKIYHVTLDKKLTGEDLRLIAEGIRLDEGVAVVDQISYIEG 329 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 K N V + + G NR I+++F+ ++V L R+ + + G R +++ + Sbjct: 330 KPKN-EVGIEIHIGWNRVIRRIFQRLGYEVEALDRVMFAGLTKKNIKRGHWRILTELEV 387 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 77/238 (32%), Positives = 118/238 (49%), Gaps = 4/238 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 ++ R+ KV+A+AG+ASRR E MI + RV+VNG ++ + V V D I VDGV Sbjct: 72 KKRGDGIRLQKVLAQAGVASRRHSEVMIDEGRVEVNGKIVRQQGVRVDPNVDIIRVDGVR 131 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLL 123 + E + + +KP G+ TT D GR V D + R+ VGRLD +TEGLLL Sbjct: 132 VNVNEDQQYFALNKPRGVHTTMEDELGRPCVGDFVADRVAAGQRLFHVGRLDADTEGLLL 191 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG L+ L P + Y G+ + LKKGI ++ + Sbjct: 192 LTNDGELSNRLMHPKYGVEKTYLATVLGEAKPALVRELKKGIELEDGVAKADYAQIVDTH 251 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + EG+ ++++ + + V RL+R QLG L G+ R ++ L Sbjct: 252 QGQSLIRLVIHEGRKHVVRRMLKEAGYPVQRLVRTKIHTVQLGELKPGAMRALNDSEL 309 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 73/236 (30%), Positives = 118/236 (50%), Gaps = 1/236 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 + R+ KV+A AG+ SRR E+MI RV+V+G ++ + T + VD +P+ + Sbjct: 32 SGVRLQKVMADAGLGSRRACEQMILDGRVEVDGHIVIELGTRIDPTKQRLVVDSMPIETS 91 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP +V++ DP+GR + + + R+ VGRLD TEGLLLLTNDG + Sbjct: 92 TEKVYFALNKPAKVVSSMGDPEGRRNLDEFVRDRTERLFHVGRLDYETEGLLLLTNDGDM 151 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L P + + Y + G V +D L++GI + L + A V Sbjct: 152 ANRLTHPRYEIPKKYLAQVKGPVAKDVGARLREGIELDDGISRVDSFKLIDSQPGVALVE 211 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 V L GKNR ++++ V RL+R +GP +L G R++ + + E + Sbjct: 212 VILHSGKNRIVRRLLSAVGNPVLRLVRTEFGPIELAEQRQGKMRQLRPEEVSELMK 267 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 63/235 (26%), Positives = 111/235 (47%), Gaps = 7/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G +R +++ M+ + RV+VNG +++ + TD + VD + A Sbjct: 1 MRLDKFLGEMGYGTRTQIKEMVRKGRVQVNGQVIKAPESKLAPETDQVMVDQSVVGYARM 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +KP +V+ +D + V ++ + VGRLD++TEGLL++TNDG +A Sbjct: 61 EYYM-LNKPKDVVSATTDSRYPTVVGLIGDALRKDLFPVGRLDVDTEGLLIITNDGEMAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN---AW 188 L P +VY R G++ + +GIV+ + + Sbjct: 120 NLLSPKKHVDKVYMARLSGRLPVNAKERFSEGIVLDDGVKTLPALLEYEGCGNGTEGLTE 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + +REGK ++K++FE V L R+S GP L L G R ++++ +R Sbjct: 180 VLLTIREGKFHQVKRMFEALGCHVEYLKRMSMGPLGLDPELEPGQYRPLTEEEIR 234 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 68/227 (29%), Positives = 109/227 (48%), Gaps = 1/227 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 +++ +++ G+ SR + E +IA+ RV+V G ++ AA+ V D I VD P+ + Sbjct: 19 LNRALSKLGLCSRTQAEVLIAEGRVRVGGKVVRDAALRVDLDRDRIVVDDRPVVAERKVY 78 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + V VGRLD +EGLLL+TND A L Sbjct: 79 LMLNKPRGLVTTRDDPQQRDTVYACLEGLDLPFVSPVGRLDKASEGLLLMTNDTRFANRL 138 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P++ + Y V+ D L L+ G+++ G + L G AW+ + L Sbjct: 139 MDPASHLPKTYHVQIGTVPDAPMLETLRAGVIVDGEVLTANAIELLRSGGRTAWLEIVLD 198 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR I+++ +V RLIRI+ G LG L G+ R ++ + L Sbjct: 199 EGRNRHIRRLLAAHGVEVLRLIRIAIGRLPLGDLAKGTARHLTAEEL 245 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 62/244 (25%), Positives = 102/244 (41%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK ++ G+ SRRE + I + V V+G + V I + Sbjct: 2 EKIRLSKRMSELGLCSRREADSYIEKGWVDVDGETVSLLGTKVYPNQQITLRTAAQVVQH 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y L+ + + S F + GRLDI Sbjct: 62 ERVTILINKPVGYVSGQAEHGYKPASALLDEATHWKDDPSPIKFHRSQFIGLAPAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ L ++ + Y VR G+++ L LL +G+ + G + Sbjct: 122 DSQGLLILTQDGRVAKQLIGEDSKVDKEYLVRVQGKLESSGLALLCQGLKLDGEYLKPAK 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V+ + + LREGK R+I+++ E V L RI G +LG L AG R + Sbjct: 182 VSWQNEDQ----LRFVLREGKKRQIRRMCELVGLTVTGLKRIRIGKIKLGLLPAGQWRYL 237 Query: 237 SKKI 240 + Sbjct: 238 GEHE 241 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 83/300 (27%), Positives = 124/300 (41%), Gaps = 7/300 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI R+ V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG QL L G E+ + Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIQLPKGLPRGGWMEMKLTDVNYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L V+ + ++ + +++ G + Sbjct: 242 ELVQLTPETVSKLPVERERRRVKANQIRRAVKRHGGHGGQVGGNNRPAGSRRNAPKRNGG 301 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 69/256 (26%), Positives = 107/256 (41%), Gaps = 8/256 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + +R+ K +ARAGIASRR E MI RV VNG++ V D + VDG + Sbjct: 2 SGERLQKRLARAGIASRRAAEEMITAGRVTVNGVVA-HLGQTVTDADDVRVDGSLVDSTA 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + T + + + + VGRLD ++EGLLLLT DG L Sbjct: 61 VPAVTYALYKPRGYVTTARDEYGRRNVLDAMPEIPGLHPVGRLDRDSEGLLLLTTDGQLT 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKL--NLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P + YR G D + + L G+ ++ + + Sbjct: 121 LTMTHPRYGHEKAYRAWTEGPHDPTQGELDTLVSGVELEDGPARAVSASPAYGGAF---- 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EG+NR+++++ E V+RL+R G LG + G RE+++K L E + P Sbjct: 177 -VVLGEGRNRQVRRMLEAVGHPVSRLLRYRVGGLWLGDMEVGEYRELTRKDLDELVNPAS 235 Query: 250 LEEAQVNLDAPIYSSE 265 + A Sbjct: 236 IPRASWQRSWEHAQQR 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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 73/292 (25%), Positives = 126/292 (43%), Gaps = 7/292 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+ARAG SRR+VE I + +V NG + D +++D L Sbjct: 3 ERIQKVLARAGYGSRRQVETWIKEGKVSCNGETAT-LGDQISEGDRLKLDNKLLSPKRLW 61 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + T R+ 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-GTLLAGSTREVSKKILREQLGP 247 V ++EG+NRE+++++E +V+RL+R+ YGP + L G +V L Sbjct: 182 YHVVIQEGRNREVRRLWESQGVQVSRLMRVRYGPIIIPNNLRMGHWTKVEGADLEHLYEQ 241 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 ++ Q + S K + +++ + + Sbjct: 242 AGMKPQQTEKTGKRQQKPVRNQATAKKESPYRGKKQTQDKATGKRSPRIRGR 293 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 147/328 (44%), Positives = 194/328 (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 RNLASNVWMAKGIHSSFLSDSGQREENH 335 A N A G G + Sbjct: 648 EARARNEAEANGYGPPRRPKRGYHGKRD 675 >gi|315506751|ref|YP_004085638.1| pseudouridine synthase [Micromonospora sp. L5] gi|315413370|gb|ADU11487.1| pseudouridine synthase [Micromonospora sp. L5] Length = 256 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 77/230 (33%), Positives = 117/230 (50%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ SRR E +I ++RV VNG + + D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQ-LGDKADPARDVIVVDGERLQADVR 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 +KP G+VTT +D GR+ + D + + + VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYVAMNKPRGVVTTMADEKGRTELADFIGARLEQRVYHVGRLDADSEGLLLLTNDGTLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + L+ Y G + ++ L G+ ++ + G A V + Sbjct: 138 HKLMHPSYEVLKTYLAEVAGPIPRNLSKRLTAGVELEDGPVKVDGFKVVDTLGKTAQVEL 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ ++++ V+RLIR S GP +LG L G R ++ + Sbjct: 198 TLHEGRKHIVRRLMAEVGHPVSRLIRTSIGPIKLGDLRTGRMRRLTNAEV 247 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 77/240 (32%), Positives = 123/240 (51%), Gaps = 4/240 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 + ++ +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V + D I VDG Sbjct: 55 VDEDKPKGERLQKVLAKAGVASRRHAEILIDAGRVEVNGKIISKQGVKVNPSVDVIRVDG 114 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGL 121 V + E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGL Sbjct: 115 VRVNVNEEHEYFVLNKPRGMQSTMSDDLGRPCVGDVVSEKVAAGQRLFHVGRLDADTEGL 174 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LTNDG LA L P + + Y G+ D+ + LK+GI ++ + Sbjct: 175 LILTNDGELANRLMHPKYEVTKTYLATVLGEADRKLVRQLKEGIELEDGLAKADFAQVVD 234 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L EG+ ++++ + + V RL+R QLG + G R ++ L Sbjct: 235 TNQGYSLVRLELHEGRKHIVRRMLKEAGFPVQRLVRTKLHTVQLGDMKPGGLRALNSSEL 294 >gi|152981336|ref|YP_001353751.1| pseudouridylate synthase [Janthinobacterium sp. Marseille] gi|151281413|gb|ABR89823.1| pseudouridylate synthase [Janthinobacterium sp. Marseille] Length = 248 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 102/249 (40%), Gaps = 23/249 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P R+SK ++ G+ SRRE + IA+ V+V+G ++ V+ T + V+ Sbjct: 2 NEPLRLSKRMSELGLCSRREADEWIARGWVRVDGKVVSELGSKVLPTQRVTVERQAAAEQ 61 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + LV + P+ ++ GRLD Sbjct: 62 SKRVTVLINKPMGYVSGQAEDGYKPAVALVNASTRWSEDQAATQFHPTQLRSLVPAGRLD 121 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQGIC 171 I++ GLL+LT DG +A+ L T + Y VR 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 STREVSKKI 240 R + + Sbjct: 238 QWRYLREDE 246 >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: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QSKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLQN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 94/231 (40%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + V +G +++ ++ V + I +DG + Sbjct: 1 MRLDKFICESTELTRSFAKKALHRGDVTCDGEVVKSSSFKVKAGQIICLDGKVISVV-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP + D + + + GRLDI+T GL+L+T DG + Sbjct: 60 RFLMLNKPADTICATFDIVHPTVIDLLDIEKADTLHIAGRLDIDTTGLVLITTDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V ++D + +G+ + + + + + + Sbjct: 120 ITSPKKDCGKCYLVTLTDELDASLVETFAQGVELRNEDGLTKPAVLEII----DSHHARL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV L R S G L L G R ++ + + Sbjct: 176 TITEGKYHQVKRMFAAVGNKVVGLHRESVGKIVLDDDLAPGEWRFLTDEEI 226 >gi|257465549|ref|ZP_05629920.1| pseudouridine synthase [Actinobacillus minor 202] gi|257451209|gb|EEV25252.1| pseudouridine synthase [Actinobacillus minor 202] Length = 340 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 90/289 (31%), Positives = 131/289 (45%), Gaps = 10/289 (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 GVPLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 G + L Y L T + +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 KKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 + LRE +G E +V++ + + Sbjct: 292 LEQVNYLRELVGLPAETETKVDVTRNRRRTNVRQIRKAVKQHAKYRSKA 340 >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 = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 74/270 (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 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGL 121 V + + L +KP +TT D GR TV D + + + VGRLD NT G+ Sbjct: 61 VRVVPQTQALYILMNKPHDTITTCDDERGRRTVLDLINLPPEQKNGLFPVGRLDRNTTGV 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLTNDG LA L P + ++Y R V ++ L++G+ ++ +QV ++ Sbjct: 121 LLLTNDGELANRLMHPRYRVEKIYVARTARPVKPEEAEQLRRGVQLEDGPARAVQVAVNP 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + EG+NR+++++ E +V +L R Y + G R ++ + Sbjct: 181 ADP--HEIALMIYEGRNRQVRRMLEAIGHEVVQLKRTHYAGLTTKGVRPGKWRRLTDAEV 238 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 R L+ + PI + R Sbjct: 239 RRLYRLAGLKPPKTFKTMPIGHGDANAVKR 268 >gi|148828349|ref|YP_001293102.1| methyltransferase [Haemophilus influenzae PittGG] gi|148719591|gb|ABR00719.1| predicted methyltransferase [Haemophilus influenzae PittGG] Length = 357 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 LLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLARLRKGVQLEDGSANFKEIKFAG 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 82/236 (34%), Positives = 127/236 (53%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLR 68 + R+ KV+A+AG+ASRR E MI + RV+V+G++ + V T I VDG+ ++ Sbjct: 160 DVDGVRLQKVMAQAGVASRRVCEEMILEGRVEVDGVVTTELGMRVDPTSAVIHVDGIRIQ 219 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 125 E +++KP G+V+T DP+GR + D L + ++ 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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V L GKNR ++++F+ + V RL+R+ GP LG GS R + ++ + Sbjct: 340 HVLIEVVLHSGKNRIVRRMFDAVGFPVERLVRVKVGPIGLGDQRQGSIRNLGRQEV 395 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 80/239 (33%), Positives = 116/239 (48%), Gaps = 11/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++ GIASRR E MI RV VNG + D + VDG ++ R Sbjct: 3 ERIQKLLSQWGIASRRHAEEMILAGRVSVNGKVA-NLGDKADPQQDFLSVDGKQIKADNR 61 Query: 73 TR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTND 127 R L +KP +++T DP GR TV D LP R VGRLD N+ G LLLTND Sbjct: 62 PRDIYLLVNKPRDVLSTCDDPRGRKTVLDLLPQDLQRGKGLHPVGRLDRNSTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y V G + L + G+++ G + + ++ Sbjct: 122 GELTLRLTHPRYHLPKTYDVWLEGNPSDEDLEKWRSGMMLDGKKTLPATLEVISENKDQI 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT----LLAGSTREVSKKILR 242 + V L EG+NR+I+++ E V +L R + GP QL T L +G R +S +R Sbjct: 182 HLLVTLTEGRNRQIRRLAEELGLTVLKLHRRTIGPLQLHTRGKVLGSGQFRFLSPAEIR 240 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 89/286 (31%), Positives = 129/286 (45%), Gaps = 7/286 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----V 65 P R+ K++A AG+ SRR++E I++ RV+VNG L + D I VDG Sbjct: 15 DEPVRLQKLLAEAGLGSRRQIEGWISEGRVRVNGQLAK-LGDQATRADRIRVDGRDVTLK 73 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P R +E + + LVT + + 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-TLLAGSTREVSKKILREQ 244 N W V LREG+NRE+++++E V+RLIRI YG +LG L G+ R ++ E Sbjct: 194 NHWYNVVLREGRNREVRRLWEAAGCTVSRLIRIRYGNVELGRRLFPGNWRPLTDAERAEL 253 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 + L + R + + + S Sbjct: 254 MALAGLRVLERPRLRRPAPGAAKPRRPKPDDGSSSGEGLKWGRRSR 299 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 59/241 (24%), Positives = 104/241 (43%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 246 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRGDEV 305 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + L + T+ R+ + + R+ VGRLD NT G Sbjct: 306 KFHDQTVSIERKIYVLLNKPKDTVTTSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTG 365 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI + Sbjct: 366 VLLLTNDGDLASKLTHPKYLKKKIYHVHLDKNLTKADMEQIAAGIQLDDGEIH-ADAISY 424 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 425 TDDFKKDDVGIEIHSGKNRIVRRIFESLGYKVMKLDRVYFAGLTKKGLRRGEWRYLTEQE 484 Query: 241 L 241 + Sbjct: 485 V 485 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 82/239 (34%), Positives = 127/239 (53%), Gaps = 10/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K +A AG+ +RR+VE +I Q RV VNG ++E AV V D + VDG +R +R Sbjct: 1 MRLNKFLAYAGLGARRKVEELIKQGRVTVNGEVVENPAVEVDPKKDEVRVDGERVRLPKR 60 Query: 73 TRLWLYHKPIGLVT--THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++KP G++T D R V D R+ VGRLD NTEGLLL+TNDG L Sbjct: 61 FIYLAFNKPQGVLTAMEREPGDKRPIVADYFRKYPVRLFPVGRLDYNTEGLLLMTNDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-------MQVTLDTQK 183 A L P + Y + G+V ++ +KKG + +++ ++ Sbjct: 121 AERLAHPRYHIPKTYIAKVKGRVTPAEIERMKKGAKLVDDKGKPFFAKPIDIKLLKPSRT 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G N +V + GKNR +++ F+ F+ V +L RI+ GP +LG L G RE++ + ++ Sbjct: 181 GRNTYVQISFDIGKNRVVRRFFDRFDHGVLKLKRIAIGPLKLGNLPKGMYRELTPEEVK 239 >gi|330685516|gb|EGG97168.1| putative 16S pseudouridylate 516 synthase [Staphylococcus epidermidis VCU121] Length = 230 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A GI +R EV++ + + VKVN + + + D I V+G + Sbjct: 1 MRLDKFLANMGIGTRNEVKQSLKKGYVKVNDKVNKSPKTQINPDEDIITVNGEKIIYI-D 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +V+ D ++ + + VGRLD +TEGLLL+TNDG Sbjct: 60 KVYIMLNKPSDVVSATEDDKHQTVIDLIPEYKHLGIFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P+ + Y V V Q + K+G+ + Q+ + + S V Sbjct: 120 NLMSPNKHVPKTYEVVSKNDVTQSDVERFKEGLELSDGLLKPAQLEIIENRRS----RVT 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F +V +L RI +L +L G R ++++ + Sbjct: 176 IYEGKYHQVKRMFHEIENEVLQLKRIKIANLELDTSLKLGEFRLLTEEDFK 226 >gi|311694421|gb|ADP97294.1| RNA-binding S4 domain protein [marine bacterium HP15] Length = 327 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 88/308 (28%), Positives = 128/308 (41%), Gaps = 8/308 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 P+R+ K++ARAGI SRRE+E + R+ VNG + D E+DG L + Sbjct: 22 PERIQKLLARAGIGSRREIEGWMEAGRLLVNGQPVA-PGQKATVEDRFELDGKRLEVSGA 80 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + T + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RL R+ YGP L L G E+ ++ + + L Sbjct: 201 WFHVTLLEGRNREVRRLWESQGVRVSRLKRVRYGPIFLPSRLTVGKWEELDQRAV-DTLS 259 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + EA R R K S + P Sbjct: 260 RTVGLEAVEIPQKTPNEKAAHDRQRRKSPGRSGKKTPGNKWAVSDTKPAKPAGRAPRPER 319 Query: 307 RRNLASNV 314 R+ Sbjct: 320 ARSKTPRG 327 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 122/240 (50%), Gaps = 4/240 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 + + +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V D I VDG Sbjct: 55 VDDDKPKGERLQKVLAKAGVASRRHAEILIDGGRVEVNGNVVLKQGVKVNPAVDVIRVDG 114 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGL 121 V + E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGL Sbjct: 115 VRVNVNEDQEYFILNKPRGMQSTMSDDLGRPCVGDVVSEKVASGQRLFHVGRLDADTEGL 174 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LTNDG LA L P + + Y G+ D + LK+GI ++ V + Sbjct: 175 LILTNDGELANRLMHPKYEVKKTYLATVLGEADNKLVRQLKEGIELEDGLAKADFVQVVD 234 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V V L EG+ ++++ + + V RL+R QLG + G R ++ L Sbjct: 235 KNQGFSLVRVELHEGRKHIVRRLLKEAGYPVQRLVRTKLHTVQLGDMKPGGLRALNSNEL 294 >gi|186476490|ref|YP_001857960.1| pseudouridine synthase [Burkholderia phymatum STM815] gi|184192949|gb|ACC70914.1| pseudouridine synthase [Burkholderia phymatum STM815] Length = 597 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 75/274 (27%), Positives = 123/274 (44%), Gaps = 6/274 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG ++ TD + ++ Sbjct: 191 KRVLSPDDDAPKLHKVLADAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRILPTDLVRIN 249 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +G+N W V L EG+NRE++++FE V+RLIR +GP L L G E+ Sbjct: 370 GGGEGTNHWYHVALAEGRNREVRRMFEAVGLMVSRLIRTRHGPIALPRGLKRGRWEELED 429 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 +R + L+ A + P Sbjct: 430 NQVRSLMASVGLKAPAEEKGAGRRGEPERRQPDP 463 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 64/238 (26%), Positives = 110/238 (46%), Gaps = 8/238 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AG SR+EV++ I + V++N + + + D + V+G + E Sbjct: 1 MRLDKYLAHAGYGSRKEVKQAIRKGLVRINEVECRKDDTRIQEGIDVVCVNGEEVVY-EA 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP +V+ SDP + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 60 VVYIMLNKPQDVVSATSDPTHETVLDCIDAILPRDCFPVGRLDIDTEGLLLITNDGKLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y V+ + + L+ IV+ +V L + + + Sbjct: 120 RLLSPKNHVVKTYFVQLAKPLQEADKKRLEDGSIVLDEEPVQCARVELLEE----TQILL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 ++EG+ ++K++ +V L RI+ GP QL L G R + ++ L Sbjct: 176 HIQEGRFHQVKRMLHAVGNEVVYLRRIAMGPLQLDEQLAPGDWRYLYEEELAALQEIA 233 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 76/259 (29%), Positives = 122/259 (47%), Gaps = 6/259 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ K++A++GI SRRE+E +IA R+ +NG + D ++V+G ++ Sbjct: 65 KPERLHKLLAQSGIGSRREMEELIAAGRISINGETASV-GQTASAGDRVKVNGKLVQLRF 123 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL + +V+ + + R ++VGRLD NT GLLLLT Sbjct: 124 SDRLPRVILYHKPEGEIVSRNDPEHRPNVFTSMPRISAGRWVAVGRLDFNTSGLLLLTTS 183 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P Q +R Y VR G++ ++ L GI + +G+N Sbjct: 184 GDLANRLMHPRYQLVREYAVRILGELTEEVRRQLLDGIDLDDGPAQFASFQEAGGEGANR 243 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE++++FE V+RL+R+ YGPF L L G E+S+ +++ L Sbjct: 244 WYRVSLHEGRNREVRRMFEAVGVVVSRLMRVRYGPFALPPGLKRGQVLELSEADVKKLLA 303 Query: 247 PHLLEEAQVNLDAPIYSSE 265 + + Sbjct: 304 DFGMANPEAGRAPRRPRER 322 >gi|163857448|ref|YP_001631746.1| pseudouridine synthase [Bordetella petrii DSM 12804] gi|163261176|emb|CAP43478.1| pseudouridine synthase [Bordetella petrii] Length = 588 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 80/320 (25%), Positives = 128/320 (40%), Gaps = 9/320 (2%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + ++ KV+A AGI SRRE+E +I RV VNG V +D + V+G Sbjct: 114 KYLNSDAAMPKLHKVLADAGIGSRREMEELITAGRVSVNGEPA-HIGQRVAPSDQVRVNG 172 Query: 65 VPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P+ K + + +V+ S + +SVGRLD+NTEG Sbjct: 173 KPVARPNTKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRLDLNTEG 232 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A + P R Y VR G++D L +GI ++ + Sbjct: 233 LLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDDATRKSLVEGIELEDGQAAFGALDYL 292 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 GSN W V L+EG+NRE++++FE V+RLIR +G L TL G E+ Sbjct: 293 GGDGSNRWYRVTLQEGRNREVRRMFESVGVTVSRLIRTRFGDLVLPRTLRRGRWEELDSS 352 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 ++ + + D + + + G + Sbjct: 353 LV---TALMVQLGLLRDDDDADGGRNARQPRSHDSALPPGFGTMDRNGMNGARIGRRGKL 409 Query: 300 KLATPVHRRNLASNVWMAKG 319 + P ++AS+ G Sbjct: 410 QGGGPGSAGHVASSPSDPFG 429 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 89/288 (30%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDINTSGL 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 + L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDITLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|301169983|emb|CBW29587.1| 16S rRNA pseudouridylate 516 synthase [Haemophilus influenzae 10810] Length = 232 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 57/236 (24%), Positives = 108/236 (45%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + I Q VK+NG +++ +V + D I + L E Sbjct: 1 MRLDKFIAENVGLTRSQATKAIHQSAVKINGEIVKSGSVQISQEDEIYFEDELLTWVEEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ HKP G V ++ D D + + ++ S GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLHKPQGCVCSNDDGDYPTIYQFFDYPLAGKLHSAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V+++ +GI+++G ++ + + V + Sbjct: 121 ITSPKHHCEKTYLVTLADPVEENYAAACSEGILLRGEKEPTKPAKLEIL----DDYNVNL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EG+ ++K++F KV L R G L L G R +++ + + + Sbjct: 177 TISEGRYHQVKRMFAALGNKVVGLHRWKIGDVVLDESLEEGEYRSLTQSEIEKLVK 232 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 67/233 (28%), Positives = 111/233 (47%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + +R+ KV+ARAG+ SRR E +I RV+VNG ++ V V D I+VDG+ + Sbjct: 128 DQEGERLQKVLARAGMGSRRACEELIDAGRVEVNGKIVIEQGVRVDPEQDEIKVDGLTVA 187 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 188 TQSHLFFALNKPAGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHG 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|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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 57/245 (23%), Positives = 110/245 (44%), Gaps = 13/245 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 MK K QR+ KVI+ G SR +++ + + V V+G +++ + ++V Sbjct: 1 MKQK---------QRLDKVISNFGFGSRNDIKSAVKKGLVTVDGAIVKDSGIHVDPEASI 51 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 IE++G L + + + + T + GRLDI+TE Sbjct: 52 IEINGERLNYRKFIYIMMNKPQGVISATSDRKQRTVFDILPEEYKCFELFPAGRLDIDTE 111 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVT 178 GL+L+TNDG L+ + P + Y + G+V+Q+ + ++G+ + + Sbjct: 112 GLVLMTNDGQLSHEILSPKKHVPKQYYAKVLGRVNQEDADAFRQGVTLDDGYSTLPAVLE 171 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + + + + + EGK ++K++FE KV L R+S G +L L G +E+ Sbjct: 172 VL-KSDELSEIKLTIVEGKFHQVKRMFEAVGKKVIYLKRLSMGNLRLDENLKLGECKELG 230 Query: 238 KKILR 242 + + Sbjct: 231 ESDIE 235 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 83/346 (23%), Positives = 139/346 (40%), Gaps = 8/346 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---- 68 +++ K +A AG+ SRRE+ER+I V VNG + V + D I V+G +R Sbjct: 40 TEKLQKALADAGMGSRREMERLIESGIVTVNGNPAK-LGDRVSAEDVIRVEGRLVRRLSP 98 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + +V+ S R I+VGRLD NTEGLLL T Sbjct: 99 EAADTPRVLLYHKPAGEIVSRDDPEGRPSVFNHLPRVPGGRWIAVGRLDFNTEGLLLFTT 158 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G LA L P + R Y VR G++ + L G+ ++ +T + KG N Sbjct: 159 SGSLANRLMHPRYEMEREYAVRTVGELTPEDEAKLLAGVELEDGPAKFETLTDEGGKGLN 218 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V +REG+NRE++++FE N V+RLIR+ YG +L L+ G E+ +R + Sbjct: 219 HWYVVTIREGRNREVRRLFESVNLTVSRLIRVRYGAVELPPGLVRGKREEMDPADVRRWI 278 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + + + + + + + + R + + K Sbjct: 279 AELDRMDRASSPEEAAAKAAEVKALKAAARLKWRERLEREAAEAERAPRRGAPGKSDRTG 338 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 + + ++ + + S++ R N + Sbjct: 339 VPFSESRDLSDRRTQRAYGKSNASSRTRNEEDGQRSEGVKRTPFGK 384 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 77/240 (32%), Positives = 123/240 (51%), Gaps = 4/240 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 + ++ +R+ KV+A+AG+ASRR E +I RV+VNG ++ + V V + D I VDG Sbjct: 55 VDEDKPKGERLQKVLAKAGVASRRHAEILIDAGRVEVNGKIIAKQGVKVNPSVDVIRVDG 114 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGL 121 V + E ++ +KP G+ +T SD GR V D + R+ VGRLD +TEGL Sbjct: 115 VRVNVNEEHEYFVLNKPRGMQSTMSDDLGRPCVGDVVSEKVAAGQRLFHVGRLDADTEGL 174 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L+LTNDG LA L P + + Y G+ D+ + LK+GI ++ + Sbjct: 175 LILTNDGELANRLMHPKYEVTKTYLATVLGEADRKLVRQLKEGIELEDGLAKADFAQVVD 234 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L EG+ ++++ + + V RL+R QLG + G R ++ L Sbjct: 235 TNQGYSLVRLELHEGRKHIVRRMLKEAGFPVQRLVRTKLHTVQLGDMKPGGLRALNSSEL 294 >gi|299067338|emb|CBJ38535.1| Ribosomal large subunit pseudouridine synthase B [Ralstonia solanacearum CMR15] Length = 601 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 78/321 (24%), Positives = 129/321 (40%), Gaps = 11/321 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + V+G Sbjct: 207 LTAEDDAPKLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILPTDQVRVNGKL 265 Query: 67 LRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +++ L + +V+ + + ++VGRLD NTEGLL Sbjct: 266 IQRKLPSKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEGLL 325 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G +A P R Y VR G++ + L GI + + Sbjct: 326 IFTTSGDIANRFMHPRYGVEREYAVRTLGELPESDRQKLLHGIRLDDGEANFLSCADGGG 385 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EVS + Sbjct: 386 EGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEVSADDV 445 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE-----VPDDFTRMKKNSSQKNGLS 296 R +G L+ + + + ++ + + Sbjct: 446 RGLMGLLGLKVPSASAGGGQQGGQGGRQGNRRREAQPVLMGPMSSGFTGEATFQSRGQGV 505 Query: 297 KQKKLATPVHRRNLASNVWMA 317 + A P RR + Sbjct: 506 ENGNRAMPAPRRQSSPRQPDP 526 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 47/234 (20%), Positives = 96/234 (41%), Gaps = 2/234 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A+R++ ++I + V+G + + A V +E +G + Sbjct: 1 MRLDKYLCDGLGATRKQATKIIKSGEITVDGEVQKSGAFKVPEGGVVEWEGREVGAPGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPADFVCSHEDGHNP-TAFVLLDEPKVENLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV + D + +GI ++ + L+ + V + + Sbjct: 120 ITSPKHKCEKTYRVWLVDAIQPDYVEKFAEGIELRNEREPTLPAHLEIVNEAENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 EGK ++K++F KV L R G L L G R ++++ + + Sbjct: 180 VEGKYHQVKRMFAALGNKVEHLHRERIGSIVLDEALEPGDYRFLTEEEVESVVK 233 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 90/383 (23%), Positives = 151/383 (39%), Gaps = 32/383 (8%) Query: 2 KDKNIVQENFTPQ---RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 K+++ + P+ ++ KV+A +G+ SRRE+E +I RV VN V+ TD Sbjct: 54 KNRSKLNVRLDPELAPKLHKVLADSGMGSRREMEELIVAGRVSVNAEPA-HLGQRVLPTD 112 Query: 59 HIEVDGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + V+G +++ L + +V+ + + I+VGRL Sbjct: 113 QVRVNGKLIQRKNKSKPPRVLIYHKPAGEIVSMDDPQGRTTVFQKLPKISNGKWIAVGRL 172 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D NTEGLLL T+ G LA L P + R Y VR G++ +++ L GI ++ Sbjct: 173 DFNTEGLLLFTSSGELANRLMHPRYEVQREYAVRILGELSEEQRQQLLTGIQLEDGPAKF 232 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + V +G+N W VGL+EG+NRE++++FE N V+RLIR +G + TL G Sbjct: 233 LYVDAAGGEGANRWYKVGLKEGRNREVRRMFEACNLTVSRLIRTRFGDIMMPSTLKRGRH 292 Query: 234 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE------------- 277 E+ + LG + E AQ + ++ Sbjct: 293 MEMEALEAMSYMQSLGLKVDESAQEGAIRRDKKNIGSKNNKRRNGQPLIDPGLAFTTPTQ 352 Query: 278 -------VPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ 330 +N+ G S ++ N A + + +G+ Sbjct: 353 TYLTVSGATAAAALSNQNNLSSAGGSARRNGGGGDRNGNRAGANGNGAAAPAGKFAGAGK 412 Query: 331 REENHRRSPSFPSKRSLRRTSAK 353 R R + S R + Sbjct: 413 RPSGPRNAGPRSGGPSAGRGPGR 435 >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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 77/230 (33%), Positives = 117/230 (50%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ KV+A AG+ SRR E +I ++RV VNG + + D I VDG L+ R Sbjct: 19 ERLQKVLAAAGVGSRRACEDLIFRRRVTVNGRVAQ-LGDKADPARDVIVVDGERLQADVR 77 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 +KP G+VTT +D GR+ + D + + + VGRLD ++EGLLLLTNDG LA Sbjct: 78 LVYVAMNKPRGVVTTMADEKGRTELADFIGARLEQRVYHVGRLDADSEGLLLLTNDGTLA 137 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + L+ Y G + ++ L G+ ++ + G A V + Sbjct: 138 HKLMHPSYEVLKTYLAEVAGPIPRNLGKRLTAGVELEDGPVKVDGFKVVDTLGKTAQVEL 197 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ ++++ V+RLIR S GP +LG L G R ++ + Sbjct: 198 TLHEGRKHIVRRLMAEVGHPVSRLIRTSIGPIKLGDLRTGRMRRLTNAEV 247 >gi|298490451|ref|YP_003720628.1| pseudouridine synthase ['Nostoc azollae' 0708] gi|298232369|gb|ADI63505.1| pseudouridine synthase ['Nostoc azollae' 0708] Length = 254 Score = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 115/238 (48%), 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 L P + T + + + + 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|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 = 161 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 71/233 (30%), Positives = 112/233 (48%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 116 EQEGERLQKVLARAGYGSRRSCEELIEQARVEVNGEIVLEQGLRVDPEKDEIKVDGLTVA 175 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 176 TQSYQFFSLNKPAGVVSTMEDTEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 234 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P +VY G + +D LK GI ++ + Q G N Sbjct: 235 ELAHRLTHPKYGVKKVYLAHIVGPIPRDLGKRLKDGIQLEDGYAKADHFRVVEQTGKNYL 294 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 295 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 347 Score = 36.7 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 7/84 (8%), Positives = 13/84 (15%) Query: 268 VRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSD 327 + + R K ++ + + Sbjct: 16 RGAGNDRDQKQGQGQGRPSKPRPEERRYDVGPGATQDGPKAGRGNAARGGAKGGPKQSRQ 75 Query: 328 SGQREENHRRSPSFPSKRSLRRTS 351 G R E R R Sbjct: 76 RGGRTEPARSREYETRAEERNRDR 99 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 76/231 (32%), Positives = 119/231 (51%), Gaps = 3/231 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 P+R+ KV+A AG+ SRR E +I +++V VNG + + V T I V+G L+ Sbjct: 18 PERLQKVLAAAGVGSRRACEDLIFRRKVTVNGRVAQ-LGDKVDPATAVIHVNGERLQADT 76 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGL 130 R +KP G+V+T +D GR+ + D L + + VGRLD ++EGLLLLTNDG L Sbjct: 77 RLVYLAMNKPRGVVSTMADERGRTALADFLNNRVEQRVYHVGRLDADSEGLLLLTNDGTL 136 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + Y G + ++ L GI ++ + G A V Sbjct: 137 AHRLMHPSYGVQKTYLCEVAGPIPRNLGKRLAAGIELEDGPVSVDAFRVVDSLGRTAQVE 196 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ ++++ V+RL+R + GP +LG L +G TR ++ + Sbjct: 197 LSLHEGRKHIVRRLLAEVGHPVSRLVRTAIGPIRLGDLRSGRTRRLTNAEV 247 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 61/248 (24%), Positives = 106/248 (42%), Gaps = 15/248 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK--- 69 R+ K++++ G+ASRR+ E++I +V++NG D I ++G L Sbjct: 3 IRLQKLLSQWGVASRRQAEQLILAGQVQLNGHTA-ELGQKADPDQDQITLNGQILNPTDR 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTND 127 + L + + T R+ + + VGRLD+ + G LLLTND Sbjct: 62 PQPLYLLVNKPKGVVSTCQDPQHRRTVLELLPKTYQQGQGLHPVGRLDVASTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y+V G + L+ ++GI + G QV + S+ Sbjct: 122 GQLTFALTHPRFHIAKTYQVWIEGCPPPEILDRWRQGIHLDGRTTLPAQVEILKPYQSHT 181 Query: 188 ---WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKK 239 + V L+EG+NR+I+++ E + V +L R G L + L G R ++ Sbjct: 182 NSICLEVILQEGRNRQIRRIAEQLGYPVRKLHRTQIGSISLHSPSGKLLPQGRYRSLTAS 241 Query: 240 ILREQLGP 247 ++ Sbjct: 242 EMKNLRRL 249 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 66/243 (27%), Positives = 115/243 (47%), Gaps = 15/243 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K +A AG +R EV++ I + +V+VNG+ +++ + V D + +DG + +A Sbjct: 3 KAVRLDKFLADAGAGTRSEVKKFIQKGKVQVNGVPAKKSEIKVSEEDEVVLDGNRISQAP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L HKP G V+ + TV + + S + VGRLD +TEGLLL+T+DG LA Sbjct: 63 EFVYYLLHKPAGYVSAT-EDKRDKTVMELVASDRKDLFPVGRLDKDTEGLLLITDDGALA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD---------- 180 L P + Y G + ++ + G+ I ++ + Sbjct: 122 HELLSPKKHVDKTYYAVTDGCMTKEDVQRFADGLEIGEKNPTMPAKLKILSTRKVEETEL 181 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 G ++ + + ++EGK ++K++ E KV L RIS G L L G R+++ Sbjct: 182 EQYPSGWSSEIQLTIKEGKFHQVKRMTEAVGKKVVYLKRISMGVLTLPDDLKKGECRQLT 241 Query: 238 KKI 240 + Sbjct: 242 AEE 244 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 76/256 (29%), Positives = 106/256 (41%), Gaps = 12/256 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--AE 71 +R+ K +ARAGIASRR E +I RV VNG V TD + VDG + E Sbjct: 4 ERLHKRLARAGIASRRAAEELIRAGRVTVNGQTA-GLGQGVNDTDDVRVDGRLVELTRPE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 LY + T H + R+ + + VGRLD ++EGLLLLTNDG L Sbjct: 63 TVTYALYKPVGFVTTAHDEYGRRNVLDA--MPDVPGLHPVGRLDKDSEGLLLLTNDGDLT 120 Query: 132 RVLELPSTQWL--RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L P Q +L++L +GI + + Sbjct: 121 LTLTHPRYGHEKAYRAWTEGREPPTQAELDVLVRGIAMDDGPAQALSAAPAEDGA----- 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EG+NR+++++ E V RL+R G LG L G RE+ + L + L PH Sbjct: 176 YVVLGEGRNRQVRRMLEALGHPVGRLVRYRVGGLWLGDLNPGEYRELGPRDLEQLLHPHK 235 Query: 250 LEEAQVNLDAPIYSSE 265 A + Sbjct: 236 TPRAVWDGAWEQTQDR 251 >gi|327440834|dbj|BAK17199.1| 16S rRNA uridine-516 pseudouridylate synthase [Solibacillus silvestris StLB046] Length = 247 Score = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 67/242 (27%), Positives = 112/242 (46%), Gaps = 24/242 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-----------RAAVNVMSTDHIEV 62 +R+ KVIA AG+ASRR+ E++I +E V ++D IEV Sbjct: 2 ERLQKVIAYAGVASRRKAEQLI-----------VEGKVKVNGVVVKELGTKVSNSDTIEV 50 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +GV L K ++ LY + D ++ + R+ VGRLD +T GLL Sbjct: 51 EGVKLEKEDKVYFLLYKPRAYISAVTDDKGRKTVTDIFKKHVHQRIFPVGRLDYDTTGLL 110 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLD 180 LLTNDG + ++ P + + Y R G + L L+ GI ++ + +T Sbjct: 111 LLTNDGEFSNLMTHPKFKIDKTYIARVKGIPTKQGLMKLQSGIKLEDGKTAPAKVSMTSF 170 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +K A + + EG+NR+++++FE V +L R + L L G R+++K Sbjct: 171 DEKAGKAICEITIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLTGLSPGEYRQLTKHE 230 Query: 241 LR 242 ++ Sbjct: 231 VK 232 >gi|319638171|ref|ZP_07992934.1| pseudouridine synthase [Neisseria mucosa C102] gi|317400444|gb|EFV81102.1| pseudouridine synthase [Neisseria mucosa C102] Length = 352 Score = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 73/256 (28%), Positives = 129/256 (50%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ F P+R+ KV+A +G+ SRRE+E I+ V VNG + + V DH+ Sbjct: 87 LKERRSDLSRFEPERLQKVLAASGVGSRREMEEWISNGWVTVNGRVAQ-LGDKVTPDDHV 145 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 146 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRISIFDRLPQAASSRWVAIGRLDI 205 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G++ +++ +L + ++++ Sbjct: 206 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELTTEQMRVLTEEGVMLEDGLAKVE 265 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 266 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 325 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 326 ELNPAEVANIIKWADM 341 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 112/237 (47%), Gaps = 5/237 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A + +R EV++MI + V V+G+++++ V + G + + Sbjct: 3 RLDKYLADMQVGTRSEVKQMIRKGLVTVDGLIVKKPEEKVDCEKQVVVCSGAIVSYHQYE 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +V+ DP ++ + + GRLD +TEGLLL+TNDG LA Sbjct: 63 YYMLNKPAG-VVSATEDPRDKTVIDLIEDRRRKDLFPAGRLDKDTEGLLLITNDGALAHD 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y + G V ++ + L KG+ I + +T+ G + +T+ Sbjct: 122 LLSPKKHVDKKYYAKIEGTVTEEDVELFGKGVDIGEKRVTLPAVLTIL-SSGEESEITLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 +REGK ++K++FE KV L R+S G L LL G R+++++ L + Sbjct: 181 IREGKFHQVKRMFEAVGKKVTYLKRLSMGSLVLDEKLLPGEYRKLTEQELTQLKQMR 237 >gi|217970106|ref|YP_002355340.1| pseudouridine synthase [Thauera sp. MZ1T] gi|217507433|gb|ACK54444.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 379 Score = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 73/267 (27%), Positives = 123/267 (46%), Gaps = 6/267 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P+R+ KV+A+AG+ASRRE+E + R+ VNG+ + D ++V+G + Sbjct: 114 SEPERLQKVLAQAGVASRREIEEWVVAGRISVNGLPA-SLGQKIGPGDRVKVNGKLVPLR 172 Query: 71 ERTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R L + +V+ + R ++VGRLD NT GLLL TN Sbjct: 173 FTQRSPRVLIYHKPEGEIVSRDDPEGRPTVFERLPILRKGRWLAVGRLDFNTSGLLLFTN 232 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P + R Y VR G++ ++++ L GI ++ + + +G+N Sbjct: 233 DGDLANKLMHPRYELEREYAVRILGELTEEQVKSLTDGIQLEDGPAKFNLLRDEGGEGAN 292 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V + EG+NRE++++FE V+RL+R+ YG +L L G E+ + Sbjct: 293 HWYRVTISEGRNREVRRMFEAVGLTVSRLMRVRYGSVELPARLKRGMWMEMPEAEACALA 352 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRP 272 G ++++ + Sbjct: 353 GLPPPQQSRQQDLRDKRPVKLHRTQAR 379 >gi|254525127|ref|ZP_05137182.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219722718|gb|EED41243.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 240 Score = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 70/228 (30%), Positives = 109/228 (47%), Gaps = 1/228 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++V+++AG+ SR E R IA+ RV+V+G ++ + IEVDG PL +R Sbjct: 5 LARVLSKAGVCSRSEAARWIAEGRVRVSGRIVRDPEFPIGQPAPPIEVDGQPLAAPQRLY 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + + + VGRLD +EGLLL +ND A L Sbjct: 65 LMLNKPRGVVTTVQDERGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAARL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T + Y V+ G D L L+ G+ +G V + AW+ V L Sbjct: 125 TDPQTGPDKTYHVQVDGMPDHATLAALQAGVEDEGEFLAAHAVRVLRSGDKTAWLEVVLD 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR I+++ F+ +V RL+R++ G LG L G R + L+ Sbjct: 185 EGRNRHIRRLLAAFDLQVLRLVRVAIGGLVLGDLGKGQWRVLEVSDLQ 232 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 77/243 (31%), Positives = 116/243 (47%), Gaps = 4/243 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIE 61 D+ R+ KV+A+AG+ASRR E +I Q RV+V+G ++ + V + Sbjct: 70 DRERAPMKGDGVRLQKVLAQAGVASRRAAEELIDQGRVEVDGRIVLEQGLRVDPENAIVR 129 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINT 118 VDG+ + + +KP G +T SD GR + D + R+ VGRLD +T Sbjct: 130 VDGIRVVVKKDLVHIALNKPRGWQSTMSDDLGRPCIGDIVSERVSAGQRLFHVGRLDADT 189 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGL+LLTNDG LA L PS + + Y G VD++ LK G+ + T Sbjct: 190 EGLILLTNDGDLAHRLMHPSYEVPKTYLATVQGVVDRNVGKTLKAGVELDDGPAKVDAFT 249 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L G + V V L EG+ ++++ E V RL+R G LG G+ R + + Sbjct: 250 LLDVNGGKSLVRVVLHEGRKHIVRRLLEAVGHPVVRLVRTDIGNVALGDGRPGTLRVLGR 309 Query: 239 KIL 241 + Sbjct: 310 GEV 312 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 80/268 (29%), Positives = 124/268 (46%), Gaps = 7/268 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHI 60 K K N R++K IA G ASRR+ + MI Q V VNG ++ V D + Sbjct: 31 KIKTEQNINDPIIRLNKFIALCGEASRRKADEMIEQGEVMVNGKVVMELGYKVDRRADEV 90 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V+G L + + L +KP +VTT SD R TV + L + RV VGRLD +T G Sbjct: 91 VVNGKKLHENTQKIYILLNKPKDVVTTSSDEKSRKTVVE-LVGLKDRVFPVGRLDRDTTG 149 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVT 178 +LLLTNDG L L P+ + Y ++ L +KKG ++ Sbjct: 150 VLLLTNDGDLTYRLTHPTFGVQKQYVATLDKKITSVDLQNIKKGFRLKDTGEKVSPCNAR 209 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + V + EGKN +I ++F F + V +L+R++YG ++GT+ G R +++ Sbjct: 210 IL---DDGYTIWVAIHEGKNHQIHRMFWSFGYNVKKLVRVAYGGLEVGTMRRGEWRFLTQ 266 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSET 266 + + LE Q ++ Sbjct: 267 LEVSKLYKQVQLEGKQRIQKNQSTHNKK 294 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 91/286 (31%), Positives = 132/286 (46%), Gaps = 10/286 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGV- 65 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 66 ----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P++K L Y L T + +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-GTLLAGSTREVSKKI 240 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 241 ---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 LRE +G E +V++ + + Sbjct: 304 VNYLRELVGLPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 87/239 (36%), Positives = 126/239 (52%), Gaps = 12/239 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL--RKAE 71 R+ K++A+ GIASRRE E MI + RV++NG+L V D I VDG P+ ++ Sbjct: 4 RLQKILAQWGIASRRESEEMIRRSRVRINGVLA-HLGQKVDPERDKISVDGKPVYAQQRP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDG 128 L HKP G+V+T DP GR TV D LP + VGRLD + G L+LTNDG Sbjct: 63 PLIYLLLHKPAGVVSTCYDPQGRKTVLDLLPPELRKGSGLHPVGRLDAESTGALILTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y+V G + L + +KG+V++G +V L N+ Sbjct: 123 DLTFGLTHPSHSIPKTYQVLVKGHPSEAVLEMWRKGVVLEGRKTRPAKVHLIESLAKNSH 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILR 242 + + L+EG+NR+I++V + + V +L R S GP QL L G+ R + +R Sbjct: 183 LEIVLKEGRNRQIRRVAQQLGYPVIQLHRTSIGPIQLQMPKLPFLGEGNYRSLKSAEIR 241 >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 = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 67/236 (28%), Positives = 114/236 (48%), Gaps = 2/236 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGV 65 VQ++ R+++ I+ +GI SRR+ + +I V VNG ++ + D + +G Sbjct: 230 VQKDDGLIRLNRYISNSGICSRRKADELIEAGVVSVNGEVVSELGHKIDPVKDQVRYNGE 289 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L++ ++ + L + TT + R+ + + R+ VGRLD NT GLLL+T Sbjct: 290 LLKREKKIYVLLNKPKDYITTTDDPQERRTVMQLVEKASRERIYPVGRLDRNTTGLLLMT 349 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P ++Y V + Q LN ++ G+ ++ V+ T GS Sbjct: 350 NDGDLADKLSHPKNGITKIYHVELSRSLSQGDLNKIQFGLELEDGIIKPDSVSYVTG-GS 408 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE + V +L R+ YG L G R + + L Sbjct: 409 KREVGIQIHSGKNRIVRRIFEHLGYDVVKLDRVVYGNLTKKDLPRGRWRYLEEHEL 464 >gi|251771881|gb|EES52455.1| Pseudouridine synthase, Rsu [Leptospirillum ferrodiazotrophum] Length = 638 Score = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 98/348 (28%), Positives = 160/348 (45%), Gaps = 3/348 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIE 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 VDGRPLPREPETFLFLFYKPKGVVSTLFDPEGRPTLRDYFPGI-DPLLHIGRLDFQTEGA 133 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLD 180 LLLTN+G L++ + P + R Y V+ G + L + + I + G +++ + Sbjct: 134 LLLTNNGDLSQRILHPRFEIPRTYLVKIQGGMSPAHLERMARGEIRLDGRPVVPLELVPE 193 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 Q +NAW + L EG+NRE++++FE N+ V +L+R ++GP L L G R V+ Sbjct: 194 RQTSTNAWYRITLTEGRNREVRRLFETLNYFVLKLVRTAFGPLTLAGLEPGEYRTVTPHE 253 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 L + NLD+ + + + + + + K Sbjct: 254 TELLLAGTRPQSLPKNLDSRFSRRDDDGGAPRSEGRRSGREEKVGQGSREPRRTTGKSAA 313 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 R ++G + + + RSP S R R Sbjct: 314 PRGEGFDRPSRPRSAASRGSAFPKIRRTEGEWPSGVRSPREESGREAR 361 Score = 36.3 bits (82), Expect = 6.7, Method: Composition-based stats. Identities = 10/111 (9%), Positives = 24/111 (21%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +E + + + S ++ + + Sbjct: 474 PRRESFRKEGRSASSPSRPVRQYANSPDRPARPHADRFERPERPASREERPEGRFDRTRK 533 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P S + + + RR SF +R R ++ Sbjct: 534 PYQPSGRPSVPRSGAPRGQAREDRQSRTRDEGRRENSFGDERKPRSPQGRQ 584 >gi|240948952|ref|ZP_04753308.1| pseudouridine synthase [Actinobacillus minor NM305] gi|240296767|gb|EER47378.1| pseudouridine synthase [Actinobacillus minor NM305] Length = 340 Score = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 91/289 (31%), Positives = 131/289 (45%), Gaps = 10/289 (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 GVPLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 G + L Y L T + 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 KKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 + LRE +G E +V++ + + Sbjct: 292 LEQVNYLRELVGLPAETETKVDVTKNRRRTNVRQIRKAVKQHAKYRAKA 340 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 110/241 (45%), Gaps = 2/241 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 R++K +A GIASRR ++++ + RV VNG + ++ + + D + VDG Sbjct: 4 SAQDEKVRINKYLAMCGIASRRAADQLVLEGRVMVNGHVADQPGLQIDPKHDEVIVDGRH 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + E ++++ V T S + + + RV VGRLD + GLL+LTN Sbjct: 64 MAQPEHKKVYILFNKPRNVITTSHDERDRQQILDFVDVPERVFPVGRLDRKSTGLLILTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS+ + Y + L+ L G+ ++ Sbjct: 124 DGTLAHRLMHPSSLVQKEYLAELDAKFPGSMLSKLTSGMRLKDTGEKVSPCRAKILDDGM 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + V + EGKN +++++F ++V RL R++Y G L G R +S+K + Sbjct: 184 SVL-VSIHEGKNHQVRRMFSTLGFEVKRLDRVAYAGLTPGELRRGEWRYLSRKEVEHLYR 242 Query: 247 P 247 Sbjct: 243 L 243 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 82/293 (27%), Positives = 125/293 (42%), Gaps = 7/293 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEGIIQAGRVSVDGKVATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWAEMPLEQLNYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 L V+ + ++ + + + Sbjct: 242 ELVQLPAETVSKLPVERERRRVKANQIRRAVKRHSQISSAPARRTSPKPKRNG 294 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 91/228 (39%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ SR+EV+ +I +RV+V G L+ NV+ +EV+ Sbjct: 1 MRLDKYLSHLQFGSRKEVKALIRDKRVRVAGDLITDPGYNVLPGIAVEVNDAQADGPLEV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + VGRLD +T GLLLLT DG L Sbjct: 61 DYLMNKPAGVITATEDPTQSTVLDLIRPHDYRPGLYPVGRLDKDTTGLLLLTTDGNLGHA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + Y + D L+ GI ++ QV + + + + Sbjct: 121 LLSPNRHIAKTYAATLAKTLTADMKQQLETGIDLKDFTTAPAQVVVLPDTDGKR-IQITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 EGK ++K++ + +V L RI+ GP L L AG R ++ Sbjct: 180 TEGKFHQVKRMLLAVDNEVTALTRIAMGPLSLPADLAAGEYRALTDDE 227 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 106/233 (45%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K I+ SR E +++I + V +N IL++ V +D + V+G L + Sbjct: 1 MRLDKFISTTTTLSRAEAKKIIKKG-VLINNILVKSPDYKVDELSDQVIVNGERLVYQKY 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T + +V VGRLD +TEGL+LLTNDG LA Sbjct: 60 IYIMMNKPKNVVSATEDAVEKTVVDILEEKDRIHKVFPVGRLDKDTEGLMLLTNDGELAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V G++ + + L++ GI+I G ++ + + ++ Sbjct: 120 KLISPKKDVEKKYYVEVSGKLKDEYIELVENGIIIDGGYKCKSARLEILESNEEKSRASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + EGK ++K++ + V L R+S G +L L G R +++K L+ Sbjct: 180 FITEGKFHQVKRMMKALGTTVTYLKRLSIGSLKLDENLKLGEYRYLTEKELKN 232 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 81/267 (30%), Positives = 122/267 (45%), Gaps = 7/267 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +R+ K++AR G+ SRREVE I RV++NGI V D + V+G PL Sbjct: 3 ERLQKILARGGLGSRREVEEWIKAGRVRINGIPAR-LGDKVSDEDQVTVNGRPLSPRRLQ 61 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + + + 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 HLLEEAQVNLDAPIYSSETLVRDRPNI 274 +E+ ++ + R Sbjct: 242 GGVEQRTTRFQPRSKNNRRGRQGRKQG 268 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 111/233 (47%), Gaps = 11/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMST----DHIEVDGVPLR 68 R++K +A+ GI+SRRE R+I R+ +NG + + AV+ + D + +D P+ Sbjct: 1 MRLAKYLAQCGISSRREACRLIEAGRISLNGKIAKHTDAVHFDADGQCLDSLCLDEKPIS 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 AE W+++K + T D + +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 GAEALSYWIFNKA--VGTDCRLLDADKSSLLHLLPTTPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y V+ + + + G+ + + QVT + Sbjct: 119 ELTHKLMHPSFAHSKTYHVQLDRPFNDAFIAQMASGVQYKEVRTLPCQVTRLSADR---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ +KV L R++ L +L G R +S + + Sbjct: 175 FEIVLTQGLNRQIRRMSNALGYKVIDLQRVALMTLTLASLAEGEMRPLSPEEI 227 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 89/288 (30%), Positives = 131/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRLKSGQIRKAVKRYSEMNKRYKK 357 >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 (405), Expect = 3e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDINTSGL 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 71/247 (28%), Positives = 115/247 (46%), Gaps = 19/247 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK--- 69 +RV K+I++ GIASRR+ E+MI RV++NG +++ TD IEV+G L+ Sbjct: 3 ERVQKIISQWGIASRRQAEKMIVAGRVRLNGTVVQ-LGQKANPETDLIEVNGQRLKPSNR 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---------PSIFSRVISVGRLDINTEG 120 + L L + T + + + + VGRLD+ + G Sbjct: 62 PQAIYLLLNKPVGVVSTCRNYRVCNTILEKRRTVLDLLPSTIRQGQGIHPVGRLDMESTG 121 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+LTNDG L L P + YRV G + L+ ++G+ + G QV + Sbjct: 122 ALILTNDGTLTYKLTHPRHHVPKTYRVWVKGHPPESILSAWRQGVDLSGRTTLPAQVRVL 181 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTRE 235 Q+ + + L EG+NR+I++V + + V L R + GP QL LL+G R Sbjct: 182 KQQPDKTLLEIVLTEGRNRQIRRVADLLGYPVIHLHRTAIGPIQLQRPGEPILLSGHYRY 241 Query: 236 VSKKILR 242 + + +R Sbjct: 242 LEEFEIR 248 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 84/273 (30%), Positives = 133/273 (48%), Gaps = 3/273 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A G+ SRR E++IA+ RVKVNG ++ + D + VD + + Sbjct: 4 ERIQKIMAEQGLCSRRAAEQIIAEGRVKVNGHPVKVGDKMDPNRDVLHVDDERIYIRKDQ 63 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +KP G VTT SD GR TV + + I +R+ VGRLD ++EGLLL+TNDG A Sbjct: 64 QMYYLALYKPRGYVTTASDELGRKTVMELVSDIPARLYPVGRLDKDSEGLLLMTNDGAFA 123 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 + + PS ++YRV + D+ ++ L G+V+ + + T + + Sbjct: 124 QAVTHPSGGISKLYRVTVQPRADESQILKLSSGVVLDDGTKTMPCAINVVTDEPGRTVME 183 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L+EGKNREI+++ E +V RL R + G +LG L G+ RE++K + Sbjct: 184 MTLKEGKNREIRRMCETVGLEVVRLKRNAEGVVKLGMLKPGTYRELTKAEINGLRAAAAK 243 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 AQ A + P P Sbjct: 244 GRAQTRSAAVQSKAAERRPRGPVGKGTAPKKRK 276 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 84/301 (27%), Positives = 135/301 (44%), Gaps = 10/301 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPL 67 + +++ K++AR+G SRRE+E + R+ V+G + V V I +DG L Sbjct: 38 KPQKTEKLQKILARSGHGSRREIETFLQAGRISVDGKIATLGDRVEVTPATKIRLDGRLL 97 Query: 68 RKAERTRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 E + Y L T H + +R I+VGRLD+NT GLL Sbjct: 98 AIKEPEKEICRVMAYYKPEGELCTRHDPEGRPTVFNRLPRLTGARWIAVGRLDVNTSGLL 157 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L T DG LA L PS + R Y VR G+++ K+ L +G+ ++ V+ Sbjct: 158 LFTTDGELANRLMHPSREVEREYAVRVFGEINDAKIRQLTQGVQLEDGPASFKTVSYRGG 217 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI- 240 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ + Sbjct: 218 EGMNQWFNVTLTEGRNREVRRLWESVGVQVSRLIRVRYGDIDLPKGLPRGGWTELGLEQT 277 Query: 241 --LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 LRE + + E++V ++ + R K+ SS+ + Sbjct: 278 NYLRELVELPVETESKVAVERDQRRIKANQIRRAVKRHTQVASRPASKRQSSRPTAKRRT 337 Query: 299 K 299 + Sbjct: 338 R 338 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 107/255 (41%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNSKISSDHTEDTMRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G + P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 103/237 (43%), Gaps = 7/237 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + D G+ + G ++ + V + Sbjct: 121 ITSPKHHCEKTYLVTLEYPISDDTEMKFLAGVQLNGEKTLTKPAKLEII----EPHRVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 +REG+ ++K++F V L R G L + L G R ++K + P Sbjct: 177 SIREGRYHQVKRMFAAVGNHVVELHRERVGQIYLDSTLEPGEYRALTKHEINSIQVP 233 >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 (405), Expect = 3e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKVEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|309973338|gb|ADO96539.1| 23S rRNA pseudouridylate synthase RluB [Haemophilus influenzae R2846] Length = 357 Score = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 89/288 (30%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDINTSGL 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 + L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 250 GVGINQWYDITLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 309 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 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 = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 90/291 (30%), Positives = 135/291 (46%), Gaps = 10/291 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDH 59 ++ +N + +++ K++ARAG SRRE+E +IA RV V+G + V V S+ Sbjct: 48 IETENKANDKIVGEKLQKILARAGQGSRREIEEVIAAGRVSVDGKIAMLGDRVQVSSSTK 107 Query: 60 IEVDGVPLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 I +DG + L Y L T + 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 REVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 E+ + LRE +G E +V++ + T + Sbjct: 288 EEMGLEQVNYLRELVGLKPETETKVDVTKARRRTSTRQIRKAVKQHTKYRK 338 >gi|291513764|emb|CBK62974.1| pseudouridine synthase family [Alistipes shahii WAL 8301] Length = 455 Score = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 114/229 (49%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA++GI SRRE + I V VNG ++ V+ TD + + P++ ++ Sbjct: 221 MRLNRFIAQSGICSRREADDFITAGVVSVNGKIVTELGTKVLPTDEVRFNDEPVQGEKKV 280 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + + G++ + + R+ VGRLD N+ GLLL TNDG L + Sbjct: 281 YLVLNKPKGYVTSLDDPHAGKTVMELVSGACTERIYPVGRLDKNSLGLLLFTNDGDLTKQ 340 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + ++Y+V + + ++ + +G+ ++ + + K + V + + Sbjct: 341 LTHPSYKKKKIYQVTLDKPLTRADMDRIAEGVTLEDGEIFADE--ISYVKENKQEVGIEI 398 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G+NR ++++FEF + V +L R+ Y L G+ R ++++ + Sbjct: 399 HSGRNRIVRRIFEFLGYTVTKLDRVYYAGLTKKNLKRGAWRFLTREEVE 447 >gi|332969784|gb|EGK08795.1| ribosomal large subunit pseudouridine synthase B [Psychrobacter sp. 1501(2011)] Length = 354 Score = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 77/310 (24%), Positives = 129/310 (41%), Gaps = 7/310 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ K +AR G+ SRR++E +I RV +N V +D I VDG ++ Sbjct: 46 TEKLQKALARMGLGSRRQMEEVIKAGRVSINQKPAT-IGDRVEQSDEIRVDGRLIKYKSE 104 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R I VGRLDIN+ GLLL TND Sbjct: 105 REKRRRVLAYYKPEGEICSANDPEGRTTVFERLPKLTHDRWIMVGRLDINSTGLLLFTND 164 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + +R Y VR G++ + + L G++++ + +G N Sbjct: 165 GELAHRLMHPSNEIVREYAVRILGELTPEMMRNLTDGVMLEDGLAKFEDIRQGGGEGVNK 224 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L+EG+NRE++++ E KV+RL+R SYG L L G E+ +K + + Sbjct: 225 WYHVKLKEGRNREVRRLIESQGLKVSRLLRTSYGSVDLPKELRTGRFIELDRKEIHRLID 284 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + + + +R + + G + + Sbjct: 285 LVGIRPREDMGVHGKAKEKKERFQKKPLKARTIRTSSRSGRAGTTATGRNSNPSSSNTRG 344 Query: 307 RRNLASNVWM 316 R Sbjct: 345 RDTGNRGSKR 354 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 90/302 (29%), Positives = 132/302 (43%), Gaps = 11/302 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +++ KV+ARAG+ SRRE+E I + RV VNG + V D IE+DG P+ Sbjct: 3 EKLQKVLARAGLGSRREMENRIREGRVVVNGEVAT-LGDRVGLEDQIELDGYPVSVSGAG 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R + + T + 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 V L EG+NRE+++++E KVNRL R+ +GP L G E+ + + Sbjct: 182 YVCLMEGRNREVRRLWESQGLKVNRLKRVRFGPVFLPSKAKVGRWVEMEEAEVNGLCELV 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 ++ A + + R ++ R K ++ ++ K P R Sbjct: 242 DIKPAPIKQKTKQEQEDLKRRR-----AKQVPGKARRTKGFDWQSSDKQEFKPRKPGKRS 296 Query: 309 NL 310 Sbjct: 297 FR 298 >gi|308176960|ref|YP_003916366.1| pseudouridylate synthase [Arthrobacter arilaitensis Re117] gi|307744423|emb|CBT75395.1| pseudouridylate synthase [Arthrobacter arilaitensis Re117] Length = 373 Score = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 78/236 (33%), Positives = 127/236 (53%), Gaps = 3/236 (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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V V L G+NR ++++F+ V RL+R++ GP QLG G+ R + + + Sbjct: 309 HVMVEVTLHSGRNRIVRRMFDEVGHPVQRLVRVAVGPVQLGDQKQGTIRSLGNQEV 364 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 91/286 (31%), Positives = 132/286 (46%), Gaps = 10/286 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGV- 65 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 66 ----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P++K L Y L T + +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-GTLLAGSTREVSKKI 240 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 241 ---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 LRE +G E +V++ + + Sbjct: 304 VNYLRELVGLPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 91/286 (31%), Positives = 132/286 (46%), Gaps = 10/286 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGV- 65 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 66 ----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P++K L Y L T + +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-GTLLAGSTREVSKKI 240 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 241 ---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 LRE +G E +V++ + + Sbjct: 304 VNYLRELVGLPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 110/233 (47%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I + RV++NG ++ V D I+VDG+ + Sbjct: 132 EQEGERLQKVLARAGFGSRRACEELIEEARVEINGEIVLEQGRRVDPEKDEIKVDGLTVA 191 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 192 TQSYQFFSLNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 250 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + Q G N Sbjct: 251 ELAHRLTHPKYGVKKTYLAHIVGPIPRDLGKQLKDGIQLEDGYARADHFRVVQQTGKNYL 310 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 311 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 363 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 86/259 (33%), Positives = 125/259 (48%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + + D I Sbjct: 1 MRRANQNNDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKAIEADKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I VGRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 66/236 (27%), Positives = 113/236 (47%), Gaps = 3/236 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN R++K +A G+ASRR+V+ I + R+ VNG L V D I V+G Sbjct: 1 MEENK--IRINKFLASKGLASRRQVDLWIEEGRISVNGSLATS-GQKVSEEDDIVVNGKS 57 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + ++ +++ V + D + R+ VGRLD T GL+LLTN Sbjct: 58 ISQKKQKKVYYLLYKEEEVLSAVKDDRGRRTVVDCVLSPYRIFPVGRLDYRTSGLILLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L + P + + Y V G + +++L L++G+ ++ + + N Sbjct: 118 DGDLFNRMMHPRAEIFKSYEVLAKGHLTKEQLKTLEEGVELEEGKTLAALIAKVKYEKGN 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + +REGKNR+I+++ E +V RL R G L L G R + +K + Sbjct: 178 TFFEISIREGKNRQIRRMVEAVGSRVYRLRRTKIGKLSLDGLSLGEYRALEEKEIE 233 >gi|327394043|dbj|BAK11465.1| ribosomal large subunit pseudouridine synthase B RluB [Pantoea ananatis AJ13355] Length = 294 Score = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 90/296 (30%), Positives = 131/296 (44%), Gaps = 10/296 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MIA RV V+G L S I +DG + AE Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIAAGRVSVDGKLATLGDRIENSKALKIRIDGHLVSIAE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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---LPAVN 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + + R + N I ++ +++N SK+ Sbjct: 239 YLRNMVGMDDETVTKLAVEKDRRRTKANQIRRAVKRHSQTSGRPARRNPGSKRNAT 294 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 144/339 (42%), Positives = 198/339 (58%), Gaps = 13/339 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +R++K +ARAG+ASRR+ E M+ Q RV VNG ++ A+++ D + VDG PL Sbjct: 371 KPKKAGERIAKALARAGLASRRDAEEMVTQGRVAVNGRVINSPALDITPNDVVTVDGKPL 430 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ERTRL+LYHKP GL+TTH DP+GR TVFDNLP R+ISVGRLD NTEGLLLLTND Sbjct: 431 PPRERTRLFLYHKPRGLMTTHDDPEGRPTVFDNLPEGLPRLISVGRLDFNTEGLLLLTND 490 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 GGLAR LELP T WLR YRVR HG V Q +L+ LK GI ++G+ YG + TL+ +G+N Sbjct: 491 GGLARTLELPDTGWLRRYRVRAHGDVTQAQLDELKAGIEVEGVKYGPIDATLERDQGANV 550 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 W+ +REGKNRE++ V +VNRLIR+SYGPFQLG + G E+ ++LREQLG Sbjct: 551 WLVFAIREGKNREVRNVCAHLGLEVNRLIRVSYGPFQLGEVPEGQVEEIKSRVLREQLGD 610 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 ++E++ D P + DD +K + K + +K + + Sbjct: 611 KVIEKSGAQFDVPQK-------------AAATDDGAPHEKKPASKRAVINDRKGRRVLVQ 657 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 R + +S + + + + Sbjct: 658 RTGSEEARERNEAEASGYGPPRRPKRGYHGKRDLTPRED 696 Score = 37.5 bits (85), Expect = 3.4, Method: Composition-based stats. Identities = 8/107 (7%), Positives = 19/107 (17%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 EE P R + + + + Sbjct: 85 RGGEERGERSFKPRGDRPFSDRGARDGEKRPFKPRGDRPSYGRDDRPPRSRDRDDSRAAG 144 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + + + + S P + R ++ Sbjct: 145 RTGDRKFGDKRPSAPRGDRPERKFDGERKFSRGAPDRSDRPRDRGER 191 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 62/239 (25%), Positives = 102/239 (42%), Gaps = 4/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A AG SR +V+ ++ ++V VNG +A + D +EV+G + E Sbjct: 1 MRLDKFLAEAGFGSRSQVKNLLKTKKVCVNGKNESQAKKQINPNLDRVEVEGQEVLYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVVSATQDKVHQTVLDLLDATAKQKAVFPVGRLDKDTHGLLLLTNNGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L P +VY G + + +KGI + + + + V Sbjct: 121 RLLSPKKHVNKVYVAEVDGLMTSQDIEAFEKGIQLSDHQCQPAVLEILASDRDKFQSRVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 + ++EGK ++K++ +V L R+ GP QL + L G+ R++ K + L Sbjct: 181 IVIKEGKFHQVKRMVLACGKEVRDLQRLEMGPLQLDSTLDLGAFRKLEKSEIEALLNLP 239 >gi|213618826|ref|ZP_03372652.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 276 Score = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 57/281 (20%), Positives = 109/281 (38%), Gaps = 5/281 (1%) Query: 21 ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHK 80 + +GI SRRE +R I Q V +NG V++ D ++V+G + E L L Sbjct: 1 SESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEPREADDLVLIAL 59 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 + + DG + + R+ +GRLD +++GL+ LTN G L + Sbjct: 60 NKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHGDLVNKILRAGND 119 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 + Y V + + + + G+ I G +K + + L +G NR+ Sbjct: 120 HEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFRITLVQGLNRQ 175 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAP 260 I+++ E+F ++V +L R L + G R+++ L + ++ A Sbjct: 176 IRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEGSSSEAKPKAK 235 Query: 261 IYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ I + + + K+K Sbjct: 236 AKPKTAGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 276 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 106/241 (43%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 218 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVV 277 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + L + T+ + + + R+ VGRLD NT G Sbjct: 278 KFHDETVSIERKVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTTG 337 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + GI ++ Sbjct: 338 VLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIH-ADAISY 396 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 397 SDEVKRDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQE 456 Query: 241 L 241 + Sbjct: 457 V 457 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 63/235 (26%), Positives = 107/235 (45%), Gaps = 4/235 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K + G+ SR EV+R++ +++V VNG + A + + D I V+ L Sbjct: 3 KKMRLDKFLVEMGLGSRTEVKRLLKKKQVLVNGKIETSAKIQIDENQDEISVNNQVLIYE 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + T D N + V VGRLDI+T GLLLLTN+G L Sbjct: 63 RFVYYLLNKPKGVISATEDDKHRTVLDLLNENARQKEVFPVGRLDIDTHGLLLLTNNGAL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAW 188 A + P +VYR + G + + + + GI ++ ++T+ ++ + Sbjct: 123 AHAMLSPKKHVAKVYRAKVDGIITEKDVEHFEAGIELKDFTCQPAKLTILEVNEEQQTSL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 V + + EGK ++K++ + V L R+S GP L L + R ++K+ L Sbjct: 183 VEIIISEGKFHQVKRMVQACGKTVTDLERLSMGPLMLDERLELVTFRRLTKEELE 237 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 68/244 (27%), Positives = 104/244 (42%), Gaps = 20/244 (8%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 P R+SK +A G+ SRRE + I Q VKV+G + V+ + IE+D Sbjct: 2 EPVRLSKRMAELGLCSRREADSYIEQGWVKVDGEVA-VLGQKVLPHNQIEIDKKAQDAQS 60 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y L+ + + PS + GRLDI Sbjct: 61 ARVTILLNKPVGYVSGQAEDGYLPAAALIKPENRWAEDGSRKRFQPSHLRGLAPAGRLDI 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+LT DG +A+ L ++ + Y VR G++ L LL G+ + G + Sbjct: 121 DSVGLLVLTQDGRIAKQLIGEHSEVEKEYLVRVEGELTPSGLALLNHGLELDGKKLLPAK 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + LREGK R+I+++ E +V L RIS G +LG L G R + Sbjct: 181 VGWQNEDQ----LRFVLREGKKRQIRRMCELVGLRVVGLKRISIGKVKLGNLPTGQWRYL 236 Query: 237 SKKI 240 Sbjct: 237 RDDE 240 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 65/235 (27%), Positives = 104/235 (44%), Gaps = 1/235 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-LRKA 70 T QR+ K++A AG+ SRR E + RV V+G + ++ IEVDGVP + Sbjct: 2 TRQRLQKLMAAAGLCSRRRGEDWLQAGRVTVDGRVASLGDQADPNSQLIEVDGVPLISVQ 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + + + S + VGRLD ++ G LLLT+ G L Sbjct: 62 EPRVFLLNKPVGVICSCRDPQGRATVLDCLPHQERSGLHPVGRLDADSRGALLLTDQGEL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV G L + G+++ G +V +G+++ + Sbjct: 122 TLRLTHPRYNHAKTYRVLVRGIPSSQALRRWRDGLLLDGRLTRPARVHCLRSRGASSLLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 V L+EG+NR+I++V E V L R++ +L L G R + + L Sbjct: 182 VELKEGRNRQIRRVAELLGHPVIDLQRVAIDGIRLDDLAEGCWRRLDAREWSTIL 236 >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 = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 106/241 (43%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 218 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVV 277 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + L + T+ + + + R+ VGRLD NT G Sbjct: 278 KFHDETVSIERKVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTTG 337 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + GI ++ Sbjct: 338 VLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIH-ADAISY 396 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 397 SDEVKRDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQE 456 Query: 241 L 241 + Sbjct: 457 V 457 >gi|309379383|emb|CBX21950.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 252 Score = 160 bits (404), Expect = 4e-37, Method: Composition-based stats. Identities = 68/255 (26%), Positives = 109/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q RV VNG V D I Sbjct: 1 MNSKISSDHTEDTMRLSKRMAQLGLCSRREADGYIEQGRVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T+ + + ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITSENRWESDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 160 bits (404), Expect = 4e-37, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 106/241 (43%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + D + Sbjct: 218 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRADVV 277 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + L + T+ + + + R+ VGRLD NT G Sbjct: 278 KFHDETVSIERKVYVLLNKPKDCVTTSDDPQARLTVMDLVKGACAERIYPVGRLDRNTTG 337 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + GI ++ Sbjct: 338 VLLLTNDGDLASKLTHPKYLKKKIYHVYLDKNLTKADMDQIAAGIQLEDGEIH-ADAISY 396 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + + GKNR ++++FE +KV +L R+ + L G R ++++ Sbjct: 397 SDEVKRDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEQE 456 Query: 241 L 241 + Sbjct: 457 V 457 >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 = 160 bits (404), Expect = 4e-37, Method: Composition-based stats. Identities = 77/234 (32%), Positives = 114/234 (48%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ KV+A AG+ASRR E++I + RV+VNG ++ R V V D I VDG + Sbjct: 36 EGIRLQKVLAAAGVASRRMSEKLIDEGRVEVNGDIVTRQGVRVDPDYDVIRVDGSRVVVD 95 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTND 127 E + + +KP G+ +T D GR V D + R+ VGRLD T+GLLLLTND Sbjct: 96 ESMQYFALNKPRGVQSTMHDDMGRPCVGDIVGEKVDAGQRLFHVGRLDAATQGLLLLTND 155 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + Y G+VD+ L L +GI + + + Sbjct: 156 GELANRLIHPKYGIKKTYLATVLGEVDKKDLRRLTQGIELDDGTARADDADIIDVWQGRS 215 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + + V L+R QLG G+ R +++ L Sbjct: 216 LVKVVLHEGRKHIVRRMLKAAGFPVQELVRTKIHTVQLGEQTPGTLRALNRSEL 269 >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 = 160 bits (404), Expect = 4e-37, Method: Composition-based stats. Identities = 65/245 (26%), Positives = 116/245 (47%), Gaps = 7/245 (2%) Query: 3 DKNIVQENFTP-----QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS- 56 KN Q++ TP R+++ IA +GI SRR+ + +I + VN +++ V Sbjct: 145 RKNTSQQSSTPKEPDQIRLNRYIANSGICSRRKADELITSGAITVNDVVVSELGAKVNPT 204 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 TD ++ +G L++ + + L + TT + ++ + + R+ VGRLD Sbjct: 205 TDKVKYNGQLLKREKMVYVLLNKPKDFITTTEDPQERKTVMELVKNATSERIYPVGRLDR 264 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLLLLTNDG LA L P ++Y V + Q N + G+ ++ Sbjct: 265 NTTGLLLLTNDGDLAEKLSHPRNNITKIYNVELSKNLTQGDFNKIAFGVELEDGFIKPDA 324 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V+ G+ + + + GKNR ++++FE ++V +L R+ Y L G R + Sbjct: 325 VSYV-SGGTKKEIGIQIHSGKNRIVRRIFESLGYEVEKLDRVIYANLTKKDLTRGKWRFL 383 Query: 237 SKKIL 241 ++ + Sbjct: 384 TENEI 388 >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 = 160 bits (404), Expect = 4e-37, Method: Composition-based stats. Identities = 91/341 (26%), Positives = 148/341 (43%), Gaps = 13/341 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG + Sbjct: 2 SEKLQKVLARVGLGSRRYMEEVIAAGRVSVNGQIAQV-GERIEPGDELRIDGRKVAFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R + Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVIIYYKPEGEICSRSDPENRPTVFEQLPAIPGDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V N + KG+V+ + G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPQIRNNMLKGVVLDDGPAKFESFSELGGDGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + + L Sbjct: 181 WFQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWIELDKNDI-DNLT 239 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL---SKQKKLAT 303 + + + + R + ++ F R ++ S + ++++ Sbjct: 240 KAVELKPRQGTGLFGMAKRRNERMQDKPMAARRGGFLRQQRRDSDEQPQNNTGRERRDEN 299 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDS--GQREENHRRSPSFP 342 RR+ A N + + D G+REE +P P Sbjct: 300 AYGRRDRAENQNGTQFVRRENRPDQGFGRREERDENAPRRP 340 >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 = 160 bits (404), Expect = 4e-37, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 108/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 234 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 293 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 294 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 353 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + GI ++ Sbjct: 354 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIH-ADAISY 412 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 413 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 472 Query: 241 L 241 + Sbjct: 473 V 473 >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: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + SR I+VGRLDINT GL Sbjct: 130 INLSHAQKEICRVLMYYKPEGELCTRSDPKGRATVFDRLPRLTGSRWIAVGRLDINTSGL 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 160 bits (404), Expect = 4e-37, Method: Composition-based stats. Identities = 61/243 (25%), Positives = 105/243 (43%), Gaps = 5/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ +G+ SR+EV++++ Q+ +KVNG L + + D++ G + + Sbjct: 1 MRLDKFLSDSGLGSRKEVKQLLKQKCIKVNGTLAKDGKQQISQIDDYVTHAGEKIVYQKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + +T + + VGRLD +TEGLLLLTNDG LA Sbjct: 61 FYYVLNKPKNVISSTKDPIERTVVDLLAKKHYRKDIFPVGRLDKDTEGLLLLTNDGDLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSN--AWV 189 L P + Y G V + + L KG ++ ++ +D + V Sbjct: 121 QLLSPKKHVDKEYLAEIDGIVTEQDIKLFAKGFTLKNGEAVKPARLIIDQMDEGHQMTIV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + ++EGK ++K+VFE +V L R+ G L L G R ++ L + Sbjct: 181 HLTIQEGKFHQVKRVFETIGKRVTYLKRLKMGSLSLDSDLPLGKYRPLTTVELAQLKQFK 240 Query: 249 LLE 251 + Sbjct: 241 NEK 243 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|322434202|ref|YP_004216414.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX9] gi|321161929|gb|ADW67634.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX9] Length = 312 Score = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 86/292 (29%), Positives = 134/292 (45%), Gaps = 22/292 (7%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 +R+ K++A+AG+ASRR+ E +I RV+VNG ++ +T DHI VDG ++ E Sbjct: 23 GERLQKILAQAGLASRRKAEEIILDGRVQVNGTVVTELGTRADATKDHIRVDGKLIKGPE 82 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV------ISVGRLDINTEGLLLLT 125 + + ++ +KP G VTT DP R TV + VGRLD +EGLLL+T Sbjct: 83 QQKYYMVNKPRGYVTTLDDPQHRPTVMQLMTPKSGPHETQVRLYPVGRLDYLSEGLLLMT 142 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-------------Y 172 NDG LA L ST + Y V+ G L+ +++GI+I Sbjct: 143 NDGDLANALSKASTGVEKTYLVKTSGVPPDSALDQIRRGIMIDRGRLDEVRAGRRDRILT 202 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V L + G N W V L EG+NR+++K+FE V ++ RI YG +L + G Sbjct: 203 APAKVELVRR-GDNPWYEVTLTEGRNRQLRKMFEEVGHHVEKIRRIGYGALRL-DVAPGE 260 Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 RE+ + ++ + + P +S + Sbjct: 261 FRELKPGEVMALDRASKGKKVEPKRNLPEFSKLKAPVKPKRPGAGKSYAAKS 312 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 63/237 (26%), Positives = 103/237 (43%), Gaps = 16/237 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMST---DHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG + D I +D P+ Sbjct: 1 MRLAKYLAQCGIGSRREACRLINAGRITLNGKIAKHTNLVQRDAQGLCLDSICLDAEPIV 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E W+++K + T + T +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 ETEALAYWIFNKA--VGTDCRLLEQDKTSLLHLLPKAPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y VR D + + G+ + + QV + Sbjct: 119 ELTHKLMHPSFAHSKTYHVRLDKPFTDDFVEQMASGVRYKDLQTLPCQVRRLSLDS---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKI 240 + L +G NR+I+ + + ++V L R++ L G L G R ++ + Sbjct: 175 FEIVLTQGLNRQIRHMSKALGYRVIDLERVAIMALNLRELASGELPEGQMRPLTPQE 231 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 87/290 (30%), Positives = 130/290 (44%), Gaps = 9/290 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV--MSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ RV V+G L + + I +DG + A Sbjct: 2 SEKLQKVLARAGHGSRREIETMISAGRVSVDGKLAT-LGDRIENDKSLKIRIDGHLVSIA 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + SR I+VGRLD+NT GLLL T Sbjct: 61 ESTTEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y VR G+V DK+ L KG+ ++ + +G Sbjct: 121 TDGELANRLMHPSREVEREYAVRVFGEVGDDKIRQLSKGVQLEDGPAAFKTLRFAGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RL+R+ YG QL L G E+ + Sbjct: 181 NQWYNVTLTEGRNREVRRLWEAVGVQVSRLMRVRYGDIQLPKGLPRGGWMELELPAVNYL 240 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 + E V A ++ + + + SS++ Sbjct: 241 RTLVGMPEETVTKVAVEKDRRRTKANQIRRAVKRHSQVSNSPRRSSKRGA 290 >gi|227111426|ref|ZP_03825082.1| 23S rRNA pseudouridylate synthase B [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 294 Score = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 82/293 (27%), Positives = 123/293 (41%), Gaps = 7/293 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEGIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWTEMPLEQLNYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 L V+ + ++ + + Sbjct: 242 ELVQLPAETVSKLPVERERRRVKANQIRRAVKRHSQINTAPARRTSPKPKRNG 294 >gi|329929427|ref|ZP_08283175.1| pseudouridylate synthase [Paenibacillus sp. HGF5] gi|328936514|gb|EGG32959.1| pseudouridylate synthase [Paenibacillus sp. HGF5] Length = 243 Score = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 108/233 (46%), Gaps = 8/233 (3%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTRL 75 KV++ G SR E+++ Q + VNG + + +V D IE +G ++ E L Sbjct: 2 DKVLSNLGFGSRAELKKKAKQGSIVVNGTITKDPGKHVDPYADIIEFEGETIQYREYVYL 61 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L+ P + T D + VGRLD +TEGLLLLTNDG LA L Sbjct: 62 MLHKPPGVVSATEDLRDRTVLDLLDAEYRVFEPFPVGRLDKDTEGLLLLTNDGKLAHELL 121 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN-----AWV 189 P + Y G+VD++ + G+ + ++ + + + + + Sbjct: 122 SPRKHIPKTYEATVEGRVDEEDVRRFAAGVTLDDGYVTLPGELAIHSHEEREDGDQLSRI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++ + EGK ++K++FE KV L RIS G +L L G+ RE++++ L Sbjct: 182 SLTIHEGKFHQVKRMFEAVGKKVVYLKRISMGELRLDENLEIGTYRELTEQEL 234 >gi|292559208|gb|ADE32209.1| Pseudouridine synthase, Rsu [Streptococcus suis GZ1] Length = 235 Score = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 61/226 (26%), Positives = 101/226 (44%), Gaps = 4/226 (1%) Query: 22 RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHK 80 G+ SR EV++++ ++V VNG + + D I V G L L Sbjct: 2 DCGVGSRTEVKKLLKNKQVTVNGQVETSPKQQINEKKDQIAVAGQVLSHETFVYYLLNKP 61 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 + T D + + V VGRLDI+T GLLLLTN G LA + P Sbjct: 62 KGVISATEDDHHRTVLDLLDNTARQKEVFPVGRLDIDTHGLLLLTNKGQLAHAMLSPKKH 121 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKN 198 ++YR + G + Q+ + GI ++ Q+T+ + + + V + +REGK Sbjct: 122 VDKLYRAQVDGIMTQEDVERFAAGIELKDFTCQPAQLTILSTDEAKQTSLVDITIREGKF 181 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 +IK++ + V L R++ GP +L L G R ++ L++ Sbjct: 182 HQIKRMVQACGKTVTDLQRLTMGPLRLDPKLALGEYRRLTAAELKQ 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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 104/231 (45%), Gaps = 7/231 (3%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 L P + Y V + + GI+++G ++ S V + Sbjct: 121 LTSPRHHCEKDYLVTLEQPLAAEITAQFAAGILLRGEKLPTRPARLATL----SPLKVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++ + Sbjct: 177 TISEGRYHQVKRMFAAVGNRVVALHRERIGAIVLDAHLQPGEYRALTAGEV 227 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 59/247 (23%), Positives = 109/247 (44%), Gaps = 11/247 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------VPL 67 R++K +A G+ SRRE +R I RV +NG V D + +DG + Sbjct: 1 MRLNKFLASIGVCSRREADRAIEANRVMINGETA-ELGAIVGEEDLVSLDGRYIATGKDV 59 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K + + + TT + + V + R+ VGRLD ++ GLLLLTN Sbjct: 60 EKVKPIIIAFNKPEGVVCTTSDNDGATNVVDYI--GMKERIYPVGRLDKDSSGLLLLTNQ 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L + + Y V+ + +D + +N + GI + + + + +K + Sbjct: 118 GSLTNSLLRAANYHEKEYIVKVNKDIDDEFINKISNGIYLYELKTKTRKCKV--RKLNKN 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 ++ L +G NR+I+++ KV +L R+ +L L G R +S + +++ Sbjct: 176 TFSIVLTQGLNRQIRRMCAACGRKVQKLNRVRIVNIKLDGLAVGDYRNLSDEEIKKLYKE 235 Query: 248 HLLEEAQ 254 +++ Sbjct: 236 LGIKDNG 242 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 72/238 (30%), Positives = 115/238 (48%), Gaps = 4/238 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 +++ R+ KV+++AG+ASRR E +IA RV+V+G ++ V I VDG Sbjct: 4 EQHPDGIRLQKVLSQAGVASRRAAEDLIAAGRVEVDGEVVTELGRRVHPDEAVIHVDGTR 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLL 123 + + ++KP G+ +T SD GR V D L V+ VGRLD NTEGLLL Sbjct: 64 VNLRDDLVYLAFNKPKGVHSTMSDDRGRPCVGDYLRGRWEETPGVVHVGRLDENTEGLLL 123 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG L L PS + L+ Y G V + L+ G + Q + Sbjct: 124 LTNDGDLGHRLMHPSYRVLKTYFAEVEGLVPRGLGKELRAGWELPDGIVKVDQFRVKDMH 183 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + EG+ ++++ V +L+R + G QLG G+ R +++ + Sbjct: 184 SGRSMIELVIHEGRKHIVRRLMAATGHPVRKLVRTAVGDVQLGNQRQGTIRRLNRGEV 241 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 108/233 (46%), Gaps = 1/233 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N R++K IA +G+ SRR+ + IA V VNG + V D + DG L Sbjct: 58 TNSDGIRLNKYIANSGVCSRRDADMYIAAGNVTVNGKSITEMGYRVKLEDDVRFDGRRLN 117 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L VT + + G++ + + ++V VG+LD +GLLL TNDG Sbjct: 118 PEKPEYILLNKPAGFFVTGNPEKGGKTVMELVARTTSAKVSPVGKLDNQAKGLLLFTNDG 177 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA+ L P ++Y+V + + ++ L ++KG+ I+G + + + Sbjct: 178 TLAKKLAKPKNGIRQIYQVTLNKNLTKEDLEGIEKGVYIEGSKVL-ITSISFIEDKPHNE 236 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L K + ++F+ ++V L R+ +G L G R ++K+ + Sbjct: 237 VGIELYSIKEHIVTRIFKSLGYEVESLDRVVFGGLTKKDLPRGRHRNLTKQEV 289 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 118/234 (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 TRLWLYHKPIGLVTTHSDPDGRSTVFDN-LPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D ++ + 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|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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 113/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K+++ + P R++K +A AGI SRRE + I V VNG+++ V TD I Sbjct: 5 IEYKDVLTDPDEPIRLNKFLANAGICSRREADEFITAGVVSVNGVVVTELGTKVKRTDEI 64 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 65 KFHDQPVNIERKVYVLLNKPKDCVTTSDDPQERKTVMDFVKGACKERIYPVGRLDRNTTG 124 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + GI + Sbjct: 125 VLLLTNDGDLASKLTHPKYLKKKIYHVYCDKNVTKADLDQIVSGITLDDGEIH-ADAVSY 183 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 184 ASETDKSQVGIEIHSGKNRIVRRIFEALGYRVIKLDRVYFAGLTKKGLRRGDWRYLTEQE 243 Query: 241 L 241 + Sbjct: 244 V 244 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 80/237 (33%), Positives = 125/237 (52%), Gaps = 3/237 (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 + D GR TV D I R+ VGRLD +T GLLLLTNDG + + Sbjct: 62 YFLLYKPRGTISAVT-DDKGRKTVTDLFHHIPQRIFPVGRLDYDTSGLLLLTNDGEFSYM 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTV 191 L P + + Y R G + L L++GI ++ + +T +K A + Sbjct: 121 LTHPKFKIDKTYIARVKGVPTIEGLKKLQRGIKLEDGKTAPAKVSMTSFDEKAGKAICEI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + EG+NR+++++FE V +L R + L L G RE+SK +++ Sbjct: 181 TIHEGRNRQVRRMFEAIGTPVVKLKRERFAFLDLFGLAPGEYRELSKHEVKQLRVLA 237 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 58/235 (24%), Positives = 100/235 (42%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ + + GI SR E+++ + RVK+NG + + V D I D + E Sbjct: 3 IRIDRFLCHMGIGSRSEIKKYLKTCRVKLNGKFEKNSNTQVDIEKDEILFDDEIVIYKEF 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L + T P + VGRLDI+T G L+LTNDG + Sbjct: 63 TYLMLNKPKDFISATFDTKLPTVLDLLEFPYSNMELFPVGRLDIDTTGFLILTNDGKFSY 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V ++ +++ L+ GI + + + +K S + + Sbjct: 123 NVTNPKKKVNKKYFVTLRDEIISEQIEKLENGIYFEKEDFTTENAKV--EKISEKEINLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 + EGK ++K++ E+ +V L ++ G L L G RE++ L E Sbjct: 181 ISEGKFHQVKRMLEYVENEVVELKKVCIGNLNLDDSLKLGEYREITNSELEEIFR 235 >gi|194477231|ref|YP_002049410.1| Pseudouridine synthase, Rsu [Paulinella chromatophora] gi|171192238|gb|ACB43200.1| Pseudouridine synthase, Rsu [Paulinella chromatophora] Length = 242 Score = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 69/235 (29%), Positives = 124/235 (52%), Gaps = 3/235 (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 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGL 130 L +KP G++++ DP GR T+ D +P ++ +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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + ++EG+ R+I++ F V L RI +LG+L G R+++ L L Sbjct: 184 IVMKEGRKRQIRRTATFLGHPVIDLQRIGIASIRLGSLPEGRWRKLNSYELSASL 238 >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 (403), Expect = 4e-37, Method: Composition-based stats. Identities = 91/293 (31%), Positives = 136/293 (46%), Gaps = 10/293 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIE 61 + + +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV S + Sbjct: 36 KNEMKTTSAEGEKLQKVLARAGQGSRREIESIIAENRVSVDGKIATLGDRINVNSGVKVR 95 Query: 62 VDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +DG + + L Y L T H + +R I+VGRLDI Sbjct: 96 IDGNLINLTQAQKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGARWIAVGRLDI 155 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLLL T DG LA L PS + R Y VR G VD LN LKKG+ ++ + Sbjct: 156 NTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGAVDDAMLNRLKKGVQLEDGPANFKE 215 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 + G N W V L EG+NRE+++++E +V+RLIRI YG +L L G +E Sbjct: 216 IKFVGGVGMNQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKNLPRGGWQE 275 Query: 236 V---SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 + LRE +G E +++++ +T + + Sbjct: 276 MELADVNYLRELVGLPPETETKLDMNKQRRKPKTGKIRKAVKRYSELSKRYKK 328 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 68/255 (26%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNSKISSDHTEDTIRLSKRMAQLGLCSRREADGHIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENCWEGDTSRISFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGDKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 71/255 (27%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q RV VNG V D I Sbjct: 1 MNSKISSDHTEDTMRLSKRMAQLGLCSRREADGYIEQGRVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E+D P+ Y L+T + +G + P Sbjct: 60 ELDKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +AR L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIARQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 85/259 (32%), Positives = 125/259 (48%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N TP+R+ K++A+ GI SRR++E I Q RV+VNG + D I Sbjct: 1 MRRIN-QNTENTPERLQKLLAKYGIGSRRKIEEFIEQGRVRVNGKVAT-IGDKATDKDKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I +GRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVIIYHKREGEVCTSKDEKDRKTVFDSLPRLAKSRWIMIGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS + R Y VR +GQ + 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 85/255 (33%), Positives = 132/255 (51%), Gaps = 13/255 (5%) 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKI-- 240 + V L EGKNR+I+++ + + V +L R + G QL +L +G R + Sbjct: 182 QLQVILTEGKNRQIRRIVQQMGFNVLKLHRTAIGLIQLTPSNDPSLASGHYRFLKSVEID 241 Query: 241 -LREQLGPHLLEEAQ 254 L+ + + +EA Sbjct: 242 FLKNHVNLAIGKEAA 256 >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 = 159 bits (403), Expect = 4e-37, Method: Composition-based stats. Identities = 88/299 (29%), Positives = 125/299 (41%), Gaps = 6/299 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E I + RV VNG + V D I +DG + E Sbjct: 3 EKLQKVLARAGQGSRREMETRIREGRVLVNGEVAT-LGDRVSVKDTITIDGYSIIATEAG 61 Query: 72 --RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R + + T + 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 V L EG+NRE+++++E KVNRL R+ +GP L G E+ + + Sbjct: 182 YVCLMEGRNREVRRLWESQGVKVNRLKRVRFGPVFLPSKAKVGRWVEMEETDVNSLCAMV 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 L+ +++ E + S K KK R Sbjct: 242 DLKLSELTPKTQQEKLELKRHKNKATAGGARRAPPKGFDWQSNDKPEFKPKKPGKRSFR 300 >gi|300214283|gb|ADJ78699.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713] Length = 240 Score = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 118/234 (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 TRLWLYHKPIGLVTTHSDPDGRSTVFDN-LPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KPIG+V+ D ++ + 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|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 = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 124/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >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 = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 62/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I Q V V+G ++ V IE+D Sbjct: 1 MRLSKRMSELGLCSRREADEWIEQGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQ 60 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 61 VTILLHKPVGYVSGQAEDGYEPAAVLITRANQWSGDRSQIRFSPQHLHALAPAGRLDIDS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 121 TGLLVLTQNGRIAKQLIGEQSDIDKEYLVRVRYGEHLIDIDQHFPAESLAKLRHGLELDG 180 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 181 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCEMVGLEVIGLKRVRMGRVMLGALP 236 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 237 QGQWRYLSPDE 247 >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 = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 58/241 (24%), Positives = 107/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K + + P R+++ +A +G+ SRR+ ++ I VK NGI + V TD+I Sbjct: 42 IKYYKVEPNSNGPIRLNRYLANSGLCSRRKADKYIQTGLVKKNGIPVTEFGTRVNRTDNI 101 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +R + L L + TT+ + + + ++ VGRLD NT G Sbjct: 102 TFCNSLVRSEHKVYLLLNKPKNCVTTTNDPQGRLTVMDLIKTACKEQIFPVGRLDRNTTG 161 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG L+ L P ++Y V + +D + L KGI ++ ++ Sbjct: 162 VLLLTNDGKLSAKLTHPRHMKKKIYHVWLNRGIDAADIKKLSKGIQLEDGGIWADDISYV 221 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + G+N I+++FE + V +L R+ + L G ++ + Sbjct: 222 N-DKDKTQINIEIHSGRNHIIRRMFESLGYHVVKLDRVYFAGLTKKKLKKGQWCFLNDRE 280 Query: 241 L 241 + Sbjct: 281 V 281 >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 = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 85/288 (29%), Positives = 131/288 (45%), Gaps = 10/288 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + + V V++ I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIETIIEAGRVSVDGKIAKLGDRVEVVAGMKIRLDGHVISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E + ++V ++ + R R ++ Sbjct: 242 ELVELKPETTSKVAVEKDRRRVKANQIRRAVKRHSQVSPTRRSGSRNN 289 >gi|227326052|ref|ZP_03830076.1| 23S rRNA pseudouridylate synthase B [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 294 Score = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 82/293 (27%), Positives = 124/293 (42%), Gaps = 7/293 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIEVIIQAGRVSVDGKIATLGDRVEVTKATKIRIDGHVVTVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E +V+RLIR+ YG L + G E+ + L Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDITLPKGIPRGGWTEMPLEQLNYLR 241 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 L V+ + ++ + + Sbjct: 242 ELVQLPAETVSKLPVERERRRVKANQIRRAVKRHSQINSAPARRTSPKPKRNG 294 >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 = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 65/239 (27%), Positives = 110/239 (46%), Gaps = 2/239 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 R++K +A GIASRRE +R++ V +NG + V V D + V G L Sbjct: 6 TTEEGIRINKYLALCGIASRRESDRLVEAGEVMINGRIARTQGVKVHPGKDEVVVKGRIL 65 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E ++++ + T + + ++ S+ R+ VGRLD + GLLLLTND Sbjct: 66 ALPEEKKVYILLNKPRNIITTNRDEKDRETVLDIVSVPQRIFPVGRLDRKSTGLLLLTND 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS+ + Y + + +L L G+ ++ Sbjct: 126 GDLAHRLMHPSSLVEKEYLAQLEKPFLEKELKNLTGGMRLKDTGEKVSSCKAKLLSDGMQ 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V + EGKN +++++F + V +L R+SY ++G L G R ++KK ++E Sbjct: 186 VL-VTIHEGKNHQVRRMFWSLGYDVKKLDRVSYAGLKVGRLRRGEWRFLNKKEVKELYQ 243 >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 = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 68/240 (28%), Positives = 115/240 (47%), Gaps = 2/240 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIE 61 KN+ ++ R+++ IA +GI SRR+ + +IA V VNG ++ + D + Sbjct: 217 RKNVAVKDDGLIRLNRYIANSGICSRRKADELIAAGVVSVNGEVVSELGHKIDPAKDQVR 276 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 +G L++ ++ + L + TT + R+ + + R+ VGRLD NT GL Sbjct: 277 YNGELLKREKKVYVLLNKPKDYITTTDDPQERRTVMQLVEKASRERIYPVGRLDRNTTGL 336 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL+TNDG LA L P ++Y V + Q LN ++ G+ ++ V+ Sbjct: 337 LLMTNDGELADKLSHPKNGITKIYHVELSRSLSQGDLNKIQFGLELEDGIIKPDSVSYVA 396 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GS V + + GKNR ++++FE + V +L R+ YG L G R + + L Sbjct: 397 G-GSKREVGIQIHSGKNRIVRRIFEHLGYDVVKLDRVVYGNLTKKDLPRGRWRFLEEHEL 455 >gi|269467788|gb|EEZ79546.1| 16S rRNA uridine-516 pseudouridylate synthase [uncultured SUP05 cluster bacterium] Length = 241 Score = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 86/238 (36%), Positives = 134/238 (56%), Gaps = 7/238 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 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 + VGRLD+NT GLLL TN+G Sbjct: 61 EEETKVIILNKQAGVICSNKDKEGRKSAYDLLPKESRW-VMVGRLDLNTSGLLLFTNNGD 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 V L+EGK RE+++++E +KV+RLIRI +G +L L A + K ++ L Sbjct: 180 KVVLKEGKKREVRRLWEALGFKVSRLIRIRFGEIRLPDSLRANQYEYLKSKQVQSLLK 237 >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 = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 73/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 323 ELNPAEVANILKWAEM 338 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 73/255 (28%), Positives = 126/255 (49%), Gaps = 6/255 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K+K P+R+ KV+A +G+ SRRE+E I V+VNG + + D + Sbjct: 90 LKEKRTDLSRIQPERLQKVLAASGVGSRREMEEWINNGWVQVNGHVAR-LGEKITPNDQV 148 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + G ++ RL Y + +V+ S + 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 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + +G N W V ++EG+NRE++++FE V+RL+R+ +GP L L G E Sbjct: 269 IYEQGGEGVNKWYNVIIKEGRNREVRRLFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYE 328 Query: 236 VSKKILREQLGPHLL 250 ++ + + + Sbjct: 329 LNPMEVANIMKWADM 343 >gi|220912302|ref|YP_002487611.1| pseudouridine synthase [Arthrobacter chlorophenolicus A6] gi|219859180|gb|ACL39522.1| pseudouridine synthase [Arthrobacter chlorophenolicus A6] Length = 403 Score = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 85/236 (36%), Positives = 126/236 (53%), Gaps = 4/236 (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 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLT 125 E +++KP G+V+T DPDGR + D L + + 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 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + V L GKNR ++++F+ + V RL+R+ GP LG GS R + K+ + Sbjct: 339 HVLIEVVLHSGKNRIVRRMFDAVGFPVQRLVRVKVGPIGLGDQRQGSIRNLGKQEV 394 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 73/256 (28%), Positives = 129/256 (50%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ F P+R+ KV+A +G+ SRRE+E I+ V VNG + + V DH+ Sbjct: 87 LKERRSDLSRFEPERLQKVLAASGVGSRREMEEWISNGWVTVNGRVAQ-LGEKVTPDDHV 145 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 146 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 205 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G++ +++ +L + ++++ Sbjct: 206 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELTTEQMRVLTEEGVMLEDGLAKVE 265 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 266 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 325 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 326 ELNPAEVANIIKWADM 341 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 80/320 (25%), Positives = 130/320 (40%), Gaps = 10/320 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ K++A AG+ SRR++E +I Q RV VNG+ ++ TD + V+G Sbjct: 207 LTAEDDAPKLHKILADAGLGSRRDMEDLILQGRVSVNGLPA-HIGQRILPTDQVRVNGKL 265 Query: 67 LRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +++ L + +V+ + + ++VGRLD NTEGLL Sbjct: 266 IQRKLPSKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEGLL 325 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G +A P R Y VR G++ + L +GI + ++ Sbjct: 326 IFTTSGDIANRFMHPRYGVEREYAVRTLGELPESDRQKLLQGIRLDDGEANFLRCADGGG 385 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +G N W V L EG+NRE++++FE N V+RLIR YG F L L G +EVS + + Sbjct: 386 EGVNHWYHVALTEGRNREVRRMFEAVNLTVSRLIRTRYGSFVLPRGLKRGRWQEVSAEDV 445 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE----VPDDFTRMKKNSSQKNGLSK 297 R +G L+ + S +R + + + Sbjct: 446 RGLMGLLGLKVPSASASGGQGSQGGRQGNRRREAQPVLMGPMSSGFTGEATFQSRGQGIE 505 Query: 298 QKKLATPVHRRNLASNVWMA 317 A P RR Sbjct: 506 NGNRAMPAPRRQSNPRQPDP 525 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 73/256 (28%), Positives = 129/256 (50%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ F P+R+ KV+A +G+ SRRE+E I+ V VNG + + V DH+ Sbjct: 87 LKERRSDLSRFEPERLQKVLAASGVGSRREMEEWISNGWVTVNGRVAQ-LGEKVTPDDHV 145 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 146 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 205 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G++ +++ +L + ++++ Sbjct: 206 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELTTEQMRVLTEEGVMLEDGLAKVE 265 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 266 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 325 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 326 ELNPAEVANIIKWADM 341 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 102/231 (44%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR E +R+I RV+V G ++ NV + I V+G LR + Sbjct: 1 MRLDKYLSQVTDYSRSEGKRLIRSGRVRVAGHVVIDPRENVDNNAVIVVNGQQLR-SASP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G ++ D + + ++ GRLDI+T GLLL+++DG Sbjct: 60 RYFMLHKPDGYISATKDRQHLTALELFDEDNVDQLHIAGRLDIDTTGLLLVSDDGQWCHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + + + +++GI + + + L + Sbjct: 120 VTSPKSDCKKTYRVEAVDPITPEAIKNIEQGIHLSQEKKPTLPADLDLL----DEHTARL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G R ++ + Sbjct: 176 TITEGKYHQVKRMFAAVGNKVECLHRERIGNIVLDDDLAPGEYRSLTAAEI 226 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 60/237 (25%), Positives = 107/237 (45%), Gaps = 6/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A +GI +R+EV+ ++ ++R+ VN ++ A ++ D + DG + E Sbjct: 1 MRIDKFLANSGIGTRKEVKELLKKKRISVNDEVVTEAKTHIDEDNDFVAFDGKRIEFKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + T + P + VGRLD +TEGLL+LTNDG +A Sbjct: 61 LYIMLNKPQDVISATDDERHRTVLDLLEEPLTKVGLFPVGRLDKDTEGLLVLTNDGKMAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + +++ +L+ G+ ++ +V T+ V + Sbjct: 121 ELLSPKKHVPKRYYVELKKTLSKEEAAILENGVELETFTTKPAKVEFITEDK----VYII 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + EGK ++K++F+ +V L R G L L G RE++ L + G Sbjct: 177 ISEGKYHQVKRMFKCVGNRVLFLKRTGMGNLGLDENLAPGEYRELTSDELEQLQGLK 233 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 96/230 (41%), Gaps = 4/230 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 QR+ I+ +R +++R+I RV ++ + + A + T+ + VDG + Sbjct: 2 SQRLDAFISNNSDFTRSQIQRLIKAGRVHIDDKPVSQGAQKLNGTESVRVDGELIEPLSL 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + +LP + I+ GRLD++T GL+LLT+DG Sbjct: 62 RYLMLHKPQGYVCANTDSEHPTVLDLIDLPRKQTLQIA-GRLDLDTTGLVLLTDDGQWNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + YRV + D + GI + G + L+ NAW+ Sbjct: 121 RITSPRRECSKRYRVTTAEPIAADTAHYFTDGIQLHGEKHKTRPAHLELIDDYNAWLD-- 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L R ++ + Sbjct: 179 IHEGKYHQVKRMFAATGNKVIALHRTRIGSITLDNQLTPAHWRPLTPAEI 228 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 50/231 (21%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E +++ V V+GI+ + + V +E G L + Sbjct: 1 MRLDKFLCDALGTTRKESTQLLKSGDVTVDGIVRKSGSCQVTELSQVEWQGRALTLSGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + ++ + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLHKPQGYVCSHEDS-FNQTAFVLLDEANQRDLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + YRV + + KGI ++G Q+ + Q+ V + Sbjct: 120 VTSPKHHCEKTYRVWLADPIAAEYTEQFAKGIELRGERDLTRPAQLEIIDQQQ----VLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R G L L G +R +++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVVGLHRERVGDIVLDPGLEPGESRYLTESEI 226 >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 = 159 bits (402), Expect = 5e-37, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 91/228 (39%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ SR+EV+ +I +RV+V G L+ NV+ +EV+ Sbjct: 1 MRLDKYLSHLQFGSRKEVKALIRDKRVRVAGDLITDPGYNVLPGIAVEVNDAQADGPLEV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + VGRLD +T GLLLLT DG L Sbjct: 61 DYLMNKPAGVITATEDPTQSTVLDLIRPHDYRPGLYPVGRLDKDTTGLLLLTTDGNLGHA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + Y + D L+ GI ++ QV + + + + Sbjct: 121 LLSPNRHIAKTYAATLAKTLTADMKQRLETGIDLKDFTTAPAQVVVLPDTDGKR-IQITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 EGK ++K++ + +V L RI+ GP L L AG R ++ Sbjct: 180 TEGKFHQVKRMLLAVDNEVTALTRIAMGPLSLPADLAAGEYRALTDDE 227 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 91/286 (31%), Positives = 133/286 (46%), Gaps = 10/286 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGV- 65 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 66 ----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P++K L Y L T + +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-GTLLAGSTREVSKKI 240 G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ + Sbjct: 244 GTGLNQWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKSLPRGGWEEMGLEQ 303 Query: 241 ---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 LRE +G E +V++ + + Sbjct: 304 VNYLRELVGLPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 59/236 (25%), Positives = 103/236 (43%), Gaps = 4/236 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ + +R+ ++ ++ RV+V +++ A V + VD P+R Sbjct: 1 MRIDRFLSHMNVGTRKTLKPLLKAGRVRVADKVIKEAKYQVTPETVVYVDDEPIRYQTNF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 WL +KP G+++ +DP + VGRLD +T GLLL+TNDG LA Sbjct: 61 -YWLLNKPAGVISATTDPQKTVMDLFAPADYREDLFPVGRLDKDTTGLLLITNDGDLAHD 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTV 191 L P + YR + G V G+ ++ Q+T+ + + + V Sbjct: 120 LLSPKKHVAKTYRAKIAGVVTAADQAQFAAGLKLRDFDAQPAQLTILRTDTARQESLIEV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L RI GP L L G R ++ + Sbjct: 180 EIHEGKFHQVKRMFHAVGKEVLTLERIKMGPLSLPADLKRGQYRALTTTEIDALQR 235 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 114/249 (45%), Gaps = 13/249 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ + + SR EV++MI RV V+G + A + + + +DG + Sbjct: 2 EKAMRLDRYLVEMKKGSRSEVKKMIKSGRVSVDGEICREAERKIQPSASEVSLDGTQVGY 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A L +V+ D ++ V + + VGRLDI+TEGLLL+TNDG Sbjct: 62 AAYEYFMLNKPAG-VVSATEDGRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQ------ 182 LA L P + Y R G++ ++ + K+G+ ++ ++ + + Sbjct: 121 LAHRLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDGTRTLPARLLIQKEAGTAEE 180 Query: 183 ---KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 S + + + + EGK ++K++FE +V L R+S G +L +L G+ R +++ Sbjct: 181 GKADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLYESLAPGAYRRLTE 240 Query: 239 KILREQLGP 247 + + + G Sbjct: 241 EEISKLQGE 249 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 85/259 (32%), Positives = 125/259 (48%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N TP+R+ K++A+ GI SRR++E I Q RV+VNG + D I Sbjct: 1 MRRIN-QNIENTPERLQKLLAKYGIGSRRKIEEFIEQGRVRVNGKVAT-LGDKATDKDKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 DG L + + + + T+ + D ++ SR I +GRLD Sbjct: 59 SFDGKALHSYGQPMTRPRVIIYHKREGEVCTSKDEKDRKTVFDSLPKLAKSRWIMIGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS + R Y VR +GQ + 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >gi|145635048|ref|ZP_01790754.1| predicted methyltransferase [Haemophilus influenzae PittAA] gi|145267656|gb|EDK07654.1| predicted methyltransferase [Haemophilus influenzae PittAA] Length = 357 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKIEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|308389478|gb|ADO31798.1| putative pseudouridine synthase [Neisseria meningitidis alpha710] Length = 349 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 73/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFTHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 323 ELNPAEVANILKWAEM 338 >gi|257462423|ref|ZP_05626837.1| ribosomal small subunit pseudouridine synthase A [Fusobacterium sp. D12] Length = 231 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 108/229 (47%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR+EV+ ++ +++++VN ++ + D + + L + Sbjct: 1 MRMDKFLVECGLGSRKEVKELLKKRKIQVNASIVTSGQQIIDEEKDEVFYEKEKLVYKKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY K + + I ++ VGRLD +TEGLLL TNDG L Sbjct: 61 RYYILYKKAGYVTALEDSKERTVMELLPEWVIRKDLVPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y V + ++ + L++G+ I QV ++ +++ Sbjct: 121 QLLSPKSHVDKTYHVCLEKIITEEAIEQLRQGVRIGDYTTLPAQVEQLEEQK----ISLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E + KV+ L R+S+G LG L G REVS + + Sbjct: 177 IQEGKFHQVKKMLEAVDNKVSYLKRVSFGRLVLGDLKPGEVREVSLEDI 225 >gi|42523444|ref|NP_968824.1| pseudouridylate synthase [Bdellovibrio bacteriovorus HD100] gi|39575650|emb|CAE79817.1| pseudouridylate synthase [Bdellovibrio bacteriovorus HD100] Length = 245 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 69/247 (27%), Positives = 115/247 (46%), Gaps = 18/247 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E+ R+SK++A GI SRRE + I++ V VNG ++ + V I ++ Sbjct: 1 MSEDNK-VRLSKLMAEKGICSRREADDYISRGLVMVNGEVVSQLGTKVSPDVKITLEAQA 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------------GR 113 L++ +R L +KP+G V+ +P + + P GR Sbjct: 60 LKQQKRLATILLNKPVGYVSAQPEPPYQPAIKLITPQNQFGNSKTRLKEEHFKGLAVAGR 119 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI+++GLLL T DG +A+ + ++ + Y VR G + DKL LL G+ + G Sbjct: 120 LDIDSQGLLLFTQDGRIAKKIIGEESKVEKEYIVRVQGTLPPDKLKLLNFGLSLDGKKLK 179 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V + + L+EGK R+I+++ E KV L R+ G +LG L G Sbjct: 180 PAKVEWLNEDQ----LRFILQEGKKRQIRRMCELVGLKVTGLKRVRIGKIRLGQLPEGQW 235 Query: 234 REVSKKI 240 R + + Sbjct: 236 RFLEEDE 242 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 70/234 (29%), Positives = 111/234 (47%), Gaps = 7/234 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 P R+ + +A G +R +V+ M+ + RV++NG ++ A V D +EVD + A Sbjct: 16 PMRLDRFLAEMGYGTRTQVKDMVKKGRVRMNGEAVKDADRKVNPESDIVEVDRSRVAYAR 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +V+ D + V ++ + VGRLDI+TEGLLL+TNDG LA Sbjct: 76 MEYYMLNKPQG-VVSATEDRKYPTVVGLIREALRKDLFPVGRLDIDTEGLLLITNDGELA 134 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN---A 187 L P +VY G + +D + ++GI ++ ++ + 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|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 (402), Expect = 6e-37, Method: Composition-based stats. Identities = 80/272 (29%), Positives = 127/272 (46%), Gaps = 9/272 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P+R+ KV+A+AG+ASRRE+E ++ R+ VNG+ + D ++++G + Sbjct: 89 EPERLQKVLAQAGVASRREIEELVVAGRISVNGLPA-SLGQKIGPGDRVKLNGKLIPLRF 147 Query: 72 RTR----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L + +V+ + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE++++FE V+RL+R+ YGP +L L G E+ + + Sbjct: 268 WYRVTLAEGRNREVRRMFEAVGLTVSRLMRVRYGPVELPARLKRGMWMELPE---ADACA 324 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 L +V+ A E R + E Sbjct: 325 LAGLPPPRVDPSARGARREKAPRLHHTLPHER 356 >gi|239993811|ref|ZP_04714335.1| pseudouridine synthase (makes pseudouridine2605 in 23 S RNA) [Alteromonas macleodii ATCC 27126] Length = 298 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 85/307 (27%), Positives = 131/307 (42%), Gaps = 21/307 (6%) 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----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L L + H + R I+VGRLD+NT GLLL TNDG Sbjct: 61 QPICRVLMYNKPEGELCSRHDPEGRDTVFDRLPAIRLGRWITVGRLDMNTSGLLLFTNDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------QVTLDTQ 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 ESMNRWYNVTLKEGRNREVRRLWESQGVQVSRLIRVKYGPIELQKRLPQGAWVEL----- 235 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 G + + ++ P + + + + R K + K+ Sbjct: 236 ----GLEDVNALRSHVQLPDETQTMVNVRQGKLDHARLSRMRRSVKKHKVRKQQGLNKRA 291 Query: 302 ATPVHRR 308 P R+ Sbjct: 292 GRPAKRK 298 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 81/242 (33%), Positives = 125/242 (51%), Gaps = 1/242 (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 RE 243 + Sbjct: 418 GD 419 >gi|295115835|emb|CBL36682.1| ribosomal small subunit pseudouridine synthase A [butyrate-producing bacterium SM4/1] Length = 346 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 62/250 (24%), Positives = 112/250 (44%), Gaps = 14/250 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ + + SR EV++MI RV V+G A + + + +DG + Sbjct: 2 EKAMRLDRYLVEMKKGSRSEVKKMIKSGRVSVDGETCREAERKIQPSASEVSLDGTQVGY 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A L +V+ D ++ V + + VGRLDI+TEGLLL+TNDG Sbjct: 62 AAYEYFMLNKPAG-VVSATEDGRHKTVVSLIEDAKRRDLFPVGRLDIDTEGLLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKG---- 184 LA L P + Y R G++ ++ + K+G+ ++ ++ + G Sbjct: 121 LAHRLLSPKKHVDKTYFARVEGRLPENAIEQFKEGLTLEDGTRTLPARLVIQKASGTAED 180 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 S + + + + EGK ++K++FE +V L R+S G +L L G+ R ++ Sbjct: 181 DGKADSSLSEIELTIHEGKFHQVKRMFEAVGCRVVYLKRLSMGSLRLDESLAPGAYRRLT 240 Query: 238 KKILREQLGP 247 ++ + + G Sbjct: 241 EEEISKLQGE 250 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 107/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 237 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 296 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 297 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 356 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI ++ Sbjct: 357 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIH-ADAISY 415 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 416 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 475 Query: 241 L 241 + Sbjct: 476 V 476 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 69/240 (28%), Positives = 111/240 (46%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK--- 69 +RV K++++ GIASRR+ E +I RVKVNG L++ V D +EVDG + Sbjct: 3 ERVQKILSQWGIASRRKAESLILAGRVKVNGNLVK-LGDKVDPYCDRLEVDGKRIEPTQR 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTND 127 E + + + T + + + + + VGRLD N+ G LLLTND Sbjct: 62 PEFLYILVNKPLGVVSTCDDPQNRPTVLELLPQELRKGTGIHPVGRLDFNSTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y V G + + L ++G+++ G QV + + Sbjct: 122 GELTLRLTHPRYHLPKTYEVSISGDISETSLQQWREGVMLMGKKTLPAQVEVIHRCRQQT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKILR 242 + V L EG+NR+I+++ E + V RL R + G L +L +G R + +R Sbjct: 182 CLKVILIEGRNRQIRRIVEHLGFSVLRLHRTAVGSIALHRPHEPSLPSGHYRLLKASEIR 241 >gi|319794363|ref|YP_004156003.1| pseudouridine synthase [Variovorax paradoxus EPS] gi|315596826|gb|ADU37892.1| pseudouridine synthase [Variovorax paradoxus EPS] Length = 601 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 76/341 (22%), Positives = 131/341 (38%), Gaps = 6/341 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E +I Q R+ VN + D ++++ Sbjct: 175 KRVLLPEADSPKLHKVLAQAGLGSRLEMEALILQGRISVNNEPA-HIGQRIQYGDQVKIN 233 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 234 GKPIRYRIAPPPPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTE 293 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL ++ G LA L P R Y VR G + ++ L G+ ++ + Sbjct: 294 GLLLFSSSGDLANQLMHPRFGLEREYAVRVLGALSSEEKQKLLDGVRLEDGMAQFGTIEE 353 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +GSN W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 354 GGGEGSNCWYRVTISEGRNREVRRLFESVGHAVSRLIRIRYGAMVLPRGLKRGAWMELDE 413 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + +R A+ R + + + Q ++ Sbjct: 414 RDIRALFQASGGAAARPAAPQQRGPGGPEGGGRNGRNKKRRGNRNGGGQGQGQGQQQPRE 473 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + ++ G + P Sbjct: 474 MRDDGREAPIPNPLGDGRPPRGDRGGRANRGGGGGGNGGPP 514 >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 = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 107/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K + G+ +RR+V+ +I++ + +N + + D I++ L+ + Sbjct: 1 MRLDKFLTECGVGTRRDVKNIISKNEITINDKKVNSPKEKIDLENDVIKIGERVLKYKKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + I + VGRLD +TEGLLL TN+G +A Sbjct: 61 RFYIMNKTSGFITATEDTREKTVMELLPEWVIKKDLFPVGRLDKDTEGLLLFTNNGKIAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ ++D+ +NLL++G+ I G +V + +N + + Sbjct: 121 ELLSPKKHVDKTYLVKLLKEIDKKSVNLLEEGVDIGGYITKPSKVQII----NNTEILLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++KK+ E KV L R+S+G +LG L G +EV K + Sbjct: 177 ICEGKFHQVKKMLEAVGNKVIYLKRLSFGNLELGDLPLGEVKEVDLKDI 225 >gi|291563383|emb|CBL42199.1| ribosomal small subunit pseudouridine synthase A [butyrate-producing bacterium SS3/4] Length = 265 Score = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 65/241 (26%), Positives = 110/241 (45%), Gaps = 12/241 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ K +A G +R E++ MI + R+ VNG+++++ + D I +D P+ Sbjct: 19 EKAIRLDKYLADMGKGTRTELKEMIRRGRITVNGVIVKKPETKIKKGEDTICLDNAPVEY 78 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +++ D + V + VGRLDI+TEGLLL+TNDG Sbjct: 79 VELEYYLLNKPQG-VISATEDRRRETVVDLIDEKSRKDLFPVGRLDIDTEGLLLITNDGA 137 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKG---- 184 LA L P +VY R G V + + ++G+ + ++ + +K Sbjct: 138 LAHRLLAPGHHVDKVYEARCKGFVPDEAVQRFREGMTLADGLSCMPSELEILERKPEDPE 197 Query: 185 ----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 + + V + L EGK ++K++ E V L R+S GP +L L G R+++ K Sbjct: 198 TGTAAESLVRLTLHEGKFHQVKRMMEETGCPVLHLKRLSMGPLKLDDALKTGEYRKLTDK 257 Query: 240 I 240 Sbjct: 258 E 258 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 54/231 (23%), Positives = 103/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K I+ SR E +++I + + +N L++ V D + +DG L + Sbjct: 1 MRLDKFISTTTTLSRAEAKKVIKKG-ILINDKLIKSPDYKVDEINDQVILDGKRLVYQKY 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T + +V VGRLD +TEGL+LLTNDG LA Sbjct: 60 VYIMMNKPQDTISATEDAIEKTVVDILKEEDRIHKVFPVGRLDKDTEGLMLLTNDGELAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P ++ Y V G++ ++ L +++ G+ ++ ++ + + + Sbjct: 120 RLISPKKDVVKKYYVEVSGELKEEHLPIIEAGVTLEDGYKCKAAKLEILESNEDESKANI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++ + V L R+S G +L L G R ++++ L Sbjct: 180 YITEGKFHQVKRMMKSLGTTVTYLKRLSIGSLKLDENLKLGDYRYLTEEEL 230 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 75/255 (29%), Positives = 128/255 (50%), Gaps = 6/255 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K+K P+R+ KV+A +G+ SRRE+E I V+VNG + + D + Sbjct: 99 LKEKRTDLSRIEPERLQKVLAASGVGSRREMEEWINNGWVQVNGRVA-VLGEKITPEDQV 157 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 158 TVKGSAIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 217 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLL+LT G L + PS + R Y VR G++ Q+++N L +G++++ + Sbjct: 218 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELTQEQMNALSEGVMLEDGLARVER 277 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTRE 235 + +G+N W V L+EG+NRE++++FE V+RL+R+ +GP L L G E Sbjct: 278 IYEQGGEGANKWYNVVLKEGRNREVRRLFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYE 337 Query: 236 VSKKILREQLGPHLL 250 ++ + + + Sbjct: 338 LNPMEVANIMKWADM 352 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 108/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 245 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 304 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 305 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 364 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + GI ++ Sbjct: 365 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIH-ADAISY 423 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 424 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 483 Query: 241 L 241 + Sbjct: 484 V 484 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 69/241 (28%), Positives = 113/241 (46%), Gaps = 13/241 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++++ GIASRR+ E+MI RVKVNG +++ D+IEVDG+P+R R Sbjct: 3 ERLQKILSQWGIASRRQAEQMIIAGRVKVNGKIVQ-LGEKAQPDLDNIEVDGLPIRPEAR 61 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTND 127 L L + T + + VGRLD ++ G LLLTND Sbjct: 62 PSPIYLLLNKPMGVISTCSEPRKRSKVLDILNAELRNGKGIHPVGRLDADSTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSN 186 G + L P + Y+V G + L L ++GI++ G +V + + S Sbjct: 122 GRVTYCLTHPKYCLSKTYQVLVEGHPQESILKLWRQGIILSGKKTLPAEVKVLKECNSSQ 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKIL 241 + V + EG+NR+I++V + +V +L R + G +L L G R++ + Sbjct: 182 TLLEVVISEGRNRQIRRVADKLGHRVLKLHRTAIGQIKLQLPGESVLPIGHYRQLKDFEI 241 Query: 242 R 242 Sbjct: 242 E 242 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 104/230 (45%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ +AG SR +V+R+I ++V V+GIL +R +NV ++ I V G L Sbjct: 1 MRLDKLLGQAGYGSRNQVKRLIRSRQVYVDGILADRDNLNVDASLQTITVSGKELEHTPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYLMNKPAGVVSARKDKEHQTVIDLITPEDQRDGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+V + Q+ + + + + Sbjct: 121 AMLHPRYHVAKTYYVEVNDVLGPDAPAFFESGVVFEDGTVCKSAQLEILSSARDKSSAHI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++KK+F + KV L RIS+G F+L + GS R +++ Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGAFKLDEGIAVGSYRTLTETE 230 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 103/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ SR +V+ ++ ++++ VN V V D I+ +G + + Sbjct: 1 MRLDKFLVECGLGSRTQVKLILKKKQISVNSNSETSPKVQVDEYRDEIKYNGTLVSYEKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + + V VGRLDI+T GLLL+TN+G LA Sbjct: 61 VYYMLHKPKGVISATDDPSHKTVLDLLDKTARDKAVFPVGRLDIDTTGLLLITNNGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 + P + Y + G + +D + KGI+++ ++ Q + V Sbjct: 121 KMLSPKKHVDKCYEAKISGIMTEDDILAFDKGIILKDFTCLPALLEIVEVNQVKKQSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S G QL L +G R ++ K + Sbjct: 181 ITIKEGKFHQVKRMVAACGKEVLELKRLSMGNLQLDKQLESGQWRRLTIKEIE 233 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 48/229 (20%), Positives = 91/229 (39%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A ++R+E +++ V V+G + + +V V + L Sbjct: 1 MRLDKFLCDALGSTRKEATQILKSGDVTVDGKVQKSGSVQVTEASVVAWQERQLSLTGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGFNQ-TAFVLLDEVNMRGLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V D L GI ++ + ++ V + + Sbjct: 120 ITSPKHKCDKTYRVWLADAVQADYAEKLAHGIELRNERELTLPAHMELVNADENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EGK ++K++F KV L R G L L G R +++ + Sbjct: 180 HEGKYHQVKRMFAALGNKVEALHRERVGDIVLDESLEPGEYRYLTEAEV 228 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 70/240 (29%), Positives = 105/240 (43%), Gaps = 13/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK--- 69 +R+ K+I+ G+ASRR E MI RVKVNG D IE+DG L Sbjct: 3 ERLQKIISHWGVASRRHAEEMILSGRVKVNGDRAY-LGQKADPKCDRIEIDGRALHPSSQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTND 127 + L L + T ++ + + VGRLD ++ G LL+TND Sbjct: 62 PQPLYLLLNKPLGVVCTCAEPQGRKAVLDLLPRQMRVGQGLHPVGRLDSDSTGALLITND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSN 186 G L +L P + Y+V G + L ++GI++ G QV + S Sbjct: 122 GELTFLLTHPRYHVAKTYQVLVQGCPPESVLEQWRQGILLSGKNTLPAQVRPIGKPSRSQ 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKIL 241 + V LREG+NR+I++V E + V +L R + GP L L +G R + + Sbjct: 182 TLLEVVLREGRNRQIRRVAEALGYPVVQLHRTAIGPIYLNSTGKPELASGEYRSLKNSEV 241 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 78/295 (26%), Positives = 131/295 (44%), Gaps = 7/295 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV +NG + V + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSINGEIA-NLGDRVDADAKVRLDGRLVSIKSA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + +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-GTLLAGSTREVSKKILREQLG 246 W VGLREG+NRE+++++E +V+RLIR+ YG +L TL G E+ + + Sbjct: 181 WWHVGLREGRNREVRRLWESQEVQVSRLIRVRYGMIELPKTLPRGGWIELPLEQVNYLRQ 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ ++ S + +++ + K + + Sbjct: 241 LAGMDPETRSMIGTDKHSVARASQVRSAKIRRAVRKSKVGAATGSKRPKPTRTRS 295 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 112/231 (48%), Positives = 151/231 (65%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 PQR++K++ARAG+ASRREVERMI + R+ +NG + A + S + VDG P+ Sbjct: 26 NEPQRIAKLLARAGVASRREVERMIEEGRITLNGEAITTPATLLASLHGVAVDGAPVAAP 85 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL+L+HKP G +TT DP GR T++D LP+ RV+ +GRLD+ TEGLLLLT DG Sbjct: 86 APARLFLFHKPSGFLTTERDPRGRPTIYDKLPADLPRVMPIGRLDMTTEGLLLLTTDGEF 145 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 R +ELPST R YR R G V Q++L L +GI I GI YG ++ L+ + G N W+ Sbjct: 146 KRQMELPSTGVPRTYRARAFGDVSQNQLEDLFEGIEIDGIRYGQIEANLERRTGRNQWIE 205 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGKNRE+++V E +V+RLIR SYGPF LG L +G+ EV + L Sbjct: 206 MTLTEGKNREVRRVLEHLGLQVSRLIRTSYGPFHLGELPSGAVEEVRQHDL 256 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 74/241 (30%), Positives = 111/241 (46%), Gaps = 13/241 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 +R+ K++A GIASRR+ E+MI +RV+VNG + +D IEVDG P++ + R Sbjct: 3 ERLQKIMATWGIASRRQAEQMILAKRVRVNGNIA-HLGQKANPSSDDIEVDGKPIKPSHR 61 Query: 73 T---RLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTND 127 L L + T R+ + V VGRLD+++ G LLLTND Sbjct: 62 PVPIYLLLNKPIGVVSTCADPGGRRNVLDLLPRRLQKGQGVHPVGRLDVDSTGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-GSN 186 G L L P + Y+V G + L ++G+++ +V Q S Sbjct: 122 GELTFRLTHPRHHVPKTYQVWVQGHPPESVLQAWRQGVILSSRKTLSAEVRRLQQSIDSQ 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKIL 241 + V L EG+NR+I+KV E + V +L R + G QL L G R ++ L Sbjct: 182 TLLEVILFEGRNRQIRKVAEQLGYPVVKLHRSAIGSIQLNPPGKPELAPGRYRPLTPSEL 241 Query: 242 R 242 Sbjct: 242 E 242 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 63/229 (27%), Positives = 105/229 (45%), Gaps = 1/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAER 72 QR+ K+IA +GI SRR+ E +I Q +V VNG + D I V+G + + Sbjct: 4 QRLQKIIAESGICSRRKAEELIIQHKVLVNGFAAKIGDKANPENDQIIVNGYRIPKVIFN 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + + ++ + 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EG+NR+I+++ E F V L R++ +LG L G REV + L Sbjct: 184 MKEGRNRQIRRISEKFGHPVIDLKRVAISKIKLGNLQEGCWREVKEDEL 232 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 79/242 (32%), Positives = 120/242 (49%), Gaps = 4/242 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 K E R+ KV+A+AG+ASRR E++I + RV+V+G ++ R V V I V Sbjct: 74 KRAHSEAGEGVRLQKVLAQAGVASRRMAEKLIDEGRVEVDGKIVTRQGVRVDPNTSVIRV 133 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTE 119 DG + E + ++ +KP G+ +T D GR V D + R+ VGRLD TE Sbjct: 134 DGSRVIVNEDMQYFVLNKPRGVQSTMHDDMGRPCVGDIIGEKISAGQRLFHVGRLDAATE 193 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLLTNDG LA L PS + + Y G+VD + L+KGI + + Sbjct: 194 GLLLLTNDGELANRLMHPSYEVTKTYMATVVGEVDSKVMRELEKGIELDDGIAKADMAQI 253 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + L EG+ ++++ + + V RL+R QLG G+ R +++ Sbjct: 254 IDVWQGRSIVRIELHEGRKHIVRRMLKTAGFPVERLVRTKIHTVQLGEQTPGALRALNRA 313 Query: 240 IL 241 L Sbjct: 314 EL 315 >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 = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 93/290 (32%), Positives = 138/290 (47%), Gaps = 10/290 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V + I +DG Sbjct: 56 VKNPLVEGEKLQKVLARAGQGSRREIEAMIAENRVSVDGKIATLGDRIDVHAGVKIRIDG 115 Query: 65 VPL-----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + +K L Y L T H + SR I+VGRLDINT Sbjct: 116 HLINLLHAQKEVCRVLMYYKPEGELCTRHDPEGRPTVFDRLPRLTGSRWIAVGRLDINTS 175 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL T DG LA L PS + R Y VR GQVD+ L+ LKKG+ ++ ++ Sbjct: 176 GLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDEAMLHRLKKGVQLEDGPANFKEIKF 235 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 G N W V L EG+NRE+++++E +V+RLIR YG L +L G E+ Sbjct: 236 AGGVGMNQWFDVTLMEGRNREVRRLWESQGVQVSRLIRTRYGNISLMKSLPRGGWEEMDL 295 Query: 239 ---KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ P ++T + + + Sbjct: 296 TNVNYLRELVGLPAEVETKLDVTKPRRRAKTGQIRKAVKRYAELNKRYKK 345 >gi|302518236|ref|ZP_07270578.1| pseudouridine synthase [Streptomyces sp. SPB78] gi|302427131|gb|EFK98946.1| pseudouridine synthase [Streptomyces sp. SPB78] Length = 447 Score = 159 bits (401), Expect = 7e-37, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 111/232 (47%), Gaps = 1/232 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VDG+ + Sbjct: 208 EQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVDGLTVAT 267 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T ++ D + + +R+ VGRLD TEG++LLTN G Sbjct: 268 QSYQFFSLNKPAGVVATMEDPEGRQNLG-DYVNNRETRLFHVGRLDTETEGVILLTNHGE 326 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y G + +D LK GI ++ + Q G N V Sbjct: 327 LAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVEQTGKNYLV 386 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 387 EVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 438 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 70/232 (30%), Positives = 111/232 (47%), Gaps = 1/232 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ KV+ARAG SRR E +I Q RV+VNG ++ + V +D I+VDG+ + Sbjct: 216 EQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGLRVKPSDEIKVDGLTVAT 275 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T ++ D + + +R+ VGRLD TEG++LLTN G Sbjct: 276 QSYQFFSLNKPAGVVATMEDPEGRQNLG-DYVNNRETRLFHVGRLDTETEGVILLTNHGE 334 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y G + +D LK GI ++ + Q G N V Sbjct: 335 LAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARADHFRVVEQTGKNYLV 394 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 395 EVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 446 >gi|325132446|gb|EGC55139.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M6190] Length = 349 Score = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 323 ELNPAEVANILKWAEM 338 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 65/240 (27%), Positives = 105/240 (43%), Gaps = 16/240 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMST---DHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG + D I +D P+ Sbjct: 1 MRLAKYLAQCGIGSRREACRLINAGRITLNGKIAKHTNLVQRDAQGLCLDSICLDAEPIV 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + E W+++K + T + T +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 ETEALAYWIFNKA--VGTDCRLLEQDKTSLLHLLPKAPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y VR D + + G+ + + QV + Sbjct: 119 ELTHKLMHPSFAHSKTYHVRLDKPFTDDFVEQMASGVRYKDLQTLPCQVRRLSLDS---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILRE 243 + L +G NR+I+ + + ++V L R++ L G L G R ++K + E Sbjct: 175 FEIVLTQGLNRQIRHMSKALGYRVIDLERVTIMALNLRELASGELPEGQMRPLTKSEIAE 234 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 77/305 (25%), Positives = 130/305 (42%), Gaps = 7/305 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ K +AR G+ SRR++E +I RV +N V D I VDG ++ Sbjct: 42 TEKLQKALARMGLGSRRQMEEVIKAGRVSINQKPA-SIGDRVEQGDEIRVDGRLIKYKSE 100 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R I VGRLDIN+ GLLL TND Sbjct: 101 REKRRRVLAYYKPEGEICSANDPEGRTTVFERLPKLTHDRWIMVGRLDINSTGLLLFTND 160 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + +R Y VR G++ + + L G++++ + +G N Sbjct: 161 GELAHRLMHPSNEIVREYAVRILGELTPEMMRNLTDGVMLEDGLAKFEDIKQGGGEGVNK 220 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L+EG+NRE++++ E KV+RL+R SYG L L G E+ +K + + Sbjct: 221 WYHVKLKEGRNREVRRLIESQGLKVSRLLRTSYGSVDLPKELRTGRFIELDRKDIHRLID 280 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + + + +R + S+ + + + Sbjct: 281 LVGIRPREDMGVHGKAKEKKERFQKKPMKARTIRTSSRSGRASTSTGKNTSATRGRDTGN 340 Query: 307 RRNLA 311 R + Sbjct: 341 RGSKR 345 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 72/303 (23%), Positives = 124/303 (40%), Gaps = 6/303 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ TD + V+G Sbjct: 211 LSADDDAPKLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPTDQVRVNGKL 269 Query: 67 LRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + + L + +V+ + + ++VGRLD NTEGLL Sbjct: 270 IHRKVSTKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRMKTGKWVAVGRLDFNTEGLL 329 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G +A P R Y VR G++ + L GI + +++ Sbjct: 330 IFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIADGGG 389 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +E+ + Sbjct: 390 EGVNQWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQELEANEV 449 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + L+ + ++ R + + + + + Sbjct: 450 KSMMTAIGLKVPGTSEQGGKGVTKVGGRKQRTEAAIAGMPMHTGMDGLPRVDKGGAGRGQ 509 Query: 302 ATP 304 P Sbjct: 510 PDP 512 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 106/231 (45%), Gaps = 4/231 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K +A G+ SRR+ E +I RVKV+G + + V ++ ++EVDG + Sbjct: 13 DKLIRLNKYLAMCGLGSRRKTEALIVSGRVKVDGEIAAGPWIMVNTSYNVEVDGKIVAPL 72 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + I R+ VGRLD N+ GLL+LTNDG Sbjct: 73 KNLYLVMNKPRNCVCAVVDSRYTTVIDLLPKDLIGHRLFPVGRLDKNSSGLLILTNDGDF 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A+ + P + YRV + + L +KG+ + V + S+ W Sbjct: 133 AQDIIHPRNGITKTYRVMLNKPMTSGDLEKWRKGVYLDDRLIKPKDVKIL----SDKWCV 188 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EGK REI+++ E +KV L+RI G +L TL G + SK L Sbjct: 189 IEIYEGKKREIRRMAECLGYKVVELVRIKIGRLELKTLDEGCFLKFSKDKL 239 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 108/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 246 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 305 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 306 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 365 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + GI ++ Sbjct: 366 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGIQLEDGEIH-ADAISY 424 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 425 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 484 Query: 241 L 241 + Sbjct: 485 V 485 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 89/239 (37%), Positives = 125/239 (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--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDG 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|261392364|emb|CAX49904.1| ribosomal large subunit pseudouridine synthase B (rRNA-uridine isomerase B; rRNA pseudouridylate synthase B) [Neisseria meningitidis 8013] Length = 350 Score = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 85 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 143 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 144 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 203 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 204 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 263 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 264 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 323 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 324 ELNPAEVANIIKWADM 339 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 68/287 (23%), Positives = 114/287 (39%), Gaps = 36/287 (12%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS--------- 56 + +E P R+ + +ARAG+ASRR ER++ RV VNG ++ V Sbjct: 1 MTEERIVPMRLQRFLARAGVASRRGSERLMTSGRVTVNGQVVTELGSKVDPLVDVVAVDG 60 Query: 57 -TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 I + L L L T + V + + VGRLD Sbjct: 61 VVCSI--------AEKPVYLMLNKPAGYLTTMKDPQGRPTIVDMVPTDTYPGLFPVGRLD 112 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 ++T GLL T DG +A+ L PS + Y G +++LN L++GI ++ Sbjct: 113 MDTTGLLFFTTDGQMAQELLHPSKHVWKHYVAHVVGTPTEEQLNRLREGIELEDGPAAPA 172 Query: 176 QVTLDTQK------------------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 +V + + NA V+V +REG+ ++KK+ + +V L R Sbjct: 173 EVEIISDDVKMKNLLAPQGLGKTGGGEPNALVSVTIREGRKHQVKKMLLAIHHRVLALHR 232 Query: 218 ISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSS 264 ++GP L + G R ++++ + E + S Sbjct: 233 DTFGPLHLTRVKEGEWRLLTEEEVTALERTIGREPGTSPIMPLNTSK 279 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 (401), Expect = 8e-37, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >gi|312277957|gb|ADQ62614.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 239 Score = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 109/239 (45%), Gaps = 6/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ ++G SR +V+++I ++V V+G+L +R +NV ++ I V G L A Sbjct: 1 MRLDKLLGQSGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYLMNKPSGVVSARKDKEHQTVIDLIRPEDQREGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+V + Q+ + + + V Sbjct: 121 AMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCQSAQLEVLSSASDKSCARV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQLG 246 + EGK ++KK+F + KV L RIS+G F+L + GS R +++ LR LG Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 68/238 (28%), Positives = 113/238 (47%), Gaps = 16/238 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMST----DHIEVDGVPLR 68 R++K +A+ GI+SRRE R+I R+ +NG + + AV+V + D + +D P+ Sbjct: 1 MRLAKYLAQCGISSRREACRLIEAGRISLNGKIAKHTDAVHVDADGLCLDSLCLDEKPIS 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E WL++K + T D + +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 GVEALSYWLFNKA--VGTDCRLLDADKSSLLHLLPATPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL-----KKGIVIQGICYGDMQVTLDTQK 183 L L PS + Y V+ + + + K + + + QVT Sbjct: 119 ELTHKLMHPSFAHSKTYHVQLDSPFNDAFIEQMACGVQYKEVRNKEVRTLPCQVTRL--- 175 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 S+ + L +G NR+I+++ +KV L R++ LG+L G R +S + + Sbjct: 176 -SDVSFEIVLTQGLNRQIRRMSNALGYKVIDLQRVALMTLTLGSLAEGEMRPLSPEEV 232 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 47/232 (20%), Positives = 95/232 (40%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + SR ++ + + V NG +++ + V I +DG L Sbjct: 1 MRLDKFICESTSHSRVSAKKALHRGDVTCNGEVVKNSGFKVTDEHEIRLDGEVLTII-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D + S + + GRLD +T GL+L+T DG + Sbjct: 60 RFIMLNKPVDTICSTIDEEYPSVISLLDVIRPEDLHIAGRLDADTTGLVLITTDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + + D + G+ + + ++ + + + Sbjct: 120 ITSPKKECGKRYLLETAESLSDDLVQQFVDGLQLNNEDGLTKPAELEILAPNQA----RL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++ KV +L R S G +L L G R ++ ++ Sbjct: 176 TITEGKYHQVKRMLAAVGNKVTKLHRESVGAIELDPNLELGQWRYLTAAEIK 227 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 79/243 (32%), Positives = 114/243 (46%), Gaps = 3/243 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 E +R+ K+IA AG+ SRR E ++ RVKVN + + D I +DG PL Sbjct: 8 ETVKAERLQKLIAAAGVCSRRHAEELLRAGRVKVNDRMAQ-LGDRAEPGLDRITIDGTPL 66 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTN 126 + RL L +KP G++++ DP GR V D +P R VGRLD + G LLLTN Sbjct: 67 PANDPPRLLLLNKPRGVISSCQDPQGRPIVLDLVPKHLRRGLHPVGRLDAESRGALLLTN 126 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 G L L P + YRV G+ L ++G+ + +V + Sbjct: 127 QGELTLQLTHPRYSHAKTYRVWVQGRPSHGALEHWRRGLRLDQRLTQPAEVRELHHNANR 186 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V LREG+NR+I++V E V L R + LG+L G RE+++ R Sbjct: 187 TLLEVVLREGRNRQIRRVAELLGHPVLDLQRTAIATVVLGSLQEGRWRELTEGEWRALTR 246 Query: 247 PHL 249 P Sbjct: 247 PSR 249 >gi|111221683|ref|YP_712477.1| pseudouridylate synthase [Frankia alni ACN14a] gi|111149215|emb|CAJ60900.1| Pseudouridylate synthase [Frankia alni ACN14a] Length = 254 Score = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 77/241 (31%), Positives = 122/241 (50%), Gaps = 3/241 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV 62 ++ R+ KV+A AGI SRR E +IA+ RV V+G+++ V T IEV Sbjct: 5 RDPASAADEGIRLQKVLASAGIGSRRRGEELIAEGRVSVDGVVVREQGRRVNPETAIIEV 64 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRLDINTEG 120 DG + +KP G+++ SD GR T+ D L + VGRLD ++EG Sbjct: 65 DGDRIVTRTGLVHLALNKPRGVLSAMSDDRGRPTIADLLTEFDGGGGLFHVGRLDGDSEG 124 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL+TNDG LA L PS + + Y V G + ++ L+ G+ ++ V L Sbjct: 125 LLLVTNDGELAHRLTHPSFEVPKTYLVEVSGPLRREVPRTLRTGVELEDGPARADSVQLV 184 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 Q + + + EG+NR ++++ E + V+RL+R G LGTL +G R +++ Sbjct: 185 DQANGRVMLEIVIHEGRNRIVRRMMETVGYPVHRLVRTRLGAVHLGTLRSGRARHLTRGE 244 Query: 241 L 241 + Sbjct: 245 V 245 >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 = 159 bits (401), Expect = 8e-37, Method: Composition-based stats. Identities = 87/301 (28%), Positives = 135/301 (44%), Gaps = 12/301 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVP 66 + +++ K++ARAG SRRE+E +I Q RV V+G + V T I +DG Sbjct: 23 DKIVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKI-STLGDRVEVTQATKIRLDGHL 81 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 L E L Y L T + + SR ++VGRLD+NT GL Sbjct: 82 LSIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGL 141 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQ+D +K+ L +G+ + ++ Sbjct: 142 LLFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLDDGPAAFRTISFQG 201 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 202 GEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLKA 261 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LRE + + +++ ++ + R + S + ++ Sbjct: 262 TNYLRELVELNSETVSKLPVEKDRRRVKANQIRRAVKRHTEVAGRQVAGRQGSARKSSTR 321 Query: 298 Q 298 Q Sbjct: 322 Q 322 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 83/238 (34%), Positives = 121/238 (50%), Gaps = 8/238 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +ARAG+ASRR+ E +I + RV+VNG + V D +EVDG + ++ Sbjct: 5 RLQAFLARAGVASRRKAEDLIREGRVRVNGKVA-VLGQKVGPEDLVEVDGKRVELPQKRL 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP G TT DP R TVFD LP I VGRLD ++EGLLLLTNDG L L Sbjct: 64 VLALHKPKGYTTTRHDPHARRTVFDLLPKIPGL-HPVGRLDRDSEGLLLLTNDGDLTHRL 122 Query: 135 ELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P +VYRV G ++ L G+ ++ + + L Sbjct: 123 THPRFGVRKVYRVWTEGGTLPKEVCRRLLLGVDLEDGPARALACCPAPGGAV-----LVL 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 EG+ RE++++ + + V RL+R+ GP +LG L G R +S++ ++ L LE Sbjct: 178 AEGRKREVRRMLQRVGYPVRRLLRLQVGPIRLGDLPPGKWRRLSEREVKALLRLVGLE 235 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 85/259 (32%), Positives = 123/259 (47%), Gaps = 9/259 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 D L + + + + T+ + D ++ SR I VGRLD Sbjct: 59 SFDSKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 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 REVSKKILREQLGPHLLEE 252 E++ + L+E Sbjct: 239 LELNPSEVNRLRKSVKLKE 257 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 75/240 (31%), Positives = 126/240 (52%), Gaps = 6/240 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + N R+ KVI +G ASRR E+ I RV+VN ++ A V +D + +D + Sbjct: 4 KTNKENVRLVKVILESGFASRRNCEKAIMSGRVRVNNQVILDPAYRVKESDSVSIDRNII 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + LY +V+T GR + + I R+ GRLD + G++++TND Sbjct: 64 ERQTKRYMALYKPLG-VVSTTKYLPGRRIITEFFKGIKERLFYAGRLDSESRGIMIITND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A ++ PS + L+VY V +G++D + L GI I+ + Y + + ++ + Sbjct: 123 GEFANIITHPSYEILKVYDVTVNGKIDSEALLKASAGITIKNVTYSPFKFKILSKGRVQS 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + + + EGKNREI+K+F++ +KV L RIS G GTL AG R+++KK + Sbjct: 183 KIRLTINEGKNREIRKIFDYLGYKVIDLERISVGCVSKYDDISGTLEAGHIRDLTKKEIE 242 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 80/289 (27%), Positives = 125/289 (43%), Gaps = 7/289 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV V+G + V I +DG Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIAT-LGDRVEVDAKIRIDGRTTSIKTA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + 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-GTLLAGSTREVSKKILREQLG 246 W V L+EG+NRE+++++E +V+RLIR+ YG +L TL G E+ + Sbjct: 181 WWHVTLKEGRNREVRRLWESQEIQVSRLIRVRYGMVELPKTLPRGGWIELPLDQVNYLRQ 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 LE ++ S + + + I + + Sbjct: 241 LAGLEAETRSMLGSDKHSVARSKVKSSKIRRAVQKHKVISSRAKPSRQR 289 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 98/231 (42%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +G++++ A V I ++G P+ Sbjct: 1 MRLDKFICESTSLTRSLAKKALHRGDITCDGVVIKDAGFKVTEGMQICLEGEPIVLV-GE 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T+DG + Sbjct: 60 RYVMLNKPVDTICSTIDEAYPSVLSLLDIPKPETLHIAGRLDADTTGLVLITSDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + KG+ + + + + + V + Sbjct: 120 ITSPKKECGKRYLVQLADPVDDGLIEVFAKGVALRNEDGLTKPAVLEIIDPQQ----VRL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R G +L L G R ++ + + Sbjct: 176 TITEGKYHQVKRMFAAVGNLVVGLHRERIGQIELDPDLALGEWRYLTAEEI 226 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >gi|291550320|emb|CBL26582.1| ribosomal small subunit pseudouridine synthase A [Ruminococcus torques L2-14] Length = 241 Score = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 110/232 (47%), Gaps = 5/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K +A GI +R EV++ I + +V+VN ++R + + DH+ G + AE Sbjct: 4 RLDKYLADMGIGTRTEVKKAITKGQVRVNEETVKRPEIKIDTEKDHVFYQGQMVAYAEYE 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +V+ D + + + + VGRLD +TEGLLL+TNDG LA Sbjct: 64 YYMLNKPAG-VVSATEDKNDSTVLDLIDEKQRKDLFPVGRLDKDTEGLLLITNDGELAHQ 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY R G+V ++ + +G+ I + + + ++ + + + Sbjct: 123 LLSPKKHVDKVYFARIDGKVTEEDVRRFAEGLEIGEEKPTLPAHLEILKREEI-SEIRLT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 +REGK ++K++F +V L R+ G L L G RE++ + L Sbjct: 182 IREGKFHQVKRMFHAVGKEVIYLKRLQMGSLVLDPRLALGEYRELTGQELEA 233 >gi|184201169|ref|YP_001855376.1| pseudouridine synthase [Kocuria rhizophila DC2201] gi|183581399|dbj|BAG29870.1| pseudouridine synthase [Kocuria rhizophila DC2201] Length = 368 Score = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 81/239 (33%), Positives = 126/239 (52%), Gaps = 2/239 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ K++A+AG+ASRR E MI RV V+G ++ V V + VDG+ ++ Sbjct: 126 DENGVRLQKLMAQAGVASRRVCEEMIQDGRVSVDGEIVTELGVRVDPALQAVHVDGMRIQ 185 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTND 127 E+ + ++KP G+V+T DPDGR V D L + VGRLD+ TEGLLLLTND Sbjct: 186 TDEKLVYYAFNKPAGVVSTMEDPDGRRCVSDFLDPRKHQRVFHVGRLDVETEGLLLLTND 245 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L PS + + Y V+ HG V++ N +K+GI ++ L + Sbjct: 246 GELTNRLTHPSYEVPKTYLVQVHGPVEKGIGNQMKQGIRLEDGIAKVDDFRLVDSTPGHV 305 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V L G+NR ++++F+ + V +L R GP +G G+ R++S + L Sbjct: 306 LIEVVLHSGRNRIVRRMFDAVDHPVEKLARTHVGPIAIGDQKQGTVRKLSHTEVGNLLA 364 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 53/226 (23%), Positives = 100/226 (44%), Gaps = 11/226 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---AE 71 R++K ++ G SRRE +R+I + +V +NG + + V +D +EV G ++K + Sbjct: 4 RINKYLSEVGYCSRREADRLIHEGKVTINGKIPK-IGSKVEESDQVEVKGQRIKKITGQK 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + TT + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDRK--VEPNNVIDFIKYPKRIFPIGRLDKLSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V+ + Q++ D + + G+ I + ++ + Sbjct: 121 NKILRARNNHEKEYIVKVNRQINSDFIQSMSSGVEILDTITKNC----FVKQLGPKKFKI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L +G NR+I+++ E ++V L R+ +L + G RE + Sbjct: 177 ILTQGLNRQIRRMCESLGYRVRSLKRVRIMNIEL-DVSTGKYREFT 221 >gi|315179963|gb|ADT86877.1| 16S rRNA uridine-516 pseudouridylate synthase [Vibrio furnissii NCTC 11218] Length = 233 Score = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 48/229 (20%), Positives = 91/229 (39%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A ++R+E +++ V V+G + + +V V + L Sbjct: 1 MRLDKFLCDALGSTRKEATQILKSGDVTVDGKVQKSGSVQVTEASVVAWQERQLSLTGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGFNQ-TAFVLLDEVNMRGLHFAGRLDVDTTGLVLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + YRV V D L GI ++ + ++ V + + Sbjct: 120 ITSPKHKCDKTYRVWLADAVQADYAEQLAHGIELRNERELTLPAHMELVNADENEVLLTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EGK ++K++F KV L R G L L G R +++ + Sbjct: 180 HEGKYHQVKRMFAALGNKVEALHRERVGEIVLDESLEPGEYRYLTEAEV 228 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 107/236 (45%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K +A GI +R+EV+R I Q RV ++GI + + I DG + A+ Sbjct: 7 IRLDKYLADMGIGTRQEVKRYIRQGRVSIDGIPAKSPETKIEEKARKITFDGREVDYADY 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ D + V + VGRLD +TEGLLL+TNDG L+ Sbjct: 67 EYYMLNKPSG-VVSATEDARCTTVVDLIRDKKRKDLFPVGRLDKDTEGLLLITNDGQLSH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNAW 188 L P + Y + G+V ++ ++G+ I + + + + + Sbjct: 126 RLLSPKKHVDKTYYAKVAGKVTKEDAKAFREGVNIGTEEKEEWTRPGVLDIL-KSEEVSE 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + + ++EGK ++K++F+ +V L R S G +L L G R ++KK L Sbjct: 185 IRLTIQEGKYHQVKRMFQAVGKEVLYLKRESMGCLKLDETLKPGEYRPLTKKELEN 240 >gi|323697859|ref|ZP_08109771.1| pseudouridine synthase [Desulfovibrio sp. ND132] gi|323457791|gb|EGB13656.1| pseudouridine synthase [Desulfovibrio desulfuricans ND132] Length = 251 Score = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 108/236 (45%), Gaps = 6/236 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R++K IA+ G+ASRR + M+ RV VNG + + V D + VDG + + Sbjct: 6 SDTLRLNKFIAQCGVASRRGADEMVFAGRVTVNGATADSPGLQVDPARDEVAVDGKVIGQ 65 Query: 70 AE---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGLLLLT 125 L L+ + T ++ + P R VGRLD +EGLLLLT Sbjct: 66 KASAGDLTLLLHKPVETVTTASDPQGRKTVLDLLPPEIRKKRPFPVGRLDFFSEGLLLLT 125 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG 184 DG L L P +VY V G V Q + +++G+ + +G +V L Sbjct: 126 TDGDLCYRLTHPKYHLPKVYVVTIRGSVPQKAVQTMRQGMTLREGDRLAPAKVRLLKPIA 185 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L +G NR+I+++ E + RL R+ GP LG L G+ RE++ + Sbjct: 186 GTQQLEITLIQGVNRQIRRMCEELGLTILRLRRVRQGPVALGDLKPGAWRELTSEE 241 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 72/255 (28%), Positives = 110/255 (43%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q RV VNG V+ D I Sbjct: 1 MNSKISSDHTEDTMRLSKRMAQLGLCSRREADGYIEQGRVTVNGKTA-VLGQKVLPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E+D P+ Y L+T + +G + P Sbjct: 60 ELDKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + S GRLDI++ GLL+LT DG +AR L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLASAGRLDIDSVGLLVLTQDGRIARQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 158 bits (400), Expect = 9e-37, Method: Composition-based stats. Identities = 76/233 (32%), Positives = 116/233 (49%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V D I VDGV + Sbjct: 1 MRLQKVLAQAGVASRRNAEIMIDSGRVEVNGAVVMQQGVRVNPEVDVIRVDGVRVNVNNN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGG 129 + ++ +KP G+ +T SD GR + D + + 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EG+ ++++ + + V L+R QLG G+ R ++ LR Sbjct: 181 RVQLHEGRKHIVRRMLKAAGYPVQYLVRTKLHTVQLGEQKPGTIRALNDNELR 233 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 86/328 (26%), Positives = 135/328 (41%), Gaps = 14/328 (4%) Query: 1 MKDK--NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ + + + ++ KV+A AGI SRRE+E +I RV VNG V D Sbjct: 95 MEQRLGKYLNSDSVMPKLHKVLADAGIGSRREMEELIVAGRVSVNGEPA-HIGQRVAPND 153 Query: 59 HIEVDGVPL----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + V+G P+ K + + +V+ S + +SVGRL Sbjct: 154 QVRVNGKPIMRVNTKKPPRVILYHKPAGEIVSHDDPGGRASVFARLPKLRTGKWLSVGRL 213 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NTEGLL+ T G +A + P R Y VR G++D+ + L GI ++ Sbjct: 214 DLNTEGLLIFTTSGDMANRIMHPRYGTEREYAVRVLGEMDEAQRQSLVDGIELEDGLAAF 273 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + GSN W V L+EG+NRE++++FE V+RLIR +G L TL G Sbjct: 274 GALDYLGGDGSNRWYRVTLQEGRNREVRRMFEAVGVTVSRLIRTRFGDVVLPRTLRRGRW 333 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 E+ + +++ V D + + + S +P F M +N N Sbjct: 334 EELDA----SLVTALMVQLGLVRDDDEAGGNRRRSKQPQSHDSALPPGFGTMDRNG--LN 387 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIH 321 G ++ R A Sbjct: 388 GARIGRRGKLQGGRLGSAGQAAACPSDP 415 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 82/288 (28%), Positives = 133/288 (46%), Gaps = 10/288 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ Sbjct: 2 NIQGEKLQKVLARAGVGSRREMEKYIDANRVSVNGKVAK-LGDRVEETDLIRVDGHTVKI 60 Query: 70 AE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 E + L T R+ 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 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV---SKKI 240 N W V L EG+NRE++++++ + +V+RLIRI YG +L + G E + Sbjct: 181 INRWFNVTLNEGRNREVRRLWQSQDVEVSRLIRIRYGKLELDKRVPQGGWVEYDLETVNY 240 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 LR+ + + ++++ + ++ + + + K Sbjct: 241 LRKTVKLGRETQTKLSVMPEKRKDKRAKINQIRKAVKKHNQRVKSTKR 288 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 115/233 (49%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQ-LGDRITEQDLVYIDGQLSSLSAPE 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + T + 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-GTLLAGSTREVSKKILR 242 V + EG++R +++++E KV+RLIR+ +GP L +L G+ +E+ ++ Sbjct: 182 VVVVEGRHRLVRRLWESQGLKVSRLIRVRFGPIVLPKSLRRGAWKELESPEIK 234 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 107/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 247 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 307 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 366 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI ++ Sbjct: 367 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIH-ADAISY 425 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 426 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 485 Query: 241 L 241 + Sbjct: 486 V 486 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 100/229 (43%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SRREV+ ++ + VNG + + +N+ D + L + Sbjct: 1 MRLDKFLTECGLGSRREVKELLNTGEITVNGAVADNPQMNIKENDDEVFYQERKLEYKKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L K + D I + VGRLD +TEGLLLLT+DG L Sbjct: 61 RYYILNKKAGYITAVGDARDQTVMDLLPDWVIKKDLAPVGRLDKDTEGLLLLTSDGALNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y ++ + L L+ G+ I G + K + + + Sbjct: 121 KLLSPKNHVEKTYYAELEKEISEADLERLRNGVDIGGYITMPGKAV----KIDSCKIHLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E KV L R+S+G +L L G+ +EVS + + Sbjct: 177 IKEGKFHQVKKMLEAVGNKVTFLRRVSFGKLKLEDLELGAVKEVSIEDI 225 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 62/239 (25%), Positives = 108/239 (45%), Gaps = 6/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ ++G SR +V+ +I ++V V+G+L +R +NV ++ I V G L A Sbjct: 1 MRLDKLLGQSGYGSRNQVKNLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYLMNKPSGVVSARKDKEHQTVIDLIRPEDQREGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+V + Q+ + + + + Sbjct: 121 AMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCQSAQLEILSSASDKSCARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQLG 246 + EGK ++KK+F + KV L RIS+G F+L + GS R +++ LR LG Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 70/238 (29%), Positives = 117/238 (49%), Gaps = 6/238 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE--- 71 ++ K++A+ G+ SRRE+E +IA +VK+N + D + + +R E Sbjct: 38 KLQKLLAQKGLGSRREMEALIASGQVKLNDHIA-VIGDRAGPGDIVRIGRRVIRIHEEEE 96 Query: 72 -RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + +V+ + D S S+ I++GRLD NT GLL+ TNDG L Sbjct: 97 LPKVLLYHKPEGEIVSRNDPQDRPSVFDKLPYLRSSKWIAIGRLDFNTSGLLIFTNDGAL 156 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A + P + R Y VR G++ ++++ L GI ++ + +G+N W Sbjct: 157 ANRMMHPRFEMEREYAVRILGELTEEQMQQLTTGITLEDGEAAFTYLADQGGEGANHWYR 216 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L+EGKNRE++++F V+RL+R+ +GP L + G E+ +K R L Sbjct: 217 VILKEGKNREVRRMFGAIGLTVSRLMRVRFGPINLPPRIKRGQWLELDEKETRRLLSL 274 >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 (400), Expect = 1e-36, Method: Composition-based stats. Identities = 87/298 (29%), Positives = 131/298 (43%), Gaps = 10/298 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MI R+ V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESMIEAGRISVDGKIATLGDRVEVTRATKIRIDGHVVSVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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-GTLLAGSTREVSKKILREQL 245 W V L EG+NRE+++++E + +V+RLIR+ YG QL L G E+ L + Sbjct: 182 QWYNVTLTEGRNREVRRLWEAVDVQVSRLIRVRYGDIQLPKGLPRGGWMEMG---LTDVN 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L + + + R + N I +++ ++ +G K Sbjct: 239 YLRELVQLTPETVSKLPVERERRRVKANQIRRAVKRHSQVGVSNRPASGRRSAPKRNG 296 >gi|313159346|gb|EFR58710.1| pseudouridylate synthase [Alistipes sp. HGB5] Length = 423 Score = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 57/239 (23%), Positives = 118/239 (49%), Gaps = 2/239 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ R+++ +A++G+ SRRE + I V VNG ++ + V+ TD ++ + Sbjct: 179 KFTPEKQIGEMRLNRFLAQSGLCSRREADDFITAGLVTVNGQIVTQLGTKVLPTDEVKFN 238 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 ++ ++ L L + + G++ + + R+ VGRLD N+ GLLL Sbjct: 239 DSRVQGEKKVYLVLNKPKGYVTSLDDPHAGKTVMELVQGACTERIYPVGRLDKNSLGLLL 298 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 TNDG L + L P+ + ++Y+V + + ++ + +GI ++ + + K Sbjct: 299 FTNDGDLTKQLTHPAFRKKKIYQVSLDKPLTRADMDRIAEGITLEDGEIFADE--ISYVK 356 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V + + G+NR ++++FEF + V +L R+ Y L G+ R +S++ + Sbjct: 357 DNKQEVGIEIHSGRNRIVRRIFEFLGYTVTKLDRVYYAGLTKKNLKRGAWRFLSREEVE 415 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 124/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 101/234 (43%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K + + +R ++ ++I ++ V VN ++ + V V D + + + + Sbjct: 1 MRVDKFLHDMNVGTRSQIRKLIKEKAVFVNDVVAKSGRVKVDPVVDQVRLGEQVITYQQY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T N + VGRLD +TEGLLL+TN+G LA Sbjct: 61 FYFMMNKPLGVVTATEDRKQKTVMDLFNKVDFRKDLFPVGRLDKDTEGLLLITNNGPLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWV 189 L P + Y GQ+ + GIV++ +T+ V Sbjct: 121 QLLAPERHVQKTYEAVVTGQITDPAVKQFADGIVLKDGTQLKPADLTILNYSALDEQTLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V L+EGK +++++F +V L RIS+GP QL LL G+ RE+S + + Sbjct: 181 HVTLKEGKYHQVRRMFGSLGERVVSLKRISFGPLQLEEGLLPGTYRELSDEEIE 234 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 79/254 (31%), Positives = 120/254 (47%), Gaps = 2/254 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 + +++++ GIASR + + I RV++N L+ + D + +D P+ + Sbjct: 3 LDRLLSKLGIASRSQAQEWIRAGRVRINRRLVRMPDTWIDWPGDAVTLDDRPIEQRPPQF 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + + + T + T+FD LP + +VGRLD T GLLLLTND L+ L Sbjct: 63 ILFHKPKGVVTTHQDEKGR-PTIFDVLPPELKGLHAVGRLDQATSGLLLLTNDSTLSSFL 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 VNLDAPIYSSETLV 268 V P Sbjct: 242 VPQAKPDPLDRRAT 255 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 124/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 83 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 141 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 142 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 201 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 202 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 261 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 262 RIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 321 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 322 ELNPAEVANIIKWADM 337 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 103/229 (44%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I + RV VNG V +D I +D PL E+ Sbjct: 1 MRINKLFSNFGICSRKETNKIIREGRVIVNGKPCIE-GQWVELSDEILLDEKPLVPKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + + I V +GRLD +++GL++LTNDG LA Sbjct: 60 YIALNKPVGVVCTAAEEV---KDNIIDYLGIDDYVFPIGRLDKDSQGLIILTNDGDLANE 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V D + +++G+ I G ++ + ++ L Sbjct: 117 VLAAENNHEKEYIVTLDQPFYDDFIKKMERGVEILGQVTKPCKLKRINEN----TYSIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ + F + V +L RI L + G R ++++ + Sbjct: 173 TQGLNRQIRRMSKVFGFNVVKLERIRILNITLEDIEYGKWRYINREEIE 221 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 107/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 247 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 306 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 307 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 366 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + + + GI ++ Sbjct: 367 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMEQIAAGIQLEDGEIH-ADAISY 425 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 426 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 485 Query: 241 L 241 + Sbjct: 486 V 486 >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 = 158 bits (400), Expect = 1e-36, Method: Composition-based stats. Identities = 84/305 (27%), Positives = 138/305 (45%), Gaps = 10/305 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + + +++ K++AR+G SRRE+E + + R+ V+G + V V ++ I +DG Sbjct: 9 MSSKPQQTEKLQKILARSGHGSRREIEGFLKEGRISVDGKMATLGDRVEVTTSTKIRLDG 68 Query: 65 VPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 L E + Y L T H + +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 KI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + LRE +G + E++V ++ + R K+ +S+ Sbjct: 249 EQTNYLRELVGLSVETESKVAVERDQRRLKANQIRRAVKRHTQVASRPASKRQASRPTAK 308 Query: 296 SKQKK 300 + + Sbjct: 309 KRTRA 313 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 55/242 (22%), Positives = 106/242 (43%), Gaps = 14/242 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--------VMSTD 58 + ++ R++K +A G+ SR+ R I + ++G L + S + Sbjct: 1 MTQDKPSMRLAKYLAMTGLCSRKAATRYIRDGHITLDGRLANHIDTISLIESPSGLTSLE 60 Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 ++ DGV ++ E + W+ +K + T + +L R+ VGRLD ++ Sbjct: 61 ILKFDGVLIQGVESKQYWMLNKS--VGTDCRLLAHDPSSLLHLLPDNPRLYPVGRLDKDS 118 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 G L+LTNDG L + L P + Y V+ G + L + +G+ + + ++T Sbjct: 119 RGQLILTNDGELTQQLMHPDFGHSKTYHVQVDGNFEDSFLIKMAQGVSYRDVTTLPCKMT 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L +G NR+I+++ + +KV L R++ LG L G R+++ Sbjct: 179 RLNDNK----FEIILTQGLNRQIRRMSQALGYKVVDLKRVNIQSLALGDLKEGEMRQLTA 234 Query: 239 KI 240 Sbjct: 235 LE 236 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 91/284 (32%), Positives = 139/284 (48%), Gaps = 10/284 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV + + +DG + Sbjct: 39 EGEKLQKVLARAGQGSRREIEAIIAENRVSVDGKIATLGDRINVYAGVKVRIDGHLINLT 98 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + L Y L T H + +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-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ L + Sbjct: 219 NQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEM---ELADV 275 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 L + + +++T + + I + ++ + K Sbjct: 276 NYLRELVGLPPEAETKLGANKTRHKPKFGRIRKAVKRYSELNKR 319 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 76/240 (31%), Positives = 125/240 (52%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +RV K++++ G+ASRR E MI +RVK+NG ++ + D +EVDG ++ +R Sbjct: 3 ERVQKILSQWGVASRRRAEDMILARRVKLNGKIVT-LGDKADPSCDRLEVDGKLIQPNKR 61 Query: 73 TRLWLY--HKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VISVGRLDINTEGLLLLTND 127 +L +KP+G+V+T DP RS V D LP ++ + VGRLD N+ G LLLTND Sbjct: 62 PKLIYILLNKPVGVVSTCDDPQNRSIVLDLLPKKLTQGTGIHPVGRLDFNSSGALLLTND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y V G ++ L ++G+++ G +V + + Sbjct: 122 GDLTLKLTHPRYHLPKTYEVLVKGHPPEETLQQWREGVILMGKKTLPAEVEVIRRSAQQT 181 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKILR 242 + V L EG+NR+I+++ E ++V RL R + L +L +G R ++ + Sbjct: 182 QLKVVLTEGRNRQIRRIVEQLGFRVLRLHRTAIDSLCLSPNHKNSLSSGHYRLLTPSEID 241 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 69/232 (29%), Positives = 110/232 (47%), Gaps = 2/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 +R+ KV+ARAG SRR E +I RV+VNG ++ + V D I+VDG+ + Sbjct: 112 NEGERLQKVLARAGYGSRRACEELIEDARVEVNGEIVLEQGLRVDPENDEIKVDGLTVAT 171 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 172 QSYQFFSLNKPAGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHGE 230 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y G + +D LK GI ++ + Q G N V Sbjct: 231 LAHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYLV 290 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R+++GP LG +G R +S + Sbjct: 291 EVTLHEGRKHIVRRMLAEAGFPVDKLVRVAFGPITLGDQKSGWLRRLSNTEV 342 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 62/239 (25%), Positives = 109/239 (45%), Gaps = 6/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ ++G SR +V+++I ++V V+G+L +R +NV ++ I V G L A Sbjct: 1 MRLDKLLGQSGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYLMNKPSGVVSARKDKEHQTVIDLIRPEDRREGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+V + Q+ + + + + Sbjct: 121 AMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCQSAQLEILSSASDKSCARI 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQLG 246 + EGK ++KK+F + KV L RIS+G F+L + GS R +++ LR LG Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 73/246 (29%), Positives = 119/246 (48%), Gaps = 4/246 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 N + R+ KV+A AG+ASRR E++IA RV+VNG ++ + + + D + VD Sbjct: 41 NKPESEKAQVRLQKVLASAGVASRRMSEKLIAAGRVEVNGEVVVKMGTRIDPSVDIVRVD 100 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEG 120 G ++ E ++ +KP G+ +T SD GR V D + + + VGRLD TEG Sbjct: 101 GERVQVNEEMVYFVLNKPRGVHSTMSDDLGRPCVGDLVGTRLKEGQGLFHVGRLDAQTEG 160 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDG LA L P + + Y G+ + + LK G+ + V + Sbjct: 161 LLLLTNDGELANRLMHPKYEVKKTYMATVLGEASRKLIRELKDGVELDDGIARADSVQIV 220 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V L EG+ ++++ + + V L+R QLG G+ R +++ Sbjct: 221 DVWQGKSLIKVELHEGRKHIVRRMLKEAGFPVQALVRTKIHTVQLGEQKPGTIRALNQAE 280 Query: 241 LREQLG 246 L+ Sbjct: 281 LQSMYK 286 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 70/255 (27%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q RV VNG V D I Sbjct: 1 MNSKISSDHTEDTMRLSKRMAQLGLCSRREADGYIEQGRVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G + P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +AR L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIARQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVIGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 77/235 (32%), Positives = 114/235 (48%), Gaps = 5/235 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 + QR+ KV+++AG+ SRR E ++ Q RV +NG D I VDG + Sbjct: 2 SSERQRLQKVLSQAGVCSRRRAEELMRQGRVLLNGRPA-SPGDQGDPLRDRILVDGELVS 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 L HKP G+ +T DP GR TV D LP+ + VGRLD ++ G LLL+ Sbjct: 61 PPAEELTVLLHKPRGVHSTCFDPRGRRTVLDLLPAELAEGQGLHPVGRLDCDSRGALLLS 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 N+G L L P + YR+ G L + G+++ G V Q Sbjct: 121 NNGALTLALTHPRFSHRKSYRIWVSGHPSSAVLQQWRHGVLLDGRPTRSADVRELQQDAE 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + + +REG+NR+I++V E V L+R+S GP QLG L +G R + Sbjct: 181 HSQLELVMREGRNRQIRRVAEQLGHPVRDLLRVSIGPVQLGDLPSGQWRRLHPDE 235 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 82/354 (23%), Positives = 137/354 (38%), Gaps = 9/354 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 202 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 260 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 KILR---EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +R +G E + + +A + + Q Sbjct: 441 NQVRALMASVGLKAPTEERGSRNAAPERKQPDPMQTSMGFINREPVLMSHGRFDQQPPRG 500 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 ++ A A + + +G R R Sbjct: 501 QGRRGGAAGGGFAGGAGAGFGGGYGNRGAGRSAGGFSGPMGGGGGAGGPRGGRE 554 >gi|307730031|ref|YP_003907255.1| pseudouridine synthase [Burkholderia sp. CCGE1003] gi|307584566|gb|ADN57964.1| pseudouridine synthase [Burkholderia sp. CCGE1003] Length = 614 Score = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 82/356 (23%), Positives = 139/356 (39%), Gaps = 16/356 (4%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 205 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 263 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 KILREQLGPHLLEEAQVNLDAPIYSSETLVRD----------RPNIISEVPDDFTRMKKN 288 +R + L+ + E D R ++ + + Sbjct: 444 NQVRALMASVGLKAPNEERGGRGAAPERKQPDPMQTSMGFISREPVLMSHHRFEQQPRGQ 503 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK 344 + A + G R+ + R+P+ Sbjct: 504 GRRGAAGGGVGGGAGAGFGGGYGNRGTGRGAGGFGVGGPRGARDVDGNRAPTGSGN 559 >gi|254672143|emb|CBA04924.1| conserved hypothetical protein [Neisseria meningitidis alpha275] Length = 349 Score = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 73/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+RI +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 87/322 (27%), Positives = 136/322 (42%), Gaps = 12/322 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGV 65 + +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG Sbjct: 4 KTKVVGEKLQKILARAGHGSRREIETIIQQGRVSVDGKI-SKLGDRVEVTQATKIRLDGH 62 Query: 66 PLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 L E L Y L T + + SR ++VGRLD+NT G Sbjct: 63 LLSIKESEEAVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSG 122 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL T DG LA L PS + R Y VR GQ+D +K+ L +G+ ++ ++ Sbjct: 123 LLLFTTDGELANRLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTISFQ 182 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ K Sbjct: 183 GGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELDLK 242 Query: 240 ---ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 LRE + +++ ++ + R + S + + Sbjct: 243 ATNYLRELVELDSETVSKLPVEKDRRRVKANQIRRAVKRHTEVAGRQVAGRQGSARKSST 302 Query: 297 KQKKLATPVHRRNLASNVWMAK 318 +Q Sbjct: 303 RQHAGNAAPAAATGRRGSNKRG 324 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 79/240 (32%), Positives = 122/240 (50%), Gaps = 3/240 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 T QR+ K++A AG+ SRR E +I Q RV +NG + +S+D +E+DG P+ A Sbjct: 2 TAQRLQKLLASAGLCSRRRAEELILQGRVTLNGAVARLGDQADLSSDRLELDGTPVAAAA 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDG 128 T L +KP G++ + DP+GR+TV D LP S VGRLD + G LLL+NDG Sbjct: 62 PTITVLLNKPRGVICSCHDPEGRTTVLDLLPPELSEATGLHPVGRLDGASRGALLLSNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + YRV G+ + L ++G+ + G + V + Sbjct: 122 ALTLRLTHPRFGHRKHYRVWVTGEPAAEALEQWRRGVPLDGQPSQPVGVRELARGQRGTL 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + + EG+NR+I++ E V L R++ GP +LG L G R ++ + R+ Sbjct: 182 LELEMVEGRNRQIRRTAELLGHPVRDLQRVAIGPLRLGELPEGRWRHLAPQEWRDLDARR 241 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 73/231 (31%), Positives = 120/231 (51%), Gaps = 4/231 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A SRR+ ++ I + RV+VNG L E V + D + +DG + AE Sbjct: 3 RINKYLAARSQLSRRDADKAIEEGRVRVNGKLPEGPWVQLSEKDKVTLDGNDISGAEDYF 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 W ++KP ++T + D G+ T+ + GRLD ++EGL++ +NDG R L Sbjct: 63 YWAFYKPKSVLTAYGDGHGKDTLEIYPFLREKKPAYSGRLDYDSEGLIIFSNDGDFIRRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + + Y V + + + +++ L+KGIV +GI Y + ++ S+ V L Sbjct: 123 QRAEEKVEKEYIVTVNRVLKKGEMDDLRKGIVYEGIRYREC----IVEQHSHDRYQVVLH 178 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 EGK R+I+ +F F +V +L R+ G L L G RE S K +RE L Sbjct: 179 EGKKRQIRHMFRNFGIRVKKLKRVRIGSVNLNELQPGEFREFSPKEMREML 229 >gi|254670545|emb|CBA06380.1| conserved hypothetical protein [Neisseria meningitidis alpha153] Length = 349 Score = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 49/236 (20%), Positives = 99/236 (41%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R+E R+++ + ++VNG +++ A++ + +E +G L Sbjct: 1 MRLDKFLATTLGITRKEAGRLLSNKMIEVNGNVVKSASLKITDDCDVEFNGKKLALQGPQ 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D + ++ GRLD +T GL LLT+DG + Sbjct: 61 YFMLNKPEGFVCSH-VDDHNPTVFVLFDEVSPEKMHVAGRLDGDTTGLTLLTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P +VY V V ++ + +G+ ++G ++ + S + Sbjct: 120 VTSPRHVCEKVYHVELADPVPEETIQTFLEGVQLRGEKDITRPAKLEIL----SEREAIL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R G L L G R ++++ + L Sbjct: 176 TITEGKYHQVKRMFAAVGNRVVGLHREQVGAVVLDENLEPGEYRRLTEEEIASFLK 231 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 109/239 (45%), Gaps = 6/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ ++G SR +V+++I ++V V+G+L +R +NV ++ I V G L A Sbjct: 1 MRLDKLLGQSGYGSRNQVKKLIRSRQVYVDGVLADRDNLNVDASLQTIMVSGKELEHAPE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + VGRLD +TEGL+L+TN+G L Sbjct: 61 VYYLMNKPSGVVSARKDKEHQTVIDLIRPEDRREGLYPVGRLDRDTEGLVLITNNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + D + G+V + Q+ + + + V Sbjct: 121 AMLHPRYHVAKTYYVEVNDILGPDAPAFFESGVVFEDGTVCKSAQLEVLSSASDKSCARV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQLG 246 + EGK ++KK+F + KV L RIS+G F+L + GS R +++ LR LG Sbjct: 181 TISEGKFHQVKKMFLAYGVKVTYLKRISFGEFKLDEGMAVGSYRTLTEAEKTILRTYLG 239 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 110/237 (46%), Gaps = 7/237 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E R+ K + +A +R E ++ I + V V+G ++++A + V S D I +DG Sbjct: 1 MPETLKKMRLDKFLTQAAELTRSEAKQKIKKGSVTVDGEVVKKAEMKVSSEDAICLDGEV 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + L+ + T TV D + + VGRLD +TEGLLLLTN Sbjct: 61 VTYEKYRYIMLHKPAGVVSATEDAQCQ--TVLDLITEGRKGLFPVGRLDKDTEGLLLLTN 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGS 185 DG LA L P + Y G+V + + L +G+ I + L+ + Sbjct: 119 DGALAHNLLSPRKHVDKTYFAILDGEVGEKEQELFLQGLDIGDEKKTLPAK--LEITDKA 176 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 N + ++EG+ ++K++ E KV L RIS GP L L G R + ++ L Sbjct: 177 NEVF-ITVQEGRFHQVKRMAEAVGRKVEYLKRISMGPLVLDKELKKGEYRPLFEEEL 232 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I RV+VNG ++ V V D I+VDG+ + Sbjct: 136 EQEGERLQKVLARAGVGSRRACEELIEAGRVEVNGSIVIEQGVRVDPENDEIKVDGLTVA 195 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 196 TQSYLFFALNKPAGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHG 254 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + ++ LK GI ++ + G N Sbjct: 255 ELAHRLTHPRYGVKKTYLAAIQGPLPRELGKRLKDGIALEDGYARADHFRVVENTGKNYL 314 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V+RL+R ++GP LG +G R +S + Sbjct: 315 VEVTLHEGRKHIVRRMLAEAGFPVDRLVRTAFGPIGLGDQKSGWLRRLSNTEV 367 >gi|325068740|ref|ZP_08127413.1| pseudouridine synthase family protein [Actinomyces oris K20] Length = 303 Score = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 82/227 (36%), Positives = 116/227 (51%), Gaps = 10/227 (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 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------ISVGRLDINTEGL 121 + HKP G+VTT DP+GR TV + + 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 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + V + L GKNR ++++ + V RL R GP +LG L Sbjct: 256 SGPRGSIVEITLHSGKNRIVRRMLDAVGHPVTRLARTRLGPLRLGNL 302 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 54/229 (23%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ G SR +V+++I + V ++G +V S I V+G ++ Sbjct: 1 MRLDKLLEVTGFGSRNQVKQLIKGRSVLIDGQPARAGCQSVDSGLQVIMVNGRQIKAFAH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + +GRLD +T GL+LLT++G L Sbjct: 61 RYYLLHKPAGVVSACSDRKHQTVIDLIRKEDRVANLYPIGRLDRDTTGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G + D + + G+ + G + + + V Sbjct: 121 RMLHPKHHVNKTYLVTVNGSLAADAVPFFENGVTFLDGTRCKSAALRIIKADQMESQAEV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 L EGK +IKK+F + KV +L RI + LG L G+ R+++ K Sbjct: 181 TLSEGKYHQIKKMFLSYGLKVTQLKRIGFAEIALGDLAEGAYRQLTVKE 229 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 90/288 (31%), Positives = 132/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKAEGEKLQKVLARAGQGSRREIETMIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G E ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETETKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 124/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 85 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 143 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR ++GRLDI Sbjct: 144 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWGAIGRLDI 203 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 204 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 263 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 264 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 323 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 324 ELNPAEVANIIKWADM 339 >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 = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 74/243 (30%), Positives = 120/243 (49%), Gaps = 6/243 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 M + + R+ +AR+G+ SRR E++I++ V+VNG + + V+ D Sbjct: 1 MDKDDKKKRPDEAVRLQLYLARSGVGSRRACEKLISEGCVRVNGQVANSQGIKVVPGRDS 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINT 118 + G P+ + +KP+ + TH D +GR D + F +VGRLD + Sbjct: 61 VTYRGKPVFPTGKHYYIALNKPVRYLCTHYDLEGRPLAEDLIKGKFPVRLFNVGRLDFLS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL+ TNDG A+++ PS + + Y V ++ + L +KG+V++G Y Sbjct: 121 SGLIFFTNDGEFAKIITHPSHEIEKEYVVETAKRLSSELLEEFRKGVVVEGELYRIHAYN 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + S V + LREGKNREI+K+F N KV RL R+ GP Q+ + G R + Sbjct: 181 II----SPVKVKIVLREGKNREIRKLFTSKNIKVKRLHRVRIGPVQIAGMHPGEFRNLKP 236 Query: 239 KIL 241 K + Sbjct: 237 KEI 239 >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 = 158 bits (398), Expect = 1e-36, Method: Composition-based stats. Identities = 70/240 (29%), Positives = 107/240 (44%), Gaps = 13/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK--- 69 +R+ K+I+ G+ASRR E MI RVKVNG D IE+DG L Sbjct: 3 ERLQKIISHWGVASRRHAEEMILSGRVKVNGDQAY-LGQKADPKCDRIEIDGRALHPSSQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTND 127 + L L + T ++ + + VGRLD ++ G LL+TND Sbjct: 62 PQPLYLLLNKPLGVVSTCAEPQGRKTVLDLLPRQLQVGQGLHPVGRLDTDSTGALLITND 121 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSN 186 G L +L P + Y+V G + L ++GI++ G +V + +GS Sbjct: 122 GELTFLLTHPRYHVAKTYQVLVQGCPPESVLEQWRQGILLSGKNTLPAKVRRIGKPRGSQ 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-----TLLAGSTREVSKKIL 241 + V LREG+NR+I++V E + V +L R + GP L L +G R + + Sbjct: 182 TLLEVVLREGRNRQIRRVAEALGYPVVQLHRTAIGPIYLNSTGKPELASGEYRSLKNSEV 241 >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 = 158 bits (398), Expect = 1e-36, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 115/233 (49%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQ-LGDRITEQDLVYIDGQLSSLSVPE 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + T + 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-GTLLAGSTREVSKKILR 242 V + EG++R +++++E KV+RLIR+ +GP L +L G+ +E+ ++ Sbjct: 182 VVVVEGRHRLVRRLWESQGVKVSRLIRVRFGPIVLPKSLRRGAWKELEAPEIK 234 >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 = 158 bits (398), Expect = 1e-36, 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|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 = 158 bits (398), Expect = 1e-36, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 109/234 (46%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ K + G +R V+++I ++VKV+G ++ + V S T +EV+G + Sbjct: 4 KKIRLDKYLVHVGYGTRSTVQKIIRGKKVKVDGQVIIKPETAVNSLTSVVEVNGERMDYQ 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + T D V VGRLD +TEGLL+LTNDG + Sbjct: 64 EFYHFILNKPRGYITATEDGRDQTVLDLLEERDQNKEVFPVGRLDKDTEGLLILTNDGKM 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P +VY R G++ ++ + + +GI + G Y ++ + + + + Sbjct: 124 AHGLLSPKRHVDKVYYARVAGKMTEEDIKMFAEGIALTDGTKYAPGKLEII-RSDEESEI 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V + EGK ++K++ + +V L RI G +L L G+ R ++K+ L Sbjct: 183 YVTIHEGKFHQVKRMVQAVGKEVVYLKRIKMGGLELPEDLSLGTYRTLTKEELD 236 >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 = 158 bits (398), Expect = 1e-36, Method: Composition-based stats. Identities = 77/240 (32%), Positives = 116/240 (48%), Gaps = 8/240 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P R+ KV+A AG+ SRRE+E IA +V VNG++ V +D +++ G + Sbjct: 82 EAKPVRLQKVLAEAGVGSRREMEEWIAAGKVSVNGVVATVGQSVVN-SDKVKIGGRLINI 140 Query: 70 A------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + +V+ S 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 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 G+N W V + EG+NRE++++FE V+RLIR+ YGPF L L G RE+ + ++ Sbjct: 261 GANHWYRVTISEGRNREVRRMFEAVGCTVSRLIRVRYGPFILPPQLKRGMARELKEAEIK 320 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 151 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 209 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 210 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 269 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 270 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 329 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W + ++EG+NRE++++FE V+RL+R+++GP L L G Sbjct: 330 RIYEQGGEGANKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGLPNRLKRGQFY 389 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 390 ELNPAEVANILKWADM 405 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 66/240 (27%), Positives = 110/240 (45%), Gaps = 11/240 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL----- 67 R++K +A AG+ SRR+ + ++ V VNGI + V D + V G P+ Sbjct: 1 MRLNKALAMAGVCSRRKADELVFAGNVAVNGITASSPGIQVDPQNDIVTVFGKPVAFLPQ 60 Query: 68 --RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLL 124 + E L + T R+ + RV VGRLD +EGLLLL Sbjct: 61 EGQATEHAYYMLNKPVEVVTTASDPQGRRTVLEILPEEVRKRRVFPVGRLDFFSEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 T+DG L + P +VY V G+V +DKL +++G+ + +G ++V + ++ Sbjct: 121 TSDGDLTYRMTHPRYHLPKVYEVLVRGEVTRDKLEAMRRGMTLAEGEKLAPVEVKVLDKQ 180 Query: 184 -GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L +G NR+I+++ V +L R GP LG L G R ++ ++ Sbjct: 181 MLGKTLLELTLIQGINRQIRRMCRDLGLTVLKLRRTCEGPLSLGALPTGKLRTLTPAEVK 240 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 69/273 (25%), Positives = 107/273 (39%), Gaps = 33/273 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 P R+ K +ARAG ASRR E ++ RV VNG ++ V D + VDG +R A+ Sbjct: 29 PMRLQKFLARAGAASRRGSENLMTAGRVTVNGKVVTELGSKVDPLVDEVAVDGAVVRLAD 88 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L+ + T R+ + + +GRLD +T GLLL + DG L Sbjct: 89 GPVTIMLHKPAGFVTTMSDPQGRRTVAELVPTERYPGLFPIGRLDFDTTGLLLFSTDGEL 148 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--- 187 L P + Y G+ + L LL++GI + V + + Sbjct: 149 GNGLLHPKHHVTKRYLACVEGRPTERDLALLRRGIELDDGPTQPADVRMVEGGAARHAER 208 Query: 188 ----------------------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 V +G+REG+ R++K++ V L R S Sbjct: 209 LLEIPAAVPPRSSKEYAAVCEGRATRRSIVRLGIREGRKRQVKRMLAAVGHPVLALHRDS 268 Query: 220 YGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +GP +LG L GS R + + + E Sbjct: 269 FGPLELGDLPRGSWRALDAEEVAALHQAIGRAE 301 >gi|315151609|gb|EFT95625.1| conserved hypothetical protein [Enterococcus faecalis TX0012] Length = 320 Score = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 69/267 (25%), Positives = 118/267 (44%), Gaps = 3/267 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 +QE R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G Sbjct: 54 IQEWSGTMRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQ 113 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + L + + VGRLD +TEGLLLLT Sbjct: 114 LISHKTHVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLT 173 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKG 184 ++G L L P+ + + Y V+ +G V + K GIV+QG ++T+ Sbjct: 174 DNGQLGYQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATE 233 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + V + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ Sbjct: 234 TESHVFLTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQL 293 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRD 270 L +E+ Q + R Sbjct: 294 LLPYFFIEKQQTSKALLSNLKREEERK 320 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I Q RV+VNG ++ V D ++VDG+ + Sbjct: 107 EQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGRRVDPEKDEVKVDGLTVA 166 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 167 TQSYQFFSLNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 225 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + Q G N Sbjct: 226 ELAHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYL 285 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 286 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 338 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 67/255 (26%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNSKISSDHTEDTIRLSKRMAQLGLCSRREADGHIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENCWEGDTSRISFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E ++ L RI G +L Sbjct: 180 SLDGDKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRIVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 45/232 (19%), Positives = 99/232 (42%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + V +G +++ + V I ++G PL Sbjct: 1 MRLDKYICESTSLTRSLAKKALHRGDVTCDGKVIKDSGFKVTDKQVICLEGEPLSVI-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D + S + + GRLD++T GL+L+TNDG + Sbjct: 60 RFIMLNKPLDTICSTIDEEYPSVLGLLDVVKADELHIAGRLDVDTTGLVLITNDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + + Q+ + G+ + + + + + + Sbjct: 120 ITSPKKECGKRYLLETAEPLKQEWVEEFAAGLQLNNEDGLTKPATLEIL----GSHQARL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++ V +L R S G +L L +G R +++ ++ Sbjct: 176 TITEGKYHQVKRMLAAVGNCVTQLHRESVGEIELDESLASGEWRYLTEAEIK 227 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 60/241 (24%), Positives = 108/241 (44%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ + +D + Sbjct: 248 IEYKEQFVDPNEPIRLNKFLANAGVCSRREADEFITAGVVSVNGEVVTELGTKIKRSDVV 307 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ + + L + T+ + R+ + + R+ VGRLD NT G Sbjct: 308 KFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDLVKGACNERIYPVGRLDRNTTG 367 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V + + ++ + G+ ++ Sbjct: 368 VLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMDQIAAGVQLEDGEIH-ADAISY 426 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 T V + + GKNR ++++FE +KV +L R+ + L G R +S+ Sbjct: 427 TDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFAGLTKKGLRRGDWRYLSEAE 486 Query: 241 L 241 + Sbjct: 487 V 487 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 111/230 (48%), Gaps = 1/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K IA +GI SRRE + +I Q V+VNG ++ V TD + DG + + Sbjct: 137 ETIRLNKYIANSGICSRREADELITQGLVQVNGAVVTEMGYQVQKTDKVIFDGQGITPEK 196 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L + TT + ++ + + RV VGRLD +T G++LLTNDG + Sbjct: 197 PVYVLLNKPKGYISTTKDEKARKTVMDLVANASPYRVFPVGRLDRSTTGVILLTNDGHMT 256 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + L PS ++Y V ++D+ LN + +G+ ++ ++ K N V + Sbjct: 257 KKLTHPSFNMKKIYHVTLDRKLDRADLNAIAEGVRLEEGVAEVDSISYIEGKPKN-EVGI 315 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + G NR ++++F+ ++V L R+ + + G R +++ + Sbjct: 316 EIHIGWNRVVRRIFQRLGYEVEALDRVMFAGLTKKNIKRGHWRILTELEV 365 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ Sbjct: 85 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHV 143 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 144 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 203 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 204 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 263 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+RI +GP L L G Sbjct: 264 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGLPNRLKRGQFY 323 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 324 ELNPAEVANIIKWADM 339 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 47/236 (19%), Positives = 101/236 (42%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +RRE +++ + ++V+G ++ A+ +V + +E +G PL+ Sbjct: 1 MRLDKFLGTTLGITRREAGKLLRDKMIEVDGEIVRSASFSVSDDNDVEFNGRPLKLQGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D + ++ GRLD +T GL+LLT+DG + Sbjct: 61 YFMLNKPEGFVCSH-VDDFNPTVFVLFDEVSPEKMHVAGRLDGDTTGLVLLTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + +D + + G+ + + ++ + ++ + + Sbjct: 120 ITSPRHLCSKTYFVEAADPITEDYIKQFEAGVQLRSEKELTRPAKLEILGEREA----LL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++K++F KV L R G +L L G R ++++ + L Sbjct: 176 TISEGKYHQVKRMFAAMGNKVVGLHRERIGTVELDEDLAPGEYRPLTEEEIASFLK 231 >gi|218289710|ref|ZP_03493918.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] gi|218240167|gb|EED07351.1| pseudouridine synthase [Alicyclobacillus acidocaldarius LAA1] Length = 242 Score = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 68/234 (29%), Positives = 109/234 (46%), Gaps = 4/234 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 RV K + AG +R E +++ RV++NG ++ AA + D +EVDG + Sbjct: 3 TIRVDKWLTTAGYGTRSEAKKLCRAGRVRLNGETVKDAAKHADPAVDVLEVDGEIVPYEP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +Y P + +T D + I+ V VGRLD + EGLLLLTNDG LA Sbjct: 63 LVYFMMYKPPGYVSSTEDPRDPVVIELLDEEDIWRDVFPVGRLDKDAEGLLLLTNDGPLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 L P + Y VR G + +D L +G+V+ ++ + + G+ + Sbjct: 123 HRLLAPKRHVPKRYFVRVRGALGEDDARALAEGVVLDDGYKAMPAELEIL-RSGAESEAI 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + EGK ++K++F +V L RIS GP L L G R +++ + Sbjct: 182 IQVYEGKYHQVKRMFASLGKRVTFLKRISMGPLSLDPALKPGEYRRLTEGEIEA 235 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 115/233 (49%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQ-LGDRITEQDLVYIDGQLSSLSAPE 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + T + 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-GTLLAGSTREVSKKILR 242 V + EG++R +++++E KV+RLIR+ +GP L +L G+ +E+ ++ Sbjct: 182 VVVVEGRHRLVRRLWESQGVKVSRLIRVRFGPIVLPKSLRRGAWKELESPEIK 234 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL Sbjct: 1 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLVYESF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYLLNKPSGYVSATQDRQQATVMELLDDTARQKTVFPVGRLDKDTRGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVT 190 L P + Y + G + + + +GI ++ + + + + V Sbjct: 121 DLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S GP +L +L G R ++ + L+ Sbjct: 181 ITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEELQ 233 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL Sbjct: 2 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLVYESF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQQATVMELLDDTARQKTVFPVGRLDKDTRGLLLLTNNGQLAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVT 190 L P + Y + G + + + +GI ++ + + + + V Sbjct: 122 DLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLVK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S GP +L +L G R ++ + L+ Sbjct: 182 ITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEELQ 234 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+RI +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRIGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >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 (398), Expect = 2e-36, Method: Composition-based stats. Identities = 87/280 (31%), Positives = 127/280 (45%), Gaps = 10/280 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG + Sbjct: 67 GEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNLISLIP 126 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + +R ++VGRLDINT GLLL T Sbjct: 127 AQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLTGARWVAVGRLDINTSGLLLFTT 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-GTLLAGSTREVSKKI---LR 242 W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + LR Sbjct: 247 QWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQVNYLR 306 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 E +G E +V++ + + Sbjct: 307 ELVGLPAETETKVDVIKNRRRTNIRQIRKAVKQHSKYRAK 346 >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 = 158 bits (398), Expect = 2e-36, Method: Composition-based stats. Identities = 99/277 (35%), Positives = 146/277 (52%), Gaps = 13/277 (4%) 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 DTQK--------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 N W V LREG+NRE+++++E KV+RLIR+ YGP L L Sbjct: 183 VVDYRALGYEAPPGNEWYQVTLREGRNREVRRLWESQGLKVSRLIRVRYGPVSLPRGLRR 242 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 G R + + + LE + + Sbjct: 243 GEHRPLREGQVAALCQAVGLEHETQKDNDKRKAPRHK 279 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 50/230 (21%), Positives = 96/230 (41%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R ++++ + V+ +G +++ V + ++GVPL Sbjct: 1 MRLDKYLCSCTDLTRSMAKKLLHKGEVQCDGEVVKDPGFKVTDDTQVVLEGVPLGPVATR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ L + + LP + I+ GRLD++T GL+LL+ DG Sbjct: 61 YIMLHKPAEFLCSNVDELYPSVLNLIELPKRETLRIA-GRLDVDTTGLVLLSEDGQWCHQ 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P Q + YR + D L +G+ + + ++ S+ V + Sbjct: 120 ITSPRRQCSKRYRAWLAEPLVADAEQQLAQGVQLHNEEGLTRPAELVRI----SDTEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + EGK ++K++F KV L R + G +L L G R +S+ Sbjct: 176 TIEEGKYHQVKRMFAALGNKVVALHREAIGAIELDETLEPGEWRLLSEDE 225 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I Q RV+VNG ++ V D ++VDG+ + Sbjct: 119 EQEGERLQKVLARAGYGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEVKVDGLTVA 178 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 179 TQSYQFFSLNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 237 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + Q G N Sbjct: 238 ELAHRLTHPKYGVKKTYLAAIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYL 297 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V++L+R ++GP LG +G R +S + Sbjct: 298 VEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLRRLSNTEV 350 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 60/234 (25%), Positives = 101/234 (43%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K + + +R ++ ++I ++ V VN ++ + V V D + + + + Sbjct: 1 MRVDKFLHDMNVGTRSQIRKLIKEKVVFVNDVVAKSGRVKVDPVVDQVRLGEQVITYQQY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T N + VGRLD +TEGLLL+TN+G LA Sbjct: 61 FYFMMNKPLGVVTATEDRKQKTVMDLFNKVDFRKDLFPVGRLDKDTEGLLLITNNGPLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWV 189 L P + Y GQ+ + GIV++ +T+ V Sbjct: 121 QLLAPERHVQKTYEAVVTGQITDPAVKQFADGIVLKDGTQLKPADLTILNYSALDEQTLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V L+EGK +++++F +V L RIS+GP QL LL G+ RE+S + + Sbjct: 181 HVTLKEGKYHQVRRMFGSLGERVVSLKRISFGPLQLEEGLLPGTYRELSDEEIE 234 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 85/304 (27%), Positives = 139/304 (45%), Gaps = 10/304 (3%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + + +++ K++AR+G SRRE+E ++ + R+ V+G + V V +T I +DG Sbjct: 9 MSSKPQQTEKLQKILARSGHGSRREIEGLLKEGRISVDGKMATLGDRVEVKATTKIRLDG 68 Query: 65 VPLRKAERTRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 L E + Y L T H + +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 KI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 + LRE + + E++V+++ + R K+ SS+ Sbjct: 249 EQTNYLRELVELDVETESKVSVERDQRRIKANQIRRAVKRHTQVASRPAAKRQSSRPTAK 308 Query: 296 SKQK 299 + + Sbjct: 309 RRTR 312 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 81/267 (30%), Positives = 125/267 (46%), Gaps = 7/267 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +R+ K++AR G+ SRREVE I RV++NGI + V D + ++G PL Sbjct: 3 ERLQKILARGGLGSRREVEAWIKAGRVRINGIPAQ-LGDKVSDEDQVTINGRPLSPRRLQ 61 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + + + + 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 HLLEEAQVNLDAPIYSSETLVRDRPNI 274 +E L + ++ + R Sbjct: 242 GGVERRITGLQSRSKNNRRGRQGRKQG 268 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 83/290 (28%), Positives = 125/290 (43%), Gaps = 7/290 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV V+G + V S I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIA-SLGDRVESDAKIRIDGRTVSIRSE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + + + 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|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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 57/228 (25%), Positives = 104/228 (45%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR++ ++I + R+ VNG+ V D I +D PL E+ Sbjct: 1 MRINKLFSNLGICSRKDTSKLIEENRIIVNGLPC-IQGQWVELEDEILLDNKPLPIKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + N + + VGRLD ++GL+LLTNDG LA Sbjct: 60 YIALNKPVGVTCTAADEVEH---NIINFMNYNEYIFPVGRLDKASQGLILLTNDGDLANK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + + G+ I + +V ++ + L Sbjct: 117 ILESENEHEKEYIVTLDRPFNDEFILGMTSGVEICNVKTRQCKVRRISED----TFNIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G N++I+++ + F + V +L RI +LG L G R +S++ L Sbjct: 173 TQGLNKQIRRMSKAFGYNVKKLERIRIVNIELGNLEYGKWRYLSEEEL 220 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 79/333 (23%), Positives = 134/333 (40%), Gaps = 9/333 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 207 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 265 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 KILR---EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 +R +G E + + +A + + Q Sbjct: 446 NQVRALMASVGLKAPTEERGSRNAAPERKQPDPMQTSMGFINREPVLMSHGRFDQQPPRG 505 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDS 328 ++ A A + + + Sbjct: 506 QGRRGGAAGGGFAGGAGAGFGGGYGNRGAGRSA 538 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 65/240 (27%), Positives = 110/240 (45%), Gaps = 9/240 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++K IA G SRRE +R+IA++RV VNG AV V D + VDG PL+ Sbjct: 2 TEEAVRLNKHIAGTGFCSRREADRLIAERRVTVNGQPAGVGAV-VGEGDEVRVDGQPLKL 60 Query: 70 AE----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + R + T + + R+ +GRLD ++EGL+LLT Sbjct: 61 RAARPGKRRHVYIALNKPVGITCTTESSVKGNIVDFVGHEQRIFPIGRLDKDSEGLILLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ++G + + + Y V + V + L + +G+ I + + + G Sbjct: 121 SNGDIVNEILRAENGHQKEYLVAVNKPVTDEFLRGMSRGVRIHNQMTLPCRASRIAKFG- 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L++G NR+I+ + F+++V +L R+ +LGTL G R ++ + LR L Sbjct: 180 ---FRIVLQQGLNRQIRLMAAAFDYRVTQLRRVRIDNIRLGTLKPGQWRNLTPEELRGLL 236 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 108/229 (47%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ +GI SRRE +++I + VKVNGI++ V D ++ + L + Sbjct: 329 IRLNKYISNSGICSRREADQLIIEGTVKVNGIVVTELGYKVKPGDSVKYNNKVLNPEKSV 388 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + T + D ++ + + R+ VGRLD NT GLLL TNDG LA+ Sbjct: 389 YVLLNKPKDFITTMEDENDRKTVMQLVANATKERIYPVGRLDRNTTGLLLFTNDGELAQK 448 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + ++Y V + + + + I + + + S + + Sbjct: 449 LTHPSNKVKKIYEVELDKPITAEDFDKIVDGKIHLFDGPVKVDEAAII--SPSKKIIGIE 506 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+NR ++++FE + V +L R+ Y + GS R ++ + Sbjct: 507 IHEGRNRIVRRIFESLGYDVLKLDRVMYAGLTKKNIPRGSWRYLTATEV 555 Score = 36.7 bits (83), Expect = 6.2, Method: Composition-based stats. Identities = 13/108 (12%), Positives = 26/108 (24%), Gaps = 1/108 (0%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + + + + P S++ D + + G + Sbjct: 144 IAQSGEDRRPQPDRGVERRPAKRSDSRGGDDRSPAKRSYTKRGEGSAEYKSRAGEGRSSA 203 Query: 301 LATP-VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 +R S SG REE+ ++RS Sbjct: 204 PKKTFGPKREDDSRSGRGPAAKFPNKRTSGSREESGDFKRKPTTRRSF 251 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 93/237 (39%), Gaps = 8/237 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ K++A G SR+EV ++ RV+V+G + A V + +DG L Sbjct: 5 RLDKLLAGQGQGSRKEVHTLLRGGRVQVDGQTVTDAGQKVDPDRQRVTLDGHALLWRAHL 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + + + GRLD +TEG LL+T+DG A Sbjct: 65 YLMMNKPAGVISASRDPKARTVLDLLPADLCRPGLFPAGRLDKDTEGFLLITDDGAFAHD 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 + P ++Y D + G+ ++ ++ L + A V Sbjct: 125 ILAPRRHVEKIYLATLDRPADTADTDAFATGLTLEDGLHCLPARLWLGEGTDAYAAVR-- 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPH 248 EGK +++++F +V L RI G L L G RE++ R+++G Sbjct: 183 --EGKFHQVRRMFAARGKQVVHLRRIQIGGLALDESLAPGEARELTPAE-RDRIGLR 236 >gi|240047413|ref|YP_002960801.1| Pseudouridine synthase [Mycoplasma conjunctivae HRC/581] gi|239984985|emb|CAT04978.1| Pseudouridine synthase [Mycoplasma conjunctivae] Length = 233 Score = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 71/229 (31%), Positives = 110/229 (48%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K+IA+ G+ SRR+ E+MI +V +NG D IE+DG + K + Sbjct: 5 QRLQKLIAQVGLCSRRQAEQMIKDGKVYLNGEKA-NLGDRASWEDKIEIDGEQIAKKVKI 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP G +TT D R TV D + + VGRLD NT GLLL+TNDG LA Sbjct: 64 VWYLLNKPAGYITTVRDQFNRPTVMDFF-DNKTHLFPVGRLDYNTTGLLLITNDGELANK 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P + R+Y + + +L+ L + + +K S+ + + Sbjct: 123 LLHPRNKIERIYLAKLDYSLADWELDFLNTTSLNLDGVISKQK----IEKVSSRKYKITI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G N +KK+F +V L RI + +L L G R++S ++ Sbjct: 179 WQGSNHHVKKIFAIAKKQVIELKRIGFANLELANLPEGQFRKLSDLEIK 227 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL Sbjct: 1 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLVYESF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYLLNKPSGYVSATQDRQQATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVT 190 L P + Y + G + + + +GI ++ + + + + V Sbjct: 121 DLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S GP +L +L G R ++ + L+ Sbjct: 181 ITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEELQ 233 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 100/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL Sbjct: 2 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLVYESF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQQATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVT 190 L P + Y + G + + + +GI ++ + + + + V Sbjct: 122 DLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLVK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++ +V L R+S GP +L +L G R ++ + L+ Sbjct: 182 ITIQEGKFHQVKRMVAACGKEVLDLQRLSMGPLKLDPSLAEGEFRRLTPEELQ 234 >gi|311899116|dbj|BAJ31524.1| putative ribosomal large subunit pseudouridine synthase B [Kitasatospora setae KM-6054] Length = 428 Score = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 68/232 (29%), Positives = 109/232 (46%), Gaps = 2/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 +R+ KV+ARAG+ SRR E +IAQ RV VNG + V D I+VDG+ + Sbjct: 189 EDGERLQKVLARAGMGSRRACEELIAQGRVDVNGETVLEQGRRVDPVKDEIKVDGLTVAT 248 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 249 QSYLFFALNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHGE 307 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y G + +D L KG+ ++ + + G N V Sbjct: 308 LAHRLTHPKYGVTKTYLAAIQGPLPRDLGKTLAKGVELEDGWARADSFKVISNLGKNYLV 367 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++ + V++L+R ++GP LG +G R ++ + Sbjct: 368 EVTLHEGRKHIVRRLLAEVGFPVDKLVRTAFGPITLGDQKSGWLRRLTNPEV 419 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 64/251 (25%), Positives = 101/251 (40%), Gaps = 16/251 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---------HIEVDG 64 R++K +A G SRR R+I +V++N L V D I V+ Sbjct: 1 MRLAKYLALTGCCSRRAATRLIRDGQVRINDRLANHVDS-VSLIDTPEGQRSAEQIYVND 59 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + E WL++K + T +L R+ +GRLD ++ GLL+L Sbjct: 60 ELVCPIEAKAYWLFNKS--VGTDSRLLAHLPNSLIHLLPETPRLYPIGRLDKDSRGLLIL 117 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L L P + Y V+ D L + G+ + + + Sbjct: 118 TNDGELTHKLMHPDFGHAKTYHVQLDRDFDDAFLASMAAGVSYKDVTTLPCIMQRLAADK 177 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ + +KV L R+S QLG L GS R +S L + Sbjct: 178 ----YQITLTQGLNRQIRRMSQALGFKVIDLKRVSIQSLQLGDLAEGSMRPLSSAELADL 233 Query: 245 LGPHLLEEAQV 255 L E+ Sbjct: 234 LASVACPESSA 244 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 89/288 (30%), Positives = 131/288 (45%), Gaps = 10/288 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V G + ++V S + +DG Sbjct: 70 QPKIEGEKLQKVLARAGQGSRREIETMIASGRVSVEGKIAILGDRIDVHSGVKVRIDGQI 129 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + 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 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 LRE +G ++++ ++ + + + Sbjct: 310 VNYLRELVGLPAETATKLDVKQASRRPKSGQIRKAVKRYSEMNKRYKK 357 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 59/253 (23%), Positives = 98/253 (38%), Gaps = 6/253 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++ G SR+E+ ++ RV V+G + V + VDG P+R Sbjct: 1 MRLDRLLGHMGFGSRKELRALLKAGRVTVDGRPVTDPGTLVDPGTSSVAVDGEPVRFQRH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+ + T ++ VGRLD +TEGLLLLT DG LA Sbjct: 61 FHVLLHKPAGVITATADPRQRTVMDVLPEDLRRRDLVPVGRLDKDTEGLLLLTTDGTLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y R +D G+ + G ++ + + + V Sbjct: 121 RLMAPRWHQPKRYLARVDRPLDPADQEAFAAGVPLADGYVTLPARLEILSPQEGI----V 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 +REGK +++++F +V L R+S GP LG L G+ R ++ + L Sbjct: 177 TVREGKYHQVRRMFAARGKRVVYLKRLSMGPLSLGDLPPGAARPLTAAEVDALYRSASLP 236 Query: 252 EAQVNLDAPIYSS 264 Sbjct: 237 NPDDPDVPLAGPP 249 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 91/228 (39%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ SR+EV+ +I +RV+V G L+ NV+ +EV+ Sbjct: 1 MRLDKYLSHLQFGSRKEVKALIRDKRVRVAGDLITDPGYNVLPGIAVEVNDAQADGPLEV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + VGRLD +T GLLLLT DG L Sbjct: 61 DYLMNKPAGVITATEDPTQSTVLDLIRPHDYRPGLYPVGRLDKDTTGLLLLTTDGNLGHA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + Y + D L+ GI ++ QV + + + + Sbjct: 121 LLSPNRHIAKTYAATLAKTLTADMKQRLETGIDLKDFTTAPAQVVVLPDTDGKR-IQITI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 EGK ++K++ + +V L RI+ GP L L AG + ++ Sbjct: 180 TEGKFHQVKRMLLAVDNEVTALTRIAMGPLSLPADLAAGEYQALTDDE 227 >gi|158319769|ref|YP_001512276.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158139968|gb|ABW18280.1| pseudouridine synthase [Alkaliphilus oremlandii OhILAs] Length = 242 Score = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 55/217 (25%), Positives = 101/217 (46%), Gaps = 3/217 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 QR+ K+++ G SR+++ ++ VKV+G +++ ++ +V I + + Sbjct: 3 KTQRIDKILSNLGYGSRKDIRQICKNGLVKVDGKVVKDSSAHVDPENSQIIIGNEVVNYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L ++ + T + D + + V VGRLD +TEGLLLLTNDG L Sbjct: 63 EFVYLMMHKPQGVISATEDNRDQTVVDLLDEEYLPFSVFPVGRLDKDTEGLLLLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y + G V + + K+G+ I + ++ + + + + Sbjct: 123 AHNLLSPKKNVPKTYYAKVLGTVTRSDIESFKEGVFIEEDYKTLPAELNIL-KSDEISEI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + + EGK ++K++FE + V L R+S G L Sbjct: 182 ELTIYEGKFHQVKRMFEAVDKTVVYLKRLSMGTLNLD 218 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 109/229 (47%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ + + GI SR+EV+++I+ + +KVNG A N+ +D IE +G L E Sbjct: 1 MRLDRFLVECGIGSRKEVKKIISAKEIKVNGSYDISAKDNIDEYSDVIEYNGERLEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLLLTNDG L Sbjct: 61 RYYIMNKKAGYITATEDIREATVMDLLPEWVIRKDLAPVGRLDKDTEGLLLLTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + Q+ + L++G+ I +V +K S+ + + Sbjct: 121 KLLSPKNHVDKTYYVEIENNISQEDILKLEEGVDIGNYITLPAKV----EKISDTKIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E N KVN L R ++ L L G +EV+ + + Sbjct: 177 IKEGKFHQVKKMLEAVNNKVNYLQRTTFAKLSLDGLALGEVKEVNLEDI 225 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 68/247 (27%), Positives = 114/247 (46%), Gaps = 8/247 (3%) Query: 7 VQENFTPQ--RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 + E + R+++ +A GIASRR ++M+ + RV VNG ++ + + D + VD Sbjct: 1 MTEKRRGEEVRINRYLAMCGIASRRAADQMVIEGRVMVNGQVVIEPGLQIKMGKDEVIVD 60 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G E ++++ V T S + + + + RV VGRLD T G LL Sbjct: 61 GQKYALPEERKVYILFNKPRNVITTSSDERDREMVLDYIKVKERVFPVGRLDRKTTGALL 120 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDT 181 TNDG LA L PS+ + Y Q L LL G+ ++ Q + Sbjct: 121 FTNDGILANKLMHPSSNVKKEYLAVLDTAFPQSSLPLLTGGMRLKDTGEKVRPCQAKILD 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G W + L EGKN +++++F ++V RL R++Y + G L G R ++++ + Sbjct: 181 G-GMQVW--MSLHEGKNHQVRRMFWTLGFEVTRLERVTYAGLKTGDLRRGEWRYLNREEV 237 Query: 242 REQLGPH 248 R+ Sbjct: 238 RQLQELA 244 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNPKTPPDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEGDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >gi|237745528|ref|ZP_04576008.1| pseudouridylate synthase [Oxalobacter formigenes HOxBLS] gi|229376879|gb|EEO26970.1| pseudouridylate synthase [Oxalobacter formigenes HOxBLS] Length = 249 Score = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 65/249 (26%), Positives = 108/249 (43%), Gaps = 23/249 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P R+SK ++ GI SRRE + I + VKV+G + + V+ I ++ Sbjct: 3 SEPVRLSKRMSELGICSRREADEWIERGWVKVDGKTVSQLGSKVLPHQKISIEKQASQEQ 62 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + L++ + G + PS ++ GRLD Sbjct: 63 ARRVTILINKPVGYVSGQAEDGYKPAVSLISEATRWKGDPSKEKFKPSQLRSLVPAGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG----QVDQDKLNLLKKGIVIQGIC 171 I++ GLL+LT DG +A+ L ++ + Y VR ++ ++ L LL+ G+ + G Sbjct: 123 IDSVGLLVLTQDGRIAKRLIGENSATDKEYLVRVKYLKPGKLPENDLQLLRHGLKLDGKP 182 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V + LREGK R+I+++ E KV L RI G +LG L G Sbjct: 183 LLPAKVNWQNDDQ----LRFVLREGKKRQIRRMCEAVGLKVIGLKRIRIGQIKLGDLPPG 238 Query: 232 STREVSKKI 240 R + + Sbjct: 239 QWRYLRPEE 247 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 78/241 (32%), Positives = 120/241 (49%), Gaps = 4/241 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ KV+A+AG+ASRR E +IAQ RV+VNG ++ R V V I VDGV ++ E Sbjct: 109 VRLQKVLAQAGVASRRMSEELIAQGRVEVNGEIVMRQGVRVDPDTAVIRVDGVRVKVNED 168 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---RVISVGRLDINTEGLLLLTNDGG 129 +KP+G+ +T D GR V D + + VGRLD TEGLLLLTNDG Sbjct: 169 LVYIALNKPLGVQSTMKDDMGRPCVGDIVGEKVDAGLHLFHVGRLDAKTEGLLLLTNDGE 228 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L P + Y G+ D++ + L++G+ ++ V + + + Sbjct: 229 LANRLMHPKYHVSKTYLATVLGEADRELVKKLREGVDLEDGIAKADYVQIVDTYEGRSLI 288 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EG+ ++++ + + V +L+R QLG L G+ R ++ LR Sbjct: 289 RVELHEGRKHIVRRMLKELGFPVQQLVRTKIHTVQLGELTPGAIRHLNDSELRALYKAVE 348 Query: 250 L 250 + Sbjct: 349 M 349 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 80/309 (25%), Positives = 130/309 (42%), Gaps = 7/309 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV +NG + + + TD + +DG ++ Sbjct: 2 SEKLQKVLARVGLGSRRYMEEVIAAGRVSINGKIAQV-GERIEPTDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLL+ TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLIFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V N + KG+ ++ + G N Sbjct: 121 GELANRLMHPSNEVEREYAVRVMGEVTPQIRNNMLKGVELEDGPAKFESFSEIGGDGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWMELDKADIDNLAK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ Q + T + + + +++ Q Sbjct: 241 SVELKPRQGTGLFGMAKRRTERMSEKPMAARRGGYLRQQRRDDEQPEQQRPNTNNNGNSG 300 Query: 307 RRNLASNVW 315 R+ + N Sbjct: 301 RKTIGLNKG 309 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 65/252 (25%), Positives = 114/252 (45%), Gaps = 21/252 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R++K +A AG+ SRR + +IA RV VNG + + V D +EVDG P++ Sbjct: 2 EKTVRINKALADAGVCSRRRADELIAAGRVSVNGEPVASPGLQVTPGTDKLEVDGKPVQP 61 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTN 126 L L + T + + + +R GRLD +EGL+LLT+ Sbjct: 62 IAQAPCYLLLNKPVRVVSTAYDPEGRTTVLDLVPAKWKARRLYPAGRLDFFSEGLVLLTD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGS 185 DG L + P RVY V G V L +++KG+ + +G +++ + + Sbjct: 122 DGELTNRVVHPRHHMPRVYHVLIRGGVSDRALEVMRKGMTLAEGEKLAPVEIRVLPGQVH 181 Query: 186 N----------------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + + L +G NR+I+++ + + RL+R++ GP +LG + Sbjct: 182 DLSGVSRNAGPPAGQRGTLLEMTLHQGLNRQIRRMCRDLHLTILRLVRVAQGPLRLGVMK 241 Query: 230 AGSTREVSKKIL 241 G RE++ + Sbjct: 242 PGEARELTPAEV 253 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 67/255 (26%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V+ D I Sbjct: 1 MNPKTPPDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVLPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + + ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEDDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 62/221 (28%), Positives = 109/221 (49%), Gaps = 7/221 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K ++ AG+ SRR + I +V +NG VM D + G +++ Sbjct: 2 SDGIRLNKYLSEAGVCSRRAADTHIENGKVTINGETA-VMGQKVMPGDVVTFMGRKVQQK 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +RT + Y+KPIGL T S D + R+ VGRLD +++GLLLLTNDG L Sbjct: 61 DRTVILAYNKPIGLTCTASKAD--PDNIFDHIDYPIRLQYVGRLDKDSQGLLLLTNDGDL 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|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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 67/240 (27%), Positives = 111/240 (46%), Gaps = 16/240 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMST----DHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG + + + + D IE+DG P+ Sbjct: 1 MRLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLDESLNCLDRIELDGAPIT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K E W+ +K +G + D T +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 KTETLAYWILNKAVGTDCRLLEQDE--TSLIHLLPKAPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y VR + D + + G+ + + QV + Sbjct: 119 ELTHKLMHPSFVHSKTYHVRLNRPFTDDFVEQMASGVRYKNLQTLPCQVRRLSSDS---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ-----LGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + ++V L R++ LG L G + ++ + E Sbjct: 175 FEIVLTQGLNRQIRRMSKALGYRVIDLERVAIMTLNLRELALGELQEGQMQPLTDSKIAE 234 >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 = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 51/231 (22%), Positives = 105/231 (45%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ G+ +R EV++ + +++V ++ + + + ++V+ + Sbjct: 1 MRLDKFLSNMGVGTRTEVKQRLKKKQVTIDDKVETSPKKQINPELEIVKVNDQKIDFV-N 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +KP ++ +D ++ + + + VGRLD +TEGLLL+TNDG Sbjct: 60 KVYLMLNKPKDYISATTDEQHKTVLDLIEDYRYLDLFPVGRLDKDTEGLLLITNDGQFNH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + ++ +N K GI + + L N V Sbjct: 120 ELMSPGKHVAKTYEVISQKNITKNDINAFKVGIELNEGLAKPAK--LVQGDELNKSF-VT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EG+ ++K++F + +V L RI G QL + L +G R ++++ + Sbjct: 177 IYEGRYHQVKRMFHAIDNEVLALKRIRIGDLQLDSTLASGEYRHLTQQDFK 227 >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 = 157 bits (396), Expect = 2e-36, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 104/228 (45%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR++ ++I + R+ VNG+ V D I +D L E+ Sbjct: 1 MRINKLFSNLGICSRKDTSKLIEENRIIVNGLPC-IQGQWVELEDEILLDNKLLPIKEKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + N + + VGRLD ++GL+LLTNDG LA Sbjct: 60 YIALNKPVGVTCTAADEVEH---NIINFMNYNEYIFPVGRLDKASQGLILLTNDGDLANK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + ++ G+ I + +V ++ + L Sbjct: 117 ILESENEHEKEYIVTLDRPFNDEFILGMENGVEICNVKTRQCKVRRISED----TFNIIL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G N++I+++ + F + V +L RI +LG L G R +S++ L Sbjct: 173 TQGLNKQIRRMSKAFGYNVEKLERIRIVNIELGDLEYGKWRYLSEEEL 220 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 57/238 (23%), Positives = 104/238 (43%), Gaps = 5/238 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K + + +R ++ +MI + + VN +++ V V D + + + + Sbjct: 1 MRVDKFLHDMNMGTRTQIRKMIKDKLIFVNDTVVKTGRVKVDPVVDEVRLKDQVIEYQQY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L T N + + + VGRLD +T+GLLL+TN+G LA Sbjct: 61 FYFMMNKPLGVLTATEDRKQKTVMDLFNKVDLRNDLFPVGRLDKDTQGLLLITNNGQLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDT--QKGSNAWV 189 L P + Y G++ + +KGI ++ Q+ ++ + V Sbjct: 121 DLLAPERHVDKTYEAVVTGKITDQAVEEFQKGITLRDGTTLKPAQLIIEHYSELDDQTVV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 V L+EGK +++++F KV L R S+GP +L LL G+ RE++ + + Sbjct: 181 KVVLKEGKYHQVRRMFGSLGEKVVTLRRTSFGPLELDVGLLPGTYRELTDDEINRLVE 238 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 94/234 (40%), Gaps = 3/234 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E T R+ ++IA G S+R+V+ MI RV + + + D I VDG PL Sbjct: 10 EGHTDMRLIRLIANLGYGSQRDVKAMIKAGRVTLADGTVLDDGTKA-AHDDIRVDGEPLD 68 Query: 69 KAERTRLWLYHKPIGLVTTHSD-PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L+ +T + + V VGRLD ++ GLLLLT+D Sbjct: 69 PPPGLVLMLHKPEGYTCSTSDPGRIVYELLPERFMHRNPIVAPVGRLDRDSTGLLLLTDD 128 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA + P + Y V + ++ + G ++ + G Sbjct: 129 GPLAHRITSPKRHVPKTYEVTLARPLSGEEGAVFASGTLMLRSESTPLAPAELVVSGPQT 188 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ ++K++F V RL R + G LG L G R +S + Sbjct: 189 -ARITITEGRYHQVKRMFAAVGNHVERLHRAAIGGLDLGDLAEGQWRPLSPAEI 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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 83/238 (34%), Positives = 121/238 (50%), Gaps = 8/238 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +ARAG+ASRR+ E +I + RV+VNG + V D +EVDG + ++ Sbjct: 5 RLQAFLARAGVASRRKAEDLIREGRVRVNGKVA-VLGQKVGPEDLVEVDGKRVELPQKRL 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP G TT DP R TVFD LP I VGRLD ++EGLLLLTNDG L L Sbjct: 64 VLALHKPKGYTTTRHDPHARRTVFDLLPKIPGL-HPVGRLDRDSEGLLLLTNDGDLTHRL 122 Query: 135 ELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P +VYRV G ++ L G+ ++ + + L Sbjct: 123 THPRFGVRKVYRVWTEGGTLPKEVCRRLLLGVDLEDGPARALACRPAPGGAV-----LVL 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 EG+ RE++++ + + V RL+R+ GP +LG L G R +S++ ++ L LE Sbjct: 178 AEGRKREVRRMLQRVGYPVRRLLRLQVGPIRLGDLPPGKWRRLSEREVKALLRLVGLE 235 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 46/236 (19%), Positives = 95/236 (40%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +R+E +++ + V+VNG ++ +V V +E +G L Sbjct: 1 MRLDKFLGTTLGITRKEAGKILKDRMVEVNGEVVRNGSVQVSDDCDVEFNGRSLSLQGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D + ++ GRLD +T GL+L+T+DG + Sbjct: 61 YYMLNKPQGFVCSH-VDDFNPTIFVLFDEISPEKMHVAGRLDGDTTGLVLVTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + +D + G+ + + ++ + + + + Sbjct: 120 ITSPRHVCEKTYYVETADPITEDYIQQFADGVQLRSEKELTRPAKLEILGENEA----LL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++K++F KV L R G +L L G R ++++ + L Sbjct: 176 TITEGKYHQVKRMFAAMGNKVVGLHRERVGAVELDEELEPGEYRPLTEEEIASFLK 231 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 74/249 (29%), Positives = 121/249 (48%), Gaps = 18/249 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK 69 QR+ KV+ARAG+ASRR E++IA+ RV V+G L+ + V T +EVDG + Sbjct: 16 DKAQRLHKVLARAGVASRRGAEQLIAEGRVVVDGRLVVEQGMQVDPATAVVEVDGKRVAV 75 Query: 70 --AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 T L K + + + P + + + VGRLD +T GLLL++ND Sbjct: 76 DDRHATYLLNKPKGVVTAMSDQRERCVGDLLREQPDLPAGLFHVGRLDADTTGLLLVSND 135 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----- 182 G LA L PS + + Y G V + L+ L++G+ ++ V + + Sbjct: 136 GELAHRLAHPSYEIPKTYLATVRGAVGKGALDALRRGVSLEDGPARADAVAVKGEARPAP 195 Query: 183 ----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 G+ + V + L EG+NR ++++F+ V L R+ GP +LG L AG+ Sbjct: 196 LRKAQTGHASGGARSVVEITLHEGRNRIVRRMFDAVGHPVVELARLRIGPIRLGGLQAGA 255 Query: 233 TREVSKKIL 241 R ++ + + Sbjct: 256 LRALAPEEV 264 >gi|159026975|emb|CAO86693.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 248 Score = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 90/239 (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 ERVQKILAQWGIASRRRAEEMIVARRVRRNGKIVQLGEKADPEKDHLEIDGKKIEPANRP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDG 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|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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 112/233 (48%), Gaps = 4/233 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++V+++AG+ SR E R IA+ RV+V+G ++ + IEVDG P+ +R Sbjct: 33 LARVLSKAGVCSRSEAARWIAEGRVRVSGRIVRDPEFPIASPAPPIEVDGQPMAAPQRLY 92 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + + + VGRLD +EGLLL +ND A L Sbjct: 93 LMLNKPRGVVTTAQDERGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAHL 152 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T + Y V+ D+D L L+ G+ +G + V + AW+ V L Sbjct: 153 TDPETGPQKTYHVQVDRLPDEDTLAALRAGVEDEGEFLVALAVRVLRSGDKTAWLEVVLD 212 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EG+NR I+++ F+ +V RL+R++ G LG L G R + + +Q Sbjct: 213 EGRNRHIRRLLAAFDLQVLRLVRVAIGELTLGDLGKGQWRVL---EVSDQQRL 262 >gi|328881450|emb|CCA54689.1| Ribosomal large subunit pseudouridine synthase B [Streptomyces venezuelae ATCC 10712] Length = 453 Score = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 109/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ V D I+VDG+ + Sbjct: 213 EQEGERLQKVLARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVDPEKDEIKVDGLTVA 272 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 273 TQSYLFFALNKPSGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHG 331 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + ++ LK GI ++ + Q G N Sbjct: 332 ELAHRLTHPKYGVKKTYLAAITGPLPREVGKRLKDGIQLEDGYARADHFRVVEQTGKNYL 391 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V +L+R ++GP LG +G R ++ + Sbjct: 392 VEVTLHEGRKHIVRRMLAEAGFPVEKLVRTAFGPIALGDQKSGWLRRLTNTEV 444 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 55/236 (23%), Positives = 96/236 (40%), Gaps = 5/236 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + + +R+ KVIA SRR+V+R++ + ++ VNG +++A + + D + V G Sbjct: 1 MPQKQKLERLDKVIAAQTKLSRRDVQRLVGRGQISVNGTPVKKADLKIDPDTDVVMVSGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L + L + T + + GRLD +TEG +L+T Sbjct: 61 TLALKRHVYIMLNKPRGVVCATSDAALPTVLDLVPDSLMRRGLFPAGRLDKDTEGFVLIT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG A + P + + Y R V Q + G+ + G ++ + + Sbjct: 121 DDGAFAHRILAPKSHVPKTYTARLDAPVTQQMIEAFAAGVQLDGAVCMPAELCVL---DT 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 V +R+G +IK++F V L R G L L G RE+S Sbjct: 178 PDTARVVIRQGMYHQIKRMFAACGAHVLALRRDRIGGLSLDIALGPGECRELSAAE 233 >gi|268596680|ref|ZP_06130847.1| pseudouridine synthase [Neisseria gonorrhoeae FA19] gi|268550468|gb|EEZ45487.1| pseudouridine synthase [Neisseria gonorrhoeae FA19] Length = 416 Score = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 151 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 209 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 210 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 269 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 270 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 329 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W + ++EG+NRE++++FE V+RL+R+++GP L L G Sbjct: 330 RIREQGGEGANKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGLPNRLKRGQFY 389 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 390 ELNPAEVANILKWADM 405 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 107/255 (41%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNPKISSDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G + P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENHWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 56/234 (23%), Positives = 115/234 (49%), Gaps = 6/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +++ G +R E +++I +RV++N +++ + + D I +DG L + Sbjct: 3 MRLDKFLSQTGKFTRAEAKKVIKAKRVRLNDEVVKDGKIKINEESDKIFLDGELLALNNK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDN-LPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KP G+V+ D ++ + P + VGRLD T GLL++TNDG A Sbjct: 63 EVYYMLNKPAGVVSATRDDKDKTVIDLINFPGRKEDLFPVGRLDKETTGLLIITNDGKFA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDT--QKGSNAW 188 + P + Y G++ + ++ + +G+ + Q+ + + +K + Sbjct: 123 HDIISPKKHVSKTYEAVVTGKISEKEVKIFSQGMELSNGDKLQPAQLDIISYSEKDDTSK 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V V + EGK +++++F + +V L R+ G +L L G RE++++ L Sbjct: 183 VRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRELTEEEL 236 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 82/309 (26%), Positives = 132/309 (42%), Gaps = 13/309 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPQLRQNMVNGVELEDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWMELDKTDIDNL-- 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 ++ + + R + ++E P R Q+ K+ T Sbjct: 239 ----AKSVELKPRQGTGLFGMAKRRTDRMTEKPMAARRGGYLRQQRRDDEKEAPTNTGNQ 294 Query: 307 RRNLASNVW 315 R++ N Sbjct: 295 RKSTGFNRG 303 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 75/287 (26%), Positives = 127/287 (44%), Gaps = 7/287 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV ++G + + + + + +DG + Sbjct: 7 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIAK-LGDRIEADAKVRIDGRTVSIKSE 65 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + + + 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-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RLIRI YG L +L G E+ + + Sbjct: 186 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIDLPKSLPRGGWVELPIEQVNYLRK 245 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 ++E L S + + I + ++ Sbjct: 246 LAGMDEETRTLLGTDKHSVARAKVKSAKIRRAVRKHKTTAGKTPRQR 292 >gi|325205871|gb|ADZ01324.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M04-240196] Length = 349 Score = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 71/256 (27%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I + VNG + V DH+ Sbjct: 84 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWITNGWITVNGKTAQ-LGDKVTPDDHV 142 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 143 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 202 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 203 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 262 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 263 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 322 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 323 ELNPAEVANIIKWADM 338 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 62/229 (27%), Positives = 104/229 (45%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR+EV+ ++ ++++VNG+ + N+ D + L E Sbjct: 1 MRIDKFLVECGVGSRKEVKELLKSRKIRVNGLFITSPKENIEEEKDEVYYGEKKLSYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ K + + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYILHKKAGYVTALEDSREATVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + ++ L L++G++I + +K + + + Sbjct: 121 RLLSPKSHVDKTYHASLECDITEEALEKLREGVMIGEYKTLPAKA----EKLEDRKIALT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +REGK ++KK+ E KV L RIS+G LG L G +EVS + + Sbjct: 177 IREGKFHQVKKMLEAVGNKVIYLKRISFGKLVLGDLELGEVKEVSLEDI 225 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 102/233 (43%), Gaps = 9/233 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T R++K IA AG+ SR++ R+I + V VN +V D I V+G ++ Sbjct: 2 STKIRLAKYIAHAGVCSRKQASRLIDEGAVIVNNRPANHID-HVDEQDQITVNGQIIKGT 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + YHKP+G+ + +RV +GRLD ++ GLL+LTNDG L Sbjct: 61 AELIYFAYHKPVGIDCK--LDQNDPASLYHHLPTITRVYPIGRLDKDSRGLLILTNDGEL 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + +D + + G+ + +K ++ + Sbjct: 119 CNQLIHPDFHQPKRYLVSVNKSIDAEFCTKMAAGVPVDKQITLPCS----VEKIADKQFS 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 + L++G NR+I+K+ + +KV L R L L G ++K + Sbjct: 175 IILKQGLNRQIRKMAHYCGYKVIDLYREQISELTLQTLNLAQGQYIAINKSDI 227 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 46/236 (19%), Positives = 97/236 (41%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + +RRE +++ + ++V+G ++ A+ V + +E +G PL+ Sbjct: 1 MRLDKFLGTTLGITRREASKLLRDKMIEVDGEIVRSASFAVSDDNDVEFNGRPLKLQGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D + ++ GRLD +T GL+L+T+DG + Sbjct: 61 YFMLNKPEGFVCSH-VDDFNPTVFVLFDEVSPEKMHVAGRLDGDTTGLVLVTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + +D + + G+ + + ++ + S + Sbjct: 120 ITSPRHLCSKTYFVEAADPITEDYIKQFEAGVQLRSEKELTRPAKLEIL----SEREALL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R G +L L G R ++ + + L Sbjct: 176 TISEGKYHQVKRMFAAMGNRVVGLHRERIGTVELDEDLAPGEYRLLTAEEIASFLK 231 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 73/320 (22%), Positives = 127/320 (39%), Gaps = 6/320 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ D + V+G Sbjct: 212 LSAEDDAPKLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPADQVRVNGKL 270 Query: 67 LRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + + L + +V+ + + + ++VGRLD NTEGLL Sbjct: 271 IHRKVSTKPPRVLLYHKPAGEIVSQSDPEGRPTVFDNLPRIKTGKWVAVGRLDFNTEGLL 330 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G +A P R Y VR G++ + L GI + +++ Sbjct: 331 IFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIADGGG 390 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +EV + Sbjct: 391 EGVNHWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQEVEPNDV 450 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + L+ AP +++ R + + + + Sbjct: 451 KALMTSVGLKVPGKGEQAPKGATKVGGRKQRTEAAIAGMPMHTGMDGLPRFEQGGARGGG 510 Query: 302 ATPVHRRNLASNVWMAKGIH 321 + +++ Sbjct: 511 GRSSQPDPMKTSMGYISHGP 530 >gi|239815173|ref|YP_002944083.1| pseudouridine synthase [Variovorax paradoxus S110] gi|239801750|gb|ACS18817.1| pseudouridine synthase [Variovorax paradoxus S110] Length = 604 Score = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 73/308 (23%), Positives = 126/308 (40%), Gaps = 6/308 (1%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ ++ KV+A+AG+ SR E+E +I Q R+ VN + D ++++ Sbjct: 188 KRVLLPEADSPKLHKVLAQAGLGSRLEMEALILQGRISVNNEPA-HIGQRIQYGDQVKIN 246 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+R + + +VT + + + SVGRLD+NTE Sbjct: 247 GKPIRYRIAPPPPRVIAYHKPVGEVVTHDDPQNRPTVFRKLPRLQQGKWQSVGRLDLNTE 306 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL ++ G LA L P R Y VR G ++ ++ L +G+ + + Sbjct: 307 GLLLFSSSGDLANQLMHPRFGLEREYAVRVLGALNAEEKKKLLEGVRLDDGMAQFGTIEE 366 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 +GSN W V + EG+NRE++++FE V+RLIRI YG L L G+ E+ + Sbjct: 367 GGGEGSNHWYRVTISEGRNREVRRLFESVGHAVSRLIRIRYGAMVLPRGLKRGAWMELDE 426 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + + + E R + + ++ Sbjct: 427 RDISALFQASGGGAPRPPQQQRGPGQEGAGGGRNGRNKKRRGNRNAGGGQQQPRDMRDDG 486 Query: 299 KKLATPVH 306 ++ P Sbjct: 487 REAPIPNP 494 >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 = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 106/249 (42%), Gaps = 23/249 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P R+SK ++ G+ SRRE + IA+ V+V+G ++ ++ T + V+ Sbjct: 2 TEPLRLSKRMSELGLCSRREADEWIARGWVRVDGKVVSELGTKILPTQRVTVERQAAAEQ 61 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + LV S ++ P+ ++ GRLD Sbjct: 62 SKRVTILINKPMGYVSGQAEDGYKPAVALVKAESRWKEDTSPTQFHPTQLRSLVPAGRLD 121 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQGIC 171 I++ GLL+LT DG +A+ L ++ + Y VR L G+++ G Sbjct: 122 IDSVGLLVLTQDGRIAKHLIGENSSVEKEYLVRVQYIKPGKLPEADLQRLNHGLMLDGKK 181 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 QV + ++ LREGK R+I+++ + KV L R+ G +LG L G Sbjct: 182 LLPAQVKWQNEDQ----LSFILREGKKRQIRRMCDIVGLKVVGLKRVRIGRVKLGDLPVG 237 Query: 232 STREVSKKI 240 R +++ Sbjct: 238 EWRYLAEGE 246 >gi|315170843|gb|EFU14860.1| conserved hypothetical protein [Enterococcus faecalis TX1342] Length = 320 Score = 156 bits (395), Expect = 3e-36, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 116/261 (44%), Gaps = 3/261 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 60 TMRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKT 119 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + VGRLD +TEGLLLLT++G L Sbjct: 120 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLG 179 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVT 190 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V Sbjct: 180 YQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVF 239 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 240 LTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFF 299 Query: 250 LEEAQVNLDAPIYSSETLVRD 270 +E+ Q + P R Sbjct: 300 IEKQQTSKALPSNLKREEERK 320 >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 = 156 bits (395), Expect = 3e-36, Method: Composition-based stats. Identities = 82/309 (26%), Positives = 131/309 (42%), Gaps = 13/309 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPQLRQNMVNGVELEDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWMELDKTDIDNL-- 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 ++ + + R ++E P R Q+ K+ T Sbjct: 239 ----AKSVELKPRQGTGLFGMAKRRTERMTEKPMAARRGGYLRQQRRDDEKEAPANTGNQ 294 Query: 307 RRNLASNVW 315 R++ N Sbjct: 295 RKSTGFNRG 303 >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 = 156 bits (395), Expect = 3e-36, Method: Composition-based stats. Identities = 59/226 (26%), Positives = 106/226 (46%), Gaps = 5/226 (2%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRL 75 K + G+ SR+EV+ ++ +++++VN ++ + D + + L + Sbjct: 2 DKFLVECGLGSRKEVKELLKKRKIQVNASIVTSGQQIIDEEKDEVFYEKEKLVYKKFRYY 61 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 LY K + + I ++ VGRLD +TEGLLL TNDG L L Sbjct: 62 ILYKKAGYVTALEDSKERTVMELLPEWVIRKDLVPVGRLDKDTEGLLLFTNDGKLNHQLL 121 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 P + + Y V + ++ + L++G+ I QV ++ +++ ++E Sbjct: 122 SPKSHVDKTYHVCLEKIITEEAIEQLRQGVRIGDYTTLPAQVEQLEEQK----ISLTIQE 177 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 GK ++KK+ E + KV+ L R+S+G LG L G REVS + + Sbjct: 178 GKFHQVKKMLEAVDNKVSYLKRVSFGRLVLGDLKPGEVREVSLEDI 223 >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 = 156 bits (395), Expect = 3e-36, Method: Composition-based stats. Identities = 66/250 (26%), Positives = 106/250 (42%), Gaps = 20/250 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + +F R+SK +A+ G+ SRRE + I Q VKVNG V D I+++ Sbjct: 1 MQNNDFETMRLSKRMAQLGLCSRREADSYIEQGWVKVNGQTA-VLGQKVTELDRIDLNKQ 59 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ Y L+T ++ + + + Sbjct: 60 AHEKQAARVTIILNKPVGYVSAQAEKGYKSAAELITANNHWEDDDSRIPFSEKHKFGLAP 119 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + G Sbjct: 120 AGRLDIDSVGLLVLTQDGRIAKQLIGENSNSEKEYLVRVRGKLDDKGLALLNHGLSLDGE 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + LR+GK R+I+++ E +V L RI G +LG L Sbjct: 180 KLRPAKVEWQNEDQ----LRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPP 235 Query: 231 GSTREVSKKI 240 G R + Sbjct: 236 GKWRYLRADE 245 >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 = 156 bits (395), Expect = 3e-36, Method: Composition-based stats. Identities = 81/280 (28%), Positives = 126/280 (45%), Gaps = 7/280 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +++ KV+ARAG+ SRRE+ER+I+ +V VNG V + D IE DG ++ Sbjct: 7 EPQGEKLQKVLARAGLGSRREMERLISLGKVSVNGATAR-LGDRVGAEDKIEYDGKRIQA 65 Query: 70 -----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + + + + + 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 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 N W + EG+NRE+++++E +V+RL R+ YG + + AG E+++K + E Sbjct: 186 KNRWFYCVVMEGRNREVRRLWESQEVRVSRLKRVRYGNIFIPSHVRAGQWVELTEKDVGE 245 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 L +P R + Sbjct: 246 LCDTAGLAPPPKPKYSPELRRSRERHQRKLRKANTSRTRR 285 >gi|72080505|ref|YP_287563.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae 7448] Length = 237 Score = 156 bits (395), Expect = 3e-36, Method: Composition-based stats. Identities = 63/229 (27%), Positives = 110/229 (48%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ G+ SRR+ E++I Q R+K+N + V D IE+D + K Sbjct: 1 MRINKFLSEMGVCSRRQSEKLILQGRIKINNETAK-IGQIVSQNDVIELDQQKITKKPPI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP +T+ DP+ R T+ + + VGRLD T GL+L+TNDG Sbjct: 60 FWYALNKPKNYITSRFDPENRPTIMEFFSKN-EYLFPVGRLDFQTTGLILITNDGKTTNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS++ R Y V+ + ++ L + + +K S+ V + Sbjct: 119 LLHPSSKIERTYLVKTDFSLSDKEIRFLNDNKIQLDSV----KSIQKIKKCSSRTYLVTV 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G N IKK+F N KV +L R+S+ +L + G R+++ + ++ Sbjct: 175 WQGSNHHIKKLFLSINKKVLKLKRVSFANIKLNNISEGKYRKLTNQEIK 223 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 57/234 (24%), Positives = 117/234 (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 TRLWLYHKPIGLVTTHSDPDGRSTVFDN-LPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +KPIG+++ D ++ + P + VGRLD T GLL++TNDG A Sbjct: 61 EVYYMLNKPIGVLSATRDDKDKTVIDLINFPGRKEDLFPVGRLDKETTGLLIITNDGKFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD--TQKGSNAW 188 + P + Y G++ + ++ +G+ + G Q+ + ++K + Sbjct: 121 HDIISPKKHVSKTYEAVVTGKISEKEVKTFSQGMELANGDKLQPAQLDIISYSEKDDTSK 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V V + EGK +++++F + +V L R+ G +L L G R+++++ L Sbjct: 181 VRVIIHEGKYHQVRRMFGAVSQRVLELDRVKIGLLELDDTLERGEYRKLTEEEL 234 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 78/287 (27%), Positives = 129/287 (44%), Gaps = 7/287 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA R+ ++G + + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-NLGDRIEADVKIRIDGRAISIKSA 60 Query: 73 TRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + + 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 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 L+E + S + + + I + +K Sbjct: 241 TAGLKEETRTVLGTDKHSVARSKVKGSKIRRAVRKHKAVASKPGRKR 287 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 73/234 (31%), Positives = 117/234 (50%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ KV+A+AG+ASRR E MIA RV+++G ++ + + I VDG + Sbjct: 87 DGVRLQKVLAQAGVASRRGAEEMIAAGRVEIDGEIVTEQGLRIDPDTAIIRVDGARVIID 146 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTND 127 E + +KP G +T +D GR V D + R+ VGRLD +TEGLLLLTND Sbjct: 147 ETRQYLALNKPRGWQSTMADDQGRPCVGDIVAERVMAGQRLFHVGRLDADTEGLLLLTND 206 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y G+V + +L+ G+ + ++T+ + Sbjct: 207 GELAHRLMHPSYEVPKTYLATVRGEVPRSLSRMLRDGVELDDGPVAVDKLTIVDVHEGQS 266 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + L EG+NR ++++ + + V L+R G LG GS R + + + Sbjct: 267 LLRITLHEGRNRIVRRMMDEVGFPVVELVRTHVGSVALGEQRPGSLRVLGRDEV 320 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 87/231 (37%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 R+ K ++ +R E + I + RV VNG++ +A V I VDG PL + Sbjct: 2 MRLDKYLSERTGLTRSESRKAITKGRVAVNGMVCRKADTQVAEDAAIAVDGTPLAGSYQK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L + + D + GRLD + G +LLT+DG LA Sbjct: 62 YVYIMLNKPEGVVSASRDKRDTTVVDLVAADFPRRALFPAGRLDKTSTGFVLLTDDGALA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + Y V + G+ + + V V Sbjct: 122 HDLLSPAHHVDKQYLVTLDTPLTDAMRAGFAAGVTLADGETM-APAEAEPAGEDPCVVKV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L +G +IK++F + VN L R + G L L G RE++ + L Sbjct: 181 TLHQGVYHQIKRMFGVYGAGVNALHRYAIGGVALDAALAPGQWRELTAEEL 231 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 86/302 (28%), Positives = 140/302 (46%), Gaps = 11/302 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-----PL 67 +++ K++AR G SRREVE++I+Q VKVNG + TD ++V+ L Sbjct: 17 GEKLQKILARGGFGSRREVEKLISQGLVKVNGKVAT-LGDRAFPTDTLKVNDQLVKETRL 75 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K + + + + + I SR ISVGRLDINT GLL+LTN+ Sbjct: 76 EKQPTQVILYNKPEGQVCSRKDEKGRETIFTSLPRIINSRWISVGRLDINTSGLLILTNN 135 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---QVTLDTQKG 184 G LA L PS + R Y VR G+V + L+ LKKG+ ++ ++ + Sbjct: 136 GELANRLMHPSYEMEREYSVRVFGEVSDEILDRLKKGVKLEDGFAKFESIGKIPQQEEDS 195 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 N W V ++EG+NRE+++++E +V+RL+R YG F L L G + ++ K + + Sbjct: 196 INQWYRVVIKEGRNREVRRIWESQGVQVSRLVRTRYGQFSLPRNLRRGKSEPLTWKQINQ 255 Query: 244 QLGPHL-LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L EE + +L ++ + + +K + + SK K Sbjct: 256 LLKSVDLPEEPRPDLRNNPAKAKKMAARHAEPFKKETGRVKYKEKGENHREEKSKPKSAR 315 Query: 303 TP 304 Sbjct: 316 RR 317 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 86/286 (30%), Positives = 127/286 (44%), Gaps = 10/286 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAE 71 +++ KV+AR+G SRRE+E +I Q RV V+G + V I +DG + E Sbjct: 2 SEKLQKVLARSGHGSRREIESIIQQGRVSVDGKIATLGDRVDVTRATKIRIDGHVVTVRE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + +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 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 E + +++ ++ + R + K Sbjct: 242 ELVQLSPETVSKLPVERERRRLKANQIRRAVKRHSLVGARRNAPKR 287 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 82/286 (28%), Positives = 133/286 (46%), Gaps = 10/286 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ E Sbjct: 4 QGEKLQKVLARAGVGSRREMEKYIDANRVSVNGKVAK-LGDRVEETDLIRVDGHTVKIEE 62 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + L T R+ R I+VGRLD+NT GL+L TN Sbjct: 63 KADRICRVIMYNKPEGELSTRKDPEGRRTVFDRLPRIDGDRWIAVGRLDVNTSGLMLFTN 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y R G+V + + L +G+ ++ VT +G N Sbjct: 123 DGELANRLMHPSYEVEREYSARVFGEVTNETVKNLLRGVELEDGPAKFTTVTPMGGEGVN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV---SKKILR 242 W V L EG+NRE++++++ + +V+RLIRI YG +L + G E + LR Sbjct: 183 RWFNVTLNEGRNREVRRLWQSQDAEVSRLIRIRYGKLELDKRVPQGGWMEYDLETVNYLR 242 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 + + + ++++ + ++ + + + K Sbjct: 243 KTVKLGRETQTKLSVMPEKRKDKRAKINQIRKAVKKHNQRVKPTKR 288 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 86/286 (30%), Positives = 130/286 (45%), Gaps = 7/286 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 +++ K +AR G+ SRR++E +I + RV VNG + V D I VDG LR Sbjct: 2 KDEKLQKALARLGLGSRRQMEDVIREGRVSVNGTVAT-IGDRVGQGDEIRVDGRLLRYTA 60 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R L Y + + H + P R + VGRLDIN+ GLLL TN Sbjct: 61 ENEKRRRILMYYKPEGEICSAHDPEGRPTVFERLPPLNHDRWVMVGRLDINSTGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G+V + + LK+G++++ + +G N Sbjct: 121 DGELAHRLMHPSNEIEREYAVRVMGEVTPEIMLNLKRGVMLEDGMAQFDDIVEKGGEGIN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L+EG+NRE++++FE KV+RL+RI YG L L G E+ ++ + Sbjct: 181 KWYQVKLKEGRNREVRRLFESQGLKVSRLLRIRYGSVSLPRELRTGRYLELDRREIDTLA 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 G + Q I ++ + + + R K Sbjct: 241 GLVNIRPRQGTGLYGIAKRRQERFEKKPLKARRGGHYLRRDKEKRS 286 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 75/290 (25%), Positives = 126/290 (43%), Gaps = 10/290 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA R+ ++G + + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-SLGDRIEADAKIRIDGRAISIKSE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + + + 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-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ L + Sbjct: 181 WWHVTLSEGRNREVRRLWESQEVQVSRLIRIRYGSIELPKSLPRGGWIEL---ELEQVNY 237 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + + + V +++ + K + Sbjct: 238 LRKTAGLDIENRTMLGTDKHSVARSKVKSAKIKRAVHKHKATGGKNTRQR 287 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 114/248 (45%), Positives = 159/248 (64%), Gaps = 7/248 (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 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----ISVGRLDINTE 119 G P+ +AE TRL+ +HKP GL+T DP GR T++ L + + + 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 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + G N W+ + LREGKNRE+++V E F +VNRL+RI YGPF LG L G E+ + Sbjct: 181 ERGSGRNRWIEMTLREGKNREVRRVLEHFGLEVNRLLRIGYGPFHLGDLPRGQAVELKQG 240 Query: 240 ILREQLGP 247 ++ Sbjct: 241 DVQAFKRE 248 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 89/278 (32%), Positives = 132/278 (47%), Gaps = 10/278 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA RV V+G + ++V S + +DG Sbjct: 49 QSTVEGEKLQKVLARAGQGSRREIEAMIADNRVSVDGKMATLGDRIDVHSGVKVRIDGRI 108 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + +R I+VGRLDINT GL Sbjct: 109 INLQQAQKEVCRVLMYYKPEGELCTRSDPEGRPTVFDRLPRLNGARWIAVGRLDINTSGL 168 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL T DG LA L PS + R Y VR GQVD L L++G+ ++ ++ Sbjct: 169 LLFTTDGELANCLMHPSREVEREYSVRVFGQVDDAMLARLRRGVQLEDGPANFKEIKFAG 228 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 229 GIGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 288 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII 275 LRE +G E ++++ P ++ + Sbjct: 289 VNYLRELVGLPPETETKLDVTKPRRRPKSGQIRKAVKR 326 >gi|150376249|ref|YP_001312845.1| pseudouridine synthase [Sinorhizobium medicae WSM419] gi|150030796|gb|ABR62912.1| pseudouridine synthase [Sinorhizobium medicae WSM419] Length = 260 Score = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 63/228 (27%), Positives = 110/228 (48%), Gaps = 1/228 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 +++ +++ G +R + E++IA+ RV V G + A V D I VDG + + Sbjct: 25 LARALSKLGYCTRTQAEKLIAEGRVSVGGRRVTDLAHWVDIEADRIAVDGTVIAAQPKVY 84 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + VGRLD +EGLLL TND LA+ L Sbjct: 85 LMLNKPRGLVTTRDDPEGRPTVFTCLETVDAPSLSPVGRLDKASEGLLLFTNDTVLAQRL 144 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T + Y V+ G + + + +G+ G +V L N+W+ V L Sbjct: 145 LDPQTHLGKRYHVQVRGFLGEAMAARMVEGVTEGGELLRAARVALLRGGDRNSWIEVELT 204 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+++ + ++ RL+R++ G +LG L G++R +++ +R Sbjct: 205 EGRNRQIRRMLDALGFECLRLLRVAIGEVRLGDLPKGASRPLAEAEIR 252 >gi|295093348|emb|CBK82439.1| ribosomal large subunit pseudouridine synthase F [Coprococcus sp. ART55/1] Length = 234 Score = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 62/220 (28%), Positives = 108/220 (49%), Gaps = 7/220 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ AG+ SRR + I +V +NG VM D + G +++ + Sbjct: 3 DGIRLNKYLSEAGVCSRRAADTHIENGKVTINGETA-VMGQKVMPGDVVTFMGRKVQQKD 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RT + Y+KPIGL T S D + R+ VGRLD +++GLLLLTNDG L+ Sbjct: 62 RTVILAYNKPIGLTCTASKAD--PDNIFDHIDYPIRLQYVGRLDKDSQGLLLLTNDGDLS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 ++ + YRVR + ++ +D + + G+ I +V +K + + Sbjct: 120 NAIQKSVNNHEKEYRVRVNREITEDFIRKMSDGVPILDTVTKKCKV----RKIDDRSFMI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 L +G NR+I+++ + ++V L R+ +LG + G Sbjct: 176 VLTQGLNRQIRRMCDALGYRVVNLKRVRVCNVKLGNMRPG 215 >gi|40063061|gb|AAR37917.1| RNA pseudouridylate synthase family protein [uncultured marine bacterium 560] Length = 244 Score = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 85/245 (34%), Positives = 135/245 (55%), Gaps = 7/245 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---- 68 +R+ K+IA AG SRR ER+I Q RV +N ++ + D + +DG + Sbjct: 2 SERLQKLIANAGYGSRRWAERLIEQGRVSLNNHDVK-LGDKAVLNDKVRIDGKLIDLKRY 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 T++ + +K G + + DP+GR +VFD LP I +GRLD+N+ GLLL TN+G Sbjct: 61 AKTETKVLILNKQAGFICSTKDPEGRKSVFDLLPENSRW-IMIGRLDLNSSGLLLFTNNG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS Q R Y VR G+V ++ + L G+ ++ +VT +G+N W Sbjct: 120 ELASKLMHPSAQIDREYAVRVLGKVKEEHIKKLTNGVELEDGFAKFHKVTQGGGEGANRW 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V +REG+ RE+++++EF ++KV+RLIRI +G L L + + + K L+ L Sbjct: 180 YRVVIREGRKREVRRLWEFLDFKVSRLIRIRFGDICLPDKLRSNQSEYLKPKQLKTLLNS 239 Query: 248 HLLEE 252 L++ Sbjct: 240 VNLKD 244 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 82/309 (26%), Positives = 131/309 (42%), Gaps = 13/309 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPQLRQNMVNGVELEDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWMELDKTDIDNL-- 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 ++ + + R ++E P R Q+ K+ T Sbjct: 239 ----AKSVELKPRQGTGLFGMAKRRTERMTEKPMAARRGGYLRQQRRDDEKEAPANTSNQ 294 Query: 307 RRNLASNVW 315 R++ N Sbjct: 295 RKSTGFNRG 303 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 83/279 (29%), Positives = 128/279 (45%), Gaps = 6/279 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-- 66 ++ ++ KV+A G+ SRR++E +I Q RV VNG+ ++ TD + ++G P Sbjct: 24 DDEDTMKLHKVLADVGMGSRRDMEDLIIQGRVSVNGLPA-HIGQSIGPTDQVRINGKPVH 82 Query: 67 --LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ + + +V+ + R I+VGRLD NTEGLLL Sbjct: 83 RKIQTKPPRVIMYHKPAGEIVSQSDPEGRPTVFDRLPKPRQGRWIAVGRLDFNTEGLLLF 142 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T G LA L P R Y VR G + Q+ LLK GI + +++ + +G Sbjct: 143 TTSGELANRLMHPRYGVEREYAVRILGDLSQENTVLLKSGITLDDGQAKFLRLAIGGGEG 202 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 +N W V L EG+NRE++++FE V+RLIR YG F L L G E+ + Sbjct: 203 ANRWYHVALSEGRNREVRRMFEAVGHTVSRLIRTRYGIFLLPPRLRRGKWEEIEAGDIYN 262 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 + L+ Q +S + RDR I + D Sbjct: 263 LMKSAGLKMPQPQDKGRNPNSNSNGRDRRPIGEDFQPDP 301 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 81/287 (28%), Positives = 131/287 (45%), Gaps = 9/287 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK--- 69 +++ K++A+AG+ SRRE+ER I Q RV++NG + + D I+VDG + Sbjct: 2 SEKLQKILAQAGLGSRREMERWIEQGRVELNGSPAK-LGERAEAKDQIKVDGKVIEHGQR 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L + T H + R I+VGRLDINT GLLL T DG Sbjct: 61 KARRVLAYNKPEGEVCTRHDPEGRPTVFDRLPKLHGERWIAVGRLDINTSGLLLFTTDGE 120 Query: 130 LARVLELPSTQW-LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PST R Y VR G+V + + + +G++++ V G N W Sbjct: 121 LANKLMHPSTNTVDREYAVRVAGEVTDEAVKAMTEGVLLEDGMAKFTDVQYFDGDGFNQW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KILREQ 244 V + EG+NRE+++++E +KV+RL R+ YG L + AG E+++ L Sbjct: 181 YHVCIMEGRNREVRRLWESQGFKVSRLKRVRYGCVFLPKRVSAGKWTELNQADTDELSAL 240 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 + A+++ R R + + + +++ Sbjct: 241 VDLPSKPVAKLDPQEMKRYEREFRRQRTRQKAGDQPNKPKGPSRNAR 287 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 57/245 (23%), Positives = 103/245 (42%), Gaps = 4/245 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 QR+ +++A G+ SRR++++M ++V+G ++ A+++V + V G P+ Sbjct: 4 QRLDRILAEMGVGSRRDIKKMARSGLIEVDGRVVRDASLHVDPGQQVLCVAGHPVHYQPF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + P + + R+ GRLDI+TEG +L+T+DG LA Sbjct: 64 HYWMMNKPPGVVSAVIDPRHRTVIDLLDESDRTPRLFPAGRLDIDTEGFVLITDDGQLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + YR G+V + +G+V+ G + + G + V + Sbjct: 124 AILSPKRHVSKTYRATVQGRVSDADVAAFARGLVLGDGYRALPAHLQI-RDAGERSEVEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 LREGK +IK++F V L R++ G L L G R ++ + Sbjct: 183 VLREGKFHQIKRMFAALGKPVLYLKRVAIGGVPLDPALPPGGYRALADDEVARLRETDPR 242 Query: 251 EEAQV 255 Sbjct: 243 LPPHP 247 >gi|291617615|ref|YP_003520357.1| RluB [Pantoea ananatis LMG 20103] gi|291152645|gb|ADD77229.1| RluB [Pantoea ananatis LMG 20103] Length = 294 Score = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 89/296 (30%), Positives = 132/296 (44%), Gaps = 10/296 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E MIA RV V+G L S I +DG + AE Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIAAGRVSVDGKLATLGDRIENSKALKIRIDGHLVSIAE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + 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---LPAVN 238 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + + R + N I ++ +++N SK+ Sbjct: 239 YLRNMVGMDDETVTKLAVEKDRRRTKANQIRRAVKRHSQTSGRPARRNPGSKRNAT 294 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 108/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I Q RV++NG ++ V D ++VDG+ + Sbjct: 131 EQEGERLQKVLARAGYGSRRACEELIEQARVEINGEIVLEQGRRVDPEKDEVKVDGLTVA 190 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 191 TQSYQFFSLNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 249 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + Q G N Sbjct: 250 ELAHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYL 309 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V+ L+R ++GP LG +G R +S + Sbjct: 310 VEVTLHEGRKHIVRRMLAEAGFPVDNLVRTAFGPITLGDQKSGWLRRLSNTEV 362 >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 = 156 bits (395), Expect = 4e-36, Method: Composition-based stats. Identities = 57/235 (24%), Positives = 98/235 (41%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A +R EV+ ++ +RV VNG+ + +D + +D L Sbjct: 1 MRLDKFLAECNQGTRSEVKVLLKSKRVTVNGVTENSGKRQINEVSDVVCLDEKKLTYQSF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + VGRLD +T GL+LLTNDG LA Sbjct: 61 AYYMLNKPKDVITATEDSVQKTVLDLIDKKDRIKGLFPVGRLDKDTTGLVLLTNDGALAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTL--DTQKGSNAWV 189 L P +VY + G V + ++ L K I ++ G ++ + + + + Sbjct: 121 NLLAPKKHVEKVYEAKIEGIVTEAEVELFSKPIELKNGEVTKPSRLVVKKADEDAGMSEI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + + EGK +IK++F V L R+ G +L L G R +++ + E Sbjct: 181 EITISEGKYHQIKRMFASTGMHVLELKRLKMGSLELDDRLDPGKYRALTQTEIEE 235 >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 = 156 bits (394), Expect = 4e-36, Method: Composition-based stats. Identities = 87/287 (30%), Positives = 125/287 (43%), Gaps = 7/287 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA--- 70 +++ KV+AR G+ SRR +E IA RV VNG + + V + D I VDG LR Sbjct: 3 EKLQKVLARFGLGSRRLMEEWIAAGRVVVNGQIAK-LGDRVTAQDKIAVDGETLRIPSWV 61 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + L T + + 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+ + L Sbjct: 182 YHVTLAEGRNREVRRLFEAVGLTVSRLIRVRYGVVEMPRLLKTGYFDELPDEERDALLAS 241 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 + + D S T + Q Sbjct: 242 VQWVNPATPPSDSVERVTAPLPDARKNNSRREARQTPSRGRPGQGRR 288 >gi|291043642|ref|ZP_06569358.1| pseudouridine synthase [Neisseria gonorrhoeae DGI2] gi|291012105|gb|EFE04094.1| pseudouridine synthase [Neisseria gonorrhoeae DGI2] Length = 399 Score = 156 bits (394), Expect = 4e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 134 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 192 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 193 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 252 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ L + ++++ Sbjct: 253 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTTEQMRSLTEEGVMLEDGLAKVE 312 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W + ++EG+NRE++++FE V+RL+R+++GP L L G Sbjct: 313 RIREQGGEGANKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGLPNRLKRGQFY 372 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 373 ELNPAEVANILKWADM 388 >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 = 156 bits (394), Expect = 4e-36, Method: Composition-based stats. Identities = 68/255 (26%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNPKTPPDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T+ + + ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITSENRWESDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 156 bits (394), Expect = 4e-36, Method: Composition-based stats. Identities = 87/287 (30%), Positives = 128/287 (44%), Gaps = 12/287 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ K++AR+G SRRE+E I + V VNG + V + I +DG L Sbjct: 2 SEKLQKILARSGYGSRREIEEKIQRGLVSVNGKI-STLGDRVSVMPSTQIRLDGRILPIT 60 Query: 71 ERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y + T + SR I +GRLDINT GLLL T Sbjct: 61 EPQKIPCRVLAYYKIEGEICTRKDPKGRPTVFDRLPKLHHSRWIGIGRLDINTSGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y R GQV++ + L +GI ++ +VT +G Sbjct: 121 TDGELAHRLMHPSQEIEREYASRIFGQVNEPSIKQLTQGIQLEDGMAAFRRVTFGGGEGL 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKIL 241 N W V L EG+NRE+++++E +V+RLIRI YG +L L G +E+ + L Sbjct: 181 NHWYNVILTEGRNREVRRLWEAIGVQVSRLIRIRYGDIKLPKGLPRGGWKEMDISTIHYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 RE +G + ++ + R + V KK Sbjct: 241 RELVGLKKDITNTLLIEKKEQRFFKPRQIRRAVKRHVMSSTRSFKKK 287 >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 = 156 bits (394), Expect = 4e-36, Method: Composition-based stats. Identities = 82/309 (26%), Positives = 131/309 (42%), Gaps = 13/309 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRIAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPQLRQNMVNGVELEDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWMELDKTDIDNL-- 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 ++ + + R ++E P R Q+ K+ T Sbjct: 239 ----AKSVELKPRQGTGLFGMAKRRTERMTEKPMAARRGGYLRQQRRDDEKEAPANTGNQ 294 Query: 307 RRNLASNVW 315 R++ N Sbjct: 295 RKSTGFNRG 303 >gi|225620831|ref|YP_002722089.1| pseudouridine synthase [Brachyspira hyodysenteriae WA1] gi|225215651|gb|ACN84385.1| pseudouridine synthase [Brachyspira hyodysenteriae WA1] Length = 359 Score = 156 bits (394), Expect = 4e-36, Method: Composition-based stats. Identities = 82/332 (24%), Positives = 151/332 (45%), Gaps = 6/332 (1%) 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 +V+T GR + + I R+ GRLD + G++++TND Sbjct: 64 KRQTKRYMALYKPIG-VVSTTKYLPGRRIITEFFKGIKERLFYAGRLDSESRGIMIITND 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 KIRLTINEGKNREIRKIFDHLGYKVIDLERISVGCVSKYDEVSGTLEAGHIRDLTKKEID 242 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + + + + I ++ K ++ +K K Sbjct: 243 FFFKQKDKKLKDIESIFENIPDDIEDENYEDSILNSSNNDKEENKKVHDRSKWAKAKHKK 302 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREEN 334 + + ++ + S ++++ Sbjct: 303 KRLITKKSSTFKGKMQKKSSKSEFSENRKDKK 334 >gi|88859932|ref|ZP_01134571.1| pseudouridine synthase [Pseudoalteromonas tunicata D2] gi|88817926|gb|EAR27742.1| pseudouridine synthase [Pseudoalteromonas tunicata D2] Length = 293 Score = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 83/293 (28%), Positives = 131/293 (44%), Gaps = 10/293 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E+ I RV V+G + V I +DG ++ E Sbjct: 2 SEKLQKVLARAGKGSRREIEKFIEAHRVSVDGNVAR-LGDRVEPHQLIRLDGHIVKIEEP 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + L T + + R I+VGRLD+NT GLLL TND Sbjct: 61 EERVCRVLMYHKPEGELCTRKDPEGRPTVFDRLMRLDDDRWIAVGRLDVNTSGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P + R Y VR G+V + L L KG+ ++ +++ +G N Sbjct: 121 GELANRLMHPRYEVEREYAVRVFGEVTTETLKTLTKGVELEDGPAKFLKIMPHGGEGINK 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK---ILRE 243 W V L EG+NRE++++++ +V+RLIR+ YG +L L G E+ LR+ Sbjct: 181 WYNVLLTEGRNREVRRLWQSQGVEVSRLIRVRYGDLELNKRLPQGGWEELELDKVNYLRK 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +G E ++++ + + T KK + + Sbjct: 241 LVGLDRELETKLSVIPEKRKDKRAKIAQIRKAVNKHKQRTTGKKTDPKAKKRT 293 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 66/228 (28%), Positives = 111/228 (48%), Gaps = 1/228 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 +++ +++ G SR + ER+IA+ RV V G ++ + D I VDG P+ R Sbjct: 28 LARALSKLGYCSRTQAERLIAEGRVSVGGRKTTDLSLWIDIDRDRITVDGTPVAAEARIY 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + VGRLD +EGLLL TND LA+ L Sbjct: 88 LMLNKPRGLVTTRDDPEGRPTVFDCLGKVDARFMSPVGRLDKASEGLLLFTNDTVLAQRL 147 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P+T + Y V+ G D+ + G+ G + V N+W+ V L+ Sbjct: 148 LDPATHLGKTYHVQVRGLFDEAAARAMMDGVSEGGEMLKAIDVRRLRSGDKNSWIEVELQ 207 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 EG+NR+I+++ + ++ RL+R+S G +LG L G++R +S+ ++ Sbjct: 208 EGRNRQIRRMLDALGFECLRLVRVSIGEIRLGDLPKGASRPLSEAEVQ 255 >gi|187923621|ref|YP_001895263.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187714815|gb|ACD16039.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] Length = 626 Score = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 75/301 (24%), Positives = 130/301 (43%), Gaps = 8/301 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 202 KRVLAADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 260 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S + P ++ ++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 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +R + L+ + + + + S + + Sbjct: 441 NQVRALMASVGLKAPTEE--KGGRREAPERKQPDPMQTSMGFIGREPVLMSHSRFDQQQP 498 Query: 299 K 299 + Sbjct: 499 R 499 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 114/233 (48%), Gaps = 10/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA GI SRRE ++++A RVKVNGI + A + V +D + VD + + Sbjct: 1 MRLNQYIAACGICSRREADKLVAAGRVKVNGISAQ-AGIQVEDSDEVFVDNKKISLVKEN 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + Y+KP+G+V T D TV + + GRLD ++EGLL+L+NDG L Sbjct: 60 VVLAYYKPVGVVCTEKDTHAERTVTSEVKYPTRVTYA-GRLDKDSEGLLILSNDGNLINA 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVTV 191 + S + + Y V ++ D LN + G+ ++ +VT +K + Sbjct: 119 MMKSSNKHEKEYEVSVDREISGDFLNRMSNGVYLEELDRTTRGCKVTRTGKKS----FRI 174 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKILR 242 L +G NR+I+++ + V L RI +L ++ G E+ KK + Sbjct: 175 ILTQGLNRQIRRMCNALGYNVESLKRIRVMTVKLSDYDIMPGQYVELDKKSIE 227 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 61/238 (25%), Positives = 111/238 (46%), Gaps = 2/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ +E R+++ IA AGI SRRE + +I+ ++ VNG ++ V TD ++ Sbjct: 313 RHKDKEETDEIRLNRYIANAGICSRREADDLISSGQISVNGKIVTEMGYKVRPTDVVKYG 372 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + + + + TT + ++ + + RV VGRLD NT GLLL Sbjct: 373 KKALNPEKMVYILINKPKDYITTTDDPEERKTVLDIIAGACSERVYPVGRLDRNTTGLLL 432 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L PS+ ++Y+ + + LK G+ ++ + + Sbjct: 433 LTNDGELAEKLTHPSSGIKKIYQAELDKPITTEDFEQLKAGVELEDGFIRPDE--VGLVT 490 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + G+NR ++++FE ++V +L R + L G R +++K + Sbjct: 491 PDAQVVGLEIHSGRNRIVRRMFEHLGYEVQKLDRTVFAGLNKKDLPRGKWRFLTEKEV 548 >gi|71894432|ref|YP_278540.1| 16S rRNA uridine-516 pseudouridylate synthase family protein [Mycoplasma synoviae 53] Length = 232 Score = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K IA + + +R E++++I++ VKVN +++++ + ++ D I ++G+ L E Sbjct: 1 MRIEKFIADSTLYTRNEIKKLISKGLVKVNDLIIKK-SQSIDPKLDKIYLEGILLEAREE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G + + D + + L ++GRLDI+TEGLL++TNDG L Sbjct: 60 FSYIMMNKPAGYICANFDWNKQVVFELLLDLEMNLKDFFTIGRLDIDTEGLLIITNDGKL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + L P + Y V ++++ LL+K ++I I Y SN Sbjct: 120 SHNLLSPKKHIPKTYYVELDKPLEKNIKELLEKELLIDEIKYK----KSILNNISNNKWE 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK +IK +F F +KV L RI L L G + ++K+ L Sbjct: 176 ITIFEGKFHQIKIIFAHFGYKVTYLKRIKMNNLSLDENLKPGEYKFLTKEELD 228 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 63/225 (28%), Positives = 113/225 (50%), Gaps = 4/225 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A GIASRR+ E +I +V VNG ++ + + V ++ I V G + + E+ Sbjct: 5 RIAKHLASCGIASRRKCEDLIFAGKVSVNGEVVRQPQLLVDGSEKITVSGKKVNRQEKKV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP+ + + + G V D + R+ +VGRLD T GLL++TNDG + Sbjct: 65 YFMLNKPLNTLCSPNGKKGSKLVTDLFEGVKERLFTVGRLDKETTGLLIVTNDGEFTNQV 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS+ + Y + ++ D L + G ++G+ + +K A + V + Sbjct: 125 IHPSSNIQKEYIAKTDCEISNDHLKAIAAGTSVEGVFVQPLS----VKKVRKATLKVVVG 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGK RE++ + +V L R G LG+L G R ++++ Sbjct: 181 EGKKREVRLLIAAAGLEVRALKRTRIGSLTLGSLPIGHWRSLTER 225 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 111/241 (46%), Gaps = 4/241 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 R+ K + + +R+E + + + +V VNG +++ V D +E D ++ Sbjct: 3 KKTRLDKFLCDSLNMTRKEAKESVKKGKVVVNGEAIKKPEYKVDAEQDQVEFDHKLIQFE 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L+ +V+ D ++ + R+ VGRLD +TEGLLLLT+DG L Sbjct: 63 QFHYLMLHKPQG-VVSATKDHHDQTVLDLIHEDYKDRLFPVGRLDKDTEGLLLLTDDGML 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P +VY + GQ ++++ K+G+ I G ++ + + V Sbjct: 122 AHELLSPRKHVDKVYFAKVSGQFGENEIARFKEGLDIGNGEKSKQARLQILKADVQESEV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + + EGK ++K++ + +V L R+S G +L L G R ++K L+E Sbjct: 182 LITIMEGKFHQVKRMVKAVGSEVLYLKRLSMGSLKLDEELKLGEYRRLTKAELQELKEHR 241 Query: 249 L 249 Sbjct: 242 R 242 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 115/233 (49%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KA 70 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQ-LGDRITEQDLVYIDGQLSSLSAPE 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + + T + 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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V + EG++R +++++E KV+RLIR+ +GP L +L G+ +E+ ++ Sbjct: 182 VVVVEGRHRFVRRLWESQGVKVSRLIRVRFGPIVLSKSLRRGAWKELESPEIK 234 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 69/246 (28%), Positives = 110/246 (44%), Gaps = 8/246 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR+ E +I V VNG+ V + D + V G + Sbjct: 2 SERLQKFLARAGVASRRKAEALILSGAVTVNGVRA-ELGQRVAAGDEVRVRGERVAPPAA 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 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 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L EG+NR+++++ +V RL+R G LG + G R +S L + Sbjct: 176 LVLSEGRNRQVRRMLAALGCEVTRLLRTRIGGLSLGAMRPGELRRLSDAELAQLGYTRDR 235 Query: 251 EEAQVN 256 + + Sbjct: 236 ADKRSP 241 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 108/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG SRR E +I Q RV++NG ++ V D ++VDG+ + Sbjct: 131 EQEGERLQKVLARAGYGSRRACEELIEQARVEINGEIVLEQGRRVDPEKDEVKVDGLTVA 190 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 191 TQSYQFFSLNKPAGVVSTMEDPEGRQ-CLGDYVTNRETRLFHVGRLDTETEGVILLTNHG 249 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + Q G N Sbjct: 250 ELAHRLTHPRYGVKKTYLAHIVGPIPRDLGKRLKDGIQLEDGYARADHFRVVEQTGKNYL 309 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V+ L+R ++GP LG +G R +S + Sbjct: 310 VEVTLHEGRKHIVRRMLAEAGFPVDNLVRTAFGPITLGDQKSGWLRRLSNTEV 362 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 69/250 (27%), Positives = 112/250 (44%), Gaps = 4/250 (1%) Query: 2 KDKNIVQENFTPQR--VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 KD+ + R +++V+++AG+ SR E R I RV+V+G ++ + Sbjct: 10 KDRAAPGSSTAGVRHGLARVLSKAGLCSRTEAARWIEAGRVQVDGRIVRDPEYPMRHGLR 69 Query: 60 -IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + VDG ER L L + T + + S + VGRLD + Sbjct: 70 GVLVDGRAPAGPERIYLALNKPRGLVTTARDEQGRDTVYRCLDGSGLPWLAPVGRLDRAS 129 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL +ND A + P + + Y V+ DQ L L+ G+ G + + Sbjct: 130 EGLLLFSNDPAWAARVLDPDSGPDKTYHVQVDAIPDQTLLQALRTGVDADGEHLRAVSAS 189 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + NAW+ + L EG+NR+I+++ F+ V RL+R++ G QLG L G R + Sbjct: 190 VLRTGTRNAWLEIVLDEGRNRQIRRLLAAFDLSVLRLVRVAIGALQLGDLGKGQWRMLQP 249 Query: 239 KILREQLGPH 248 R+ L Sbjct: 250 AE-RDALALP 258 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 53/238 (22%), Positives = 108/238 (45%), Gaps = 7/238 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V + + G+ + + +K ++ V + Sbjct: 121 VTSPKHHCEKTYLVTLEHSLAANTAQRFAAGVQLHNEKSLTRP----VQLEKINDRQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + EG+ ++K++F +V L R G + L +G+ R ++ + + PH Sbjct: 177 AISEGRYHQVKRMFAAIGNRVIALHRERIGTIVMDKDLASGAYRPLTAEEIASVGAPH 234 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 65/250 (26%), Positives = 104/250 (41%), Gaps = 20/250 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + + R+SK +A+ G+ SRRE + I Q VKVNG V D I+++ Sbjct: 1 MQNNDSETMRLSKRMAQLGLCSRREADSYIEQGWVKVNGQTA-VLGQKVTERDRIDLNKQ 59 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ Y L+T + + + + Sbjct: 60 AHEKQAARVTILLNKPVGYVSAQAEKGYKSAAELITADNHWEDDDSRIPFSEKHKFGLAP 119 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + G Sbjct: 120 AGRLDIDSVGLLVLTQDGRIAKQLIGENSSSEKEYLVRVRGKLDDKGLALLNHGLSLDGE 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + LR+GK R+I+++ E +V L RI G +LG L Sbjct: 180 KLRPAKVEWQNEDQ----LRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPP 235 Query: 231 GSTREVSKKI 240 G R + Sbjct: 236 GKWRYLRTDE 245 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 58/238 (24%), Positives = 113/238 (47%), Gaps = 3/238 (1%) Query: 5 NIVQENFTPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + E+ + R+++ I+ G+ SRR+ + +I RVKVNG +++ + V D +EVD Sbjct: 166 RLKNEDENAELRLNRYISMGGVCSRRDADELIVAGRVKVNGEVVQTVGLKVRKKDKVEVD 225 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 V + ++ L L + T + ++ + + R+ VGRLD T G+LL Sbjct: 226 DVQIFPEKKVYLVLNKPKDYVTTVEDPLERKTVMALVEGACKERIYPVGRLDRQTTGVLL 285 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 TNDG LA+ L P ++Y V + ++ + G+ ++ + + Sbjct: 286 FTNDGDLAKKLTHPKYDHKKIYHVFLDRVLTEEDFQAIANGVQLEDGFIKADE--ISYTS 343 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + GKNR ++++FE F +++ +L R+ + L G+ R ++ K + Sbjct: 344 PDCTEVGIEIHSGKNRIVRRIFEHFGYQIIKLDRVYFAGITKKNLPRGTWRFLTPKEV 401 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 90/286 (31%), Positives = 132/286 (46%), Gaps = 10/286 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGV- 65 +E +++ K++ARAG SRRE+E +IA RV V+G + V V S I +DG Sbjct: 64 KEKVVGEKLQKILARAGQGSRRELEEIIAAGRVSVDGKIASLGDRVQVSSATKIRIDGNL 123 Query: 66 ----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P++K L Y L T + +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-GTLLAGSTREVSKKI 240 G N W V L +G+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 244 GTGLNQWFDVTLTKGRNREVRRLWESQGVEVSRLIRIRYGNIKLEKGLPRGGWEEMGLEQ 303 Query: 241 ---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 LRE +G E +V++ + + Sbjct: 304 VNYLRELVGLPAETETKVDVTKNRRRTNIRQIRKAVKQHSKYRTKA 349 >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 = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 55/227 (24%), Positives = 102/227 (44%), Gaps = 11/227 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---KAE 71 R++K ++ G SRR +R+I + +V +NG + E+ V D ++VDG + K + Sbjct: 4 RINKYLSEVGYCSRRVADRLIEEGKVVINGKIPEK-GTKVEEGDQVKVDGQRIEKSTKQK 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + TT + + + +R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDRRVEHDNIIDFI--KYPTRIFPIGRLDKPSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V + +++D + + G+ I + V K + Sbjct: 121 NKILRARNNHEKEYIVSVNRPINRDFIQSMSNGVEILETITKNCFVKQLGAKK----FKI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L +G NR+I+++ E ++V L R+ +L + G RE +K Sbjct: 177 ILTQGLNRQIRRMCESLGYRVESLKRVRIMNIKL-DVPIGKYREFTK 222 >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 = 156 bits (393), Expect = 5e-36, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 110/233 (47%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +R+ KV+ARAG+ SRR E +I Q RV+VNG ++ + V D I+VDG+ + Sbjct: 126 EVEGERLQKVLARAGMGSRRACEELIDQARVEVNGKIVTEQGLRVDPEKDEIKVDGLTVA 185 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + D + + +R+ VGRLD TEG++LLTN G Sbjct: 186 TQSYLFFALNKPAGVVSTMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHG 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|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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 66/250 (26%), Positives = 105/250 (42%), Gaps = 20/250 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + + R+SK +A+ G+ SRRE + I Q VKVNG V D I+++ Sbjct: 1 MQNNDSETMRLSKRMAQLGLCSRREADSYIEQGWVKVNGQTA-VLGQKVTERDRIDLNKQ 59 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ Y L+T + +G + + Sbjct: 60 AHEKQAARVTILLNKPVGYVSAQAEKGYKSAAELITADNHWEGDDSRIPFSEKHKFGLAP 119 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + G Sbjct: 120 AGRLDIDSVGLLVLTQDGRIAKQLIGENSSSEKEYLVRVRGKLDNKGLALLNHGLSLDGE 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + LR+GK R+I+++ E +V L RI G +LG L Sbjct: 180 KLRPAKVEWQNEDQ----LRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPP 235 Query: 231 GSTREVSKKI 240 G R + Sbjct: 236 GKWRYLRADE 245 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 107/244 (43%), Positives = 152/244 (62%), Gaps = 6/244 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ R++K++ARAG+ASRRE+ERMIA R+ +N ++E A + S + VDG P+ Sbjct: 9 EDRPEGDRIAKLLARAGVASRREIERMIADGRITLNDKVVETPATFLTSLQGVAVDGKPV 68 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----ISVGRLDINTEGLLL 123 K E +L+ +HKP GL+T DP GR+T++ L + + + +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 -KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 G N WV + + EGKNRE+++V E+ KVNRLIR +YGPF LG L G + K L Sbjct: 189 AGGKNQWVEMTITEGKNREVRRVLEYLGLKVNRLIRTAYGPFGLGDLPRGQAVRIRKGDL 248 Query: 242 REQL 245 + Sbjct: 249 DRFV 252 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 116/261 (44%), Gaps = 3/261 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 60 TMRLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKT 119 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + VGRLD +TEGLLLLT++G L Sbjct: 120 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLG 179 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVT 190 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V Sbjct: 180 YQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVF 239 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 240 LTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFF 299 Query: 250 LEEAQVNLDAPIYSSETLVRD 270 +E+ Q + P R Sbjct: 300 IEKQQTSKALPSNLKREEERK 320 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 110/231 (47%), Gaps = 6/231 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ G+ SRR+ E++I Q R+K+N + V D IE+D + K Sbjct: 2 KKIRINKFLSEMGVCSRRQSEKLILQGRIKINNETAK-IGQIVSQNDVIELDQQKITKKP 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP +T+ DP+ R T+ + + VGRLD T GL+L+TNDG Sbjct: 61 PIFWYALNKPKNYITSRFDPENRPTIMEFFSKN-EYLFPVGRLDFQTTGLILITNDGKTT 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS++ R Y V+ + ++ L + + +K S+ V Sbjct: 120 NKLLHPSSKIERTYLVKTDFSLSDKEIRFLNDNKIQLDSV----KSIQKIKKCSSRTYLV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G N IKK+F N KV +L R+S+ +L + G R+++ + ++ Sbjct: 176 TVWQGSNHHIKKLFLSINKKVLKLKRVSFANIKLNNISEGKYRKLTNQEIK 226 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 77/291 (26%), Positives = 129/291 (44%), 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 + + T T +L RV +VGRLD +EG Sbjct: 82 RVDGEALRKPQRLYFVVNKPEGVVTTN--YDQAGRTRVIDLVPTDERVFAVGRLDRASEG 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 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/115 (11%), Positives = 30/115 (26%), Gaps = 3/115 (2%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + + LG +E + + +R P + + + + + Sbjct: 473 IEDSLGNEDGDEPPARRTSKRSPAGAPRAERVPRGDRAPRGDRPPRGDRPARTDRPARGE 532 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR-SPSFPSKRSLRRTSAKK 354 + R A +G S G+ E R P + + + Sbjct: 533 RPSRGERPARAE--GAPQGDRPSRGDRPGRGERPARGERPQRGERPARGEGRPPR 585 Score = 46.3 bits (108), Expect = 0.007, Method: Composition-based stats. Identities = 13/112 (11%), Positives = 26/112 (23%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R G + + R E P R ++ G + + Sbjct: 527 RPARGERPSRGERPARAEGAPQGDRPSRGDRPGRGERPARGERPQRGERPARGEGRPPRK 586 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + N + G++ R + RS R + Sbjct: 587 PAGEYSESGYQNDAGGGPRRPTRGGRPGRKPTGPRPEGARSEFRSEGRPEGR 638 Score = 44.8 bits (104), Expect = 0.019, Method: Composition-based stats. Identities = 9/122 (7%), Positives = 19/122 (15%), Gaps = 10/122 (8%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + P + + R + R + + Sbjct: 500 RAERVPRGDRAPRGDRPPRGDRPARTDRPARGERPSRGERPARAEGAPQGDRPSRGDRPG 559 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQRE----------ENHRRSPSFPSKRSLRRTS 351 R E R P+ + + T Sbjct: 560 RGERPARGERPQRGERPARGEGRPPRKPAGEYSESGYQNDAGGGPRRPTRGGRPGRKPTG 619 Query: 352 AK 353 + Sbjct: 620 PR 621 Score = 43.6 bits (101), Expect = 0.051, Method: Composition-based stats. Identities = 12/128 (9%), Positives = 22/128 (17%), Gaps = 15/128 (11%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + R D R ++ S + + Sbjct: 488 RRTSKRSPAGAPRAERVPRGDRAPRGDRPPRGDRPARTDRPARGERPSRGERPARAEGAP 547 Query: 302 ATPVHRRNLASNVWMAK--GIHSSFLSDSGQREENHRRSPSF-------------PSKRS 346 R G + E R P+ +R Sbjct: 548 QGDRPSRGDRPGRGERPARGERPQRGERPARGEGRPPRKPAGEYSESGYQNDAGGGPRRP 607 Query: 347 LRRTSAKK 354 R + Sbjct: 608 TRGGRPGR 615 Score = 42.5 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 13/117 (11%), Positives = 25/117 (21%), Gaps = 4/117 (3%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R P A+ + A R + D +R + + ++ Sbjct: 512 RGDRPPRGDRPARTDRPARGERPSRGERPARAEGAPQGDRPSRGDRPGRGERPARGERPQ 571 Query: 302 ATPVHRRNLASNVWMAKGIHSSFL----SDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R G +S + G R P + + Sbjct: 572 RGERPARGEGRPPRKPAGEYSESGYQNDAGGGPRRPTRGGRPGRKPTGPRPEGARSE 628 Score = 39.0 bits (89), Expect = 1.1, Method: Composition-based stats. Identities = 11/118 (9%), Positives = 22/118 (18%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 ++ + L I S + + Sbjct: 449 RANVISYEDDEAPAASETAALTGDIEDSLGNEDGDEPPARRTSKRSPAGAPRAERVPRGD 508 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + P A A+G S + E + R R + Sbjct: 509 RAPRGDRPPRGDRPARTDRPARGERPSRGERPARAEGAPQGDRPSRGDRPGRGERPAR 566 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 48/223 (21%), Positives = 95/223 (42%), Gaps = 11/223 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---RKAE 71 R++K ++ G SRRE +++I + +V +NG + V D +EV G + ++ + Sbjct: 4 RINKYLSEVGYCSRREADKLILEGKVTINGEIP-EIGTKVEDNDQVEVKGQRIEKSKRQK 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + TT + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDKK--LEPNNVIDFIKYPKRIFPIGRLDKLSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V+ + ++ + + + G+ I + ++ + Sbjct: 121 NKILRARNNHEKEYIVKVNRPINSNFIKSMSNGVEILDTITKNC----FVEQLGPRNFKI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L +G NR+I+++ E ++V L R+ +L + G R Sbjct: 177 ILTQGLNRQIRRMCEALGYRVRSLKRVRIMNIKL-DVPTGEYR 218 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 1 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQ 60 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 61 VTILLHKPVGYVSGQAEDGYEPASVLITRANQWSGDRSPLRFSPQHLHALAPAGRLDIDS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 G+L+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 121 TGMLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLLDIDQHFPAESLAKLRHGLELDG 180 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 181 VALKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 236 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 237 QGQWRYLSPDE 247 >gi|312601099|gb|ADQ90354.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae 168] Length = 236 Score = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 64/231 (27%), Positives = 111/231 (48%), Gaps = 6/231 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ G+ SRR+ E++I Q R+K+N + V D IE+D + K Sbjct: 2 KKIRINKFLSEMGVCSRRQSEKLILQGRIKINNETAK-IGQIVSQNDVIELDQQKITKKP 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP +T+ DP+ R T+ + + VGRLD T GL+L+TNDG Sbjct: 61 PIFWYALNKPKNYITSRFDPENRPTIMEFFSKN-EYLFPVGRLDFQTSGLILITNDGKTT 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS++ R Y V+ + ++ L + + +K S+ V Sbjct: 120 NKLLHPSSKIERTYLVKTDFSLSDKEIRFLNDNKIQLDSV----KSIQKIKKCSSRTYLV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G N IKK+F N KV +L R+S+ +L + G R+++K+ ++ Sbjct: 176 TVWQGSNHHIKKLFLSINKKVLKLKRVSFANIKLNNISEGKYRKLTKQEIK 226 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 72/247 (29%), Positives = 117/247 (47%), Gaps = 6/247 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 E ++ K I++ G SRR+ E +I Q+R+K+N + V++ D I +DG Sbjct: 4 TKDEFEKTIKIQKAISQVGYCSRRQAEELIKQKRIKINHQVAT-LGQRVLADDQIFIDGK 62 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L +++KP + T DP+ R T+++ + SVGRLD N+ G++L+T Sbjct: 63 KLNIKPPKFYLVFNKPKNTICTLKDPEKRKTIYEY-MGLKEYAYSVGRLDFNSTGIILVT 121 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG A ++ PS RVY V ++ + N L VI + + K + Sbjct: 122 NDGDFANLIAHPSANIKRVYEVVLEKELSEGDFNYLNSNKVILNGK----KSSQSLSKLA 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +V L EG+N +K +F N V L R+SYGP L G TR +S+ ++ Sbjct: 178 PFKYSVSLYEGRNHHVKNLFLLVNNYVKELHRVSYGPITDANLKIGKTRHLSESEVQNLK 237 Query: 246 GPHLLEE 252 L ++ Sbjct: 238 TLALKQK 244 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 56/249 (22%), Positives = 110/249 (44%), Gaps = 10/249 (4%) Query: 2 KDKNIVQENFTP---------QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV 52 K + I+++ R++K I+ +GI SRR+ + I V VNG + Sbjct: 73 KKEYIMRKKSEGAKSKPDDGTIRLNKYISNSGICSRRDADIYIKAGSVTVNGKPVSEMGY 132 Query: 53 NVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 V TD ++ DG ++ ++ L L + + ++ + + + + VG Sbjct: 133 RVKLTDEVKFDGQNIQPYQKQYLLLNKPKGFIAPRKGERASKTVLDLMQSAGVANLHYVG 192 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RL + GL+L TND +A L P+ + ++Y+V + L L+ GI I G Sbjct: 193 RLGRQSVGLMLFTNDLEMANKLNNPNLEMRKIYQVALDRSFKHEDLMQLRNGIAINGEVI 252 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 D++ + G N + + + GK+ ++ +FE +++ L R+ G L G Sbjct: 253 -DVKEINYVEDGRNNEIGIEIHSGKDNIVQALFEAVKYEIKVLDRVVLGGLTKKDLPRGH 311 Query: 233 TREVSKKIL 241 R ++++ + Sbjct: 312 YRALTEQEI 320 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 66/283 (23%), Positives = 115/283 (40%), Gaps = 39/283 (13%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR---- 68 R++K IA GIASRR + ++A R+ +NG V +D IE+DG PL+ Sbjct: 31 IRINKYIAGLGIASRRAADELLADGRITINGETA-GLGEMVDPQSDRIELDGRPLKVECA 89 Query: 69 --------------------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 +R + L + TT S Sbjct: 90 PLPYAPYGKASPPRLTSKDDNQATSNYPQRVYIALNKPKGIVCTTDSR---EPENITEYM 146 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + R+ +GRLD + GLLLLTNDG + + + YRV + + L ++ Sbjct: 147 NFPIRIFPIGRLDKASSGLLLLTNDGSIVNRILRAHNHHEKEYRVEVDKPLTEAALQTMR 206 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 G+ I G+ ++ L + +T+ L +G NR+I+++ E+ +KV +L R Sbjct: 207 TGVPILGVVTLPCRIKLL----NPTTMTIILTQGLNRQIRRMCEYCGYKVVKLERRRIMN 262 Query: 223 FQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSE 265 LG + G+ R ++ L + + +L + + + Sbjct: 263 ITLGKMPVGAWRYLTYPELSQLDELLIGSSESASLQQKMSTVQ 305 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 76/230 (33%), Positives = 110/230 (47%), Gaps = 6/230 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA-ER 72 R+ +AR G SRR E +I + RV+VNG ++ A V D + +DG + + Sbjct: 17 RLHVFLARCGEGSRRACEELIKKGRVRVNGRVITNPAHRVDPQEDRVTLDGRDVHLVGKF 76 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + P L T 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EGKNREI+KVF + + R+ RI GP +LG L G R ++K+ +R Sbjct: 193 LEEGKNREIRKVFYSSHIPIVRIHRIRIGPVRLGRLRPGHFRNLTKEEIR 242 >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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 49/230 (21%), Positives = 97/230 (42%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ +R E ++I + VN ++ A V + + +DG+ L Sbjct: 5 MRLDKFICKSTDLTRTEATQLINAGNIIVNNEVVSNEATQVHENNDVLLDGIKLIARASR 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + D S + GRLD +T GL+L+T+DG + Sbjct: 65 YILMHKPLNTICSN-IDEVYPSLFNYIDVEKADDLHIAGRLDADTTGLVLITDDGRWSFN 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P+ Q + YRV + +D +G+ +QG ++ + T V + Sbjct: 124 IITPNKQCEKTYRVGLRNPIAEDAAEKFAQGVKLQGEKQLTLPAKLDVVTSN----EVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++K++F +V L R G +L + G R ++ + + Sbjct: 180 TITEGKYHQVKRMFSAIGNRVVTLHREQIGNIKL-DVEVGKWRFLTPEEI 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 = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 83/318 (26%), Positives = 127/318 (39%), Gaps = 7/318 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +RV KV+A G+ SRRE+E I + VKVN + V D I V G + AE Sbjct: 2 SERVQKVLAARGLGSRREIEGWIERGEVKVNQRTAK-LGDQVGPNDVIRVRGRVIHMAEH 60 Query: 73 TRLW--LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 W + + + + R ++VGRLD+NT GLLL T DG L Sbjct: 61 AHRWLVYHKPVGEICSRSDPEGRKPVFASLPRLKGQRWVAVGRLDLNTSGLLLFTTDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS R Y VR G+V D +L +G+ ++ + G+N W Sbjct: 121 ANRLMHPSHSLEREYAVRVLGEVPDDTRRMLLEGVELEDGPARFDVLEERGGDGANHWFH 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LREQLG 246 V + EG+NR ++++++ V+RLIR+ YGP LG L G++R++ + L E + Sbjct: 181 VVVSEGRNRLVRRLWDAVGVTVSRLIRVRYGPVVLGRGLKTGASRDLEVREVEALYEAVE 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + E + T S ++ +G K K Sbjct: 241 LPVPESIRERGRRRGPGRNTRPARGKRGKSGGRVREADRWTSTKPGSGPGKGGKTGRSGP 300 Query: 307 RRNLASNVWMAKGIHSSF 324 G + Sbjct: 301 GGAGRKGGPRKPGGRARS 318 >gi|254361758|ref|ZP_04977893.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] gi|153093293|gb|EDN74289.1| pseudouridylate synthase [Mannheimia haemolytica PHL213] Length = 355 Score = 156 bits (393), Expect = 6e-36, Method: Composition-based stats. Identities = 88/279 (31%), Positives = 128/279 (45%), Gaps = 10/279 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++ARAG SRRE+E +IA RV V+G + V V S+ I +DG + Sbjct: 77 GEKLQKILARAGQGSRRELEEIIAAGRVSVDGKMATLGDRVQVSSSTKIRIDGHLVNLMP 136 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + +R I+VGRLDINT GLLL T Sbjct: 137 AQKEICRVLMYYKPEGELCTRSDPEGRSTVFDRLPRLSGARWIAVGRLDINTSGLLLFTT 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 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LR 242 W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + LR Sbjct: 257 QWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLDKGLPRGGWEEMGLEQVNYLR 316 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 E +G E +V + + + + Sbjct: 317 ELVGLPPETETKVEVGVNRRRTNIRQIRKAVKQHQKYRG 355 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 111/241 (46%), Gaps = 4/241 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 R+ K + + +R+E + + + +V VNG +++ V D +E D ++ Sbjct: 6 KKTRLDKFLCDSLNMTRKEAKESVKKGKVVVNGEAIKKPEYKVDAEQDQVEFDHKLIQFE 65 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L+ +V+ D ++ + R+ VGRLD +TEGLLLLT+DG L Sbjct: 66 QFHYLMLHKPQG-VVSATKDHHDQTVLDLIHEDYKDRLFPVGRLDKDTEGLLLLTDDGML 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P +VY + GQ ++++ K+G+ I G ++ + + V Sbjct: 125 AHELLSPRKHVDKVYFAKVSGQFGENEIARFKEGLDIGNGERSKQARLQILKADVQESEV 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + + EGK ++K++ + +V L R+S G +L L G R ++K L+E Sbjct: 185 LITIMEGKFHQVKRMVKAVGSEVLYLKRLSMGSLKLDEELKLGEYRRLTKAELQELKEHR 244 Query: 249 L 249 Sbjct: 245 R 245 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 88/279 (31%), Positives = 128/279 (45%), Gaps = 10/279 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ K++ARAG SRRE+E +IA RV V+G + V V S+ I +DG + Sbjct: 77 GEKLQKILARAGQGSRRELEEIIAAGRVSVDGKMATLGDRVQVSSSTKIRIDGHLVNLMP 136 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + +R I+VGRLDINT GLLL T Sbjct: 137 AQKEICRVLMYYKPEGELCTRSDPEGRATVFDRLPRLSGARWIAVGRLDINTSGLLLFTT 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 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI---LR 242 W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + LR Sbjct: 257 QWFDVTLTEGRNREVRRLWESQGVEVSRLIRIRYGNIKLDKGLPRGGWEEMGLEQVNYLR 316 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 E +G E +V + + + + Sbjct: 317 ELVGLPPETETKVEVGVNRRRTNIRQIRKAVKQHQKYRG 355 >gi|315126449|ref|YP_004068452.1| pseudouridine synthase [Pseudoalteromonas sp. SM9913] gi|315014963|gb|ADT68301.1| pseudouridine synthase [Pseudoalteromonas sp. SM9913] Length = 289 Score = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 80/286 (27%), Positives = 132/286 (46%), Gaps = 10/286 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ E Sbjct: 4 QGEKLQKVLARAGVGSRREMEKYIDANRVSVNGKVAK-LGDRVEETDLIRVDGHTVKIEE 62 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + L T R+ R I+VGRLD+NT GL+L TN Sbjct: 63 KADRICRVIMYNKPEGELSTRKDPEGRRTVFDRLPRIDGDRWIAVGRLDVNTSGLMLFTN 122 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y R G+V + + L +G+ ++ + +G N Sbjct: 123 DGELANRLMHPSYEVEREYSARVFGEVTDETMKNLLRGVELEDGPAKFTGIKPMGGEGIN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV---SKKILR 242 W V L EG+NRE++++++ + +V+RLIRI YG +L + G E + LR Sbjct: 183 RWYNVTLNEGRNREVRRLWQSQDVEVSRLIRIRYGKLELDKRVPQGGWIEYDLDTVNYLR 242 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 + + + ++++ + ++ + + + K Sbjct: 243 KTVKLGKETQTKLSVIPEKRKDKRAKINQIRKAVKKHNQRVKPTKR 288 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 68/255 (26%), Positives = 109/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNSKISSDHTEDAVRLSKRMAQLGLCSRREADGYIGQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T+ + +G ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 66/254 (25%), Positives = 114/254 (44%), Gaps = 12/254 (4%) 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 RPRPVLLAVNKPKGIVCTTTDKDRAENIVDFLGY-PERIYPVGRLDKDSEGLLLMTNQGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNA 187 L + + Y V V + L + GI + +V +K Sbjct: 121 LVNKIMRSGNAHEKEYIVTIDKPVTERFLEQMAGGIRLPELDQVTRPCKV----KKVERN 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 ++ L +G NR+I+++ E +V RL+R+ +LG L G+ R+++K+ E G Sbjct: 177 TFSIILTQGLNRQIRRMCEACGCQVKRLVRVRIMNIRLGNLRTGAYRQITKEEYEELTGL 236 Query: 248 HLLEEAQVNLDAPI 261 + + Sbjct: 237 LKDSSSLSLKERKN 250 >gi|144575100|gb|AAZ43829.2| 16S rRNA uridine-516 pseudouridylate synthase and related Pseudouridylate synthase [Mycoplasma synoviae 53] Length = 234 Score = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K IA + + +R E++++I++ VKVN +++++ + ++ D I ++G+ L E Sbjct: 3 IRIEKFIADSTLYTRNEIKKLISKGLVKVNDLIIKK-SQSIDPKLDKIYLEGILLEAREE 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +KP G + + D + + L ++GRLDI+TEGLL++TNDG L Sbjct: 62 FSYIMMNKPAGYICANFDWNKQVVFELLLDLEMNLKDFFTIGRLDIDTEGLLIITNDGKL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + L P + Y V ++++ LL+K ++I I Y SN Sbjct: 122 SHNLLSPKKHIPKTYYVELDKPLEKNIKELLEKELLIDEIKYK----KSILNNISNNKWE 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK +IK +F F +KV L RI L L G + ++K+ L Sbjct: 178 ITIFEGKFHQIKIIFAHFGYKVTYLKRIKMNNLSLDENLKPGEYKFLTKEELD 230 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 107/255 (41%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNPKISSDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G + P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 78/233 (33%), Positives = 117/233 (50%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQ-LGDRITEQDLVYIDGQLSSLSAPE 61 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + R L + + T + 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-GTLLAGSTREVSKKILR 242 V + EG++R +++++E KV+RLIR+ +GP L +L G +E+ ++ Sbjct: 182 VVVVEGRHRFVRRLWESQGVKVSRLIRVRFGPIVLPKSLRRGDWKELESPEIK 234 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 57/235 (24%), Positives = 100/235 (42%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A +GIA+R +V+ ++ Q+RV+ N + V + D I +D + + Sbjct: 1 MRLDKFLADSGIATRSQVKLILKQKRVRKNQETVTNGKVQIDEKLDEIYLDDERVYYEKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T + V VGRLDI+T G LLLTN+G L+ Sbjct: 61 LYYVMNKPKGVVSATEDTKHATVLDLIGELAQKRGVFPVGRLDIDTHGFLLLTNNGALSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN--AWV 189 + P + Y + G + Q+ +KGI + + + + ++ + V Sbjct: 121 AMLSPKKHVEKTYVAKIEGIMTQEDQVSFEKGITLDDGYECMPAHLEILSVDKNHQASLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + ++EGK ++K++ + V L RIS GP L L G R + L Sbjct: 181 QIKIKEGKFHQVKRMVKACGKTVIDLQRISMGPLHLDKSLKLGEFRSLKDSELEA 235 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 65/238 (27%), Positives = 110/238 (46%), Gaps = 14/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---- 70 R++K IA G SRRE +R+IA +RV VNG AV V D + VDG PLR Sbjct: 4 RLNKHIADTGFCSRREADRLIAARRVTVNGHPAGTGAV-VGEEDQVLVDGQPLRARVARK 62 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R +KP+G+ T + R+ +GRLD +EGL+L+T++ Sbjct: 63 PGTRRHVYIALNKPVGVTCTTETSV--KGNIVDFVGHEQRIFPIGRLDKESEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + V + L + +G+ I + + + G Sbjct: 121 GDIVNQILRAENGHQKEYLVAVNKPVTDEFLRGMARGVRIHDQMTLPCKTSRIAKFG--- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L++G NR+I+ + F ++V +L R+ ++G L G R ++++ L+ L Sbjct: 178 -FRITLQQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKIGALKPGQWRNLTEQELQGLL 234 >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 = 156 bits (393), Expect = 7e-36, Method: Composition-based stats. Identities = 71/278 (25%), Positives = 118/278 (42%), Gaps = 6/278 (2%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ TD + V+G Sbjct: 226 RELSADDDAPKLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPTDQVRVNG 284 Query: 65 VPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + L + +V+ + + ++VGRLD NTEG Sbjct: 285 KLIHRKVTTKPPRVLLYHKPSGEIVSQSDPEGRPTVFDSLPRIKNGKWVAVGRLDFNTEG 344 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL+ T G +A P R Y VR G++ + L GI + +++ Sbjct: 345 LLIFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIQLDDGEANFLRIADG 404 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +E+ Sbjct: 405 GGEGVNQWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQELDPT 464 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 +R + L+ + + + + Sbjct: 465 DVRGLMANIGLKAPSKEAQSGGKGVTKVGGRKQREEAA 502 >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 = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 82/309 (26%), Positives = 131/309 (42%), Gaps = 7/309 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGQIAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEQRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V L G+V+ + G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPQIRQTLLNGVVLDDGPAKFESFSELGGDGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRLFESQGLKVSRLLRTRYGSVILPRELRTGRWIELDKGDIDNLTK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ Q + T + + + ++++ + + K Sbjct: 241 LVELKPRQGTGLYGMAKRRTERMVEKPMAARRGGYLRQQRRDNENGTENNNETKQPYAAA 300 Query: 307 RRNLASNVW 315 R+ +A N Sbjct: 301 RKTVAVNKG 309 >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 = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 65/238 (27%), Positives = 110/238 (46%), Gaps = 14/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---- 70 R++K IA G SRRE +R+IA +RV VNG AV V D + VDG PLR Sbjct: 4 RLNKHIADTGFCSRREADRLIAARRVTVNGHPAGTGAV-VGEEDQVLVDGQPLRARVARK 62 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R +KP+G+ T + R+ +GRLD +EGL+L+T++ Sbjct: 63 PGARRHVYIALNKPVGVTCTTETSV--KGNIVDFVGHEQRIFPIGRLDKESEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + Y V + V + L + +G+ I + + + G Sbjct: 121 GDIVNQILRAENGHQKEYLVAVNKPVTDEFLRGMARGVRIHDQMTLPCKTSRIAKFG--- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L++G NR+I+ + F ++V +L R+ ++G L G R ++++ L+ L Sbjct: 178 -FRITLQQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKIGALKPGQWRNLTEQELQGLL 234 >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 = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 78/233 (33%), Positives = 118/233 (50%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRKAE 71 +R+ KV+AR+G SRRE+E+MIA+ R+KVN L + + D + +DG L E Sbjct: 3 ERIQKVLARSGYGSRREIEKMIAEGRIKVNQRLAQ-LGDRITEQDLVYIDGQLSSLSAPE 61 Query: 72 RTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + R L + + T + 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-GTLLAGSTREVSKKILR 242 V + EG++R +++++E KV+RLIR+ +GP L +L G+ +E+ ++ Sbjct: 182 VVVVEGRHRFVRRLWESQGVKVSRLIRVRFGPIVLPKSLRRGAWKELESPEIK 234 >gi|161870231|ref|YP_001599401.1| pseudouridine synthase [Neisseria meningitidis 053442] gi|161595784|gb|ABX73444.1| pseudouridine synthase [Neisseria meningitidis 053442] Length = 416 Score = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 151 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 209 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 210 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 269 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 270 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 329 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +GP L L G Sbjct: 330 RIREQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFY 389 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 390 ELNPAEVANIIKWADM 405 >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 = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 67/234 (28%), Positives = 108/234 (46%), Gaps = 4/234 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 RV K + AG +R E +++ RV++NG ++ AA + D +EVDG + Sbjct: 3 SIRVDKWLTTAGYGTRSEAKKLCRAGRVRLNGETVKDAAKHADPAVDVLEVDGELVPYEP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +Y P + +T D + I+ V VGRLD + EGLLLLTNDG LA Sbjct: 63 LVYFMMYKPPGYVSSTEDPRDPVVIELLDEEDIWRDVFPVGRLDKDAEGLLLLTNDGPLA 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 L P + Y VR G + + L +G+V+ ++ + + G+ + Sbjct: 123 HRLLAPKRHVPKRYFVRVRGALGEGDARALAEGVVLDDGYKAMPAELEIL-RSGAESEAI 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + EGK ++K++F +V L RIS GP L L G R +++ + Sbjct: 182 IQVYEGKYHQVKRMFASLGKRVTFLKRISMGPLSLDPALKPGEYRRLTEGEIEA 235 >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 = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 60/229 (26%), Positives = 114/229 (49%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +G SRR+ + ++ + +VKVNG +++ +D +E+DG L E+ Sbjct: 1 MRINKYIASSGYTSRRKADDLVKKGKVKVNGETTHELGLDIKDSDVVEIDGKVLEIEEKI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + R ++L + R + GRLD ++EGLL++TNDG Sbjct: 61 YIKLYKPRGYITSNFDPYNDRDL--NDLVKLDQRFFAAGRLDKDSEGLLIITNDGIFTNQ 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + PS + + Y VR +++++ + GI I ++ ++ V + Sbjct: 119 IIHPSKKLDKTYIVRVSRLLNKEECQQFESGIDIGDSE-MTSDSRIELIDKTSKTYKVTI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++F +F+ +V L RIS GP +L + R + + Sbjct: 178 HQGYNRQIRRMFAYFSSEVKMLKRISIGPIKLDGMKPYEKRNFDQAEMD 226 >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 = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 60/240 (25%), Positives = 116/240 (48%), Gaps = 2/240 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K++ R+++ I+ +G+ SRRE +++I + VNG ++ V TD ++ Sbjct: 147 KERTQRHNEPEKMRLNRFISNSGVCSRREADKLIEMGMISVNGKVITEMGFQVSPTDTVK 206 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 L++ + + L + TT+ D ++ + S R+ VGRLD NT GL Sbjct: 207 YGKRLLKREKFVYVLLNKPKDFITTTNDPQDRKTVMDLIKNSCDERIYPVGRLDRNTTGL 266 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL TNDG +A+ L PS +VY+V + + L+ + +G++++ ++ + Sbjct: 267 LLFTNDGEVAKKLSHPSHDVKKVYQVELDKPLKDEDLDSIAEGVILEDGYAAVDEIAIL- 325 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V + G+NR ++++F +++V +L R Y + G R +S+K + Sbjct: 326 -NPERTLVGVEIHIGRNRIVRRIFNHLDYEVVKLDRTMYAGLNKKNIDRGDWRYLSEKEV 384 >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 = 155 bits (392), Expect = 7e-36, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 108/229 (47%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA +R + + + VNG +++ A+ + S D + +G L E Sbjct: 1 MRLDKFIAENIGLTRSLANKALKSSLITVNGQVVKSGAMKITSADGVCYEGNRLTWLESG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ +KP G + ++ D + + + R+ + GRLD++T GL+LLT+DG + Sbjct: 61 QYFMLYKPQGYICSNDDSEYPTVFQFFDYRLMVRLHTAGRLDVDTTGLVLLTDDGQWSHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V V+QD L KGI+++G + ++ N V + + Sbjct: 121 ITSPKYHCEKSYLVTLADPVEQDYALKLAKGILLRGERDPCLPAAMEIIDDYN--VNLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EG+ ++K++F KV L R G L L G+ R ++K+ + Sbjct: 179 CEGRYHQVKRMFAALGNKVQALHRWRIGEIILDETLQEGTFRHLTKQEI 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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 62/244 (25%), Positives = 120/244 (49%), Gaps = 5/244 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ +G SRRE +R++ V +NG + + V G + E+ Sbjct: 1 MRINKYLSASGHCSRREADRLVEAGHVSINGKIA-EPGSQADENSIVTVKGKRVTLEEKK 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+V T + + + + RV GRLD N+EGLL+LTNDG L + Sbjct: 60 IYLKMYKPVGIVCTAEKRERDNLIEYL--NYPVRVTYAGRLDRNSEGLLILTNDGDLIQS 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + Y V + + ++ L+ +++G+ ++ + T+ + + L Sbjct: 118 MMAARNAHEKEYEVTVNKDLRKEDLDSMREGVYLRELEVRTRPCTIV--QTGERTFRIIL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ + F++ V +L RI L L G TRE+S++ +R+ +EE+ Sbjct: 176 TQGLNRQIRRMCKEFSYGVKKLKRIRVVNITLDGLKYGQTRELSEQEVRDLKKNLGIEES 235 Query: 254 QVNL 257 + +L Sbjct: 236 KNDL 239 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 64/250 (25%), Positives = 105/250 (42%), Gaps = 20/250 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + + R+SK +A+ G+ SRRE + I Q VKVNG V D I+++ Sbjct: 1 MDNTSEETMRLSKRMAQLGLCSRREADSYIEQGWVKVNGQTA-VLGQKVTERDRIDLNRQ 59 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ Y L+T + + + + Sbjct: 60 AHERQAERVTILLNKPVGYVSAQAEKGYKSAAELITADNRWESDDSHIPFSEKHKFGLAP 119 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 120 AGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGE 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + L++GK R+I+++ E +V L RI G +LG L Sbjct: 180 KLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGKLPP 235 Query: 231 GSTREVSKKI 240 G R + Sbjct: 236 GKWRYLRADE 245 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 72/248 (29%), Positives = 120/248 (48%), Gaps = 18/248 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + F PQR+SK++A G+ SRRE + +I V+VNG +++ V+ T I++D Sbjct: 97 MLDPFEPQRLSKIMAAKGLCSRREADYLIENGWVRVNGKVVDELGAKVLPTVTIDLDARA 156 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDG--------------RSTVFDNLPSIFSRVISVG 112 + LYHKPIG+V+ + R T P++ + G Sbjct: 157 KNVLGKQVTILYHKPIGVVSGQPEGRYKAAMECLSLENQADRKTSTPFQPAMLKGLAPAG 216 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 RLDI++ GLL+LT DG +A+ L ++ + Y VR G++ L +L+ G+ + G Sbjct: 217 RLDIDSTGLLVLTQDGRIAKQLIDANSTVEKEYLVRVEGELTDRGLEMLRYGLSLDGEAL 276 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V+ + + L EGK R+I+++ E KV L R+ G LG L G Sbjct: 277 KPARVSWQNEDQ----LRFILNEGKKRQIRRMCEIVGLKVVGLKRVRIGRVMLGDLPVGQ 332 Query: 233 TREVSKKI 240 R ++ + Sbjct: 333 WRLLTPEE 340 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 61/227 (26%), Positives = 97/227 (42%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ +++R G SR EV ++ + RV+V G LL +A+ V + + VD P+ Sbjct: 6 ERMDHLLSRLGYCSRSEVRDLLREGRVRVAGELLRKASAKVNA-AEVWVDEEPIDHPHAF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + + SVGRLD T G+LLLT+DG Sbjct: 65 YLLYHKPLGKVCAHDDPRAIYQDFPLRWRYRRPALSSVGRLDRETSGVLLLTDDGDWLHH 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P RVYRV + D ++L G ++ + + V + L Sbjct: 125 WTSPRRAIPRVYRVTLQEPLRSDAADILAAGTLMLDGEDTPCRPAALHC-LTEREVRLTL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EG+ E++++F + V L R +YGPF L L AG RE++ Sbjct: 184 TEGRYHEVRRMFAALDNLVLTLHREAYGPFLLDDLPAGQWRELTVAE 230 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 63/233 (27%), Positives = 105/233 (45%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV ++I + V VNG ++ V TD + V+G + + Sbjct: 1 MRIDKYLANMNVGSRKEVHQLIKKGIVSVNGQTVKTPKEKVAETDEVTVNGEKIVYQKYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T +L + ++ VGRLD +T GLLLLTNDG L Sbjct: 61 YFLMNKPKGVLSATEDRSQRTVISLLDLKDQYQGIVPVGRLDKDTTGLLLLTNDGQLNHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK--GSNAWVT 190 L P+ +VYR + G D++ + G+ + ++T+ Q ++ + Sbjct: 121 LLAPNKHVAKVYRAKIAGVADENTVKTFASGMTLGDETKLKPAKLTVLKQDLEHDSSEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + + EGK +IK++F KV L RIS G +L L G E+ ++ Sbjct: 181 IEISEGKYHQIKRMFGAVGMKVVELERISMGKLKLPNNLKRGQYIEIDVDEIK 233 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 106/236 (44%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K +++A SR++ ++++ + VNG +++ ++ +V + D I G L A+ Sbjct: 1 MRLDKFLSKATELSRKDAKKVLHAGEITVNGTIIKDSSHHVDLANDEILWAGEALSVADG 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L +KP G T + + + GRLD++T G LLL++DG Sbjct: 61 NRYILLYKPDGFECTLKPKEYPMVTDLIAVPEVANLRIAGRLDVDTTGALLLSDDGAWLH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + P + Y++ +D+D + GI+++G L ++A Sbjct: 121 RVTSPKRHQPKQYQLTLADAMDKDAQAYAIKQIANGILLEGETEKTRPAVLSFIDETHAV 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EGK ++K++ +F KV +L R S G L L G R ++ + + Sbjct: 181 L--TLTEGKYHQVKRMMAYFGNKVIKLHRASIGHISLEGLQMGECRFLTPDEINQF 234 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 126/256 (49%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + V DH+ Sbjct: 134 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKVTPDDHV 192 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 193 TVKGSIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 252 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G + +++ +L + ++++ Sbjct: 253 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVE 312 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W + ++EG+NRE++++FE V+RL+R+++GP L L G Sbjct: 313 RIREQGGEGANKWYNIVIKEGRNREVRRIFESQGLTVSRLVRVAFGPIGLPNRLKRGQFY 372 Query: 235 EVSKKILREQLGPHLL 250 E++ + L + Sbjct: 373 ELNPAEVANILKWADM 388 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 58/243 (23%), Positives = 106/243 (43%), Gaps = 18/243 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+SK+++ G+ SRRE ++ I V ++G + T +E+ Sbjct: 2 EKVRISKILSEQGLCSRREADKFIELGLVLLDGKTVSELGTKACRTQKVELKDRAQIAQS 61 Query: 72 RTRLWLYHKPIGLVTT--------------HSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +KP+G ++ D ++ + GRLDI+ Sbjct: 62 AKATIILNKPVGFISHLDDDKEFTPAASLVTPDKFYQTNDTRRPTFNTDGLAPAGRLDID 121 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLL+LT DG +A+ + + + Y VR G + + L+LL G+ + G +V Sbjct: 122 SSGLLVLTQDGRIAKQIIGENVIVEKEYLVRIEGTLTDEALSLLNHGLTLDGYELKPAKV 181 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++A ++ L EG+NR+I+K+ + KV L R+ G +LG + +GS R + Sbjct: 182 LWQ----NDAQLSFTLIEGRNRQIRKMCQLVGVKVTALKRVRIGNVRLGNIPSGSWRFLG 237 Query: 238 KKI 240 Sbjct: 238 ADE 240 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 59/233 (25%), Positives = 102/233 (43%), Gaps = 9/233 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T R++K IA AGI SR++ R+I + V VN +V D I V+ ++ A Sbjct: 2 STKIRLAKYIAHAGICSRKQASRLIDEGVVTVNNRPANHID-HVDEQDTIIVNEKEIKGA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + YHKP+G+ + +RV +GRLD ++ GLL+LTNDG Sbjct: 61 ADLVYFAYHKPVGIDCK--LNIDDPASLIHHLPTLTRVYPIGRLDKDSRGLLILTNDGDF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + +D + G+ + + K ++ + Sbjct: 119 CNQLIHPDFHQPKHYLVTVNKPLDDAFCKKMAAGVPVDKHITLPCE----VNKIASNQFS 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 + L++G NR+I+K+ + +KV L R+ + L L +++K + Sbjct: 175 IVLKQGLNRQIRKMAHYCGYKVIDLFRVQFSDLTLSKLNLPENQYIQINKTDI 227 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 66/250 (26%), Positives = 105/250 (42%), Gaps = 20/250 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + + R+SK +A+ G+ SRRE + I Q VKVNG V D I+++ Sbjct: 1 MQNNDSETMRLSKRMAQLGLCSRREADSYIEQGWVKVNGQTA-VLGQKVTERDRIDLNKQ 59 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ Y L+T + +G + + Sbjct: 60 AHEKQAARVTILLNKPVGYVSAQAEKGYKSAAELITAENHWEGDDSRIPFSEKHKFGLAP 119 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D L LL G+ + G Sbjct: 120 AGRLDIDSVGLLVLTQDGRIAKQLIGENSSSEKEYLVRVRGKLDDKGLALLNHGLSLDGE 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + LR+GK R+I+++ E +V L RI G +LG L Sbjct: 180 KLRPAKVEWQNEDQ----LRFILRQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGRLPP 235 Query: 231 GSTREVSKKI 240 G R + Sbjct: 236 GKWRYLRADE 245 >gi|254670635|emb|CBA06652.1| pseudouridylate synthase [Neisseria meningitidis alpha153] Length = 252 Score = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 109/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNSKISSDHTEDAVRLSKRMAQLGLCSRREADGYIGQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T+ + +G ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 64/241 (26%), Positives = 107/241 (44%), Gaps = 10/241 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IA +G SRRE +R+I ++RV VNG+ AV V + D + VDG PLR E Sbjct: 15 TIRLNKYIAESGFCSRREADRLIGERRVTVNGVPAGTGAV-VGAEDTVLVDGQPLRIREA 73 Query: 73 TRL-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +L + T + R+ +GRLD ++EGL+L+T++ Sbjct: 74 KKLGGRKHVYIALNKPVGITCTTESSVKGNIVKFVGHEQRIFPIGRLDKDSEGLILMTSN 133 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y V + V + L + +G+ I + + G Sbjct: 134 GNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG--- 190 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 191 -FRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQ 249 Query: 248 H 248 Sbjct: 250 R 250 >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 = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 52/223 (23%), Positives = 101/223 (45%), Gaps = 9/223 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++++ G SR+E ++ +RV V G + A+ V + VDG L + Sbjct: 15 RLDQLLSNLGYCSRKEARYLLKGKRVTVKGEFAKSPALKVDP-ATVRVDGEALDAPDGIL 73 Query: 75 LWLYHKPIGLVTTHSD--PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + ++ + + +++SVGRLD +T GL+L+T+D L Sbjct: 74 VMLNKPLGYVCSHDNNEGMRIYDLLPERWEFRNPKIVSVGRLDKDTSGLILVTDDTKLVH 133 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVT 190 L P +VY+V + D ++ KG+V+ ++ + ++ +N Sbjct: 134 QLTSPKHHVDKVYQVSVDCPLQSDIIDSFAKGVVLGEGAEQCLPAKIEIVSENVAN---- 189 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 V L EGK +++++F + V L R +G ++L L G Sbjct: 190 VTLNEGKYHQVRRMFAACGYHVEALHRSQFGQYRLQDLAQGEW 232 >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 = 155 bits (392), Expect = 9e-36, Method: Composition-based stats. Identities = 77/301 (25%), Positives = 129/301 (42%), Gaps = 8/301 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPESRPTVFDHLPTIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+V+ + G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPQIRQNMLNGVVLDDGPAKFESFSEIGGDGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + + L Sbjct: 181 WYQVVVKEGRNREVRRIFESQGLKVSRLLRTRYGTVILPRELRTGRWIELDKADI-DNLT 239 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 + + + + R ++ + R ++ ++ + + Sbjct: 240 KSVELKPRQGTGLYGMAKRRTERMAEKPMAARRGGYLRQQRRENEGTEQTAAPRKPYSPK 299 Query: 307 R 307 + Sbjct: 300 K 300 >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 = 155 bits (392), Expect = 9e-36, Method: Composition-based stats. Identities = 55/219 (25%), Positives = 94/219 (42%), Gaps = 7/219 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T R++K IA AGI SR++ R+I + V VN +V D + V+G ++ Sbjct: 2 DTKIRLAKYIAHAGICSRKQASRLIDEGVVIVNNRPANHID-HVDENDRVIVNGHAIKGP 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + YHKP+G+ + + +RV +GRLD ++ GL++LTNDG Sbjct: 61 ADLVYFAYHKPVGIDCK--LNHHDPSSLIHHLPQLTRVYPIGRLDKDSRGLIILTNDGDF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V + +D + G+ + +V + Sbjct: 119 CNQLIHPDFHQPKRYLVTVNKPLDAHFCEKMAAGVPVDKQITRPCEVVKIASNQ----FS 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + L++G NR+I+K+ + + V L R+ L L Sbjct: 175 IVLKQGLNRQIRKMAHYCGYTVIDLYRVQISELLLDNLN 213 >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 = 155 bits (392), Expect = 9e-36, Method: Composition-based stats. Identities = 73/280 (26%), Positives = 126/280 (45%), Gaps = 9/280 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG+ SRRE+E I+ RV VNG + V S D + VDG ++ Sbjct: 2 SEKLQKVLARAGLGSRRELETWISDGRVSVNGTVAT-LGDRVGSEDTLRVDGRMIKVKAE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + P + + + + + R + VGRLDINT G++L T D Sbjct: 61 EDTVQRVIMYHKPPGEVCSRNDPEGRPTVFDNLPRLQGMRWVQVGRLDINTTGMMLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--MQVTLDTQKGS 185 G LA L PS ++R Y VR G + Q+K + G++++ ++ ++G+ Sbjct: 121 GELAHRLMHPSNGFVREYAVRVRGGMTQEKRQAMLDGVLLEDGVSKFDSIEDAGGAEEGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L GK RE++++F+ + +V RL+RI +G L L G E+ + ++ Sbjct: 181 NHWYKVTLTGGKYREVRRLFQSQDLEVARLMRIRFGDLNLPPQLRQGRWMELEPEQMKAL 240 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 + L+ + + R Sbjct: 241 IDKVELKGKKYTGLYGRARLRHQRSGSKPPRKARRGPYRR 280 >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 = 155 bits (392), Expect = 9e-36, Method: Composition-based stats. Identities = 47/236 (19%), Positives = 98/236 (41%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A +R+E R++ + ++VNG +++ ++ + +E +G L Sbjct: 1 MRLDKFLATTLGITRKEAGRLLNNKMIEVNGDVVKSISLKITDDCDVEFNGKKLTLQGPQ 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + D + ++ GRLD +T GL LLT+DG + Sbjct: 61 YFMLNKPEGFVCSH-VDDHNPTVFVLFDEVSPEKMHVAGRLDGDTTGLTLLTDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P +VY V V ++ + +G+ ++G ++ + ++ + + Sbjct: 120 VTSPRHVCEKVYHVELADPVPEETIQTFLEGVQLRGEKDITRPAKLEILGEREAI----L 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R G L L G R ++ + + L Sbjct: 176 TITEGKYHQVKRMFAAVGNRVVGLHREQVGAVVLDENLKPGEYRRLTDEEIASFLK 231 >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 = 155 bits (392), Expect = 9e-36, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 105/234 (44%), Gaps = 5/234 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K + +R E +MI Q RV ++++ V D I DG L Sbjct: 7 KTLRLDKFLCDVLGCTRSEARKMIRQGRVLAGDEIIKKPEYKVNPEEDEITADGQRLNFR 66 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + +VT D ++ + + GRLD +TEGLLL+TNDG L Sbjct: 67 KYEYLMMNKPKG-VVTATKDGRDKTVMDLLTGRHRKGLFPAGRLDKDTEGLLLITNDGEL 125 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y V G++ +++ + + G+ I ++ + T G + Sbjct: 126 AHRLLSPKHHVTKCYSVTVTGEIGREQQEIFESGMDIGDDKPLKPAKLVILT-SGEVSQA 184 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EG+ +IK++FE KV L R+S G L LL G RE++++ ++ Sbjct: 185 EVFITEGRFHQIKRMFEAVGSKVLELKRLSMGSLVLDPELLPGQVRELTEEEIK 238 >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 = 155 bits (392), Expect = 9e-36, Method: Composition-based stats. Identities = 79/309 (25%), Positives = 134/309 (43%), Gaps = 9/309 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVD 63 + ++ +++ K++AR+G SRRE+E + + R+ ++G+ + + + I +D Sbjct: 1 MSDKSQRTEKLQKILARSGHGSRREIEGYLQEGRISIDGVKAK-LGDRIDANSTAKIRLD 59 Query: 64 GVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 G L E L Y L T + +R I+VGRLD+NT Sbjct: 60 GRILSIREAQKDVCRVLAYYKPEGELCTRSDPQGRPTVFQRLPRLNSARWIAVGRLDVNT 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL T DG LA L PS + R Y VR G++D K+ L +G+ ++ V+ Sbjct: 120 SGLLLFTTDGELANRLMHPSREVEREYAVRVFGEIDDAKIRQLTRGVQLEDGPASFRSVS 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G E+ Sbjct: 180 YRGGEGINQWYNVSLTEGRNREVRRMWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWVELG 239 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + L + V A + ++ + + S K S+ Sbjct: 240 LNQINYLRQLVELNDETVTKVAVEKDQRRIKANQIRRAVKRHTKISARTSTSPAKRASSR 299 Query: 298 QKKLATPVH 306 ++ + Sbjct: 300 RQSAGSKSK 308 >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 = 155 bits (391), Expect = 9e-36, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNPKTPPDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T+ + +G + P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITSENRWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 155 bits (391), Expect = 9e-36, Method: Composition-based stats. Identities = 65/250 (26%), Positives = 107/250 (42%), Gaps = 28/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------- 64 R+SK++++ G+ SRRE + I + V V+G ++ V I++D Sbjct: 78 RLSKLMSKLGLCSRREADEWIEKGWVMVDGERVDTLGTKVFPDQRIDIDPAAEAFQSSQV 137 Query: 65 -----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 P+ Y I LVT + +G + S ++ GRLDI++ Sbjct: 138 TVIVHKPVGLVSGQAEDGYQPAITLVTPENRWEGDRSGVRFSVSHLRQLAPAGRLDIDST 197 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQGI 170 GLL+LT DG +A+ L + + Y VR +KL LL+ G+ + + Sbjct: 198 GLLVLTQDGRIAKQLIGGHSDVDKEYLVRVAYGEYTVDVESHFPAEKLALLRHGLSLDDV 257 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 QV+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 258 ALKPAQVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVVGLKRVRMGQVMLGALPP 313 Query: 231 GSTREVSKKI 240 G R +S+ Sbjct: 314 GQWRYLSEDE 323 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 99/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL Sbjct: 2 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLVYESF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQQATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVT 190 L P + Y + G + + + +GI ++ + + + + V Sbjct: 122 DLLSPKKHVTKEYLAKVAGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLVK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++ V L R+S GP +L +L G R ++ + L+ Sbjct: 182 ITIQEGKFHQVKRMVAACGKGVLDLQRLSMGPLKLDPSLAEGEFRRLTPEELQ 234 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 69/255 (27%), Positives = 107/255 (41%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNPKTPPDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T + +G + P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITPENRWEGDTGRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPPGKWRYLAPGE 250 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 90/342 (26%), Positives = 134/342 (39%), Gaps = 1/342 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K +ARAG+ASRR E +I RV VN + V D + 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 + EG+ IK++ V RL R +Y + + G R ++ +R Sbjct: 183 VAEGRPHLIKRLCAAVGHPVVRLFRPAYAGVGVSGVRPGELRPLTSTEVRLLQDVAEART 242 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 A + + E + F ++ T R A Sbjct: 243 APPEGELNLPPRRHGRAAPGFEEDEDGEGFEVEGAAAAPAKPSRSPAAAKTGRARPAAAG 302 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 S R S + S+ R + Sbjct: 303 RPERKPAGKSPRTEGGTGLARFGRTSSAAVSEEGSERPRRSE 344 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 71/266 (26%), Positives = 120/266 (45%), Gaps = 12/266 (4%) Query: 1 MKDKNIVQENFT---------PQR--VSKVIARAGIASRREVERMIAQQRVKVNGILLER 49 M+D+ + +R + + +++ G SR + ER+IA+ RV V+G + Sbjct: 46 MRDRRPSHKTRERLKPAADTAGKRVTLPRALSKLGYCSRTQAERLIAESRVAVDGRTVSD 105 Query: 50 AAVNVM-STDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 A+ V ST I VDG+ + + L L + T + + Sbjct: 106 ASAWVDLSTARISVDGLVIAAEAKIYLMLNKPRGLVTTRQDPEGRPTVYDCLKNFDIPHL 165 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 VGRLD +EGLLL TND A+ L P T + Y V+ +D +++ + GI Sbjct: 166 SPVGRLDKASEGLLLFTNDTEFAQTLLDPLTHVTKTYHVQIDRLMDDEEIAAMTSGIRHD 225 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L Sbjct: 226 GELLTAAATRRLRQGDRNSWIEVELDEGRNRQIRRMLEALGAECLRLVRVAIGGLELGEL 285 Query: 229 LAGSTREVSKKILREQLGPHLLEEAQ 254 G+ R +++ L+ +E A+ Sbjct: 286 PKGAVRALTEGELQGLRRRAGMERAR 311 >gi|291561019|emb|CBL39819.1| ribosomal small subunit pseudouridine synthase A [butyrate-producing bacterium SSC/2] Length = 242 Score = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 111/241 (46%), Gaps = 4/241 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 R+ K + + +R+E + + + +V VNG +++ V D +E D ++ Sbjct: 3 KKTRLDKFLCDSLNMTRKEAKESVKKGKVVVNGEAIKKPEYKVDAEQDQVEFDHKLIQFE 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L+ +V+ D ++ + R+ VGRLD +TEGLLLLT+DG L Sbjct: 63 QFHYLMLHKPQG-VVSATKDHHDQTVLDLIHEDYKDRLFPVGRLDKDTEGLLLLTDDGML 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P +VY + GQ ++++ K+G+ I G ++ + + V Sbjct: 122 AHELLSPRKHVDKVYFAKVSGQFGENEIARFKEGLDIGNGERSKQARLQILKADVQESEV 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + + EGK ++K++ + +V L R+S G +L L G R ++K L+E Sbjct: 182 LITIMEGKFHQVKRMVKAVGSEVLYLKRLSMGSLKLDEELKLGEYRRLTKAELQELKEHR 241 Query: 249 L 249 Sbjct: 242 R 242 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 63/242 (26%), Positives = 112/242 (46%), Gaps = 14/242 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P RV+K + + G+ SRRE E +IA+ V ++G + A + + ++ + Sbjct: 8 DGDEPVRVNKWLGQTGVCSRREAESLIAEGLVSIDGETISDAGRKIEPGQTLTLNDTAQQ 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----------SVGRLDINT 118 + HKP+G V+ DP V +GRLD ++ Sbjct: 68 ALASGMTLVLHKPVGYVSGQPDPGKIPAVRLLKIPNRIGEGETPARDASLPPIGRLDEDS 127 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLL++DG +A+ + P+++ + Y V G + + KL+ L+ G+V+ +VT Sbjct: 128 RGLLLLSSDGVVAKAVIGPASELDKEYLVVVDGVITEAKLSRLRHGLVLNDKPLKPARVT 187 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + L EGK R+I+++ E +V L RI GP ++G L G R ++ Sbjct: 188 QIEPQR----LRFVLTEGKYRQIRRMCELVGLEVVDLYRIRIGPLEIGDLPEGRWRHLTD 243 Query: 239 KI 240 + Sbjct: 244 QE 245 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 71/280 (25%), Positives = 124/280 (44%), Gaps = 9/280 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG+ SRRE+E I+ RV VNG + V S D + VDG ++ Sbjct: 2 SEKLQKVLARAGLGSRRELETWISDGRVSVNGTVAT-LGDRVGSEDTLRVDGRIIKVKTE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + P + + + + + R + VGRLDINT G++L T D Sbjct: 61 EDTVQRVIMYHKPPGEVCSRNDPEGRPTVFDNLPRLQGMRWVQVGRLDINTTGMMLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--MQVTLDTQKGS 185 G LA L PS ++R Y VR G + +K + G++++ ++ ++G+ Sbjct: 121 GELAHRLMHPSNGFVREYAVRVRGVMTPEKRQAMLDGVLLEDGVSKFDSIEDAGGAEEGA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W L GK RE++++F+ + +V RL+RI +G L L G E+ + ++ Sbjct: 181 NHWYKATLTGGKYREVRRLFQSQDLEVARLMRIRFGDLTLPPQLRQGRWMELEPEQMKAL 240 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 + L+ + + R Sbjct: 241 IEKVDLKGKKYTGLYGRARLRHQRGGNKPPRKARRGPYRR 280 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 85/243 (34%), Positives = 124/243 (51%), Gaps = 12/243 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ KV+A+ GIASRRE E MI + RV++NG L V D I VDG + Sbjct: 4 RLQKVLAQWGIASRREAEEMIRRSRVQINGTLA-ELGQKVNPEKDIITVDGKSVSAQRHP 62 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDG 128 R L +KP G+V+T DP GR TV D LP + VGRLD ++ G L+LTNDG Sbjct: 63 RLTYLLLNKPTGVVSTCYDPQGRKTVLDLLPEELRKGPGLHPVGRLDADSTGALILTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y+V G + L + ++G+++ G +V+L + Sbjct: 123 DLTFRLTHPSHSIPKTYQVLVKGHPPKAVLEMWREGVLLDGRKTRKAKVSLLESLAEKSR 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKILRE 243 + + L+EG+NR+I++V E + V +L R + G QL T L AG+ R + +R Sbjct: 183 LEIVLQEGRNRQIRRVAEQLGYPVIKLHRTAIGSIQLQTSKQPLLRAGNYRILRDDEIRS 242 Query: 244 QLG 246 Sbjct: 243 LQE 245 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 69/250 (27%), Positives = 114/250 (45%), Gaps = 22/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A + +R +V+ I ++ V VNG+ + + V V + D I V G + + Sbjct: 4 IRLDKYLADMQVGTRSQVKEQIRKKLVSVNGVTVTKPDVKVDTDRDKIMV-GSDIIGYTQ 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +KP G+++ +DP ++ V +I + VGRLD +TEGL+L+TNDG LA Sbjct: 63 FEYFMLNKPKGVLSAANDPKAQTVVDLITDNICRDLFPVGRLDKDTEGLMLITNDGELAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---------------QGICYGDMQV 177 L P + Y VRF G + + + KGI I + ++ Sbjct: 123 KLLSPRKHVDKSYYVRFEGIIADNTVESFAKGIDINIAKCADDEVDNNPKEIYHTKPAKL 182 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 L + + + + EGK +IK++F +V L RIS G QL L G R + Sbjct: 183 RLMSADEAV----ITISEGKFHQIKRMFMAAGCRVTYLKRISMGTLQLDFDLKPGQYRRL 238 Query: 237 SKKILREQLG 246 + G Sbjct: 239 TDSETDNLRG 248 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 65/241 (26%), Positives = 100/241 (41%), Gaps = 16/241 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---------HIEVDG 64 R++K +A G SRR R+I V+++ L V D I V+ Sbjct: 1 MRLAKYLALTGCCSRRAATRLIRDGLVRIDERLANHVDS-VTLIDTPIGQRSIEQIYVND 59 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+R E WL++K + T +L R+ VGRLD ++ GLL+L Sbjct: 60 EPIRVVEAKAYWLFNKA--VGTDSRLLAHLPNSLLHLLPESPRLYPVGRLDKDSRGLLIL 117 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L L P + Y V+ D L + G+ + + + Sbjct: 118 TNDGELTHKLMHPDFGHAKTYHVQVDRPFDDAFLVNMAAGVSYKDVVTLPCIMQRLAADK 177 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ + +KV L R+S QLG L GS R +S L + Sbjct: 178 ----YEITLTQGLNRQIRRMSQALGFKVIDLKRVSIQSLQLGDLPEGSMRPLSSAELADL 233 Query: 245 L 245 L Sbjct: 234 L 234 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A AG +R EV++ + Q V+V+G +++ ++V + G P+R Sbjct: 1 MRLDKMLANAGYGTRNEVKKALKQGVVEVDGAVVKDGKLHVQPERQSVCYAGTPVRYKAE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + T + VGRLD +T GLLLLT DG + Sbjct: 61 LYLMLNKPAGVVTATEDARQKTVLDLMKNEWGHMKPFPVGRLDKDTTGLLLLTTDGAFSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P + YR G+V Q + K G+V+ Q+ ++ + G + +++ Sbjct: 121 ELMAPKKHIAKEYRALVEGKVTQADVEAFKNGVVLDDGYCTKPAQLEIE-ESGPLSAISL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 L EGK ++K++F KV +L RI G L +L G RE++ ++ Sbjct: 180 ELTEGKFHQVKRMFAAVGKKVIKLERIRIGSLLLDSSLPKGGYRELTPAEIQ 231 >gi|319442276|ref|ZP_07991432.1| putative pseudouridylate synthase [Corynebacterium variabile DSM 44702] Length = 282 Score = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 74/244 (30%), Positives = 115/244 (47%), Gaps = 4/244 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 K + + R+ KV+A AG+ASRR E++I RV+VNG ++ + V D I Sbjct: 30 NQKKRTKSDNEKTRLQKVLAAAGVASRRMSEKLIEAGRVEVNGSIVTEQGMRVDPENDVI 89 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDIN 117 VDGV + E + +KP G+ +T D GR + D + R+ VGRLD Sbjct: 90 RVDGVRVIADEEIVTFALNKPRGIHSTMHDEFGRPCLSDLVGERVEAGQRLFHVGRLDAQ 149 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLLLTNDG LA L P + Y G+ D+ + L GI + +V Sbjct: 150 TEGLLLLTNDGELANRLMHPRYGIKKTYLATVLGEADRRLVRQLLDGIELDDGIVIADEV 209 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EG+ ++++ + + V L+R QLG G+ R ++ Sbjct: 210 QIIDAWQGKSLIKVVIHEGRKHVVRRMLKEAGFPVQALVRTKVHTVQLGEQKPGTLRALN 269 Query: 238 KKIL 241 + L Sbjct: 270 RSEL 273 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 68/251 (27%), Positives = 123/251 (49%), Gaps = 18/251 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 F R++K ++ SRRE +++I + +++VN ++ A V STD +E+ ++ Sbjct: 15 PKFELIRLNKFLSHNSNYSRREADKLIEEGKIRVNNKVVTDLATKVKSTDKVEIGKKLIK 74 Query: 69 KAERTRL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + +Y+KP G + + DP GR T++D L + +SVGRLD ++EGLLLL++ Sbjct: 75 EEKNKLYTVIVYNKPKGEIVSKKDPQGRKTIYDGLEHKYKHFLSVGRLDYSSEGLLLLSD 134 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICY 172 + L RVY+++ +G + ++ GI I+ Sbjct: 135 SVDIVNALMHSD--LERVYKIKLNGVITPAVEQAMQSGITIEDATSGAYKGTKIKSMSFA 192 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + T ++ + V + EGKNRE+++ F FN V L R+ YG L L G Sbjct: 193 PFLAYDIQTNGTKHSKIKVVINEGKNRELRRFFAHFNLDVLDLKRLEYGGISLNNLPTGK 252 Query: 233 TREVSKKILRE 243 +R ++K+ + Sbjct: 253 SRYLTKEEYKN 263 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 68/251 (27%), Positives = 123/251 (49%), Gaps = 18/251 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 F R++K ++ SRRE +++I + +++VN ++ A V STD +E+ ++ Sbjct: 15 PKFELIRLNKFLSHNSNYSRREADKLIEEGKIRVNNKVVTDLATKVKSTDKVEIGKKLIK 74 Query: 69 KAERTRL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + +Y+KP G + + DP GR T++D L + +SVGRLD ++EGLLLL++ Sbjct: 75 EEKNKLYTVIVYNKPKGEIVSKKDPQGRKTIYDGLEHKYKHFLSVGRLDYSSEGLLLLSD 134 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICY 172 + L RVY+++ +G + ++ GI I+ Sbjct: 135 SVDIVNALMHSD--LERVYKIKLNGLITPAVEQAMQSGITIEDATSGAYKGTKIKSMSFA 192 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + T ++ + V + EGKNRE+++ F FN V L R+ YG L L G Sbjct: 193 PFLAYDIQTNGTKHSKIKVVINEGKNRELRRFFAHFNLDVLDLKRLEYGGISLNNLPTGK 252 Query: 233 TREVSKKILRE 243 +R ++K+ + Sbjct: 253 SRYLTKEEYKN 263 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 108/229 (47%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ + + GI SR+EV+++I+ + VKVNG A N+ +D IE +G L E Sbjct: 1 MRLDRFLVECGIGSRKEVKKIISTKEVKVNGSYDISAKDNIDEYSDIIEYNGKKLEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYIMNKKAGYITATEDTREATVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + Q+ + L++G+ I +V +K S+ + + Sbjct: 121 RLLSPKNHVDKTYYVEIENNISQEDILKLEEGVDIGSYVTLPAKV----KKISDTKIFLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E N KV L R S+ +L L G +EV+ + + Sbjct: 177 IKEGKFHQVKKMLEAVNNKVIYLQRTSFAKLKLADLALGEVKEVNLEDI 225 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 60/235 (25%), Positives = 109/235 (46%), Gaps = 9/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL--ERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K++A SR+EV ++I RV VNG ++ + ++++ D I VDGV + + Sbjct: 1 MRLDKLLANKAFGSRKEVHQIIRDGRVTVNGAVILKKDQSIHID-DDIIAVDGVQISTKQ 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + + + V VGRLD +TEGLLLLTNDG A Sbjct: 60 QYYIKFHKPAGYITAVEDPTHPVVMDLLPPEFKKMGVFPVGRLDKDTEGLLLLTNDGIWA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + +VY V F+G++ +D L ++ GIV+ G + + +++ + Sbjct: 120 HSIINGHKHVPKVYYVEFNGKLTKDGLERIETGIVLGDGTQCKPANIDVLSEQS----LH 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQ 244 + + EGK ++K++ +V L R+S G L + A + E+ + + + Sbjct: 176 ITIEEGKYHQVKRMIGAAGGEVTYLKRLSIGHITLNGIEAINTYSEIDDQDVVDF 230 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 67/256 (26%), Positives = 124/256 (48%), Gaps = 5/256 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K I +E F R++ ++ AGI SRRE +++I ++VNG ++ + V D I Sbjct: 5 MNQKKIEEEKF--IRLNHYLSNAGITSRREADKLIQSGLIEVNGKIVTKFGTVVHKNDVI 62 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + G ++ ++ + L + +T + ++ + R+ VGRLD T G Sbjct: 63 KFHGSRIKNKKKIYILLNKPKGYITSTRDPFNRKTVMNLIPNFQNYRIYPVGRLDRLTTG 122 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG + L P + ++Y V + + L+ +++G + G +++ Sbjct: 123 VLLLTNDGFITEKLTHPKYKIQKIYLVVLNKTIHYQDLDKIRQGKIYLNE--GRVKIDFL 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + N V +GL G NR I+++F+ ++V +L RI +G F L GS +SK+ Sbjct: 181 HKYAKN-IVKIGLHIGWNRVIRRIFKKLTYQVIKLERIHFGGFTNKNLKIGSWCFLSKQE 239 Query: 241 LREQLGPHLLEEAQVN 256 + + E+ + N Sbjct: 240 VDHTVKNLFHEKNKHN 255 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 69/238 (28%), Positives = 112/238 (47%), Gaps = 1/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K N R++K I+ +GI SRRE + I+ V VNG ++ V TD + D Sbjct: 50 KQKTSSNPNEIRLNKYISNSGICSRREADMHISVGSVTVNGKVVTEMGYKVQLTDEVRFD 109 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G + + T + L LVTT + ++ + + +R++ VGRL+ T GLLL Sbjct: 110 GRIINPEKATYILLNKPKGFLVTTKDEKGRKTVMDLVATATTARIVPVGRLERQTTGLLL 169 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 TNDG LAR L P +++ V + Q N +K G+ I+G YG +++ Q Sbjct: 170 FTNDGELARKLTDPHQNVRKIFHVELDRNLSQTDFNKIKDGVNIRGDIYGVDEISWI-QG 228 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 S V + + G N +K +FE ++ V RL R+ + L R ++ + + Sbjct: 229 ASKREVGIKVSTGSNGLVKAIFEHLSYTVARLDRVVFAGLTKKDLPRSHWRHLTAQEV 286 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 99/233 (42%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K + G+ +R +V+ ++ ++ + VN + A ++ D + G PL Sbjct: 2 MRLDKFLVATGVGTRSQVKLLLKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLVYESF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 62 VYYLLNKPSGYVSATQDRQQATVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVT 190 L P + Y + G + + + +GI ++ + + + + V Sbjct: 122 DLLSPKKHVTKEYLAKVVGIMTEADKDYFARGISLKDHQCLPAHLEVLASDLQQRTSLVK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + ++EGK ++K++ V L R+S GP +L +L G R ++ + L+ Sbjct: 182 ITIQEGKFHQVKRMVAACGKGVLDLQRLSMGPLKLDPSLAEGEFRRLTPEELQ 234 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 75/256 (29%), Positives = 128/256 (50%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G SRRE+E IA V+VNG + V D + Sbjct: 105 LKERRSDLSRQEPERLQKVLAASGAGSRREMEEWIAAGLVQVNGKTAQ-LGDKVTPDDQV 163 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G P++ RL Y + +V+ S + SR +++GRLDI Sbjct: 164 TVKGSPIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 223 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDM 175 NT GLL+LT G L + PS + R Y VR G++ +++ L +G+++ Sbjct: 224 NTSGLLILTTSGELVQRFAHPSFEVEREYAVRVLGELTAEQMRELTTEGVMLDDGLAKVE 283 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G+N W +V ++EG+NRE++++FE F V+RL+R+ +GP L L G Sbjct: 284 RIFEQGGEGANKWYSVVIKEGRNREVRRIFEHFGLTVSRLVRVGFGPIGLPNRLKRGQFY 343 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 344 ELNPAEVANIVKWADM 359 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 78/265 (29%), Positives = 125/265 (47%), Gaps = 12/265 (4%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++N QR+ K +A G+ SRR++E I + R+KV+G + + + + +DG PL Sbjct: 3 KKNDDAQRIQKYLAARGVGSRRQIETWIKEGRLKVDGRVA-ELGQKISGNERLSLDGKPL 61 Query: 68 R-----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 R K L + + T S R +++GRLD+NT GLL Sbjct: 62 RIAVEHKNPHMILMYHKPAGEICTRKDPEGRVSVFQHLPKISHGRWVAIGRLDLNTSGLL 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-----DMQV 177 L TNDG LA L PS + R Y VR G+V ++ L L++GI + ++ Sbjct: 122 LFTNDGALANQLMHPSAEIEREYWVRVAGEVTEEMLTALRQGIPLDDGLARFTEICPLKT 181 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 + N + +V L+EG+NRE+++++E KV+RL RI YG L +L AG R + Sbjct: 182 LHEDDTQFNRYFSVTLKEGRNREVRRLWEAVGCKVSRLKRIRYGTISLPPSLSAGRHRLL 241 Query: 237 SKKILREQLGPHLLEEAQVNLDAPI 261 + + + + N P Sbjct: 242 TAGEQASLISLVSEKNRRDNSPKPR 266 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 93/283 (32%), Positives = 134/283 (47%), Gaps = 10/283 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIE 61 + + +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V S + Sbjct: 66 KNTVKKPKVEGEKLQKVLARAGQGSRREIEAMIAENRVSVDGKMATLGDRIDVRSGVKVR 125 Query: 62 VDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +DG + L Y L T H + SR I+VGRLDI Sbjct: 126 IDGHIVNLMHAQKEVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGSRWIAVGRLDI 185 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLLL T DG LA L PS + R Y VR GQVD LN LKKG+ ++ + Sbjct: 186 NTSGLLLFTTDGELANRLMHPSREVEREYSVRVFGQVDDAMLNRLKKGVQLEDGPANFKE 245 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 + G N W V L EG+NRE+++++E +V+RLIR YG L +L G E Sbjct: 246 IKFAGGVGMNQWFDVTLMEGRNREVRRLWESQGVQVSRLIRTRYGNISLMKSLPRGGWEE 305 Query: 236 VSK---KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII 275 + LRE +G E ++++ P ++T + Sbjct: 306 MDLTNVNYLRELVGLPPEMETKLDVTKPRRRAKTSQIRKAVKR 348 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 64/236 (27%), Positives = 116/236 (49%), Gaps = 3/236 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN R++K +A G+ASRR+++ I + ++ VNGIL V + D I V+G Sbjct: 1 MEENK--IRINKFLASKGVASRRQIDLWIEEGKILVNGILATS-GQKVSAEDKILVNGKM 57 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + E +++ V + + + +R+ VGRLD T GL+LLTN Sbjct: 58 ISEKEEKKVYYILYKEEEVLSAVKDERGRKTVVDCIPTKARIFPVGRLDYRTSGLILLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L + P + + Y V G + +++L L++G+ ++ + V + N Sbjct: 118 DGELFNRVMHPRAEIFKTYEVLAKGHLTREQLKTLEEGVELEEGKTLEALVAKVKYEKGN 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + +REG+NR+I+++ E +V RL R G L L G R + ++ + Sbjct: 178 TFFEISIREGRNRQIRRMVEAVGSRVYRLRRTKIGRLSLEGLKLGQYRRLQEEEIE 233 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 64/241 (26%), Positives = 106/241 (43%), Gaps = 10/241 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IA G SRRE +R+I ++RV VNG+ AV V + D + VDG PLR E Sbjct: 15 TIRLNKYIAETGFCSRREADRLIGERRVTVNGVPAGTGAV-VGAEDTVLVDGQPLRIREA 73 Query: 73 TRL-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +L + T + R+ +GRLD ++EGL+L+T++ Sbjct: 74 KKLGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILMTSN 133 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y V + V + L + +G+ I + + G Sbjct: 134 GNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG--- 190 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 191 -FRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQ 249 Query: 248 H 248 Sbjct: 250 R 250 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 77/236 (32%), Positives = 117/236 (49%), Gaps = 4/236 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + R+ KV+A+AG+ASRR E +I RV+VNG ++ + V D I VDGV + Sbjct: 77 STEGIRLQKVLAQAGVASRRHAEILIDAGRVEVNGKIVMTQGMRVNPNVDVIRVDGVRVN 136 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLT 125 E + ++ +KP GL +T SD GR V D + R+ VGRLD TEGLLLLT Sbjct: 137 VNENLQYFVLNKPRGLQSTMSDDMGRPCVGDIVGERISAGQRLFHVGRLDAATEGLLLLT 196 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG LA L P + + Y G+ D+ + L+ GI + V + Sbjct: 197 NDGELANRLMHPRYEVSKTYLATVLGEADKRLVKQLRDGIELDDGPAKADLVQIIDTFQG 256 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + L EG+ ++++ + + V RL+R QLG G+ R ++ L Sbjct: 257 KSLIRIELHEGRKHIVRRMLKTAGFPVQRLVRTKIHTIQLGEQTPGAIRALNSSEL 312 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 55/234 (23%), Positives = 95/234 (40%), Gaps = 2/234 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ R++K ++ AG+ SRRE + I V VNG ++ V TD ++ DG + Sbjct: 17 EKPSETVRLNKFLSNAGLCSRREADSHIEMGLVHVNGKIITEMGYQVKPTDEVKFDGARV 76 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ L L + T+ +S ++ + V +VG + GLL TND Sbjct: 77 QQTPPVYLLLNKPKGFVATSQGGKIVKSVQDLIRSAVKTPVPAVGDMGRPMTGLLFFTND 136 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 L + L + +Y+V V D + LK+G ++ + S Sbjct: 137 EVLRKKLNNSKS-IPMIYQVLLDKNVTTDMMRQLKEGQMVFEKM-QKINEVSHMDGKSKK 194 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + I K+F KV L RI+Y L G+ R ++ K + Sbjct: 195 EVGIEVHSLSPAIIVKLFAAVGCKVVLLDRITYAGLTKKELPRGNWRRLNTKEV 248 >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 = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 63/226 (27%), Positives = 110/226 (48%), Gaps = 7/226 (3%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 K++++AG+ SRRE E++I +++VKVNG + D I V+ P+ + E + Sbjct: 2 QKILSQAGVCSRREAEKLILEKKVKVNGQIAT-LGTKASFEDEILVNNKPITQREELVYF 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + +KP V + +L ++ VGRLD +T G+LLLTNDG L+ +L Sbjct: 61 VLNKPKNTVC-TLKDNFNRVKVTDLIDTDKKIFPVGRLDYDTTGVLLLTNDGKLSNLLTH 119 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 PS++ R+YR R + ++ +L K ++I + T + V L +G Sbjct: 120 PSSEIKRIYRARISAPLTDKEMEILSKPVIINNQ-----RSTQEIYPADTKSYYVVLHQG 174 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +KK+FE + KV L R+ + + + G R ++ L+ Sbjct: 175 SYHHVKKLFELVDKKVLDLNRVEFANITVKNMQKGQYRRLTLHELK 220 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 49/231 (21%), Positives = 95/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A SR ++ I V +G++++ A V + G L Sbjct: 1 MRLDKYLAETTALSRGLAKKAINSGDVSCDGVVMKDPAFKVPQGARVCFQGEVLALVGVR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L+ + +T + ++ I+ GRLD +T GL+L+T+DG + Sbjct: 61 YLMLHKPVDTICSTQDEYYPSVLSLLDIARPDKLHIA-GRLDADTTGLVLITDDGLWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + YRV+ + D + +G+ + + ++ L S+ + Sbjct: 120 VTSPKRDCAKRYRVQLAESLTDDLIAQFAEGVQLNGEDGLTKPAKLELL----SDTEALL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F KV L R + G +L L G R +++ + Sbjct: 176 SITEGKYHQVKRMFAAVGNKVIGLHREAVGAIELDPQLAPGEWRYLTEAEI 226 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 71/252 (28%), Positives = 114/252 (45%), Gaps = 22/252 (8%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K +A AG +R EV++ I + +V+VNG ++ + V D + + G + A Sbjct: 3 KAVRLDKFLADAGKGTRSEVKKFIQKGQVQVNGAPAKKPELKVDPEKDTVILSGETVGVA 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP G V+ + TV + +PS + VGRLD +TEGLLL+T+DG L Sbjct: 63 PEFVYYLLNKPAGCVSAT-EDRNDRTVMEYVPSDRKGIFPVGRLDKDTEGLLLITDDGML 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQK------ 183 A L P + Y VR G++ +K+ L+ G+ I +V + Sbjct: 122 AHELLAPGKHVDKTYFVRVEGKLTVEKIEKLENGVDIGEKKLTMPAKVEIVGGSWEGAGE 181 Query: 184 ------------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 + + + EGK ++K++ E V L RIS GP L L Sbjct: 182 PEPGRVRRENLPEVYTELHLTIHEGKFHQVKRMMEAVGTPVIYLKRISMGPLILPDDLKK 241 Query: 231 GSTREVSKKILR 242 G R ++ + LR Sbjct: 242 GECRSLTDEELR 253 >gi|71893518|ref|YP_278964.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae J] Length = 237 Score = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 110/229 (48%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ G+ SRR+ E++I Q R+K+N + + D IE+D + K Sbjct: 1 MRINKFLSEMGVCSRRQSEKLILQGRIKINNETAK-IGQIISQNDVIELDQQKITKKPPI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP +T+ DP+ R T+ + + VGRLD T GL+L+TNDG Sbjct: 60 FWYALNKPKNYITSRFDPENRPTIMEFFSKN-EYLFPVGRLDFQTTGLILITNDGKTTNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS++ R Y V+ + ++ L + + +K S+ V + Sbjct: 119 LLHPSSKIERTYLVKTDFSLSDKEIRFLNDNKIQLDSV----KSIQKIKKCSSRTYLVTV 174 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G N IKK+F + KV +L R+S+ +L + G R+++ + ++ Sbjct: 175 WQGSNHHIKKLFLSISKKVLKLKRVSFANIKLDNISEGKYRKLTNQEIK 223 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 82/286 (28%), Positives = 133/286 (46%), Gaps = 10/286 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG+ SRRE+E+ I RV VNG + + V TD I VDG ++ E Sbjct: 5 QGEKLQKVLARAGVGSRREMEKYIDANRVSVNGKVAK-LGDRVEETDSIRVDGHTVKIEE 63 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + L T R+ R I+VGRLDINT GL+L TN Sbjct: 64 KADRICRVIMYNKPEGELSTRKDPEGRRTVFDRLPRIDGERWIAVGRLDINTAGLMLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y R G+V ++ + L +G+ ++ + V +G N Sbjct: 124 DGELANRLMHPSYEVEREYSARVFGEVTKETIKNLTRGVELEDGPAKFLTVNPMGGEGIN 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV---SKKILR 242 W V L EG+NRE++++++ +V+RLIRI YG +L + G E + LR Sbjct: 184 RWYNVTLNEGRNREVRRLWQSQEVEVSRLIRIRYGKLELDKRVPQGGWIEYDLDTVNYLR 243 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 + + + ++++ + ++ + + + K Sbjct: 244 KTVKLGRETQTKLSVMPEKRKDKRAKINQIRKAVKKHNQRVKPTKR 289 >gi|304405744|ref|ZP_07387402.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] gi|304344987|gb|EFM10823.1| pseudouridine synthase [Paenibacillus curdlanolyticus YK9] Length = 235 Score = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 109/233 (46%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ G SRRE ++++ + RV +NGI+ + D + ++G + + R Sbjct: 1 MRINKFISETGFCSRREADKLVDEGRVTINGIVAQ-LGSQAEQGDDVRINGKRIGASRRH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +KP+G+ +T + R+ +GRLD ++EGL+L+TNDG + Sbjct: 60 VYIALNKPVGITSTTESQI--KGNIVDFVGHSERIFPIGRLDKDSEGLILMTNDGDIVNR 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V V + + +G+ I G QVT + + L Sbjct: 118 ILRAEGKHEKEYIVTVDRPVTPMFIKGMSEGVRILGTMTLPCQVTRI----AERIFKIVL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 EGKNR+I+++ E F ++V RL R+ LG L G R++ + L E Sbjct: 174 TEGKNRQIRRMCEVFGYRVVRLRRVRIMNIHLGDLANGRWRDLHQDELDELFR 226 >gi|254804685|ref|YP_003082906.1| pseudouridylate synthase [Neisseria meningitidis alpha14] gi|254668227|emb|CBA05021.1| pseudouridylate synthase [Neisseria meningitidis alpha14] Length = 252 Score = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 68/255 (26%), Positives = 108/255 (42%), Gaps = 20/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M K R+SK +A+ G+ SRRE + I Q V VNG V D I Sbjct: 1 MNPKTPPDHTEDAVRLSKRMAQLGLCSRREADGYIEQGWVTVNGKTA-VLGQKVSPADRI 59 Query: 61 EVD---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ P+ Y L+T+ + + ++ P Sbjct: 60 ELNKKAHEQQAARITILLNKPVGYVSAQAEKGYKSAAELITSENRWESDTSRIRFDPKHK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ Sbjct: 120 IGLAPAGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGL 179 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G QV + + L++GK R+I+++ E +V L RI G +L Sbjct: 180 SLDGEKLRPAQVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKL 235 Query: 226 GTLLAGSTREVSKKI 240 G L G R ++ Sbjct: 236 GRLPLGKWRYLAPGE 250 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 105/234 (44%), Gaps = 5/234 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K + +R E +MI Q RV ++++ V D I DG L Sbjct: 2 KTLRLDKFLCDVLGCTRSEARKMIRQGRVLAGDEIIKKPEYKVNPEEDEITADGQRLNFR 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L + +VT D ++ + + GRLD +TEGLLL+TNDG L Sbjct: 62 KYEYLMMNKPKG-VVTATKDGRDKTVMDLLTGRHRKGLFPAGRLDKDTEGLLLITNDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A L P + Y V G++ +++ + + G+ I ++ + T G + Sbjct: 121 AHRLLSPKHHVTKCYSVTVTGEIGREQQEIFESGMDIGDDKPLKPAKLVILT-SGEVSQA 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V + EG+ +IK++FE KV L R+S G L LL G RE++++ ++ Sbjct: 180 EVFITEGRFHQIKRMFEAVGSKVLELKRLSMGSLVLDPELLPGQVRELTEEEIK 233 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 55/221 (24%), Positives = 95/221 (42%), Gaps = 5/221 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + ++ + + G+ I G +K + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTV----TKKCKVKKEAPFVFR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + L +G NR+I+++ E F ++V +L R L + G Sbjct: 179 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLG 219 >gi|149198178|ref|ZP_01875225.1| RsuA protein [Lentisphaera araneosa HTCC2155] gi|149138780|gb|EDM27186.1| RsuA protein [Lentisphaera araneosa HTCC2155] Length = 239 Score = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 51/240 (21%), Positives = 97/240 (40%), Gaps = 8/240 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGV 65 + + R+ K+IA+ +R E R + VKVN I + + + D + DG Sbjct: 1 MAKIKAKIRLDKMIAKCTDLTRSEATRALKNGFVKVNDIPQKVGKSTIDLANDVVTFDGE 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L E L + + S GRLDI+T GL++LT Sbjct: 61 VLEYRETIYFMLNKPKGYVCAAKDERLKTVLDLLPPALASREPFSCGRLDIDTTGLVILT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQK 183 +DG A + P + + Y V ++ + + L++G+ + ++ +K Sbjct: 121 DDGTWAHGITSPKRKCEKSYLVGSVSELSDEDMRNLEQGVYLDGDDKITAPAKI----EK 176 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + + EG+ ++K++FE + V L R G L L G+ R+++ + ++ Sbjct: 177 IDEKTYRLKITEGRYHQVKRMFEAVDNMVKSLHREQIGGLSLDDDLDEGNWRDLTAEEVK 236 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 101/231 (43%), Gaps = 13/231 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++++ G SR+E ++ RV V G + A V + + VDG PL E Sbjct: 41 RLDQLLSNLGYCSRKEARYLLKDNRVTVAGEYAKSPAQKVDA-ATVRVDGEPLDFPEGIL 99 Query: 75 LWLYHKPIGLVTTH--SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + + + +++SVGRLD +T GL+L+T+D L Sbjct: 100 VMLNKPLGYVCSHDSGEGMRIYDLLPERWEFRNPKIVSVGRLDKDTTGLILVTDDTKLVH 159 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVT 190 L P ++Y+V + + D + KG+V+ +V + ++ +N Sbjct: 160 QLTSPKHHVDKLYKVTVNSPLQPDIIEAFAKGVVLGDGAEQCLPAKVEIISENMAN---- 215 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG----TLLAGSTREVS 237 V L EGK +++++F + V L R +GP+ L L G + V Sbjct: 216 VTLNEGKYHQVRRMFAACGYHVEALHRSQFGPYSLHDLGQDLPQGDWQVVD 266 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 99/232 (42%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +RRE ++ + V VN ++ + ++ V +E G L Sbjct: 1 MRLDKFLCDALGVTRREATHLLKSKAVTVNDVIQKSGSLKVTEECVVEWQGNELNVHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + R+ ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDG-SNRTAFELLDEIKMDKLHFAGRLDVDTTGLVLMTDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + ++YRV V+ D + K+GI + + + + + V + Sbjct: 120 ITSPKHKCEKMYRVWLVEPVEDDYVEKFKEGIQLKSEDGLTLPAHLEV----RAEREVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV L R G ++ L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVEALHRERIGEIEMDESLELGEYRYLTQEEVD 227 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 99/232 (42%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +RRE ++ + V VN ++ + ++ V +E G L Sbjct: 17 MRLDKFLCDALGVTRREATHLLKSKAVTVNDVIQKSGSLKVTEECVVEWQGNELNVHGPR 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + R+ ++ GRLD++T GL+L+T+DG + Sbjct: 77 YIMLYKPEGFVCSHEDG-SNRTAFELLDEIKMDKLHFAGRLDVDTTGLVLMTDDGKWSHR 135 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + ++YRV V+ D + K+GI + + + + + V + Sbjct: 136 ITSPKHKCEKMYRVWLVEPVEDDYVEKFKEGIQLKSEDGLTLPAHLEV----RAEREVLL 191 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV L R G ++ L G R ++++ + Sbjct: 192 TIHEGKYHQVKRMFAALGNKVEALHRERIGEIEMDESLELGEYRYLTQEEVD 243 >gi|297170719|gb|ADI21742.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [uncultured actinobacterium HF0130_15N16] Length = 239 Score = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 78/236 (33%), Positives = 126/236 (53%), Gaps = 6/236 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + E +R+ K ++RAG+ASRR E MI RV +N + V TD IE+DG+P Sbjct: 1 MTEEEPLERLQKALSRAGVASRRVSEGMIEAGRVTINRRVATV-GDRVSVTDRIELDGIP 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + +L +KP+G+V+T DP R TV +L S R+ VGRLD ++EGL++LTN Sbjct: 60 VIRDPDLVHYLLNKPVGVVSTSKDPQKRRTV-VDLVSSNERIFPVGRLDADSEGLIILTN 118 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L L PS + Y V G + L LL++G+ ++ C V + Sbjct: 119 DGELTHRLTHPSFGVSKEYLVHVEGVPSRSSLRLLREGVELEDGCTAPANVAMPQDG--- 175 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + + EG+NR+++++ V RL+R+ G + +L G+ R +S + +R Sbjct: 176 -VMRITIHEGRNRQVRRMCAAIGHPVQRLVRVRIGSIKDPSLRVGTARRLSVEEVR 230 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 80/290 (27%), Positives = 127/290 (43%), Gaps = 7/290 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV V+G + V + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEIA-SLGDRVETDAKIRIDGRTVSIRSE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + + + 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 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKSLPRGGWIELPIEQVNYLRK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 ++E ++ S + R I S Sbjct: 241 TAGMDEETRSILGTDKHSVARNKVRSAKIKRAVHKHKVASGRPKPSRQRS 290 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 66/241 (27%), Positives = 111/241 (46%), Gaps = 2/241 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 + K+ + R+++ I+ AGI SRR+ + +I V VNG ++ V D I Sbjct: 270 RKKSTTDADKGKIRLNRYISNAGICSRRKADELIVAGVVSVNGQVISELGFKVDPYKDEI 329 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +G L++ + + L + TT + R+ + + R+ +GRLD NT G Sbjct: 330 RYNGETLKREKMVYVLLNKPKDYITTTEDPQERRTVMHLVDKASKERIYPIGRLDRNTTG 389 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL+TNDG LA L P + ++Y V + Q LN + GI ++ V+ Sbjct: 390 LLLMTNDGDLADKLSHPKSNISKLYHVELDKSLSQGDLNKIAYGIELEDGLIKPDSVSYV 449 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 Q S V + + GKNR ++++FE + V +L R Y L G R + ++ Sbjct: 450 -QGASKREVGIQIHSGKNRVVRRIFESLGYDVVKLDRAIYAGLTKKDLPRGRWRYLEEQE 508 Query: 241 L 241 + Sbjct: 509 V 509 >gi|166710887|ref|ZP_02242094.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 245 Score = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 65/243 (26%), Positives = 111/243 (45%), Gaps = 7/243 (2%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERTRLWL 77 +++ G+ SR E R IA RV V+ ++ + + I VDG PL R L L Sbjct: 2 LSKLGVCSRTEAARWIADGRVSVSTRVVRDPEFPIRADQQSSITVDGQPLTGPARCYLML 61 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + T + + + + VGRLD +EGLLL +ND A + P Sbjct: 62 NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAATVTDP 121 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAWVTVG 192 +T + Y V+ + +L L+ G+V +G+ QV++ + NAW+ + Sbjct: 122 ATGPDKTYHVQIDCLPNVAQLAQLQAGVVDPDPEGEGVLLRAKQVSVLREGERNAWLEIV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R + Sbjct: 182 LDEGRNRQIRRLLAAVDIGVLRLMRVAIGPLAMGELGKGAWRMLSAEEVRALVPAAHASA 241 Query: 253 AQV 255 Sbjct: 242 PDA 244 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 61/229 (26%), Positives = 104/229 (45%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR+EV+ ++ ++++VNG+ + + D + L E Sbjct: 1 MRIDKFLVECGVGSRKEVKELLKSRKIRVNGLFITSPKETIEEEKDEVYYGEKKLSYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ K + + I + VGRLD +TEGLLL TNDG L Sbjct: 61 RYYILHKKAGYVTALEDSREATVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y + ++ L L++G++I + +K + + + Sbjct: 121 RLLSPKSHVDKTYHASLECDITEEALEKLREGVMIGEYKTLPAKA----EKLEDRKIALT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +REGK ++KK+ E KV L RIS+G LG L G+ +EVS + + Sbjct: 177 IREGKFHQVKKMLEAVGNKVIYLKRISFGKLVLGDLELGAVKEVSLEDI 225 >gi|170696462|ref|ZP_02887588.1| pseudouridine synthase [Burkholderia graminis C4D1M] gi|170138615|gb|EDT06817.1| pseudouridine synthase [Burkholderia graminis C4D1M] Length = 639 Score = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 76/273 (27%), Positives = 123/273 (45%), Gaps = 6/273 (2%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++ + ++ KV+A AG+ SRR++E +I RV VNG +M TD + ++ Sbjct: 213 KRVLSADDDAPKLHKVLAEAGMGSRRDMEELIVAGRVSVNGEPA-HIGQRIMPTDQVRIN 271 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 G P+++ L + +V+ S P ++ ++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 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 +R + L+ + E D Sbjct: 452 NQVRALMASVGLKAPSEERGGRNAAPERKQPDP 484 >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 = 154 bits (390), Expect = 1e-35, Method: Composition-based stats. Identities = 60/219 (27%), Positives = 100/219 (45%), Gaps = 7/219 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 T R++K IA AG+ SR++ R+I + V VN +V D I V+G ++ A Sbjct: 2 STKIRLAKYIAHAGVCSRKQASRLIDEGVVTVNNRPANHID-HVDEQDDIIVNGQVVKGA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + YHKP+G+ + + +RV +GRLD ++ GLL+LTNDG Sbjct: 61 ADLVYFAYHKPVGIDCK--LNENDPASLIHHLPTLTRVYPIGRLDKDSRGLLILTNDGDF 118 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V ++ + GI + +VT K ++ + Sbjct: 119 CNQLIHPDFHQPKRYLVTVDKPINNAFCEKMAAGIPVDKQITLPCEVT----KIADNQFS 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + L++G NR+I+K+ + +KV L R+ + L L Sbjct: 175 IILKQGLNRQIRKMAHYCGFKVIDLFRVQFSELALSNLN 213 >gi|301156161|emb|CBW15632.1| 23S rRNA pseudouridylate synthase [Haemophilus parainfluenzae T3T1] Length = 336 Score = 154 bits (390), Expect = 2e-35, Method: Composition-based stats. Identities = 90/278 (32%), Positives = 133/278 (47%), Gaps = 10/278 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVP 66 Q +++ KV+ARAG SRRE+E MIA+ RV V+G + ++V S + +DG Sbjct: 49 QSTVEGEKLQKVLARAGQGSRREIEAMIAENRVSVDGKMATLGDRIDVHSGVKVRIDGRI 108 Query: 67 LRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + + L Y L T + +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-GTLLAGSTREVSKK- 239 G N W V L EG+NRE+++++E +V+RLIRI YG +L L G E+ + Sbjct: 229 GVGINQWYDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKGLPRGGWEEMDLEN 288 Query: 240 --ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII 275 LRE +G E ++++ P ++ + Sbjct: 289 VNYLRELVGLPPETETKLDVTKPRRRPKSGQIRKAVKR 326 >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 = 154 bits (390), Expect = 2e-35, Method: Composition-based stats. Identities = 77/239 (32%), Positives = 115/239 (48%), Gaps = 3/239 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 QR+ K+IA AG+ SRR E ++ Q R++VNG D I VDG PL + R Sbjct: 3 SQRLQKLIAAAGVCSRRHAEELLRQGRIQVNGAAARLGDSADPDRDSIAVDGRPLDRPAR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDGG 129 L L +KP+G++ + SDP GR TV D LP + +GRLD ++ G LLLTN G Sbjct: 63 PVLLLLNKPLGVLCSCSDPQGRPTVLDLLPPELRQGQGLHPIGRLDADSRGALLLTNQGD 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P ++YRV G L G+ + G+ + V + + + Sbjct: 123 LTLRLTHPRYGHRKLYRVWVSGTPSATTLERWAAGVPLDGVASQPVDVRVLQRGKRGTRL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + EG+NR+I++ V L R+ GP +LG+L G R + + + P Sbjct: 183 ELAMGEGRNRQIRRTAALLGHPVLDLQRVGIGPLRLGSLAEGCWRALDHQEWQALADPP 241 >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 = 154 bits (390), Expect = 2e-35, Method: Composition-based stats. Identities = 55/226 (24%), Positives = 99/226 (43%), Gaps = 2/226 (0%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRL 75 K++ +A I SR EV++MI Q+V ++G + + + NV + + VDG + Sbjct: 2 DKLLEKARIGSRTEVKKMIKNQKVVLDGKIAQSISQNVDTGFQELIVDGKKIEGYSHHYF 61 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++ + + VGRLD +TEGL+L+T++G L + Sbjct: 62 LIHKPAGYVTARLDQNHPTLFDLLKPEDRVEGLYPVGRLDRDTEGLVLVTDNGPLGFRML 121 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS + Y V +G + +D + GI + G + + + + + + + Sbjct: 122 HPSHHVEKTYYVEVNGFLGEDAPLFFRSGIVFLDGTVCKPAVLEVINCQQNLSKAYLTIS 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EGK ++KK+F + KV L R+S+ LG L G R + Sbjct: 182 EGKFHQVKKMFLSYGLKVTYLRRVSFAGLSLGNLPLGKYRPLDWNE 227 >gi|40062484|gb|AAR37436.1| RNA pseudouridylate synthase, putative [uncultured marine bacterium 105] Length = 255 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 85/248 (34%), Positives = 123/248 (49%), Gaps = 5/248 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ KV+A AGI+SRR ER+I RV VNG + + D I VDG ++ Sbjct: 6 VRLQKVLASAGISSRRAAERLIEVGRVTVNGRSVTKLGAKADPDLDDIRVDGRKVKTGRP 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L KP G VTT DP+GR T+ + + ++ V VGRLD ++EGL++LTNDG LA Sbjct: 66 RIYLLVCKPRGYVTTRFDPEGRRTILNLISNVREYVYPVGRLDYDSEGLVILTNDGTLAA 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT----QKGSNAW 188 L P RVY VR G Q ++ L+ G++I G V + NA Sbjct: 126 RLTHPRYGVERVYEVRVRGVPSQAAIDSLRHGVLINGRRTASSSVKFLRRLKAKSSENAL 185 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + V +REG+NR+++K+ E V RL R GP + +L G R ++ + + Sbjct: 186 LRVAIREGRNRQVRKMCEAIGHPVIRLRRTQIGPLRDSSLKVGKHRLLTTSEVAALMRAS 245 Query: 249 LLEEAQVN 256 + Q Sbjct: 246 EVSHPQDK 253 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 102/230 (44%), Gaps = 1/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 T QR+ K+IA AG+ SRR E I RVKV+G + + I VDG PL Sbjct: 2 TRQRLQKLIAAAGLCSRRTAEDWIDAGRVKVDGRISSLGDQADPESQLIHVDGRPLSFRG 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T L + + T + + + + VGRLD ++ G LLLT+ G L Sbjct: 62 EPTVLLINKPAGVISTCRDPRGRSTVLDLLPQQLRQGLHPVGRLDADSRGALLLTDYGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + YRV G L ++G+ + G +V + ++ + Sbjct: 122 TLRLTHPRYDHAKTYRVWVEGTPLDTSLQRWRQGVTLDGTRTRSAEVRVLQRRSDRTLLE 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V L EG+NR+I++V E V L R++ +LG L G R +S+ Sbjct: 182 VVLLEGRNRQIRRVAELLGHPVVDLQRVAIAGLRLGALPEGRWRRLSRGE 231 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 90/284 (31%), Positives = 139/284 (48%), Gaps = 10/284 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E +IA+ RV V+G + +NV + + +DG + Sbjct: 39 EGEKLQKVLARAGQGSRREIEAIIAENRVSVDGKIATLGDRINVYAGVKLRIDGHLINLT 98 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + Y L T H + +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-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ L + Sbjct: 219 NQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEM---ELADV 275 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 L + + +++T + + I + ++ + K Sbjct: 276 NYLRELVGLPPETETKLGANKTRHKPKFGQIRKAVKRYSELNKR 319 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 64/240 (26%), Positives = 109/240 (45%), Gaps = 11/240 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + I +R++++ + R VNG ++ R ++V D I DG LR ++ Sbjct: 1 MRLDKFLGLFDIGTRKQIKEYLKNGRCSVNGEVVTRPDIHVDENNDEISFDGKTLRYSKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY +V+ +D + + + GRLDI+TEGLLLLT+DGGL Sbjct: 61 HYYMLYKPQG-VVSATTDGRNTTVLDLLQEENVKGLSPAGRLDIDTEGLLLLTDDGGLIH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-------YGDMQVTLDTQKGS 185 L P +VY V + + L+KG+ I +V + Sbjct: 120 RLLSPKKHVDKVYEVHLRKDLSDKDIESLEKGVNIGDTKDNGEIDYTLPARVVRMDEDDE 179 Query: 186 NA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 N V + + EG+ ++K++ E +V L R+S GP L L G R+++++ L++ Sbjct: 180 NRPVVHLIIHEGRFHQVKRMMEAVGNEVLFLKRLSMGPLILDETLEPGEYRQLTQEELKQ 239 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 80/290 (27%), Positives = 126/290 (43%), Gaps = 7/290 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV V+G + V + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSVDGEI-SGLGDRVEADAKIRIDGRAVSLKSA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + +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-GTLLAGSTREVSKKILREQLG 246 W V LREG+NRE+++++E + +V+RLIR+ YG +L TL G E+ + Sbjct: 181 WWHVTLREGRNREVRRLWESQDVQVSRLIRVRYGKVELPKTLPRGGWIELPMDQVNYLRQ 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 LE ++ S + + I + + S Sbjct: 241 LAGLEAETRSVLGSDKHSVARSKVKSAKIRRAVHKHKVVGNHGKPTRQRS 290 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 78/287 (27%), Positives = 129/287 (44%), Gaps = 7/287 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+ARAG SRRE+E IA R+ ++G + + + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-NLGDRIEADVKIRIDGRTVSIKSE 60 Query: 73 TRLWL-----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + + 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 WWHVTLAEGRNREVRRLWESQEVQVSRLIRIRYGKIELPKSLPRGGWVELTMEQVNYLRK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 L E + S + + + I + +K Sbjct: 241 TAGLNEETRTVLGTDKHSVARSKVKGSKIRRAVRKHKAVASKPGRKR 287 >gi|144227495|gb|AAZ44253.2| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyopneumoniae J] Length = 240 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 110/231 (47%), Gaps = 6/231 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K ++ G+ SRR+ E++I Q R+K+N + + D IE+D + K Sbjct: 2 KKIRINKFLSEMGVCSRRQSEKLILQGRIKINNETAK-IGQIISQNDVIELDQQKITKKP 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP +T+ DP+ R T+ + + VGRLD T GL+L+TNDG Sbjct: 61 PIFWYALNKPKNYITSRFDPENRPTIMEFFSKN-EYLFPVGRLDFQTTGLILITNDGKTT 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS++ R Y V+ + ++ L + + +K S+ V Sbjct: 120 NKLLHPSSKIERTYLVKTDFSLSDKEIRFLNDNKIQLDSV----KSIQKIKKCSSRTYLV 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G N IKK+F + KV +L R+S+ +L + G R+++ + ++ Sbjct: 176 TVWQGSNHHIKKLFLSISKKVLKLKRVSFANIKLDNISEGKYRKLTNQEIK 226 >gi|329297659|ref|ZP_08254995.1| 23S rRNA pseudouridylate synthase B [Plautia stali symbiont] Length = 292 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 89/295 (30%), Positives = 131/295 (44%), Gaps = 12/295 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV--MSTDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MI+ R+ V+G L + T I +DG + A Sbjct: 2 SEKLQKVLARAGHGSRREIEAMISAGRISVDGKLAT-LGDRIENDKTLKIRIDGHLVSIA 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T + + SR I+VGRLD+NT GL+L T Sbjct: 61 ESATEVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPRLRGSRWIAVGRLDVNTCGLMLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS R Y VR G+VD +K+ L KG+ ++ + +G Sbjct: 121 TDGELANRLMHPSRAVEREYAVRVFGEVDDEKVRQLSKGVQLEDGPAAFKTIKFSGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG NRE+++++E +V+RL+R+ YG QL L G E+ L Sbjct: 181 NQWYNVTLTEGCNREVRRLWEAVGVQVSRLMRVRYGDIQLPKGLPRGGWMEM---ELPAV 237 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 L + + R + N I + + NS ++N + Sbjct: 238 NYLRKLVGLPEETVTKVAVEKDRRRTKANQIRRAVKRHSAVSNNSPRRNSNKRGA 292 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 66/240 (27%), Positives = 103/240 (42%), Gaps = 18/240 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA----------AVNVMSTDHIEVD 63 R+++ +A G SRR R+I RV + L + + + VD Sbjct: 1 MRLAQYLALTGRCSRRAASRLIRNGRVSLGDRLAKHTDSIELIETPTGTQASLS--VCVD 58 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G PL W+++K + T +T +L R+ VGRLD ++ GLLL Sbjct: 59 GEPLPPIADKAYWIFNKA--VGTDCRLLAEDTTSLIHLLPRQPRLYPVGRLDKDSRGLLL 116 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG L + L PS + Y VR D D + + G+ + + QVT Q Sbjct: 117 LTNDGELTQRLMHPSFAHHKRYHVRLDRPFDDDFVVKMAAGVSYKDVTTQPCQVTRLGQD 176 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + KV L R++ LG L G R +++ L E Sbjct: 177 S----FEIVLTQGLNRQIRRMSKTLGHKVIDLKRVAIESLTLGDLPEGEMRPLTQAELDE 232 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 98/231 (42%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G+ SR+EV+++I +++VN + + + V D + G L Sbjct: 2 MRLDKFLATLGLGSRKEVKKLITSGQIQVNDVTVTKVNHGVDEDHDQVAYLGQELVYQAY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + T + L + VGRLDI+T GLLLLTN+G LA Sbjct: 62 YYVMLNKPDGLVSATEDKMHETVIDWVALDFDHVDLFPVGRLDIDTTGLLLLTNNGQLAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVT 190 L P + Y+ GQV + + GI ++ ++ + + Sbjct: 122 QLLSPKKHVAKTYQALVTGQVSEVDIAAFAAGIRLKDFTAQAAELEILDYDPDKDQSLTK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYG-PFQLGTLLAGSTREVSKKI 240 V + EGK ++K++F + +V L R+S G L G RE++ Sbjct: 182 VTIHEGKFHQVKRMFLARDHEVLHLHRVSMGPLDLDPDLDLGQYRELTAAE 232 >gi|330723277|gb|AEC45647.1| ribosomal large subunit pseudouridine synthase B [Mycoplasma hyorhinis MCLD] Length = 242 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 107/229 (46%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ K+I++ G SRR E++I Q RV VN L D I++D L+KAE Sbjct: 3 EKIQKLISQTGYCSRRNAEKLILQNRVFVNNQLAT-IGQKASFDDEIKIDNQILKKAEHI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T + + + + + VGRLD NT G++LLTNDG LA Sbjct: 62 YYAFYKPKRVVCTREDNFNRKKIIDFF--PKKEYLFPVGRLDFNTTGIILLTNDGELANK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P Q R Y V +G + +++N K ++ + +K + V L Sbjct: 120 LIHPKFQIERTYLVHTNGDLSDEQINFANKNVIKLNNE---INSRQIIKKKATNKYIVKL 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 ++G N +K++F+ F +V L R+ + L L G R+++ K ++ Sbjct: 177 KQGSNHHVKRLFDHFQIEVLDLKRVQFASINLANLSLGQYRKLTPKEIK 225 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 63/247 (25%), Positives = 104/247 (42%), Gaps = 8/247 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A GI +R+EV++ I Q +VKV+ +++ V + P+R Sbjct: 7 IRLDKYLADMGIGTRQEVKKHIRQGKVKVDAAVVKSPEYKVNEKESTVLYGDSPVRYEAF 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +++ D ++ V + GRLD +TEGLLL+TNDG LA Sbjct: 67 VYYMLNKPAG-VISATEDRREKTVVDLIKTKERKDLFPAGRLDKDTEGLLLITNDGKLAH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNAW 188 L P + Y R G V ++ +GI I + + G + Sbjct: 126 SLLSPKKHVDKTYYARVKGIVTEEDARAFAEGIDIGTSALPEWTRPAVLEII-SSGQESA 184 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 V + ++EGK ++K++F +V L R G L +L G R+++ + LR G Sbjct: 185 VRLTIQEGKFHQVKRMFLARGKEVVYLKRERMGGLVLDSSLKPGEYRKLTDEELRNIYGT 244 Query: 248 HLLEEAQ 254 E Sbjct: 245 DRHAEGH 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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 90/293 (30%), Positives = 134/293 (45%), Gaps = 12/293 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ KV+ARAG SRR +E MI Q+R+ ++G + V I +DG L Sbjct: 2 SEKLQKVLARAGHGSRRAIETMIMQRRISLDGKIAT-LGDRVDVRQSTKIRLDGRVLAIT 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E L Y L T H + SR ++VGRLD+NT GLLL T Sbjct: 61 ESNAAICRVLAYYKPEGELCTLHDPQGRPTVFDRLPKLRTSRWVAVGRLDVNTSGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L P + R Y VR GQ+D+DK+ L KGI ++ +++ +G Sbjct: 121 TDGELANRLMHPRHEVEREYAVRVFGQIDEDKIKQLNKGIQLEDGPASFHKISFQGGEGI 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+NRE+++++E + KVNRLIRI YG L L G E+ L+ Sbjct: 181 NQWYHVTLTEGRNREVRRLWEAVDVKVNRLIRIRYGDINLPKGLPRGGWTELD---LKAI 237 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 L + + + R + N I + K+ +++ + Sbjct: 238 NYLRELVSLPAETVSKLPVEQERRRMKANQIRRAVKRHSEKKRADTRQIKKRR 290 >gi|320106004|ref|YP_004181594.1| pseudouridine synthase [Terriglobus saanensis SP1PR4] gi|319924525|gb|ADV81600.1| pseudouridine synthase [Terriglobus saanensis SP1PR4] Length = 301 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 92/302 (30%), Positives = 138/302 (45%), Gaps = 20/302 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 M K ++ R+ K++A AGIASRR+ E +I + RV+VNG ++ DH Sbjct: 1 MAKKPELKAGPEGVRLQKILADAGIASRRKSEEVILEGRVQVNGKVVTELGTRANPEKDH 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----ISVGRLD 115 I VDG L+ E R +L +KP G VTT DP+ R T+ D L VGRLD Sbjct: 61 IRVDGKLLQGPEEHRYYLVNKPRGYVTTMHDPEKRPTIVDLLIKDGKMPDVRLYPVGRLD 120 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----- 170 N+EGLLL+TNDG LA L S + Y V+ GQ + ++ L++G++I+ Sbjct: 121 YNSEGLLLMTNDGELANALSKASNSVEKTYLVKVAGQPSEQAIDQLRRGVMIERGRLQET 180 Query: 171 --------CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 +V L G N W V L EG+NR+++K+FE + V ++ RI YG Sbjct: 181 QGARRNRVMTAPAKVKLVRA-GLNPWFEVSLTEGRNRQLRKMFEEIDHHVEKIRRIGYGA 239 Query: 223 FQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 L + G RE+ + ++ + P + T+ + Sbjct: 240 LVL-DVAPGEFRELKPGEVTALGRAATGKKVERRRTMPEAAKLTVPGKKTGSRKAYKRPR 298 Query: 283 TR 284 Sbjct: 299 KE 300 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 79/241 (32%), Positives = 116/241 (48%), Gaps = 8/241 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ ++ARAG+ASRR+ E +I Q V+VNG + V D +EV G + Sbjct: 2 KAMRLQALLARAGVASRRQAEVLIRQGLVRVNGEVA-HLGQKVGPDDLVEVAGRRVEWPR 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + HKP G TT SDP R TVF+ LP + +VGRLD +EGLLL TNDG L Sbjct: 61 ERLVLALHKPRGYTTTRSDPHARRTVFELLPEVPGLQ-AVGRLDRESEGLLLFTNDGELL 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQD-KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P +VYRV + L +G+ ++ + Sbjct: 120 FRLTHPRYGVKKVYRVWTERGTLPEAVCRKLVEGVALEDGPARALSCRPAQGGAI----- 174 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L EG+ RE++++ + + V RL+R+ GP +LG L G R +S + ++ L L Sbjct: 175 LTLGEGRKREVRRMLQAVGYPVKRLLRLQVGPIRLGNLPPGRWRRLSPEEVQALLKEVGL 234 Query: 251 E 251 E Sbjct: 235 E 235 >gi|222624207|gb|EEE58339.1| hypothetical protein OsJ_09447 [Oryza sativa Japonica Group] Length = 1194 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 66/238 (27%), Positives = 107/238 (44%), Gaps = 16/238 (6%) Query: 4 KNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 + EN PQR++KV+A AG+ASRR E +I Q +V VNG + V S D Sbjct: 65 RRFYNENIKEHEPQRLAKVLAAAGVASRRTCEELIFQGKVTVNGSVCTAPQTKVDISKDS 124 Query: 60 IEVDGVPLRKAERTRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--------I 109 I V+G + K +L+ + + S D L Sbjct: 125 IYVNGNRISKKLPPKLYFAVNKPKGYICSCGEPKSIISLFDDYLKGWNKIQPGVPKPRLF 184 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 +VGRLD+ T GL+++TNDG A+ L PS+ ++ Y V G V ++ L + +G I G Sbjct: 185 TVGRLDVATSGLIIITNDGEFAQKLSHPSSNIMKEYVVTIDGPVHRNHLIAISEGTKIDG 244 Query: 170 ICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + + + EG+N E++++ + +V L R+ G F+L Sbjct: 245 VKCIPDLVEPLDVQSNTKRTRIRIAVHEGRNHEVRELVQNAGLEVYALKRVRIGRFRL 302 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 100/232 (43%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K I++A SR+E ++++ + VN +++ +V+V D + G PL A Sbjct: 1 MRLDKFISKATELSRKEAKKVLHASEITVNDEVVKDGSVHVDVLNDEVMWAGEPLSVATG 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +R L HKP G T + S + GRLD++T G L+L++DG Sbjct: 61 SRYILLHKPEGFECTLKPKEYPIVTELIAVPELSNLRIAGRLDVDTTGALILSDDGSWLH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQD---KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P +VY + +D++ ++ Y + L + Sbjct: 121 RVTSPRHLHEKVYELTLADAMDEEAQAHAIKKVGQGILLDGDYEPTKPALL-EFIDETHA 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGK ++K++ +F KV L R S G L L G +R +++ + Sbjct: 180 RLILTEGKYHQVKRMMAYFGNKVVELHRASIGGITLEGLEKGDSRFLTEDEV 231 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 72/245 (29%), Positives = 120/245 (48%), Gaps = 6/245 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q++ KV+A+AG+ SRRE+E +IA +V +NG + + + D + V + Sbjct: 67 SPQPVTQKLHKVLAQAGLGSRREMEELIASGQVTINGKTAQV-GDRIAARDVVRVGKRVV 125 Query: 68 RKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 RL + +V+ S S+ I++GRLD NT GLL+ Sbjct: 126 HFRSARRLPRVMLYHKPEGEIVSQDDPQGRTSVFDKLPQLRSSKWIAIGRLDYNTSGLLV 185 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L P + R Y VR G++ ++ LL G+ ++ ++ + + Sbjct: 186 FTTDGELANRLMHPRFEVEREYAVRIIGRLTPEQATLLTSGVELEDGAAKFDYLSDEGGE 245 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 GSN W V L+EG+NRE++++FE V+RL+R+ +GP L L G + E+++ + Sbjct: 246 GSNHWYRVILKEGRNREVRRMFEAVGMTVSRLMRVRFGPINLPSRLKRGKSMELNEAEIG 305 Query: 243 EQLGP 247 L Sbjct: 306 RLLEL 310 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 44/232 (18%), Positives = 93/232 (40%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + V +G +++ + V I +DG L Sbjct: 27 VRLDKFICESTSLTRSLAKKAMHRGDVTCDGEIIKNSGFKVTDAHTICLDGEVLSII-GP 85 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D + S + + GRLD +T GL+L+TNDG + Sbjct: 86 RFIMINKPVDTICSTIDEEYPSVLGLIDVIKPEELHIAGRLDADTTGLVLITNDGQWSHK 145 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + + + G+ + + + + + Sbjct: 146 ITSPKKECGKRYLLETAEPLADSLVEQFATGLQLNNEDGLTKPAILDILGA----HEARL 201 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++ +V RL R G +L L G R ++ + ++ Sbjct: 202 TITEGKYHQVKRMLAAVGNRVTRLHRECVGTIELDADLDLGEWRYLTDEEIK 253 >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 = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 99/229 (43%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SRR+V+++I Q V+++ + NV IE+ G + + Sbjct: 1 MRLDKLLEVVTDGSRRQVKQLIKGQDVRIDHEIAWSGRQNVDPGLQLIEISGKRISHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYFILNKPAGVVSARSDINHVTVLDQLSEKDRHPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G +D D + GI G Q+T+ + + Sbjct: 121 RMLHPSHHVAKTYMVTVNGFLDADAPDFFAAGIKFPTGEQCRPAQLTILQASQEKSQARL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R S+ +LG L +G+ R ++ Sbjct: 181 VISEGKFHQVKKMFLTYGLKVISLKRASFAGLELGELASGAYRSLTDAE 229 >gi|217974541|ref|YP_002359292.1| pseudouridine synthase [Shewanella baltica OS223] gi|217499676|gb|ACK47869.1| pseudouridine synthase [Shewanella baltica OS223] Length = 242 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 67/240 (27%), Positives = 110/240 (45%), Gaps = 16/240 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLER-----AAVNVMSTDHIEVDGVPLR 68 R++K +A+ GI SRRE R+I R+ +NG + ++ D+IE+D P+ Sbjct: 1 MRLAKYLAQCGIGSRREACRLIEAGRITLNGHIARHTDPIRLGESLNCLDNIELDSAPIT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K E W+ +K +G + D T +L R+ VGRLD ++ GLLLLTNDG Sbjct: 61 KTETLSYWILNKAVGTDCRLLEQDE--TSLIHLLPKAPRLYPVGRLDKDSRGLLLLTNDG 118 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y VR + D + + G+ + + QV + Sbjct: 119 ELTHKLMHPSFAHSKTYHVRLNRPFTDDFVEQMASGVRYKNLQTLPCQVRRLSSDS---- 174 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ-----LGTLLAGSTREVSKKILRE 243 + L +G NR+I+++ + + V L R++ LG L G R +++ + E Sbjct: 175 FEIVLIQGLNRQIRRMSKALGYHVIDLERVAIMTLNLRELALGELQEGQMRRLTESEVAE 234 >gi|149377680|ref|ZP_01895416.1| pseudouridylate synthase [Marinobacter algicola DG893] gi|149358033|gb|EDM46519.1| pseudouridylate synthase [Marinobacter algicola DG893] Length = 234 Score = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 100/232 (43%), Gaps = 8/232 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ +A A SRR+ ++ I+ RV+V+G + A V + +D PL E Sbjct: 4 SMRLDYFVANATTLSRRDAKKAISAGRVRVDGETCRKPASPVAKDTRVSLDDQPLSLPEE 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L LY +++ +D + + + + GRLD +T GLLLLT DG + Sbjct: 64 RYLMLYKPAG-VISATTDSQQPTALDLLPADVRHGLHIAGRLDADTTGLLLLTTDGQWSH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVT 190 + P + + YRV +D + L++G+++ G V L + Sbjct: 123 RITSPRLKCHKTYRVTLAEPIDDFAITQLQQGVLLHGESRPTRPADVHLLNAG----EID 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + L EG+ ++K++ V L R GP L L G RE++ + + Sbjct: 179 LTLSEGRYHQVKRMLAAVGNHVTGLHRWRVGPLILDDSLAPGDYRELTAEEV 230 >gi|237747726|ref|ZP_04578206.1| pseudouridylate synthase [Oxalobacter formigenes OXCC13] gi|229379088|gb|EEO29179.1| pseudouridylate synthase [Oxalobacter formigenes OXCC13] Length = 248 Score = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 105/249 (42%), Gaps = 23/249 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P R+SK ++ GI+SRRE + I + VKV+G ++ + V+ I ++ Sbjct: 2 SEPVRLSKRMSELGISSRREADEWIEKGWVKVDGKVVSQLGSKVLPHQKITIEKQASQEQ 61 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + L++ + + PS ++ GRLD Sbjct: 62 SRRVTILINKPMGYVSGQAEDGYKPAVALISEDTHWKDDPSKEKFRPSQLRSLVPAGRLD 121 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQGIC 171 I++ GLL+LT DG +A+ L ++ + Y VR N+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 LLPAKVEWQNDDQ----LRFVLREGKKRQIRRMCEAVGLRVIGLKRIRIGNVRLGDLPTG 237 Query: 232 STREVSKKI 240 R + + Sbjct: 238 QWRYLRPEE 246 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 83/312 (26%), Positives = 133/312 (42%), Gaps = 13/312 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEVEREYAVRVMGEVTPKIRQNMVNGVELEDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQELKVSRLLRTRYGTVILPRELRTGRWMELDKTDIDNL-- 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 ++ + + R + ++E P R Q+ K+ T Sbjct: 239 ----AKSVELKPRQGTGLFGMAKRRTDRMTEKPMAARRGGYLRQQRRDEEKEAPANTGNQ 294 Query: 307 RRNLASNVWMAK 318 R++ N K Sbjct: 295 RKSTGFNRGSKK 306 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 62/237 (26%), Positives = 108/237 (45%), Gaps = 5/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A SR+EV ++I QRV +NG + + ++V +D I VDG + + Sbjct: 1 MRLDKLLANKAYGSRKEVHQLIKDQRVTINGEVARKKDIHVDIESDVIAVDGQIVNTKQH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + I V+ VGRLD +TEGLLLLTNDG + Sbjct: 61 YYIKFHKPKGYVTAVEDASHPVVMDLLPPEYIKMGVVPVGRLDKDTEGLLLLTNDGVWSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + +VY V F G++ +D + +K+GIV+ + + L S + V + Sbjct: 121 SIINGNKHVEKVYYVEFEGELTEDGIQRIKEGIVLGDGTH--CKPALIDILSSKS-VHIT 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILREQLGPH 248 + EGK ++K++ V L R++ G L + GS +++S + Sbjct: 178 IEEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLTGIEEVGSAQDLSSDDIEAFKKIA 234 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 55/237 (23%), Positives = 109/237 (45%), Gaps = 8/237 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E P R+ +A + +R+E +++I+ V V +A + + + + G ++ Sbjct: 10 ETVLPMRLDYFLAHSAGLTRKEAKKLISGGAVTVADEAKPKANLQLRPDQVVMLHGEVVQ 69 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R + HKP+ +V + DP+ R+ + + ++V GRLD +T GL+LLT+DG Sbjct: 70 LP-GHRYLMLHKPVDVVCSTDDPEHRTVLDLLPAVLRTQVHPAGRLDRDTTGLVLLTSDG 128 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSN 186 + L P+ + YRV V + L L++GI++ + ++ + Sbjct: 129 QWSHRLTSPNHACGKCYRVICADPVSDEDLQALREGILLRGEDSPTLPA----LAERVNT 184 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + EG+ ++K++ KV L R G L L G R ++++ +R Sbjct: 185 HTLRLTITEGRYHQVKRMLAARGNKVVGLHREQIGDIVLDADLAPGEFRALTEEEIR 241 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 110/241 (45%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K V + P R++K +A AGI SRRE + I + VNG ++ V V+ TD + Sbjct: 266 LEFKKTVVDLTKPIRLNKFLANAGICSRREADEYIQAGVISVNGEIVTEMGVKVLLTDKV 325 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +R + L L + T+ D + + + R+ VGRLD NT G Sbjct: 326 MFHEQTVRSERKVYLLLNKPKDCVTTSEDTHDRLTVLDLVKNACSERIYPVGRLDRNTTG 385 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y +++ + G+ + + Sbjct: 386 VLLLTNDGDLASKLTHPKYDKKKIYHATLDKPLEKADFETILAGVPLDDVNI-AADALEF 444 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++G V + + G+NR ++++FE +K+ RL R+ + L G R +S++ Sbjct: 445 VKEGDLKQVGIEIHSGQNRVVRRIFEKLGYKIIRLDRVYFAGLTKKQLPRGKYRFLSERE 504 Query: 241 L 241 + Sbjct: 505 V 505 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 62/251 (24%), Positives = 105/251 (41%), Gaps = 9/251 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 M +K QR+ K ++ SR +V+ +I + + VNG + ++ V + D Sbjct: 1 MTNKKA---GKNTQRLDKFVSSMTPYSRSDVKTLIKKSAIYVNGSVAKKPNQPVNVTEDK 57 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-SRVISVGRLDINT 118 +EVDG L + ++ + T + I + VGRLD +T Sbjct: 58 VEVDGQELVYEPYVYIMMHKPDGVISATEDNRWETVIDLLPEDLILTYQPFPVGRLDKDT 117 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQV 177 GLLL+TNDG L P + Y V G + ++ +KG+ I QG Q+ Sbjct: 118 TGLLLITNDGQFNHALMAPKKHVEKEYAVLVDGLLSDKHIDQFEKGLDIGQGEKTKPAQL 177 Query: 178 TLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 +D + V + EGK ++K++F + +V +L R G L L G Sbjct: 178 FIDQVDEEAGQSLARVVIAEGKYHQVKRMFHAVDCEVVQLHRQRIGQLILPDALTEGEFV 237 Query: 235 EVSKKILREQL 245 +V + L + + Sbjct: 238 QVDYQDLYDAI 248 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 91/242 (37%), Positives = 127/242 (52%), Gaps = 1/242 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIE 61 D+ E R+ KV+A+AG+ASRR E MI RV V+G ++ R V I Sbjct: 373 DERDTTEVPDGVRLQKVLAQAGVASRRACEDMIGDGRVTVDGQVVRRFGARVDPAKQVIH 432 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 VDG L +KPIG+V+T SDPDGR ++ D + R+ VGRLD TEGL Sbjct: 433 VDGKRLPTMPDLVYLAINKPIGVVSTMSDPDGRPSLADFVADRTERLFHVGRLDTETEGL 492 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 +LLTNDG LA L PS + Y + G++++D LKKGI ++ TL Sbjct: 493 ILLTNDGELANRLTHPSYGVQKKYWAKVPGRIERDLGRRLKKGIELEDGIAKADSFTLVQ 552 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + G A V V L EG+ ++++ E V L RI +GP +LG L G+ R ++ K + Sbjct: 553 EHGQQALVEVVLHEGRKHIVRRMLEEVGHPVIDLARIEFGPVKLGRLKPGTVRALTVKEV 612 Query: 242 RE 243 E Sbjct: 613 GE 614 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 67/262 (25%), Positives = 111/262 (42%), Gaps = 7/262 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 + R++K +A AG+ SRR+ + +IA RV V+G ++ + + VDG + Sbjct: 2 TDDNGVRLNKALAEAGVCSRRQADALIAAGRVAVDGSVVTELGRKIDPARSRLSVDGKDV 61 Query: 68 RKAE---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLL 123 K + L L+ KP + T + R SVGRLD +EGLLL Sbjct: 62 VKPDTAGTLTLMLHKKPGCVTTARDPEGRPTVFDALPDPYRKRRLFSVGRLDFFSEGLLL 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGD-MQVTLDT 181 LT DG LA L P + Y V G V + + + +G+ + +G + Sbjct: 122 LTTDGELAYRLAHPRWHAPKRYLVTVRGHVGPEAIEAMGRGMRLAEGEPLAPVAARIVKR 181 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + LR+G NR+++++ V +L+R++ GP +LG L G RE++ + L Sbjct: 182 LAADRFVLEMELRQGINRQVRRMCRDLGLTVLKLVRVAQGPLELGGLAPGKCRELAGEEL 241 Query: 242 REQLGPHLLEEAQVNLDAPIYS 263 L Sbjct: 242 AALRRSVGLPAGDAAPSPRTGR 263 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 51/222 (22%), Positives = 95/222 (42%), Gaps = 11/222 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---RKAE 71 R++K ++ G SRRE +R+I +V +NG + V +D +EV G + ++ + Sbjct: 4 RINKYLSEVGYCSRREADRLILDGKVTINGKIP-EIGTKVEDSDQVEVKGQRIEKSKRQK 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + TT + R+ +GRLD +EGL+ LTNDG + Sbjct: 63 NIYLAFNKPVGIVCTTDRK--VEPDNVIDFIKYPKRIFPIGRLDKLSEGLIFLTNDGDIV 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + Y V+ + ++ D + + G+ I G + ++ + Sbjct: 121 NKILRARNNHEKEYIVKVNRPINNDFIQSMSNGVEILGTITKNC----FVKQLGPRNFKI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 L +G NR+I+++ E ++V L RI +L + G Sbjct: 177 ILTQGLNRQIRRMCEALGYRVQSLKRIRIMNIKL-DVPTGEY 217 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 53/229 (23%), Positives = 96/229 (41%), Gaps = 9/229 (3%) 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 + + R+ + GRLD + EGLLL+TNDG Sbjct: 61 YIIFNKPTGYTSSKS--EFERNIFEFIDHPYVENLHIAGRLDKDVEGLLLITNDGIFTHK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 + P ++ + Y V+ ++ + + K GIV++ + + ++++ Sbjct: 119 ITSPKSKIEKEYIVKVDKEISDEMIQKAKDGIVLKNGTRFKPAIIKRLKDN----FISIT 174 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVSKK 239 + EGK EIK + +F ++ RI G +L L G E+ K Sbjct: 175 ITEGKYHEIKLIVKFLGLSYKKIERIRIGKLKLEDFNLKRGEWSEIDYK 223 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 83/312 (26%), Positives = 135/312 (43%), Gaps = 13/312 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPKLRQNMVNGVELEDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE + KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQDLKVSRLLRTRYGTVILPRELRTGRWMELDKTDIDNL-- 238 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 ++ + + R + ++E P R Q+ K+ + T Sbjct: 239 ----AKSVELKPRQGTGLFGMAKRRTDRMTEKPMAARRGGYLRQQRRDDEKEAPVNTGNQ 294 Query: 307 RRNLASNVWMAK 318 R++ N K Sbjct: 295 RKSTGFNRGSKK 306 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 76/236 (32%), Positives = 116/236 (49%), Gaps = 4/236 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ KV+A+AG+ASRR E MI RV+VNG ++ + V V D I VDGV + Sbjct: 42 TDGVRLQKVLAQAGVASRRNAEIMIDSGRVEVNGAVVMQQGVRVNPKVDVIRVDGVRVNV 101 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTN 126 + ++ +KP G+ +T SD GR + D + + VGRLD +TEGL+LLTN Sbjct: 102 NNNHQYFVLNKPRGIHSTMSDDLGRPCIGDLVSERISAGQGLFHVGRLDADTEGLILLTN 161 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L P + + Y G+ D+ + LK G+ + V + Sbjct: 162 DGELANRLSHPKYEVSKTYIAEVLGEADRSLVTTLKNGVELDDGPAAADYVQIVDVHQGR 221 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V V L EG+ ++++ + + V L+R QLG G+ R ++ LR Sbjct: 222 SLVRVQLHEGRKHIVRRMLKAAGYPVQYLVRTKLHTVQLGEQKPGTIRALNDNELR 277 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 116/261 (44%), Gaps = 3/261 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 60 TMRLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKT 119 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + VGRLD +TEGLLLLT++G L Sbjct: 120 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLG 179 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVT 190 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V Sbjct: 180 YQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVF 239 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 240 LTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFF 299 Query: 250 LEEAQVNLDAPIYSSETLVRD 270 +E+ Q + P R Sbjct: 300 IEKQQTSKALPSNLKREEERK 320 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 66/229 (28%), Positives = 107/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ + + GI SR+EV+++I+ +KVNG A N+ +D IE +G L + Sbjct: 1 MRLDRFLVECGIGSRKEVKKIISANEIKVNGSYDISAKDNINEYSDVIEYNGERLEYKKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + K + T + I + VGRLD +TEGLLLLTNDG L Sbjct: 61 RYYIMNKKAGYITATEDIREATVMDLLPEWVIRKDLAPVGRLDKDTEGLLLLTNDGKLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V + Q+ + L++G+ I +V +K S+ + + Sbjct: 121 RLLSPKNHVDKTYYVEIENNISQEDVLKLEEGVDIGNYITLPAKV----EKISDTKIYLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ E N KV L R ++ L L G +EV+ + + Sbjct: 177 IKEGKFHQVKKMLEAVNNKVTYLQRTTFAKLSLADLALGEVKEVNLEDI 225 >gi|313200941|ref|YP_004039599.1| pseudouridine synthase [Methylovorus sp. MP688] gi|312440257|gb|ADQ84363.1| pseudouridine synthase [Methylovorus sp. MP688] Length = 237 Score = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 95/237 (40%), Gaps = 6/237 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + +++ G SR+ +I V VNG + + TD + V+ P E+ Sbjct: 3 LERILHAQGFGSRKNCRILIRHHAVTVNGEPCDNPFADFD-TDKLAFTVNDEPWEYREKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + P + V +GRLD +T GL+LL++DG Sbjct: 62 YLMLNKPANYECSHKPQHHPSVFALLPHPLLERGVQCIGRLDEDTTGLILLSDDGQFIHR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + ++Y V VD D++ L++G+ + L ++ S+ + + L Sbjct: 122 MSSPKWKVPKIYEVGAKHAVDADQIRQLQEGVQLVDEPAPIA--ALACEQISDQVLHLTL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EGK ++K++ +V L RI G L L G R +++ L G Sbjct: 180 AEGKYHQVKRMLAAVGNRVESLKRIRIGELVLPDDLAEGQWRWLTESELASLNGAAR 236 >gi|323127651|gb|ADX24948.1| Putative 16S pseudouridylate synthetase [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 238 Score = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 58/229 (25%), Positives = 100/229 (43%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SRR+V+++I Q V+++ + NV IE+ G + + Sbjct: 1 MRLDKLLEVVTDGSRRQVKQLIKGQDVRIDHEIAWSGRQNVDPGLQLIEISGKRISHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYFILNKPAGVVSARSDINHVTVLDQLSEKDRHPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G +D+D + GI G Q+T+ + + Sbjct: 121 RMLHPSHHVAKTYMVTVNGFLDEDAPDFFAAGIKFPTGEQCRPAQLTILQASQEKSQARL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R S+ +LG L +G+ R V+ Sbjct: 181 VISEGKFHQVKKMFLTYGLKVISLKRTSFAGLELGELASGAYRSVTDAE 229 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 73/290 (25%), Positives = 122/290 (42%), Gaps = 6/290 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + ++ KV+A G+ SRRE+E +I Q RV VNG+ ++ D + V+G Sbjct: 217 LSADDDAPKLHKVLAEGGLGSRREMEELILQGRVSVNGLPA-HIGQRILPADQVRVNGKL 275 Query: 67 LRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + + L + +V+ + + ++VGRLD NTEGLL Sbjct: 276 IHRKVSTKPPRVLLYHKPAGEIVSQSDPEGRPTVFDSLPRIKTGKWVAVGRLDFNTEGLL 335 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T G +A P R Y VR G++ + L GI + +++ Sbjct: 336 IFTTSGDIANRFMHPRYGVEREYAVRTLGELAEADRQRLLHGIKLDDGEANFLRIADGGG 395 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +G N W V L EG+NRE++++FE V+RLIR YG F L L G +EV + Sbjct: 396 EGVNQWYHVALTEGRNREVRRMFEAVGLTVSRLIRTRYGQFLLPRGLKRGRWQEVEPNDV 455 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 + + L+ AP +++ R + + + Sbjct: 456 KALMAGVGLKVPGKGEQAPKGATKVGGRKQRTEAAIAGMPMPTGMDGLPR 505 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 116/236 (49%), Gaps = 3/236 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN R++K +A G+ASRR+++ I + ++ VNGIL V + D I V+G Sbjct: 1 MEENK--IRINKFLASKGVASRRQIDLWIEEGKILVNGILATS-GQKVSAEDKILVNGKM 57 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + E +++ V + + + +R+ VGRLD T GL+LLTN Sbjct: 58 ISEKEEKKVYYILYKEEEVLSAVKDERGRKTVVDCIPTKARIFPVGRLDYRTSGLILLTN 117 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L + P + + Y V G + +++L L++G+ ++ + V + N Sbjct: 118 DGELFNRVMHPRAEIFKTYEVLAKGHLTREQLKTLEEGVELEEGKTLEALVAKVKYEKGN 177 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + +REG+NR+I+++ E +V +L R G L L G R + ++ + Sbjct: 178 TFFEISIREGRNRQIRRMVEAVGSRVYQLRRTKIGRLSLEGLKLGQYRRLQEEEIE 233 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 77/291 (26%), Positives = 127/291 (43%), Gaps = 7/291 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV ++G + + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIA-SLGDRIEADAKVRIDGRAISLKSA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + 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-GTLLAGSTREVSKKILREQLG 246 W V LREG+NRE+++++E +V+RLIRI YG +L +L G E+ + + Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVELPKSLPRGGWVELPMEQVNYLRK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LE + A S + + I + + Sbjct: 241 LAGLEPETRTMLAADKHSVARAQVKSAKIRRAVRKHKVTGSGKPKPSRQRS 291 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 78/252 (30%), Positives = 123/252 (48%), Gaps = 7/252 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K+ + +R+ K +A G+ SRR +E +I Q+++ VN + V + I Sbjct: 3 KNSPVEDSGNKKERIQKFLANMGMGSRRSIEELIKQKKITVNQKPI-DLGHMVYGNEIIH 61 Query: 62 VDGVPL-----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 ++G + K E + + +V+ ++ + IS+GRLDI Sbjct: 62 INGRRIYFKNAEKRESRLIIYHKPEGEIVSHSDPKHQKTVFQKLPKVKNGKWISIGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLLL+TNDG LA + PS Q R Y VR G+V ++ +N ++KG+ + Sbjct: 122 NTSGLLLITNDGKLANHMMHPSQQIDREYSVRILGEVTEEIINNIRKGVKLDDGVAHVDT 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 +G+N W + L+EG+NREI+++ E N KV+RLIR YGP L L G E Sbjct: 182 FEHTGGEGANQWFRIILKEGRNREIRRLVESQNLKVSRLIRTRYGPLNLPSHLKRGQFME 241 Query: 236 VSKKILREQLGP 247 + KK L + Sbjct: 242 LEKKNLEKIFKM 253 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 68/261 (26%), Positives = 116/261 (44%), Gaps = 3/261 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 60 TMRLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKT 119 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + VGRLD +TEGLLLLT++G L Sbjct: 120 HVYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYRVGRLDGDTEGLLLLTDNGQLG 179 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVT 190 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V Sbjct: 180 YQLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVF 239 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHL 249 + ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L Sbjct: 240 LTIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFF 299 Query: 250 LEEAQVNLDAPIYSSETLVRD 270 +E+ Q + P R Sbjct: 300 IEKQQTSKALPSNLKREEERK 320 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 114/231 (49%), Positives = 156/231 (67%) 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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 451 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLKAF 501 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 65/250 (26%), Positives = 107/250 (42%), Gaps = 20/250 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + ++ R+SK +A+ G+ SRRE + I Q VKVNG V D I+++ Sbjct: 1 MEHDSNETMRLSKRMAQLGLCSRREADSYIEQGWVKVNGQTA-VLGQKVTERDRIDLNRQ 59 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ Y L+T + +G + + Sbjct: 60 AHEKQAERVTILLNKPVGYVSAQAEKGYKSAAELITADNRWEGDDSRIPFNEKHKFGLAP 119 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 120 AGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGE 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + L++GK R+I+++ E +V L RI G +LG L Sbjct: 180 KLRPAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGKLPP 235 Query: 231 GSTREVSKKI 240 G R + Sbjct: 236 GKWRYLRADE 245 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 114/231 (49%), Positives = 156/231 (67%) 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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 452 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLKAF 502 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 77/291 (26%), Positives = 127/291 (43%), Gaps = 7/291 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV ++G + + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIA-SLGDRIEADAKVRIDGRAISLKSA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + 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-GTLLAGSTREVSKKILREQLG 246 W V LREG+NRE+++++E +V+RLIRI YG +L +L G E+ + + Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVELPKSLPRGGWVELPVEQVNYLRQ 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LE + A S + + I ++ Sbjct: 241 LAGLEPETRTMLAADKHSVARAQVKSAKIRRAVRKHKVTGAGKAKPTRQRS 291 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 73/259 (28%), Positives = 125/259 (48%), Gaps = 18/259 (6%) Query: 4 KNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 + ENF PQR+SKV+A AG+ASRR E +I +V VNGIL V + D I Sbjct: 150 RRFYNENFKEPPQRLSKVLAAAGVASRRTSEELIFDGKVTVNGILCNTPQTRVDPSRDII 209 Query: 61 EVDGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------- 108 V+G + K + +KP G + + + + +S + + S Sbjct: 210 YVNGNRIPKKLPPKVYFALNKPKGYICSSGEKEIKSVISLFDEYLSSWDKRNPGTPKPRL 269 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GL+++TNDG A+ L PS+ + Y G + + L + +G +++ Sbjct: 270 FTVGRLDVATTGLIVVTNDGDFAQKLSHPSSSLPKEYITTVVGDIHKRHLMAISEGTIVE 329 Query: 169 GICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 G+ V L ++ A + + + EG+N E++++ + +V+ L R+ G F+L Sbjct: 330 GVHCVPDSVELMPKQHDIPRARLRIVVHEGRNHEVRELVKNAGLEVHSLKRVRIGGFRLP 389 Query: 226 GTLLAGSTREVSKKILREQ 244 L G E+ + L+ Sbjct: 390 SDLGLGKHVELKQSELKAM 408 >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 = 154 bits (388), Expect = 2e-35, Method: Composition-based stats. Identities = 61/239 (25%), Positives = 106/239 (44%), Gaps = 10/239 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT- 73 R++K IA G SRRE +R+I ++RV VNG++ AV V D + VDG PLR E Sbjct: 4 RLNKHIAETGFCSRREADRLIGERRVTVNGVIAGTGAV-VGEDDTVLVDGQPLRVREAKK 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R + T + R+ +GRLD ++EGL+L+T++G Sbjct: 63 PGTRRHVYIALNKPVGITSTTESSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILMTSNGN 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y V + V + L + +G+ + + + G Sbjct: 123 IVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRLHDETTLPCRTARIAKFG----F 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+ + F ++V +L R+ +L L G R ++ + L+ L Sbjct: 179 RIVLEQGLNRQIRLMAAAFGFRVTQLRRVRIDNIKLAALKPGQWRNLTDQELQGLLPQR 237 >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 = 154 bits (388), Expect = 3e-35, Method: Composition-based stats. Identities = 63/238 (26%), Positives = 107/238 (44%), Gaps = 4/238 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 M+ KN R+++ +A G+ SRR+ E +I + ++ +NG + + D Sbjct: 1 MQSKNDSNARDE-IRLNRFLADCGLGSRRKTEELILRGQITINGKRVTDLGTKIKPGSDV 59 Query: 60 IEVDGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + G + + R+ + +KP+G + +H D TVF LP + GRLD+N+ Sbjct: 60 VSYLGNVVEPTRKPKRILILNKPVGYLCSHGDRFHEKTVFSLLPLTYKNFKIAGRLDLNS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+LTNDG LA+ + PS + Y V + + + + ++ ++ Sbjct: 120 RGLLILTNDGELAQKISHPSNGSEKEYLVTLNHDPGEKWIQAAFQKGILDAGEILRAKMV 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 G N V L EGK R+I+++F V L RI G QL L + + Sbjct: 180 KLVP-GKNCVYRVILAEGKKRQIRRMFHASGASVIDLQRIRIGSIQLEKLGIEEGKFL 236 >gi|307301432|ref|ZP_07581192.1| pseudouridine synthase [Sinorhizobium meliloti BL225C] gi|306903489|gb|EFN34077.1| pseudouridine synthase [Sinorhizobium meliloti BL225C] Length = 262 Score = 154 bits (388), Expect = 3e-35, Method: Composition-based stats. Identities = 64/226 (28%), Positives = 108/226 (47%), Gaps = 1/226 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 +++ +++ G SR + E++IA+ RV V G + + V D I VDG + R Sbjct: 27 LARALSKLGYCSRTQAEKLIAEGRVSVAGRKITDLSHWVDIEADRIAVDGTVIAAQARVY 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + VGRLD +EGLLL TND LA+ L Sbjct: 87 LMLNKPRGLVTTRDDPEGRPTVFSCLDNVDVPSLSPVGRLDKASEGLLLFTNDTVLAQRL 146 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T +VY V+ G + + +G+ G ++V N+W+ V L Sbjct: 147 LDPETHLGKVYHVQVRGIFGEAMAARMVEGVTEGGELLRALRVERLKSGDRNSWIEVELD 206 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EG+NR+I+++ + ++ RL+R+S G +LG L G++R +++ Sbjct: 207 EGRNRQIRRMLDVLGFECLRLLRVSIGEIRLGDLPKGASRPLTEAE 252 >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 = 154 bits (388), Expect = 3e-35, Method: Composition-based stats. Identities = 76/251 (30%), Positives = 127/251 (50%), Gaps = 4/251 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 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 KKILREQLGPH 248 + + E Sbjct: 363 SQEVSELYTAA 373 >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 = 154 bits (388), Expect = 3e-35, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 108/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + ++ + V+G + A N+ + + G ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKKEILVDGQVAISLAQNIDTGLQELIFQGRKIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + +V ++GRLD +T GLLLLTN+G L Sbjct: 60 TYLMLHKPNGVVTASKDKKLPTVMDLLPQHLQSDQVYAIGRLDRDTTGLLLLTNNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K GI + G Q+ + + S + T+ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQQFKNGIVFLDGTICKPAQLEILSSSPSISRATI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R+ +G F L L G R ++++ L+ Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTALKRVQFGDFLLDPDLAEGQYRLLNQEELK 231 >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 = 154 bits (388), Expect = 3e-35, Method: Composition-based stats. Identities = 76/292 (26%), Positives = 130/292 (44%), Gaps = 10/292 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA R+ V+G + V S + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISVDGEIA-SLGDRVESDVKVRIDGRAISIKSE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + + + 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+ + + Sbjct: 181 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKSLPRGGWIELP---IEQVNY 237 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + + + + V +++ + K ++ + Sbjct: 238 LRQTAGMDEETRSILGTDKHSVARAKVRGAKIRRAVRKHKATATPNKPSRSR 289 >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 = 154 bits (388), Expect = 3e-35, Method: Composition-based stats. Identities = 65/221 (29%), Positives = 105/221 (47%), Gaps = 3/221 (1%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI Q V +NG ++ A V S D +E++G P+ E+ L + + D Sbjct: 1 MIKQGLVTLNGQVITDLATTVKSGDVVEIEGSPIYNEEKVYYLLNKPRGAISSVSDDKGR 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 TV D LP + R+ VGRLD +T G+L+LTNDG + P + +VY R G Sbjct: 61 -KTVLDLLPQVKERIYPVGRLDWDTSGVLILTNDGDFTDTMIHPRNEIDKVYLARVKGIA 119 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTVGLREGKNREIKKVFEFFNWK 211 ++ L L +GIVI G + + + + V + + EG+N ++KK+FE Sbjct: 120 TKENLRPLTRGIVIDGKKTKPARYNIVRVEADKNRSIVELTIHEGRNHQVKKMFESVGLL 179 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 V++L R +G L L G R ++KK + + ++ Sbjct: 180 VDKLSRTRFGTVDLKGLRPGEARRLNKKEISQLHNLANTKK 220 >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 = 154 bits (388), Expect = 3e-35, Method: Composition-based stats. Identities = 88/315 (27%), Positives = 131/315 (41%), Gaps = 8/315 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 +++ K +AR G+ SRR++E +I RV VN V D I VDG ++ Sbjct: 2 KDEKLQKALARMGLGSRRQMEEVIKAGRVTVNNGPAT-IGDRVEQGDEIRVDGRQIKYTA 60 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R L Y + + + + R + VGRLDIN+ GLLL TN Sbjct: 61 ENEKRRRVLAYYKPEGEVCSANDPEGRPTVFERLPKLTHDRWVMVGRLDINSTGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG +A L PS++ R Y VR G V D + G++++ + +G N Sbjct: 121 DGEMAHRLMHPSSEVTREYAVRVLGDVTPDMARAMTTGVMLEDGMAKFEDIKEGGGEGVN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L+EG+NRE++++FE KV+RL+R SYG L L G E+ +K + Sbjct: 181 KWHHVKLKEGRNREVRRLFESQGLKVSRLLRTSYGNIALPKELRTGRFLELDRKDINILT 240 Query: 246 GPHLLEEA-QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 L L + +R++P SS N +K K +P Sbjct: 241 DLVSLRPRYGTGLHGAAKEKQERIRNKPLKARRTDTRSDNRNSTSSSANSSTKPKTSGSP 300 Query: 305 VHRRNLASNVWMAKG 319 R S K Sbjct: 301 ASRGTRNSRDRNDKR 315 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 114/231 (49%), Positives = 156/231 (67%) 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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 EG+NRE+++V + +V+RLIRISYGPF LG L G+ EV L+ Sbjct: 452 HEGRNREVRRVLGYLGLQVSRLIRISYGPFLLGDLPVGAVEEVDPATLKAF 502 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 76/256 (29%), Positives = 126/256 (49%), Gaps = 12/256 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K +A G+ SRRE+E I + R++VNG L + + + +DG PLR Sbjct: 2 SNELERIQKWLAARGLGSRREIEGWIREGRLRVNGKLA-ELGQRISGYERLSLDGKPLRV 60 Query: 70 AE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + R L + P + + + + R +S+GRLD+NT GLLL Sbjct: 61 SPEREAPRQILMYHKPPGEICSRNDPDGRPTVFRHLPKLRQGRWVSIGRLDLNTAGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-----GDMQVTL 179 TNDG LA L PS + R Y VR G+V++D L L+ G+ ++ +Q Sbjct: 121 TNDGELANRLMHPSAEIEREYWVRVAGEVNEDTLQALRNGLELEDGFACFDDVQPLQALH 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + N + +V L+EG+NRE+++++E +V+RL RI +G L L AG R ++ Sbjct: 181 EDDTQYNRYFSVVLKEGRNREVRRLWEAVGCQVSRLKRIRFGNLWLPKNLAAGRWRPLTA 240 Query: 239 KILREQLGPHLLEEAQ 254 + L ++ + Sbjct: 241 GEVNALLDLLQRKQRR 256 >gi|282864458|ref|ZP_06273514.1| pseudouridine synthase [Streptomyces sp. ACTE] gi|282560945|gb|EFB66491.1| pseudouridine synthase [Streptomyces sp. ACTE] Length = 382 Score = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 69/233 (29%), Positives = 108/233 (46%), Gaps = 2/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLR 68 +R+ K++ARAG+ SRR E +I Q RV+VNG ++ V D I+VDG+ + Sbjct: 142 EQEGERLQKILARAGMGSRRACEELIEQARVEVNGEIVLEQGKRVDPQKDEIKVDGLTVA 201 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T ++ D + + +R+ VGRLD TEG++LLTN G Sbjct: 202 TQSYLFFALNKPAGVVSTMGDPDGRQNLG-DYVTNRETRLFHVGRLDTETEGIILLTNHG 260 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + Y G + +D LK GI ++ + G N Sbjct: 261 ELAHRLTHPRYGVKKTYLAAIQGPLPRDLGKRLKDGIQLEDGYARADHFRVVENTGKNYL 320 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++ + V RL+R S+GP LG +G R ++ + Sbjct: 321 VEVTLHEGRKHIVRRMLAEAGFPVERLVRTSFGPIPLGDQKSGWLRRLTNTEV 373 Score = 39.8 bits (91), Expect = 0.73, Method: Composition-based stats. Identities = 11/104 (10%), Positives = 23/104 (22%), Gaps = 6/104 (5%) Query: 256 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL------SKQKKLATPVHRRN 309 S S + ++ + + + P R Sbjct: 22 PRSGSGGSFRPKAAGGTQGASGAGGRDDKREQRPRKPRPEERRYDVGADEPGSGPRKGRG 81 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A+ G S+ G R + P + +R + Sbjct: 82 TAARGGAKGGPKSAQNVSKGGRRQGAPARPRELDAKIEQRNRDR 125 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 52/229 (22%), Positives = 93/229 (40%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K ++ SR+E++ M+ VKV + ++ + V + D I V+G + E Sbjct: 1 MRLDKFLSNLNYGSRKEIKLMVKNGLVKVGNLTVKSSDVKIDPNYDKIFVNGTEVIYKEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L Y L + ++ P + GRLD ++EGL++LT G L Sbjct: 61 VILSFYKPAGYLSSHKAEIYPSLFELIGAPYNQYDLKIAGRLDYDSEGLVILTTSGDLVH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY + ++ L +G+ I G + Sbjct: 121 QITHPKKKIRKVYEAKLDKHFNESSKLKLLQGVEIMGEDGMPYIGIALDLHYKEDVAYIT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++KK+F + V L RI G L L G+ +E+ + + Sbjct: 181 IDEGKFHQVKKMFLEVGFLVTNLKRIQIGALTL-DLEPGTYKEIEENDI 228 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 52/238 (21%), Positives = 99/238 (41%), Gaps = 8/238 (3%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 N QR+ + ++++G SR + I V +NG L A+ + D + + Sbjct: 9 TPNQERQRLDRFLSQSGRLSRSMARKAILAGEVTINGTLCRDASTKIGPNDTVHHHHDIV 68 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L+ +V D R+ + S + GRLDI+T GL+LLT+D Sbjct: 69 VAPSHHYLMLHKPEG-VVCATEDGRHRTVIDLLGEPWRSDLHIAGRLDIDTTGLVLLTSD 127 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGS 185 G + + P + Y V + ++G+++ G Q+ + + + Sbjct: 128 GDWSHRVTSPRHNKAKRYHVTTADPIASSWCASFEQGVMLDGETKLTRPAQLEILDEFHA 187 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 N + L+EG+ ++K++F +V +L R + G L L G R ++ ++ Sbjct: 188 N----LCLQEGRYHQVKRMFAAMGTRVVKLHRYAIGELILDNTLPLGHYRALTDCEIQ 241 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 67/233 (28%), Positives = 102/233 (43%), Gaps = 6/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K IA + SR+EV+++I +R+ VN + R + + TD I +DG + Sbjct: 1 MRLDKFIANFTLYSRKEVKKLIKAKRITVNDSIASRPEMQIDEETDTISLDGQWIGYEPY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L TT P T F + VGRLD +TEGLLLLTNDG A Sbjct: 61 IYYLLNKPQNCLSTTRPGPTSIVTDFLPANEVEIYQPFPVGRLDKDTEGLLLLTNDGDFA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQK--GSNAW 188 L P + Y G V ++ + KG+ I G Q+ + + + Sbjct: 121 HDLLSPKKLVSKEYYAEIEGIVTEEDVKAFAKGLTIDQGDHCAPSQLDILATDPAKNRSE 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 +TV L EGK ++K++F+ +V L R G L L G+ ++ + Sbjct: 181 ITVTLTEGKYHQVKRMFQAVGKEVIYLQRFRIGSLYLPEELELGTAFKLLPEE 233 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 62/236 (26%), Positives = 101/236 (42%), Gaps = 4/236 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +Q++ +R+ +++R G SR EV ++ + RV+V G LL +A+ V + + VD Sbjct: 13 RPMQKSA--ERMDHLLSRLGYCSRSEVRDLLREGRVRVAGELLRKASAKVNA-AEVWVDE 69 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ L + + + SVGRLD T G+LLL Sbjct: 70 EPIDHPHAFYLLYHKPLGKVCAHDDPRAIYQDFPLRWRYRRPALSSVGRLDRETSGVLLL 129 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T+DG P RVYRV + D ++L G ++ + Sbjct: 130 TDDGDWLHHWTSPRRAIPRVYRVTLQEPLRSDAADILAAGTLMLDGEDTPCRPAALHC-L 188 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + L EG+ E++++F + V L R +YGPF L L AG RE++ Sbjct: 189 TEREVRLTLTEGRYHEVRRMFAALDNLVLTLHREAYGPFLLDDLPAGQWRELTVAE 244 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 100/229 (43%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ I SR +V+++I+ +++ V+ + NV I VDG LR Sbjct: 1 MRLDKLLETCQIGSRGQVKKLISAKKIIVDDRVAIGGQQNVDPGLQTIIVDGKVLRAKGH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L + F + VGRLD +TEGL+LLT++G L Sbjct: 61 HYFFLNKPRGVVSALKDREHPTVIDCLTEADRFPSLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G + D L+ + + + G V + + + + V Sbjct: 121 RMLHPKHHVDKSYYVVVNGFLGDDLLSFFRSGVVFLDGTVCKAAAVEILSAREKQSVAKV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 L EGK +IKK+F + KV L R+++ F +G L AG R ++ Sbjct: 181 TLSEGKFHQIKKMFLAYGVKVIYLKRLTFAEFSVGNLAAGEYRTLTAHE 229 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 62/248 (25%), Positives = 107/248 (43%), Gaps = 10/248 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 I R++K IA G SRRE +R+I ++RV VNG++ AV V D + VDG Sbjct: 15 IADNPPMTTRLNKHIAETGFCSRREADRLIGERRVTVNGVIAGTGAV-VGEDDTVLVDGQ 73 Query: 66 PLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 PLR E R + T + R+ +GRLD ++EG Sbjct: 74 PLRVREAKKPGTRRHVYIALNKPVGITSTTESSVKGNIVEFVGHEQRIFPIGRLDKDSEG 133 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+L+T++G + + + + Y V + V + L + +G+ + + Sbjct: 134 LILMTSNGNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRLHDETTLPCRTARI 193 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + G + L +G NR+I+ + F ++V +L R+ +L L G R ++ + Sbjct: 194 AKFG----FRIVLEQGLNRQIRLMAAAFGFRVTQLRRVRIDNIKLAALKPGQWRNLTDQE 249 Query: 241 LREQLGPH 248 L+ L Sbjct: 250 LQGLLPQR 257 >gi|261855955|ref|YP_003263238.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] gi|261836424|gb|ACX96191.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] Length = 369 Score = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 89/351 (25%), Positives = 150/351 (42%), Gaps = 13/351 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ K++A G+ SRR +E I+ VK+NG++ + + D ++V G + ++ T Sbjct: 4 QRLQKILATQGLGSRRMIEGWISAGEVKLNGVVAQ-LGDVAEAGDVLDVRGQKITVSDET 62 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + +T + R I+VGRLD NT GLLL TNDG Sbjct: 63 PIRRVIIYHKPEGEITSTSDPEGRPTVFGSLPAIRQGRWITVGRLDFNTSGLLLATNDGE 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS Q R Y VR G + +D++ L + + Q++ G N W Sbjct: 123 LANRLMHPSHQIERTYAVRVLGGLTEDQVKQLTTEVQLDDGPAHFDQLSDAGGTGVNRWY 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---LREQL 245 V LREG+NREI+++ E V+RLIRISY L L G +++ ++ L + + Sbjct: 183 HVTLREGRNREIRRMIEAVGAVVSRLIRISYAGIPLPPRLKPGRAQDLPPEMEDALVKLV 242 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNII--SEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 G +V + + R R ++ P + R+ + + G + + Sbjct: 243 GLRPETRRKVQDEDTKRRALKPYRARVQTGTVAKRPAEPFRVPVRAESQEGADTAGRPTS 302 Query: 304 PVHRRN--LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R +S + + S + + R P+ + +RR Sbjct: 303 RPIERATTRSSRPGEPRPVLSRARPQMTEEGSDKRGKPARAGGKPIRRERQ 353 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 108/232 (46%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ SR+E +++++ RVKV+G +A V + + +DG P+ Sbjct: 1 MRLDQYLSNGTELSRKEAKKVVSAGRVKVDGETCRQANRQVEAEQSVHLDGKPVNPPGDI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++ +++ +D + + + SRV GRLD +T GLLLLT+DG + Sbjct: 61 YLMMHKPAG-VLSATTDSSQPTALDLLPRGLASRVHIAGRLDKDTTGLLLLTSDGQWSHA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + P + + YRV + + L+KG+++ G +V + +N + + Sbjct: 120 VTSPRRECRKSYRVWLAEAIPEQACRALEKGVMLNGETTETRPAEVRVH----NNQLIDL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EG+ ++K++ +V L R G +L L G R ++ + +R Sbjct: 176 TIGEGRYHQVKRMLAAVGNRVEALHRFRIGSIELDDKLAPGEFRALTYQEIR 227 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 55/228 (24%), Positives = 102/228 (44%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR++ ++I + R+ VNG V D I +D PL ++ Sbjct: 1 MRINKLFSNLGICSRKDTSKLIEENRIIVNGFPC-IQGQWVELEDEILLDNKPLPIKKKI 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + N + + VGRLD ++GL+LLTNDG LA Sbjct: 60 YIVLNKPIGITCTAADEVE---NNIINFMNYPEYIFPVGRLDKASQGLILLTNDGDLANK 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + Y V + + + + G+ I + +V ++ + L Sbjct: 117 ILESENKHEKEYIVTLDKPFNDEFILGMTSGVEICNVKTRQCKVRRISED----TFNIVL 172 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +G N++I+++ + F + V +L RI +LG L G R + ++ L Sbjct: 173 TQGLNKQIRRMSKTFGYTVKKLERIRIVNIELGDLEYGKWRYLLEEEL 220 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 63/281 (22%), Positives = 118/281 (41%), Gaps = 11/281 (3%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++EN R++K ++ AG+ SRRE +R I +V ++G+ + V+ + +G Sbjct: 1 MEEN--GVRINKFLSEAGVCSRREADRQIEAGKVGIDGVTAKT-GDRVLKGQTVTYNGQV 57 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + K E L +KP G+V T + + + + R+ +GRLD ++EGLLLLTN Sbjct: 58 VSKEEEMILIALNKPAGIVCTAEKREKNNVIDYL--NYPKRIYPIGRLDKDSEGLLLLTN 115 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKG 184 +G + + + + Y V + + + L G+ + G+ V + K Sbjct: 116 NGEIVNKMMRSGNRHEKEYIVTVNKTISDSFIRGLAGGVPLVELGVTTRKCHVKKLSSKQ 175 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L +G NR+I+++ E+F ++V +L R+ +LG L G R V+ + Sbjct: 176 ----FKIILTQGYNRQIRRMCEYFGYRVVKLERVRIMNIELGDLPRGKYRAVTPLEYKGL 231 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 Q + + D Sbjct: 232 KRLIADSSNQPVIPDTNKDHSDKKYTDKKHTDKKYQDRRAK 272 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 71/352 (20%), Positives = 137/352 (38%), Gaps = 37/352 (10%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R++K +A+ G+ SRRE + +I + ++++G + A V + + R+ Sbjct: 10 DEPLRINKWLAQEGVCSRREADALIEKGLIQLDGKPVTVAGERVTKGQTLSLTDAASRRL 69 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDN-----------LPSIFSRVISVGRLDINTE 119 + + +KP+G V+ +P + +P +++ +GRLD ++ Sbjct: 70 DNQLSVILNKPVGYVSGTPEPGEIPAIRLISEENLSGSAHAIPQRSNKMAPLGRLDKDSH 129 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+L+ DG LA+ + P + + Y V+ G + K+ LL+ G+ + G +VT Sbjct: 130 GLLILSEDGVLAKAIIGPLSDMDKEYLVKVRGDITTAKVALLRHGLELDGRQLRPAEVTQ 189 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + + L+EG+NR+I+++ E +V L RI GP L L G R + K Sbjct: 190 ERGQ----VLRFVLKEGRNRQIRRMCELVELRVLDLQRIRVGPILLAGLPQGKWRPLGAK 245 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 + L + P + S + Sbjct: 246 E----------------------RAALLAAGAGEEVRSSPARREDRLRTSDGPRRERSET 283 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 P R+ + G +G + + P+ P + R + Sbjct: 284 GRDQPRTDRDRSGQFGTKPGQGRPDKPRTGPKPDRAGAKPARPGAKPARPGA 335 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 57/233 (24%), Positives = 117/233 (50%), Gaps = 10/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 RV K+++ G SR+E+++ + ++K+N +++ + S D I DG + E Sbjct: 3 VRVDKILSELGFGSRQEIKKYVKAGKIKINDRTVKKPEEKINSKNDIIYFDGKEIEVEEF 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY + T + TV + + S ++ VGRLD++TEG+L+LTNDG L Sbjct: 63 ETYILYKPAGYVCAT--KDNVHRTVMELIDSKRKNIVPVGRLDLDTEGILILTNDGDLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 L P++ + Y F G++D + + + + G+ I +G ++ + ++ + + Sbjct: 121 RLVSPASHVDKSYYAVFDGKLDSNAIEMTQAGLDIGEGEFSKPAELKILSEN----EILL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGSTREVSKKILR 242 + EGK ++K++ + +V L R+++G +L L G +R+++ + Sbjct: 177 TIHEGKFHQVKRMVKALGGEVTYLKRVAFGGLKLDDLKLEKGESRKITGDEME 229 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + G ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQGRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPTGVVTANKDRELPTVMDLLPPDIQSDMLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L RI +G F L L G R ++++ L+ Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTSLKRIQFGEFTLDPELAEGQYRPLNQEELK 231 >gi|300934025|ref|ZP_07149281.1| putative pseudouridylate synthase [Corynebacterium resistens DSM 45100] Length = 335 Score = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 70/239 (29%), Positives = 121/239 (50%), Gaps = 4/239 (1%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 ++ R+ KV++ AG+ASRR E++IA RV+VNG ++++ + + + D + VDG Sbjct: 89 KKEKQQVRLQKVLSSAGVASRRMSEKLIAAGRVEVNGEVVQQMGLRIDPSVDVVRVDGTR 148 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLL 123 ++ E + +KP G+ +T D GR V + + + + VGRLD TEGLLL Sbjct: 149 VQVNEEMVYFALNKPRGVHSTMHDDLGRPHVGELIEAKFNQGQGLFHVGRLDAATEGLLL 208 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG LA L P + + Y G+ D+ + LK G+ ++ V + Sbjct: 209 LTNDGELANRLMHPKYEVSKTYMATVLGEADRGLIRTLKDGVDLEDGMARADYVQIVDVW 268 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + V L EG+ ++++ + + V L+R QLG G+ R +++ L+ Sbjct: 269 QGKSLIKVELHEGRKHIVRRMLKAAGFPVQALVRTKIHTVQLGEQKPGTVRALNRSELQ 327 >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 = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 80/252 (31%), Positives = 125/252 (49%), Gaps = 8/252 (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 + + VGRLD ++EGLL+LT DG Sbjct: 61 PTPHVTYMLHKPAGFVTTAQDELGRRTV-LDAMPPVPGLHPVGRLDKDSEGLLILTTDGD 119 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + +VYRV + + +L L++G+ ++ + ++ G + Sbjct: 120 LTLRLTHPRFEHEKVYRVWCFPEPGEQELAALRRGVELEEG---FARAEVEPAPGGALAL 176 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 LREG+ R+++++F V+RL+R G LG L G ++ ++ L L P Sbjct: 177 ---LREGRKRQVRRMFAEVGCPVDRLLRYRVGGLWLGDLGPGEFVQLGEQELDWLLQPGT 233 Query: 250 LEEAQVNLDAPI 261 +++ + Sbjct: 234 RQQSPAQREQEA 245 >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 = 153 bits (387), Expect = 4e-35, Method: Composition-based stats. Identities = 49/231 (21%), Positives = 92/231 (39%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ +R E +I V VN + A V + + +D L Sbjct: 1 MRLDKFICKSTDLTRNEATLLINAGNVTVNNEVASNEATQVHENNDVLLDEKKLIARASR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + D S + GRLD +T GL+L+T+DG + Sbjct: 61 YILMHKPLGTICSN-IDEVYPSLFNYIDVEKADDLHIAGRLDADTTGLVLITDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P+ Q + YRV + +D G+ +QG ++ + T V + Sbjct: 120 IITPNKQCEKTYRVGLRNPIAEDAAEKFALGVQLQGEKQLTFPAKLDVVTSN----EVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK ++K++F +V L R G +L + G R ++ + + Sbjct: 176 TITEGKFHQVKRMFSAIGNRVVTLHREQIGNIKL-DVEVGKWRFLTPEEID 225 >gi|325479564|gb|EGC82660.1| pseudouridylate synthase [Anaerococcus prevotii ACS-065-V-Col13] Length = 233 Score = 153 bits (387), Expect = 4e-35, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 117/230 (50%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA++G SRR+ + +I +VKVNGIL+ V D +E+DG L + Sbjct: 1 MRINKYIAKSGYTSRRKADDLIKASKVKVNGILINEPGYEVTDDDILEIDGKRLYIEKNF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY + + + + + L + R + GRLD ++EGLL++TNDG Sbjct: 61 YKKLYKPVGYVTSNYDPHNEKDLNS--LIDMKERFFAAGRLDKDSEGLLIITNDGHFTNG 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 + PS + + Y V ++ + + +KGI I +G + ++ L K + V Sbjct: 119 IIHPSNELEKTYIVTVSRKLSKSQEKKFEKGIDIGRGEITSNSKIKLLDSKTNK--YEVK 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + +G NR+I+++F +F+ KV L RIS GP +L + R+ S+K + Sbjct: 177 IHQGYNRQIRRMFAYFSSKVINLKRISIGPIKLDDMKEYEIRDFSEKEME 226 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 67/257 (26%), Positives = 115/257 (44%), Gaps = 9/257 (3%) Query: 1 MKDKNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M + N + E F RV K+IA+ G SRR+ E I ++ VKVNG +++ Sbjct: 1 MNEINFLVERFAMKELIRVQKLIAQTGYCSRRKAEEYIEKKLVKVNGKIVQ-LGDKASEN 59 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 D I+++ + + ++ + +L + R+ VGRLD + Sbjct: 60 DEIKINNQLISLQKPNFVYFLLNKPKKTISTVKDPKGRKTVVDLINYSERIAPVGRLDYD 119 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T G LLLTND + L P + LR YRVR + + L+ G+++ G + Sbjct: 120 TTGALLLTNDWEMINKLTHPKYEILRTYRVRIDSPLSLKEFKLINAGLIVNGKFSKQIVD 179 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +DT+ V L G IK++F+ N +V L R+S+ + + GS R ++ Sbjct: 180 QVDTKS-----YLVTLHVGSYHHIKELFKALNHEVINLKRVSFANLTVEKMPEGSYRTLT 234 Query: 238 KKILREQLGPHLLEEAQ 254 K +++ L+E + Sbjct: 235 LKEIKDLKVLISLQEKK 251 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 63/226 (27%), Positives = 108/226 (47%), Gaps = 1/226 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 +++ +++ G SR + E++IA+ RV V G + + V D I VDG + R Sbjct: 85 LARALSKLGYCSRTQAEKLIAEGRVSVAGRKITDLSHWVDIEADRIAVDGTVIAAQARVY 144 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + VGRLD +EGLLL TND LA+ L Sbjct: 145 LMLNKPRGLVTTRDDPEGRPTVFSCLDNVDVPSLSPVGRLDKASEGLLLFTNDTVLAQRL 204 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T +VY V+ G + + +G+ G ++V N+W+ + L Sbjct: 205 LDPETHLGKVYHVQVRGIFGEAMAARMVEGVTEGGELLRALRVERLKGGDRNSWIEIELD 264 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EG+NR+I+++ + ++ RL+R+S G +LG L G++R +++ Sbjct: 265 EGRNRQIRRMLDVLGFECLRLLRVSIGEIRLGDLPKGASRPLTEAE 310 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 99/233 (42%), Gaps = 1/233 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R++K +A +G+ SRRE + IA V VNG ++ V D ++ DG L Sbjct: 38 SDPNSIRLNKYVANSGVCSRREADVFIAAGSVTVNGKVVSEMGYKVKLDDVVKFDGRHLN 97 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +R + L T ++ R+ + + ++ V ++ + GLLL TND Sbjct: 98 PEKREYVLLNKPKDFSTTVRNEHGKRNVAGLISSASKATLLPVDKMAKASTGLLLFTNDK 157 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L R L P ++Y V + L ++ G+ I ++ N Sbjct: 158 ELTRRLLNPKNGLRKIYHVELSKALSPADLKKIQDGLAIDEKVVNVHDISYVDNAPKNQ- 216 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L ++ + K+FE ++V +L R+ YG L G R ++K+ + Sbjct: 217 VGIELFSSRSNIVTKIFEHLGYEVAKLDRVVYGGLTKKDLPRGHWRYLTKQEV 269 >gi|193782973|gb|ACF20459.1| pseudouridine synthase [Serratia symbiotica] Length = 300 Score = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 78/235 (33%), Positives = 112/235 (47%), Gaps = 10/235 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+AR G SRRE+E MI RV +NG + + + + I +DG + + Sbjct: 2 SEKLHKVLARTGYGSRREIEAMINACRVSINGKIAKLGDRIEIHPMMKIRIDGNIISIKK 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGR---STVFDNLPSIFSRVISVGRLDINTEGLLL 123 L Y L T + + + R +SVGRLDINT GLLL Sbjct: 62 AEETICRVLAYYKPEGELCTISNPSNPEGRLTVFDHLPKLRNLRWVSVGRLDINTSGLLL 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T +G LA L PS + R Y VR G+ + + LK I ++ +T K Sbjct: 122 FTTNGELANRLMHPSRKIEREYAVRVFGKPSAENIKKLKHNIELEDGPAFFRTITFQGGK 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 G N W V L EG+NRE+++++E +V+RLIRI YG L L GS E+ Sbjct: 182 GLNQWYHVTLTEGRNREVRRLWEAVGIQVSRLIRIRYGNIVLPKGLPRGSWAELD 236 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 99/232 (42%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +RRE ++ + V VN ++ + ++ V +E G L Sbjct: 1 MRLDKFLCDALGVTRREATHLLKSKAVTVNDVIQKSGSLKVTEECVVEWQGNELNVHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + + + + + + GRLDI+T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDGANRIAFELLDEIKMDKLHFA-GRLDIDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + YRV V+ D + K+GI + + + + + V + Sbjct: 120 ITSPKHKCEKTYRVWLVEPVEDDYVEKFKEGIQLKSEDGLTLPAHLEV----RAEREVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV L R G ++ L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVEGLHRERIGEIEMDESLELGEYRYLTQEEVD 227 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 67/294 (22%), Positives = 112/294 (38%), Gaps = 26/294 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + R+SK ++ G+ SRRE + I++ VKV+G ++ V I +D Sbjct: 1 MSDTPADLVRLSKRMSELGLCSRREADEWISKGWVKVDGQVVSELGSKVRPDQKITIDRK 60 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 PL + L+T + + PS ++ Sbjct: 61 AKDQQNERVTIILNKPLGYVSGQAEDGHEPARILITPRNRWIDDPSPRRFNPSQLKSLVP 120 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-------HGQVDQDKLNLLKK 163 GRLDIN+ GLL+LT DG +A+ + ++ + Y VR + + KL LL Sbjct: 121 AGRLDINSTGLLVLTQDGRIAKTIIGENSSVEKEYIVRVAMTDGRSNSEFPPAKLALLNH 180 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+ + G +V+ + + LREG+NR+I+++ + KV L R+ G Sbjct: 181 GLELDGKPLEKAEVSWLNEDQ----LKFVLREGRNRQIRRMCDLVGLKVLALKRVRVGNI 236 Query: 224 QLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 LG L G R + P ++ AP R + Sbjct: 237 PLGNLPVGKWRYLEDGESFTGSAPKRAPSSRPAAGAPRRPKTFKPRKPNFRKTR 290 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 77/287 (26%), Positives = 127/287 (44%), Gaps = 7/287 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA R+ ++G + V + I +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRISIDGEIA-NLGDRVEADVKIRIDGRAVSIKSE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + + + 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-GTLLAGSTREVSKKILREQLG 246 W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ + + Sbjct: 181 WWHVSLAEGRNREVRRLWESQEVQVSRLIRIRYGMIELPKSLPRGGWVELELEQVNYLRQ 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 L L S + + I + ++++ Sbjct: 241 TAGLAIENRTLLGTDKHSVARAKVKSAKIKRAVNKHKVNAAKNTRQR 287 >gi|227872023|ref|ZP_03990406.1| pseudouridylate synthase [Oribacterium sinus F0268] gi|227842134|gb|EEJ52381.1| pseudouridylate synthase [Oribacterium sinus F0268] Length = 239 Score = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 60/235 (25%), Positives = 114/235 (48%), Gaps = 6/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 R+ K ++ G+ SR ++R I + VK+NG +++ ++ V + I P+ E Sbjct: 1 MRLDKYLSDMGVESRSVLKREIRKGLVKINGEIVKDPSMEVQPGNSEIVYKDEPIHYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + ++++ D ++ + + VGRLD ++EGLLL+ NDG LA Sbjct: 61 SYYMMNKPVG-VLSSTEDRKQKTVLDLFSDKHRKDLFPVGRLDKDSEGLLLIMNDGALAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V G++ +++L+ L++GI + + + + V V Sbjct: 120 KLLSPKMHIEKKYLVEIPGKISEEELDRLRQGIQYDTDLIAMPAKARCLSSTEEGSRVEV 179 Query: 192 GLREGKNREIKKVFEFF--NWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + EGK +IKK+F ++ V +L R+S GP L L G R++S++ ++ Sbjct: 180 IIMEGKFHQIKKMFLALSTDYVVTKLQRLSMGPLHLDPALAPGEYRKLSEEEVQA 234 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 87/290 (30%), Positives = 135/290 (46%), Gaps = 12/290 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVD 63 + Q+ +R+ KV+ARAG SRR +E MI+ R+ ++G + V S I +D Sbjct: 37 VNQQKVEGERLQKVLARAGQGSRRTIEAMISANRISIDGKMAT-LGDRVDIHSGVKIRID 95 Query: 64 GVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 G + + L Y L T H + SR I+VGRLDINT Sbjct: 96 GHIVNLTQAQKEVCRVLLYYKPEGELCTRHDPEGRATVFDRLPRLNGSRWIAVGRLDINT 155 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL T DG LA L P + R Y VR G+VD + L+KG+ ++ + Sbjct: 156 SGLLLFTTDGELANRLMHPRHEVEREYAVRVFGEVDDAMIARLRKGVQLEDGPANFTSIK 215 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ Sbjct: 216 ATGGQGMNQWFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKLTKSLPRGGWEEMD 275 Query: 238 K---KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 LR+ +G +++++ P +R +E+ + + Sbjct: 276 LTNINYLRKLVGLPPETDSKIDTKKPRRIKTGQIRKAVKRYAELNKRYKK 325 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 65/250 (26%), Positives = 107/250 (42%), Gaps = 20/250 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + ++ R+SK +A+ G+ SRRE + I Q VKVNG V D I+++ Sbjct: 1 MEHDSNETMRLSKRMAQLGLCSRREADSYIEQGWVKVNGQTAA-LGQKVTERDRIDLNRQ 59 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ Y L+T + +G + + Sbjct: 60 AHEKQAERVTILLNKPVGYVSAQAEKGYKSAAELITADNRWEGDDSRIPFSEKHKFGLAP 119 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++D+ L LL G+ + G Sbjct: 120 AGRLDIDSVGLLVLTQDGRIAKQLIGENSGSEKEYLVRVRGKLDEKGLALLNHGLSLDGE 179 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + L++GK R+I+++ E +V L RI G +LG L Sbjct: 180 KLRPAKVKWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVIGLKRIRMGKVKLGKLPP 235 Query: 231 GSTREVSKKI 240 G R + Sbjct: 236 GKWRYLRADE 245 >gi|222084363|ref|YP_002542892.1| pseudouridylate synthase [Agrobacterium radiobacter K84] gi|221721811|gb|ACM24967.1| pseudouridylate synthase [Agrobacterium radiobacter K84] Length = 278 Score = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 62/261 (23%), Positives = 117/261 (44%), Gaps = 3/261 (1%) Query: 9 ENFTPQR--VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + +R + + +++ G SR + E +IA RV V+G + + I VDG Sbjct: 18 QESDGKRVTLPRALSKLGYCSRTQAEALIAAGRVTVDGREITDPTAWIDLDRARIAVDGE 77 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + ++ L + T + + VGRLD +EGLLL T Sbjct: 78 AIAAEKKLYFMLNKPRGLVTTRDDPEGRPTVYDCLRDIDARHLAPVGRLDKASEGLLLFT 137 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ND LA+ L P + ++Y V+ + ++Q+ L+ +++G++ G L Sbjct: 138 NDTVLAQALLDPISHVGKIYHVQVNTIMEQELLDRMERGVIDDGELLTATAARLLRSGDR 197 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 N W+ V L+EG+NR+I+++ E + RL+R+++G LG L G+ R +++ + Sbjct: 198 NGWIEVELKEGRNRQIRRMLEVLGVECLRLVRVAFGDIALGDLAKGAVRALTEAEVLGLR 257 Query: 246 GPHLLEEAQVNLDAPIYSSET 266 +E+ N ++ Sbjct: 258 RRAGMEKTGRNGMKAGRNAAP 278 >gi|238809688|dbj|BAH69478.1| hypothetical protein [Mycoplasma fermentans PG18] Length = 269 Score = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 67/257 (26%), Positives = 115/257 (44%), Gaps = 9/257 (3%) Query: 1 MKDKNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M + N + E F RV K+IA+ G SRR+ E I ++ VKVNG +++ Sbjct: 12 MNEINFLVERFAMKELIRVQKLIAQTGYCSRRKAEEYIEKKLVKVNGKIVQ-LGDKASEN 70 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 D I+++ + + ++ + +L + R+ VGRLD + Sbjct: 71 DEIKINNQLISLQKPNFVYFLLNKPKKTISTVKDPKGRKTVVDLINYSERIAPVGRLDYD 130 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T G LLLTND + L P + LR YRVR + + L+ G+++ G + Sbjct: 131 TTGALLLTNDWEMINKLTHPKYEILRTYRVRIDSPLSLKEFKLINAGLIVNGKFSKQIVD 190 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +DT+ V L G IK++F+ N +V L R+S+ + + GS R ++ Sbjct: 191 QVDTKS-----YLVTLHVGSYHHIKELFKALNHEVINLKRVSFANLTVEKMPEGSYRTLT 245 Query: 238 KKILREQLGPHLLEEAQ 254 K +++ L+E + Sbjct: 246 LKEIKDLKVLISLQEKK 262 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 65/270 (24%), Positives = 97/270 (35%), Gaps = 47/270 (17%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 P R++K +A + SRRE + IA VKVNG V V +D IE+D Sbjct: 11 PVRLNKRMAELKMCSRREADEWIANGWVKVNGKPA-EMGVKVTPSDRIEIDKAAKGQQAN 69 Query: 64 ------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 P+ + + L T + + F P + GRLDI+ Sbjct: 70 QVTILINKPIGYVSGQAEDGHEPAVTLFTPQNRWAEDNARFFFSPQQLRGLAPCGRLDID 129 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------------------- 152 + GLL++T DG +AR L + + Y VR Sbjct: 130 SIGLLVMTQDGRVARQLIGEDSVMEKEYLVRVAYYGPGQSAPTGQLIRMDDDDPVTQNVQ 189 Query: 153 --VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 L L+ G+ + G +V + + L EGK R+I+++ E Sbjct: 190 AVFPPAMLARLRHGLSLDGQQLKPARVEWQNPEQ----LRFVLTEGKKRQIRRMCELVGL 245 Query: 211 KVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 KV L R+ G LG L G R + Sbjct: 246 KVVGLKRVRIGKVMLGNLPVGQWRYLGPHE 275 >gi|118595131|ref|ZP_01552478.1| pseudouridylate synthase [Methylophilales bacterium HTCC2181] gi|118440909|gb|EAV47536.1| pseudouridylate synthase [Methylophilales bacterium HTCC2181] Length = 280 Score = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 74/262 (28%), Positives = 125/262 (47%), Gaps = 6/262 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +R+ K++A++G SRRE+E+ I + +V VN + + +D I +G + Sbjct: 19 GERIHKLLAQSGYGSRREIEKAILEDKVLVNNQNAK-IGQLITPSDKIIFNGKAIFLNND 77 Query: 72 ---RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + +VT + + + +S+GRLD NT GLL+ T+ G Sbjct: 78 NNLPRVLIYHKPEGEIVTENDPGGRSTVFEKLPRIKKGKWMSIGRLDFNTSGLLIFTSYG 137 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + R Y VR G++ +D++ K GI I G + + +G+N W Sbjct: 138 ELANRLMHPKYEIEREYSVRILGELSEDQIKEFKSGIDIDGGKAKFESIYFEGGEGANKW 197 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L+EG+NRE++++FE+F+ V+RLIR+ +G L L G E+++ + L Sbjct: 198 YRVVLKEGRNREVRRMFEYFDLTVSRLIRVRFGIVILPSHLKRGMHTELTQAEVTRLLQK 257 Query: 248 HLLEEAQVNLDAPIYSSETLVR 269 H +E N + R Sbjct: 258 HDIEPNDFNKPQLSNQRKRNKR 279 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 66/227 (29%), Positives = 108/227 (47%), Gaps = 1/227 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 +++ +++ G+ SR E R IA RV V+G ++ ++ + +DG PL +ER Sbjct: 34 LARTLSKLGLCSRTEAVRWIAAGRVAVDGRIVTDPEFPILRGRHRLALDGAPLSASERLY 93 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + + + VGRLD +EGLLL TND A + Sbjct: 94 LMLNKPRGLVTTAQDERGRETVYRCFDGAGLPWLAPVGRLDKASEGLLLFTNDPQWAARV 153 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T + Y V+ D L ++ G++ G QV L Q +AW+ + L Sbjct: 154 TDPGTGPDKTYHVQVDVLPDAALLQRMRAGVMADGEALCAKQVRLLRQGERHAWLEIVLD 213 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR+I+++ F V RL+R++ G LG L G+ R +S + Sbjct: 214 EGRNRQIRRLLAAFGVDVVRLVRVAIGTLVLGELGKGAWRTLSAAEV 260 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 52/216 (24%), Positives = 90/216 (41%), Gaps = 1/216 (0%) Query: 26 ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLV 85 SRRE + I V VNG ++ + D ++ + + + L + Sbjct: 2 CSRREADEFITAGVVSVNGEVVTELGTKIKRGDEVKFHDQTVSIERKIYVLLNKPKDTVT 61 Query: 86 TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 T+ R+ + + R+ VGRLD NT G+LLLTNDG LA L P ++Y Sbjct: 62 TSDDPQARRTVMDLVKGACDERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKYLKKKIY 121 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 V + + + + GI + T + V + + GKNR ++++F Sbjct: 122 HVHLDKNLTKADMEQIAAGIQLDDGEIQ-ADAISYTDEFKKDEVGIEIHSGKNRIVRRIF 180 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 E +KV +L R+ + L G R +++ + Sbjct: 181 ESLGYKVVKLDRVFFAGLTKKGLRRGEWRYLTEPEV 216 >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 = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 53/229 (23%), Positives = 89/229 (38%), Gaps = 6/229 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKAERT 73 + +++ G +RR +IA V+VNG L E V + VDG + Sbjct: 3 LDRILQSQGFGTRRYCGDLIAAGLVEVNGELCEDPRAQFEVD-GLRLTVDGEEWLACTKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + +P V +VGRLD +T GLLLLT+DG Sbjct: 62 YLMLNKPTGYECSQRPRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLTDDGQFIHA 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P + ++Y V V ++ L G+ + + G + + + L Sbjct: 122 QTSPKRKVPKIYEVTTAEPVTPEQAEALCSGVQLLDEPA-PIAAEACEITGERS-LRLTL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +GK ++K++ V+ L R + G +L L G R ++ + L Sbjct: 180 VQGKYHQVKRMVAAAGNHVSALHRSAIGGLRLDPALAEGEWRWLTAQEL 228 >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 = 153 bits (386), Expect = 5e-35, Method: Composition-based stats. Identities = 67/247 (27%), Positives = 114/247 (46%), Gaps = 15/247 (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 ELPSTQWLRVYRVRFHGQVD--QDKLNLLKKGIVIQGICYGDM----------QVTLDTQ 182 + +V+ + +G + Sbjct: 125 MNSDVEREYYLKVKGEITPEVITAMNEGFFAADATKGAHAKTAIKSMEFKPFLDYKIFGS 184 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI-- 240 G + V + EG+NRE+++ F +F+ +V L R+S+G LG L G R Sbjct: 185 SGGFTKLKVVINEGQNRELRRFFGYFDLEVMDLKRVSFGRVDLGMLKPGKWRYFENGEYE 244 Query: 241 -LREQLG 246 LR+ L Sbjct: 245 ALRDFLK 251 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 56/260 (21%), Positives = 97/260 (37%), Gaps = 28/260 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A A + SR+ V I + VKVN L+ A+ + D IE + A + Sbjct: 1 MRLDKFLAEAAVGSRKNVRIYIKEGMVKVNKELVTEPAIEIDENCDVIEYLNEIVSYAGK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + ++ + + VGRLD +TEGLLL TNDG Sbjct: 61 LYYMFNKPAGCITAKTDE-IHKTVFDFLGEAGTKGIFHVGRLDKDTEGLLLFTNDGEFEH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLD---------- 180 + P + Y G + ++ L++G I I ++ +D Sbjct: 120 KIMYPEKHVEKTYFFWALGSLSEEDKKQLEQGTYIGQCKILTKPAKIEVDKFGIYEELKH 179 Query: 181 -------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + + EG+ ++K++ + V L RIS G L Sbjct: 180 EMATDNVNNINSNHGTQPVVSGYLTISEGRKHQVKRMLKSVGCYVVYLKRISIGGLALDK 239 Query: 228 -LLAGSTREVSKKILREQLG 246 L G R +++ +++ LG Sbjct: 240 SLKKGQYRPLTELEIQKVLG 259 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 66/243 (27%), Positives = 113/243 (46%), Gaps = 5/243 (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 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 ++ L + + L + TT R+ + + R+ VGRLD T Sbjct: 313 VVKYGRKILNPEKLVYVLLNKPKDFITTTEDPEGRRTVMELVAKAGPERIYPVGRLDRAT 372 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL TNDG LA L PS + ++Y+V + ++ L +G+ ++ QV+ Sbjct: 373 TGLLLFTNDGELAEKLSHPSNEIRKIYQVEIDKPLAKEDFEKLIEGVELEDGFIKPDQVS 432 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + + GKNR ++++FE ++V +L R +Y L G+ R +++ Sbjct: 433 IV--TPDQQVIGIEIHSGKNRVVRRIFEHLGYEVTQLDRTTYAGLTKKDLPRGNWRFLTE 490 Query: 239 KIL 241 K + Sbjct: 491 KEV 493 >gi|58220684|gb|AAW67949.1| putative rRNA pseudouridine synthase B [Desulfovibrio gigas] Length = 253 Score = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 83/251 (33%), Positives = 121/251 (48%), Gaps = 16/251 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R++KV+A+AG+ASRR + ++ RV+VNG + E + V D IEVDG P Sbjct: 2 DAIRLNKVLAQAGVASRRGADELVFAGRVRVNGAVAESPGMRVTPDDRIEVDGAPMPRKD 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLL 123 L L HKP+ +V+T DP GR TV D LP VGRLD +EGLLL Sbjct: 62 LAAGHALNYILLHKPVEVVSTVRDPQGRRTVLDLLPQALRANTRLYPVGRLDYFSEGLLL 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--------QGICYGDM 175 LT+DG LA L P + Y V G V L ++ G+ + G + Sbjct: 122 LTDDGDLANRLMHPRHHVPKRYEVLVRGDVPTTALQTMRSGMTLPPQAGDPPAGTRLQTV 181 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + K + + L +G NR+++++ E + RL R+ G +LGTL GS R Sbjct: 182 PARILGIKDGKTLLELVLHQGVNRQVRRMCEALGLTILRLTRVGLGSLELGTLEKGSWRR 241 Query: 236 VSKKILREQLG 246 ++K ++ Sbjct: 242 LTKDEVQALQQ 252 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 98/229 (42%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K + G+ SR+++++++ + RVK+NG++ + + D I +D L Sbjct: 1 MRLEKYLVNCGVGSRKDIKKIVEEGRVKINGLVTLNFGLWIEEDRDDITLDNRHLEFKTL 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY + D + VGRLD +TEGLLL TNDG Sbjct: 61 RYYILYKTKGYITAVKDDRHPTIMELLPGWLETKDLFPVGRLDKDTEGLLLFTNDGDTNY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + + Y V + + + L+KG+ I +V Q + + Sbjct: 121 KMTHPDKKISKKYYVELDKPISEGDIKDLEKGVDIGTHICLPAKVQYIEQNK----IFLT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++KK+ KV+ L R+ +G L + G RE+ K + Sbjct: 177 IQEGKYHQVKKMVGSIKNKVSYLKRVKFGNLTLEDMKPGELREIFLKDI 225 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 79/291 (27%), Positives = 128/291 (43%), Gaps = 12/291 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKA 70 +++ KV+ARAG SRRE+E MIA RV ++G + + V + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREIEAMIAAGRVSIDGQVAK-LGDRVDGRAELKVRIDGHAVSLK 60 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L Y L + + SR ++VGRLDINT GLLL T Sbjct: 61 AEEEVICRVLAYYKPEGELCSRSDPQGRPTVFERLPRVRDSRWVAVGRLDINTSGLLLFT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS + R Y +R G+V ++ L L+ G+ ++ ++ +G Sbjct: 121 TDGELANRLMHPSQEVEREYAIRVFGEVTEEMLKNLRTGVELEDGTAQFKRLVPAGGEGL 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI---L 241 N W L EG+NRE+++++E +V+RL+RI YG L L G E+ + L Sbjct: 181 NTWYHGVLSEGRNREVRRLWESQEVQVSRLMRIRYGDITLPKGLPRGGWVELPLEQVNYL 240 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQK 292 R+ +G + D + ++ + K ++ Sbjct: 241 RDLVGLERESRTLLAQDKLGARRQKTLKAGKIRRAVHKHRARPAKGRPNKG 291 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 53/237 (22%), Positives = 91/237 (38%), Gaps = 4/237 (1%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAE 71 + K++ G SR+ ++ RV++ G + + + D VDG E Sbjct: 2 SMTLEKILQSQGFGSRKFCRNLVLGHRVEIAGKICTDPDRKLETDDLAFRVDGETWEYRE 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L L + P + + VGRLD +T GLLLLT+DG Sbjct: 62 KLYLVLNKPAGYECSRQPQHHPSVFALLPEPFVQRGLQCVGRLDQDTTGLLLLTDDGHFI 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + ++Y V + +L L G+ ++ L Q + + Sbjct: 122 HQYTSPRKKVPKIYTVTGVSPFEATQLEKLVTGVQLKDEKTL--TSALACQLIDEYRLRL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 + EGK ++K++ +V L R + G F L LL G R +++ L+ P Sbjct: 180 SITEGKYHQVKRMIAAAGNRVETLHRSAIGGFTLEETLLPGHWRFLNENDLKRLSEP 236 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 77/291 (26%), Positives = 127/291 (43%), Gaps = 7/291 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV ++G + + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGEIA-SLGDRIEADAKVRIDGRSISLKSA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + 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-GTLLAGSTREVSKKILREQLG 246 W V LREG+NRE+++++E +V+RLIRI YG +L +L G E+ + + Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRIRYGMVELPKSLPRGGWVELPMEQVNYLRK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 LE + A S + + I + + Sbjct: 241 LAGLEPETRTMLAADKHSVARAQVKSAKIRRAVRKHKVTGSGKPKPSRQRS 291 >gi|302386350|ref|YP_003822172.1| pseudouridine synthase [Clostridium saccharolyticum WM1] gi|302196978|gb|ADL04549.1| pseudouridine synthase [Clostridium saccharolyticum WM1] Length = 241 Score = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 106/232 (45%), Gaps = 6/232 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERT 73 R+ K + G +R +++ M + R+ V+G ++ + + VDG P+ Sbjct: 5 RLDKYLTEMGEGTRSQIKEMARKGRIFVDGQPEKKTERKIHPEQNQVSVDGRPVSYVRYE 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +V+ D + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 65 YYMLNKPQG-VVSATEDSRYDTVISLIKSRKRDDLFPVGRLDIDTEGLLLITNDGDLAHQ 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV- 191 L P +VY R G++ D +++G+V+ G + + Q + + + Sbjct: 124 LLSPKKHVDKVYFARIQGELPPDAKEQMEEGLVLSDGTPTMPAHLEVLKQGREESSLEIL 183 Query: 192 -GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +REGK ++K++FE +V L R++ G L L G R +S++ + Sbjct: 184 LTIREGKFHQVKRMFETLGCRVIYLKRMTMGSLTLDEALAPGEYRPLSEEEI 235 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 63/232 (27%), Positives = 108/232 (46%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQ 232 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 63/246 (25%), Positives = 107/246 (43%), Gaps = 20/246 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRK 69 RVSK+++ G+ SRRE + I Q V V+G ++ V IE+ G ++ Sbjct: 2 EEKVRVSKLLSELGLCSRREADSYIEQGLVTVDGEVVNELGVRAYRHQKIELQSGAKAQQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRL 114 A R + L + + + + P + GRL Sbjct: 62 ASRITVILNKPVGYISHFDDEQEYQPAASLITPDNYFASPLDKGRNPRFNTKGLAPAGRL 121 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +A++L ++ + Y VR G++ + L+ L+ G+ + + Sbjct: 122 DIDSTGLLVLTQDGRIAKLLIGENSPIEKEYLVRVEGKLSFEDLDKLRHGLTLDDVVLKP 181 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV+ + + LREG+ R+I+++ E KV L R+ G LG L G R Sbjct: 182 AQVSWQNEDQ----LRFVLREGRKRQIRRMCEMVGLKVIGLKRVRIGRISLGPLPPGQWR 237 Query: 235 EVSKKI 240 V + Sbjct: 238 FVRPEE 243 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 66/247 (26%), Positives = 115/247 (46%), Gaps = 7/247 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQQFAITVDGQPLTGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 99 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAT 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + +L L+ G+V +G+ QV++ + NAW Sbjct: 159 VTDPATGPDKTYHVQIDCLPNVAQLAQLQAGVVDPDPEGEGMLLRAKQVSVLREGERNAW 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R + Sbjct: 219 LEIVLDEGRNRQIRRLLAAVDIGVLRLMRVAIGPLAMGELGKGAWRMLSAEEVRALVPAA 278 Query: 249 LLEEAQV 255 Sbjct: 279 HASAPDA 285 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 107/229 (46%), Gaps = 6/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +++ K+I++ G SRR E++I Q RV VN L D I++D L+KAE Sbjct: 3 EKIQKLISQTGYCSRRNAEKLILQNRVFVNNQLAT-IGQKASFDDEIKIDNQILKKAEHI 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 Y + T + + + + + VGRLD NT G++LLTNDG LA Sbjct: 62 YYAFYKPKRVVCTREDNFNRKKIIDFF--PKKEYLFPVGRLDFNTTGIILLTNDGELANK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P Q R Y V +G + +++N K ++ + +K + V L Sbjct: 120 LIHPKFQIERTYLVHTNGDLSDEQINFANKNVIKLNNE---INSRQIIKKKATNKYIVKL 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 ++G N +K++F+ F +V L R+ + L L G R+++ K ++ Sbjct: 177 KQGSNHHVKRLFDHFQIEVLDLKRVQFASINLANLSLGQYRKLTPKEIK 225 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 65/250 (26%), Positives = 115/250 (46%), Gaps = 15/250 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+ SRRE + +I +V + G ++ A +V D + ++G ++ + Sbjct: 2 EKTRLNKFISHNTNYSRREADELIKAGKVSIAGRVVSDLATSVDEDDKVRINGRLIKLKK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +YHK G + + D GR T++D L F++ +SVGRLD +EGLLLLT+ +A Sbjct: 62 EFTVIVYHKQKGELVSKKDDRGRKTIYDTLDKKFAKFVSVGRLDYASEGLLLLTDAPAIA 121 Query: 132 RVLELPSTQWLRVYRVR-----------FHGQVDQDKLNLLKKGIVIQGICYGD-MQVTL 179 L + +V+ +G +D I+ + + + + Sbjct: 122 TALMNSDLEREYYLKVKGEISKEVIEAMTNGFFAKDATKGAHAKTTIKSMEFKPFLAYKV 181 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EG+NRE+++ F +F+ +V L R+S+G L L G R Sbjct: 182 FGSSGGYTKLKVIINEGQNRELRRFFGYFDLEVMDLKRVSFGRVSLDMLKPGKWRYFENS 241 Query: 240 I---LREQLG 246 LR+ L Sbjct: 242 EYEDLRDFLK 251 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 103/232 (44%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A SR+EV ++I +RV +NG + + ++ D + VDG + + Sbjct: 1 MRLDKLLANKAYGSRKEVHQLIKDRRVTINGSITTKKDTHIDIDVDIVAVDGKVVSTTQL 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + L I V+ VGRLD +TEGLLLLTNDG Sbjct: 61 YYVKFHKPKGYVTAVEDSNHPVVMDLLPLEFIKMGVVPVGRLDKDTEGLLLLTNDGVWGH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + + +VY V F G + + + +K+GI++ G ++ + V V Sbjct: 121 SIINGNKHVPKVYYVEFEGTLSDEGIQRIKEGILLGDGTQCKPAEIEFVSL----HSVHV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + EGK ++K++ V L R++ G L + GS E++ + + Sbjct: 177 TIEEGKYHQVKRMISAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELTVEQIE 228 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 66/247 (26%), Positives = 115/247 (46%), Gaps = 7/247 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQQFSITVDGQPLTGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 99 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAT 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + +L L+ G+V +G+ QV++ + NAW Sbjct: 159 VTDPATGPDKTYHVQIDCLPNVAQLAQLQAGVVDPDPEGEGMLLRAKQVSVLREGERNAW 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R + Sbjct: 219 LEIVLDEGRNRQIRRLLAAVDIGVLRLMRVAIGPLAMGELGKGAWRMLSAEEVRALVPAA 278 Query: 249 LLEEAQV 255 Sbjct: 279 HASAPDA 285 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 64/247 (25%), Positives = 112/247 (45%), Gaps = 7/247 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 17 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSITVDGQPLAGPARC 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 77 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAT 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+ + Y V+ + +L L+ G+ +G+ QV++ + NAW Sbjct: 137 VTDPARGPDKTYHVQIDCRPSAAQLTQLQAGVADTDPEGEGVLLRAKQVSVLREGERNAW 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R + Sbjct: 197 LEIVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAEEVRTLVPAA 256 Query: 249 LLEEAQV 255 Sbjct: 257 RASAPDA 263 >gi|307316843|ref|ZP_07596285.1| pseudouridine synthase [Sinorhizobium meliloti AK83] gi|306897465|gb|EFN28209.1| pseudouridine synthase [Sinorhizobium meliloti AK83] Length = 262 Score = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 64/226 (28%), Positives = 108/226 (47%), Gaps = 1/226 (0%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 +++ +++ G SR + E++IA+ RV V G + + V D I VDG + R Sbjct: 27 LARALSKLGYCSRTQAEKLIAEGRVSVAGRKITDLSHWVDIEVDRIAVDGTVIAAQARVY 86 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + VGRLD +EGLLL TND LA+ L Sbjct: 87 LMLNKPRGLVTTRDDPEGRPTVFSCLDNVDVPSLSPVGRLDKASEGLLLFTNDTVLAQRL 146 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T +VY V+ G + + +G+ G ++V N+W+ V L Sbjct: 147 LDPETHLGKVYHVQVRGIFGEAMAARMVEGVTEGGELLRALRVERLKSGDRNSWIEVELD 206 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 EG+NR+I+++ + ++ RL+R+S G +LG L G++R +++ Sbjct: 207 EGRNRQIRRMLDVLGFECLRLLRVSIGEIRLGDLPKGASRPLTEAE 252 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 46/232 (19%), Positives = 100/232 (43%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R +R + + V +G++++ + V+ + +DG + Sbjct: 1 MRLDKFICESTELTRSLAKRALHRGDVTCDGVVVKNSGFKVLPQMAVHLDGTLISVI-GE 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D + S + + GRLD++T GL+L+T+DG + Sbjct: 60 RYIMLNKPVDTICSTIDEEYPSVLSLIDIEKMDTLHIAGRLDVDTTGLVLITSDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +D + + G+ + + + + + V + Sbjct: 120 ITSPKKDCGKRYWVELAEPIDDSLIQVFADGVELRNEDGLTKPALLDII----DSTHVRL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F +V L R + G +L L AG R ++ ++ Sbjct: 176 TISEGKYHQVKRMFAAVGNRVVNLHREAVGAIELNADLAAGEWRFLTDAEVK 227 >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 = 153 bits (385), Expect = 5e-35, Method: Composition-based stats. Identities = 77/294 (26%), Positives = 133/294 (45%), Gaps = 14/294 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+AR+G+ SRR++E +I + RV V+G ++ V + VDG ++ Sbjct: 2 SEKLQKVLARSGLGSRRKMETVIQEGRVSVDGQVV-GLGTRVTVEQILRVDGHTVKYITE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + T + ++ +R IS+GRLDINT GLLL T D Sbjct: 61 ENTICRILAYNKPEGEVCTRSDEAGRKTVFERLPRLNGARWISIGRLDINTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---- 183 G A + PS + R Y VR G VD LN L+ G+ ++ + + ++ Sbjct: 121 GEFANRMMHPSREVEREYAVRIFGNVDDAMLNRLRMGVKLEDGEAKFLSIKESGKEAGGE 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL- 241 G N W V L EG+ RE+++++E +V+RL+R+ YG L L G E++ K + Sbjct: 181 GINRWYHVVLTEGRTREVRRLWESQGVQVSRLMRVRYGHLHLDKQLPQGGWIELNLKEVN 240 Query: 242 --REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 R+ + E +V +D + R ++++++ Sbjct: 241 YFRKLVDLSKETETKVRVDDNKTKNTQARIRRAVKKHTQHRKAGVRRRSTARTR 294 >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 = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 69/270 (25%), Positives = 114/270 (42%), Gaps = 15/270 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--- 67 R++K ++ AGI SRRE +R+I + +V V G + + + +G + Sbjct: 3 EDGIRLNKFLSGAGICSRREADRLIEEGKVTVGGRTA-VPGQKIKKGETVVCNGRTIAAG 61 Query: 68 ----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 K L HKP G+V T SD D + D + R+ GRLD +EGL+L Sbjct: 62 SRGAEKKPERVLLAVHKPCGIVCTTSDKDRAPNIVDMVDC-PVRIYPAGRLDKESEGLIL 120 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDT 181 +TN G L + S+ + Y V V + + ++KG+ + + Sbjct: 121 MTNQGDLVNRMMRGSSGHEKEYLVWIDRPVKPEFIQKMRKGVFLPELDVTTKPC----FA 176 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +K + L +G NR+I+++ E KV +L R+ +LG L AG +R VSKK Sbjct: 177 EKTGEKSFRIVLTQGLNRQIRRMCEQLGCKVRKLKRVRIMNIELGDLKAGESRPVSKKEY 236 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 E + D + + + Sbjct: 237 AELMRRLEHTSGLSLKDREEKQKKDSGKRK 266 >gi|283850767|ref|ZP_06368054.1| pseudouridine synthase [Desulfovibrio sp. FW1012B] gi|283574010|gb|EFC21983.1| pseudouridine synthase [Desulfovibrio sp. FW1012B] Length = 285 Score = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 72/278 (25%), Positives = 119/278 (42%), Gaps = 8/278 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR----K 69 R++K +A AG+ SRR+ + +I RV V+G ++ + + + VDG P+R Sbjct: 8 RLNKALADAGVCSRRQADALITAGRVTVDGAVVTELGNKIDPARNRLAVDGRPVRLSGAA 67 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDG 128 L L +P + T + + + + +R VGRLD +EGLLLLT DG Sbjct: 68 DAPLTLLLNKRPGCVTTANDPEGRPTVFDELPAAYRARRLFPVGRLDYFSEGLLLLTTDG 127 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTL-DTQKGSN 186 LA L P + Y V G V+ L+ + KG+ + +G ++ + Sbjct: 128 ELANRLAHPRWHVDKRYLVTVRGTVNGQTLDTMAKGMTLAEGEQLAPVRARITARLAADR 187 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + L +G NR+I+++ + V +L RI+ GP LG L AG RE++ L Sbjct: 188 FVLEMELSQGVNRQIRRMCRDLDLTVLKLCRIAQGPVSLGGLPAGKCRELAASELAALRR 247 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 L + + + R S R Sbjct: 248 SVGLPSSAAPAKPSVKAPGKAPRKASESPSGKAPGRRR 285 >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 = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 78/233 (33%), Positives = 126/233 (54%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----A 70 R+ K+IA AG SRR E +I Q R++V+ N TD +++DG + Sbjct: 4 RLQKLIANAGYGSRRWAEHLIEQGRIEVDNKTA-SIGDNAEITDCVKIDGQKIDLSRYLE 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + ++ + +K G++ ++ D GR +V+ LP + VGRLD+NT GLLL TN+G L Sbjct: 63 QEIKVIILNKQAGVICSNLDDKGRKSVYSLLPKESRW-VMVGRLDLNTSGLLLFTNNGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS+Q R Y VR GQV+ + L L +G+ + Q+ +G+N W Sbjct: 122 ANKLMHPSSQIDREYAVRVLGQVEDEDLKKLTQGVKLDDGFAKFSQIIFGGGQGANRWYK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V L+EG+ E+++++E +KV+RLIRI +G +L L A + + ++ Sbjct: 182 VVLKEGRKHEVRRLWEELGFKVSRLIRIRFGEIRLPNNLKANQYDYLKPRQVK 234 >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 = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 68/251 (27%), Positives = 104/251 (41%), Gaps = 19/251 (7%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V R+SK +A G+ SRRE + IA VKVNG +++ V IEV Sbjct: 132 KPVPSQPELPRLSKRMAELGLCSRREADEFIANGWVKVNGEVVDVLGTRVAPDAKIEVSK 191 Query: 65 VPLRKAERTRLWLYHKPIGLVT---------------THSDPDGRSTVFDNLPSIFSRVI 109 + T L HKP+G V+ + + + Sbjct: 192 EAHQHQAETVTILLHKPVGYVSGQAEDGYEPAVVLVHPDNQWKEDPSQTVFKRGHLRGLA 251 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 GRLDI++ GLL+LT DG +AR L + + Y VR G + ++ L L G+ + G Sbjct: 252 PAGRLDIDSTGLLVLTQDGRVARRLIGEDSTVEKEYLVRVTGTLSEEGLRKLNHGLSLDG 311 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + +V+ + + LREG+ R+I+++ E V L R+ G LG L Sbjct: 312 VKLKPAKVSWQNEDQ----LRFVLREGRKRQIRRMCELVGLTVVGLKRVRIGSVTLGKLP 367 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 368 VGMWRYLRPGE 378 >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 = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 77/306 (25%), Positives = 130/306 (42%), Gaps = 7/306 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV VNG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARIGLGSRRYMEEVIAAGRVSVNGRVAQV-GERIEPGDELRIDGRKVQFQIE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V + G+ ++ + +G N Sbjct: 121 GELANRLMHPSNEIEREYAVRVMGEVTPKIRQKMVTGVELEDGPAKFESFSEIGGEGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQELKVSRLLRTRYGTVILPRELRTGRWMELDKTDIDNLAK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ Q + T + + + +++ ++ ++ + + Sbjct: 241 SVELKPRQGTGLFGMAKRRTDRMTEKPMAARRGGFLRQQRRDDEKEAPVNTGNQRKSTGF 300 Query: 307 RRNLAS 312 R Sbjct: 301 NRGSKK 306 >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 = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 68/247 (27%), Positives = 109/247 (44%), Gaps = 22/247 (8%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+SK+++ G+ SRRE +R I V V+G + + T I+++ + Sbjct: 2 EKIRLSKLMSEQGLCSRREADRYIELGWVFVDGEQISELGTKIYPTQKIKLNKAAQAQQI 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRST------------------VFDNLPSIFSRVISVGR 113 L +KP+G V+ +P R PS + GR Sbjct: 62 SLVTILLNKPVGYVSGQPEPGYRPAIVLIKPENQFIPKQPAQPNKRFQPSHLKNLAPAGR 121 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI+++GLL+LT DG +A+ + + + Y VR G + ++KL LL G+ + G Sbjct: 122 LDIDSQGLLVLTQDGRIAKQMIGEDSNIEKEYLVRVEGVLPREKLALLNHGLSLDGQPLK 181 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 VT Q + L+EGK R+I+++ E N KV L R+ G +LG L G Sbjct: 182 PANVTWQNQDQ----LRFILQEGKKRQIRRMCELVNLKVTGLKRVRIGKVKLGNLPEGQW 237 Query: 234 REVSKKI 240 R + Sbjct: 238 RYLEDGE 244 >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 = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 53/232 (22%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+ + SR+ +++ + ++ + V+ A NV + + G ++ E Sbjct: 1 MRLDRLLAQEKV-SRKAMKQALLKKEILVDDCPASSLAQNVDTGLQKLVFQGRQIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + + ++ ++GRLD +T GLLLLT++G L Sbjct: 60 NYLMLHKPNGVVTASKDKKLPTVMDLLPPDIQSDQLYAIGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K GIV Q+ + + + + ++ Sbjct: 120 QLLHPQYHVDKSYQVVVNGLLTSDHIQKFKDGIVFLDGITCKPAQLEILSSSPTESRASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R+ +G F L L G R ++ + L+ Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTALKRVQFGDFTLDPELAKGQYRPLNPEELK 231 >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 = 153 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 73/255 (28%), Positives = 116/255 (45%), Gaps = 8/255 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R++K +ARAGI SRR + ++ RVKVN ++ + V D I VDG P++ Sbjct: 2 SREMRLNKALARAGICSRRRADGLVFSGRVKVNDEVVREPGIRVDPEKDSIIVDGRPVKI 61 Query: 70 -----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLL 123 E + L + TT + VGRLD + GLL+ Sbjct: 62 ETEQERELVHVMLNKPVQVVTTTSDPGGRAKVTDLLPDRLRRMRLFPVGRLDYFSRGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQ 182 LTNDG LA L PS + +VYRV+ G + + KL ++++G+V+ +G ++V + Q Sbjct: 122 LTNDGDLAHSLTHPSRKIPKVYRVKMRGDLSKKKLQIMRRGMVLSEGEKLAPVEVKILQQ 181 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L +G NR+I+++ + V L+RI GP LG L G R + + Sbjct: 182 TRDSVLAEMTLVQGINRQIRRMCRDLDMVVLSLVRIRQGPLALGELKPGEWRYLEPGEVS 241 Query: 243 EQLGPHLLEEAQVNL 257 + L Sbjct: 242 QLRKWSSRTNHPQPL 256 >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 = 152 bits (384), Expect = 6e-35, Method: Composition-based stats. Identities = 66/247 (26%), Positives = 114/247 (46%), Gaps = 15/247 (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 ELPSTQWLRVYRVRFHGQVD--QDKLNLLKKGIVIQGICYGDM----------QVTLDTQ 182 + +V+ + +G + Sbjct: 125 MNSDVEREYYLKVKGEITPEVITAMNEGFFAADATKGAHAKTAIKSMEFRPFLDYKIFGS 184 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI-- 240 G + V + EG+NRE+++ F +F+ +V L R+S+G LG L G R Sbjct: 185 SGGFTKLKVVINEGQNRELRRFFGYFDLEVMDLKRVSFGRVDLGMLKPGKWRYFENGEYE 244 Query: 241 -LREQLG 246 LR+ L Sbjct: 245 ALRDFLK 251 >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 = 152 bits (384), Expect = 6e-35, Method: Composition-based stats. Identities = 46/234 (19%), Positives = 97/234 (41%), Gaps = 8/234 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K I + +R ++ + + + +G +++ A V+ + ++G + Sbjct: 4 SRPVRLDKFICESTSLTRSLAKKALHRGDITCDGAVIKDAGFKVLEGMQVCLEGEFISLV 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + +KP+ + + D S + + GRLD +T GL+L+T+DG Sbjct: 64 -GERYLMLNKPVDTICSTIDEVYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQW 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAW 188 + + P + Y V VD+ + + G+ + + + + + Sbjct: 123 SHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELRNEDCLTKPALLEIIEPQ----L 178 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 179 VRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDAELALGEWRYLTSEEI 232 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 125/256 (48%), Gaps = 7/256 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K++ P+R+ KV+A +G+ SRRE+E I V VNG + + D + Sbjct: 82 LKERRSDLSRMEPERLQKVLAASGVGSRREMEEWINNGWVTVNGKTAQ-LGDKITPDDQV 140 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL Y + +V+ S + SR +++GRLDI Sbjct: 141 LVKGNIIKLKWADRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDI 200 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDM 175 NT GLL+LT G L + P + R Y VR G + +++ +L + I+++ Sbjct: 201 NTSGLLILTTSGELVQRFAHPRFEVEREYAVRTLGGLTTEQMRMLTEEGIMLEDGLAKVE 260 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 ++ +G N W V ++EG+NRE++++FE+F+ V+RL+RI +GP L L G Sbjct: 261 RIREQGGEGVNKWYNVVIKEGRNREVRRIFEYFDLTVSRLVRIGFGPIGLPNRLKRGQFY 320 Query: 235 EVSKKILREQLGPHLL 250 E++ + + + Sbjct: 321 ELNPAEVANIVKWADM 336 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 62/245 (25%), Positives = 113/245 (46%), Gaps = 15/245 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + P R++K +A++G+ SRRE + IA V V G ++ A V + + + Sbjct: 8 IYDGAEPIRLNKWLAQSGVCSRREADAFIADGLVSVEGEVVRDAGRKVEAGQSVSFNPQA 67 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-----------SVGRLD 115 + +YHKP+G+V+ + V + VGRLD Sbjct: 68 QASLDAKLTVVYHKPVGIVSGQPEAGETPAVRMIRRPNHWGQLTQWPNQDSKLAPVGRLD 127 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 ++ GLL+L+ DG LA+ + P ++ + Y VR G + + KL L++G+ + G Sbjct: 128 KDSRGLLILSEDGVLAKAIIGPDSELEKDYTVRVRGPIFEAKLKWLRQGLELDGRKLKPA 187 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 Q+ + L+EG+NR+I+++ + +V L R GP ++G L G R Sbjct: 188 ----VVQQVGEQTLRFVLKEGRNRQIRRMCDMCELRVLDLYRSRIGPVEIGDLPEGQWRL 243 Query: 236 VSKKI 240 ++ + Sbjct: 244 LTLEE 248 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 46/232 (19%), Positives = 97/232 (41%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + SR ++ + + V NG +++ + V I ++G L Sbjct: 1 MRLDKFICESTSHSRVSAKKALHRGDVTCNGEVVKNSGFKVTDEHEIRLEGEVLTII-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D + S + S + GRLD +T GL+L+T DG + Sbjct: 60 RFIMLNKPVDTICSTIDEEYPSVISLLDVSRPEDLHIAGRLDADTTGLVLITTDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + + + + G+ + + ++ + + + Sbjct: 120 ITSPKKECGKRYLLETADPLSEALVQQFADGLQLNNEDGLTKPAELEMLGSNQA----RL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++ KV +L R S G +L +L G R ++ ++ Sbjct: 176 TITEGKYHQVKRMLAAVGNKVTKLHRESVGAIELDPSLELGEWRYLTDAEIK 227 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 68/245 (27%), Positives = 109/245 (44%), Gaps = 20/245 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P R+SK +A+ G+ SRRE + I Q VKVNG + V+ D I++D Sbjct: 2 SEPIRLSKQMAQLGLCSRREADHYIEQGWVKVNGEVA-VLGQKVLPGDRIDLDKNAHQQQ 60 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + 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+ + + L +GK R+I+++ E +V L R+ G +LG L G R Sbjct: 181 KVSWQNEDQ----LRFILTQGKKRQIRRMCELVGLRVVGLKRVRIGRIKLGALPPGKWRY 236 Query: 236 VSKKI 240 +S Sbjct: 237 LSPDE 241 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 74/270 (27%), Positives = 124/270 (45%), Gaps = 7/270 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +++ KV+A+AG SRR +E IA RV VNG + V+ D ++ + +R ER Sbjct: 15 GEKLQKVLAQAGFGSRRNMEEWIAAGRVSVNGEPAT-LGMRVVPGDLVKTERRTIRVGER 73 Query: 73 ----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + +V+ S + I+VGRLD NT GLL+ T G Sbjct: 74 DHTARVLLYHKPEGEIVSRDDPEKRASVFDKLPKLRGQKWIAVGRLDFNTSGLLIFTTSG 133 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-LKKGIVIQGICYGDMQVTLDTQKGSNA 187 LA L P + R Y VR G + +D++ LK+G++++ ++ + +G N Sbjct: 134 ELANRLMHPRFEVEREYAVRVQGSMTEDQITQVLKEGVMLEDGPVTFDKLEDNGGEGFNH 193 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V L+EG+NR +++ F+ V+RLIR+ +G L L G + E+ + + + L Sbjct: 194 WYKVMLKEGRNRIVRRTFDALALPVSRLIRVRFGIINLPPRLKRGMSAELGEGEIAQVLD 253 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 + +V AP + + Sbjct: 254 WVGISTDEVEPPAPKFVAPKPSVPGRTRNP 283 >gi|299139090|ref|ZP_07032266.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX8] gi|298598770|gb|EFI54932.1| pseudouridine synthase [Acidobacterium sp. MP5ACTX8] Length = 307 Score = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 86/300 (28%), Positives = 134/300 (44%), Gaps = 27/300 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ K++A+AGIASRR E +I + RV+VNG ++ +T DHI VDG L Sbjct: 10 PRGDRLQKILAQAGIASRRAAETIILEGRVQVNGQVVTELGTRADATRDHIRVDGKLLHG 69 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-----------PSIFSRVISVGRLDINT 118 E R ++ +KP G VTT DP+ R TV L + R+ VGRLD + Sbjct: 70 PEPQRYFMVNKPRGYVTTLDDPEHRPTVMQLLGQDAQKKSVGEHNKLPRLYPVGRLDYLS 129 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC------- 171 EGLLL+TNDG LA L + + Y V+ G + ++ L++GI+I Sbjct: 130 EGLLLMTNDGELANKLSKAAAGVEKTYLVKVSGSPTDEAIDQLRRGIMIDRGRLNEVRSG 189 Query: 172 ------YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ ++G N W V L EG+NR+++K+FE V ++ RI YG L Sbjct: 190 RRDRVLTSPAKIE-QVRRGENPWFEVTLTEGRNRQLRKMFEEIGHHVEKIRRIGYGALVL 248 Query: 226 GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 + G RE++ ++ ++ + P + + Sbjct: 249 -DIPPGGFRELTTGEVQALGRAAAGKKVERKKTLPEAAQLKKPVPPKKRAFKKAVRKRAS 307 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 77/290 (26%), Positives = 130/290 (44%), Gaps = 10/290 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV ++G++ + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGVIA-NLGDRIEADAKVRIDGRAISLKSA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + 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-GTLLAGSTREVSKKI---LRE 243 W V LREG+NRE+++++E +V+RLIR+ YG +L +L G E+ + LR+ Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRVRYGMVELPKSLPRGGWVELPIEQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 G + D + + + K +++ Sbjct: 241 LAGLEPETRTMLAADKHSVARAQVKSAKIRRAVRKHKVTATPKAKPTRQR 290 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 69/256 (26%), Positives = 126/256 (49%), Gaps = 18/256 (7%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 KN + R++K I+ SRRE + +IA+ RVKVN + + V+ +D + +D Sbjct: 2 KNQPEAKEENTRLNKFISHNSKYSRREADAIIAEGRVKVNKKTITDLSTKVLDSDIVAID 61 Query: 64 GVPLRKAERTRL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 P++ + +Y+KP G + T +DP GR +FD L + + + +GRLD +EG+ Sbjct: 62 NKPIKFEKNKMYTVLVYNKPKGELVTKNDPQGRRIIFDTLGAKYKHFLPIGRLDYASEGV 121 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG------------ 169 LLLT+ +A L Q VY+++ G +++ + + G+ ++ Sbjct: 122 LLLTDSVDVANGLMHSDLQR--VYKIKVSGPINKQVEDAMLHGLELEDATKGAWKDSKVK 179 Query: 170 --ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + +D+ K + + + V + EGKNRE+++ F F V L R+ YG L Sbjct: 180 SMSFAPFLGYKIDSVKDTFSKLKVAITEGKNRELRRFFAHFGLDVMDLKRVEYGGISLNN 239 Query: 228 LLAGSTREVSKKILRE 243 L G +R ++++ + Sbjct: 240 LPTGKSRYLTREEYKN 255 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 67/231 (29%), Positives = 105/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 +R+ K++A G SR+EV+ +IA+ RV V+G R I+VDG + A Sbjct: 4 ERLDKLLASTGRWSRKEVKELIARGRVLVDGRPAGRPEDKCEPQSACIQVDGEIVDCAPC 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+ L T + VGRLD +TEGLLLLT+DG L Sbjct: 64 VYIMLHKPAGLLSATQDKKQSTVLDLLPEHLRRRGLFPVGRLDKDTEGLLLLTDDGPLGH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY R GQ+D++ + +L +G+ + G + V Sbjct: 124 DLLSPRKHVDKVYYARVDGQIDKEDVQVLAQGMTLGDGLV--CLPAGLEPLGDGSECLVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 LREGK ++K++ V L R+S GP +L L G R ++++ ++ Sbjct: 182 LREGKYHQVKRMLAARGKPVLYLKRLSMGPLKLDEKLEKGQWRFLTEREVQ 232 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 59/237 (24%), Positives = 104/237 (43%), Gaps = 8/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K +A +R +V+ + + RV V+G + + + +DG P+ A Sbjct: 5 IRLDKFLAEMKKGTRSQVKEAVRKGRVTVDGAVCRSSDFKFDPEVSGVCMDGEPVSYARM 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ D + + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 65 EYFMLNKPQG-VVSATEDNLHPTVISLIGDAKRKDLFPVGRLDIDTEGLLLITNDGKLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQ----KGSNA 187 L P +VY + G + +D + GI + ++ +++ Sbjct: 124 ELLSPKKHVDKVYFAKVKGTLREDIVQAFAGGITLADQTTVLPAELLIESSYEEAGEPVC 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + EGK ++K++FE +V L R+S GP L L G +R ++ K ++ Sbjct: 184 EARLTIHEGKFHQVKRMFEAAGGQVVFLKRLSMGPLTLDPKLKPGESRLLTGKEIKA 240 >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 = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 69/236 (29%), Positives = 116/236 (49%), Gaps = 7/236 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL----- 67 +++ K++A G+ SRRE+ER I RV +NG + + + + +D + Sbjct: 2 SEKIQKILAHFGLGSRREIERWIHDGRVHINGQPAK-LGMRIHLKAKVTIDNQRIRLTTN 60 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + ER L + + + + R + +GRLD+NT GLL+ TN+ Sbjct: 61 KPFERRVLIYHKPLGEICSRSDPRHHVTVFEHLPRLRDQRWVMIGRLDMNTSGLLIFTNE 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G A L PS Q R Y VR G+V++ L+ LKKG++++ + G+N Sbjct: 121 GEFAYRLSHPSYQIEREYVVRVLGKVNKSMLDRLKKGVMLKEKRAAFTSIQASGGSGANR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 W V L+EG+NRE+++++E V+RL+RI +G L L G E+ K ++ Sbjct: 181 WYHVVLKEGRNREVRRLWETQGVTVSRLMRIRFGNVSLPHDLKKGHFFELKTKAIK 236 >gi|322412114|gb|EFY03022.1| Putative 16S pseudouridylate synthetase [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 238 Score = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 98/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SRR+V+++I Q V+++ + NV IEV + + Sbjct: 1 MRLDKLLELVANGSRRQVKQLIKGQDVRIDHEIAWSGRQNVDPGLQLIEVSRKRISHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYFILNKPAGVVSARSDINHVTVLDQLAEKDRHPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G +D+D + GI G Q+T+ + + Sbjct: 121 RMLHPSHHVAKTYMVTVNGFLDEDAPDFFASGIKFPTGEQCRPAQLTILQASQEKSQARL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R S+ +LG L +G+ R ++ Sbjct: 181 VISEGKFHQVKKMFLTYGLKVISLKRTSFAGLELGELASGAYRSLTDAE 229 >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 = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 63/244 (25%), Positives = 114/244 (46%), Gaps = 14/244 (5%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + P R++K + ++G+ SRRE + +IA V ++G ++ A + + + Sbjct: 6 LYDGPEPSRINKWLGQSGVCSRREADALIADGLVSIDGEVVTDAGRKIEPGQTLTLSDRA 65 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----------SVGRLDI 116 + HKP+G V+ +PD V + +GRLD Sbjct: 66 ETALAAGITIVMHKPLGYVSGQPEPDKVPAVRLLTEANRIGPGTAPAADASLPPIGRLDE 125 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLLLL+ DG +A+ + P + + Y VR G V + KL +L+ GI++ G Sbjct: 126 DSRGLLLLSADGVVAKAVIGPDSDLDKEYLVRVVGDVTEKKLKILRHGIMLDGRQLRPAY 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V+ + + LREG+NR+I+++ + +V LIR+ GP +L L G R + Sbjct: 186 VSRM----ESFRLKFILREGRNRQIRRMCAMVDLEVVDLIRVRIGPLKLDNLPEGHWRML 241 Query: 237 SKKI 240 + + Sbjct: 242 TAEE 245 >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 = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 59/238 (24%), Positives = 108/238 (45%), Gaps = 1/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + + R+++ I+ +G+ SRRE + IA +KVNG + V +D + D Sbjct: 91 KPAKKGDDNSIRLNRYISNSGVCSRREADIFIAAGSIKVNGKAVVEMGYKVALSDVVSFD 150 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 GV L +R + L + +S + + S++ VGRLD + GLLL Sbjct: 151 GVVLNPEKRAYILLNKPKDFDSSATDASQPKSALGLVANATKSKIKPVGRLDKSASGLLL 210 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 TNDG L L P + ++Y + D L ++KGIV++ +++ Sbjct: 211 FTNDGELQTKLTKPKNGFRKIYHATLSKSLKADDLEKVRKGIVLEDGPVRVHEISNIEGS 270 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + + KN IK++F+ +++ +L R+ Y L G R ++++ + Sbjct: 271 PA-TEVGIEILSAKNNIIKRLFDHLGYELIKLDRVVYAGLTKKDLPRGQWRTLTEQEI 327 >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 = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 59/236 (25%), Positives = 104/236 (44%), Gaps = 8/236 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ K +A +R +V+ + + RV V+G + + + +DG P+ A Sbjct: 5 IRLDKFLAEMKKGTRSQVKEAVRKGRVTVDGAVCRSSDFKFDPEVSGVCMDGEPVSYARM 64 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +V+ D + + + + VGRLDI+TEGLLL+TNDG LA Sbjct: 65 EYFMLNKPQG-VVSATEDNLHPTVISLIGDAKRKDLFPVGRLDIDTEGLLLITNDGKLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQ----KGSNA 187 L P +VY + G + +D + GI + ++ +++ Sbjct: 124 ELLSPKKHVDKVYFAKVKGTLREDIVQAFAGGITLADQTTVLPAELLIESSYEEAGEPVC 183 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++FE +V L R+S GP L L G +R ++ K ++ Sbjct: 184 EARLTIHEGKFHQVKRMFEAAGGQVVFLKRLSMGPLTLDPKLKPGESRLLTGKEIK 239 >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 = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 75/251 (29%), Positives = 119/251 (47%), Gaps = 25/251 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL-----------ERAAVNVMSTDHIEV 62 +R+ K IA+AGIASRR+ E +I + V D I V Sbjct: 2 ERLQKTIAKAGIASRRKAEELI-----------VSGKVKVNGVVVTELGTQVSPDDDISV 50 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 +GV L+K E+ L + + + + + L + R+ VGRLD +T G+L Sbjct: 51 NGVVLKKEEKVYYLLNKPRRVISSVSDEKGRETVL-AYLSDVRERIYPVGRLDYDTSGIL 109 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG A + PS+ + Y V G + D LN L +GI++ +V L + Sbjct: 110 LLTNDGDFANAMMHPSSHLPKTYEVAVTGVLTDDMLNRLARGIMLSDGKTLPAEVVLLER 169 Query: 183 --KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 K + + + ++EG+NRE++++ E+F+ +V RL RI YG LG L G R++ Sbjct: 170 STKKNKTVLHITIQEGRNREVRRMMEYFHCEVTRLNRIGYGFLDLGNLRQGQYRKLRSFE 229 Query: 241 LREQLGPHLLE 251 +R+ L Sbjct: 230 VRKLLAMVKRS 240 >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 = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 117/234 (50%), Gaps = 2/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E+ R++K +A G+ASRRE ++ Q + VN ++ + + D ++ G +R Sbjct: 33 ESTEGMRLNKYVAHCGVASRREAAEIVKQGHITVNSVVETEPFYQIKTGDIVKYKGQVIR 92 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTND 127 R +L +KP ++TT SD GR TV D + VGRLD +T GLLLLTND Sbjct: 93 PEVRRVYYLMNKPKNVITTTSDEKGRKTVLDLVADRVEERVFPVGRLDRDTTGLLLLTND 152 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA + PS + ++Y + V ++ L ++ G+ ++ + + ++ Sbjct: 153 GELALKMTHPSYKIKKIYHATLNKTVSKEDLEKIRAGLELEDGPA-PVDAADYIIERPHS 211 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + G+NR ++++FE ++V +L R+ G L G R ++ + L Sbjct: 212 EVGLTVHIGRNRIVRRIFEHLGYEVLKLDRVYLGGLTKKDLPRGFVRRLTSQEL 265 >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 = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 104/234 (44%), Gaps = 4/234 (1%) 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 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++ +KP G+V+ D + + + + GRLDI+T GLLL+T+DG L Sbjct: 62 YFMLNKPAGVVSATKDSNNSTALDLIFEHRSDELQIAGRLDIDTTGLLLITDDGQWNHRL 121 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + ++YRV + D L G+ ++G + + T ++ + V + + Sbjct: 122 TSPRSDCQKIYRVTLGIPITPDYAEKLANGVWLKGEKHPCLPAT--MEQIDDETVLLSIA 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 EGK ++K++F V L R G L L G R ++ + + P Sbjct: 180 EGKYHQVKRMFAALGNHVEALHRTQVGGIILDESLEPGDYRALTDAEVASIMAP 233 >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 = 152 bits (383), Expect = 8e-35, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 95/237 (40%), Gaps = 6/237 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--EVDGVPLRKAERT 73 + +++ G SR+ +I V VNG + + TD + V+ P E+ Sbjct: 3 LERILHAQGFGSRKNCRILIRHHAVTVNGEPCDNPFADFD-TDKLAFTVNEEPWEYREKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + P + V +GRLD +T GL+LL++DG Sbjct: 62 YLMLNKPANYECSHKPQHHPSVFALLPHPLLERGVQCIGRLDEDTTGLILLSDDGQFIHR 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + ++Y V VD D++ L++G+ + L ++ S+ + + L Sbjct: 122 MSSPKWKVPKIYEVGAKHAVDADQIRQLQEGVQLVDEPAPIA--ALACEQISDQVLHLTL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 EGK ++K++ +V L RI G L L G R +++ L G Sbjct: 180 AEGKYHQVKRMLAAVGNRVESLKRIRIGELVLPDDLAEGQWRWLTESELASLNGAAR 236 >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 = 152 bits (383), Expect = 8e-35, Method: Composition-based stats. Identities = 64/229 (27%), Positives = 107/229 (46%), Gaps = 7/229 (3%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERTRLWL 77 +++ G+ SR E R IA+ RV V+ ++ + + H I VDG PL R L L Sbjct: 2 LSKLGVCSRTEAARWIAEGRVSVDARVIHDPEFPIRADQHEAITVDGQPLAGPARVYLML 61 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + T + + + + VGRLD +EGLLL +ND A + P Sbjct: 62 NKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAAVTDP 121 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAWVTVG 192 + + Y V+ + ++L L+ G++ G QV L + NAW+ + Sbjct: 122 AIGPDKTYHVQVDCRPGAEQLAQLQAGVIDPAPDGDGALLRAKQVRLLREGERNAWLEIV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + Sbjct: 182 LDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAAEV 230 >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 = 152 bits (383), Expect = 8e-35, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 103/239 (43%), Gaps = 10/239 (4%) 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 L-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + R+ +GRLD +EGL+L+T++G Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKESEGLILMTSNGN 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y V + V + L + +G+ I + G Sbjct: 123 IVNEILRAENRHKKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCHTARIAKFG----F 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 179 RIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQR 237 >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 = 152 bits (383), Expect = 8e-35, Method: Composition-based stats. Identities = 67/251 (26%), Positives = 104/251 (41%), Gaps = 29/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA G+ SRRE + + V VNG + NV+ D IE+D + ++ Sbjct: 45 VRINKRIADMGMCSRREADEWVENGWVTVNGEVAT-MGQNVVPGDRIEIDQKAQERQDQQ 103 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRLDINT 118 L +KP+G V+ ++ V GRLDI++ Sbjct: 104 VTILLNKPMGYVSGQAEDGHEPAVVLITNENRWNEDRSKTRFNFSQLKGLAPCGRLDIDS 163 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------HGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +AR + ++ + Y VR ++KL LL+ G+ + Sbjct: 164 VGLLVLTQDGRVARQIIGEDSEVDKEYLVRVTFGDRDVDVQSVFPEEKLALLRHGLSLDE 223 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 QV + + L EGK R+I+++ E KV L RI G LG L Sbjct: 224 QPLKPAQVDWQNPEQ----LRFVLTEGKKRQIRRMCEQVGLKVVGLKRIRIGGVTLGNLP 279 Query: 230 AGSTREVSKKI 240 G R ++ Sbjct: 280 TGQWRYLAAHE 290 >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 = 152 bits (383), Expect = 8e-35, Method: Composition-based stats. Identities = 64/247 (25%), Positives = 109/247 (44%), Gaps = 7/247 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 17 LARVLSKLGVCSRTEAARWIAAGRVSVSARVVRDPEFPIRGDQQSSIAVDGQPLAGLARC 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 77 YLMLNKPRGVVTTVRDEQGRDTVYRCFDDAGLPWIAPVGRLDKASEGLLLFSNDPQWAAT 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-----YGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + +L L G+V QV++ + NAW Sbjct: 137 VTDPATGPDKTYHVQIDCRPSAAQLVQLHAGVVDPDPQGQGLLLRAKQVSVLREGERNAW 196 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + + + Sbjct: 197 LEIVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAEEVSALVPAA 256 Query: 249 LLEEAQV 255 Sbjct: 257 HASAPDA 263 >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 = 152 bits (383), Expect = 8e-35, Method: Composition-based stats. Identities = 71/228 (31%), Positives = 109/228 (47%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A G+ASRR+VE + RV +NG ++ + V TD + +DG + R Sbjct: 3 IRLNKYLASCGLASRRKVEEFVLSGRVALNGRVVRDLSTTVEETDTVTLDGKEVSPESRV 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + D R+ VGRLD +EGLL+LTNDG A Sbjct: 63 YIVMNKPQGVVCAVEDRFDMTVIDVLPPAYSKFRLFPVGRLDKESEGLLVLTNDGDFAHF 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS+ R Y V + ++ +K+ L KG I+G + V + WVTV + Sbjct: 123 LMHPSSNIKRDYEVLLNEELTVEKMKLWLKGFEIEGGFVRPLSVQPLCRPPYGRWVTVSI 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+ RE++ + E +KV LIR G +L L G T ++S+ L Sbjct: 183 TEGQKREVRLMAEHLGYKVMVLIRRRIGRMELRNLNKGQTVKLSQDEL 230 >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 = 152 bits (383), Expect = 8e-35, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+ + SR+ +++ + ++ + V+ A NV + + G ++ E Sbjct: 1 MRLDRLLAQEMV-SRKAMKQALLKKEILVDDCPARSLAQNVDTGLQKLVFQGRQIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPNGSVTASKDKGLPTVMDLLPPDIQSDQLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K+GIV ++ + + + + ++ Sbjct: 120 QLLHPQYHVDKSYQVVVNGLLTPDHIQYFKEGIVFLDGTTCKPAKLDILSASPTESRASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R+ +G F L L G R ++ + L Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTTLKRVQFGDFTLDSELAEGQYRPLNPEELE 231 >gi|217974709|ref|YP_002359460.1| pseudouridine synthase [Shewanella baltica OS223] gi|217499844|gb|ACK48037.1| pseudouridine synthase [Shewanella baltica OS223] Length = 250 Score = 152 bits (383), Expect = 9e-35, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ Sbjct: 22 VRLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GV 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T DG + Sbjct: 81 RYLMLNKPVDTICSTIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITTDGQWSHK 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + G+ + + + + + V + Sbjct: 141 ITSPKKECGKRYLVQLADPVDASLIAIFAAGVELRGEDGLTKPALLEIIEPQ----LVRL 196 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 197 TITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALALGEWRYLTAEEI 247 >gi|289668818|ref|ZP_06489893.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 285 Score = 152 bits (383), Expect = 9e-35, Method: Composition-based stats. Identities = 68/246 (27%), Positives = 116/246 (47%), Gaps = 7/246 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + + H I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQHSSITVDGSPLAGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 99 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAT 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + +L L+ G+V +G+ +V++ + NAW Sbjct: 159 VTDPTTGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPEGEGMLLRAKRVSVLREGERNAW 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RLIR++ GP +G L G+ R +S + +R L Sbjct: 219 LEIVLDEGRNRQIRRLLAAVDIGVLRLIRVAIGPLAMGELCKGAWRMLSAEEVRALLPAP 278 Query: 249 LLEEAQ 254 Sbjct: 279 ASAPDA 284 >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 = 152 bits (383), Expect = 9e-35, Method: Composition-based stats. Identities = 63/241 (26%), Positives = 104/241 (43%), Gaps = 10/241 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VD PLR E Sbjct: 2 TIRLNKYIAETGFCSRREADRLIGERRVTVNGVPAGTGAV-VGEEDTVLVDDQPLRIREA 60 Query: 73 TRL-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +L + T + R+ +GRLD ++EGL+L+T++ Sbjct: 61 KKLGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y V + V + L + +G+ I + + G Sbjct: 121 GNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG--- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 178 -FRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQ 236 Query: 248 H 248 Sbjct: 237 R 237 >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 = 152 bits (383), Expect = 9e-35, Method: Composition-based stats. Identities = 76/299 (25%), Positives = 124/299 (41%), Gaps = 8/299 (2%) Query: 2 KDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 +K V+ P ++ K +A+ G+ SRRE+ER I Q R+ + G + VM + Sbjct: 8 PNKRAVEPPPEPGKGDKLQKALAKTGLGSRREIERWIEQGRLTIGGRKAK-LGDRVMLGE 66 Query: 59 HIEVDGVPLRKAERTR---LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + +DG P+ E R L + + + R+ R I VGRLD Sbjct: 67 RVTLDGKPVELDETERVRCLLYHKPVGEVCSRKDPEGRRTVFDSLPELQGGRWIVVGRLD 126 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 NT GLLL T DG LA + PS+ R Y VR G + L+ L+ G+++ Sbjct: 127 FNTSGLLLFTTDGELAHKMMHPSSTIEREYLVRVMGNATDEILDTLRAGVILDDGPARFT 186 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + G N W V L EG+NRE+++++E V+RL R+ YG + L G Sbjct: 187 DIVDGGGDGINRWFYVVLMEGRNREVRRLWESQGLTVSRLKRVRYGEVFIPSKLKKGEWT 246 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 E+ + + G L + ++ + + V + ++ Sbjct: 247 ELPDRDVEVLYGMAKLPAKPIMPLGDKSRAKLERLAKKSGRETVRRLASGKGGFQRRRK 305 >gi|303233542|ref|ZP_07320201.1| pseudouridylate synthase [Finegoldia magna BVS033A4] gi|302495346|gb|EFL55093.1| pseudouridylate synthase [Finegoldia magna BVS033A4] Length = 235 Score = 152 bits (383), Expect = 9e-35, Method: Composition-based stats. Identities = 57/233 (24%), Positives = 121/233 (51%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K+++ IA+R+E+++M+ + + VN + +++++ ++ D +++ + + Sbjct: 1 MRLDKMLSEMKIATRKEIKQMVKKGIITVNDVTVKKSSEHIDENNDVVKIYDEVIEYRKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +K G+ + DP ++ + D + VGRLD++T GLL++TNDG A Sbjct: 61 L-YFVMNKRKGVTSHSKDPMHKTVIDDMGELCVFDLNPVGRLDLDTTGLLIITNDGKFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 L P + + Y+V +VD+ + +KGI + + I ++ + + Sbjct: 120 NLISPKKEVSKKYKVTLRDKVDEKYNDTFEKGIKLMPEDIITKPAKMEII----DDYNCY 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK ++K++FE +V L R+ G F+L L G RE++ + LR Sbjct: 176 LTIKEGKYHQVKRMFEKVGNEVVELQRVQIGDFKLPEDLEEGDFRELTDEELR 228 >gi|46370355|gb|AAS89963.1| hypothetical protein [Agrobacterium vitis] Length = 240 Score = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 137/237 (57%), Positives = 163/237 (68%) 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 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRD 270 RLIRISYGPFQLG L +EV ++LR+QLGP L+ T Sbjct: 181 RLIRISYGPFQLGDLPESQVQEVRGRMLRDQLGPRLISLKPREWSCARTIPPTDGPR 237 >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 = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 98/232 (42%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ IA+R + + M+ RV VNG ++ A + V D I VDG E Sbjct: 3 IRIDKFLSTQAIATRSQAKEMLRAGRVLVNGTPVKAADLKVDPEGDEIRVDGRVYGYQEH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + T + GRLD +T G +L+T+DG A Sbjct: 63 LYLMLNKPQGVVSATDDKVHRTVLDLVPPELRRRGLFPAGRLDRDTVGFVLITDDGEFAH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y G + +++L++L +G+V+ G ++T+ Q G + + Sbjct: 123 NILSPRHHVPKTYEAGLDGPIGENELSVLAQGVVLGDGTKCRPAELTVL-QSGERPLIQI 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ +IK++F +V L R G L +L G +S L Sbjct: 182 VIVEGRYHQIKRMFAAVGRRVLTLKRTKIGGLALDPSLKEGDCIAISPSNLE 233 >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 = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 81/240 (33%), Positives = 132/240 (55%), Gaps = 6/240 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q+N R+ KVI +G ASRR E+ I R++VN ++ A V +D + +D + Sbjct: 4 QKNEEAVRLVKVILESGFASRRNCEKAIMSGRIRVNNEVILDPAYRVKESDSVSIDRKLI 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +R R +KP+G+V+T GR + + I R+ GRLD + G++++TND Sbjct: 64 E-RQRKRYMALYKPLGVVSTTKYLPGRRIITEFFKGIKERLFYAGRLDSESRGIMIITND 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-----GTLLAGSTREVSKKILR 242 + + + EGKNREI+K+F++ +KV L RIS G GTL AG R+++KK + Sbjct: 183 KIRLTINEGKNREIRKIFDYLGYKVIDLERISVGCVSKYDETSGTLEAGHIRDLTKKEIE 242 >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 = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 77/290 (26%), Positives = 130/290 (44%), Gaps = 10/290 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+ARAG SRRE+E IA RV ++G++ + + + +DG + Sbjct: 2 SEKLQKVLARAGHGSRREMEAWIAAGRVSIDGVIA-NLGDRIEADAKVRIDGRAVSLKSA 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + + + 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-GTLLAGSTREVSKKI---LRE 243 W V LREG+NRE+++++E +V+RLIR+ YG +L +L G E+ + LR+ Sbjct: 181 WWHVCLREGRNREVRRLWESQEVQVSRLIRVRYGMVELPKSLPRGGWVELPIEQVNYLRQ 240 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 G + D + + + K +++ Sbjct: 241 LAGLEPETRTMLAADKHSVARAQVKSAKIRRAVRKHKVTATPKAKPTRQR 290 >gi|327188988|gb|EGE56177.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli CNPAF512] Length = 267 Score = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 70/266 (26%), Positives = 121/266 (45%), Gaps = 12/266 (4%) Query: 1 MKDKNIVQENFTPQRVS-----------KVIARAGIASRREVERMIAQQRVKVNGILLER 49 M+D+ Q+ +++ + +++ G SR + ER+IA+ RV ++G + Sbjct: 1 MRDRRPPQKTRERPKLTADAAGKRVTLPRALSKLGYCSRTQAERLIAESRVSIDGRTVND 60 Query: 50 AAVNVMS-TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + V T I VDG+ + + L L + T H + + Sbjct: 61 PSAWVDLVTAKIRVDGLVIAAEAKIYLILNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHL 120 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 VGRLD +EGLLL TND A++L P T + Y V+ +D +++ + GI Sbjct: 121 SPVGRLDKASEGLLLFTNDTEFAQILLDPVTHVTKTYHVQIDRLLDDEEIAAMTSGIRHD 180 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G V Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L Sbjct: 181 GELLTATAVRRLRQGDRNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGEL 240 Query: 229 LAGSTREVSKKILREQLGPHLLEEAQ 254 G+ R ++ L+ +E A+ Sbjct: 241 PKGAARALTAAELQALRRSAGMERAK 266 >gi|313904278|ref|ZP_07837656.1| pseudouridine synthase [Eubacterium cellulosolvens 6] gi|313470828|gb|EFR66152.1| pseudouridine synthase [Eubacterium cellulosolvens 6] Length = 256 Score = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 59/254 (23%), Positives = 103/254 (40%), Gaps = 25/254 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ + +R+E++ I + VNGI + ++ + + DG P+R E Sbjct: 1 MRLDKYLSDMNVGTRKELKTKIRKGAATVNGIRITDPGFSIKGDEDVTFDGKPIRYNEYE 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++T D ++ + + VGRLD NT GLLL+TNDG L Sbjct: 61 YYMLNKPAG-VITATEDRKQQTVLDLLGKDRRKDLFPVGRLDKNTVGLLLITNDGDLNHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLD------------ 180 L P + Y + G+V + KG+ I ++ + Sbjct: 120 LLSPKKHTDKKYYAKIDGRVTDADVEAFAKGLRIDDELTALPAKLEILSFRETATDADRE 179 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLL 229 + + + V + EGK +IK++F +V L R+S G L +L Sbjct: 180 DLLTAEHPESSLSSGVSEICVTIHEGKFHQIKRMFHAVEKEVLYLKRLSMGSLVLDPSLP 239 Query: 230 AGSTREVSKKILRE 243 GS R +++ +R Sbjct: 240 EGSWRPLTEDEIRN 253 >gi|307304763|ref|ZP_07584513.1| pseudouridine synthase [Shewanella baltica BA175] gi|306912165|gb|EFN42589.1| pseudouridine synthase [Shewanella baltica BA175] Length = 250 Score = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ Sbjct: 22 VRLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GV 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T DG + Sbjct: 81 RYLMLNKPVDTICSTIDETYPSVLSLVDVPKPDTLHIAGRLDADTTGLVLITTDGQWSHK 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + G+ + + + + + V + Sbjct: 141 ITSPKKECGKRYLVQLADPVDAGLIAIFAAGVELRGEDGLTKPALLEIIEPQ----LVRL 196 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 197 TITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALALGEWRYLTAEEI 247 >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 = 152 bits (383), Expect = 1e-34, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITILAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 75/258 (29%), Positives = 124/258 (48%), Gaps = 18/258 (6%) Query: 4 KNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 + ENF PQR+SKV+A AG+ASRR E +I +V VNGIL V + D I Sbjct: 148 RRFYNENFKEQPQRLSKVLAAAGVASRRTSEELIFDGKVTVNGILCNTPQTRVDPSRDII 207 Query: 61 EVDGVPLRKA-ERTRLWLYHKPIGLVTTH-----------SDPDGRSTVFDNLPSIFSRV 108 V+G + K + +KP G + + D S N + R+ Sbjct: 208 YVNGNRIPKKLPPKVYFALNKPKGYICSSGEKEIKSAISLFDEYLSSWDKRNPGTPKPRL 267 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GL+++TNDG A+ L PS+ + Y G + + L + +G +++ Sbjct: 268 FTVGRLDVATTGLIVVTNDGDFAQKLSHPSSSLPKEYITTVVGDIHKRHLMAISEGTMVE 327 Query: 169 GICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 G+ V L ++ A + + + EG+N E++++ + +V+ L R+ G F+L Sbjct: 328 GVHCVPDSVELMPKQHDIPRARLRIVVHEGRNHEVRELVKNAGLEVHSLKRVRIGGFRLP 387 Query: 226 GTLLAGSTREVSKKILRE 243 L G E+ + L+ Sbjct: 388 SDLGLGKHVELKQSELKA 405 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 80/291 (27%), Positives = 133/291 (45%), Gaps = 11/291 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+AR+G SRRE+E MI R++VNG + + + + + +DG + Sbjct: 2 TEKLQKVLARSGYGSRREIEAMIGAGRIRVNGKVAQV-GERIDADASVRIDGHEVVIKSE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + L T + +R ++VGRLD+NT GLLL T D Sbjct: 61 NSVVCRVLTYHKPEGELCTRKDPEGRPTVYERLPRMSGARWVAVGRLDVNTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT-LDTQKGSN 186 G LA L PS + R Y VR G+V +N LKKG+ ++ + + +G N Sbjct: 121 GELANRLMHPSQEVEREYAVRIFGEVTDAMINRLKKGVQLEDGLAHFDTIKAVGGGEGMN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK---ILR 242 W V L+EG+NRE+++++E +V+RLIR+ YG +L L G E+ LR Sbjct: 181 RWYHVTLKEGRNREVRRLWESQEVQVSRLIRVRYGDIKLESGLPQGGWSELELDQVNELR 240 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 ++G +++ V+ + R + N +++ Sbjct: 241 AKVGLQPEDKSFVDPRHQESKQRKFAKIRKATSKRKDRLREAQRVNKNKRK 291 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 70/261 (26%), Positives = 115/261 (44%), Gaps = 18/261 (6%) Query: 4 KNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 + EN PQR++KV+A AG+ASRR E +I Q +V VNG + V S D Sbjct: 145 RRFYNENIKEREPQRLAKVLAAAGVASRRTSEELIFQGKVTVNGSVCTSPQTKVDISKDS 204 Query: 60 IEVDGVPLRKAERTRLWL--YHKPIGLVTTH---------SDPDGRSTVFDNLPSIFSRV 108 I V+G + K +L+ + + + + R+ Sbjct: 205 IYVNGNRISKKLPPKLYFAVNKPKGYICSCGEDSKSVVSLFNDYLKGWNKIQPGLPKPRL 264 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GL+++TNDG A+ L PS+ + Y V G V + L + +G I Sbjct: 265 FTVGRLDVATSGLIIVTNDGEFAQKLAHPSSNVTKEYVVTIDGAVHKKHLIAISEGTKID 324 Query: 169 GICYGDMQVTLDTQKGS--NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 GI V + + + + EG+N E++++ + +V L R+ G F+L Sbjct: 325 GIMCIPDLVESLDAQSDTRKTRLKIVVHEGRNHEVRELVQNAGLQVYALKRVRIGRFRLP 384 Query: 226 GTLLAGSTREVSKKILREQLG 246 L G E+ + ++ G Sbjct: 385 ADLGIGKFVELKQADIKALEG 405 >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: Composition-based stats. Identities = 90/321 (28%), Positives = 135/321 (42%), Gaps = 20/321 (6%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAE-----R 72 +ARAG SRRE+E +I Q RV V+G + + V T I +DG L E Sbjct: 1 MARAGHGSRREIETIIQQGRVSVDGKI-SKLGDRVEVTQATKIRLDGHLLSIKESEEAVC 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L Y L T + + SR ++VGRLD+NT GLLL T DG LA Sbjct: 60 RVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLFTTDGELAN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L PS + R Y VR GQ+D +K+ L +G+ ++ +T +G N W V Sbjct: 120 RLMHPSREVEREYAVRVFGQIDDEKIKQLSRGVQLEDGPAAFRTITFQGGEGINQWYNVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLE 251 L EG+NRE+++++E +V+RLIR+ YG L L G E+ L+ L Sbjct: 180 LTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD---LKATNYLRELV 236 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 E + + + R + N I + + + + Sbjct: 237 ELDSETVSKLPVEKDRRRVKANQIRRAVKR--------HTEVAGRQVAGRQGSARKGSTR 288 Query: 312 SNVWMAKGIHSSFLSDSGQRE 332 NV A ++ + +R Sbjct: 289 QNVGNAAPAAATGRRGANKRG 309 >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 = 151 bits (382), Expect = 1e-34, 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: 120 VEQRDFGSPTGEGIRLQKVLAQAGVASRRHAEILIDAGRIEVNGKIVLTQGVRVNPHADI 179 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDI 116 I VDGV + E + ++ +KP GL +T SD GR V D + R+ VGRLD Sbjct: 180 IRVDGVRINVNEDMQYFVLNKPRGLQSTMSDDMGRPCVGDIVGERIAAGQRLFHVGRLDA 239 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 TEGLLLLTNDG LA L P + + Y G+ D+ + L+ GI + Sbjct: 240 ATEGLLLLTNDGELANRLMHPKYEVTKTYLATVLGEADKRLIKQLRDGIELDDGPAKADF 299 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + + + L EG+ ++++ + + V RL+R QLG G+ R + Sbjct: 300 VQIVDAHQGKSLIRIELHEGRKHIVRRMLKTAGFPVERLVRTKIHTIQLGEQTPGAVRAL 359 Query: 237 SKKIL 241 + L Sbjct: 360 NSSEL 364 >gi|46202419|ref|ZP_00053237.2| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 236 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 58/230 (25%), Positives = 93/230 (40%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ ++IA G S+R+V+ MI V +G +L+ + V D I VDG PL Sbjct: 1 MRLIRLIANLGYGSQRDVKAMIKDGLVTRADGSVLDDTS-KVAHED-IRVDGEPLDPPPG 58 Query: 73 TRLWLYHKPIGLVTTHSD-PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L +T + V VGRLD ++ GLLLLT+DG LA Sbjct: 59 LVLMLNKPEGYTCSTSDPGRVVYELLPPRFMHRNPIVAPVGRLDRDSSGLLLLTDDGPLA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V + ++ + G ++ + G + Sbjct: 119 HRVTSPKRHVPKTYEVTLARPLTGEEGAVFASGTLMLRSENTPLAPAELMVTGPQT-ARI 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ ++K++F V RL R + G LG L G R ++ + Sbjct: 178 TITEGRYHQVKRMFAAVGNHVERLHRAAIGGLDLGDLPEGQWRMLTPDEI 227 >gi|283769102|ref|ZP_06342007.1| pseudouridylate synthase [Bulleidia extructa W1219] gi|283104288|gb|EFC05666.1| pseudouridylate synthase [Bulleidia extructa W1219] Length = 242 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 84/237 (35%), Positives = 132/237 (55%), Gaps = 3/237 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ KVIA+AGIASRR+ E +IAQ +VKVNG +++ V V D I V+G ++ E Sbjct: 2 QRLQKVIAQAGIASRRKAEELIAQGKVKVNGKVVKEMGVQVSFDDEIMVNGQSIQ-KEEK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L +KP +++T D R+T+ D + R+ VGRLD T GLLL+TNDG A Sbjct: 61 VYFLLNKPKKMISTVHDDLKRATIMDCFRDVKQRIFPVGRLDYETTGLLLVTNDGEFANA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTV 191 + PS ++Y V +G ++ L LKKGI ++ V + + + + + Sbjct: 121 MMHPSHHMDKIYEVYVNGYLEDHMLTKLKKGIPLEDGMTLPASVEVLERSRKTNKTRIRL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 ++EGKNRE++++ +F ++V+ L RI Y LG L G R + K +++ L Sbjct: 181 TIQEGKNREVRRMMAYFGFEVHTLQRIGYSFLNLGNLRQGEYRRLKKFEVKKLLTIA 237 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 73/238 (30%), Positives = 119/238 (50%), Gaps = 12/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 RV K++++ GIASRR E +I ++R+K+NG ++ D +E+DG ++ ++T Sbjct: 4 RVQKILSQLGIASRRHAEILILEKRLKLNGQIV-LLGDKADPNHDLLELDGKIIKSHKKT 62 Query: 74 RLWLY--HKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDG 128 +L+ +KP+G++ + D RS V D LP + VGRLD+N+ G LLLTNDG Sbjct: 63 QLFYILVNKPVGIICSCKDSQNRSIVMDLLPSNLRKGMGIHPVGRLDMNSSGALLLTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P ++Y V G Q L ++G+V+ G + + Sbjct: 123 NLTLRLTHPRYHLPKIYEVLVRGNFTQAILKDWRQGVVLDGKKTLPAYLEVINNNRQYTN 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-----GTLLAGSTREVSKKIL 241 + + L EGKNR I+++ + F V +L R + GP L + G R +S + Sbjct: 183 LKIILTEGKNRHIRRIAQKFELDVIKLHRTAIGPISLSTSKVDNVKLGHYRLLSSSEI 240 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 78/241 (32%), Positives = 119/241 (49%), Gaps = 7/241 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+ARAGI SRR +E IA RV VNG + V D + VDG + + Sbjct: 2 SEKLQKVLARAGIGSRRSMEDWIASGRVSVNGKKAKV-GDRVERGDVLRVDGRSMDYSGE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R + Y + T + 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 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+ RE+++++E +V+RLIR+ YG L L AG E+S+ + E Sbjct: 181 WYHVIIKEGRRREVRRMWETQGVQVSRLIRVRYGCVTLPRGLKAGRWEELSEDQISELAQ 240 Query: 247 P 247 Sbjct: 241 L 241 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 67/262 (25%), Positives = 115/262 (43%), Gaps = 15/262 (5%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR------- 68 ++K +++ G+ SRRE +R+I +V V+G V + DGVP+ Sbjct: 36 LNKWLSQMGVCSRREADRLIEAGKVWVDGSPAA-MGQKVKPGQKVVCDGVPVNGGSGADS 94 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + +KP G+V T SD D + + L R+ VGRLD ++EGLLL+TN G Sbjct: 95 RKPKPVLLVVNKPRGIVCTTSDKDRAMNIVEYLDY-PERIYPVGRLDKDSEGLLLMTNQG 153 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSN 186 L + + Y V + D ++ + KGI + +V K Sbjct: 154 DLVNKIMRSGNAHEKEYIVTVDRPLTDDAMDRMAKGIYLRELETVTRPCKVKRVDGK--- 210 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 ++ L +G NR+I+++ E V RL+R+ +L L G++REV ++ RE + Sbjct: 211 -TFSIILTQGLNRQIRRMCEACGCHVERLVRVRIMNIRLDGLETGASREVGQEEYRELMR 269 Query: 247 PHLLEEAQVNLDAPIYSSETLV 268 + + Sbjct: 270 LLRDSSSLPGGRGRAVPHKART 291 >gi|296085982|emb|CBI31423.3| unnamed protein product [Vitis vinifera] Length = 296 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 77/258 (29%), Positives = 125/258 (48%), Gaps = 18/258 (6%) Query: 4 KNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 + ENF PQR+SKV+A AG+ASRR E +I + RV VNG + V D I Sbjct: 34 RRFYNENFRDPPQRLSKVLAAAGVASRRNSEELIFEGRVTVNGSVCNTPQTRVDPARDMI 93 Query: 61 EVDGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------- 108 V+G L K +KP G + + + + +S + + S Sbjct: 94 YVNGNRLPKKLPPKVYLALNKPKGYICSSGEKESKSVLCLFDDYLKSWNKQNPGVPKPRI 153 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GL++LTNDG A+ L PS++ + Y G V++ L + +G VI+ Sbjct: 154 FTVGRLDVATTGLIILTNDGDFAQKLSHPSSKLSKEYIATIDGVVNKRHLIAISEGTVIE 213 Query: 169 GICYGDMQVTLDTQKGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 G+ V L + + + + V + EG+N E++++ + +++ L RI G F+L Sbjct: 214 GVHCTPDSVELLPPQPNISKPRLRVVVHEGRNHEVRELVKSAGLQIHSLKRIRIGGFRLP 273 Query: 226 GTLLAGSTREVSKKILRE 243 L G E+ + L+ Sbjct: 274 SDLGHGKHVELKQGDLKA 291 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 96/233 (41%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K + I +R +V R+I + NG + + D + +D V +R + Sbjct: 1 MRVDKFLHAMRIGTRTQVRRLIKDGHITANGEPVISGKQQINPGSDTVFLDDVQVRYQQY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T N + VGRLD +TEG+L++TNDG L+ Sbjct: 61 FYYVMNKPVGVITATTDSAAKTVMDLFNTTDFRDDLFPVGRLDKDTEGILVITNDGALSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD--TQKGSNAWV 189 L P+ +VY G++ +L GI ++ Q + + + + Sbjct: 121 DLLSPNHHVTKVYEAEVTGEITAAQLANFNDGITLKDGTELQPAQAEIVQFHEIENFTTI 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++ +V L RI +G L LLAG+ R ++ L Sbjct: 181 RIMIHEGKYHQVKRMVGTLGERVVGLRRIKFGSLTLPVGLLAGNYRALTDDEL 233 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 67/294 (22%), Positives = 113/294 (38%), Gaps = 26/294 (8%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + R+SK ++ G+ SRRE + I++ VKV+G ++ V I +D Sbjct: 1 MSDTPADLVRLSKRMSELGLCSRREADEWISKGWVKVDGQVVSELGSKVRPDQKITIDRK 60 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 PL + L+T + + PS ++ Sbjct: 61 AQDQQNERVTIILNKPLGYVSGQAEDGHEPARILITPRNRWIDDPSPRRFNPSQLKSLVP 120 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF-------HGQVDQDKLNLLKK 163 GRLDIN+ GLL+LT DG +A+ + ++ + Y VR + + KL LL Sbjct: 121 AGRLDINSTGLLVLTQDGRIAKTIIGENSSVEKEYIVRVAMTDGRSNSEFPPAKLALLNH 180 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+ + G +V+ + + LREG+NR+I+++ + KV L R+ G Sbjct: 181 GLELDGKPLEKAEVSWLNEDQ----LKFVLREGRNRQIRRMCDLVGLKVLALKRVRVGNV 236 Query: 224 QLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 +LG L G R + P ++ AP R + Sbjct: 237 RLGKLPVGKWRYLEDGESFTGPAPKRASSSRPAAGAPRRPKTFKPRKPNFRKTR 290 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 62/238 (26%), Positives = 109/238 (45%), Gaps = 9/238 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKA 70 R+ K +A AG +R EV++ I++ +V+VNG + A + + + G + Sbjct: 2 KKIRLDKYLADAGAGTRSEVKKYISKAQVQVNGKTVLNPAEKIEPEEVEVCCLGQVVHVD 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L+ + T TV + +PS + VGRLD +TEGLLL+TNDG L Sbjct: 62 RYEYYLLHKPAGCVSATEDV--RERTVMEFVPSRRKDLFPVGRLDKDTEGLLLITNDGEL 119 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN--- 186 A L P + Y + G++ Q+ ++G+ I ++ + + + Sbjct: 120 AHRLLAPRRHVPKQYFAQIKGKMTQEDAQKFRQGVEIGEKNPTLPAKLEILSVENGEEGW 179 Query: 187 -AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + + EGK +IK++ + +V L RIS GP L L G R +++K + Sbjct: 180 ISCINLTIEEGKFHQIKRMVQAVGKEVIYLKRISMGPLYLDENLERGQCRPLTEKEIE 237 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 104/239 (43%), Gaps = 10/239 (4%) 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 L-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + R+ +GRLD +EGL+L+T++G Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKESEGLILMTSNGN 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y V + V + L + +G+ I + + G Sbjct: 123 IVNEILRAENRHKKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG----F 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 179 RIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQR 237 >gi|315269053|gb|ADT95906.1| pseudouridine synthase [Shewanella baltica OS678] Length = 250 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ Sbjct: 22 VRLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GV 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T DG + Sbjct: 81 RYLMLNKPVDTICSTIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITTDGQWSHK 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + G+ + + + + + V + Sbjct: 141 ITSPKKECGKRYLVQLADPVDAGLIAVFAAGVELRGEDGLTKPALLEIIEPQ----LVRL 196 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 197 TITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALALGEWRYLTAEEI 247 >gi|160876850|ref|YP_001556166.1| pseudouridine synthase [Shewanella baltica OS195] gi|160862372|gb|ABX50906.1| pseudouridine synthase [Shewanella baltica OS195] Length = 256 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ Sbjct: 28 VRLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GV 86 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T DG + Sbjct: 87 RYLMLNKPVDTICSTIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITTDGQWSHK 146 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + G+ + + + + + V + Sbjct: 147 ITSPKKECGKRYLVQLADPVDAGLIAVFAAGVELRGEDGLTKPALLEIIEPQ----LVRL 202 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 203 TITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALALGEWRYLTAEEI 253 >gi|153002130|ref|YP_001367811.1| pseudouridine synthase [Shewanella baltica OS185] gi|151366748|gb|ABS09748.1| pseudouridine synthase [Shewanella baltica OS185] Length = 246 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +GI+++ + V + ++G P+ Sbjct: 18 VRLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLEGEPIALV-GV 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T DG + Sbjct: 77 RYLMLNKPVDTICSTIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLITTDGQWSHK 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + G+ + + + + + V + Sbjct: 137 ITSPKKECGKRYLVQLADPVDAGLIAVFAAGVELRGEDGLTKPALLEIIEPQ----LVRL 192 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 193 TITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALALGEWRYLTAEEI 243 >gi|332976275|gb|EGK13136.1| ribosomal small subunit pseudouridine synthase A [Psychrobacter sp. 1501(2011)] Length = 234 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 56/235 (23%), Positives = 104/235 (44%), Gaps = 11/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K I++A SR+E ++++ + VN +++ +++V D + G PL A Sbjct: 1 MRLDKFISKATELSRKEAKKVLHASEITVNDEVVKDGSLHVDVLNDEVMWAGEPLSVATG 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +R L +KP G T + + GRLD++T G LLL++DGG Sbjct: 61 SRYLLLYKPEGFECTLKPKEYPMVTDLIAVPELGNLRIAGRLDVDTTGALLLSDDGGWLH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQG--ICYGDMQVTLDTQKGSN 186 + P +VY + +D+ + + +GI++ G + + + Sbjct: 121 RVTSPRHLHEKVYELTLAEPMDEAEQAHAVKKVAQGILLDGDYEPTKPATLEFIDETHA- 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGK ++K++ +F KV L R S G L L G +R +++ + Sbjct: 180 ---RLILTEGKYHQVKRMMGYFGNKVIELHRASIGGVTLEGLEKGESRFLTEDEI 231 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 67/241 (27%), Positives = 102/241 (42%), Gaps = 14/241 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA--VNVM--STDH----IEVDGV 65 R++K +A G SRR R+I +V N L + + V+G Sbjct: 1 MRLAKYLAITGCCSRRAATRLIRDGQVIFNDRLANHVDSVTLIDTPEGQRCQEHVIVNGE 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 ++ E WL++K + T +L + R+ VGRLD ++ GLLLLT Sbjct: 61 LIQAVEAKAYWLFNKA--VGTDSRLLAELPNSLIHLLPVSPRLYPVGRLDKDSHGLLLLT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 NDG L L P + Y V+ D+ L + G+ +G+ +T Sbjct: 119 NDGELTHQLMHPDFGHSKTYHVQVDRPFDEVFLANMAAGVSYKGVTTLPCTITRLDVDR- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ +KV L RIS QLG LL GS R +S L + L Sbjct: 178 ---YEIILTQGLNRQIRRMSHALGFKVIDLKRISIQSLQLGNLLEGSMRPLSSTELADLL 234 Query: 246 G 246 Sbjct: 235 A 235 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 71/269 (26%), Positives = 117/269 (43%), Gaps = 6/269 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL- 67 +R+ K +A AG+ SRRE+E IA+ RV+VNG V D ++V G + Sbjct: 29 PEAASERLHKALASAGLGSRREMEEWIAEGRVQVNGETATV-GSKVGPRDVVKVSGRRVY 87 Query: 68 ---RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + L + +V+ + S+ I+VGRLD NT+GL++ Sbjct: 88 LRFDEKRTRILIYHKSEGEIVSRDDPGGRATVFDALPRLRGSKWIAVGRLDYNTDGLMIF 147 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T G LA L P + R Y VR G++ +D + L G+ + +G Sbjct: 148 TTSGDLANRLMHPRFEVEREYAVRVLGELTEDMIAELLAGVELDDGPAQLQSCFAAGGEG 207 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 +N W V ++EG+ RE++++FE V+RL RI +GP L L G E+ ++ + Sbjct: 208 ANRWYRVVIKEGRKREVRRLFEHLGLTVSRLTRIRFGPIVLPPQLRRGQKTELDDDLVAQ 267 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 + +E + + T Sbjct: 268 VMRWAGMEASPRRKTRGVPDKHTRKPRIR 296 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 63/231 (27%), Positives = 103/231 (44%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +A G SR E++ I + V +NG ++ A + D + ++ E Sbjct: 6 IRIDKYLADMGAGSRTEIKDDIRKGLVYINGNKVKSAGEKADTLNDEVAYKENIIKYIEF 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + T + TV D + S + VGRLD +TEGLLLLTNDG LA Sbjct: 66 EYILLNKPAGVVSATEDRKE--KTVLDIIDSKRKDLFPVGRLDKDTEGLLLLTNDGMLAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y V G + + L K GI + + ++ + + + + Sbjct: 124 ELLSPKKHVDKKYYVETDGLLTDEHRKLFKNGIKVDDEFTAKEAELQILSSGDKGSKAYL 183 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +REGK ++K++ E V L RIS GP L + G++R ++ + Sbjct: 184 TIREGKYHQVKRMMEAVGNTVTYLKRISMGPLTLPEDMETGTSRMLTDSEI 234 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 98/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADIDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R +++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTESE 229 >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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 64/244 (26%), Positives = 101/244 (41%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK+++ GI SRRE + I Q V V+G + + I +D Sbjct: 2 EKVRLSKLMSARGICSRREADVYIEQGSVYVDGQPVRELGTKIYPWQEIVLDRAAQIRQN 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y I LV S + +P + GRLDI Sbjct: 62 QQVTILLNKPVGYVSGQPEPGYKSAISLVNNDSHFHQDRSSLRFVPQHLKNIAPAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+ T DG +A+ L +Q + Y VR G + ++ L LL G+ + G + Sbjct: 122 DSQGLLVFTQDGRIAKQLIGEYSQIEKEYLVRVSGNLTREGLALLNHGLQLDGQALKPAR 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V+ Q + L+EGK R+I+++ E V L R+ G +L L G R + Sbjct: 182 VSRLNQDQ----LRFILQEGKKRQIRRMCELVGLNVTGLKRVRIGQIRLADLPEGKWRYL 237 Query: 237 SKKI 240 K Sbjct: 238 GKNE 241 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 66/242 (27%), Positives = 112/242 (46%), Gaps = 14/242 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + P R++K + ++G+ SRRE E +IA V ++G ++ A + + ++ Sbjct: 8 DGPEPVRINKWLGQSGVCSRREAEGLIADGLVSIDGEVVRDAGRKIEPGQTLTLNDTGEA 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----------SVGRLDINT 118 L HKP+G V+ +P V + VGRLD ++ Sbjct: 68 ALAAGVAILLHKPVGYVSGQPEPGKIPAVRLLTTANRVGDGETPARDASLPPVGRLDEDS 127 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+L++DG +A+ + P + + Y VR G V + KL L+ G+ + G +VT Sbjct: 128 RGLLMLSSDGVVAKAVIGPQSDLDKEYLVRVAGTVTEAKLTKLRHGLELDGRQLKPARVT 187 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + LREG+NR+I+++ E +V L RI GP +LG L G R ++ Sbjct: 188 QMEPQR----LRFILREGRNRQIRRMCELVGLEVVDLYRIRIGPVKLGDLPEGRWRMLTA 243 Query: 239 KI 240 Sbjct: 244 DE 245 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 72/250 (28%), Positives = 105/250 (42%), Gaps = 29/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IA V+VNG + + V TD IEVD + ER Sbjct: 18 RLNKRMAELGLCSRREADDWIASGWVRVNGQVAA-MGLQVAPTDRIEVDPAARGQQERQA 76 Query: 75 LWLYHKPIGLVT---------------THSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 L HKP+G V+ + + P + GRLDI++ Sbjct: 77 TILLHKPMGYVSGQAEDGHTPAVALINPRTHWREDPSRQRFSPPQLRGLAPCGRLDIDSV 136 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ---------VDQDKLNLLKKGIVIQGI 170 GLL+LT DG +AR L ++ + Y VR H +L L G+ + G Sbjct: 137 GLLVLTQDGRVARHLIGEDSEVEKEYLVRVHYGDIATDVQSAFPAGQLARLCHGLSLDGQ 196 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + L+EGK R+I+++ E KV L RI G LG L Sbjct: 197 ALKPAKVEWQNPEQ----LRFVLKEGKKRQIRRMCELVGLKVVGLKRIRIGRVVLGNLPV 252 Query: 231 GSTREVSKKI 240 G R + Sbjct: 253 GQWRYLGPNE 262 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 79/249 (31%), Positives = 136/249 (54%), Gaps = 4/249 (1%) 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 + + S+GRLD++TEGLL+LT+DG L R Sbjct: 102 HTYILYNKPKGQLCSRLDKKKRPLIYDFIDVAPNVQ-SIGRLDMDTEGLLMLTDDGALTR 160 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDM-QVTLDTQKGSNAWVT 190 L P+ + R YR R G V+ + L L++ G+ I D +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 IIILRGRWREVRRTLEECGHPVRRLMRTRFGPIKLDEDMPKGTWRALNRGEIRKLRDRVI 280 Query: 250 LEEAQVNLD 258 +A+ + D Sbjct: 281 NPDAKTDSD 289 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 55/225 (24%), Positives = 96/225 (42%), Gaps = 5/225 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K++A G +R+EV+R++ V+V+G ++ + + +EV G + Sbjct: 6 ERIDKILAHLGFGTRKEVKRLLRAGGVRVDGRVVRDPGMKLDPARARLEVAGEVVVWQRH 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + LY + T ++ VGRLD +TEGLLLLT DG L Sbjct: 66 HHVMLYKPAGVVTATRDARHATVLDCLPASLARKDLLPVGRLDRDTEGLLLLTTDGALLH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY + +G+V+ ++ L V + Sbjct: 126 RLTHPRWKVPKVYYAELEQPARPEDAQAFAEGLVLSEGRCLPAELELL---EDPRRVRLV 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 L EG+ ++K++F +V L R++ GP +L L G R + Sbjct: 183 LWEGRYHQVKRMFAARGNRVTYLKRLAVGPLELDPKLKPGEARAL 227 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 70/266 (26%), Positives = 121/266 (45%), Gaps = 12/266 (4%) Query: 1 MKDKNIVQENFTPQRVS-----------KVIARAGIASRREVERMIAQQRVKVNGILLER 49 M+D+ Q+ +++ + +++ G SR + ER+IA+ RV ++G + Sbjct: 1 MRDRRPPQKTRERPKLTADAAGKRVTLPRALSKLGYCSRTQAERLIAESRVSIDGRTVND 60 Query: 50 AAVNVMS-TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + V T I VDG+ + + L L + T H + + Sbjct: 61 PSAWVDLVTAKIRVDGLVIAAEAKIYLILNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHL 120 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 VGRLD +EGLLL TND A++L P T + Y V+ +D +++ + GI Sbjct: 121 SPVGRLDKASEGLLLFTNDTEFAQILLDPVTHVTKTYHVQIDRVLDDEEIAAMTSGIRHD 180 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G V Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L Sbjct: 181 GELLTATAVRRLRQGDRNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGEL 240 Query: 229 LAGSTREVSKKILREQLGPHLLEEAQ 254 G+ R ++ L+ +E A+ Sbjct: 241 PKGAARALTAAELQALRRSAGMERAR 266 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 86/293 (29%), Positives = 133/293 (45%), Gaps = 6/293 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 +++ KV+ARAG SRRE+E I + RV VNG + V TD I++DG ++ E Sbjct: 3 EKLQKVLARAGQGSRREMENRIREGRVLVNGDVAT-LGDRVKVTDTIKLDGYEVKVTEAG 61 Query: 72 --RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R + + T + R I+VGRLDINT GLLL T DG Sbjct: 62 ASRRVIIYNKPEGEVCTRKDPEGRPTVFDKLPKLRGERWIAVGRLDINTSGLLLFTTDGE 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PST+ R Y VR G+++ D + LKKG+++ + +G N W Sbjct: 122 LANKLMHPSTEIDREYLVRVMGEINDDHIETLKKGVLLDDGMANFTDIVDGGGEGINRWF 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 V + EG+NRE+++++E KVNRL R+ +GP L G + E+ + + Sbjct: 182 YVCVMEGRNREVRRLWESQGVKVNRLKRVRFGPVFLPSKAKMGRSVEMDEAEVNGLCDLV 241 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 L A+ S+ + ++ + P F + + K+ Sbjct: 242 GLTHAKSAPKTQQQKSDAKRQKGKSMGARKPKGFDWQSSDKPEFKPKKPGKRT 294 >gi|289664226|ref|ZP_06485807.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 285 Score = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 68/246 (27%), Positives = 116/246 (47%), Gaps = 7/246 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + + H I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRADQHSSITVDGSPLAGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 99 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAT 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + +L L+ G+V +G+ +V++ + NAW Sbjct: 159 VTDPTTGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPEGEGMLLRAKRVSVLREGERNAW 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RLIR++ GP +G L G+ R +S + +R L Sbjct: 219 LEIVLDEGRNRQIRRLLAAVDIGVLRLIRVAIGPLAMGELCKGAWRMLSAEEVRALLPAP 278 Query: 249 LLEEAQ 254 Sbjct: 279 ASAPDA 284 >gi|152995917|ref|YP_001340752.1| pseudouridine synthase [Marinomonas sp. MWYL1] gi|150836841|gb|ABR70817.1| pseudouridine synthase [Marinomonas sp. MWYL1] Length = 238 Score = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 51/235 (21%), Positives = 99/235 (42%), Gaps = 12/235 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ +R+E + I V VNG ++ A V + + ++G L+ + Sbjct: 5 MRLDKFVCKSTELTRKEAVQCIHSGEVCVNGEVVTSEATQVHENNTVLLNGDRLKTRDFR 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + + + + ++ I+ GRLD +T GL+L+T+DG + Sbjct: 65 YILMNKPAGTVCSNIDEVYPSVFNYLDVDKASELHIA-GRLDADTTGLVLITDDGRWSFN 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQKGSNA 187 + LPS +VYRV+ + ++ L + ++ + T K Sbjct: 124 ITLPSNDCCKVYRVQLSQAIPAERSGELVTQFKQGLQLQGEQGLTRPAKLDIITPK---- 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EGK ++K++F +V L R G L L G R +SK + Sbjct: 180 EVLLTITEGKFHQVKRMFSAVGNRVVGLHREQIGEVYL-DLDVGQWRYLSKSEVE 233 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 67/197 (34%), Positives = 108/197 (54%), Gaps = 3/197 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTV 191 + P + +VY R G +++ L L +G+ I G + + + V + Sbjct: 120 MIHPRNEIDKVYVARVKGIANKENLRPLTRGVEIDGKKTKPAVYEILKVDPVKNRSVVQL 179 Query: 192 GLREGKNREIKKVFEFF 208 + EG+N ++KK + Sbjct: 180 TIHEGRNHQVKKCLKLL 196 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 60/241 (24%), Positives = 112/241 (46%), Gaps = 13/241 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-- 66 + PQRV+K +A++G+ SRRE E +IA V ++G + A ++ + + Sbjct: 13 DEAEPQRVNKWLAQSGVCSRREAEALIADGLVSIDGETIADAGRKILPGQTLTLADRAAA 72 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + + +P + + P + + +GRLD ++ Sbjct: 73 SLGGFTAVLNKPVGYVSGQPEPGHVPAVRLLTAANLSGEGAAPDARASLPPLGRLDEDSR 132 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLL+L++DG LA+ + P + + Y VR GQVD+ KL L+ G+ + G V++ Sbjct: 133 GLLILSDDGVLAKAVIGPQSDLDKEYVVRVAGQVDERKLARLRHGLELDGRKLKPATVSV 192 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L+EG+ R+I+++ + +V L+R+ GP +LG L G R ++ + Sbjct: 193 IQGN----TLRFVLKEGRKRQIRRMCDLVGLRVVDLLRVRIGPLKLGDLPEGRWRVLTPQ 248 Query: 240 I 240 Sbjct: 249 E 249 >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 = 151 bits (381), Expect = 1e-34, Method: Composition-based stats. Identities = 61/256 (23%), Positives = 101/256 (39%), Gaps = 25/256 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A + I R+ V I VKVNG ++ ++++ D +E G + + Sbjct: 1 MRLDKFLAESAIGRRKIVRTYIKDGMVKVNGKIITEPSLDINEKLDDVEYLGKKVIHNGK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + T + TVFD + V VGRLD +TEGLLLLTNDG Sbjct: 61 VYYMFNKPAGCVTATRDN--VHKTVFDYFHEDMNGVFHVGRLDKDTEGLLLLTNDGEFEH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDT--------- 181 + P + Y G D + L++GI I ++ + Sbjct: 119 KVMYPEKHVEKTYFFWALGSFDDEDKKQLEEGIFIGNNESLTKPAKIDVHKSGLYKEFKE 178 Query: 182 -------QKGSNAWV---TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLA 230 + + V + + EG+ ++K++ + V L RIS G +L L Sbjct: 179 EIPIKNLENKDHQLVVSGYLTISEGQKHQVKRMLKAVGCYVIYLKRISIGGLKLDESLKM 238 Query: 231 GSTREVSKKILREQLG 246 G R+++KK + Sbjct: 239 GDYRDLTKKEIERIFE 254 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 76/254 (29%), Positives = 120/254 (47%), Gaps = 7/254 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+ K +A +G+ SRRE+E I V VNG + + V D + V G ++ Sbjct: 72 EPVRLQKALAASGVGSRREMEEWIQNGWVTVNGKVAQ-LGDKVQPEDQVLVKGSVIKLKW 130 Query: 72 RTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL Y + +V+ S + SR +++GRLDINT GLL+LT Sbjct: 131 PDRLPRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTS 190 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKGSN 186 G LA PS + R Y VR G++ D++ LL +G++++ ++ +G N Sbjct: 191 GELANRFAHPSFEVEREYAVRVLGELGMDEMRLLTSEGVMLEDGLARVERIHSQGGEGVN 250 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 W V L+EG+NRE++++FE F V+RL+R +GP L L G E++ + + Sbjct: 251 KWYNVVLKEGRNREVRRIFEHFGLTVSRLVRTGFGPIGLPNRLKRGQFYELNAAEVASVM 310 Query: 246 GPHLLEEAQVNLDA 259 L Sbjct: 311 KWADLPLPDSRRRP 324 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 74/256 (28%), Positives = 122/256 (47%), Gaps = 13/256 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE +++I +VKVNG ++ A V+ D + V+G P++K+ + Sbjct: 1 MRLNKFISHHTSFSRREADKLIFDGKVKVNGKVVTNPAYEVLDGDKVAVNGKPVKKSTKY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +Y+KP G + T D GR T++D+LP + I +GRLD +EGLL+LT+ +A Sbjct: 61 TCIIYNKPRGELVTKKDDRGRKTIYDSLPKKYKHFIPIGRLDFASEGLLILTDSPKVADA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQ--------VTLDTQK 183 L + R++ + + +K I ++G + + Sbjct: 121 LMKSDLPRVYKLRIKGNITPEIEKAMQEGVEIGVEGAHEKTKQEKIKLKPFYSYQIIKND 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI--- 240 + + V + EGKNRE+++ F F V L R+SYG L L G TR K+ Sbjct: 181 PKYSTLKVAITEGKNRELRRFFAHFGRDVLDLKRLSYGWVALNALPTGKTRYFDKREYKL 240 Query: 241 LREQLGPHLLEEAQVN 256 L+E L + N Sbjct: 241 LKEFLKERDAKAKNKN 256 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 53/232 (22%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+ + SR+ +++ + ++ + V+ + NV + + G ++ E Sbjct: 1 MRLDRLLAQEKV-SRKAMKQALLKKEILVDNCPASSLSQNVDTGLQKLVFQGRQIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLLLHKPNGVVTASKDKKLPTVMDLLPPDIKSYQLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y++ +G + + + K GIV Q+ + + + + ++ Sbjct: 120 QLLHPQYHVDKSYQMVVNGPLTSEHIQKFKDGIVFLDGTTCKPAQLEILSSSPTESHASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L R+ +G F L L G R ++ + L Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRVQFGDFTLDPELSEGQFRSLNPEELE 231 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 70/280 (25%), Positives = 121/280 (43%), Gaps = 8/280 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K+ + P R+ K ++ +G+ SRRE+E I V VNG V D + Sbjct: 199 LKEVRVDHAEIEPVRLQKALSSSGVGSRREMEEWIEAGLVTVNGKKA-SLGDKVGPQDKV 257 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V G ++ RL + + +VT + + SR +++GRLD+ Sbjct: 258 LVKGDQIKLKWPDRLPRVIMYHKEEGEIVTRDDPEGRVTVFDRLPQAKSSRWVAIGRLDV 317 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLLL+T G LA + PS + R Y VR G++ + + + KG+ ++ + Sbjct: 318 NTSGLLLITTSGELANRMMHPSFEVEREYSVRVLGELTPEIMKEMTKGVELEDGEARFDR 377 Query: 177 --VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 T ++ +N W V ++EG+NRE++++FE F V+RL+R+ +G L L G Sbjct: 378 IFQTGGQEESANQWYNVVIKEGRNREVRRMFEHFGLTVSRLMRVRFGNIGLPPRLKRGQF 437 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 E++ + + L Sbjct: 438 YELNAAEVAAVMKWSNLTVTGGKKAGGQRRGSPRKPKAAR 477 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +GI+++ + V + + G P+ Sbjct: 18 VRLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVCLQGEPIALV-GV 76 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T+DG + Sbjct: 77 RYLMLNKPVDTICSTIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLVTSDGQWSHK 136 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + G+ + + + + + V + Sbjct: 137 ITSPKKECGKRYLVQLADPVDAGLIAIFAAGVELRGEDGLTKPALLEIIEPQ----LVRL 192 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 193 TITEGKYHQVKRMFAAVGNHVQELHRESVGQIELDPALALGEWRYLTAEEI 243 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 107/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDEQLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP + + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPQHPTVLDLFPEDQRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLITLPAQLEPI----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ KV RL R G L L G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWRPLNAEEI 227 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 45/232 (19%), Positives = 97/232 (41%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + SR ++ + + V NG +++ + V I ++G L+ Sbjct: 1 MRLDKFICESTSHSRVSAKKALHRGDVTCNGEVVKTSGFKVTDEHEIRLEGEVLKVI-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D + S + + GRLD +T GL+L+T DG + Sbjct: 60 RFIMLNKPVDTICSTIDEEYPSVIGLLDVIRPEDLHIAGRLDADTTGLVLITTDGKWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y + + ++ + G+ + + ++ L + Sbjct: 120 ITSPKKECGKRYLLETADPLTEELIGKFATGLQLNNEDGLTKPAKLELL----GTHQARL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++ KV +L R G +L +L G R +++ ++ Sbjct: 176 TITEGKYHQVKRMLAAVGNKVTKLHREVVGEIELDSSLELGQWRFLTEAEIK 227 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 53/239 (22%), Positives = 107/239 (44%), Gaps = 2/239 (0%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 DK I + R++K I+ +G+ SRR+ + I V VNG ++ +V D ++ Sbjct: 30 DKQIKNPSA-GMRLNKYISNSGVCSRRDADIYIKSGNVTVNGEVIIEMGHHVKLEDEVKF 88 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG + + + L VT + + + + S++ VG+LD + GL+ Sbjct: 89 DGRRINPEPKAYVLLNKPKSFYVTGSYEKGKLTALDLVQNASKSKLAPVGKLDTSAMGLI 148 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L TNDG LA+ L ++Y+V + + L ++K G I+G ++ Sbjct: 149 LFTNDGTLAKKLSGHKNGIRQIYQVELTKPLRESDLEVIKDGPFIEGSKVK-IEEAAFVD 207 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + LR + ++++F+ +++ ++ R+ Y L G R ++++ + Sbjct: 208 NRPKNIVGLELRSQRAHIVQRIFKKLGYEIEKMDRVIYANLDKKNLPRGHYRHLTRQEV 266 >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 = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 53/231 (22%), Positives = 98/231 (42%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R + +++I Q R+ +G ++ V+ I DG + T Sbjct: 1 MRLDKYICESTTMTRSQAKKVIIQGRITSDGTVMRNTGYKVLENTPICFDGNLINVR-GT 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP + + D S + ++ GRLD +T GL L+T+DG + Sbjct: 60 RYIMLNKPKDFICSTVDEQFPSIINLIKVDKPDQLCIAGRLDADTTGLALITDDGQWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + YR V+Q+ + L K+GI + + + + + T V + Sbjct: 120 ITSPRRNCSKRYRATLAQPVEQNAVTLFKEGIQLKSENVPCLPATLEILTDN----EVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R G +L L G R ++ + Sbjct: 176 TIHEGKYHQVKRMFAAIGNLVVELHREQIGEIKLDTDLKLGEWRYLTTDEV 226 >gi|332971035|gb|EGK10006.1| ribosomal large subunit pseudouridine synthase F [Kingella kingae ATCC 23330] Length = 243 Score = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 69/245 (28%), Positives = 109/245 (44%), Gaps = 20/245 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A I SRRE + I Q VKVNG + V+ D I++D ++ Sbjct: 2 TEPIRLSKRMAELKICSRREADSYIEQGWVKVNGAVA-VLGQKVLPNDRIDLDKRAHQQQ 60 Query: 71 ERTRLWLYHKPIGLVT---------------THSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + L +KP+G V+ + G ++ PS + GRLD Sbjct: 61 TQRVTILLNKPVGFVSGQPEKDYRAAIELITESNHWQGDTSRIAFHPSQLRGLAPAGRLD 120 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +A+ L + + Y VR G + L LL G+ + G Sbjct: 121 IDSVGLLVLTQDGRIAKQLIGEQSDSEKEYLVRVKGTLSPQGLALLNHGLSLDGEKLRPA 180 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 181 KVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRMGKVKLGALPTGQWRY 236 Query: 236 VSKKI 240 + + Sbjct: 237 LGENE 241 >gi|289668229|ref|ZP_06489304.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 240 Score = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 64/239 (26%), Positives = 105/239 (43%), Gaps = 10/239 (4%) 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 L-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + R+ +GRLD ++EGL+L+T++G Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILMTSNGN 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y V + V + L + +G+ I + + G Sbjct: 123 IVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG----F 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 179 RIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQR 237 >gi|289663281|ref|ZP_06484862.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 240 Score = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 64/236 (27%), Positives = 103/236 (43%), Gaps = 10/236 (4%) 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 L-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + R+ +GRLD +EGL+L+T++G Sbjct: 63 LGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKESEGLILMTSNGN 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y V + V L + +G+ I + + G Sbjct: 123 IVNEILRAENRHQKEYLVAVNKPVTDQFLRGMARGVRIHNETTLPCRTARIAKFG----F 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 179 RIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLL 234 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 52/242 (21%), Positives = 102/242 (42%), Gaps = 14/242 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA SR EV+R+I + V V+ + + V + + + +DG + + Sbjct: 1 MRLDKFIANNSSYSRTEVKRLIKNKTVCVDKKITTDPSFTVTNLNTVRIDGEIIEAIKPL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----------GRLDINTEGLL 122 + L + + + GRLD++T GL+ Sbjct: 61 YIMLNKPTGYVCANKDNIHSPVVDLITEQHARQSDQTPPKYRAQSLQIAGRLDVDTTGLV 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLT++G + P+ + YRV+ +D + LL +G+++ G + T++ Sbjct: 121 LLTDNGEWNHRVTSPNKACFKRYRVKLEKPLDDAAIKLLSEGVMLHGEKAATLPATVEL- 179 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 SN V + ++EG+ ++K++F V +L R + G +L L G R ++ + + Sbjct: 180 -ISNTEVLLSIQEGRFHQVKRMFVKVGTCVVKLHREAIGAIELDTNLKPGQWRHLTNEEI 238 Query: 242 RE 243 Sbjct: 239 EA 240 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDEQLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP + + + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPQHPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLVTLPAQLEPI----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ KV RL R G L L G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWRPLNAEEI 227 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 57/247 (23%), Positives = 106/247 (42%), Gaps = 19/247 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A +GI +R+EV+ ++ ++V VN + ++ ++V D ++ + + Sbjct: 1 MRLDKFLANSGIGTRKEVKEILKNKKVSVNNVFVKDGKIHVDEEKDIVKYENKIINYKPF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + T N + VGRLDI+TEGL+LLTNDG L+ Sbjct: 61 VYIMMNKPAGVISATEDSHHKTVIDLLNDEYRTYDIFPVGRLDIDTEGLILLTNDGILSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN----- 186 L P + Y V+ + +D + L+ GI + + + +V + Sbjct: 121 NLLSPKKHVDKKYYVKITKSLSEDDIKTLENGIKLEENFITKNAKVEIICNNSEKESEDF 180 Query: 187 -----------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG-PFQLGTLLAGSTR 234 V + + EGK ++K++F+ +V L R+ G L G R Sbjct: 181 DFGENENNKNENSVYITISEGKFHQVKRMFKAVGNEVLYLKRVKMGNLLLDENLELGGYR 240 Query: 235 EVSKKIL 241 E+++K L Sbjct: 241 ELTQKEL 247 >gi|152999616|ref|YP_001365297.1| pseudouridine synthase [Shewanella baltica OS185] gi|151364234|gb|ABS07234.1| pseudouridine synthase [Shewanella baltica OS185] Length = 256 Score = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 54/230 (23%), Positives = 102/230 (44%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + R+ V ++ RV+V+G++++ V HI++D L+ Sbjct: 28 RLDRYLCTQLHTHRKAVRELLLSGRVRVDGLIVKDMDRQVDEFSHIQLDEHILQANAPVY 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ +V+ D ++ + + GRLD+N+ GLLLLTND + L Sbjct: 88 VMLHKPIG-VVSATKDIQHKTVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDAL 146 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P+ + +VYRV + ++ + +G+ + I ++ + + V Sbjct: 147 MSPTHKVDKVYRVTLANPITEEYIAAFAEGMYFGFEDITTQPAKLVILADNVA----EVT 202 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 203 LHEGKYHQIKRMFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALTAAEV 252 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 143/325 (44%), Positives = 201/325 (61%) 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 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 +++ A + P S ++ KK +++ + +K V R Sbjct: 698 IIQLAGADFGGPSPSEARPKPRPGRPVAAAEAAPAPKKKAPTKRGAVEDRKGRKVKVERT 757 Query: 309 NLASNVWMAKGIHSSFLSDSGQREE 333 + + +G + Sbjct: 758 GSGGDRGLTRGPARRYHGKREPAPR 782 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 50/228 (21%), Positives = 87/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 + +++ G +RR ++A V+VNG L E + VDG + Sbjct: 5 LDRILQSQGFGTRRYCGDLVAAGLVEVNGELCEDPGARFEVDGLRLMVDGEEWLACTKAY 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + +P V +VGRLD +T GLLLLT+DG Sbjct: 65 VMLNKPTGYECSQRPRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLTDDGQFIHAQ 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q ++Y V V +++ L+ G+ + + + + + L Sbjct: 125 TSPKKQVPKIYEVTTFDPVTPEQVEALRTGVKLDDEPAPIAADACEATGERS--LRLTLL 182 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +GK ++K++ V L R + G L L G R ++ + L Sbjct: 183 QGKYHQVKRMVAAVGNHVTALHRSAIGGLVLDPALGPGEWRWLTPEDL 230 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 105/232 (45%), Gaps = 2/232 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N R+++ IA +G+ SRRE + +IA + VNG ++ V D ++ L Sbjct: 401 NDGTTRLNRFIANSGVCSRREADELIAHGDISVNGKIVTEMGYKVKEGDTVKYGTKVLNP 460 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + TT + ++ + + R+ VGRLD NT GLLL+TNDG Sbjct: 461 ERFVYVLLNKPKDYITTTEDPEERKTVMELVADAGKFRMYPVGRLDRNTTGLLLITNDGE 520 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS ++Y+V + + +KKGI ++ + V Sbjct: 521 LADKLTHPSNNIRKIYQVELDKPITDEHFEAIKKGIELEDGPIKPD--AISIVTPDAYVV 578 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + G+NR ++++FE F ++V +L R +Y L G R + K + Sbjct: 579 GIEIHSGRNRIVRRIFESFGYEVTKLDRTTYAGLTKKELPRGKWRFLDPKEV 630 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 108/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDQIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ ++GRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPPDIQSDKLYALGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V+ +G + D + + +KGI + G ++ + S++ ++ Sbjct: 120 QLLHPQYHVDKTYQVQVNGLLTPDHIQVFQKGIVFLDGTVCKPARLKILAASPSHSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTSLKRIQFGDFTLKPDLAEGNYRPLNQKELQ 231 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 55/229 (24%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPIHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R +++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTESE 229 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 103/230 (44%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ R+ V ++ RV+V+G +++ V HI++D L+ Sbjct: 7 RLDRYLSAKMQMPRKLVRDLLLSGRVQVDGQIVKEMDRQVDEFSHIQLDDQVLQANT-PV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP+G+V+ D ++ + + GRLD+N+ GLLLLTND + L Sbjct: 66 YMMLHKPVGVVSATKDNQHKTVIDLLDNEYRHELHIAGRLDLNSSGLLLLTNDSRWSEAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P+ + +VYRV + D + + + I ++ + + V Sbjct: 126 MSPTEKVDKVYRVTLANPLTHDYVTAFAEGMYFGFEDITTQPAKLVIL----DSHLAEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L+EGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 182 LKEGKYHQIKRMFGRFRNPVIGLHRLSIGDIVLDEQLQPGESRTLTAAEI 231 >gi|126173257|ref|YP_001049406.1| pseudouridine synthase [Shewanella baltica OS155] gi|125996462|gb|ABN60537.1| pseudouridine synthase [Shewanella baltica OS155] Length = 256 Score = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 100/230 (43%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + R+ V ++ RV V+G++++ V I++D L+ Sbjct: 28 RLDRYLCSQLHTHRKAVRELLLSGRVCVDGLIVKDMDRQVDEFSRIQLDEQILQANAPVY 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ +V+ D ++ + + GRLD+N+ GLLLLTND + L Sbjct: 88 VMLHKPIG-VVSATKDTQHKTVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDAL 146 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P+ + +VYRV + ++ + +G+ + I ++ + + V Sbjct: 147 MSPTHKVDKVYRVTLANPITEEYIAAFAEGMYFGFEDITTQPAKLVILADNVA----EVT 202 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 203 LHEGKYHQIKRMFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALTVAEV 252 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 75/237 (31%), Positives = 117/237 (49%), Gaps = 1/237 (0%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDG 64 + R+ KV+A+AGIASRR E +I RV+V+G ++ + + VDG Sbjct: 1 MSDPGSEGVRLQKVLAKAGIASRRVAEELIELGRVQVDGEVVREQGRRIDPDKAVVHVDG 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 V + E + +KP G+++T D R V D L + R+ VGRLD +TEGLLL+ Sbjct: 61 VRVVLQEDVVTLVLNKPRGMLSTMHDDAHRPCVGDLLVNRKERLFHVGRLDADTEGLLLV 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + + Y G + +D L+ GI ++ L + Sbjct: 121 TNDGDLAHRLMHPSYEVPKTYLAEVPGPIPRDLGKRLRSGIELEDGPVKVDSFKLISSLP 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 A V V L EG+ ++++ E V L+R + G +LG GS R ++++ + Sbjct: 181 GRALVEVVLHEGRKHIVRRLLEAVGHPVQTLVRTAVGEVRLGNQRPGSLRVLNRQEV 237 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 104/229 (45%), Positives = 142/229 (62%), Gaps = 4/229 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K++ARAGIASRREVERMI + RVK+ ++ A + S + VDG P+ Sbjct: 27 EGDRIAKLLARAGIASRREVERMIEEGRVKIGDEVVTTPATLLTSLKGVSVDGKPVAPMA 86 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTND 127 RL+ +HKP GL+T DP GR T++ L + + V+ VGRLD+NTEGLLL+TND Sbjct: 87 PPRLFRFHKPSGLITAERDPTGRPTIYTALRNALPQGTPRVMPVGRLDVNTEGLLLMTND 146 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L R LELPST R YR R G + Q +L L +GI I G+ YG + L+ G N Sbjct: 147 GELKRALELPSTGIPRTYRARTFGDISQARLEELMEGIEIDGVRYGSINANLERSAGRNK 206 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 W+ + L EGKNRE+++V E +V+RL+R YGPF+L L G+ E+ Sbjct: 207 WIELTLTEGKNREVRRVLEHLGLQVSRLLRTKYGPFELADLPRGAAEEI 255 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 51/234 (21%), Positives = 101/234 (43%), Gaps = 12/234 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ +R E +I +V+VNGI++ V + I + G L Sbjct: 1 MRLDKFLCKSTDFTRVESIDLIEAGKVRVNGIVIITPQTQVHENNSIMLSGQRLVARPSR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + ++ D D S + + GRLD +T GLLLLT+DG + Sbjct: 61 YIMLHKPI-NTLCSNVDGDYPSVMNYIHMDRAEDLHITGRLDADTTGLLLLTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLN----LLKKGIVIQGIC--YGDMQVTLDTQKGSNA 187 + P + YRV ++++ ++ ++G+ +QG ++ + + Sbjct: 120 IINPKYHCEKTYRVTLRDPIEEEDIDELVSRFEQGLQLQGEKSLTLAAKLEVI----APH 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L EG+ ++K++F +V L R G L + G R +++ + Sbjct: 176 QVLLTLSEGRYHQVKRMFFTVGNRVVGLHRQQVGKLSL-DIELGEWRYLTEDEV 228 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 66/241 (27%), Positives = 106/241 (43%), Gaps = 14/241 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA---- 70 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR Sbjct: 4 RLNKYIAETGFCSRREADRLIGERRVTVNGVPAGTGAV-VGEEDTVLVDGQPLRTRAASK 62 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + +KP+G+ T R+ VGRLD +EGL+L+T++ Sbjct: 63 PGGRKHVYIALNKPVGITCTTESSV--KGNIVEFVGHEQRIFPVGRLDKESEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y V + V + L + +G+ I + + G Sbjct: 121 GNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG--- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 178 -FRIVLEQGLNRQIRLMASEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQ 236 Query: 248 H 248 Sbjct: 237 R 237 >gi|322833321|ref|YP_004213348.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321168522|gb|ADW74221.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 439 Score = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 89/302 (29%), Positives = 131/302 (43%), Gaps = 8/302 (2%) Query: 2 KDKNIVQENF-TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDH 59 K KN + +++ KV+ARAG SRREVE MI RV V+G + V V Sbjct: 138 KPKNALDSTEGQSEKLQKVLARAGHGSRREVEAMIQAGRVSVDGKISTLGDRVEVTGGTK 197 Query: 60 IEVDGVPLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 I +DG L E L Y L T + + SR I+VGRL Sbjct: 198 IRLDGHVLSVMESQDTVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKMRGSRWIAVGRL 257 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+NT GLLL T DG LA L PS + R Y VR GQVD +K+ L +G+ ++ Sbjct: 258 DVNTSGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDEKIKQLSRGVQLEDGPAAF 317 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 + +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G Sbjct: 318 RSIKFQGGEGLNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDLNLPKGLPRGGY 377 Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 +E+ + + E V+ + ++ + ++ + Sbjct: 378 KELDLPDINYLRTLVDMTEETVSKLPVERDRRRVKANQIRRAVKRHTQVAPTRRTTGPAK 437 Query: 294 GL 295 Sbjct: 438 RG 439 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 76/225 (33%), Positives = 113/225 (50%), Gaps = 9/225 (4%) Query: 12 TPQRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K +A+AG+AS RR+ E +I RV +NG + V D + VDG P+ Sbjct: 2 EAIRLQKYLAQAGVASSRRKAEALIRAGRVTINGQVAA-LGAKVTPGDEVCVDGRPVAPT 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R + HKP G+ TT D TVF+ L + +VGRLD ++EGLLLLTNDG L Sbjct: 61 ARRVVLALHKPPGVTTTRRDRFAERTVFE-LVPAIPGLHTVGRLDRDSEGLLLLTNDGRL 119 Query: 131 ARVLELPSTQWLRVYR-VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L P +VYR G+V L L+KG+ ++ ++ Sbjct: 120 TQRLTHPRYGVPKVYRVWTAKGEVPPFILKRLEKGVRLEDGPARALKARPKVGGCV---- 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EG+ RE++++ + V RL+R+ GP +LG L G+ R Sbjct: 176 -LTLAEGRKREVRRMLRAVGYPVVRLLRVKIGPIRLGGLKPGAWR 219 >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 = 151 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 72/231 (31%), Positives = 110/231 (47%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAE 71 R+ +AR+G A SRR+ E MI RV+VNG + V + D + +DG + Sbjct: 4 VRLQAFLARSGAAPSRRKAEEMIRAGRVRVNGRVA-SLGERVDPSSDRVSLDGRRVEPPS 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + HKP G +TT D GR TV L ++ VGRLD +T GLLLLTNDG LA Sbjct: 63 GYAYYALHKPRGYLTTMRDDFGRRTVAS-LMPRIPGLVPVGRLDRDTSGLLLLTNDGRLA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + PS++ + Y + G Q+ L L G ++ +++ + + Sbjct: 122 HRIAHPSSRVEKEYELVVRGDPPQEALRRLAAGPTLEDGPMLPPRLSHLRRGPRATTFHL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+ R I++ ++ L R+ GP LG L G R +S++ L Sbjct: 182 TIHEGRKRIIRRACAATGLELLSLRRVRVGPVLLGDLAPGRYRPLSEEELE 232 >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 = 150 bits (379), Expect = 2e-34, Method: Composition-based stats. Identities = 67/240 (27%), Positives = 113/240 (47%), Gaps = 1/240 (0%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLW 76 + +++ G SR + ER+IA+ RV V+G + A+ V +T I +DG+ + + L Sbjct: 29 RALSKLGYCSRTQAERLIAENRVAVDGRTVSDASAWVDLATASISIDGLVIAAEAKIYLM 88 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T H + + VGRLD +EGLLL TND A++L Sbjct: 89 LNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLFTNDTEFAQILLD 148 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P T + Y V+ +D + + + GI G Q N+W+ V L EG Sbjct: 149 PVTHVTKTYHVQIDRIMDDEDIAAMTAGIRHDGELLTATAARRLRQGDRNSWIEVELDEG 208 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVN 256 +NR+I+++ E + RL+R++ G +LG L G+ R +++ L+ +E + N Sbjct: 209 RNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALTEPELQALRRKTGMERTRRN 268 >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 = 150 bits (379), Expect = 2e-34, Method: Composition-based stats. Identities = 75/233 (32%), Positives = 116/233 (49%), Gaps = 5/233 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAER 72 R+ KVI SR+E++R+ A+ V+++G ++ + NV S H + VDG + E Sbjct: 1 MRIDKVIETQLHTSRKEMKRLFAKGLVQIDGEIMRNQSFNVDSHLHCLTVDGQVVEWYE- 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLA 131 R WL +KP G VT + D + +VGRLD +TEGL+L+T +G L Sbjct: 60 -RYWLMNKPAGYVTANHDKVVPTIFDLFATDDLVAGLYAVGRLDRDTEGLVLVTTNGPLG 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVT 190 L P+ + + Y VR + ++ + + +GIV G Q+ L + + Sbjct: 119 YQLLHPTKKVDKKYSVRVNARLTEKDVQAFSEGIVFHGGTRCLPAQLLLKSCHDQESEAE 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V L EGK ++KK+F KV L RIS+GP +L TL G R ++K L Sbjct: 179 VVLSEGKFHQVKKMFLACGKKVTFLKRISFGPLELKTLPVGEYRSLTKHELEA 231 >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 = 150 bits (379), Expect = 2e-34, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 99/232 (42%), Gaps = 2/232 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 T R+ K++ + SR +V+++I Q V V+ + NV IEV G + Sbjct: 14 TTNMRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTH 73 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + L + + VGRLD +TEGL+LLT++G Sbjct: 74 PKHSYIILNKPSGVVSAKKDTNYLTIIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGP 133 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 L + PS + Y V +G + +D + GI G Q+T+ + Sbjct: 134 LGFRMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQ 193 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + EGK ++KK+F + KV L R + +LG L +G R +++ Sbjct: 194 ASLTISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTESE 245 >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 = 150 bits (379), Expect = 2e-34, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + L ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKKLPTVMDLLPLDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPARLEILSASPSLSRASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R+ +G F L L G R ++ + L Sbjct: 180 TISEGKFHQVKKMFLSIGVKVTSLKRVQFGDFTLDTELTEGHYRPLNPEELE 231 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 75/260 (28%), Positives = 123/260 (47%), Gaps = 19/260 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K+I+ SRRE + +I VKV+G +++ + V + IE++G L + Sbjct: 2 ELTRLNKMISHNTHYSRREADELIKAGHVKVDGNVVQDLSTQVSFKNKIELNGKALFEKH 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +YHK G + + D GR T++D LPS F+ +SVGRLD +EGLLLL + + Sbjct: 62 GYSVIVYHKQKGELVSKKDDRGRKTIYDTLPSKFAHYLSVGRLDFASEGLLLLCDSPSVV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L RVY V+ +G V +++G+ ++ + Sbjct: 122 SALMHGD--LERVYYVKINGLVSPAMEKAMQEGLSLEDARRGGHAKSEIHAMDFAPFVNY 179 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + + V + EGKNRE+++ F +F+ V L R+SYG LG L G R S Sbjct: 180 RIIKNSPTFSTIKVTINEGKNRELRRFFGYFDVDVVDLKRVSYGKIDLGMLKPGKHRFFS 239 Query: 238 KKI---LREQLGPHLLEEAQ 254 LR+ L E+ Sbjct: 240 ASEYTALRDYLEYVKKEQGN 259 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 72/250 (28%), Positives = 105/250 (42%), Gaps = 29/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IA V+VNG + + V TD IEVD + ER Sbjct: 101 RLNKRMAELGLCSRREADDWIASGWVRVNGQVAA-MGLQVAPTDRIEVDPAARGQQERQV 159 Query: 75 LWLYHKPIGLVT---------------THSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 L HKP+G V+ + + P + GRLDI++ Sbjct: 160 TILLHKPMGYVSGQAEDGHTPAVALINPRTHWREDPSRQRFSPPQLRGLAPCGRLDIDSV 219 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIVIQGI 170 GLL+LT DG +AR L ++ + Y VR H +L L G+ + G Sbjct: 220 GLLVLTQDGRVARHLIGEDSEVEKEYLVRVHYGDVATDVQSVFPAAQLARLCHGLSLDGQ 279 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V + + L+EGK R+I+++ E KV L RI G LG L Sbjct: 280 ALKPAKVDWQNPEQ----LRFVLQEGKKRQIRRMCELVGLKVVGLKRIRIGRVVLGNLPV 335 Query: 231 GSTREVSKKI 240 G R + Sbjct: 336 GQWRYLGPNE 345 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 107/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDEQLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP + + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPQHPTVLDLLPEDQRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLITLPAQLEPI----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ KV RL R G L L G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWRPLNAEEI 227 >gi|51922071|gb|AAU14148.1| rluB [Mycoplasma mobile 163K] Length = 235 Score = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 73/240 (30%), Positives = 115/240 (47%), Gaps = 6/240 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K+I++AGI+SRR E +I ++RVK+NG++ + D I VD + E Sbjct: 2 EKIRIQKLISQAGISSRRAAEDLILKKRVKINGVIAK-IGDKASLEDVILVDEKVIS-KE 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L +KP +VTT D RS + D + ++ VGRLD +T G+++LTNDG A Sbjct: 60 EKVYYLLNKPKNVVTTLKDNFNRSIITDFIDEKKYKIFPVGRLDYDTTGIIILTNDGETA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + R+Y V ++ +++ L V + + K SN + Sbjct: 120 NKLLHPKYEIPRIYEVIIDKELSLEEIKYLNSQEVFLNSK----KSFQEVSKISNYKYKI 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +G IKK+FE KV L R Y F L L G+ R+++K + L + Sbjct: 176 KLHQGSYHHIKKLFEIVGKKVKDLNRTEYAFFNLENLSIGNYRKLNKHEIDRLLNFVKNK 235 >gi|225448976|ref|XP_002270186.1| PREDICTED: hypothetical protein [Vitis vinifera] Length = 393 Score = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 77/258 (29%), Positives = 125/258 (48%), Gaps = 18/258 (6%) Query: 4 KNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 + ENF PQR+SKV+A AG+ASRR E +I + RV VNG + V D I Sbjct: 131 RRFYNENFRDPPQRLSKVLAAAGVASRRNSEELIFEGRVTVNGSVCNTPQTRVDPARDMI 190 Query: 61 EVDGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------- 108 V+G L K +KP G + + + + +S + + S Sbjct: 191 YVNGNRLPKKLPPKVYLALNKPKGYICSSGEKESKSVLCLFDDYLKSWNKQNPGVPKPRI 250 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GL++LTNDG A+ L PS++ + Y G V++ L + +G VI+ Sbjct: 251 FTVGRLDVATTGLIILTNDGDFAQKLSHPSSKLSKEYIATIDGVVNKRHLIAISEGTVIE 310 Query: 169 GICYGDMQVTLDTQKGSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 G+ V L + + + + V + EG+N E++++ + +++ L RI G F+L Sbjct: 311 GVHCTPDSVELLPPQPNISKPRLRVVVHEGRNHEVRELVKSAGLQIHSLKRIRIGGFRLP 370 Query: 226 GTLLAGSTREVSKKILRE 243 L G E+ + L+ Sbjct: 371 SDLGHGKHVELKQGDLKA 388 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 61/257 (23%), Positives = 97/257 (37%), Gaps = 27/257 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A + + R+ V I VKVNG ++ ++N+ D +E G + + Sbjct: 1 MRLDKFLAESAVGRRKIVRTYIKDGMVKVNGKIITEPSININEKLDDVEYLGKKVIHNGK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + T + TVFD + V VGRLD +TEGLLLLTNDG Sbjct: 61 VYYIFNKPAGCITATRDN--IHKTVFDYFDEDMNGVFHVGRLDKDTEGLLLLTNDGEFEH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y G +D + L+ GI I + + G Sbjct: 119 KVMYPEKHVEKTYFFWALGSLDDEDKKQLEAGIFIGNNESLTKPAK-IDLYKSGLYKEFK 177 Query: 191 --------------------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + + EG+ ++K++ + V L RIS G +L L Sbjct: 178 EEIPIKNLENKDHQPVVSGYLTISEGQKHQVKRMLKAVGCYVIYLKRISIGGLKLDESLK 237 Query: 230 AGSTREVSKKILREQLG 246 G R ++KK + Sbjct: 238 MGDYRNLTKKEIESIFE 254 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 54/234 (23%), Positives = 90/234 (38%), Gaps = 6/234 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKAERT 73 + +++ G +RR +IA V+VNG L E V + VDG + Sbjct: 3 LDRILQSQGFGTRRYCGDLIAAGLVEVNGELCEDPRAQFEVD-GLRLTVDGEEWLACTKA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + +P V +VGRLD +T GLLLLT+DG Sbjct: 62 YLMLNKPAGYECSQRPRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLTDDGQFIHA 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P + ++Y V V ++ L+ G+ + + G + + + L Sbjct: 122 QTSPKRKVPKIYEVTTAEPVTPEQAEALRSGVQLLDEPA-PIAAEACEITGERS-LRLTL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 +GK ++K++ V+ L R + G L L G R ++ + L G Sbjct: 180 VQGKYHQVKRMVVAAGNHVDALHRSAIGSLPLDPALAEGEWRWLTAQELAALTG 233 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 49/249 (19%), Positives = 91/249 (36%), Gaps = 5/249 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + +R+ K+++ G +R++V I + V G E A V ++D + ++G PL Sbjct: 2 SDQKSERLDKLLSNLGYGARKDVRHWIKAGWITVQGEAAESPAQKVFASD-VLLEGEPLD 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + + + + + VGRLD +T GLL++T+D Sbjct: 61 HPDGLTIIYHKPLDTVCSRKEGGRLIYDDLPARWLDRKPPFSPVGRLDKDTSGLLIVTDD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L L P + Y V + + ++ G ++ S Sbjct: 121 GQLNHCLTSPKQHISKTYSVTLAEPLQGREAEIMAAGTLLLENDDRPCLPAELIVH-SPT 179 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVSKKILREQL 245 ++ L EG+ + +++F V L R G L L G + + L + Sbjct: 180 QASLTLHEGRYHQARRMFVALGNHVTALQRTHIGALALKDTGLKPGEYQVTTSAELMAMI 239 Query: 246 GPHLLEEAQ 254 P AQ Sbjct: 240 QPVAPSSAQ 248 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 92/233 (39%), Gaps = 7/233 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKA 70 P + +++ G +RR +IA V+VNG L E V + VDG Sbjct: 15 PMTLDRILQSQGFGTRRYCGDLIAAGLVEVNGELCEDPRAQFEVD-GLRLTVDGEEWLAC 73 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L L + +P V +VGRLD +T GLLLLT+DG Sbjct: 74 TKAYLMLNKPAGYECSQRPRHHPSVYNLLPVPLRQREVQAVGRLDHDTTGLLLLTDDGQF 133 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 P + +VY V V Q++++ L+ G+ + + + Sbjct: 134 IHAQTSPKRKVPKVYEVTTAEPVTQEQVDALRTGVKLDDEPVPIAAEGCEIT--GECSLR 191 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 + L +GK ++K++ VN L R + G +L L G R ++ + L Sbjct: 192 LTLLQGKYHQVKRMVAAAGNHVNALHRSAVGGLRLDPAALPEGEWRWLTAEDL 244 >gi|323526492|ref|YP_004228645.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323383494|gb|ADX55585.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 243 Score = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 59/245 (24%), Positives = 98/245 (40%), Gaps = 28/245 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--------------- 64 ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 1 MSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEIDPAAEAAQASQVTVLIH 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + Y I LVT + +G + + ++ GRLDI++ GLL+L Sbjct: 61 KTVGYVSGQAEDGYQPAITLVTPENRWEGDRSDIRFSVAHLRQLAPAGRLDIDSTGLLVL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQGICYGDM 175 T DG +A+ L ++ + Y VR + L LL+ G+ + + Sbjct: 121 TQDGRIAKQLIGGHSEIDKEYLVRVAYGEHTVDVESHFPPESLALLRHGLSLDDVPLKPA 180 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 QV+ + + LREGK R+I+++ E +V L R+ G LG L G R Sbjct: 181 QVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALPPGQWRY 236 Query: 236 VSKKI 240 + Sbjct: 237 LGPDE 241 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTASE 229 >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 = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 54/235 (22%), Positives = 98/235 (41%), Gaps = 11/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +++A SR+E ++++ V VN +++ V+V D ++ G PL A Sbjct: 1 MRLDKFLSKATELSRKESKKILHAGEVTVNEQVIKDPGVHVDIVNDDVQWAGEPLSVATG 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L HKP G T + + GRLD++T G LL+++DGG Sbjct: 61 NRYILLHKPEGFECTLKAKEYPIVTDLIAVPELGSLRIAGRLDVDTTGALLISDDGGWLH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI------VIQGICYGDMQVTLDTQKGSN 186 + P + +VY + +D D K + + + + Sbjct: 121 RVTSPKHEHAKVYELTLADAMDSDAQANAIKEVAEGILLEGDHEETKPATLEFIDETHA- 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +GK ++K++ +F +V L R S G L L G +R ++ + + Sbjct: 180 ---RLTLEQGKYHQVKRMMGYFGNRVVELHRASVGHITLDGLEKGDSRFLTPEEV 231 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 68/238 (28%), Positives = 107/238 (44%), Gaps = 12/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL---RKA 70 RV K+I++ GIASRR+ E MI Q RV+VNG L V D I +DG P+ Sbjct: 4 RVQKIISQWGIASRRQAEEMIGQSRVRVNGNLAR-LGQKVDPKVDMISIDGKPVTQGSPP 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDG 128 L L + T + + + + + 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 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKIL 241 + + L+EG+NR+I++V + + V L R + G +L G R + + Sbjct: 183 LEIILQEGRNRQIRRVAQQLGYPVVHLDRRAIGTIELHNSDGKFTDVGKYRHLITSEI 240 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 60/244 (24%), Positives = 104/244 (42%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK+++ G+ SRRE + I + V+V+G ++ I ++ Sbjct: 2 EKVRISKLMSEQGLCSRREADSYIERGWVRVDGEVVSELGAKAYPHQKITLERAARAAQT 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + LV S +G + + + GRLDI Sbjct: 62 SLATILINKPVGYVSGQAEDGYKPAVALVDARSQYEGDRSGRRFDRANLRGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ L + + Y VR G++ + L LL G+++ G Sbjct: 122 DSQGLLVLTQDGRVAKQLIGEDSLVDKEYLVRVEGRLSERGLALLNHGLMLDGKPLKPAN 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + LREGK R+I+++ E +V L R+ G +LG L G R + Sbjct: 182 VCWQNEDQ----LRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVRLGDLPVGQWRYL 237 Query: 237 SKKI 240 + Sbjct: 238 REDE 241 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 55/229 (24%), Positives = 96/229 (41%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPIHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTASE 229 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 67/219 (30%), Positives = 113/219 (51%), Gaps = 3/219 (1%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 VKVNG +++ + V S+D +EVDG+P+ + E + LY + + + V D Sbjct: 6 VKVNGKVVKELGLKVSSSDRVEVDGIPVEREEPVYILLYKPRGVISSVTDEKGR-KVVTD 64 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 LP I RV VGRLD +T GLLL+TNDG A +L P + +VY + G ++KL Sbjct: 65 LLPQIKERVYPVGRLDFDTSGLLLMTNDGEFANLLMHPKNEVEKVYVAKIKGIPAREKLK 124 Query: 160 LLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 L++G+ ++ +V + ++ + A V + + EG+NR+++++ E V +L R Sbjct: 125 SLERGVRLEDGKTAPARVKVLSIDKQKNTAIVELVIHEGRNRQVRRMLEAIGHPVMKLKR 184 Query: 218 ISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVN 256 YG L L AG RE++ +++ + N Sbjct: 185 ERYGFLTLQGLSAGDARELTAHEVKQLRTLASSAGKKKN 223 >gi|319792471|ref|YP_004154111.1| pseudouridine synthase [Variovorax paradoxus EPS] gi|315594934|gb|ADU36000.1| pseudouridine synthase [Variovorax paradoxus EPS] Length = 249 Score = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 50/248 (20%), Positives = 91/248 (36%), Gaps = 11/248 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G +RR ++ Q V ++G + +V + V G P E+ Sbjct: 3 LQDILYTQGFGTRRVCAGLVQQGHVTIDGKAVTDPFADVDPEGLLYTVQGTPWAYHEKAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L+ + V ++GRLD +T GLLL+T+D Sbjct: 63 LMLHKPAGTECSQKPSTYPSIYTLLPSPLRLRPNKGAVQGVQAIGRLDQDTTGLLLMTDD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + P +VY V VD+ ++ L G+V+ ++ + S Sbjct: 123 GQFIHKMGSPKHHVPKVYEVTAKHPVDEAQIAKLLAGVVLDDDP-KPVR-AAACESDSPL 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + + L EGK ++K++ +V L R G L L G R ++ + + Sbjct: 181 HLRLTLTEGKYHQVKRMLAAVGNRVEGLHRSRIGELSLPADLAPGQWRWLTAEEVAALRA 240 Query: 247 PHLLEEAQ 254 P + Sbjct: 241 PTKPAKPP 248 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 1 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 60 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 61 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 121 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 180 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 181 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 236 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 237 QGEWRYLGPDE 247 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 107/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + ++ V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 59/230 (25%), Positives = 95/230 (41%), Gaps = 9/230 (3%) 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 + T +TV D L + + GRLD + GLLLLTNDG + L Sbjct: 67 LMLNKPAGVVSATSDPQH--TTVIDLLDDHYKDLHIAGRLDRFSTGLLLLTNDGEWSNSL 124 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + + Y V + + K + I Q+ ++ V Sbjct: 125 SHPDNRVAKRYIVELKEPITDAYGDAFAKGMHFAYEDITTQPAQL----KQLEPRVAEVT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EG+ +IK++F F +V L R+S G L L G R +++ + Sbjct: 181 LHEGRYHQIKRMFGRFRNQVLSLHRVSIGNLPLDDALKPGEYRMLTRDEV 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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 87/290 (30%), Positives = 134/290 (46%), Gaps = 12/290 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVD 63 I Q+ +R+ KV+AR G SRR +E MI+ R+ ++G + V S I +D Sbjct: 60 INQQKVEGERLQKVLARVGQGSRRTIEAMISANRISIDGKMAT-LGDRVDIHSGVKIRID 118 Query: 64 GVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 G + + L Y L T H + SR I+VGRLDINT Sbjct: 119 GHIVNLTQAQKEVCRVLLYYKPEGELCTRHDPEGRATVFDRLPRLNGSRWIAVGRLDINT 178 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLL T DG LA L P + R Y VR G+VD + L+KG+ ++ + Sbjct: 179 SGLLLFTTDGELANRLMHPRHEVEREYAVRVFGEVDDTMIARLRKGVQLEDGPANFTSIK 238 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 +G N W V L EG+NRE+++++E +V+RLIRI YG +L +L G E+ Sbjct: 239 ATGGQGMNQWFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKLTKSLPRGGWEEMD 298 Query: 238 K---KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 LR+ +G +++++ P +R +E+ + + Sbjct: 299 LTNINYLRKLVGLPPETDSKIDTKKPRRIKTGQIRKAVKRYTELNKRYKK 348 >gi|304410666|ref|ZP_07392284.1| pseudouridine synthase [Shewanella baltica OS183] gi|304351150|gb|EFM15550.1| pseudouridine synthase [Shewanella baltica OS183] Length = 250 Score = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 46/231 (19%), Positives = 97/231 (41%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R ++ + + + +GI+++ + V + + G P+ Sbjct: 22 VRLDKFICESTPLTRSLAKKALHRGDITCDGIVVKDSGFKVTEGMRVYLQGEPIALV-GV 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + + GRLD +T GL+L+T+DG + Sbjct: 81 RYLMLNKPVDTICSTIDETYPSVLSLVDVPKPETLHIAGRLDADTTGLVLVTSDGQWSHK 140 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y V+ VD + + G+ + + + + + V + Sbjct: 141 ITSPKKECGKRYLVQLADPVDAGLIAIFAAGVELRGEDGLTKPALLEIIEPQ----LVRL 196 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++F V L R S G +L L G R ++ + + Sbjct: 197 TITEGKYHQVKRMFAAVGNHVQGLHRESVGQIELDPALALGEWRYLTAEEI 247 >gi|295113966|emb|CBL32603.1| pseudouridine synthase family [Enterococcus sp. 7L76] Length = 260 Score = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 67/260 (25%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I++ G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKLKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETKSHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >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 = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 62/257 (24%), Positives = 103/257 (40%), Gaps = 25/257 (9%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R+ K ++ + +R E++R I + V+VNG + V D I G P+ Sbjct: 13 DEEDVMRLDKFLSDMNMGTRTELKRDIRKGAVQVNGEKITDPGFMVNENDEIIFAGEPVP 72 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L ++T D ++ + + VGRLD +T GLLL+TNDG Sbjct: 73 YFRYEYYMLNKPAG-VITATEDRYQKTVLDFFGERRRKDLSPVGRLDKDTVGLLLVTNDG 131 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLD------- 180 G L P + Y R G+VD+ +KGI + I ++ +D Sbjct: 132 GFHHRLLSPKKHIDKEYYARIDGRVDEADREKFEKGIYVDEIFTALPAKLMIDGYRENAL 191 Query: 181 ---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + + V ++EGK +IK++F +V L RI G L Sbjct: 192 ESDFMDLANSRAPKSALENGVSEIRVVVQEGKFHQIKRMFHALGKEVIYLKRIRIGSVVL 251 Query: 226 G-TLLAGSTREVSKKIL 241 TL G+ R ++ + Sbjct: 252 DPTLEEGTYRRLTAGEV 268 >gi|319425419|gb|ADV53493.1| pseudouridine synthase [Shewanella putrefaciens 200] Length = 236 Score = 150 bits (378), Expect = 3e-34, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 103/230 (44%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ R+ V ++ RV+V+G +++ V HI++D L+ Sbjct: 7 RLDRYLSAKMQMPRKLVRDLLLSGRVQVDGQIVKEMDRQVDEFSHIQLDDQVLQANT-PV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + HKP+G+V+ D ++ + + GRLD+N+ GLLLLTND + L Sbjct: 66 YMMLHKPVGVVSATKDNQHKTVIDLLDNEYRHELHIAGRLDLNSSGLLLLTNDSRWSEAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P+ + +VYRV + D + + + I ++ + + V Sbjct: 126 MSPTEKVDKVYRVTLANPLTHDYVTAFAEGMYFGFEDITTQPAKLVIL----DSHLAEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L+EGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 182 LKEGKYHQIKRMFGRFRNPVIGLHRLSIGAIVLDEQLQPGESRTLTAAEI 231 >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 = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 59/247 (23%), Positives = 105/247 (42%), Gaps = 6/247 (2%) Query: 1 MKDKNIVQENFTP--QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST- 57 +K K + R+ K +A A I SR+E+++ + +++ ++G + NV S Sbjct: 2 IKRKKNRSKPLKGKLMRLDKFLALAKI-SRKEMKQKLRLRQIVIDGQAARSLSQNVDSGL 60 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 I + G L + + ++ ++GRLD + Sbjct: 61 QSISLAGKTLNHLAHRYFLMNKPAGAVTANSDADKLTVLELIAPEDFNDQLYAIGRLDRD 120 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICYGDMQ 176 T GLLL+T++G L L P + Y V +G +DQ+ ++ + + G Q Sbjct: 121 TRGLLLITDNGPLGFQLLHPQYHIAKTYYVEVNGPLDQEATIAFQQGIVFLDGTRCKPAQ 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTRE 235 + + T ++ +V + EGK ++KK+F KV L R +G FQL L GS R Sbjct: 181 LQIHTTSPEHSTASVTISEGKFHQVKKMFLAVGVKVTYLKRTHFGDFQLDPNLTEGSYRP 240 Query: 236 VSKKILR 242 ++ L Sbjct: 241 LNPSELE 247 >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 = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 67/240 (27%), Positives = 113/240 (47%), Gaps = 1/240 (0%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLW 76 + +++ G SR + ER+IA+ RV V+G + + V +T I VDG+ + + L Sbjct: 29 RALSKLGYCSRTQAERLIAESRVAVDGRTISDISAWVDLATARISVDGLVIAAEAKIYLM 88 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T + + VGRLD +EGLLL TND A++L Sbjct: 89 LNKPRGLVTTRDDPEGRPTVYDCLREFDIPHLSPVGRLDKASEGLLLFTNDTEFAQILLD 148 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P T + Y V+ +D + + + GI G Q N+W+ V L EG Sbjct: 149 PVTHVTKTYHVQIDRIMDDEGIAAMTSGIRHDGELLTATAARRLRQGDRNSWIEVELDEG 208 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVN 256 +NR+I+++ E + RL+R++ G +LG L G+ R +++ L+ +E+A+ N Sbjct: 209 RNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALTEAELQSLRRKTGIEKARRN 268 >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 = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 79/289 (27%), Positives = 128/289 (44%), Gaps = 10/289 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+AR+G SRRE+E I+ R++VNG + + + + + +DG ++ Sbjct: 2 TEKLQKVLARSGHGSRREIETKISAGRIRVNGKVAQ-LGERIDADAKVRIDGHEVQIKPE 60 Query: 72 ----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + L T + +R ++VGRLD+NT GLLL T D Sbjct: 61 EEVICRVLIYHKPEGELCTRKDPEGRPTVYDRLPRMSGARWVAVGRLDVNTSGLLLFTTD 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS Q R Y VR G VD+ + L+KG+ ++ + G N Sbjct: 121 GELANRLMHPSQQVEREYAVRVFGDVDEAMMQRLRKGVQLEDGPAHFNSIKPAGGDGMNR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 W V + EG+NRE+++++E +V+RLIR+ YG L L G E+S L + Sbjct: 181 WFHVTISEGRNREVRRLWESQEVQVSRLIRVRYGDIPLEPGLPQGGWAEMS---LPQVNA 237 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 ++ + + R R+ K S++ G Sbjct: 238 LRAQVNLPAEKESFLDPRHEESKQRRFAKIRKATARHRLDKKQSKRRGK 286 >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 = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 98/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ +L NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMLARNGRQNVDPGLQLIEVTGQRVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTASE 229 >gi|224100741|ref|XP_002311995.1| predicted protein [Populus trichocarpa] gi|222851815|gb|EEE89362.1| predicted protein [Populus trichocarpa] Length = 397 Score = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 71/257 (27%), Positives = 119/257 (46%), Gaps = 18/257 (7%) Query: 4 KNIVQEN--FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 + EN QR+SKV+A AG+ASRR E +I + +V VNG + V D I Sbjct: 135 RRFYNENFRDQAQRLSKVLAAAGVASRRSSEALIFEGKVTVNGSVCNTPQTRVDPGRDSI 194 Query: 61 EVDGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------- 108 V+G L K +KP G + + + + +S + S Sbjct: 195 YVNGNRLPKKLPPKIYIALNKPKGYICSLGEKESKSVMCLLDDYFQSWDKRNPGLPKPRL 254 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GL+++TNDG A+ + PS+ + Y G V + L + +G VI+ Sbjct: 255 FTVGRLDVATTGLIIVTNDGDFAQQIAHPSSNLSKEYIATVDGVVSKRHLFAVSEGTVIE 314 Query: 169 GICYGDMQVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 G+ V L Q+ + + + EG+N E++++ + +++ L R+ G F+L Sbjct: 315 GVRCVPDSVELLPQQPDRPRPRLRIVVHEGRNHEVRELVKNAGLEIHSLKRVRIGGFRLP 374 Query: 226 GTLLAGSTREVSKKILR 242 L G E+ + L+ Sbjct: 375 SDLGLGKHAELKQTDLK 391 >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 = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 60/236 (25%), Positives = 117/236 (49%), Gaps = 2/236 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++ ++ AGI+SRR+ ++ I ++VNG + R + + D + G ++ Sbjct: 2 HNNKIRLNHYLSNAGISSRRKADQFIQSGAIEVNGKPVRRLGTVIHTNDLVTFYGEKIKI 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L + TT + ++ + R+ VGRLD +T G+LLLTNDG Sbjct: 62 QNKIYLLLNKPKGFITTTKDPFNRKTVMNLIPNLSKYRIFPVGRLDRSTTGVLLLTNDGS 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 +A L P + ++Y V ++ + L+ ++KG + G ++V + S + Sbjct: 122 IAEKLTHPKSHVQKIYHVLLDKEIKNEDLDQIRKGKIYLKE--GKVKVIFVNKGHSKYQI 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 +GL G NR IK++F+ N++V +L R+++G + G+ +++K + L Sbjct: 180 KIGLYIGWNRIIKRIFKKLNYQVIQLDRVNFGGLSKKNIQIGNWCFLNQKEVENIL 235 >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 = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 54/243 (22%), Positives = 89/243 (36%), Gaps = 4/243 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++A V VNGI E V + + VDG R Sbjct: 36 LYRILQSQGFGTRRYCKDLVAAGLVHVNGIEAEDPDAQVDTAGLVLDVDGERWAYHARAY 95 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ + +P V VGRLD +T GLLLLT+DG L Sbjct: 96 LMLHKPAGFECSQKPRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTL 155 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V ++ L +G+++ + + + L Sbjct: 156 TSPRHQVPKVYEITTADPVTDAQVAQLCRGVLLDDEDATVAAAWAERVD--TCHLRMALT 213 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLEEA 253 +GK ++K++ V L R + G L L G R + + L + Sbjct: 214 QGKYHQVKRMVAAAGNHVTALHRSAIGALTLDAGLAPGQWRWLERDDLTALDTTPVHAAG 273 Query: 254 QVN 256 Sbjct: 274 AAT 276 >gi|52425093|ref|YP_088230.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] gi|52307145|gb|AAU37645.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] Length = 402 Score = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 93/287 (32%), Positives = 132/287 (45%), Gaps = 10/287 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLR 68 +++ KV+ARAG SRRE+E +I Q RV V+G + V V I +DG + Sbjct: 116 TVEGEKLQKVLARAGQGSRREIESIIEQGRVSVDGKIATLGDRVTVHDGLKIRIDGHLVN 175 Query: 69 KAERTR-----LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 R L Y L T H + SR I+VGRLDINT GLLL Sbjct: 176 LTAAQREVCRVLMYYKPEGELCTRHDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGLLL 235 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T DG LA L PS + R Y VR GQVD ++ L+KG+ ++ + Sbjct: 236 FTTDGELANRLMHPSQEVEREYSVRVFGQVDDAMIHRLRKGVQLEDGPANFKAIKAVGGT 295 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---K 239 G N W V L EG+NRE+++++E +V+RLIRI YG QL TL G E+ Sbjct: 296 GLNQWFDVTLMEGRNREVRRLWESQGIQVSRLIRIRYGNIQLMKTLPRGGWEEMDLAKVN 355 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 LRE +G E ++++ ++T + + + Sbjct: 356 YLRELVGLPPETETKLDVTNLRRRAKTGQIRKAVKRYSEMNKRYKKS 402 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 71/211 (33%), Positives = 115/211 (54%), Gaps = 2/211 (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 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFNWK 211 ++KL LK+G+V++G +V+++ + + + V + + EG+N ++K + Sbjct: 121 TEEKLAPLKRGVVLKGRKTAPARVSIERIEPTKRTSMVRLTIHEGRNHQVKNMLAKVGLP 180 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V +L R Y F + L G R+++ ++ Sbjct: 181 VQKLKREQYAFFDVTGLQPGEYRKLTSVEIK 211 >gi|296390923|ref|ZP_06880398.1| putative pseudouridylate synthase [Pseudomonas aeruginosa PAb1] Length = 230 Score = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 107/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP + + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPQHPTVLDLFPEDQRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLTTLPAQLEPI----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ KV RL R G L L G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWRPLNAEEI 227 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 101/251 (40%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 1 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQ 60 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 61 VTILLHKPVGYVSGQAEDGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR ++L L+ G+ + G Sbjct: 121 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 180 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 181 VALKPAMVSWQNGEQ----LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 236 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 237 QGQWRYLSADE 247 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 79/310 (25%), Positives = 126/310 (40%), Gaps = 7/310 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK-- 69 +++ K +AR G+ SRR++E +I RV VN V D I VDG ++ Sbjct: 2 KDEKLQKALARMGLGSRRQMEEVIKAGRVTVNNGPAT-IGDRVEQGDEIRVDGRQIKYTS 60 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R L Y + + + + R + VGRLDIN+ GLLL TN Sbjct: 61 ENEKRRRVLAYYKPEGEVCSANDPEGRPTVFERLPKLTHDRWVMVGRLDINSTGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG +A L PS++ R Y VR G V D + G++++ + +G N Sbjct: 121 DGEMAHRLMHPSSEVTREYAVRVLGDVTPDMARAMTTGVMLEDGMAKFEDIKEGGGEGVN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W V L+EG+NRE++++FE KV+RL+R SYG L L G E+ +K + Sbjct: 181 KWHHVQLKEGRNREVRRLFESQGLKVSRLLRTSYGNITLPKELRTGRFLELDRKDINTLT 240 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 L + + + D + ++S S ++ Sbjct: 241 DLVSLRPRYGTGLHGAAKEKQERIRNKPLKARRTDTRGDNRNSTSSAKPKSSASPVSRGT 300 Query: 306 HRRNLASNVW 315 ++ Sbjct: 301 RNTRDRNDKR 310 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ + +IA R++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGRLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP + + + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPQHPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLVTLPAQLEPI----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ KV RL R G L L G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWRPLNAEEI 227 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 55/240 (22%), Positives = 102/240 (42%), Gaps = 23/240 (9%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------------G 64 ++ G+ SRRE + I + V+V+G ++ V+ + H+ ++ Sbjct: 1 MSELGLCSRREADVWIEKGWVRVDGKVVSELGSKVLPSQHVTIERQAAAEQSKLVTILIN 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ Y + L+ + P+ ++ GRLDI++ GLL+L Sbjct: 61 KPMGYVSGQAEDGYQPAVTLIKPENRWAEDQATTQFHPTQLRSLVPAGRLDIDSIGLLVL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVD----QDKLNLLKKGIVIQGICYGDMQVTLD 180 T DG +A+ L +T+ + Y VR +++L L+ G+ + G +V Sbjct: 121 TQDGRVAKQLIGETTEVEKEYLVRVQYDRPGRLPENQLLKLQHGLTMDGKELLPAKVRWQ 180 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ LREGK R+I+++ + KV L R+ G +LG L G R + Sbjct: 181 NEDQ----LSFILREGKKRQIRRMCDMVGLKVLGLKRVRIGNIKLGDLPVGEWRYLGADE 236 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 75/232 (32%), Positives = 115/232 (49%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ KV+A+AG+ASRR E +I+Q RV+V+G ++ + + + VDGV + + Sbjct: 1 MRLQKVLAQAGVASRRAAEELISQGRVEVDGRIVIEQGLRIDPENAVVRVDGVRVVVQKD 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGG 129 +KP G +T SD GR V D + R+ VGRLD +TEGLLLLTNDG Sbjct: 61 LVHLALNKPRGWQSTMSDDLGRPCVGDIVSERVAAGQRLFHVGRLDADTEGLLLLTNDGD 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 LA L PS + + Y G +++ LK+G+ + TL + V Sbjct: 121 LAHRLMHPSFEVSKTYLATVSGALERGVGKKLKEGVELDDGPAKVDTFTLLDINEGKSLV 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L EG+ ++++F+ V RL+R G LG G+ R + + + Sbjct: 181 RVTLHEGRKHIVRRLFDAVGHPVIRLVRTDIGAVALGDQRPGTLRVLGRGEV 232 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 102/348 (29%), Positives = 159/348 (45%), Gaps = 6/348 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 +P+R+ KV+A AGIASRR+ E +IA RV VNG ++ V D + VDG PL+ Sbjct: 2 SPERLQKVLASAGIASRRDCEALIAAGRVMVNGRVVVVPGTRVDLDHDEVLVDGQPLQMP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + HKP G+V+T D GR TV +L ++ +RV VGRLD+++EGL+LLT+DG L Sbjct: 62 TKRTYIMLHKPAGVVSTAEDTHGRPTV-LDLVNVPARVFPVGRLDMDSEGLILLTDDGEL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + + YRV + + L + G+++ G V L WV Sbjct: 121 AYALTHPSFEVEKEYRVLLDRALTPEALRSWRNGVLLDGEMTAPAWVELIGTAPEGVWVR 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + LREG+ R+I+ V + ++V RLIR+ G LG L + R ++ + + Sbjct: 181 IVLREGRKRQIRAVAKLLGYEVRRLIRVREGDLVLGDLPPRAWRHLTDEEVAALRTHIAK 240 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR-- 308 V + S RD PD +R ++ + + + R Sbjct: 241 RRPPVERSPGVAPSSVRNRDDERPSYRTPDIRSRGDRDDRGREFEREPRARRDSGERGWE 300 Query: 309 -NLASNVWMAKGIHSS-FLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 G F + R ++ R F + RR S ++ Sbjct: 301 FEREPRARRDSGERGREFEREPRARRDSGERGREFEREPRARRDSGER 348 >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 = 149 bits (377), Expect = 4e-34, Method: Composition-based stats. Identities = 80/304 (26%), Positives = 128/304 (42%), Gaps = 7/304 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV +NG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARVGLGSRRYMEEVIAAGRVSINGRIAQV-GERIEPGDELRIDGRKVQFQVE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V N + KG+ ++ + G N Sbjct: 121 GELANRLMHPSNEVEREYAVRVMGEVTPQIRNNMLKGVELEDGPAKFESFSEIGGDGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE N KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQNLKVSRLLRTRYGTVILPRELRTGRWMELDKMDIDNLAK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ Q + T + + + +++ Q + Sbjct: 241 SVELKPRQGTGLFGMAKRRTERMTDKPMAARRGGYLRQQRRDDEQPEQRPNSNGGNHNNN 300 Query: 307 RRNL 310 R Sbjct: 301 GRKT 304 >gi|328868084|gb|EGG16464.1| Putative synthase [Dictyostelium fasciculatum] Length = 444 Score = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 88/247 (35%), Positives = 134/247 (54%), Gaps = 16/247 (6%) Query: 2 KDKNIVQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMST 57 + + ++E P +R+ K ++R+G+ SRR+ ERMI + RV VNG + + + V T Sbjct: 149 RTSSPIEEKIDPNQVERLQKRLSRSGVTSRRQSERMIMEGRVCVNGKVASMKNDLFVKPT 208 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 D + VD + ++ L + ++SVGRLD Sbjct: 209 DIVTVDNKIIEESVPKICNLQDPEKDTLIPILQKMLNK----------DHLMSVGRLDYY 258 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGL+L+TNDG L+R LELP + + + YRVR G+V D L +G+ I GI Y M++ Sbjct: 259 SEGLILITNDGELSRYLELPQSGFEKTYRVRIFGKVTPDMNMALTRGLTIDGIRYAPMKI 318 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV 236 +++ + SN WV L EGKNREI+++FE FN KV R+IR +GP+ L L G T EV Sbjct: 319 SVERETDSNTWVICTLTEGKNREIRRIFEHFNVKVLRIIRTQFGPYTLPETLKPGETVEV 378 Query: 237 S-KKILR 242 K ++ Sbjct: 379 HLKDEIK 385 >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 = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESRNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >gi|326575652|gb|EGE25575.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis CO72] Length = 328 Score = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 80/318 (25%), Positives = 136/318 (42%), Gaps = 13/318 (4%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I + Sbjct: 13 NEQNATNKPAGEKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRI 71 Query: 63 DGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG +R R + Y + + + R + VGRLDIN Sbjct: 72 DGRQVRLKAEREKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDIN 131 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLLL TNDG LA L PS+ +R Y VR G+V + L G+ ++ + Sbjct: 132 SSGLLLFTNDGELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTTGVELEDGVAKFDDI 191 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V ++EG+ RE++++FE KV+RLIR YG L L G E+ Sbjct: 192 KEGGGIGVNKWYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYGTVILPKELRTGRFIEL 251 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + + ++ +++ I + P +++ + + Sbjct: 252 DASDIGKLV------DSVGLRQRQGTGLNHATKEKQARIHKKPLKSREIRRQKHEAHERR 305 Query: 297 KQKKLATPVHRRNLASNV 314 +++K TP HR S Sbjct: 306 EERKKHTPKHRTPNLSRT 323 >gi|315159966|gb|EFU03983.1| conserved hypothetical protein [Enterococcus faecalis TX0312] Length = 260 Score = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIRGKQVTVDGIVTLNESHNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >gi|326565822|gb|EGE15984.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis BC1] Length = 328 Score = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 80/318 (25%), Positives = 136/318 (42%), Gaps = 13/318 (4%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I + Sbjct: 13 NEQNATNKPAGEKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRI 71 Query: 63 DGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG +R R + Y + + + R + VGRLDIN Sbjct: 72 DGRQVRLKAEREKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDIN 131 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLLL TNDG LA L PS+ +R Y VR G+V + L G+ ++ + Sbjct: 132 SSGLLLFTNDGELAHRLMHPSSGIIREYAVRVLGEVTSQIASQLTAGVELEDGVAKFDDI 191 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V ++EG+ RE++++FE KV+RLIR YG L L G E+ Sbjct: 192 KEGGGIGVNKWYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYGTVILPKELRTGRFIEL 251 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + + ++ +++ I + P +++ + + Sbjct: 252 DASDIGKLV------DSVGLRQRQGTGLNHATKEKQARIHKKPLKSREIRRQKHEAHERR 305 Query: 297 KQKKLATPVHRRNLASNV 314 +++K TP HR S Sbjct: 306 EERKKHTPKHRTPNLSRT 323 >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 = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 68/233 (29%), Positives = 109/233 (46%), Gaps = 4/233 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 +++V+++AG+ SR E R IA+ RV+V+G ++ + IEVDG P+ +R Sbjct: 42 LARVLSKAGVCSRSEAARWIAEGRVRVSGRIVRDPEFPIGQPAPPIEVDGQPMGAPQRLY 101 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + T + + + + VGRLD +EGLLL +ND A L Sbjct: 102 LMLNKPRGVVTTAQDERGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAARL 161 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P T + Y V+ D L L+ G+ +G V + AW+ V L Sbjct: 162 TDPETGPQKTYHVQVDRLPDDATLAALQAGVDDEGEFLVAQAVRVLRSGDKTAWLEVVLD 221 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EG+NR I+++ F+ +V RL+R++ G QL L G R + + +Q Sbjct: 222 EGRNRHIRRLLAAFDLQVLRLVRVAIGGLQLADLGKGQWRML---EVNDQQRL 271 >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 = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 80/318 (25%), Positives = 136/318 (42%), Gaps = 13/318 (4%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I + Sbjct: 13 NEQNATNKPAGEKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRI 71 Query: 63 DGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG +R R + Y + + + R + VGRLDIN Sbjct: 72 DGRQVRLKAEREKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDIN 131 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLLL TNDG LA L PS+ +R Y VR G+V + L G+ ++ + Sbjct: 132 SSGLLLFTNDGELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTAGVELEDGVAKFDDI 191 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V ++EG+ RE++++FE KV+RLIR YG L L G E+ Sbjct: 192 KEGGGIGVNKWYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYGTVILPKELRTGRFIEL 251 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + + ++ +++ I + P +++ + + Sbjct: 252 DASDIGKLV------DSVGLRQRQGTGLNHATKEKQARIHKKPLKSREIRRQKHEAHERR 305 Query: 297 KQKKLATPVHRRNLASNV 314 +++K TP HR S Sbjct: 306 EERKKHTPKHRTPNLSRT 323 >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 = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 66/231 (28%), Positives = 113/231 (48%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R++K IA G+ SRR+ E ++ + + +N + + V D + PL ++ Sbjct: 1 MRIAKFIAACGVCSRRKAEELVNEGHITINNHRVTELSTQVDVDNDEVRYRRKPLVLEKK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + +L R+ +VGRLD +EGL++LTNDG LA+ Sbjct: 61 LYYLLNKPVGYVCTNDDPFAEKKAI--DLLPDKGRLYTVGRLDKPSEGLIVLTNDGDLAK 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWVTV 191 ++ PS + + YRV G+V Q KL+ L + + +G+ Y + + Q + Sbjct: 119 IMTHPSFELEKKYRVTVKGRVSQKKLDYLVRDGLTFEGVNYRVLDARIKKQVPGGYMINF 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EGKNREI+K+ + + +V RL R LG L G+ R +++ +R Sbjct: 179 TLNEGKNREIRKICQSLDLQVKRLRRYEIAGIALGKLPPGAWRPMTQSEVR 229 >gi|326564224|gb|EGE14460.1| ribosomal large subunit pseudouridine synthase B [Moraxella catarrhalis 12P80B1] Length = 328 Score = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 80/318 (25%), Positives = 136/318 (42%), Gaps = 13/318 (4%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ +++ K++AR G+ SRR +E +I R+ +NG + V+ TD I + Sbjct: 13 NEQNATNKPAGEKLQKLLARLGLGSRRGLEEIIKSGRISINGKVAT-LGDRVILTDEIRI 71 Query: 63 DGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG +R R + Y + + + R + VGRLDIN Sbjct: 72 DGRQVRLKAEREKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDIN 131 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLLL TNDG LA L PS+ +R Y VR G+V + L G+ ++ + Sbjct: 132 SSGLLLFTNDGELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTAGVELEDGVAKFDDI 191 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V ++EG+ RE++++FE KV+RLIR YG L L G E+ Sbjct: 192 KEGGGIGVNKWYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYGTVILPKELRTGRFIEL 251 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + + ++ +++ I + P +++ + + Sbjct: 252 DASDIGKLV------DSVGLRQRQGTGLNHATKEKQARIHKKPLKSREIRRQKHEAHERR 305 Query: 297 KQKKLATPVHRRNLASNV 314 +++K TP HR S Sbjct: 306 EERKKHTPKHRTPNLSRT 323 >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 = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 52/227 (22%), Positives = 92/227 (40%), Gaps = 2/227 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ ++ +R G SR E+ + RV V + ++ V +++DG PL E Sbjct: 6 ERLDRLFSRLGYGSRSELREWLRAGRVSVGSRPVGSPSLRVDPK-LVQIDGQPLDHPEGL 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + + +VGRLD +T G+LL+T+DGG Sbjct: 65 YLLYHKPRGKVCAHGEPRSVYGDFPAAWSVRRPAINTVGRLDADTSGVLLVTDDGGWLHR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P R YRV + L L+ G ++ + + L Sbjct: 125 WTHPRRAVPRTYRVGLAEPITDGALAQLRSGKLLLAGETSPCLPADVEVLAPRH-LRLTL 183 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 REG+ E++++ +V+ L R ++GPF++ L +GS R + Sbjct: 184 REGRYHEVRRMLAALGNRVDTLHREAFGPFRVDDLPSGSWRLLDPHE 230 >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 = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQQVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTASE 229 >gi|257482791|ref|ZP_05636832.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 241 Score = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 82/238 (34%), Positives = 115/238 (48%), Gaps = 9/238 (3%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAG 231 + +G N W + EG+NRE+++++E V+RL R+ YGP L L G Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMG 240 >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 = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQQVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTASE 229 >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 = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 80/304 (26%), Positives = 128/304 (42%), Gaps = 7/304 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 +++ KV+AR G+ SRR +E +IA RV +NG + + + D + +DG ++ Sbjct: 2 SEKLQKVLARVGLGSRRYMEEVIAAGRVSINGRIAQV-GERIEPGDELRIDGRKVQFQVE 60 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L Y + + + + R + VGRLDIN+ GLLL TND Sbjct: 61 DEIRRRVLIYYKPEGEICSRNDPEKRPTVFDHLPQIANDRWVMVGRLDINSTGLLLFTND 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + R Y VR G+V N + KG+ ++ + G N Sbjct: 121 GELANRLMHPSNEVEREYAVRVMGEVTPQIRNNMLKGVELEDGPAKFESFSEIGGDGINR 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 W V ++EG+NRE++++FE N KV+RL+R YG L L G E+ K + Sbjct: 181 WYQVVVKEGRNREVRRIFESQNLKVSRLLRTRYGTVILPRELRTGRWMELDKMDIDNLAK 240 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 L+ Q + T + + + +++ Q + Sbjct: 241 SVELKPRQGTGLFGMAKRRTERMTDKPMAARRGGYLRQQRRDDEQPEQRPNSNGGNHNNN 300 Query: 307 RRNL 310 R Sbjct: 301 GRKT 304 >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 = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 99/232 (42%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + A +R+E ++ + V VN ++ + +V V +E G L Sbjct: 1 MRLDKFLCDALGITRKEATHLLKTKTVTVNDVMQKSGSVKVTEQCVVEWQGNELNVHGPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + LY + + R+ ++ GRLD++T GL+L+T+DG + Sbjct: 61 YIMLYKPEGFVCSHEDG-SNRTAFELLDEIKMDKLHFAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + ++YRV V+ D + K+GI + + + + + V + Sbjct: 120 ITAPKHKCEKMYRVWLVDPVEPDYVEKFKEGIQLKSEDGLTLPAHLEV----RAEREVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F KV L R G ++ L G R ++++ + Sbjct: 176 TIHEGKYHQVKRMFAALGNKVEALHRERIGEIEMDESLELGEYRYLTQEEVD 227 >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 = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 64/247 (25%), Positives = 112/247 (45%), Gaps = 7/247 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSITVDGQPLAGPARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 99 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAT 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+ + Y V+ + +L L+ G+ +G+ QV++ + NAW Sbjct: 159 VTDPARGPDKTYHVQIDCRPSAAQLTQLQAGVADTDPEGEGVLLRAKQVSVLREGERNAW 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + +R + Sbjct: 219 LEIVLDEGRNRQIRRLLAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAEEVRTLVPAA 278 Query: 249 LLEEAQV 255 Sbjct: 279 RASAPDA 285 >gi|166711386|ref|ZP_02242593.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 240 Score = 149 bits (376), Expect = 5e-34, Method: Composition-based stats. Identities = 63/239 (26%), Positives = 104/239 (43%), Gaps = 10/239 (4%) 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 L-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + R+ +GRLD +EGL+L+T++G Sbjct: 63 LGGRRHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKESEGLILMTSNGN 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + Y V + V + L + +G+ I + + G Sbjct: 123 IVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG----F 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 179 RIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQR 237 >gi|332202557|gb|EGJ16626.1| hypothetical protein SPAR69_0668 [Streptococcus pneumoniae GA41317] Length = 241 Score = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 53/232 (22%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+ + SR+ +++ + ++ + V+ A NV + + G ++ E Sbjct: 1 MRLDRLLAQEKV-SRKAMKQALLKKEILVDDCPTSSLAQNVDTGLQKLVFQGRQIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + + ++ ++GRLD +T GLLLLT++G L Sbjct: 60 IYLMLHKPNGVVTASKDKKLPTVMDLVPKNIQSGQLYAIGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K+GIV Q+ + + + + ++ Sbjct: 120 QLLHPQYHVDKSYQVVVNGPLTSDHIQKFKEGIVFLDGTTCKPAQLEILSSSPTESRASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R+ +G F L L G R ++ + L Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTSLKRVQFGDFTLDPELAEGQYRPLNPEELE 231 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 54/235 (22%), Positives = 98/235 (41%), Gaps = 11/235 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K +++A SR+E ++++ V VN +++ V+V D ++ G PL A Sbjct: 6 MRLDKFLSKATELSRKESKKILHAGEVTVNEQVIKDPGVHVDIVNDDVQWAGEPLSVATG 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L HKP G T + + GRLD++T G LL+++DGG Sbjct: 66 NRYILLHKPEGFECTLKAKEYPIVTDLIAVPELGSLRIAGRLDVDTTGALLISDDGGWLH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI------VIQGICYGDMQVTLDTQKGSN 186 + P + +VY + +D D K + + + + Sbjct: 126 RVTSPKHEHAKVYELTLADAMDSDAQANAIKEVAEGILLEGDHEETKPATLEFIDETHA- 184 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +GK ++K++ +F +V L R S G L L G +R ++ + + Sbjct: 185 ---RLTLEQGKYHQVKRMMGYFGNRVVELHRASVGHITLDGLEKGDSRFLTPEEV 236 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 84/287 (29%), Positives = 124/287 (43%), Gaps = 7/287 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 +++ KV+AR G+ SRR++E I RV++N V S D + VDG PLR Sbjct: 3 EKLQKVLARHGLGSRRQMEAWIRAGRVQINDRPAT-IGDRVTSRDRLSVDGKPLRVPSWV 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L + L T + SR ++VGRLD+NTEGLLL TNDG Sbjct: 62 RPRLRVLRYHKPAGELATRQDPEGRPTVFDRLPRLRGSRWVAVGRLDLNTEGLLLFTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L P + RVY VR G + ++ L G+ ++ + + +GSN W Sbjct: 122 DLANALMHPRAELERVYAVRVLGSLSDEQKAALLAGVELEDGPARFLAIEEAGGEGSNRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 V L EG+NRE++++ + V+RLIRI YGP + L G E+S L Sbjct: 182 YHVSLAEGRNREVRRLLAAVHLSVSRLIRIRYGPIDMPRHLKLGYFEELSDAERSVLLDA 241 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 + Q A + + + R K + Sbjct: 242 VQWSDPQATAAAEHGPEDRRPNRSRQHRHGLRTELQRGKGGPRSGHA 288 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 62/224 (27%), Positives = 107/224 (47%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA-E 71 R+++ +A G+ SRR+ E +I + +++NG + + D + G ++ E Sbjct: 15 IRLNRFLADCGLGSRRKTEELIQKGHIEINGKRVTNLGTRIDPEIDVVSYLGDVVKPIVE 74 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +++KPIG + +H+D T+F LPS + GRLD+N+ GLL+LTNDG LA Sbjct: 75 SKKILIFNKPIGYLCSHADRFHEKTIFSLLPSDYKNFKIAGRLDLNSRGLLILTNDGALA 134 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + PS + Y V + + + ++ ++ G V Sbjct: 135 QKITHPSNGSEKEYLVTLKHDPGEKLIQAAFQKGILDAGEILHAKMVKLVP-GKKCVYRV 193 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGST 233 L EGK R+I+++F +F V L RI GP +L L G Sbjct: 194 ILEEGKKRQIRRMFRWFGVSVVDLQRIRIGPLKLEKFNLEEGQY 237 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 114/233 (48%), Gaps = 10/233 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K+++ G SR E++R + +V++N +++ + + D + DG + E Sbjct: 6 VRVDKILSELGFGSRTEIKRYVKAGKVRINENPVKKPEEKINTEIDRLYFDGKDVVIEEF 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LY + T + TV + + S ++ VGRLD++TEGLL+LTNDG L Sbjct: 66 ETYVLYKPAGYVCATFDNVH--KTVMELIDSNRKNIVPVGRLDLDTEGLLILTNDGNLNH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L PS+ +VY +F G + D + + KG+ I ++ + ++ V + Sbjct: 124 RLVSPSSHVDKVYYAKFDGVLADDAIEMTAKGLDIGDGEVSKPAKLEIVSKN----EVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGSTREVSKKILR 242 + EGK ++K++ + +V L R ++G L L G +R++S + +R Sbjct: 180 TIHEGKFHQVKRMIKALGGEVTYLKRTAFGGLGLDDLNLKRGESRKISMEEMR 232 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 63/249 (25%), Positives = 103/249 (41%), Gaps = 20/249 (8%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-- 64 + R+SK +A G+ SRRE + I + V VNG V D IE+ Sbjct: 1 MTTPDNTVRLSKRMAELGLCSRREADAYIERGWVSVNGEKA-VLGQKVGEGDRIELHRAA 59 Query: 65 -------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 P+ Y L+T + + + + Sbjct: 60 HEEQAGRVTILLHKPVGFVSGQAEKGYRSAAELITEANHWPEDRSPQKFKAAHRHGLAPA 119 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDI++ GLL+LT DG +A+ L ++ + Y VR G++ ++ L LL G+ + G Sbjct: 120 GRLDIDSVGLLVLTQDGRVAKSLIGENSGVEKEYLVRVKGKLSEEGLRLLNHGLKLDGEA 179 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V+ Q + L++GK R+I+++ E +V L RI G +LG L G Sbjct: 180 LRPAKVSWQNQDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRIGKVKLGALPPG 235 Query: 232 STREVSKKI 240 R ++ Sbjct: 236 QWRYLAPHE 244 >gi|189499452|ref|YP_001958922.1| pseudouridine synthase [Chlorobium phaeobacteroides BS1] gi|189494893|gb|ACE03441.1| pseudouridine synthase [Chlorobium phaeobacteroides BS1] Length = 254 Score = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 68/251 (27%), Positives = 110/251 (43%), Gaps = 9/251 (3%) Query: 1 MKDKNI---VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK K+ V+ R++K +A GIASRR +R++ V VNG ++ + V Sbjct: 1 MKKKSSNAHVETPGAAVRINKYLALCGIASRRAADRLVESGEVMVNGRIMMKKGATVRPG 60 Query: 58 -DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 D + V L E ++++ T S + +L + RV VGRLD Sbjct: 61 VDEVVVSNRLLALPEEKKVYILLNKPRNYITTSSDEKERETVLDLVDVRERVFPVGRLDR 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGD 174 T G+LLLTNDG LA L PS++ + Y + L L G+ ++ Sbjct: 121 KTTGMLLLTNDGALAHRLMHPSSEVEKEYLAELETPFSEKDLPSLTGGMRLKDTGEKTSP 180 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + V V + EGKN +++++F + V RL R +Y + G L G R Sbjct: 181 CKGKIMQGGL---RVLVTIHEGKNHQVRRMFRSLGYDVKRLDRTAYAGLRAGKLRRGEWR 237 Query: 235 EVSKKILREQL 245 + K + + + Sbjct: 238 YATSKEVEQLM 248 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGIKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 98/230 (42%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + R+ V ++ RV V+G++++ V HI++D L+ Sbjct: 28 RLDRYLCTQLHTHRKAVRELLLSGRVCVDGLIVKDMDRQVDEFSHIQLDEQILQANVPVY 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ +V+ D ++ + + GRLD+N+ GLLLLTND + L Sbjct: 88 VMLHKPIG-VVSATKDTQHKTVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDAL 146 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P+ + +VYRV + ++ + + I ++ + + V Sbjct: 147 MSPTHKVDKVYRVTLANPITEEYIAAFAAGMYFGFEDITTQPAKLVILADNVA----EVT 202 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 203 LHEGKYHQIKRMFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALTAAEV 252 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 62/224 (27%), Positives = 107/224 (47%), Gaps = 5/224 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA-E 71 R+++ +A G+ SRR+ E +I + +++NG + + D + G ++ E Sbjct: 15 IRLNRFLADCGLGSRRKTEELIQKGHIEINGKRVTNLGTRIDPEIDVVSYLGDVVKPIVE 74 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ +++KPIG + +H+D T+F LPS + GRLD+N+ GLL+LTNDG LA Sbjct: 75 SKKILIFNKPIGYLCSHADRFHEKTIFSLLPSDYKNFKIAGRLDLNSRGLLILTNDGALA 134 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + PS + Y V + + + ++ ++ G V Sbjct: 135 QKITHPSNGSEKEYLVTLKHDPGEKLIQAAFQKGILDAGEILHAKMVKLVP-GKKCVYRV 193 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGST 233 L EGK R+I+++F +F V L RI GP +L L G Sbjct: 194 ILEEGKKRQIRRMFRWFGVSVVDLQRIRIGPLKLEKFNLEEGQY 237 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 65/255 (25%), Positives = 101/255 (39%), Gaps = 19/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M V R+SK +A G+ SRRE + I V+VNG +++ V +I Sbjct: 203 MFTPKPVASQPDLPRLSKRMAELGLCSRREADEWIVNGWVRVNGQVVDELGSRVEPDANI 262 Query: 61 EVDG---------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 EV P+ Y + LV + + Sbjct: 263 EVSKEAEKHQSEIVTILLHKPVGYVSGQAEDGYEPAVVLVHPDNHWAEDPVQKEFRRGFL 322 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 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 SLDGVQLKPAKVSWQNEDQ----LRFVLREGRKRQIRRMCELVGLHVVGLKRVRIGSVAL 438 Query: 226 GTLLAGSTREVSKKI 240 G L G R + Sbjct: 439 GKLPPGQWRYLRPGE 453 Score = 37.1 bits (84), Expect = 4.7, Method: Composition-based stats. Identities = 15/93 (16%), Positives = 24/93 (25%), Gaps = 3/93 (3%) Query: 265 ETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVW---MAKGIH 321 E V D P + Q G S + A R N + Sbjct: 94 EHQVADSPAENDRPRRVAADRDASERQPAGRSASDRPARSGESRPRTDNARPENRQRDER 153 Query: 322 SSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + S+ +R R + + RR + Sbjct: 154 PAERSELPRRPAADRADRLASDRDTPRRGGKAR 186 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 68/247 (27%), Positives = 113/247 (45%), Gaps = 20/247 (8%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 P R+SK +A + SRRE + I Q VKVNG++ V+ TD I++D + + Sbjct: 2 TEIQPIRLSKRMAELKMCSRREADHYIEQGWVKVNGVVA-VLGQKVVPTDRIDLDKIAHQ 60 Query: 69 KAERTRLWLYHKPIGLVT---------------THSDPDGRSTVFDNLPSIFSRVISVGR 113 + + L +KP+G V+ + +G ++ P + GR Sbjct: 61 QQAQRVTILLNKPVGFVSGQPEKDYRAAIELIAADNHWNGDTSKIPFHPKQLKGLAPAGR 120 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI++ GLL+LT DG +A+ L + + Y VR G + ++ L LL G+ + G Sbjct: 121 LDIDSVGLLVLTQDGRIAKQLIGEHSDSEKEYLVRVKGNLIENGLALLNHGLSLDGEKLR 180 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V + + L++GK R+I+++ E +V L RI G +LG L G Sbjct: 181 PAKVEWQNEDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRIGKVKLGALPVGQW 236 Query: 234 REVSKKI 240 R + Sbjct: 237 RYLGANE 243 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 57/235 (24%), Positives = 104/235 (44%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I++ R++V ++A+ RV V+G ++ A + + +DG LR+ + Sbjct: 7 RLDRFISQHCQIPRKQVRLILAKGRVSVDGQVVRDADCQIDQFSQVMLDGQALRQEQPIY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ +V+ D + ++ + + VGRLD+NT GLLLLTND ++ + Sbjct: 67 LMLHKPVG-VVSATKDDEHKTVMDLLPDYQDKGLHIVGRLDLNTSGLLLLTNDSRWSKRI 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + + Y V + Q + + + I Q+ + V Sbjct: 126 MSPEHKVAKQYLVTLKAPLTQAYVKAFAEGFYFAFENITTQPAQLEIL----EPHLARVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLG 246 L EG+ +IK++F F +V L R+S G L L G R ++ + + G Sbjct: 182 LHEGRYHQIKRMFGRFRNQVMALHRLSVGNLILDETLAVGQYRPLTPQEVASIFG 236 >gi|46449495|gb|AAS96146.1| ribosomal large subunit pseudouridine synthase B [Desulfovibrio vulgaris str. Hildenborough] Length = 267 Score = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 75/245 (30%), Positives = 121/245 (49%), Gaps = 9/245 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK-- 69 R++K ++ AG+ SRR+ + +IA +V+VNG ++ V TD IEV+G L Sbjct: 20 GTRLNKALSGAGVCSRRQADTLIAGGKVRVNGEVVTEMGRRVFPATDRIEVEGRLLACGE 79 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLL 124 R + +KP+ +V+T DP GR+T+ D LP V VGRLD +EGLLLL Sbjct: 80 ALNRHRHTYVMLNKPVQVVSTVRDPQGRTTILDILPDDLKTVRLYPVGRLDFFSEGLLLL 139 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 T+DG L L P + YRV + L ++ G+ + +G ++ + + Sbjct: 140 TDDGDLTHRLTHPKWHLPKYYRVLVREDIPPAALTAMRSGMTLAEGDRVAPVEAYIIDRS 199 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L +G NR+I+++ V RL+RI GP +LG L G+ R + ++ Sbjct: 200 EYGVELEMVLHQGINRQIRRMCRDLGLTVLRLLRIQQGPVELGNLSRGACRRLEDHEVKA 259 Query: 244 QLGPH 248 Sbjct: 260 LRKAA 264 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 62/239 (25%), Positives = 101/239 (42%), Gaps = 4/239 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A G SR +V+ ++ ++V VNG +A + D +EV+G + E Sbjct: 1 MRLDKFLAETGFGSRTQVKSLLKTKKVCVNGKKESQAKKQINPNLDRVEVEGQEVLYEEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + T + + V VGRLD +T GLLLLTN+G LA Sbjct: 61 VYYMLNKPKGVVSATQDKVHQTVLDLLDATAKQKEVFPVGRLDKDTHGLLLLTNNGNLAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVT 190 L P +VY G + + KKGI + ++ + S + V Sbjct: 121 RLLSPKKHVNKVYVADVDGLMTNQDIEAFKKGIHLSDHQCQPALLEILALDYEKSQSRVK 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPH 248 + ++EGK ++K++ +V L R+ GP QL L G+ R++ + L Sbjct: 181 IVIKEGKFHQVKRMVLACGKEVRDLQRLEMGPLQLDSKLALGAFRKLENTEIEALLSLP 239 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 61/246 (24%), Positives = 109/246 (44%), Gaps = 20/246 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRK 69 RVSK+++ G+ SRRE + I Q V ++G ++ V IE+ G ++ Sbjct: 2 EEKVRVSKLLSELGLCSRREADSYIEQGLVTIDGEVVNELGVRAYRHQKIELQSGAKAQQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRL 114 A R + L + + + + P+ + GRL Sbjct: 62 ASRITVILNKPVGYISHYDDEQEYQPAASLITPANYFASPLDKGKSPRFNTKGLAPAGRL 121 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ G+L+LT DG +A++L ++ + Y VR G++ + L+ L+ G+ + + Sbjct: 122 DIDSTGMLVLTQDGRIAKLLIGENSPIEKEYLVRVAGRLSFEGLDRLRHGLSLDEVELKP 181 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 QV+ ++ + LREG+ R+I+++ E KV L R+ G LG+L G R Sbjct: 182 AQVSWQNEEQ----LRFVLREGRKRQIRRMCEIVGLKVLGLKRVRMGRISLGSLPPGQWR 237 Query: 235 EVSKKI 240 V Sbjct: 238 YVGPHE 243 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 97/229 (42%), Gaps = 2/229 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLDPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EGK ++KK+F + KV L R + +LG L +G R ++ Sbjct: 181 TISEGKFHQVKKMFLTYGLKVTSLKRTHFAGLELGHLASGEYRYLTASE 229 >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 = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 68/245 (27%), Positives = 122/245 (49%), Gaps = 17/245 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + PQRV+K +A++G+ SRRE E++I+ V ++G ++E + + + Sbjct: 8 DEAEPQRVNKWLAQSGVCSRREAEQLISDGLVSIDGEVVEDVGRKIQPGQTLVLADRATA 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-------------SVGRLD 115 K + T +L HKP G+V++ DP + VGRLD Sbjct: 68 KLDGTPTYLIHKPRGVVSSQPDPGQVPAARLLTRANLWGDARGVAIPQSGDLIPPVGRLD 127 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 ++ GLLLL+ DG +A+ + P + + YRV G++ ++KL LL+ G+ + G Sbjct: 128 KDSRGLLLLSQDGVVAKAVIGPQSDLEKEYRVAVMGELTEEKLELLRFGLELDGRELRPA 187 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V + + + ++ LREG+NR+I+++ + + KV L R+ GP LG + G R Sbjct: 188 EVEVISDQR----LSFVLREGRNRQIRRMCDLVDLKVVDLFRVRIGPLDLGDMPEGRWRP 243 Query: 236 VSKKI 240 ++ Sbjct: 244 LTSAE 248 >gi|217974432|ref|YP_002359183.1| pseudouridine synthase [Shewanella baltica OS223] gi|217499567|gb|ACK47760.1| pseudouridine synthase [Shewanella baltica OS223] Length = 235 Score = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 54/230 (23%), Positives = 101/230 (43%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + R+ V ++ RV V+G++++ V HI++D L+ Sbjct: 7 RLDRYLCTQLHTHRKAVRELLLSGRVCVDGLIVKDMDRQVDEFSHIQLDEQILQANAPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ +V+ D ++ + + GRLD+N+ GLLLLTND + L Sbjct: 67 VMLHKPIG-VVSATKDIQHKTVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P+ + +VYRV + ++ + +G+ + I ++ + + V Sbjct: 126 MSPTHKVDKVYRVTLANPITEEYIAAFAEGMYFGFEDITTQPAKLVILADNVA----EVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 182 LHEGKYHQIKRMFGRFRNPVVGLHRLSIGDIVLDEKLAPGESRALTAAEV 231 >gi|291518121|emb|CBK73342.1| ribosomal small subunit pseudouridine synthase A [Butyrivibrio fibrisolvens 16/4] Length = 234 Score = 149 bits (376), Expect = 7e-34, Method: Composition-based stats. Identities = 51/232 (21%), Positives = 94/232 (40%), Gaps = 10/232 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 R+ K++ I +R EV+ ++ + + V+G + V I G + Sbjct: 2 MRLDKLLVELNIGTRSEVKALLKKGLIFVDGEKATKPEQKVDENSVVITYQGKEYTYQKF 61 Query: 73 TRLWLYHKPIGLVTTHSDPDG--RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + + T + + P + VGRLD +T GLLL+TNDG L Sbjct: 62 SYYVINKPKGVITATEDAHEKTVMDVFYSLCPDAPKGLAPVGRLDKDTTGLLLITNDGQL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWV 189 A + P + Y V G++ ++ + L+ G+ I +G V + K Sbjct: 122 AHDMLSPKKHVDKTYFVTLDGELSEEDVAALEAGVHIGEGEPTAPATVKYEGGK----TC 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVSKK 239 + + EGK ++K++F V L R ++GP L + G ++ + Sbjct: 178 YITIHEGKFHQVKRMFFAVGKTVLELKRTAFGPLVLDEEKVPEGHFITLNPE 229 >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 = 149 bits (375), Expect = 7e-34, Method: Composition-based stats. Identities = 71/253 (28%), Positives = 117/253 (46%), Gaps = 10/253 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE +++I RVKVNG +++ V D + V+G P++K+ + Sbjct: 1 MRLNKFISHHTTYSRREADKLIFDGRVKVNGRVIKEPGFEVEEGDKVAVNGKPVKKSTKY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +Y+KP G + T D GR T++D+LP + I VGRLD N+EGLL+LT+ +A Sbjct: 61 TCIVYNKPRGELVTKKDDRGRKTIYDSLPKKYRHFIPVGRLDFNSEGLLILTDSPKVAHA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLL---------KKGIVIQGICYGD-MQVTLDTQK 183 L + +++ + + I+ + + + Sbjct: 121 LMNSDLPRVYKLKIKGEITDKMIEAMQNGVEVGDAGAHEENEIKKMVLKPFLSAQIIKNT 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + V + EGKNRE+++ F F +V L R+SYG L L G TR KK + Sbjct: 181 PKYSTLKVAIGEGKNRELRRFFANFGSEVVDLKRLSYGWVSLNALPTGKTRYFDKKEYKL 240 Query: 244 QLGPHLLEEAQVN 256 E + Sbjct: 241 LKEFLHKEAERKK 253 >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 = 149 bits (375), Expect = 7e-34, Method: Composition-based stats. Identities = 59/245 (24%), Positives = 99/245 (40%), Gaps = 28/245 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--------------- 64 ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 1 MSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEIDPAAEAAQASQVTVLIH 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + Y I LVT + +G + + ++ 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+ + + LREGK R+I+++ E +V L R+ G LG L G R Sbjct: 181 QVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGHVMLGALPPGQWRY 236 Query: 236 VSKKI 240 ++ Sbjct: 237 LAADE 241 >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 = 149 bits (375), Expect = 7e-34, Method: Composition-based stats. Identities = 68/245 (27%), Positives = 111/245 (45%), Gaps = 20/245 (8%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+SK+++ G+ SRRE + I + V V+G + V I +D R+ + Sbjct: 3 EPVRLSKLMSERGLCSRREADAFIERGLVFVDGKRVSELGTKVDPACAIRLDNAASRQQQ 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTV----------------FDNLPSIFSRVISVGRLD 115 + L HKP+G V+ +P + V LP+ + GRLD Sbjct: 63 QRVTILLHKPVGYVSGQPEPGYQPAVALIRGETQWRDERRPGPAFLPAHLKGLAPAGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +AR L + + Y VR G++D L LL G+ + G+ Sbjct: 123 IDSTGLLVLTQDGRVARQLIGDHSDVEKEYLVRVEGRLDARGLALLNHGLSLDGVRLRPA 182 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V + L+EG+ R+I+++ E +V L R+ G +LG L G R Sbjct: 183 KVAWQNADQ----LRFSLKEGRKRQIRRMCELVGLRVVGLKRVRIGAVRLGDLPLGRWRY 238 Query: 236 VSKKI 240 ++ Sbjct: 239 LAPGE 243 >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 = 149 bits (375), Expect = 7e-34, Method: Composition-based stats. Identities = 65/241 (26%), Positives = 106/241 (43%), Gaps = 10/241 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR+ E Sbjct: 2 TIRLNKYIAETGSCSRREADRLIGERRVTVNGMPAGTGAV-VGEEDTVLVDGQPLRRREA 60 Query: 73 TRL-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL + T + R+ +GRLD ++EGL+L+T++ Sbjct: 61 KRLGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y V + V + L + +G+ I + + G Sbjct: 121 GNIVNEILRAENRHQKEYLVAVNKPVTDEFLRRMARGVRIHNETTLPCRTARIAKFG--- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 178 -FRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQ 236 Query: 248 H 248 Sbjct: 237 R 237 >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 = 149 bits (375), Expect = 7e-34, Method: Composition-based stats. Identities = 66/240 (27%), Positives = 112/240 (46%), Gaps = 1/240 (0%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLW 76 + +++ G SR + ER+IA+ RV V+G ++ + V +T I +DG+ + + L Sbjct: 29 RALSKLGYCSRTQAERLIAENRVAVDGRIVNDTSAWVDLATARISIDGLVIAAEAKIYLM 88 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T H + + VGRLD +EGLLL TND A++L Sbjct: 89 LNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLFTNDTEFAQILLD 148 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P T + Y V+ +D + + + GI G N+W+ V L EG Sbjct: 149 PVTHVTKTYHVQIDRIMDDEDIAAMTSGIRHDGELLTATAARRLRHGDRNSWIEVELDEG 208 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVN 256 +NR+I+++ E + RL+R++ G +LG L G+ R +S+ L+ +E + N Sbjct: 209 RNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALSEPELQALRRKTGMERTRRN 268 >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 = 149 bits (375), Expect = 7e-34, Method: Composition-based stats. Identities = 55/243 (22%), Positives = 89/243 (36%), Gaps = 4/243 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++A V VNGI E V + + VDG R Sbjct: 36 LYRILQSQGFGTRRYCKDLVAAGLVHVNGIEAEDPDAQVDTAGLVLDVDGERWAYHARAY 95 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L LY + +P V VGRLD +T GLLLLT+DG L Sbjct: 96 LMLYKPAGFECSQKPRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTL 155 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V ++ L +G+++ + + + L Sbjct: 156 TSPRHQVPKVYEITTADPVTDAQVAQLCRGVLLDDEDATVAAAWAERVD--TCDLRMALT 213 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLEEA 253 +GK ++K++ V L R + G L L G R + + L + Sbjct: 214 QGKYHQVKRMVAAAGNHVTALHRSAIGALTLDAGLAPGQWRWLERDDLTALDTTPVHAAG 273 Query: 254 QVN 256 Sbjct: 274 AAT 276 >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 = 149 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 50/230 (21%), Positives = 97/230 (42%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +A SR+E +R IA+ +++VNG ++ + +V +E G + + Sbjct: 1 MRLDYFLAHTTSWSRKEAKRFIAKGKIRVNGDVVTKPNASVTEDCKVESHGEVILWRKEK 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 LY + + D + + P + VGRLD +T GL+ LT DG Sbjct: 61 YFALYKPADYV-SALEDSESPVLIDLIEPEERKNLKIVGRLDKDTTGLIFLTTDGQWLHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + P + YRV + + L+ G+++ G +V S+ + + Sbjct: 120 ITSPKHDCYKTYRVYCADPISEANCKSLETGVMLNGEDLPTSPAKVERV----SDTEILL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++EGK ++K++ +V +L R + L L G R +++ + Sbjct: 176 SIKEGKYHQVKRMLAAVGNRVEKLHREAISDVNLDGLQEGQYRILTEDEI 225 >gi|268608512|ref|ZP_06142239.1| 16s pseudouridylate synthase [Ruminococcus flavefaciens FD-1] Length = 255 Score = 149 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 51/235 (21%), Positives = 94/235 (40%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K I+ +R +++ + A+ V VNG ++R+ + + D + V G + Sbjct: 4 IRLDKFISERTEYTRSQIKSLCAKGSVTVNGSPVKRSDTKIDTGADDVTVCGNAISSERF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + +T + GRLD ++ G LL+T+DG LA Sbjct: 64 RYILLNKPKGYVSSTDDKDGETVIKLVPPEMRSKGLFPAGRLDKDSTGALLITDDGALAH 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + P+ ++Y +Q+ + KGIV+ G + + + ++ V Sbjct: 124 RICSPNNHISKIYAAELSRPFEQEYVEKFAKGIVLANGEACSPCK--VQKAENADNLAFV 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 L EG ++K++F V L RIS G L L G + K + + Sbjct: 182 ELHEGMYHQVKRMFAAVGNHVENLKRISIGGLILPKDLPLGKCMYLLPKDIEQMF 236 >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 = 149 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 114/231 (49%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ +R+IA R++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQRLIAGGRLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP+ + + P + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPEHPTVLELLPPDHRDDLHIGGRLDYNTTGLMLLTNDGRWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + + + Sbjct: 121 LTLPGSRRDKVYYVETEEPIDQRYVDAFAAGIHFRFEDLVTLPAQLEPLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ +V RL R G QL TL G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNRVLRLHRERMGDIQLDPTLPPGAWRPLNAEEI 227 >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 = 149 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 111/252 (44%), Positives = 159/252 (63%), Gaps = 8/252 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ + R++K++ARAG+ASRREVERMI RV ++G +E A + S + Sbjct: 7 QNHERSPDRPDGDRIAKLLARAGVASRREVERMITDGRVALHGKPVETPATFLESLRGVT 66 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----ISVGRLDIN 117 VDG P+ KAE TRL+ ++KP GL+T +DP GR+T++D L + + + +GRLD N Sbjct: 67 VDGKPVGKAEPTRLFAFNKPTGLLTAENDPKGRATIYDALKNALPKDAGRVMPIGRLDFN 126 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 TEGLLLLTNDGGL R +ELPS+ R YR R G + Q++L L +GI I G+ YG + Sbjct: 127 TEGLLLLTNDGGLKRRMELPSSGIPRTYRARAFGDITQEQLESLIEGIEIDGVRYGRIDA 186 Query: 178 TLDTQKGS----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 L+ + S N W+ + + EGKNRE+++V E F +V+RL+R++YGPFQLG L G Sbjct: 187 NLEQKTKSAGGRNQWIEMTITEGKNREVRRVLEHFGLEVSRLMRVAYGPFQLGDLPRGQA 246 Query: 234 REVSKKILREQL 245 E+ K L L Sbjct: 247 VEIRKGDLGRFL 258 >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 = 149 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 65/241 (26%), Positives = 106/241 (43%), Gaps = 10/241 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IA G SRRE +R+I ++RV VNG+ AV V D + VDG PLR+ E Sbjct: 2 TIRLNKYIAETGSCSRREADRLIGERRVTVNGMPAGTGAV-VGEEDTVLVDGQPLRRREA 60 Query: 73 TRL-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 RL + T + R+ +GRLD ++EGL+L+T++ Sbjct: 61 KRLGGRKHVYIALNKPVGITCTTESSVKGNIVEFVGHEQRIFPIGRLDKDSEGLILMTSN 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + + Y V + V + L + +G+ I + + G Sbjct: 121 GNIVNEILRAENRHQKEYLVAVNKPVTDEFLRGMARGVRIHNETTLPCRTARIAKFG--- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L +G NR+I+ + F ++V +L R+ +L L G R +S LR L Sbjct: 178 -FRIVLEQGLNRQIRLMAAEFGYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELRGLLPQ 236 Query: 248 H 248 Sbjct: 237 R 237 >gi|332075974|gb|EGI86440.1| hypothetical protein SPAR68_0695 [Streptococcus pneumoniae GA41301] Length = 241 Score = 149 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 107/232 (46%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V+ +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVQVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 149 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 120/233 (51%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ ++++ IA+R+E+++M+ + + VN + +++++ ++ D +++ + + Sbjct: 1 MRLDRMLSEMKIATRKEIKQMVKKGIITVNDVTVKKSSEHIDENNDVVKIYDEVIEYRKF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +K G+ + DP ++ + D + VGRLD++T GLL++TNDG A Sbjct: 61 L-YFVMNKRKGVTSHSKDPMHKTVIDDMGELCVFDLNPVGRLDLDTTGLLIITNDGKFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +VD+ + +KGI + + I ++ + + Sbjct: 120 NLISPKKDVSKKYKVTLRDKVDEKYNDTFEKGIKLMPEDIVTKPAKMEII----DDYNCY 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK ++K++FE +V L R+ G F+L L G RE++ + LR Sbjct: 176 LTIKEGKYHQVKRMFEKVGNEVVELQRVQIGDFKLPEDLEEGDFRELTDEELR 228 >gi|311695566|gb|ADP98439.1| pseudouridine synthase, Rsu [marine bacterium HP15] Length = 232 Score = 148 bits (374), Expect = 9e-34, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 105/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++S++++ SRR+ +IA RV VN + AA V + +DG +++AE Sbjct: 1 MKLSRILSNRNDISRRQANFLIASGRVAVNDVTCRDAAAEVDRFSCVRMDGDIIQEAEAC 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G ++ D R+ + P + + GRLD + GLL+LTNDG +R Sbjct: 61 HHLMLHKPAGFLSATLDDTHRTVMELISPELREDLHIAGRLDRASTGLLILTNDGRWSRQ 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 L P + +VYRV + + + +GI + + L S V Sbjct: 121 LTEPRIKIPKVYRVSTAYPISPETPHRFAEGIWFEFEQLTTSPADLDLL----SPCEARV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G +L L AG R ++ + + Sbjct: 177 TIYEGRYHQVKRMFHAVGNRVTALHREQMGNIRLDDDLAAGEYRSLTAEEI 227 >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 = 148 bits (374), Expect = 9e-34, Method: Composition-based stats. Identities = 60/245 (24%), Positives = 116/245 (47%), Gaps = 17/245 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPL 67 + PQRV+K +A++G+ SRRE E++I+ V ++G ++E + + + D Sbjct: 8 DEAEPQRVNKWLAQSGVCSRREAEQLISDGLVSIDGEVVEDVGRKIQPGQTLTLADRATA 67 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPD------------GRSTVFDNLPSIFSRVISVGRLD 115 + ++ + + +P + +GRLD Sbjct: 68 KLDAVPTYLVHKPRGVVSSQPDPGQVPAARLLTRANLWGDARGVAIPQSGDLIPPIGRLD 127 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 ++ GLLLL+ DG +A+ + P ++ + YRV G++ ++KL LL+ G+ + G Sbjct: 128 KDSRGLLLLSQDGVVAKAVIGPQSELEKEYRVAVMGELTEEKLELLRFGLELDGRELRPA 187 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V + + + ++ LREG+NR+I+++ E + KV L R+ GP LG + G R Sbjct: 188 EVEVISDQR----LSFVLREGRNRQIRRMCELVDLKVVDLFRVRVGPLDLGDMPEGHWRL 243 Query: 236 VSKKI 240 ++ Sbjct: 244 LTAAE 248 >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 = 148 bits (374), Expect = 9e-34, Method: Composition-based stats. Identities = 62/242 (25%), Positives = 105/242 (43%), Gaps = 18/242 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 RVSK+++ GI SRRE + I + VK +G ++ V+ + +D L Sbjct: 2 EKVRVSKLLSEQGICSRREADVFIERGWVKADGNVV-SLGTKVLPNAKLTLDKKALESKS 60 Query: 72 RTRLWLYHKPIGLVTTHSD-------------PDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + +KP+G V++ + + S + + GRLDI + Sbjct: 61 KQVTIILNKPVGYVSSQPEKNYKSALSLITKANQYDRVHNEFSESHLKGLATAGRLDIES 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 +GLL++T DG +A+ L ++ + Y VR G++ + L LL G+ + G D +V Sbjct: 121 QGLLVMTQDGSIAKQLIGEDSEVEKEYIVRVEGKLSERGLQLLNHGLSLDGQPLRDAEVE 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L EGK R+I+++ E KV L R+ G L L G R + Sbjct: 181 WINDDQ----LRFILWEGKKRQIRRMCELVGLKVIGLKRVRMGNVTLADLPTGKWRYLKP 236 Query: 239 KI 240 Sbjct: 237 FE 238 >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 = 148 bits (374), Expect = 9e-34, Method: Composition-based stats. Identities = 47/232 (20%), Positives = 94/232 (40%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I A SR ++ + + V +G++++ + V + ++G L Sbjct: 1 MRLDKFITEASELSRSLAKKALHRGDVTCDGVIVKDSGFKVEPGTKVCLEGRELSLF-GV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP+ + + D S + S + GRLD +T GL+L+T+DG + Sbjct: 60 RYLMLNKPVDTICSTIDEVYPSVLSLIDVEKASNLHIAGRLDADTTGLVLITSDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 P + Y V +D+ + +GI + + + + + + Sbjct: 120 ATSPKKDCGKRYLVEVAEPLDESLIETFAEGIALRNEDGLTKPATLEII----DSHHARL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F V L R G +L L G R +++ + Sbjct: 176 TITEGKYHQVKRMFAATGNAVINLHRECVGSIELDPGLALGEWRYLTQAEID 227 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 RV + ++ +R++V ++ ++RV+++G ++ V+ +EVD L+ + Sbjct: 1 MRVDRFLSNLPRYNRKQVRLLLVEKRVRIDGKVVSDPHSEVLEFSRVEVDDEVLQPGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V+ DP+ + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLNKPQGCVSATRDPEHPTVLDLIHEPDKDDLHIAGRLDFNTTGLMLITNDGSWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V ++ + + + + Q+ + + Sbjct: 121 LTQPQTKLPKVYYVETEQEIGPEYAIKFAEGIYFAFEDLTTQPAQLQVL----GPRTARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EG+ ++K++F FN KV RL R S GP L L G R + + + Sbjct: 177 SIVEGRYHQVKRMFGHFNNKVLRLHRESMGPLALDHALKPGEYRALRTEEI 227 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 108/232 (46%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +RR+V ++ ++RV V+G+ + +V + VD ++ + Sbjct: 1 MRIDRFLSNLPRLNRRQVRLLLVERRVSVDGVAVSDPHHDVRDFSCVCVDDEVIQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SDP + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPQGCVSATSDPQHPTVLDLLDEPDKDELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+T+ +VYRV + + + + ++ L + Sbjct: 121 LTQPTTKLPKVYRVHTEDTIGPEYAPTFAAGLYFAFEDLTTQPAELALL----GPTTARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EG+ ++K++F FN KV L R GP +L + L G R +S + +R Sbjct: 177 SIIEGRYHQVKRMFGHFNNKVIGLHRERMGPLELDSALAPGEYRALSLEEIR 228 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGAVTANKDKELPTVMDLLPSNIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDDTVCKPAKLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 61/244 (25%), Positives = 101/244 (41%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ Sbjct: 2 EKVRISKLMSERGLCSRREADTYIERGWVRVDGVVVSELGARAYPDQVITLERAAQARQT 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + L+ + S G + + GRLDI Sbjct: 62 SRVTILINKPVGYVSGQAEKGYTPAVALIDSRSRYAGDRAPQRFERAHLDGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ L + + Y VR G + + L LL G+ + G Q Sbjct: 122 DSQGLLVLTQDGRIAKHLIGEDSSVDKEYLVRVQGNLSDNGLALLNHGLSLDGKALKPAQ 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + LREGK R+I+++ E KV L R+ G LG L G R + Sbjct: 182 VRWQNSDQ----LRFVLREGKKRQIRRMCELVGLKVIGLKRVRIGRVSLGDLPLGQWRYL 237 Query: 237 SKKI 240 + Sbjct: 238 REDE 241 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 119/233 (51%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ ++++ IA+R+E+++M+ + + VN + +++++ ++ D +++ + + Sbjct: 1 MRLDRMLSEMKIATRKEIKQMVKKGIITVNDVTVKKSSEHIDENNDVVKIYDEVIEYRKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +K G+ + DP ++ + D + VGRLD++T GLL++TNDG A Sbjct: 61 L-YFVMNKRKGVTSHSKDPMYKTVIDDMGELCVFDLNPVGRLDLDTTGLLIITNDGKFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +VD+ + +KGI + + I + + + Sbjct: 120 NLISPKKDVSKKYKVTLRDKVDEKYNDTFEKGIKLMPEDIVTKPATMEII----DDYNCY 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK ++K++FE +V L R+ G F+L L G RE++ + LR Sbjct: 176 LTIKEGKYHQVKRMFEKVGNEVVELQRVQIGDFKLPEDLEEGDFRELTDEELR 228 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 66/250 (26%), Positives = 113/250 (45%), Gaps = 15/250 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+ SRRE + +I ++ VN L+ A +V D +++ G ++ + Sbjct: 2 QKMRLNKFISHNTSYSRREADELIKSGKISVNNKLVSELATSVSDEDKVKIGGRLVKPKK 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +YHK G + T D GR T++D LP F++ +S+GRLD +EGLLLLT+ +A Sbjct: 62 DFTMIVYHKQKGELVTKKDDRGRKTIYDALPEGFAKFVSIGRLDYASEGLLLLTDAPAIA 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLL-----------KKGIVIQGICYGD-MQVTL 179 L + +V+ + I+ + + + + Sbjct: 122 TALMSSDIEREYYLKVKGEITDEVKTAMREGFFAADASKGAHAKSKIKSMEFKPFVAFDI 181 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G V + EG+NRE+++ F +F+ +V L R+S+G LG L G R Sbjct: 182 FGSSGGYTKFRVIINEGQNRELRRFFGYFDLEVMDLKRVSFGRVDLGMLKPGKWRYFENG 241 Query: 240 I---LREQLG 246 LR+ L Sbjct: 242 EYEDLRDFLK 251 >gi|167586851|ref|ZP_02379239.1| Pseudouridine synthase, Rsu [Burkholderia ubonensis Bu] Length = 298 Score = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 100/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 50 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERASAAQAAQ 109 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 110 VTILLHKPVGYVSGQAEDGYEPATVLITRENHWSGDRSALRFSPQHLHSLAPAGRLDIDS 169 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 170 TGLLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 229 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 230 VALKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 285 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 286 QGQWRYLSADE 296 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 105/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + +R E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLKGEILVDGRPARSLAQNIDTGLQELLFQDQIIRGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + ++ +VGRLD +T GLLL+T++G L Sbjct: 60 TYLMLHKPAGVVTANKDRELPTVMDLLSPDIQSDKLYAVGRLDRDTTGLLLVTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + YRV +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYRVEVNGLLTPDHIQAFQKGIVFLDGTVCKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++KK+F KV L R +GP+ L L AG R ++ + L Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTSLKRTHFGPWSLDENLQAGDYRPLNSEEL 230 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 65/250 (26%), Positives = 104/250 (41%), Gaps = 18/250 (7%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +V R+SK++A G+ SRR+ + IA+ V V+G + I +D Sbjct: 59 VVSAPPGGVRISKLMAERGLCSRRDADDYIARGWVFVDGRRVSELGTRADPGAAITLDTA 118 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRST--------------VFDNLPSIFSRVISV 111 + + L HKP+G V+ +P PS + Sbjct: 119 AQTQQRKQMTILLHKPVGYVSGQPEPGCTPAVTLIQPERQFRTPDTPVFHPSCLRGLAPA 178 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLDI++ GLL+LT DG +AR L + + Y VR G++ L LL G+ + G Sbjct: 179 GRLDIDSTGLLVLTQDGRVARQLIGEESTVEKEYLVRVDGRLADKDLALLNHGLSLDGRQ 238 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V + LREG+ R+I+++ E +V L R+ G +L L G Sbjct: 239 LKPARVEWLNDDQ----LRFVLREGRKRQIRRMCELVGLRVTGLKRVRIGAVRLADLPLG 294 Query: 232 STREVSKKIL 241 R + + Sbjct: 295 QWRFLRPDEV 304 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 102/232 (43%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A SR+EV ++I +RV +NG + + ++ D + VDG + + Sbjct: 1 MRLDKLLANKAYGSRKEVHQIIKDRRVTINGSITTKKDTHIDIDVDIVAVDGKVVSTTQL 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + I V+ VGRLD +TEGLLLLTNDG Sbjct: 61 YYVKFHKPKGYVTAVEDSNHPVVMDLLPPEFIKMGVVPVGRLDKDTEGLLLLTNDGVWGH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + + ++Y V F G + + + +KKGI++ G ++ + V V Sbjct: 121 SIINGNKHVPKIYYVEFEGTLSDEGIQRIKKGILLGDGTQCKPAEIEFVSL----HSVHV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + EGK ++K++ V L R++ G L + GS E++ + + Sbjct: 177 TIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELTVEQIE 228 >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 = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 100/231 (43%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + IA + SR+E +R IA V+VNG + + +A V + + + G + Sbjct: 1 MRLDQFIATSSELSRKEAKRAIAAGDVQVNGDVWKNSATAVPANAEVMLQGELVALPAER 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + + D D + + + + GRLD +T GLLLLT+DG + Sbjct: 61 YLMLNKPAGFI-SATRDSDQPTALDLLPAELTRNLHIAGRLDADTTGLLLLTSDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P + + Y+V + Q + L+ G++++ QVT+ + V + Sbjct: 120 VTSPRVECPKTYQVALSVPISQAAIAALETGVMLRNDTKPTKPAQVTVLQSQ----LVEL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++ V L R G L L AG R ++ + Sbjct: 176 TISEGRYHQVKRMLAAVGNHVTALHRSRIGGVTLDPALAAGEHRFLTSAEI 226 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 60/244 (24%), Positives = 98/244 (40%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ Sbjct: 2 EKVRISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGAKAFPDQVITLERAAQARQT 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + L+ S + + GRLDI Sbjct: 62 SRVTILINKPVGYVSGQAEKGYTPAVALIDARSRFANDRHPQRFERAHLEGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ L + + Y VR G++ L LL G+ + G Q Sbjct: 122 DSQGLLVLTQDGRIAKHLIGEDSSVDKEYLVRVQGELSDRGLQLLNHGLSLDGKALKPAQ 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + LREGK R+I+++ E KV L R+ G LG L G R + Sbjct: 182 VRWQNHDQ----LRFVLREGKKRQIRRMCELVGLKVVGLKRVRIGRVSLGDLPLGQWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RDDE 241 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 103/232 (44%), Gaps = 5/232 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRK 69 T R+S +A G+ASRR+ R+I RV +N L + V + I VD P+ Sbjct: 2 TSMRLSHYLAVCGVASRRQAARLIDTGRVSINHQLAKHTD-RVNFCEIETILVDDKPILA 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + WLYHKP+G+ ++ R+ GRLD ++ GLLLLTNDG Sbjct: 61 VQDKQYWLYHKPVGIDCR--LLVDDPHSLLHVLPELPRLYPAGRLDKDSRGLLLLTNDGQ 118 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + L P + Y V+ + L+++ G+ + + + Sbjct: 119 LTQALMHPDYYHPKTYVVQVDKPISTSFLSMMANGVSYGDVQTRSCDIRPLSLTAEEDRF 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L +G NR+I+++ + +KV L+R ++ L + R ++ L Sbjct: 179 EIVLTQGLNRQIRRMCQTLGYKVIDLMRTQLLDIRIDELAEKTMRPLTAAEL 230 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 57/237 (24%), Positives = 90/237 (37%), Gaps = 4/237 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +++A G SRRE I RV + G + + D + +DG PL + Sbjct: 3 RLDQLLANLGYCSRREARSWIEAGRVTIGGEAANDSGQKAAAAD-VRIDGEPLDHPDGLL 61 Query: 75 LWLYHKPIGLVTTHSD--PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + + P+ S + + V SVGRLD T GLLLLT+ L Sbjct: 62 LLLHKPLGLVCSHDEREGPNIYSLLPERWRRRNPAVTSVGRLDKETSGLLLLTDQSLLVH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VYR + D + L G + G + Sbjct: 122 RLTSPKHKVPKVYRASVDRDLSPDLVPLFASGTLQLEGEAHPCAPAELRLLGPR-EAELT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 L EG+ +++++ V L R +G L L G+ RE+ + G Sbjct: 181 LTEGRYHQVRRMLAACGLTVLTLHRARFGHLALDDLAPGAWRELPLDEFAARFGLAR 237 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 65/243 (26%), Positives = 108/243 (44%), Gaps = 14/243 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 R++K IA G SRRE +R+I ++RV VNG++ AV V D + VDG PLR E Sbjct: 2 TIRLNKHIADTGFCSRREADRLIGERRVTVNGVVAGTGAV-VGEEDTVLVDGQPLRAREA 60 Query: 72 ------RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + +KP+G+ T R+ +GRLD +EGL+L+T Sbjct: 61 KKPGGRKHVYIALNKPVGITCTTESSV--KGNIVEFVGHEQRIFPIGRLDKESEGLILMT 118 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 ++G + + + + Y V + V + L + +G+ I + + G Sbjct: 119 SNGNIVNEILRAENRHQKEYLVAVNKAVTDEFLRGMARGVRIHNETTLPCRTARIAKFG- 177 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+ + F+++V +L R+ +L L G R +S L L Sbjct: 178 ---FRIVLEQGLNRQIRLMAAEFDYRVTQLRRVRIDNIKLAALKPGQWRNLSDAELHGLL 234 Query: 246 GPH 248 Sbjct: 235 PQR 237 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 74/243 (30%), Positives = 113/243 (46%), Gaps = 4/243 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIE 61 K+ R+ KV+A+AG+ASRR E +I Q RV+V+G ++ + V + Sbjct: 16 TKHDGPPKGDGVRLQKVLAQAGVASRRAAEELIDQGRVEVDGRIVVEQGLRVDPENAVVR 75 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINT 118 VDGV + + +KP G T SD GR V D + R+ VGRLD +T Sbjct: 76 VDGVRVVVQKDLVYLAMNKPRGWQCTMSDDLGRPCVGDIVSERVQSGQRLFHVGRLDADT 135 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL TNDG LA L PS + + Y HG V++ L+ G+ + T Sbjct: 136 EGLLLFTNDGDLAHRLMHPSFEVPKTYLATVHGVVERSTGKQLRDGVTLDDGPAKVDAFT 195 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + L EG+ ++++ + V RL+R + G LG G+ R + + Sbjct: 196 VLEINEGKTLVKLVLHEGRKHIVRRLLDAVGHPVVRLVRTNVGVVALGDQRPGTQRVLGR 255 Query: 239 KIL 241 + Sbjct: 256 SEV 258 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 59/245 (24%), Positives = 99/245 (40%), Gaps = 14/245 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 +R+ K+++ G SR++V +++ V VNG + V+V D + VDG + Sbjct: 2 KTERLDKILSHHGFGSRKDVRKLLHAGSVAVNGTVCVSPDVHVDPDADELTVDGSSVPMR 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----VISVGRLDINTEGLLLLTN 126 + + + + + + VGRLDI+TEGLLLLT Sbjct: 62 RHIYIMMNKCAGVVCSARDGLHRTVFDLLDDSYRQEFLGGSLHMVGRLDIDTEGLLLLTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD--MQVTLDTQKG 184 DG L L P T + Y +R V + L+ + GI D + Sbjct: 122 DGTLTHRLTSPKTHVTKTYTIRLKNCVPDEAQPLITRRFS-DGIHIAPDGDDGEYDCKPA 180 Query: 185 SNAWV-----TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSK 238 W ++ + EG+ ++K++ +V L RI+ G L L G+ RE+S Sbjct: 181 DLHWFSGTECSLVITEGRFHQVKRMIAAAGNEVVYLKRIAIGALLLDPALENGAYRELSL 240 Query: 239 KILRE 243 + L Sbjct: 241 RELEN 245 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 81/251 (32%), Positives = 123/251 (49%), Gaps = 19/251 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE +R+I + VKVN +++ +V D + V G ++ Sbjct: 1 MRLNKYISHNTTYSRREADRLIQEGFVKVNRQIVKEPFYDVQEGDKVFVKGKLIKPKVDY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + T D GR T++D+LP F+ I VGRLD +EGLLLLT+ +A+ Sbjct: 61 TVIVYNKPKGELVTKKDDRGRKTIYDSLPKKFAHYIPVGRLDFASEGLLLLTDSPKIAQA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTL 179 L RVY V+ G+V +++G+ ++ + Sbjct: 121 LMESD--IPRVYNVKIKGEVTPKMEEAMREGLELEDATAGGHEKSRVTSMKFAPFFAYRI 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 D + + + V L EGKNREI++ F F V L R+ YG +L L G TR +SKK Sbjct: 179 DKNAPTFSKLKVALTEGKNREIRRFFAHFGKDVVDLKRVEYGWIKLNALPTGKTRYLSKK 238 Query: 240 I---LREQLGP 247 LRE L Sbjct: 239 EYEKLREFLKE 249 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 101/230 (43%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ ++ E IA+ RVKVN ++ + V +H+ ++G L Sbjct: 1 MRLDKFVCKSTTLTKNEALECIAEGRVKVNAKIVTVESTQVHENNHVTLNGDLLTARPFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + + + D S S + GRLD +T GL+L+T+DG + Sbjct: 61 YLLMNKPANTICSN-IDEAYPSLFNYIKEGNNSELHIAGRLDSDTTGLVLITDDGRWSYN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + PS + +VYRV + + + ++ G+ +QG ++ + T+ V + Sbjct: 120 IITPSKKCEKVYRVGLRNIITSEAIIKIELGVQLQGEVELTRPAKLKIITE----REVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++K++F KV L R +G L + G R ++ + Sbjct: 176 TIIEGKFHQVKRMFSAVGNKVILLHREQFGEISL-DVNEGEWRYLTDYEV 224 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 81/352 (23%), Positives = 140/352 (39%), Gaps = 13/352 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLRK 69 +R+ KV+A+AG+ SRR +E+ IA+ VKVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIAEGLVKVNGEVAQT-GMSVKSGDKIELDGRGFVATALA 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + P +R I+VGRLDINT GLLL T DG Sbjct: 87 EPSRVLVYNKPEGEVTTREDPEGRPTVFESLPPLKGARWIAVGRLDINTTGLLLATTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ ++ L +G+ ++ ++ Sbjct: 147 LANAMMHPSFEVEREYVVRVRAPEGEEKVSDAIIDRLGRGVALEDGPAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L L G + E+ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVTLPRELARGHSVELGSAQVEA 266 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LEE + + + + + + ++ Sbjct: 267 LRAQLKLEEGAPSALTLQPVIGQRRAAKTTVRVREGGRGNAYVNGHNTADEGRELRRFDN 326 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR--SPSFPSKRSLRRTSAK 353 R +S +++ + + + RSL + Sbjct: 327 VREDRGRGRGGKGGGFKGGLTVSGEAAAKQSQKPFKQRAQKNDRSLPEGNPA 378 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 102/232 (43%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A SR+EV ++I +RV +NG + + ++ D + VDG + + Sbjct: 1 MRLDKLLANKAYGSRKEVHQIIKDRRVTINGSITTKKDTHIDIDVDIVAVDGKIVSTTQL 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + I V+ VGRLD +TEGLLLLTNDG Sbjct: 61 YYVKFHKPKGYVTAVEDSSHPVVMDLLPPEFIKMGVVPVGRLDKDTEGLLLLTNDGVWGH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + + +VY V F G + + + +K+GI++ G ++ + V V Sbjct: 121 SIINGNKHVPKVYYVEFEGTLSDEGIQRIKEGILLGDGTQCKPAEIEFVSL----HSVHV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + EGK ++K++ V L R++ G L + GS E++ + + Sbjct: 177 TIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELTVEQIE 228 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 100/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++ + SR++++++I+ V ++ + NV I V G + + Sbjct: 1 MRLEHLLMKHFDISRKQMKKLISSGEVLIDSTPATHVSNNVDPQIQVITVQGSRMEDNSQ 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++T +D + + + +GRLD +TEGLL++TN+G L Sbjct: 61 KYYLLNKPKG-VITATTDSQLPTVIDLFKNENIEGLYPIGRLDRDTEGLLIITNNGPLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G +D + GI+ ++++ S + TV Sbjct: 120 RLLNPIQHIEKEYYVEVNGPLDNSCIQRFYDGIMFHDGTICKPAKLSILESSPSFSKATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G R ++ L+ Sbjct: 180 TISEGKFHQIKKMFLCVGVKVTFLKRIRFGEFLLDESLSPGEYRPLNFSELQ 231 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 59/257 (22%), Positives = 102/257 (39%), Gaps = 27/257 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A + + R+ V I VKVNG ++ ++++ D +E + + Sbjct: 1 MRLDKFLAESAVGRRKIVRTYIKDGMVKVNGEIITEPSIDINEKLDDVEYLEKKVVHTGK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + T + TVFD + V VGRLD +TEGLLLLTNDG Sbjct: 61 VYYMFNKPSGCITAT--KDNIHRTVFDYFDEDMNGVFHVGRLDKDTEGLLLLTNDGEFEH 118 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 + P + Y G +D + L++G+ I ++ + + GS Sbjct: 119 KVMHPEKHVEKTYFFWALGSLDDEDKKQLQEGVFIGSNEALTKPAKIDI-HKSGSYIEFK 177 Query: 191 --------------------VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LL 229 + + EG+ ++K++ + V L RIS G +L L Sbjct: 178 EEIPINSLKNKDHQPVVSGYLTISEGQKHQVKRMLKAVGCYVIYLKRISIGGLKLDESLK 237 Query: 230 AGSTREVSKKILREQLG 246 G R+++KK ++ Sbjct: 238 MGDYRDLTKKEIKRIFE 254 >gi|295108497|emb|CBL22450.1| ribosomal small subunit pseudouridine synthase A [Ruminococcus obeum A2-162] Length = 257 Score = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 66/241 (27%), Positives = 110/241 (45%), Gaps = 22/241 (9%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ K +A AG +R EV+++I + +V+VNG+ ++ + V+ D + + G + A Sbjct: 3 KAVRLDKFLADAGKGTRSEVKKIIQKGQVQVNGVPAKKPEMKVVPENDVVVLSGETVGAA 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L +KP G V+ + TV + +PS + VGRLD +TEGLLL+T+DG L Sbjct: 63 PEFVYYLLNKPAGCVSAT-EDRNDRTVMEYVPSDRKGLFPVGRLDKDTEGLLLITDDGML 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK------ 183 A L P + Y VR G++ + + L+ G+ I + +V + Sbjct: 122 AHELLAPGKHVDKTYFVRVEGKLTVENIRNLENGVDIGEEKMTMPAKVEIVGGSWEGAGD 181 Query: 184 ------------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLA 230 + + + EGK ++K++ V L RIS GP L L Sbjct: 182 SQSGRVRIENLPEVYTELHLTIHEGKFHQVKRMMAAVGNPVIYLKRISMGPLTLPDNLKK 241 Query: 231 G 231 G Sbjct: 242 G 242 >gi|257870927|ref|ZP_05650580.1| pseudouridine synthase [Enterococcus gallinarum EG2] gi|257805091|gb|EEV33913.1| pseudouridine synthase [Enterococcus gallinarum EG2] Length = 237 Score = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 109/231 (47%), Gaps = 3/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I SR+E++R+ Q +V V+ + + NV S I+V GV L+ Sbjct: 1 MRIDKLIEERLATSRKEMKRLFQQGKVLVDQQIERNPSRNVDSRLHEIKVAGVLLQTR-D 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + +VGRLD +TEGL+LLT +G L Sbjct: 60 VYYLLNKPAGVVTANIDHQHATVIDLLQPEDRQATLYAVGRLDRDTEGLVLLTTNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V +G V + + +GIV G ++T++ G ++V + Sbjct: 120 ELLHPNKKVPKRYDVIVNGPVTAEDVAAFAQGIVFHGGVVCQPAKLTIEMTSGRRSFVHL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R++ GP +LG LL+G R +++ L Sbjct: 180 EIAEGKFHQVKKMFLARGKKVIALKRVAIGPLELGDLLSGEYRNLTQFELE 230 >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 = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 64/227 (28%), Positives = 112/227 (49%), Gaps = 3/227 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTR 74 +++V+++ G+ SR + I RV V+G ++ D I +DG+P ++A R Sbjct: 6 LARVLSKWGLCSRTVAAQWIRAGRVAVDGRIVRDPEAPQRGLDLWISIDGIPQQRARRQV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ K +V+ + + D + +GRLD + GLLL +ND ++ L Sbjct: 66 LMLHKKRGVVVSRSDERGRPTVFADI--PQEPWLAPIGRLDRASSGLLLFSNDPIWSQRL 123 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P+ + YRV+ + + L+ + V+ G M+V G W+ L+ Sbjct: 124 LDPAGHLPKTYRVQIRPPLAAEALHHIATASVLDGRPCLPMEVRAVACGGKTQWLEFVLQ 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+NR+I+++ E +V RLIRI++G LG L GS R +S+ + Sbjct: 184 EGRNRQIRRLLEAQGVEVLRLIRIAFGSVILGDLAPGSWRWLSEAEI 230 >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 = 148 bits (372), Expect = 1e-33, Method: Composition-based stats. Identities = 60/244 (24%), Positives = 102/244 (41%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK++A G+ SRRE + I + V+V+G+++ I +D Sbjct: 2 EKIRISKLMAERGLCSRREADAYIERGWVRVDGVVVSELGSKAWPDQKITLDKQAQRRQT 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + L++ + + P + GRLDI Sbjct: 62 SRVTILLNKPVGYVSGQAEQGYRPAVSLISASTRYRVDKSPLKFEPGHLRGLAPAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +AR L ++ + Y VR G++ + L L G+ + G Sbjct: 122 DSQGLLVLTQDGRIARQLINEDSEIDKEYLVRVQGKIAGNGLAQLNFGLSLDGKPLRRAH 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + + L+EGK R+I+++ E KV L R+ G LG L G R + Sbjct: 182 VEWQNEDQ----LRFVLQEGKKRQIRRMCEQVGLKVIGLKRVRMGRIVLGDLPPGQWRYL 237 Query: 237 SKKI 240 + Sbjct: 238 KEGE 241 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 91/230 (39%), Positives = 130/230 (56%), Gaps = 1/230 (0%) 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 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EG+NR+++++ + V L RI YG + L G R ++++ R Sbjct: 183 LHEGRNRQVRRMCKAVGHPVLELTRIQYGNLTIDGLAPGEIRPLTEEEER 232 >gi|49081896|gb|AAT50348.1| PA0733 [synthetic construct] Length = 231 Score = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 107/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ + +IA ++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGHLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP + + + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPQHPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLVTLPAQLEPI----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ KV RL R G L L G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWRPLNAEEI 227 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 107/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A SRR+ + +IA ++V+G ++ V +E+D L+ + Sbjct: 1 MRLDRFLANLPELSRRDAQMLIAGGHLRVDGQVVRDGTHEVRVFSRVELDERLLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP + + + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYYMLHKPMGCVSATRDPQHPTVLDLFPEDLRDDLHIGGRLDYNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP ++ +VY V +DQ ++ + + Q+ + Sbjct: 121 LTLPGSRRDKVYYVETEAPIDQRYVDAFAAGLHFRFEDLVTLPAQLEPI----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F+ KV RL R G L L G+ R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFDNKVLRLHRERMGDICLDPQLPPGAWRPLNAEEI 227 >gi|293363190|ref|ZP_06610074.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] gi|292553049|gb|EFF41798.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] Length = 237 Score = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 61/244 (25%), Positives = 107/244 (43%), Gaps = 8/244 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++A+AGIASRR+ E +I + VK+NG + D I V+G + + ++ Sbjct: 2 ERIQKLLAQAGIASRRKAEELITKGLVKINGDVAT-IGQKATFNDKISVNGKEIVQEKKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + R +L R+ VGRLD +T G+L+LTNDG L+ Sbjct: 61 YFVLNKPSKTVCTLKDNFNRRKV--VDLIETNLRIFPVGRLDYDTTGVLILTNDGELSNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P +R YR R + +D + L +I G + + ++ V L Sbjct: 119 LIHPKYNIIRKYRARLDEPLSKDDIKELNNEQLING---KPSKQVV--EQIDTKSYLVTL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G +K++F V L R+ + + + G R ++ K ++ E+ Sbjct: 174 TQGTYHHVKELFSKVGRLVINLKRVEFAGIGVDKIPMGEYRSLNMKEIKTLHNLVKEEKN 233 Query: 254 QVNL 257 Sbjct: 234 VKEK 237 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 59/252 (23%), Positives = 111/252 (44%), Gaps = 7/252 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + + +R++V ++A +RV+V+G++ V +EVD ++ Sbjct: 1 MRLDRFLGNLPCYNRQQVRLLLASKRVRVDGVVASDPLHEVREFSRVEVDDQVVQAGYPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP G V+ SDP + + + + GRLD NT GL++LTNDG +R Sbjct: 61 RYLMLHKPTGCVSATSDPLHPTVLDLLPAELRDGLHIAGRLDYNTTGLMILTNDGQWSRH 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V ++ ++ ++ + + Q+ + + Sbjct: 121 LTQPRTKLPKVYLVHTEDEIGAHYVDKFREGFYFAFEDLTTQPAQLDIL----GPREARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 + EG+ ++K++F +F KV L R G L L G RE+S + + Sbjct: 177 TIVEGRYHQVKRMFGYFQNKVVGLHRERMGAIALDPGLAPGEYRELSAEEISTVCRSGFS 236 Query: 251 EEAQVNLDAPIY 262 + ++ P+ Sbjct: 237 RDEHTSVWHPLR 248 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 71/252 (28%), Positives = 117/252 (46%), Gaps = 14/252 (5%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPL 67 + PQR++KV+A AG+ASRR E +I Q +V VNG + V S D I V+G + Sbjct: 151 KEHEPQRLAKVLAAAGVASRRTSEELIFQGKVTVNGSVCTAPQTKVDISKDSIYVNGNRI 210 Query: 68 RKAERTRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSI--------FSRVISVGRLDIN 117 K +L+ + ++ + S + D L R+ +VGRLD+ Sbjct: 211 SKKLPPKLYFAVNKPKGYICSSGEEKSVISLLDDYLKGWNKLQPGVPKPRLFTVGRLDVA 270 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GL+++TNDG A+ + PS+ + Y V G V + L + G VI G+ V Sbjct: 271 TTGLIIVTNDGEFAQKVSHPSSNITKEYVVTIDGAVHKKHLVAISGGTVIDGVKVVPDLV 330 Query: 178 TLDTQKGSNA--WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 + + + + EG+N E++++ + KV L R+ G F+L L G Sbjct: 331 EPLDTQADTKRMRLKIVVHEGRNHEVRELVQNAGLKVYALKRVRIGRFRLPSDLGIGKMV 390 Query: 235 EVSKKILREQLG 246 E+ + ++ G Sbjct: 391 ELKEADIKALDG 402 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 52/238 (21%), Positives = 90/238 (37%), Gaps = 4/238 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 ++ +++ G SR+ MI V VNG + + + V G E+ Sbjct: 1 MQLERILHSQGFGSRKICRSMIRHGEVAVNGEVCDFPFTEFDPEHLVFTVRGETWTYREK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + P + V S+GRLD +T GLLLL++DG Sbjct: 61 AYLMLNKPAHYECSHKPQHHPSIFSLLPAPLLERGVQSIGRLDEDTTGLLLLSDDGQFIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY V +D+ ++ L G+ + L + + + + Sbjct: 121 RMSSPKWKVPKVYEVTTKHPLDETQVTSLLSGVQLLDEPAPVA--ALSAKIVGDHVLHLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHL 249 L EGK ++K++ + +V L RI G L L G+ R + +L Sbjct: 179 LAEGKYHQVKRMLAAVSNRVEALKRIRIGSLDLPEDLAPGAWRWLDAAMLAAVAPMRQ 236 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 110/238 (46%), Gaps = 12/238 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL---RKA 70 RV K+I++ GIASRRE E MI Q RV++NGIL V D I +DG P+ + Sbjct: 4 RVQKIISQWGIASRREAEEMIGQSRVRINGILAR-LGQKVDPRVDIISIDGKPVIQGNRP 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDG 128 L L + T + + + + + VGRLD ++ G L+LTNDG Sbjct: 63 ALVYLLLNKPTGVVSTCNDPQGRTTVLDLLPAKLRQGTGIHPVGRLDADSTGALILTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L PS + Y V G + L + +G+++ G QV L Q + + Sbjct: 123 DLTFALTHPSHDISKTYHVVVEGHPPTNVLRMWSQGVMLDGRKTRTAQVKLIEQGVTQSK 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKIL 241 + + L+EG+NR+I++V + + V L R + G QL + G R + + Sbjct: 183 LEIILQEGRNRQIRRVAQQLGYPVVHLDRRAVGTIQLHNSYGKFIDIGKYRHLITSEI 240 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 67/261 (25%), Positives = 113/261 (43%), Gaps = 18/261 (6%) Query: 4 KNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 + EN PQR++KV+A AG+ASRR E +I Q + VNG + V S D Sbjct: 144 RRFYNENIKEREPQRLAKVLAAAGVASRRTSEELIFQGKXTVNGSVCTSPQTKVDISKDS 203 Query: 60 IEVDGVPLRKAERTRLWL--YHKPIGLVTTH---------SDPDGRSTVFDNLPSIFSRV 108 I V+G + K +L+ + + + + R+ Sbjct: 204 IYVNGNRISKKLPPKLYFAVNKPKGYICSCGEESKSVVSLFNDYLKGWNKIQPGLPKPRL 263 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GL+++TNDG A+ L PS+ + Y V G V + L + +G I Sbjct: 264 FTVGRLDVATAGLIIVTNDGEFAQKLAHPSSNVTKEYVVTIDGAVHKKHLIAISEGTKID 323 Query: 169 GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL- 225 G+ + + + + EG+N E++++ + +V L R+ G F+L Sbjct: 324 GVMCIPDLVEPLAAQSDTRKTRLRIVVHEGRNHEVRELVQNAGLQVYALKRVRIGRFRLP 383 Query: 226 GTLLAGSTREVSKKILREQLG 246 L G E+ + ++ G Sbjct: 384 ADLGIGKFVELKQADIKALDG 404 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 102/232 (43%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A SR+EV ++I +RV +NG + + ++ D + VDG + + Sbjct: 1 MRLDKLLANKAYGSRKEVHQIIKDRRVTINGSITTKKDTHIDIDVDIVAVDGKVVSTTQL 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + I V+ VGRLD +TEGLLLLTNDG Sbjct: 61 YYVKFHKPKGYVTAVEDSNHPVVMDLLPPEFIKMGVVPVGRLDKDTEGLLLLTNDGVWGH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + + +VY V F G + + + +K+GI++ G + + S V V Sbjct: 121 SIINGNKHVPKVYYVEFEGTLSDEGIQRIKEGILLGDGTQCKPAE----IESVSLHSVHV 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + EGK ++K++ V L R++ G L + GS E++ + + Sbjct: 177 TIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHIDLSGIEEVGSAMELTVEQIE 228 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 99/233 (42%), Gaps = 8/233 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I ++ V VNG ++ + D + G PL Sbjct: 4 PCRLDKFISHLAEIPRTQARASIKRKEVSVNGEVITSHNFQLAQQDEVLHQGTPLVFL-G 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ +KP+G V +SD ++ S GRLDI+T GL+++TNDG + Sbjct: 63 KRYYMLNKPVGYVCANSDELHKTVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVT 190 + P + Y V + + L L+ G+++ ++ +N + Sbjct: 123 KITSPKNNKFKTYLVETQEPITDEALEQLRTGVMLHNEKDLTRPA----IAERLANYGLR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ + KV L R L L +G R ++ + ++ Sbjct: 179 LSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDENLASGEYRLLTPEEIK 231 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 83/299 (27%), Positives = 142/299 (47%), Gaps = 10/299 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K + + ++V KV+ARAG SRRE+E MI++ RV ++G + + T+ I Sbjct: 58 VKVEFQKATHSDSEKVQKVLARAGKGSRREMETMISEGRVSIDGKVAF-LGDRITGTEQI 116 Query: 61 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 +DG ++ L + T + P R ++VGRLD Sbjct: 117 RLDGHHVKLTAQDEDICRVLVYNKPEGEMCTRKDPEGRPTVFDRLPPLDAGRWVAVGRLD 176 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 INT G+LL T DG LA L PS + R Y VR G++++ L L+ G+ ++ Sbjct: 177 INTSGMLLFTTDGELANRLMHPSQKVEREYAVRVFGEINEAMLQTLRAGVKLEDGMARFQ 236 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 ++T +G N W V L EG+NRE+++++E + +V+RLIR+ YG ++ L G R Sbjct: 237 KITYRGGEGRNHWFHVVLSEGRNREVRRLWESQDVQVSRLIRVRYGDMEMQRQLPMGGWR 296 Query: 235 EVSKKIL---REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 E++ K + R+ + E++V +D + R R ++ ++ Sbjct: 297 ELALKEVNYYRQLVNLTPEAESKVKVDEKAMDNAKSRRIRRSVKKHQQRHQQSTRRRHK 355 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 63/230 (27%), Positives = 105/230 (45%), Gaps = 8/230 (3%) 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 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ +V+ D R+ + + VGRLD+NT GLLLLTNDG ++ L Sbjct: 81 VMLHKPVG-VVSATIDDKHRTVIDLLEQDDKESLHIVGRLDLNTSGLLLLTNDGRWSKRL 139 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + ++YRV + D ++ + + I ++ + + V Sbjct: 140 MDPEHKVGKLYRVHLQNPLTPDYISGFAQGMYFEFEDITTLPAELEII----DSYTALVT 195 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ +IK++F F V L RIS G L L G +R ++ K + Sbjct: 196 LYEGRYHQIKRMFGRFRNPVIGLHRISVGNIVLDNNLKPGESRVLTPKEI 245 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 119/233 (51%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++++ IA+R+E+++M+ + + VN + +++++ ++ D +++ + + Sbjct: 1 MRLDRMLSEMKIATRKEIKQMVKKGIITVNDVTVKKSSEHIDENKDVVKIYDEVIEYRKY 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ +K G+ + DP R+ + D + VGRLD++T GLL++TNDG A Sbjct: 61 L-YFVMNKRKGVTSHSKDPMHRTVIDDMGELCVFDLNPVGRLDLDTTGLLIITNDGKFAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 L P + Y+V +VD+ + +KGI + + I + + + Sbjct: 120 NLISPKKDVSKKYKVTLRYKVDEKYNDTFEKGIKLMPEDIITKPATMEII----DDYNCY 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK ++K++FE +V L R+ G F+L L G RE++ + L+ Sbjct: 176 LTIKEGKYHQVKRMFEKVGNEVVELQRVQIGSFKLPEDLEEGDFRELTDEELK 228 >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 = 148 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 53/233 (22%), Positives = 102/233 (43%), Gaps = 8/233 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I ++ V VNG ++ + D + +G PL Sbjct: 4 PCRLDKFISHLAEVPRTQARASIKRKEVSVNGEVITAHNFQLAKDDVVLHNGEPLVFL-G 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ +KP+G V +SD ++ S GRLDI+T GL+++TNDG + Sbjct: 63 KRYFMLNKPVGYVCANSDDLHKTVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVT 190 + P + + Y V + + L L++G+++ ++ +N + Sbjct: 123 KITSPRSNKFKTYLVETQEPITDEALEQLREGVMLHNEKDATRPA----IAERLANYGLR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ + KV L R +L L G R +++ ++ Sbjct: 179 LSISEGKYHQVKRMLYAVDNKVVELHREQIAGIKLDEDLAPGEYRLLTENEIK 231 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 74/297 (24%), Positives = 122/297 (41%), Gaps = 12/297 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ K +A+ G+ SRR++E I ++ VNG + + + +D + +DG + Sbjct: 3 ERIQKRLAQLGMGSRRQIEHWIRDGKITVNGKVAQ-LGDTLEWSDRVTLDGKAIDLEQVD 61 Query: 70 -AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L + + T + R ISVGRLD+NT GLLL T DG Sbjct: 62 TIPKEVLLYHKPEGEVCTRSDPQGRTTVFERLPRLRAGRWISVGRLDVNTAGLLLFTTDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----TQKG 184 LA L PS + R Y VR G V + LN L +G+ ++ ++ + Sbjct: 122 ELANRLMHPSREIDREYAVRVLGDVSDEMLNQLVEGVQLEDGAAKFSEIVIGDHEYDSDR 181 Query: 185 SNAWVTVGLREGKNREIKKVFEFF-NWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 +N W V L+EG+NRE+++++E F V+RL R+ Y L TL G + + Sbjct: 182 ANRWYYVCLQEGRNREVRRLWESFSGVTVSRLKRVRYANIFLPKTLARGQWKRAEYDEFQ 241 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 E L A R + ++ S+ + + Sbjct: 242 ELYRSVELTPPSQKTYAESGGKRKEKHTRRARDINQKRRQQQNRRRSASQMRRRNPR 298 >gi|167645656|ref|YP_001683319.1| pseudouridine synthase [Caulobacter sp. K31] gi|167348086|gb|ABZ70821.1| pseudouridine synthase [Caulobacter sp. K31] Length = 255 Score = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 65/245 (26%), Positives = 118/245 (48%), Gaps = 15/245 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + PQRV++ +A+ G+ SRRE E +I Q V ++G+ ++ + + + Sbjct: 6 LYDEAEPQRVNRWLAQNGVCSRREAEALILQGLVSIDGLRVDDVGRKIEPGQTLVLSDRA 65 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRST-----------VFDNLPSIFSRVISVGRLD 115 + E + HKPIG+V+ D +P +++ VGRLD Sbjct: 66 QAQLEGALTVMIHKPIGIVSAQPDTGQVPAVRLLTREALYGQSPVIPGFENKLAPVGRLD 125 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +++ GLL+L+ DG +A+ + P+++ + Y V G + +KL LL+ G+ + Sbjct: 126 MDSRGLLILSEDGVVAKAVIGPASEMEKEYLVWVDGWITDEKLVLLRHGLELDERALRPA 185 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 QV + ++ + L+EG+NR+I+++ E V L+RI G LG L G R Sbjct: 186 QVEVVGRQQ----LKFILQEGRNRQIRRMCELVELTVVDLLRIRIGNVMLGDLPEGRWRP 241 Query: 236 VSKKI 240 +S Sbjct: 242 LSAAE 246 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 55/235 (23%), Positives = 101/235 (42%), Gaps = 6/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++R G SRR+ ++I RV+VNG + + I +DG + + Sbjct: 1 MRLDTFLSRFGGISRRQSRKLIKTGRVEVNGAKIRNPEFKIPENSSIFLDGNRIVPYGKL 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + + +G S S++ GRLD N+ GLLLL+NDG Sbjct: 61 YIAMNKPVGYVCSKSRT-EGLSVYDLINEVFSSKLSIAGRLDKNSRGLLLLSNDGNFVHE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + + Y V+ ++ ++L +L + + I Y + ++ L Sbjct: 120 IISPRKKIEKEYIVKVEEKILPEQLQILLQHVDIGKGEYARAESVQF---IDIVTFSIVL 176 Query: 194 REGKNREIKKVFE-FFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 EGK EI+++ + V L RI G + L G L G R ++++ ++ G Sbjct: 177 TEGKYHEIRRMVKSALKNNVVDLKRIRIGGYHLPGDLHEGEWRILTEEEIKAATG 231 >gi|254525039|ref|ZP_05137094.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219722630|gb|EED41155.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 546 Score = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 80/352 (22%), Positives = 140/352 (39%), Gaps = 13/352 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLRK 69 +R+ KV+A+AG+ SRR +E+ IA+ VKVNG + + ++V S D IE+DG Sbjct: 24 ERLHKVLAQAGLGSRRALEQRIAEGLVKVNGEVAQT-GMSVKSGDKIELDGRGFVATALA 82 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + P +R I++GRLDINT GLLL T DG Sbjct: 83 EPSRVLVYNKPEGEVTTREDPEGRPTVFESLPPLKGARWIAIGRLDINTTGLLLATTDGE 142 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ ++ L +G+ ++ ++ Sbjct: 143 LANAMMHPSFEVEREYVVRVRAPEGEEKVSDAIVDRLSRGVALEDGPAKFDEIERIGGTD 202 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L L G + E+ + Sbjct: 203 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELARGHSVELGTAQVEA 262 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LEE + + + + + + ++ Sbjct: 263 LRAQLKLEEGAPSALTLQPVIGQRRAAKTTVRVREGGRGNAYVNGHNTADEGRELRRFDN 322 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR--SPSFPSKRSLRRTSAK 353 R +S +++ + + + RSL + Sbjct: 323 VREDRGRGRGGKGGGFKGGLTVSGEAAAKQSQKPFKQRAQKNDRSLPEGNPA 374 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 79/318 (24%), Positives = 135/318 (42%), Gaps = 13/318 (4%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ +++ K++AR G+ SRR +E +I R+ +N + V+ TD I + Sbjct: 13 NEQNATNKPAGEKLQKLLARLGLGSRRGLEEIIKSGRISINDKVAT-LGDRVILTDEIRI 71 Query: 63 DGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 DG +R R + Y + + + R + VGRLDIN Sbjct: 72 DGRQVRLKAEREKRRRVIAYYKPEGEICSASDPQGRPTVFDRLPKLTNDRWVMVGRLDIN 131 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLLL TNDG LA L PS+ +R Y VR G+V + L G+ ++ + Sbjct: 132 SSGLLLFTNDGELAHRLMHPSSGIIREYAVRVLGEVTPQIASQLTAGVELEDGVAKFDDI 191 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 G N W V ++EG+ RE++++FE KV+RLIR YG L L G E+ Sbjct: 192 KEGGGIGVNKWYHVTIKEGRKREVRRMFESQTLKVSRLIRTRYGTVILPKELRTGRFIEL 251 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + + ++ +++ I + P +++ + + Sbjct: 252 DASDIGKLV------DSVGLRQRQGTGLNHATKEKQARIHKKPLKSREIRRQKHEAHERR 305 Query: 297 KQKKLATPVHRRNLASNV 314 +++K TP HR S Sbjct: 306 EERKKHTPKHRTPNLSRT 323 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 73/285 (25%), Positives = 127/285 (44%), Gaps = 18/285 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA SRRE +R+I + V +N +L A +V DHI V P++ + Sbjct: 1 MRLNKYIAHHTKYSRREADRLIEEGEVTLNKKVLRDFAYDVQEGDHIYVKSRPIKPSNEI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G++ T D GR+T++ LP F + VGRLD +EGLL+LT+ + Sbjct: 61 TVIVYNKPKGVLVTKKDDRGRATIYHKLPGKFRHFVPVGRLDYASEGLLILTDSVEVVTA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTL 179 L R Y ++ V Q+ + + +G+V+ + Sbjct: 121 LMGSD--LERTYNLKIDKPVTQEMVAAMNEGLVLDDARAGGHEKSKIYGMEFAPFAHFEI 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ S + V + EGKNRE+++ F F+ KV L R++YG +L L TR S+K Sbjct: 179 RSEGKSYTKLRVTITEGKNRELRRFFGHFDAKVLDLKRVAYGGIELNNLPTNKTRFFSRK 238 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 + +++ + + + ++ D Sbjct: 239 EYDDL--HKFMKQLKAEKKVEVKNRANALKQEEANKKAKKSDRRD 281 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 54/228 (23%), Positives = 86/228 (37%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++ V VNGI E V + + VDG R Sbjct: 10 LYRILQSQGFGTRRYCKDLVLAGLVHVNGIEAENPDAQVDTAGLVLDVDGERWAYHARAY 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ + +P V VGRLD +T GLLLLT+DG L Sbjct: 70 LMLHKPAGFECSQKPRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V +L L +G+++ + + + L Sbjct: 130 TSPRHQVPKVYEITTADPVTDAQLAQLCQGVLLDDEDATVAAAWAERVD--TCHLRMALT 187 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +GK ++K++ V L R + G L L G R + L Sbjct: 188 QGKYHQVKRMVAAAGNHVTALHRSAIGALTLDAGLAPGQWRWLEHDDL 235 >gi|152979359|ref|YP_001344988.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] gi|150841082|gb|ABR75053.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] Length = 373 Score = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 93/283 (32%), Positives = 133/283 (46%), Gaps = 10/283 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPL---- 67 +++ KV+ARAG SRRE+E +IA+ RV V+G + V S I +DG + Sbjct: 91 GEKLQKVLARAGQGSRREIEAVIAEGRVSVDGKIAALGDRVIVHSGLKIRIDGHLVNLTG 150 Query: 68 -RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +K L Y L T H + SR ++VGRLDINT GLLL T Sbjct: 151 VQKDVCRVLMYYKPEGELCTRHDPEGRATVFERLPRLTGSRWVAVGRLDINTSGLLLFTT 210 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + R Y VR G VD L L+KG+ ++ + G N Sbjct: 211 DGELANRLMHPSREVEREYSVRVFGNVDDAMLARLQKGVQLEDGPANFTAIKPAGGTGMN 270 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK---ILR 242 W V L EG+NRE+++++E +V+RLIRI YG +L TL G +E+ + LR Sbjct: 271 RWFDVTLIEGRNREVRRLWESQGIQVSRLIRIRYGNIKLMKTLPRGGWQEMDLENVNYLR 330 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 E +G E ++++ ++T R R Sbjct: 331 ELVGLPPETETRLDVTQSNRRAKTGQIRRAVKRYSDVTRRYRK 373 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 62/217 (28%), Positives = 98/217 (45%), Gaps = 2/217 (0%) Query: 26 ASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGL 84 SRR E +I Q RV+VNG ++ + V D I+VDG+ + L + Sbjct: 2 GSRRACEDLIDQARVEVNGKIVTEQGLRVDPEKDEIKVDGLTVATQSYLFFALNKPAGVV 61 Query: 85 VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRV 144 T + + D + + +R+ VGRLD TEG++LLTN G LA L P + Sbjct: 62 STMEDPDGRQ-CLGDYVTNRETRLFHVGRLDTETEGIILLTNHGELAHRLTHPRYGVKKT 120 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 Y G + +D LK GI ++ + G N V V L EG+ ++++ Sbjct: 121 YLAAIQGPLPRDLGKQLKNGIELEDGYARADHFKVVQNTGKNYLVEVSLHEGRKHIVRRM 180 Query: 205 FEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V +L+R S+GP LG +G R ++ + Sbjct: 181 LSEAGFPVEKLVRTSFGPIPLGDQKSGWLRRLTNTEV 217 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 53/228 (23%), Positives = 104/228 (45%), Gaps = 2/228 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ +++ SRR+ + ++A RV V+G +++ + VD ++ A + Sbjct: 1 MKLLRILTNQNGISRRQAKALLAAGRVHVDGERCHDPDLDIPRFREVCVDQRIIQSAAPS 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G ++ D + + P + V GRLD + GLL+LT+DG +R Sbjct: 61 YYLMLNKPSGYLSATRDDQHPTVMELIDPLLRPHVHIAGRLDRASTGLLILTSDGVWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P+ + +VYRV + + + ++GI + +L+ V + + Sbjct: 121 LTEPAVKIPKVYRVTTAYAISPETEDRFREGIWFEYEQLRTSPASLEPL--GEREVRLTI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+ ++K++F +V L R S G + L GS R +S + + Sbjct: 179 YEGRYHQVKRMFHAVGNRVTSLHRESMGGLTVDGLEPGSYRHLSAQEV 226 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 66/247 (26%), Positives = 109/247 (44%), Gaps = 18/247 (7%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R+SK+++ G+ SRRE + +I + V V+G + + + I + Sbjct: 70 TDAPEGVRLSKIMSERGLCSRREADEIIERGWVFVDGQRVSELGIRIDPNAEITLAAQAK 129 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRST--------------VFDNLPSIFSRVISVGR 113 R+ L HKP+G V+ +P PS + GR Sbjct: 130 RRQMEQVTILLHKPVGYVSGQPEPGFEPAVSLIGPDNQFDRADAQRFHPSHLKGIAPAGR 189 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI++ GLL+LT DG +AR L ++ + Y VR G++D+ L LL G+ + G Sbjct: 190 LDIDSTGLLVLTQDGRIARQLIGDDSKVEKEYLVRVEGRLDERGLALLNHGLELDGRTLR 249 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +V + + LREG+ R+I+++ E KV L R+ G +LG L G Sbjct: 250 PAKVEWLNEDQ----LRFVLREGRKRQIRRMCELVGLKVVGLKRVRIGRVKLGDLPLGQW 305 Query: 234 REVSKKI 240 R + + Sbjct: 306 RFLREDE 312 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+ + SR+ +++ + ++ + V+ A N+ + + G +R E Sbjct: 1 MRLDRLLAQEKV-SRKAMKQALLKKEILVDDCPASSLAQNIDTGLQELLFQGRIIRGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPPDIQSDSLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K+GIV ++ + + + + ++ Sbjct: 120 QLLHPQYHVDKSYQVVVNGPLTSDHIQQFKEGIVFLDEITCKPAKLDILSASPTESRASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F + KV L R+ +G F L L G R +++K L+ Sbjct: 180 TISEGKFHQVKKMFLSVSVKVTALKRVQFGDFTLDSELAEGQYRPLNQKELQ 231 >gi|323466661|gb|ADX70348.1| Pseudouridine synthase [Lactobacillus helveticus H10] Length = 216 Score = 147 bits (371), Expect = 2e-33, Method: Composition-based stats. Identities = 57/216 (26%), Positives = 100/216 (46%), Gaps = 3/216 (1%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 MI RVKV+G ++ + V + +I VD P+ + Y + T D Sbjct: 1 MIVAGRVKVDGKVVTKLGTKVETFSNITVDDEPIERESLHTYLFYKPRGVVSTADDDKGR 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 ++ V + R+ VGRLD +T GLLL+TNDG LA +L P + +VY + G + Sbjct: 61 KTVVDYF-EDVPCRLYPVGRLDYDTSGLLLMTNDGKLANLLMHPRNEVSKVYVAKIKGIL 119 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 D++ L G+ + +V + ++ + + + EG ++K++F+ Sbjct: 120 TPDEIKTLTTGVKLDRFKAAPAKVKILKTDKRKDTQIIQLTIHEGHYHQVKRMFKAVGHL 179 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V +L R Y L +L +G RE+SK + + + Sbjct: 180 VEKLSREKYAFLTLDSLTSGQYRELSKHEVDKLMRL 215 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 65/247 (26%), Positives = 111/247 (44%), Gaps = 19/247 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 + R+SKV++ G+ SRRE + I + V VNG + + + I V Sbjct: 135 PSPEGVRLSKVMSERGMCSRREADLWIERGWVFVNGEQVSELGSRIDPSVSEITVSQEAK 194 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTV--------------FDNLPSIFSRVISVGR 113 + + L HKP+G V+ +P V + P + + GR Sbjct: 195 KDQAKAVTILLHKPVGYVSGQPEPGCIPAVTLITAETQVEQSGGPEFKPWMLRGLAPAGR 254 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LDI++ GLL+LT+DG +A+ L ++ + Y VR G++ + L+LL+ G+ + G Sbjct: 255 LDIDSTGLLVLTSDGRVAKRLIGEDSEAEKEYLVRVSGEMIKGGLDLLRHGLELDGKPLK 314 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 V + + + L+EGK R+I+++ E +V L R+ G +LG L G Sbjct: 315 PAWVKQLNEDQ----LHIILKEGKKRQIRRMCELVGLQVIGLKRVRIGRIRLGDLPMGQW 370 Query: 234 REVSKKI 240 R + Sbjct: 371 RFLRADE 377 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 57/229 (24%), Positives = 99/229 (43%), Gaps = 5/229 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 + +++ + G R+E ++I V+VNG +++ D + VDG P Sbjct: 3 LYRLLQQQGFGGRKECRQLIEYGLVEVNGEVVDDYRAQFELADIASLAVDGEPWPLVTGP 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLTNDGGLAR 132 L HKP T+H S V +VGRLD++T GL+LL+NDG Sbjct: 63 LYLLLHKPANYETSHKPQCHPSVYRLLPDQFARLDVSAVGRLDVDTTGLILLSNDGQFIH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VYRV + + + L+ G+ + ++ ++ + + Sbjct: 123 ALSSPKKLVPKVYRVTLKHEATPELIAKLQSGVYLNDEAREFAADSV--EQIDPHTILLT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++K++ + +V L R S G LG L G R ++ + L Sbjct: 181 ITEGKYHQVKRMVAAASNRVEALHRESLGAIVLGDLPVGEWRHLTAEEL 229 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 63/260 (24%), Positives = 109/260 (41%), Gaps = 24/260 (9%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGV 65 + + +R+ K+++ GI +RR+V+R+I ++ VN I++ +V S+D I VDG Sbjct: 1 MSDLKNTERLDKILSNNGIGTRRDVKRLIRSGKISVNRIIVREPEFHVDGSSDEILVDGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----ISVGRLDINTEGL 121 PL + + + +T SD + +VGRLD +TEGL Sbjct: 61 PLTVEQNAYFMMNKASGAVCSTKSDRRKTVFEYIFSEDNRKYPGGNLSTVGRLDADTEGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----DKLNLLKKGIVIQGI------C 171 L++T+DG L + P + + Y V VD L G+ I+ Sbjct: 121 LIITSDGNLIHRVTFPKYEVPKTYLVYLRDSVDDSEKLSYEKKLAAGVHIEAEGKDGEAD 180 Query: 172 YGDMQVTLDTQKGSNAW--------VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 + + + + + EGK E+K++F+ +V L RI Sbjct: 181 CRPAVIEWKEKNQYHTKTSECPSEVCCLTVTEGKFHEVKRIFKALGNEVVYLKRIRINNL 240 Query: 224 QLGT-LLAGSTREVSKKILR 242 L L GS R ++K+ +R Sbjct: 241 FLDETLKEGSYRPLTKEEIR 260 >gi|171910347|ref|ZP_02925817.1| Pseudouridine synthase, Rsu [Verrucomicrobium spinosum DSM 4136] Length = 229 Score = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 54/224 (24%), Positives = 96/224 (42%), Gaps = 4/224 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +++A G +RREV M+ + VKV G++ E V T + V G PL Sbjct: 6 RLDQLLASLGYGTRREVRNMVDRGLVKVGGVVAEDFDARVDPT-TVTVKGEPLDAPFGLV 64 Query: 75 LWLYHKPIGLVTT--HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + P + P V SVGRLD +T G+LLLT+ G L + Sbjct: 65 AVFHKPVGYVCSHASDEGPTIYDLLPKRWPFRNPTVTSVGRLDKDTSGILLLTDQGKLVQ 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P ++ +VY V +++ + + +G ++ + + Sbjct: 125 KWTSPKSEMDKVYEVTVDRPLEERLIGVFAEGTLLLESENKPCLPAKLEIVDALH-ARLT 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L+EG+ +++++F W V L R +G ++L L G R + Sbjct: 184 LQEGRYHQVRRMFASQGWHVEALHRSRFGEYELEGLEVGQWRVL 227 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 70/245 (28%), Positives = 110/245 (44%), Gaps = 20/245 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A GI SRRE + I + V+VNGI V D I+++ + Sbjct: 2 TDPVRLSKRMAELGICSRREADSYIEKGWVRVNGIPA-VLGQKVSPADRIDLNKQAHEQQ 60 Query: 71 ERTRLWLYHKPIGLVTTH---------------SDPDGRSTVFDNLPSIFSRVISVGRLD 115 L +KP+G V+ + +G ++ PS + GRLD Sbjct: 61 ANRVTILLNKPVGFVSGQPEKDYRAAVELITAENQWEGDTSRIAFHPSHTRNLAPAGRLD 120 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +A+ L + + Y VR G + ++ L LL G+ + G Sbjct: 121 IDSVGLLVLTQDGRIAKQLIGDNGNSEKEYLVRVKGSLKENGLALLNHGLSLDGEKLRPA 180 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 QV+ Q + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 181 QVSWQNQDQ----LRFVLKQGKKRQIRRMCELVGLRVVGLKRIRVGRIKLGALPQGKWRY 236 Query: 236 VSKKI 240 + Sbjct: 237 LQANE 241 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 102/230 (44%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V ++ +RV V+G + + V HI DG L+ + Sbjct: 7 RLDRYLAVKLQIHRKAVRELLLAERVYVDGAPAKSLDLLVDEFSHIVFDGQVLQANQPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L LY +V+ D + R+ + + GRLD+N+ GLLLLTND + L Sbjct: 67 LMLYKPVG-VVSATKDKEHRTVIDLLDCDTRQELHIAGRLDLNSSGLLLLTNDSRWSEAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P + +VYRV + + + +G+ + I ++ + + V Sbjct: 126 MSPEQKVDKVYRVTLANPLSDEYIAAFAQGMYFGFEDITTQPAKLVIL----APHVAEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 LREGK +IK++F F V L R+S G L L G +R ++ + + Sbjct: 182 LREGKYHQIKRMFGRFRNPVLGLHRLSIGEITLDEALKPGESRMLTAQEV 231 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+ + SR+ +++ + ++ + V+ A NV + + G ++ E Sbjct: 1 MRLDRLLAQEKV-SRKAMKQALLKKEILVDDCPASSLAQNVDTGLQKLVFQGRQIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + + ++ ++GRLD +T GLLLLT++G L Sbjct: 60 NYLMLHKPNGAVTASKDKKLPTVMDLLPPDIQSDQLYAIGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K+GIV Q+ + + S + ++ Sbjct: 120 QLLHPQYHVNKSYQVVVNGPLTSDHIQSFKEGIVFLDGTTCKPAQLEILSSSPSESHASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L R+ +G F L L G R ++ + L Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTALKRVQFGDFTLDPELAEGQYRPLNPEELE 231 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 66/333 (19%), Positives = 127/333 (38%), Gaps = 5/333 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M ++ E R++K +A GI SRR +R+I + RV+VNG +++ + V D + Sbjct: 1 MSEEQHGSEENGGIRINKFLASCGIDSRRVADRLIGEGRVEVNGKVIDTPGMRVTEKDFV 60 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +VDG + E + L + + + + +D LP + VGRLD ++EG Sbjct: 61 KVDGRHMTPMEEVVVLLNKPRGYVCSREAQGAIGTV-YDLLPPRLRHLNYVGRLDADSEG 119 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LL++TN G L +VL P+ + Y V D L +G+ I V Sbjct: 120 LLIMTNKGELTQVLSHPTGGIEKEYWVTVDQNFDNSVLMQFLRGVRIPEGNAKAKYVCRA 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + + L +G R+++++F+ +V +L+R+ G G L G + + Sbjct: 180 SARRAC----IVLEQGLKRQVRQMFQCLGLRVRKLVRVRIGSLWGGDLEPGGWKFLDDAD 235 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + L + + + + D + + + + Sbjct: 236 VALSLKNPPRQRKYLGASQLVAGGGAKGEQGGRGVDSDEDYVFNPEDFEAGDSYEPTPEM 295 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREE 333 V + S +R + Sbjct: 296 KTRFVETEDEREVKEDGYFRGDSGFRSRDRRGD 328 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + ++ V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L + R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >gi|227517791|ref|ZP_03947840.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|227074752|gb|EEI12715.1| pseudouridylate synthase [Enterococcus faecalis TX0104] Length = 260 Score = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 68/260 (26%), Positives = 116/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPVRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 66/239 (27%), Positives = 106/239 (44%), Gaps = 9/239 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K +A AG+ASRR R+I RV ++G + V ++ + VDG PL A Sbjct: 7 SKGTRLCKYLAEAGVASRRGASRLIETGRVCIDGQQASH-SDRVFDSNRVTVDGAPLCPA 65 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + +LYHKP+G+ D S + + GRLD ++ GLLLLTNDG L Sbjct: 66 QAKAYFLYHKPVGIDCRLRAEDPHSLIHCLPGDLRL--FPAGRLDKDSRGLLLLTNDGEL 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------QVTLDTQKG 184 + L P + Y + + D + + G T+ G Sbjct: 124 TQRLMHPDFHHQKGYLITLNKAPQPDDIAAIAAGFDYGEGPTRPCVVEAAIDCGYATEDG 183 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + + L EGK R+I++++ ++V L+R S +G L G R ++ LR+ Sbjct: 184 NPRKLRMRLTEGKKRQIRRLWRARGYRVLDLLRESIQQLNIGKLEQGEIRSLTASELRQ 242 >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 = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 86/353 (24%), Positives = 146/353 (41%), Gaps = 15/353 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV----PLRK 69 +R+ KV+A+AG+ SRR +E+ IA+ VKVNG + + ++V S D IE+DG Sbjct: 24 ERLHKVLAQAGLGSRRALEQRIAEGLVKVNGEVAQT-GMSVKSGDKIELDGRGFVATALA 82 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + P +R I++GRLDINT GLLL T DG Sbjct: 83 EPSRVLVYNKPEGEVTTREDPEGRPTVFESLPPLKGARWIAIGRLDINTTGLLLATTDGE 142 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ ++ L +G+ ++ ++ Sbjct: 143 LANAMMHPSFEVEREYVVRVRAPEGEEKVSDAIVDRLARGVALEDGPAKFDEIERIGGTD 202 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L L G + E+ + Sbjct: 203 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELARGHSVELGTAQVEA 262 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 LR QL + + L I + + + + L + Sbjct: 263 LRAQLKLEEGAPSALTLQPVIGQRRAAKTTVRVREGGRGNAYVNGHNTADEGRELRRFDN 322 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + R G+ S + + Q ++ ++ RSL + Sbjct: 323 VREDRGRGRGGKGGGFKGGLTVSGEAAAKQSQKPFKQRTQKND-RSLPEGNPA 374 >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 = 146 bits (369), Expect = 3e-33, Method: Composition-based stats. Identities = 76/250 (30%), Positives = 119/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V + D + V G LRK + Sbjct: 1 MRINKFISHNSPYSRREADELIKQGLVKINNKIA-LLSDEVKTNDKVFVKGKALRKKTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDFASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKYRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 146 bits (369), Expect = 3e-33, Method: Composition-based stats. Identities = 64/239 (26%), Positives = 109/239 (45%), Gaps = 16/239 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA------AVNVMS-TDHIEVDG 64 QR+ K+++ +G +R+E++++I NG + A+ V IEV G Sbjct: 3 DTQRIDKILSNSGFGTRKEIKKLIK------NGEVKVDGVVVKDSAMQVNPKESVIEVAG 56 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L+ E + + + T+ + F + VGRLDI+TEGLLLL Sbjct: 57 EILKYREYIYIMMNKPQGVISATYDNRHRTVIDILPDEYKFFNLFPVGRLDIDTEGLLLL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQK 183 TNDG LA L P + Y G V +++ ++G+V+ ++ + + Sbjct: 117 TNDGQLAHELLSPRKHVPKKYYALIDGIVTTKDVDVFREGVVLDDGYKTLPSELFIL-KS 175 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 G + V + + EGK ++K++FE KV L RI G +L L G RE++ + + Sbjct: 176 GPYSEVEIVIYEGKFHQVKRMFEAVGKKVKYLRRIGMGKLKLDETLEPGDVRELTDEEM 234 >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 = 146 bits (369), Expect = 3e-33, Method: Composition-based stats. Identities = 103/231 (44%), Positives = 149/231 (64%), Gaps = 4/231 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++K++ARAGIASRR+VERMI + R+K+N L+ A +++ + VD P+ Sbjct: 74 EGERIAKLLARAGIASRRDVERMIGEGRIKLNDELVTTPATLLLNLKGVTVDDKPVAAPA 133 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----RVISVGRLDINTEGLLLLTND 127 RL+ +HKP GL+T DP GR T+++ L + RV+ VGRLD+NTEGLLLLTND Sbjct: 134 PARLFRFHKPEGLITAERDPAGRPTIYNALRNALPAGTPRVMPVGRLDLNTEGLLLLTND 193 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L R +ELP++ R YR R G + QD+L L +G+ I+GI YG + ++ + G N Sbjct: 194 GELKRAMELPASGIPRTYRARTFGDISQDQLEALIEGVEIEGIRYGSIDANMERRTGRNQ 253 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W+ + L EGKNRE+++V E +V+RLIR +YGPF L L G+ EV + Sbjct: 254 WIEMTLTEGKNREVRRVLEHLGLQVSRLIRTAYGPFMLLDLPRGAADEVRQ 304 >gi|327479891|gb|AEA83201.1| pseudouridylate synthase [Pseudomonas stutzeri DSM 4166] Length = 230 Score = 146 bits (369), Expect = 3e-33, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 107/233 (45%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + + SR++V R+++ R +VNG + V D +E+DG L+ + Sbjct: 1 MRLDRYLGSRAQLSRQDVRRLVSDGRARVNGEVTRTLDREVRIFDCVELDGQVLQPGKVA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP G V+ D R+ + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYLMLHKPPGCVSATRDAAHRTVIDLIDEPDKDDLHIAGRLDFNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P++ +VY V ++D + + + + ++ L + + + Sbjct: 121 LTQPTSLQGKVYLVETEDEIDPGCVEAFARGLYFRFEDLTTLPAELVLLGPRRA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 L EG+ ++K++F F KV L R S GP L +L G R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFGNKVTALHRESMGPLLLDASLSPGCYRPLTDNEIAQ 229 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 79/267 (29%), Positives = 128/267 (47%), Gaps = 7/267 (2%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +++ KV+ARAG+ SRR++E I R++VNG + V I VDG PLR+ Sbjct: 2 SETEKLQKVLARAGMGSRRQMEHWIRDGRIRVNGRIAR-LGERVAPRMQITVDGRPLRRR 60 Query: 71 E----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + + T + R I+VGRLDINT GLLL T Sbjct: 61 SLSGLPRMLLYHKPVGVVTTRSDPAGRPTVFQHLPRIKKGRWIAVGRLDINTCGLLLFTT 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGS 185 DG LA L PS + +R Y VR +G+V + + L++G+ ++ ++ + + + + Sbjct: 121 DGELANRLMHPSFRLVREYAVRVYGEVTAEMITRLQQGVELEDGRGAFDRIEVLCEAQAA 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W V L EG+ RE+++++E +V+RLIR+ YGP +L L G R++ + Sbjct: 181 NGWYRVSLAEGRRREVRRLWESQGVRVSRLIRLRYGPVRLPPGLRQGQIRKLGPAEIVRL 240 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDR 271 L+ A A +++ Sbjct: 241 CRAVDLDPAWPKQQACTRRLSEALKNE 267 >gi|163857342|ref|YP_001631640.1| pseudouridylate synthase [Bordetella petrii DSM 12804] gi|163261070|emb|CAP43372.1| pseudouridylate synthase [Bordetella petrii] Length = 243 Score = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 65/244 (26%), Positives = 100/244 (40%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK++A G+ SRRE + I + VKV+G+++ I ++ Sbjct: 2 EKIRISKLMAERGLCSRREADSYIERGWVKVDGVVVAELGARAFPDQVITLERAAQARQT 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y LV S + + + GRLDI Sbjct: 62 ARVTILINKPVGYVSGQAEKGYTPASALVDARSRYARDRSPLRFTRAHLQGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +AR L + + Y VR G++D L LL G+ + G Q Sbjct: 122 DSQGLLVLTQDGRIARQLIGEDSSVDKEYLVRVQGRLDAGGLALLNHGLSLDGKPLRPAQ 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + LREGK R+I+++ E KV L R+ G +LG L G R + Sbjct: 182 VRWQNADQ----LCFVLREGKKRQIRRMCELVGLKVVGLKRVRIGRVKLGDLPPGQWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RDDE 241 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 70/250 (28%), Positives = 123/250 (49%), Gaps = 18/250 (7%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +++N R++K I+ SRR+ +++I + V VN + ++ V D + V G Sbjct: 1 MKQNEEGMRLNKYISHNTPYSRRDADKLIEEGLVTVNRLPVKDFGYKVRPEDKVAVRGKL 60 Query: 67 LRKAERTRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +R + + Y+KP G++ T D GR+T++ LP F I VGRLD +EGLLLL Sbjct: 61 IHPRKRGEVTMVVYNKPRGVLVTKRDDRGRTTIYHKLPGKFRHFIPVGRLDYASEGLLLL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------I 170 T++ +A VL + R Y ++ + + +K+G++++ Sbjct: 121 TDNPEVADVLMGS--KLPRTYNLKIDKPLTPEMEKAMKEGLILEDAREGGHKESEITRME 178 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 ++V Q G N + V + EGKNRE+++ F F KV L R+ +G +L L Sbjct: 179 FAPFLEVQYRGQSGKNTKLRVTIAEGKNRELRRFFGHFGAKVLDLKRVGFGWVELNNLPE 238 Query: 231 GSTREVSKKI 240 TR +++ Sbjct: 239 NKTRYFTRQE 248 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 52/228 (22%), Positives = 87/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++ V VNG+ E V + + VDG R Sbjct: 10 LYRILQSQGFGTRRYCKDLVFAGLVHVNGVEAEDPDTQVDTAGLVLDVDGERWAYHARAY 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ + P V VGRLD +T GLLLLT+DG L Sbjct: 70 LMLHKPAGFECSQKPRHHPSVYTLLPAPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V ++ L +G+++ + + + + L Sbjct: 130 TSPRHQVPKVYEITTAEPVTDAQVAQLCQGVLLDDEDVSVAAAWAERVDALH--LRMALT 187 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +GK ++K++ V L R + G L L G R + + L Sbjct: 188 QGKYHQVKRMVAAAGNHVAALHRSAIGALTLDAGLAPGQWRWLERDDL 235 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 66/247 (26%), Positives = 113/247 (45%), Gaps = 7/247 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSIAVDGQPLAGLARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 99 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAA 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + +L L+ G+V QG+ QV++ + NAW Sbjct: 159 VTDPATGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPQGQGVLLRAKQVSVLREGERNAW 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RL+R++ GP +G L G+ R +S + + + Sbjct: 219 LEIVLDEGRNRQIRRLVAAVDIGVLRLVRVAIGPLAMGELGKGAWRMLSAEEVSALVPAA 278 Query: 249 LLEEAQV 255 Sbjct: 279 HASAPDA 285 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 120/235 (51%), Gaps = 4/235 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+++ IAR+G SRR+ +++I +VKVNG +++ V D +E+DG ++ + Sbjct: 3 MRLNRFIARSGYCSRRKADQLIEMGKVKVNGKVVKDFGYRVDTEKDRVEIDGKLIKLELK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGG 129 +KP G +T +L I V GRLD +EGLLLLTNDG Sbjct: 63 KVYIKLYKPRGYLTQLGKDKFGRKTLTDLFKEVGIKDNVFPAGRLDYESEGLLLLTNDGD 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A ++ P ++ + Y V+ G+V+ + N ++KG +++ ++ + + + W+ Sbjct: 123 FANMIMHPKSKIKKTYVVKVKGRVNLESFNRMRKGALLEDGFIKPDEIKILKKGKNYTWL 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + + GK R I++ ++F + V RLIR G +LG+L + + +KI+ Sbjct: 183 EITIHSGKKRIIRRFTKYFGYPVERLIRTRIGSIELGSLKEKEWKYIDEKIINRM 237 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 61/272 (22%), Positives = 102/272 (37%), Gaps = 47/272 (17%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E ++I Q+R+K+NG V D I DG ++ E+ Sbjct: 1 MRINKLFSNLGICSRKETNKLIEQKRIKINGEYC-VLGQWVEDNDEILFDGERVKSMEKV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L Y T + G + V VGRLD ++EGL++LTNDG + Sbjct: 60 YLAFYKPKGITCTLEKNAQG---NIGEYINYNQYVFPVGRLDKDSEGLIILTNDGVFSNH 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-------------------------- 167 + + + Y V+ D + L ++ G+ I Sbjct: 117 ILECDNKHEKEYIVKVDKPFDDNFLLSMRTGVEISAKSGSGVKRISDSEGIVIKDGKDEI 176 Query: 168 -------------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + +V + + L +G NR+I+K+ +KV Sbjct: 177 IMLDEAKNGKMKKDIVKTRPCKVERINED----TFKIILTQGLNRQIRKMSSVLGYKVIS 232 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L RI L L G R + K+ + E + Sbjct: 233 LKRIRIMNIHLDYLECGEYRLIPKEHIDELMK 264 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 65/248 (26%), Positives = 115/248 (46%), Gaps = 15/248 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + ++ +V +N +++ A +V D I+++G +R + Sbjct: 1 MRINKFISHNTNYSRREADELVKNGKVSINNKVIDNLATDVKEDDKIKINGRFIRLKKEF 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+K G + T D GR T++DNLP S+ IS+GRLD +EGLLLLT+ +A Sbjct: 61 SIIVYNKQKGELVTKKDDRGRKTIYDNLPRGISKFISIGRLDFASEGLLLLTDAPAIAEA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLL------------KKGIVIQGICYGDMQVTLDT 181 L + +++ + + I + + + Sbjct: 121 LMGSDIEREYYLKIKGEITPNVIAAMQEGFFAKDATKGAHARTKQISMEFKPFLAYKIIS 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI- 240 G + V + EG+NRE+++ F +F+ +V L R+S+G L L G R + Sbjct: 181 FSGGYTRLKVIINEGQNRELRRFFGYFDLEVMDLKRVSFGRVSLDQLGEGKWRYFTNSEY 240 Query: 241 --LREQLG 246 LR+ L Sbjct: 241 DDLRDFLK 248 >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 = 146 bits (369), Expect = 4e-33, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 146 bits (368), Expect = 4e-33, Method: Composition-based stats. Identities = 67/260 (25%), Positives = 115/260 (44%), Gaps = 3/260 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRIIRGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TE LLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTERLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L + Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFI 240 Query: 251 EEAQVNLDAPIYSSETLVRD 270 E+ Q + P R Sbjct: 241 EKQQTSKALPSNLKREEERK 260 >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 = 146 bits (368), Expect = 4e-33, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 95/251 (37%), Gaps = 32/251 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------DGVP 66 R+SK ++ G+ SRRE + I + V V+G + V IE+ G Sbjct: 1 MRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEILPAARSEQGER 60 Query: 67 LR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + Y L T + + T + GRLDI++ Sbjct: 61 VTVLLHKPMGYVSGQAEDGYEPAATLFTAENQWEEDPTHKRFAAWQHKGLAPAGRLDIDS 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLNLLKKGI 165 GLL+LT DG +AR L + + Y VR ++ L L+ G+ Sbjct: 121 TGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDISKVFPEELLEKLRHGL 180 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G +V+ ++ + LREGK R+I+++ E V L RI G L Sbjct: 181 SLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLTVVGLKRIRMGSVVL 236 Query: 226 GTLLAGSTREV 236 G L G R + Sbjct: 237 GDLPVGKWRFL 247 >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 = 146 bits (368), Expect = 4e-33, Method: Composition-based stats. Identities = 52/230 (22%), Positives = 98/230 (42%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + + R+ V ++ RV V+G++++ V I++D L+ Sbjct: 7 RLDRYLCTQLHTHRKAVRELLLSGRVCVDGLIVKDMDRQVDEFSRIQLDEHILQANAPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ +V+ D ++ + + GRLD+N+ GLLLLTND + L Sbjct: 67 VMLHKPIG-VVSATKDTQHKTVIDLLDCEARDELHIAGRLDLNSSGLLLLTNDSRWSDAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P+ + +VYRV + ++ + + + I ++ + + V Sbjct: 126 MSPTHKVDKVYRVTLANSITKEYIAAFAEGMYFGFEDITTQPAKLVILADNVA----EVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L EGK +IK++F F V L R+S G L L G +R ++ + Sbjct: 182 LHEGKYHQIKRMFGRFRNPVVGLHRLSIGEIVLDEKLAPGESRALTAAEV 231 >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 = 146 bits (368), Expect = 4e-33, Method: Composition-based stats. Identities = 68/247 (27%), Positives = 119/247 (48%), Gaps = 13/247 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 R++ +A+ G+ SRR+VE ++ RVK+NG + + V D I DG P+ K E Sbjct: 1 MRINAFLAKLGLGSRRKVEELVLAGRVKINGSTITDLSFQVNEEDSILFDGKPVTKEEGS 60 Query: 72 --RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R ++ ++KP G +T+H D +T+F LP F + GRLD+++ GL+LL+ DG Sbjct: 61 DSRPKIIAFNKPPGFLTSHEDKHHENTIFTLLPESFQKYNYAGRLDLDSRGLILLSIDGN 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY------GDMQVTLDTQK 183 + + P + + Y + V K+ V +G V + Sbjct: 121 FIQKVTHPKNKIDKEYIISLKQPVSWKKIAEEFMLGVREGGETLRALAVKPANVFPEKTP 180 Query: 184 GS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKI 240 +++++ L+EGK R+I+++ + + V L RI G L LL G + V+++ Sbjct: 181 PGFTSYLSIVLKEGKKRQIRRMCKTKDLVVLDLYRIRIGKLDLRNFDLLEGKYKVVTEEQ 240 Query: 241 LREQLGP 247 + L P Sbjct: 241 VLGNLNP 247 >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 = 146 bits (368), Expect = 4e-33, Method: Composition-based stats. Identities = 64/238 (26%), Positives = 106/238 (44%), Gaps = 15/238 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+SK+++ G+ SRRE + I V V+GI + IE+ G R + Sbjct: 4 VRISKLLSNQGVCSRREADHFIELGFVYVDGIKVTELGAKANPEQKIELRGEGHRLQKSK 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV-----------FDNLPSIFSRVISVGRLDINTEGLL 122 + L +KPIG V+ D + + L + ++ GRLDI++ GLL Sbjct: 64 KTILLNKPIGFVSHADDEGKYKSSLSLILKENFFGDEKLDKLSFKLAPAGRLDIDSTGLL 123 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LT DG +A+ + ++ + Y VR G + + L LLK G+ + V+ + Sbjct: 124 VLTEDGVIAKKIIQEDSEIEKEYLVRVSGNLIPNGLKLLKHGLFLDNKPLKKAIVSWINE 183 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L+EGK R+I+++ E KV L R+ G +L L G R + Sbjct: 184 DQ----LKFILKEGKKRQIRRMCELVGLKVVGLKRVRIGKIRLSNLPIGKWRFLQGNE 237 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQDQIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKSAGVVTANKDRELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 57/233 (24%), Positives = 105/233 (45%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 RV + ++ +R++V ++ ++RV ++G+ + V + + VD L+ + Sbjct: 1 MRVDRFLSNLPRFNRKQVRLLLVERRVSIDGVAVSDPHHEVRTFSRVCVDDEVLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ +DP + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPQGCVSATADPQHPTVLDLLDEPDKDELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V + + + + ++ L + Sbjct: 121 LTQPQTKLPKVYHVETEQDIGPEYATTFAGGLYFAFEDLTTQPAELELL----GPTTARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + EG+ ++K++F F+ KV L R GP L TL G R ++ +R+ Sbjct: 177 SIIEGRYHQVKRMFGHFDNKVIGLHRERMGPLVLDATLAPGQYRALTDDEIRQ 229 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 107/230 (46%), Gaps = 3/230 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +++ ++++GI+SRR + +I +KVNG ++++ + + D ++ L + Sbjct: 5 EKLKLNSYLSKSGISSRRNADNLIKSGNIKVNGKIIKKLGYIISNNDIVKYKDKRLYPEK 64 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L L + + + + +L I ++ S+GRLDI T G+LL TNDG L+ Sbjct: 65 KIYLILNKPKGYVSS--MKKQDNNNIVLDLIKINYKIFSIGRLDIETSGVLLFTNDGYLS 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++Y V + +++ L +K + ++ + N + + Sbjct: 123 NKLTHPKFNIKKIYHVVLNKKINNKDLLKIKNSFSFKEGKLKIYNISYIKKLPKNN-IKL 181 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L G N+ +K++F +KV L RI++G + L G R + K + Sbjct: 182 ELHIGWNKIVKRIFNKIKYKVLYLKRINFGGITIKGLKIGEYRYLKKNEI 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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 65/255 (25%), Positives = 101/255 (39%), Gaps = 19/255 (7%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M V R+SK +A G+ SRRE + I V+VNG +++ V +I Sbjct: 173 MFTPKPVASQPDLPRLSKRMAELGLCSRREADEWIVNGWVRVNGQVVDELGSRVEPDANI 232 Query: 61 EVDG---------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 EV P+ Y + LV + + Sbjct: 233 EVSKEAEKHQSEIVTILLHKPVGYVSGQAEDGYEPAVVLVHPDNHWAEDPVQKEFRRGFL 292 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 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 SLDGVQLKPAKVSWQNEDQ----LRFVLREGRKRQIRRMCELVGLHVVGLKRVRIGSVAL 408 Query: 226 GTLLAGSTREVSKKI 240 G L G R + Sbjct: 409 GKLPPGQWRYLRPGE 423 Score = 37.5 bits (85), Expect = 3.7, Method: Composition-based stats. Identities = 9/94 (9%), Positives = 26/94 (27%) Query: 261 IYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGI 320 + V D ++ ++++ + + R + A + Sbjct: 63 HEHQVAESPAENDCPRRVAADRDASERQPARRSASDRPARSGESRPRADNARPENRQRDE 122 Query: 321 HSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + S+ +R R + + RR + Sbjct: 123 RPAERSERPRRPAADRADRLASDRDTPRRGGKAR 156 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT+ G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDSGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V+ +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVQVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L + R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 100/233 (42%), Gaps = 8/233 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I +Q VNG ++ + D + G L Sbjct: 4 PCRLDKFISHLAELPRSKARASIKRQAALVNGEVVTAFDFQIKQQDEVVFQGEQLVFL-G 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ +KP+G V+ +SD ++ S GRLDI+T GL++LTNDG + Sbjct: 63 KRYFMLNKPVGYVSANSDELHKTVFDLIDEPNMSDFHVAGRLDIDTTGLVILTNDGDWSH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVT 190 + P + Y V + + L+ L++G+ + + +N + Sbjct: 123 KITSPKNNKFKTYLVETQEPITDESLDALREGVQLHNEKALTRPAKAERL----ANYGLR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ + KV L R G +L L AG R ++ + ++ Sbjct: 179 LSICEGKYHQVKRMLAAVDNKVVELHREQIGNIKLDENLAAGEYRLLTAEEIK 231 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 76/250 (30%), Positives = 119/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V + D + V G LRK + Sbjct: 1 MRINKFISHNSPYSRREADELIKQGLVKINNKIA-LLSDEVKTNDKVFVKGKALRKKTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDFASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVGKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKYRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 115/232 (49%), Gaps = 5/232 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+++G+ SRR +++I + V +NG++ E V D + +D + + Sbjct: 2 EEIRINKYISKSGVCSRRAADKLINEGHVTINGVVAET-GSKVTEKDIVRIDDDIINLIK 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +++ ++KP+G +++ D + T + + VGRLD ++EGL+L+TNDG L Sbjct: 61 DIKVYAFYKPVGYISS--LSDEQGTGIASFLPQGMGLFPVGRLDKDSEGLMLITNDGNLM 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWV 189 + S + Y V + + D L + KG+ I G +T + + + Sbjct: 119 NEILNASNGHEKEYIVTTRQKFNNDFLVKMAKGVPITNRATGKKIITAPCKTEALEDNSF 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + +G NR+I+++ +F+ V L R+ LG + G +E+S+ L Sbjct: 179 KITIIQGLNRQIRRMCGYFDIDVVSLKRVRIMNIMLGNMRPGELKELSQSEL 230 >gi|217968594|ref|YP_002353828.1| pseudouridine synthase [Thauera sp. MZ1T] gi|217505921|gb|ACK52932.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 245 Score = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 47/236 (19%), Positives = 82/236 (34%), Gaps = 10/236 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-------IEVDGVP 66 ++ +++ G SR++ +I V V G + + VD P Sbjct: 1 MQLERLLHAQGFGSRKDCRALIRAGYVSVAGEVCDDPTEEFDPGSRDGSPGLEFTVDDQP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 R + + L+ + + V VGRLD +T GLLLL++ Sbjct: 61 WRFRAQAYVVLHKPAGYECSQKPTFHPSVFTLLPPQLLARGVQCVGRLDQDTTGLLLLSD 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + +VY V V+QD + L G+ + + Sbjct: 121 DGQFIHQWSSGKKRTPKVYEVTLKHAVEQDFADRLVAGVELNDEPVPIAAAACELLSP-- 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + EGK ++K++ +V L R G L L G R + + L Sbjct: 179 TTLRLTICEGKYHQVKRMVGAAGNRVEVLHRSRVGGLDLPAGLAPGQWRWLEAEDL 234 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 58/223 (26%), Positives = 92/223 (41%), Gaps = 3/223 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP-LRKAERTRLWL 77 +A AG+ SRR E + RV V+G + I VDG+P + E L Sbjct: 1 MAAAGLCSRRRGEDWLQAGRVTVDGRVA-SLGDQADPDCQLIAVDGIPLISVREPRVFLL 59 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + + + + + VGRLD ++ G LLLT+ G L L P Sbjct: 60 NKPVGVICSCRDPQGRSTVLDCLPHQERPGLHPVGRLDADSRGALLLTDQGELTLRLTHP 119 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + YRV G + L ++G+ + G V +G+++ + V LREG+ Sbjct: 120 RYSHAKTYRVLVKGIPNALVLRRWREGLQLDGRLTRPALVRCLRSRGTSSLLEVELREGR 179 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 NR+I++V E V L R++ L L G R + + Sbjct: 180 NRQIRRVAELLGHPVIDLQRVAIDGIHLDDLAEGCWRRLDARE 222 >gi|325529283|gb|EGD06232.1| putative RNA pseudouridylate synthase [Burkholderia sp. TJI49] Length = 306 Score = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 101/251 (40%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + HIE+D Sbjct: 58 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQHIEIDERAQAAQAAQ 117 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 118 VTILLHKPVGYVSGQAEDGYEPAAVLITRDNHWSGDRSPLRFSPQHLRTLAPAGRLDIDS 177 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 178 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVKFGERLTDIDQHFPAESLAKLRHGLELDG 237 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 238 VALKPAMVSWQNGEQ----LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 293 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 294 QGQWRYLSADE 304 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 110/231 (47%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A +R++V M+AQ+RV+V+G + +V +E+D L+ Sbjct: 1 MRLDRFLANLPSYNRQQVRLMLAQRRVRVDGKVASDPLTDVREFSRVELDEQLLQAGRPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP G V+ DP R+ + ++ + GRLD NT GL++LTNDG +R Sbjct: 61 RYLMLYKPTGCVSATHDPQHRTVLDLLPTALRDDLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+T+ + Y V ++ + + ++ + + Q+ + + Sbjct: 121 LTQPATKLPKHYLVDTEDEIGEHYVAKFREGFYFAFEDLTTQPAQLDIL----GPHRARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV L R S G +L L G RE++ + Sbjct: 177 AIVEGRYHQVKRMFGHFNNKVVGLHRESMGAIRLDPGLAPGEYRELTANEI 227 >gi|299067788|emb|CBJ38998.1| 16S rRNA pseudouridylate 516 synthase [Ralstonia solanacearum CMR15] Length = 239 Score = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 53/224 (23%), Positives = 86/224 (38%), Gaps = 4/224 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTRLWLY 78 + G +RR + ++ V VNG+ E V + + VDG R L L+ Sbjct: 1 MQSQGFGTRRYCKDLVFAGLVHVNGVEAEDPDAQVDTAGLVLDVDGERWAYHARAYLMLH 60 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 + +P V VGRLD +T GLLLLT+DG L P Sbjct: 61 KPTGFECSQKPRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTLTSPR 120 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKN 198 Q +VY + V ++ L +G++++ + + + + L +GK Sbjct: 121 HQVPKVYEITTAEPVTDAQVTQLCQGVLLEDEDVPVVAAWAERVDA--CHLRMALTQGKY 178 Query: 199 REIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++K++ V L R + G LG L G R + L Sbjct: 179 HQVKRMVAAAGNHVVALHRSAIGGLTLGADLAPGQWRWLEGDDL 222 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 107/233 (45%), Gaps = 7/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + + SR++V R+++ R +VNG + V D +E+DG L+ + Sbjct: 1 MRLDRYLGSRAQLSRQDVRRLVSDGRARVNGEVTRTLDREVRIFDCVELDGQVLQPGKVA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP G V+ D R+ + + GRLD NT GL+LLTNDG +R Sbjct: 61 RYVMLHKPPGCVSATRDAAHRTVIDLIDEPDKDDLHIAGRLDFNTTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P++ +VY V ++D + + + + ++ L + + + Sbjct: 121 LTQPTSLQGKVYLVETEDEIDPGCVGAFARGLYFRFEDLTTLPAELVLLGPRRA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 L EG+ ++K++F F KV L R S GP L +L G R ++ + + Sbjct: 177 TLHEGRYHQVKRMFGHFGNKVTALHRESMGPLLLDASLTPGCYRPLTDNEIAQ 229 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 62/261 (23%), Positives = 108/261 (41%), Gaps = 28/261 (10%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + +++ R+SK+++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 88 RRDIEDAPGTLRLSKLMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEID 147 Query: 64 G---------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + Y I LVT + +G + + ++ Sbjct: 148 PAAEAVQASQVTVLIHKTVGYVSGQAEDGYQPAITLVTPENRWEGDHSDIRFSVAHLRQL 207 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLN 159 GRLDI++ GLL+LT DG +A+ L ++ + Y VR + L Sbjct: 208 APAGRLDIDSTGLLVLTQDGRIAKQLIGGHSEIDKEYLVRVAYGEHTVDVESHFPAESLE 267 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 LL+ G+ + + QV+ + + LREGK R+I+++ E +V L R+ Sbjct: 268 LLRHGLSLDDVPLKPAQVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVR 323 Query: 220 YGPFQLGTLLAGSTREVSKKI 240 G LG L G R ++ Sbjct: 324 MGRVVLGALPPGQWRYLAADE 344 >gi|152995450|ref|YP_001340285.1| pseudouridine synthase [Marinomonas sp. MWYL1] gi|150836374|gb|ABR70350.1| pseudouridine synthase [Marinomonas sp. MWYL1] Length = 229 Score = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 53/231 (22%), Positives = 101/231 (43%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ +R+ + ++ RV VNG ++++A V D I +D + L Sbjct: 1 MRLDFYLSHVTELARKAAKIAASKGRVTVNGEVVKKANYTVQEGDQICLDDILLAWPSEG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+ + DPD + + + + VGRLD +T GLLLLT DG Sbjct: 61 YYLLHKPAGYV-CATQDPDHPTVLDLLPSHLGQELKIVGRLDKDTTGLLLLTTDGQWLHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + P + YR+ + + L L++G+++ G ++ S+ + + Sbjct: 120 ITSPRNACNKRYRMMLADPISDEDLKQLEEGVMLNGESQPTLPA----IAERISDCDIYL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 ++EGK ++K++ KV L R G L + AG RE++++ + Sbjct: 176 TIQEGKYHQVKRMLAAVGNKVEELHRDQIGLLSLDADIQAGEFRELTEEEV 226 >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 = 146 bits (368), Expect = 5e-33, Method: Composition-based stats. Identities = 65/231 (28%), Positives = 98/231 (42%), Gaps = 6/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAER 72 +R+ K++A G SRREV+ ++ RV NG ++ + VDG + Sbjct: 2 ERLDKILASTGRWSRREVKELVRAGRVTANGAVVRSPEEKYQREGLDLRVDGQSVLCERY 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + T + GRLD +TEGLLLLTNDG LA Sbjct: 62 TYLMLHKPAGLVSATEDPRQATVLELLPEHLRKIGLFPAGRLDRDTEGLLLLTNDGALAH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y V+ GQ+DQ + + G+ + + L + V Sbjct: 122 DLLSPRKHVDKTYFVQVEGQLDQSDVEAFQGGMTLGDGLVCLPAGLKLL---EAPDEALV 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 LREGK +IK++ V L R++ GP L L G R ++++ L Sbjct: 179 TLREGKYHQIKRMLAARGKPVRYLKRLTMGPLVLDEGLEKGQWRPLTEEEL 229 >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 = 146 bits (367), Expect = 6e-33, Method: Composition-based stats. Identities = 68/245 (27%), Positives = 106/245 (43%), Gaps = 20/245 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P R+SK +A + SRRE + I Q VKVNG V +D IE+ Sbjct: 4 QEPVRLSKRMAELKLCSRREADGYIEQGWVKVNGQTA-VLGQKVTPSDRIELAKQAHETQ 62 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + L+T + DG ++ S + GRLD Sbjct: 63 AQRVTVLLNKPVGYVSGQPEKDYRAAVELITAENRWDGDTSRIPYRDSHKKGLAPAGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG +A+ L + + Y VR G++ ++ L LL G+ + G Sbjct: 123 IDSVGLLVLTQDGRIAKQLIGGDSGIEKEYLVRVKGRLSEEGLRLLNYGLSLDGEKLRPA 182 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V + + L++GK R+I+++ E +V L RI G +LG L G R Sbjct: 183 KVEWQNEDQ----LRFILKQGKKRQIRRMCELVGLRVIGLKRIRMGQVKLGALPPGKWRY 238 Query: 236 VSKKI 240 + K Sbjct: 239 LGKDE 243 >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 = 146 bits (367), Expect = 6e-33, Method: Composition-based stats. Identities = 66/234 (28%), Positives = 107/234 (45%), Gaps = 7/234 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRKAERT 73 +++V+++ G+ SR E R +A RV V G ++ D I +DG PL R Sbjct: 37 LARVLSKLGVCSRTEAARWVADGRVSVAGRVVRDPEFPLRADQHDGIAIDGQPLAGPARL 96 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 97 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWLAPVGRLDKASEGLLLFSNDPQWAAA 156 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-----VIQGICYGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + D +L + G+ G QV + + NAW Sbjct: 157 VTDPATGPDKTYHVQVDCRPDALQLARMHDGVADTDPESDGSLLRAKQVRVLREGERNAW 216 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L EG+NR+I+++ V RL+R++ GP +G L GS R +S +R Sbjct: 217 LEIVLDEGRNRQIRRLLAALEIGVLRLVRVAIGPLAMGELGKGSWRLLSAAEVR 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 = 146 bits (367), Expect = 6e-33, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 110/232 (47%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A+ I SR+ +++ + ++ + V+G+ A N + + G+ ++ E Sbjct: 1 MRLDKLLAQEKI-SRKAMKQALLKKEILVDGLPASSLAQNTDTGLQELMFQGIRIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + ++ ++GRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPNGVVTASKDKKLPTVMDLLPQHLQSDQLYAIGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K GI+ + G Q+ + + S + T+ Sbjct: 120 QLLHPQYHVDKTYQVEVNGPLTPDHIQEFKDGIIFLDGTICKPAQLEILSSSPSLSKATI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R+ +G F L L G R ++K+ L+ Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTALKRVQFGNFILNPDLAEGDFRLLNKEELQ 231 >gi|325697062|gb|EGD38949.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK160] Length = 241 Score = 146 bits (367), Expect = 6e-33, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKQVSDPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTSQDKLAFQEGIRFLDGTICQPAQLSILSTSSSLSRATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 180 KISEGKFHQIKKMFLALGVKVTYLKRIQFGNFTLDPDLATGDCRPLNQEEL 230 >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 = 146 bits (367), Expect = 6e-33, Method: Composition-based stats. Identities = 58/239 (24%), Positives = 98/239 (41%), Gaps = 14/239 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN---VMSTDHIE-----VD 63 R++K +A G+ SRR R I + + G I D Sbjct: 21 KKIRLAKYLALTGLCSRRAATRYIRDGLIMIEGRQANHIDTVTLIESPDGLICKELLLFD 80 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G+ + E + + +K +G D S + L R+ VGRLD ++ GLLL Sbjct: 81 GMAVEGIEPKQYRMLNKCVGTDCRLLPDDSDSLLH--LLPASPRLYPVGRLDKDSRGLLL 138 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LTNDG L + L P + YRVR + L + +G+ + + +T ++ Sbjct: 139 LTNDGELTQHLMHPDFGHTKTYRVRVDRPYGDEFLQKMAQGVSYRDVTTLPCTMTRLSED 198 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L +G NR+I+++ + +KV L R+ L L G RE++ + + Sbjct: 199 Q----FEIVLTQGLNRQIRRMSQALGFKVIDLKRVKIQTLMLEDLNEGEMRELTVEEID 253 >gi|325688213|gb|EGD30232.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK72] Length = 241 Score = 146 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPSGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTSQDKIAFQEGIRFLDGTICQPAQLSILSSSSSLSRATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F+LG L G R ++++ L Sbjct: 180 KISEGKFHQIKKMFLAVGVKVIYLKRIRFGNFKLGPELTTGEYRPLNQEELE 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 = 146 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V+ + + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVQVNELLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L + R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >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 = 146 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 98/231 (42%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 ++ +++ + G SRRE +I + RV VNG + + V + VDGV AE Sbjct: 1 MQLERILQKHGFGSRRECRGLIRRDRVAVNGQVCDDPFVELDTEGLVFTVDGVDWPYAEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + +P V +GRLD +T GLLL+TNDG L Sbjct: 61 ATLMLHKPAGYECSRKPKHHAGVLELLPIPLRERDVQPIGRLDEDTTGLLLITNDGQLNH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L + +VY +DQ +++ L G+++ Y + G + + Sbjct: 121 QLSSAKRKVPKVYLATTKHPLDQAQIDQLVAGVLLADE-YEPISAAAAEIVGEK-LLRLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 L EGK ++K++ + +V L R + G L L G R +S L+ Sbjct: 179 LTEGKYHQVKRMVAAVSNRVEALHREAVGELTLPPDLKPGEWRWLSAADLQ 229 >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 = 146 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 53/231 (22%), Positives = 105/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ SR++ +I+ R++V+G ++ ++ +E+D L+ Sbjct: 1 MRLDRFLSNFSRFSRQDSRLLISAGRLRVDGEIIIDPRFDIRDFQRVELDDELLQAGRSA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R W+ HKP+G+V+ + R+ + + GRLD+NT GLLL+TNDG +R Sbjct: 61 RYWMLHKPVGVVSATEHDEHRTVLDLLDEPDKHELHLAGRLDLNTSGLLLITNDGLWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + +VY V + ++ + + + + Q+ + + + Sbjct: 121 ITQPQQRKPKVYHVTTEQPITEEYAEVFARGLYFAFEDLTTLPAQLDVL----DSHHARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F +V L R S G L L G R ++ + Sbjct: 177 TLFEGRYHQVKRMFGHFRNRVVALHRESMGEIVLDPQLAPGQYRALTAAEI 227 >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 = 146 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 94/233 (40%), Gaps = 8/233 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + I Q VNG ++ V D + PL Sbjct: 4 PCRLDKFISHLAELPRSKARAAIKSQAATVNGEVITAFDFQVSQQDDVLFYDEPLVFL-G 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ +KP+G V +SD ++ S GRLDI+T GL+L+TNDG + Sbjct: 63 KRYFMLNKPVGYVCANSDELHKTVFDLLDEPNLSDFHVAGRLDIDTTGLVLITNDGDWSH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVT 190 + P + Y V + L L+ G+ + ++ N + Sbjct: 123 KITSPKKNKFKTYLVETQEPITDAALQQLRDGVQLHNEKDLTRPA----IAERLGNYGLR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + EGK ++K++ + KV L R +LG L AG R ++ ++ Sbjct: 179 LSISEGKYHQVKRMLAAVDNKVVELHREQIAGIKLGEDLAAGEYRPLTAAEIK 231 >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 = 146 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 53/228 (23%), Positives = 89/228 (39%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++ V VNG+ E V + + VDG R Sbjct: 10 LYRILQSQGFGTRRYCKDLVFAGLVHVNGVEAEDPDAQVDTAGLVLDVDGERWAYHARAY 69 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ + +P V VGRLD +T GLLLLT+DG L Sbjct: 70 LMLHKPTGFECSQKPRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQFVHTL 129 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V ++ L +G++++ ++ + + L Sbjct: 130 TSPRHQVPKVYEITTAEPVTDAQVTQLCQGVLLEDEDVPV--AAAWAERADACHLRMALT 187 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +GK ++K++ V L R + G LG L G R + L Sbjct: 188 QGKYHQVKRMVAAAGNHVAALHRSAIGGLTLGADLAPGQWRWLESDDL 235 >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 = 146 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 105/230 (45%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V+ +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVQVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK +IKK+F KV L RI +G F L L G+ R +++K Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKE 229 >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 = 145 bits (366), Expect = 7e-33, Method: Composition-based stats. Identities = 91/374 (24%), Positives = 152/374 (40%), Gaps = 38/374 (10%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 + +R+ K+IA AG+ASRR+ E ++ RV VNG + TD I VDG PL+ Sbjct: 2 SSERLQKIIAAAGMASRRKAEELVTAGRVTVNGEVKNELGSKADPETDDIRVDGKPLKAE 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + L+ + T + D + I +R+ VGRLD +EGLLLLTNDG + Sbjct: 62 QLVYVLLHKPKGYVTTVSDPEGRETV-MDLVKGIPARLYPVGRLDYLSEGLLLLTNDGEM 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-------------------- 170 A L ST + Y V+ G+ ++++ L+ G+ + Sbjct: 121 AAKLTHASTHVPKKYLVKVSGEPTEEQIQELRNGVQLPPEQGHIHADPREGGRFGGEKRR 180 Query: 171 ----CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 ++ T++G N W V L EG+NR+I+++F+F V ++ R+ YGP +L Sbjct: 181 STAVKTAPCKIE-LTREGDNPWYEVTLNEGRNRQIRRMFDFIGHHVEKIKRVEYGPLKL- 238 Query: 227 TLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 + G R ++ + + +RP DD + Sbjct: 239 DVENGEFRLLNPAEVARLKKAAEGKHEAPRARDEKPRFAKARGERPAFGRGRSDDRAPFQ 298 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGI----------HSSFLSDSGQREENHR 336 K S + + +K R A M + + + G+R++ Sbjct: 299 KGSYKDRSELESEKGERTRTARFDADGKRMEEAPRERRERPKFDRGARPAFRGKRDDARG 358 Query: 337 RSPSFPSKRSLRRT 350 P+F KR R Sbjct: 359 ERPAFRGKRDDARG 372 Score = 41.7 bits (96), Expect = 0.18, Method: Composition-based stats. Identities = 14/101 (13%), Positives = 30/101 (29%) Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 ++A+ A + +RP + D + ++ G + R Sbjct: 367 RDDARGERPAFRGKRDDARSERPAFRARRDDQAGDRPRFPRREEGERPAFRGKRDDARGE 426 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + G+R++ P+F KR R Sbjct: 427 RPAFRGKRDDARGERPAFRGKRDDARGERPAFRGKRDDARG 467 Score = 40.9 bits (94), Expect = 0.27, Method: Composition-based stats. Identities = 12/104 (11%), Positives = 19/104 (18%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + A + F + G + A Sbjct: 519 GESRGKSFDRPARAGARPNFGDRPKFGPRKEGGDRPFRGKPGEKKEFRGKREGGSAARGD 578 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + G D R + + P P K R Sbjct: 579 RKPGGFGRDRREGGERPFRGGDRPARGDRFGKKPGGPRKDFRPR 622 Score = 40.5 bits (93), Expect = 0.38, Method: Composition-based stats. Identities = 14/101 (13%), Positives = 27/101 (26%) Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 ++A+ A + DRP + + G + R Sbjct: 381 RDDARSERPAFRARRDDQAGDRPRFPRREEGERPAFRGKRDDARGERPAFRGKRDDARGE 440 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + G+R++ P+F KR R Sbjct: 441 RPAFRGKRDDARGERPAFRGKRDDARGERPAFRGKRDDARG 481 Score = 40.2 bits (92), Expect = 0.44, Method: Composition-based stats. Identities = 11/96 (11%), Positives = 18/96 (18%) Query: 256 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVW 315 D R + + P R + G + P R Sbjct: 380 KRDDARSERPAFRARRDDQAGDRPRFPRREEGERPAFRGKRDDARGERPAFRGKRDDARG 439 Query: 316 MAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 G+R + +R R Sbjct: 440 ERPAFRGKRDDARGERPAFRGKRDDARGERPAFRGK 475 Score = 39.8 bits (91), Expect = 0.62, Method: Composition-based stats. Identities = 11/107 (10%), Positives = 24/107 (22%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 ++ + E + + + G + R Sbjct: 393 ARRDDQAGDRPRFPRREEGERPAFRGKRDDARGERPAFRGKRDDARGERPAFRGKRDDAR 452 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + G+R++ P+F KR R K Sbjct: 453 GERPAFRGKRDDARGERPAFRGKRDDARGERPAFRGKRDDARGERPK 499 Score = 38.2 bits (87), Expect = 1.7, Method: Composition-based stats. Identities = 12/101 (11%), Positives = 31/101 (30%) Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 ++A+ A + +RP + D + ++++ + + Sbjct: 353 RDDARGERPAFRGKRDDARGERPAFRGKRDDARSERPAFRARRDDQAGDRPRFPRREEGE 412 Query: 310 LASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + G+R++ P+F KR R Sbjct: 413 RPAFRGKRDDARGERPAFRGKRDDARGERPAFRGKRDDARG 453 Score = 37.9 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 13/109 (11%), Positives = 23/109 (21%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P A + P R + G +KK Sbjct: 509 RPFRARPAGDGESRGKSFDRPARAGARPNFGDRPKFGPRKEGGDRPFRGKPGEKKEFRGK 568 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A+ G + G+R P+ + + +K Sbjct: 569 REGGSAARGDRKPGGFGRDRREGGERPFRGGDRPARGDRFGKKPGGPRK 617 >gi|297521296|ref|ZP_06939682.1| 16S rRNA pseudouridylate synthase A [Escherichia coli OP50] Length = 207 Score = 145 bits (366), Expect = 7e-33, Method: Composition-based stats. Identities = 54/211 (25%), Positives = 93/211 (44%), Gaps = 6/211 (2%) 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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVI----TPTQVRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + EG+ ++K++F V L R G Sbjct: 177 TISEGRYHQVKRMFAAVGNHVVELHRERIGG 207 >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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 62/246 (25%), Positives = 101/246 (41%), Gaps = 24/246 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SKV+A G+ SRRE + I+ VKV+G ++E + I + Sbjct: 184 RLSKVMAERGLCSRREADEWISNGWVKVDGEIIETLGTRIKPDAEIIISSYAQEYQAENV 243 Query: 75 LWLYHKPIGLVTTHSDPDGRS--------------------TVFDNLPSIFSRVISVGRL 114 + HKP+G V+ ++ + + + 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 AKVSWQNEDQ----LRFVLREGKKRQIRRMCEMVGLHVVGLKRIRMGSITLGKLPVGQWR 419 Query: 235 EVSKKI 240 + Sbjct: 420 YLRSDE 425 >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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 71/230 (30%), Positives = 104/230 (45%), Gaps = 1/230 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K +A G+ SRR+VE++I RV VNG L+ V D + VD V + + Sbjct: 2 TVRLNKYLASCGVGSRRKVEQLITAGRVTVNGYLVSDLGHQVEDGDAVAVDDVEVHVEAK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T + + + + R+ VGRLD+ +EG+L+LTNDG A Sbjct: 62 TYIVIRKPRGYICAVTNPDYPVVLDLLPRSYDRLRLFPVGRLDLQSEGILILTNDGDFAN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTV 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|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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 49/231 (21%), Positives = 98/231 (42%), Gaps = 8/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I +RREV+ ++ + VN + + +++ D + V G + + Sbjct: 4 RLDRYIGNNTELTRREVKFLLKAGEITVNDEVPSKPGLHLKEGDVVAVQGRVVEPRQPRY 63 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L+ P + + S + + + VGRLD++T GLLL+T+DG ++ L Sbjct: 64 FMLHKPPECI-SARSTEEHLGALDLIEEPFHDELHIVGRLDLDTTGLLLVTDDGQWSQRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTVG 192 P + +VY V + + GI + + Q+ + + + Sbjct: 123 RSPRHKVPKVYWVTTAKPIASTVAARFEAGIYLKTEDHTTAPAQLDVV----AECRARLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++K++F + +V L R S G L L G R ++ + ++ Sbjct: 179 ITEGKFHQVKRMFAAVDNEVTALHRASVGEIVLDEDLEPGEYRALTAQEIQ 229 >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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 62/230 (26%), Positives = 106/230 (46%), Gaps = 3/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHKTH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + VGRLD +TEGLLLLT++G L Sbjct: 61 VYYMLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGY 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + Sbjct: 121 QLIRPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFL 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 ++EGK ++KK+F KV L R + GP +L L G+ R ++++ Sbjct: 181 TIQEGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREE 230 >gi|324990675|gb|EGC22611.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK353] Length = 241 Score = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKYVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTSQDKIAFQEGIRFLDGTICQPAQLSILSSSSSLSRATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 180 KISEGKFHQIKKMFLAVGVKVIYLKRIQFGDFTLDPDLAKGDYRALNQEEL 230 >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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 102/230 (44%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V ++ +RV V+G + + V HI DG L+ + Sbjct: 7 RLDRYLAVKLQIHRKAVRELLLAERVYVDGAPAKALDLLVDEFSHIVFDGQVLQANQPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L LY +V+ D + R+ + + GRLD+N+ GLLLLTND + L Sbjct: 67 LMLYKPVG-VVSATKDKEHRTVIDLLDCDTRQELHIAGRLDLNSSGLLLLTNDSRWSEAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P + +VYRV + + + +G+ + I ++ + + V Sbjct: 126 MSPEQKVDKVYRVTLANPLSDEYIAAFAQGMYFGFEDITTQPAKLVIL----APHVAEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 LREGK +IK++F F V L R+S G L L G +R ++ + + Sbjct: 182 LREGKYHQIKRMFGRFRNPVLGLHRLSIGEITLDEALKPGESRMLTAQEV 231 >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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 98/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + Sbjct: 1 MRLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATVDTQHPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + I Q+TL + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLL----GPHSARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV RL R + G L L G R + + Sbjct: 177 TIVEGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALAPGGYRALHAAEI 227 >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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 95/230 (41%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ +R + MI V VN ++ A V +HI +G L Sbjct: 1 MRLDKFVCKSTELTRVDATAMITGGCVSVNHDVILDVATQVHENNHISFNGEVLTARPSR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + D S S + GRLD +T GL+L+T+DG + Sbjct: 61 YILLHKPADTICSN-IDEAYPSLFNYIDVENASELHVAGRLDADTTGLVLVTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P+ +VYRV + D + G+ +QG + + S+ V + Sbjct: 120 IITPTKHCQKVYRVGLSRPIGDDVVAKFAHGVQLQGEQQLTRPAILEVV----SSKEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++K++F +V L R G QL + G R ++ + + Sbjct: 176 TITEGKFHQVKRMFSAVGNRVVSLHREKIGAIQL-DVEVGQWRYLTDREV 224 >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 = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 59/234 (25%), Positives = 112/234 (47%), Gaps = 8/234 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I++ +R+ V M+A+ +V+V+G L + V HI V+ ++ + + Sbjct: 7 RLDRFISQHLKINRKNVRLMLAKGQVRVDGELARDIDLIVDEFSHICVNDEVIQAKQASY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ +V+ D ++ + + + VGRLD+NT GLLLLTNDG ++ L Sbjct: 67 IMLHKPVG-VVSATVDDKHKTVIELLKCDDRNSLHIVGRLDLNTSGLLLLTNDGRWSKQL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + ++YRV + + ++ K + I ++ + + V Sbjct: 126 MDPEYKVGKLYRVELQNPLTVEYISAFAKGMYFEFEDITTLPAELEIV----DSHTALVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 L EG+ +IK++F F V L RIS G L L +G +R ++ + ++ +L Sbjct: 182 LYEGRYHQIKRMFGRFRNPVVGLHRISVGQIVLDKTLASGQSRPLTPEEIKHKL 235 >gi|299115182|emb|CBN74013.1| RNA pseudouridylate synthase domain-containing protein (C-terminal) RNA pseudouridylate synthase dom [Ectocarpus siliculosus] Length = 490 Score = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 118/376 (31%), Positives = 168/376 (44%), Gaps = 35/376 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+S+ IAR+GIASRRE ERM+ V VNG ++ A+NV D ++V+ Sbjct: 113 MRLSRRIARSGIASRREAERMVEAGVVMVNGATVQTPALNVGPRDIVKVNVGLFQQPGNG 172 Query: 64 --------GVPLRKAERT--RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISV 111 G L + E +LW+ HK + T DP+GR TVFD L + + V Sbjct: 173 TDCFTFVQGKVLERPESHTPKLWMVHKMRNELVTRHDPEGRPTVFDRLTKLKLPDTLMPV 232 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD NTEGLLLLTNDG LAR +ELPS+ +R Y VR +G + ++KL ++ G I G+ Sbjct: 233 GRLDYNTEGLLLLTNDGDLARKMELPSSNIVRTYSVRVYGNITEEKLRAMRSGCTIDGVR 292 Query: 172 YGDM-----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 Y M ++G NAW+T+ EGKNR+I+K+ ++ VNRL R YGPF LG Sbjct: 293 YKGMFVRVEGGGGKGREGRNAWLTIECTEGKNRQIRKICKYLCLTVNRLARTRYGPFSLG 352 Query: 227 TLLAGST--REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 + AG E+ K +R + SS V P + Sbjct: 353 KVRAGGVAAVEIPKAFMRRLEDGGGSPGGAGGGGSGSGSSRRRVGPGPGNGMRREMEAGG 412 Query: 285 ------MKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRS 338 + N + + +G S+ G R + Sbjct: 413 MKVSEVSSPGTGLSNTVGGGRDTGDRAGSSGGRHWGGGFRGAGRSWGEKGGPRIRKGVGA 472 Query: 339 PSFPSKRSLRRTSAKK 354 P S R T+ ++ Sbjct: 473 PMSRGDNSARPTAQQR 488 >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 = 145 bits (366), Expect = 9e-33, Method: Composition-based stats. Identities = 83/242 (34%), Positives = 116/242 (47%), Gaps = 9/242 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV K+IA++G+ SRRE E+MI+ V VNGI + D I+V+G L + Sbjct: 6 RVQKLIAQSGLMSRREAEKMISSGLVFVNGIKA-SLGDKASADDEIKVNGKILNLTKSPV 64 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +L +KP +TT +DP GR TV +L + R++ VGRLD NT G+LLLT D L Sbjct: 65 FKYFLLNKPKNSITTSNDPKGRRTVI-DLINTNERIVPVGRLDRNTTGVLLLTTDYELVN 123 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + RVYR R + + L I I G + +DT+ V Sbjct: 124 KLTHPKYEIERVYRARIDSPLTLKEFKELNARIEIDGKMSRQIVDQVDTKS-----YLVS 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 L G +KK+FE KV L R+SY + L G RE++ K +R +E Sbjct: 179 LHVGSYHHVKKLFEKIGHKVLTLKRVSYANLTVDKLPEGMYRELTLKEVRNLKLLVEKQE 238 Query: 253 AQ 254 Sbjct: 239 KN 240 >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 = 145 bits (366), Expect = 9e-33, Method: Composition-based stats. Identities = 58/234 (24%), Positives = 112/234 (47%), Gaps = 1/234 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 Q+ R++K I+ +G+ SRR+ + I VKVNG+ + V D + DGV L Sbjct: 64 QKASDEIRLNKYISNSGVCSRRDADLYIQSGNVKVNGVPVTEMGYLVKLNDVVNFDGVTL 123 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + L + R+ + + +++ +GR+D NT GLLL TND Sbjct: 124 TPEKKEYILLNKPKNFTTALDEGQEYRNVLELVRAATNAKIAPIGRMDKNTTGLLLFTND 183 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 + R LP+ + ++Y+V + + L + KG+V+ G +++ +K + Sbjct: 184 TDMIRKFSLPNQKSPKIYQVSLDKNLKFEDLEKISKGLVLDGHRVSVEEISYI-EKEPKS 242 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + LR + ++ +FE F++ V R+ R+S+ L G+ R ++ + + Sbjct: 243 EVGLKLRSSNVKVVRAIFENFDYNVLRIDRVSFAGLTKKNLPRGNWRFLTDQEV 296 >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 = 145 bits (366), Expect = 9e-33, Method: Composition-based stats. Identities = 71/269 (26%), Positives = 107/269 (39%), Gaps = 48/269 (17%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------- 64 R++K +A G+ASRRE + IA+ VKVNG++ + V+ IE+D Sbjct: 39 RLNKRMAELGLASRREADDWIAKGWVKVNGVVAT-MGMQVLPDVRIEIDKQAQGQQAKQV 97 Query: 65 -----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 P+ + I LV + + F PS ++ GRLDI++ Sbjct: 98 TVLVHKPIGLVSGQAEDGHLPAITLVQPQNRWAQDNARFFFHPSQLKSLVPAGRLDIDST 157 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------------ 155 GLL+LT DG +AR L + Y VR DQ Sbjct: 158 GLLVLTQDGRVARQLIGEDAVMEKEYLVRVVYNADQGAATSTGQLSRIDDDDPVSTDVQS 217 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +KL LL+ G+ + G +V + + L EGK R+I+++ E K Sbjct: 218 VFPREKLALLRHGLSLDGQALQPAKVDWQNPEQ----LRFILTEGKKRQIRRMCELVGLK 273 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V L R+ G LG L G R ++ Sbjct: 274 VVGLKRVRIGKVMLGNLPLGQWRYLAPHE 302 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPSGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTSQDKIAFQEGIRFLDGTICQPAQLSILSSSSSLSRATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 180 KISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQEELE 231 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 108/232 (46%), Gaps = 2/232 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERA--AVNVMSTDHIEVDGVPLRKAE 71 +R+ K+I+ +GI SR++ E +I Q+RV +N + A ++ I+ +P Sbjct: 3 ERLQKIISNSGICSRKKAEALIDQKRVFINNEIASLGEKADILIDIIRIDDYIIPKNIKS 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L + T ++ + ++ + VGRLD ++ G L+++N+G L Sbjct: 63 SKVILLNKPTGVISTCRDTHGRKTVLDLLPDNLQKGMHPVGRLDKDSRGALIISNNGLLT 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V G ++ L + GI I V + ++G+N + + Sbjct: 123 LHLTHPRFNHKKRYSVLITGVPSKNTLKKWRNGIEIDKKTTRKALVNIVKRQGNNTLLEI 182 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 L EG+NR+I+KV + V LIRI G +L L G+ RE+++ + Sbjct: 183 VLFEGRNRQIRKVADKLGHPVIDLIRIEIGNIKLNGLKEGAWREINELEWNQ 234 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++++ Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQILLQKQILVDGNPACKLSQNVDTGLQQITFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTSQDKITFQEGIRFLDGTVCQPAQLSILSTSSSLSRATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G R +++K L Sbjct: 180 KISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQKELE 231 >gi|317403818|gb|EFV84295.1| pseudouridylate synthase [Achromobacter xylosoxidans C54] Length = 243 Score = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 61/244 (25%), Positives = 100/244 (40%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 R+SK+++ G+ SRRE + I + V+V+G ++ I ++ Sbjct: 2 EKVRISKLMSERGLCSRREADSYIERGWVRVDGEVVSELGARAFPNQVITLERAAQARQT 61 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + L+ S G + + GRLDI Sbjct: 62 SRVTILINKPVGYVSGQAEKGYTPAVALIDARSRFAGDRSPQRFERGHLDGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A++L + + Y VR G + ++ L LL G+ + G Q Sbjct: 122 DSQGLLVLTQDGRVAKLLIGEDSSIDKEYLVRVQGDLSENGLALLNHGLSLDGKALKPAQ 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + LREGK R+I+++ E KV L R+ G LG L G R + Sbjct: 182 VRWQNHDQ----LRFVLREGKKRQIRRMCELVGLKVVGLKRVRIGRVALGELPLGQWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RDDE 241 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 68/244 (27%), Positives = 117/244 (47%), Gaps = 12/244 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++E R+ K+++ GI SRR+ E +I ++ +N + + V D I+++ Sbjct: 1 MEEKAK--RIQKILSEQGICSRRKAEELILSGKILINNKIAK-LGECVTINDEIKINNRI 57 Query: 67 LRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 ++ + + +KP+ + T SDP R T+++ L R+ S+GRLD NT G++ Sbjct: 58 IKLNNNIANNFKYIVLNKPMNTICTASDPQNRKTIYEYL-KAKERLFSIGRLDFNTTGII 116 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+TNDG A +L PS++ R+Y ++ +LNLL V+ +VT Sbjct: 117 LITNDGEFANLLSHPSSEIPRIYIATLEREMLDGELNLLNSNHVLLNGKISKQKVTKL-- 174 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 S V L EG+N +K +F N V +L R S+G L G R ++ + Sbjct: 175 --SAFKYEVLLYEGRNHHVKNLFLLVNNYVKKLHRKSFGCIDDSNLKIGQYRNLTSSEIN 232 Query: 243 EQLG 246 + L Sbjct: 233 KLLA 236 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTILKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 90/274 (32%), Positives = 146/274 (53%), Gaps = 14/274 (5%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K ++ E +R+SK ++R+G+ SRR+ E+MI +KV+G + + V ++IE+ Sbjct: 169 RKQVMNE----ERLSKYLSRSGVCSRRQAEKMIKDGLIKVDGKVATS-NLPVTPKNNIEI 223 Query: 63 ---DGVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---SRVISVGRL 114 G Y + + S + +I+VGRL Sbjct: 224 FTQRGEKFAPVKQNAKIWIFYKPRGMICSHDDPLKRPSVFNYIYNNTKIKEPHIIAVGRL 283 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D N+EGL+LLTNDG +A+ LE P + R YRVR G++D+ KL L++G VI G+ YG Sbjct: 284 DYNSEGLILLTNDGDIAQCLEQPESNIYRQYRVRVQGELDERKLLKLRQGTVINGVQYGP 343 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 V +D ++ SN W+TVGL GKNREI+KV + F+ +V+RL R+SYGP+++G++L G Sbjct: 344 FNVEIDKRQSSNTWLTVGLYTGKNREIRKVMQKFDLRVSRLKRLSYGPYKIGSMLPGQIF 403 Query: 235 E-VSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 E L+ ++ ++ + Q++ Sbjct: 404 ETYVNDELKRKIYLYMRKRLQLSQADMKAYLVDK 437 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 75/245 (30%), Positives = 121/245 (49%), Gaps = 9/245 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK-- 69 R++K ++ AG+ SRR+ + +IA +V+VNG ++ V TD IEV+G L Sbjct: 45 GTRLNKALSGAGVCSRRQADTLIAGGKVRVNGEVVTEMGRRVFPATDRIEVEGRLLACGE 104 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLL 124 R + +KP+ +V+T DP GR+T+ D LP V VGRLD +EGLLLL Sbjct: 105 ALNRHRHTYVMLNKPVQVVSTVRDPQGRTTILDILPDDLKTVRLYPVGRLDFFSEGLLLL 164 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 T+DG L L P + YRV + L ++ G+ + +G ++ + + Sbjct: 165 TDDGDLTHRLTHPKWHLPKYYRVLVREDIPPAALTAMRSGMTLAEGDRVAPVEAYIIDRS 224 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L +G NR+I+++ V RL+RI GP +LG L G+ R + ++ Sbjct: 225 EYGVELEMVLHQGINRQIRRMCRDLGLTVLRLLRIQQGPVELGNLSRGACRRLEDHEVKA 284 Query: 244 QLGPH 248 Sbjct: 285 LRKAA 289 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 57/217 (26%), Positives = 93/217 (42%), Gaps = 4/217 (1%) Query: 34 MIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPD 92 M+ RV VNG + A + + D I DG L E + + T Sbjct: 1 MLKAGRVTVNGKKEKSAKLQIDEERDEIIFDGQVLEYEEFVYYMMNKPKGVISATEDPKH 60 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 + + V VGRLDI+T GLLLLTNDG LA L P + Y+ + G Sbjct: 61 RTVLDLLDDLARSKEVFPVGRLDIDTHGLLLLTNDGQLAHALLSPKRHVDKTYQAQVKGI 120 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + Q+ + + KGI ++ ++ + + + + V + EGK ++K++ + Sbjct: 121 MTQEDVEIFAKGIPLKDFTCQPAKLEIVSIDTEKIQSQIRVTIAEGKFHQVKRMVAYCGK 180 Query: 211 KVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 +V L R++ G L L G R ++K+ L L Sbjct: 181 EVVDLQRLTMGTLVLDENLQRGEWRRLTKEELEALLA 217 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 56/228 (24%), Positives = 100/228 (43%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++S++++ SR++ +IA +V VN + A +V + V+G L++ Sbjct: 16 MKLSRIVSNQPDISRKQANWLIATGQVYVNDLSCRTADADVDEFAAVSVNGKTLQQGHCA 75 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + HKP G ++ D + + P + + GRLD T GL++LTN+G +R Sbjct: 76 HYIMLHKPAGYLSATEDDTHPTVLQLLPPGLSQCLHIAGRLDRATTGLMILTNNGTWSRQ 135 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L LP +VYRV + D +GI + TL+ + + + Sbjct: 136 LTLPGMGIAKVYRVTTAYPIGPDTPQRFAEGIWFEYEQLTTAPATLELLEP--TLARLTI 193 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 EG+ ++K++F +V L R G QL L G+ R ++ Sbjct: 194 YEGRYHQVKRMFHAVGNRVIALHREQIGHLQLNSDLAEGNFRMLTGSE 241 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 61/244 (25%), Positives = 102/244 (41%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------- 64 R+SK+++ G+ SRRE + I + V+V+G+++ + I ++ Sbjct: 2 EKVRISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGARALPDQVITLERAAAARQT 61 Query: 65 --------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + L+ S G + GRLDI Sbjct: 62 ARVTILLHKPVGYVSGQAEKGYTPAVALIDARSRYAGDRAPQRFERGQLQGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G Q Sbjct: 122 DSQGLLVLTQDGRIAKKLIGEDSEVDKEYLVRVQGRLSEAGLALLNHGLSLDGKPLRPAQ 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + LREGK R+I+++ E +V L R+ G LG L AG R + Sbjct: 182 VRWQNADQ----LRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVSLGDLPAGQWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RADE 241 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 103/230 (44%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V ++ +RV V+GI + + V HI DG L+ + Sbjct: 7 RLDRYLAVKLQIHRKAVRELLLTERVYVDGIPAKALDLLVDEFSHIVFDGQVLQANKPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ +V+ D + R+ + + GRLD+N+ GLLLLTND + L Sbjct: 67 LMLHKPVG-VVSATKDTEHRTVIDLLDCDARHELHIAGRLDLNSSGLLLLTNDSRWSEAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P + +VYRV + ++ + +G+ + I ++T+ V Sbjct: 126 MSPDQKVDKVYRVTLANPLSEEYIAAFAQGMYFGFEDITTQPAKLTIL----DTHIAEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 LREGK +IK++F F V L R S G L L G +R ++ + + Sbjct: 182 LREGKYHQIKRMFGRFRNPVVGLHRHSIGEITLDDGLKPGESRMLTAQEV 231 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 99/232 (42%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ +R I V VNG++ A+ V + + ++G PL Sbjct: 1 MRLDKFLCKSTDLNRDAASVAILSGSVTVNGVIATDCAMQVHENNAVSLNGKPLAPRPS- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP + ++ D S + VGRLD +T GL+LLT+DG + Sbjct: 60 RYFVLHKPADTLCSNVDGAYPSLFHLLDIERAFDLHIVGRLDADTTGLVLLTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG----IVIQGICYGDMQVTLDTQKGSNAWV 189 + P Q +VYRV+ +D + + + +QG + TL V Sbjct: 120 IISPQYQCKKVYRVQLRDPLDSEATAAIAATFAAGLQLQGETALTLPATLQQVDDK--TV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGK ++K++F KV L R G L + G RE++ + Sbjct: 178 LLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAVTL-DVDVGEWRELTLTEI 228 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + ++ V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L + R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTILKRIQFGDFTLNPDLAESNYRPLNQKELQ 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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 65/237 (27%), Positives = 105/237 (44%), Gaps = 15/237 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ GI SRRE +RMI + V+ NG ++ V IE+ + Sbjct: 5 RLSKLMSLRGICSRREADRMIEKGLVRANGKVISELGTKVPENAEIELLPHAKKWQAEKV 64 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----------GRLDINTEGLLL 123 + +KPIG V+T + + + P S GRLDI+++G+L+ Sbjct: 65 TIILNKPIGYVSTQPEKGYKQALDLITPERQWNSKSFDPKHLRKLSVAGRLDIDSKGILI 124 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LT DG +A+ + ++ + Y VR G V + L G+V+ Q+ Sbjct: 125 LTQDGVIAKKIIGNESEIEKEYLVRVDGAVTPGIIKRLSFGLVLDNTPLKKAN----IQQ 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L EGK R+I+++ E KV L R+ G +LG L G R + K Sbjct: 181 LDEHLMKFTLIEGKKRQIRRMCELVGLKVVDLKRVRIGKIRLGDLPTGYWRYLKKSE 237 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 75/252 (29%), Positives = 122/252 (48%), Gaps = 6/252 (2%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++D + E P R+ K +A +G+ SRRE+E I + VNG V D + Sbjct: 235 LRDTRVDMEQIEPVRLQKALAASGVGSRREMEEWIEAGLILVNGKKAT-LGDRVGPQDRV 293 Query: 61 EVDGVPLRKAERTRL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 G P+R RL + + LVT + + SR ++VGRLD+ Sbjct: 294 TAKGNPIRLKWPDRLPRVILYHKQEGELVTRDDPEGRVTIFDRLPQAKSSRWVAVGRLDV 353 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 NT GLL++T G LA L PS + R Y VR GQ++ +++ + +GI ++ + Sbjct: 354 NTSGLLIVTTSGELANRLMHPSFEAEREYAVRVLGQLEPEQMKEMTRGIELEDGPAHFQR 413 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 + +G N W V ++EG+NRE++++FE F V+RLIR+ +G L L G E Sbjct: 414 IVEQGGEGVNHWYRVVIKEGRNREVRRIFEHFGLTVSRLIRVRFGNIGLPARLKRGQFYE 473 Query: 236 VSKKILREQLGP 247 ++ + + Sbjct: 474 LNSAEVAAVMKW 485 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 63/218 (28%), Positives = 101/218 (46%), Gaps = 4/218 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +AR G+ SRR+VE +I RVK+NG+++ V DH+EVDG + ++ Sbjct: 1 MRLNQYLARCGLGSRRKVEALIVTGRVKLNGLVVSDLGCRVEEGDHVEVDGCSVHPLDKI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + R VGRLD ++GLL+LTNDG Sbjct: 61 YIVMNKPRGVVCAVEDRRYRTVLDLLPPQIRALRPFPVGRLDKESQGLLILTNDGDFCDA 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P ++ Y V V + L+ LK G+ G + V+L V V + Sbjct: 121 ILHPRRGIIKTYEVTVDRDVPSESLDRLKGGVWSDGEILEPLMVSLM----GPRTVRVDI 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +EGK RE++++ +KV L+R G +L L AG Sbjct: 177 QEGKKREVRRMMAALGFKVLSLLRRRIGKMELRRLRAG 214 >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 = 145 bits (365), Expect = 1e-32, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 111/232 (47%), Gaps = 4/232 (1%) Query: 8 QENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +R++K +A + G+ SRR+ + +IA+Q+V +N + + +D I ++ Sbjct: 9 NRTEKIERLNKFLAFQLGV-SRRQADNLIAKQKVYINNQPAQ-LGARIGESDTITINNHI 66 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + +KPI V + T++ LP F + VGRLD N+ GLLLLTN Sbjct: 67 VGGRSSYTYLMLNKPINYVCSRKQQGKTPTIYSLLPDKFHNLKPVGRLDANSSGLLLLTN 126 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + + Y V ++ ++ + + ++ + + + Sbjct: 127 DGDFAFRMTHPKFKKNKQYNVTLDKELAPLHQQMIADFGIQLNDGLSKLGLSRQSNQDRH 186 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W+ V + EG+NR+I++ F + V +L R +G ++LGTL AG ++ Sbjct: 187 NWI-VTMSEGRNRQIRRTFAALGYTVIKLHRTHFGTYKLGTLGAGDYIVINP 237 >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 = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 107/233 (45%), Gaps = 1/233 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N R++K +A +G+ SRR+ + I+ V VNG + V TD ++ DG L Sbjct: 40 SNPDLIRLNKYVANSGVCSRRDADIYISAGNVTVNGKPITEMGYKVRKTDEVKFDGRLLN 99 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L T + R+ + S+++ V ++D N GLLL TNDG Sbjct: 100 PEKKEYVLLNKPKDFSTTIRDERGKRNVNGLISSASNSKLLPVDKMDKNATGLLLFTNDG 159 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L R L+ P ++Y V + + L +++G+V+ +V+ Sbjct: 160 DLTRRLKSPKNGLRKIYHVVLNRDLRSADLKKIQEGVVLDEKPVRVQEVSFID-NAPKRE 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + + KN+ ++++FE ++V ++ R+SY L G R ++++ + Sbjct: 219 VGIEIYSSKNKVVERIFEELEYEVAKIDRVSYAGLTKKDLPRGHWRFLTEQEV 271 >gi|325473314|gb|EGC76509.1| pseudouridine synthase [Treponema denticola F0402] Length = 245 Score = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 108/237 (45%), Gaps = 9/237 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ +++A +G+ SR +V++MI ++ V+G+ + + + + + I +DG PL Sbjct: 4 RLDRILALSGLGSRSDVKKMIRKKNCCVDGVRIVSPSFILDTDLNKITIDGEPLVLRTNV 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + +T + P + +GRLDI+TEGLL++T+DG + Sbjct: 64 YLMFNKPQGCVTSTSDPVHKTVMDYIKAPFDRMTLFPIGRLDIDTEGLLIITDDGEITHK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQ-GICYGDMQV-TLDTQKGS-N 186 + P + ++ Y + + + +KGI+++ G + + GS Sbjct: 124 ITSPKSGTVKTYYLELSREPSDEEFTNYCEEFEKGIMLKNGYKCLPAKFEKCGNKTGSFR 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + + EGK ++KK+ ++ L RI+ G L L G RE+S + + Sbjct: 184 SGFLMHITEGKFHQVKKMCLSAGNELCYLRRIAVGSIVLDETLKTGEYRELSAEEID 240 >gi|329571723|gb|EGG53404.1| pseudouridine synthase B, ribosomal large subunit [Enterococcus faecalis TX1467] Length = 205 Score = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 63/204 (30%), Positives = 97/204 (47%), Gaps = 3/204 (1%) Query: 47 LERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 ++ V D +EVDGVP+ + E Y +++ SD GR V D + Sbjct: 2 VKELGTQVSKQDTVEVDGVPIYQEEYGYYLFYKPRG-VISAVSDDKGRKVVTDYFTDVTE 60 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 R+ VGRLD +T GLLLLTNDG ++ L P + +VY + G + L L KGI Sbjct: 61 RIYPVGRLDYDTSGLLLLTNDGSFSQKLTHPKHEVDKVYVAKIKGVPTKRDLLPLAKGIR 120 Query: 167 IQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 I G + + + V + + EG+N ++KK+F+ + V +L R YG Sbjct: 121 IDGKRTAPANFQILSADIKTGSSVVELTIHEGRNHQVKKMFQAVGFPVQKLKRERYGELT 180 Query: 225 LGTLLAGSTREVSKKILREQLGPH 248 L L G R+++KK + + L Sbjct: 181 LQGLRPGQYRDLTKKEISQLLNQA 204 >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 = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + ++ V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGKILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSISQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L + R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTILKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >gi|167824765|ref|ZP_02456236.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 9] Length = 300 Score = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 52 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 111 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 112 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 171 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 172 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 231 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 232 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 287 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 288 QGEWRYLGPDE 298 >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 = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 53/227 (23%), Positives = 102/227 (44%), Gaps = 1/227 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A +G+ SRRE + IA V VNG + V +D + DG L ++ Sbjct: 48 RLNRYVANSGVCSRREADIYIAAGSVTVNGKPVIEMGYKVQLSDEVRFDGRLLNPIKKEY 107 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +T R+ + + ++++ VG++D ++ GLLL TNDG L L Sbjct: 108 VVLNKPKDFATSTRDGAGNRTAMGLVSNASKAKLLPVGKMDKSSTGLLLFTNDGDLTARL 167 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +++ V + L +K+GI I+ +Q + V V + Sbjct: 168 NSPKNGLRKIFHVELTKPLKSTDLKRIKEGIEIEESVVR-IQDISYIENAPKTQVGVEIF 226 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 +N ++++FE ++ V +L + Y L G R ++++ + Sbjct: 227 STRNNIVRRLFEKLDYDVVKLDLVVYAGLTKKDLPRGHWRPLTEQEI 273 >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 = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V+ +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVQVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSFSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L + R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >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 = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 56/241 (23%), Positives = 111/241 (46%), Gaps = 9/241 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + + QR++K + AG+ SRRE + I +V ++G V+ + V+G + Sbjct: 19 DPASGQRLNKFLTNAGVCSRREADHRIRAGQVTIDGQTA-ELGQRVLPGQRVAVNGRIIE 77 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E + L+HKP G+V T + + SRV VGRLD + GL+L+TN G Sbjct: 78 GKEEEIILLFHKPRGIVCTAEKRE--KNNIVDFIGYPSRVYPVGRLDKESRGLILMTNQG 135 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSN 186 + + + + + Y+V + + + + ++ GI ++ G Q+ + + Sbjct: 136 DIVNRMMRAANRHEKEYQVTVNRGISETFVRRMRAGIYLKELGETTRPCQIH----QTGD 191 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 T+ L +G NR+I+++ ++V L+R+ +L + G R++ ++ E Sbjct: 192 RTFTIILTQGLNRQIRRMCHTLGYEVTDLLRVRIMNLRLDGIPEGEYRKIGRREREELNR 251 Query: 247 P 247 Sbjct: 252 L 252 >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 = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 59/244 (24%), Positives = 100/244 (40%), Gaps = 11/244 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPL 67 P +S+ +ARAG+ ++E E I RV +NG + + A V ++VDG V L Sbjct: 20 KEKPDWLSRALARAGVFPQKEAEDAIRAGRVSINGRVAKMALTPVPPGATVKVDGLVVSL 79 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLL 122 L + L +T + LP + +VGRLD+++ GLL Sbjct: 80 EAPPTRVLAFHKPAGLLSSTERQHRTGTVFEALLPQLPPELAGYTWHAVGRLDVDSTGLL 139 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L TND L P + Y +++ L++G+ + +V + Sbjct: 140 LFTNDDKLVAHATSPDAHLPKRYVATVFSTASDERVEPLRRGMTLDDGPARPAKVNV--- 196 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V V L EG++ ++K++ V L R + G L + G+ R ++ +R Sbjct: 197 -RDEHTVEVTLTEGRHHQVKRMLGAVGLPVRALHREAVGSVDLEGIPEGTFRLLTDDEVR 255 Query: 243 EQLG 246 E L Sbjct: 256 EGLR 259 >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 = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 52/241 (21%), Positives = 87/241 (36%), Gaps = 3/241 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++ V VNG+ +E V + + VDG R Sbjct: 9 LYRILQSQGFGTRRYCKDLVLAGLVFVNGVEMESPDALVDTAGLVLDVDGERWAYHARAY 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + +P V VGRLD +T GLLLLT+DG + Sbjct: 69 LMLNKPAGVECSQKPKHHPSVYTLLPVPLRERAVQCVGRLDQDTTGLLLLTDDGQFVHTI 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V + ++ L G+++ + + + L Sbjct: 129 TSPRHQVPKVYEITTAEPVTEAQIAQLCAGVLLADENENVAAAWAERV--GTHHLRMALT 186 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +GK ++K++ V L R + G LG L G R + L Sbjct: 187 QGKYHQVKRMVAAAGNHVAGLHRSAIGGLSLGDLAPGEWRWLEAADLEALNTTPPHATGP 246 Query: 255 V 255 Sbjct: 247 S 247 >gi|110835398|ref|YP_694257.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] gi|110648509|emb|CAL17985.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] Length = 229 Score = 144 bits (364), Expect = 1e-32, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 110/232 (47%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +A + +R+E +++I++ V V G +A + + + V G ++ Sbjct: 1 MRLDYFLAHSAGLTRKEAKQLISRGAVTVEGEAKPKANLQLRPDQAVTVHGERVQPP-GH 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP+ +V + DP R+ + P + ++V GRLD +T GL+LLT+DG + Sbjct: 60 RYLMLHKPVDVVCSTEDPGHRTVLDLLPPELRAQVHPAGRLDRDTTGLVLLTSDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 L P+ + YRV+ V + + L++G+++ + QV A + + Sbjct: 120 LTSPNHACGKRYRVQCADPVSDEDMQALREGVLLRGEDKPTLPAQVERL----DEACLLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +REG+ ++K++ KV L R G QL L G R +++ + Sbjct: 176 TIREGRYHQVKRMLAACGNKVLGLHREQIGEIQLDAALAPGEYRALTEDEVE 227 >gi|313500364|gb|ADR61730.1| Pseudouridine synthase [Pseudomonas putida BIRD-1] Length = 230 Score = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 110/231 (47%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A +R+ V M+AQ+RV+V+G ++ +V +E+D L+ Sbjct: 1 MRLDRFLANLPSYNRQHVRLMLAQRRVRVDGQVVSDPLTDVREFSRVELDEQLLQAGRPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP G V+ DP R+ + ++ + GRLD NT GL++LTNDG +R Sbjct: 61 RYLMLYKPTGCVSATHDPQHRTVLDLLPAALRDDLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+T+ + Y V ++ + + ++ + + Q+ + + Sbjct: 121 LTQPATKLPKHYLVDTEDEIGEHYVAKFREGFYFAFEDLTTQPAQLDIL----GPHRARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV L R S G +L L G RE++ + Sbjct: 177 AIVEGRYHQVKRMFGHFNNKVIGLHRESMGAIRLDPGLAPGEYRELTANEI 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 = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 54/237 (22%), Positives = 108/237 (45%), Gaps = 9/237 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERT 73 R+ +++A +G+ SR +V++MI ++ V+G+ + + + + + I +DG PL Sbjct: 4 RLDRILALSGLGSRSDVKKMIRKKNCCVDGVRIVSPSFILDTDLNKITIDGEPLVLRTNV 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + +T + P + +GRLDI+TEGLL++T+DG + Sbjct: 64 YLMFNKPQGCVTSTSDPVHKTVMDYIKAPFDRMTLFPIGRLDIDTEGLLIITDDGEITHK 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVIQGI-CYGDMQV-TLDTQKGS-N 186 + P + ++ Y + + + +KGIV++ + + + GS Sbjct: 124 ITSPKSGTVKTYYLELSREPSDEEFKNYCEEFEKGIVLKNGYKCLPAKFEKCENKTGSFR 183 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + + + EGK ++KK+ ++ L RI+ G L L G RE+S + + Sbjct: 184 SGFLMHITEGKFHQVKKMCLSAGNELCYLRRIAVGSIVLDETLKTGEYRELSAEEID 240 >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 = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 61/224 (27%), Positives = 105/224 (46%), Gaps = 4/224 (1%) Query: 22 RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHK 80 + + SRRE++++I + V ++GI + NV +T I V+G + + L Sbjct: 2 KHLVLSRREMKKLIKNEAVLIDGIPATHVSNNVDATLQVITVNGTRIHDDSQKYYMLNKP 61 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 + + +D + + + + +GRLD +TEGLLL+TN+G L + P Sbjct: 62 QGLI-SATTDKEHTTVIDLFANENVEGLYPLGRLDGDTEGLLLVTNNGPLGYRMLNPDQH 120 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNR 199 + Y V +G +D D + K+G+ G +T+ + TV + EGK Sbjct: 121 IEKEYYVEVNGPLDNDAVETFKRGVTFHGGYQCKPSMLTIIESSDNLGRATVTISEGKFH 180 Query: 200 EIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++KK+F KV L RI +G F L L G RE+++ L+ Sbjct: 181 QVKKMFLCVGVKVTYLKRIRFGEFVLDESLAPGEYRELNEAELQ 224 >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 = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 80/278 (28%), Positives = 120/278 (43%), Gaps = 11/278 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE- 71 +++ KV+A AG+ SRRE+E+ I+ RV VNG + + + D I VDG ++ Sbjct: 2 SEKLQKVLATAGLGSRRELEKWISAGRVSVNGSIAK-LGDRAAADDRILVDGRLIKIVTD 60 Query: 72 --RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + TT + R I++GRLDINT GLLL TN G Sbjct: 61 DSPRVLMYSKPEGEVCTTSDPDGRPTVFDRLPRLSRGRWIAIGRLDINTSGLLLFTNHGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------K 183 LA L PS + R Y R HG+VD+ + L G+V++ V Sbjct: 121 LANRLMHPSYEVQREYMARIHGEVDEAMIKRLTDGVVLEDGLASFKSVKAQHARSSEDLG 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL-LAGSTREVSKKILR 242 G N W V L EG+ RE+++++E + +VNRL RISYGP +L ++ E+ K + Sbjct: 181 GRNRWFKVILAEGRTREVRRLWESQDVEVNRLKRISYGPIELPSIVRRSDFLELDPKQVV 240 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 L + + + Sbjct: 241 SLFKAVALHPPRFTERHVLKDMRERKERKLRARGNTWK 278 >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 = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 52/231 (22%), Positives = 98/231 (42%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I + +R + +++I+Q R+ + ++ A I DG + Sbjct: 1 MRLDKTICESTTLTRSQAKKVISQGRITCDDKIIRSCAFKPRKDAVIVFDGKTIAIR-GP 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + +KP + ++ D S + GRLD +T GL L+T+DG + Sbjct: 60 RYMMLNKPENFICSNVDEQLPSLFNLVDVDKKELLFIAGRLDADTTGLTLITDDGKWSHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + ++ YRV + +D + L K GI + + ++ + S+ V + Sbjct: 120 ITSPRNKCIKRYRVGLDAPICEDAVALFKAGIQLKSENQPCLPAELNIL----SSTEVIL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++F V L R G +L L G R ++ K + Sbjct: 176 SISEGKYHQVKRMFGAIGNVVIELHREKIGDIELDNTLALGEWRYLTDKEV 226 >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 = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+ I SR+ +++ + ++ + V+ + NV + + G ++ E Sbjct: 1 MRLDRLLAQEKI-SRKAMKQALLKKEILVDECPARFLSQNVDTGLQKLVFQGRQIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ + + + ++ ++GRLD +T GLLLLT++G L Sbjct: 60 NYLMLHKPNGVVTASRDKNLPTVMDLLSPDIQSDQIYAIGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + K+GIV + + + S++ T+ Sbjct: 120 QLLHPQYHVDKSYQVVVNGPLTPDHIQRFKEGIVFLDGTTCKPATLEILSSSPSSSQATI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R+ +G F L L G R ++++ L Sbjct: 180 TISEGKFHQVKKMFFSVGVKVVSLKRVQFGDFTLDSELAEGQYRFLNQEELE 231 >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 = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 49/230 (21%), Positives = 98/230 (42%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ ++ E I V VN + + V ++ I ++G L Sbjct: 1 MRLDKYLCKSTDLTKSEAIERIHNGEVSVNSEFVLDESTQVHESNTILLNGDALTLRAFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + + + L + I+ GRLD +T GL+L+T+DG + Sbjct: 61 YILMHKPAGTICSNIDEVYPSLFNYLELDKVSELHIA-GRLDADTTGLVLITDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + LP+ +VYRV + D + K G+ +QG ++ + S V + Sbjct: 120 ITLPTKSCKKVYRVTLSRDIKDDVADKFKAGVPLQGEKNLTRPAELEVI----SPKEVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK ++K++F +V L R G +L + G R +++ + Sbjct: 176 TITEGKFHQVKRMFAAVGNRVVGLHREQIGDVRL-DVEEGHWRYLTEDEV 224 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 101/228 (44%), Gaps = 7/228 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM---STDHIEVDGVPLRKAER 72 +++++++AG+ SR I RV+V+G + I +DG+ + + R Sbjct: 26 LARILSKAGLCSRTVAVEWIRAGRVEVDGRRILDPEARFPLSGPG--IRIDGLDITASTR 83 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ L T + + +L + VGRLD + GLLL +ND A+ Sbjct: 84 QVLLLHKPRGVLTTRQDERGRATVY--DLLPGSPWLAPVGRLDQASSGLLLFSNDPHWAQ 141 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ + D + L V+ G MQ+ G W+ Sbjct: 142 RLLDPDQHVAKTYHVQIRPPLSTDTVVQLAADSVLDGEPCLPMQIRELRCGGKTQWLEFI 201 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 L+EG+NR+I+++ + +V RLIR++ G LG L AG R + Sbjct: 202 LQEGRNRQIRRLLAACDREVLRLIRVAVGNLPLGELRAGEWRWLHSGE 249 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 50/235 (21%), Positives = 104/235 (44%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ ++ E I + VN ++ A V ++ + +DG L E Sbjct: 1 MRLDKFICKSTQLTKAEAIERIHDGDISVNDAVIINEATQVHESNTVIMDGKRLIAREFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + + + ++ + I+ GRLD +T G++L+T++G + Sbjct: 61 YILMHKPAGTICSNIDEVYPSLFNYLDIENTAELHIA-GRLDADTTGMVLITDNGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P+ + +VYRV ++ D K GI +QG +T+ + K V + Sbjct: 120 ITSPNQKCSKVYRVGLSREIAADVAEKFKAGIKLQGEQKLTAPALLTVISAK----EVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R + G +L L G R +++ + + Sbjct: 176 TITEGKFHQVKRMFAAVGNRVVSLHREAIGEVRL-DLEVGQWRYLTQDEVASFVR 229 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 61/242 (25%), Positives = 103/242 (42%), Gaps = 18/242 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 R++K ++ G+ SRRE +R IA+ RV++NG V D +E+DG ++ Sbjct: 1 MRINKCLSELGLCSRREADRWIAEGRVRLNGETA-EMGQQVEEKDRLELDGKLVKKAGKA 59 Query: 69 ----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R L Y + + ++ V L + RV +GRLD ++EGL+LL Sbjct: 60 VRAQAPRRVLLACYKPRGVVCSCSDKDRAKNIVE--LVNYPERVYPIGRLDKDSEGLILL 117 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVT---L 179 TN G L + + Y V + ++ L+ L G+ + +V Sbjct: 118 TNQGELVNRINRGGRN-EKEYVVTVDRPLTREALDRLADGVELSELNQKTRPCEVWQDLR 176 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L +G NR+I+++ E ++V RL R+ +L L G RE+ Sbjct: 177 LPPGRRQRQFHIVLSQGLNRQIRRMCEALGYEVKRLKRVRILSLRLEGLRPGEFREIGLS 236 Query: 240 IL 241 L Sbjct: 237 EL 238 >gi|167911508|ref|ZP_02498599.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 112] Length = 298 Score = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 50 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 109 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 110 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 169 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 170 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 229 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 230 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 285 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 286 QGEWRYLGPDE 296 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 86/360 (23%), Positives = 137/360 (38%), Gaps = 24/360 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGTVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQDKVDA 266 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV----------PDDFTRMKKNSS 290 LR +L + + L I D R + Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGHTSGADEGRELRRFD 326 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + P + + A S + R + R+ Sbjct: 327 NLREDRGRGGRGKPGDFKGGLTVSGEAAARQSQQRPFKQRGPAKGDRGALPEGNPAAFRS 386 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 70/248 (28%), Positives = 117/248 (47%), Gaps = 2/248 (0%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + ++ K + G A RR+ ++ I RV VNG ++++ +V D + +D Sbjct: 1 MLKGDEIIKLQKYLQMCGFA-RRKADQYIIAGRVTVNGKVVDKPWFDVKDDDIVMLDNKK 59 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L+ ++ ++ HKP G TT DP + T+ + + I + V GRLD + G+L+LTN Sbjct: 60 LKINQKFEYYVLHKPKGYATTLYDPKQKKTIKELIKHIKTPVKPAGRLDKDATGVLILTN 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L +L + Y V+ G V + L LKKGI + + + Sbjct: 120 DGKLIDILTNAKYGVKKEYIVKVSGSVSFNDLLKLKKGIYDERDFLKLEYFDILEKGFDY 179 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL-LAGSTREVSKKILREQL 245 + + V L +GK EIK++F+ KV L RI++GP + + G ++ K L L Sbjct: 180 SIIKVVLIKGKKHEIKRLFKSIGHKVLELKRIAHGPISISIVPNEGDLTKLKGKDLERLL 239 Query: 246 GPHLLEEA 253 EE Sbjct: 240 KLKKGEEK 247 >gi|167563192|ref|ZP_02356108.1| pseudouridine synthase family protein [Burkholderia oklahomensis EO147] Length = 321 Score = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 73 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 132 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y + LVT + G + P + GRLDI++ Sbjct: 133 VTILLHKPVGYVSGQAEDGYAPAVTLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 192 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 193 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERMADIDQHFPAESLAKLRHGLELDG 252 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 253 APLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 308 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 309 QGEWRYLGPDE 319 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 100/238 (42%), Gaps = 13/238 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAER 72 R+ K + ++ +R E +I +V VNG + + V +HI ++ G L Sbjct: 1 MRLDKFLCKSTQLTRHEACELILAGKVLVNGESVVSPSAQVHENNHIRLEGGQRLTARAS 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+ L + F NL I+ GRLD +T GLLL+T+DG + Sbjct: 61 RYIMLHKPADTLSSNVDGDHPSVFNFINLEHTSELHIA-GRLDADTTGLLLITDDGRWSF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDK--------LNLLKKGIVIQGICYGDMQVTLDTQKG 184 + P +VYRV ++ + K+G+ +QG + L+ Sbjct: 120 NVFNPKYHCEKVYRVYLRDSIEGEIAGEIDAELKARFKQGLDLQGEQALTLPAKLEFVSP 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+ ++K++F +VN L R G +L + G R ++++ + Sbjct: 180 K--EVLLTITEGRYHQMKRMFARVGNRVNALHREQVGKIKL-DMPVGQWRYLTREEID 234 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 71/263 (26%), Positives = 117/263 (44%), Gaps = 17/263 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K IA SRRE ++ I V++NG + + A V D + V G + ++ Sbjct: 3 MRLNKYIAHHSSYSRREADKAILDGYVRINGEIQDNPATQVDEKDDIVYVSGKQITPKDK 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +Y+KP G + T SDP GR T++D L + I VGRLD TEG+LLLT+ +A Sbjct: 63 YTVIVYNKPKGELVTKSDPKGRRTIYDGLEKKYKHYIPVGRLDYATEGVLLLTDASKIAS 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L R+Y+V+ G+V + + G+ + + Sbjct: 123 ALMNS--NLERIYKVKIKGEVTPEIEAAMMNGLELLDATAGGHSHSKVTSMTFAPFLGYK 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + + + + + EG+NREI++ F F +V L RIS+ +L L G R +S+ Sbjct: 181 IQKNEHNYSVLKIAISEGQNREIRRFFAHFGTEVADLKRISFAEVELNNLPTGKVRFLSR 240 Query: 239 KILREQLGPHLLEEAQVNLDAPI 261 EE Sbjct: 241 SEYSALFTFMKAEEKLAREKGKK 263 >gi|327458771|gb|EGF05119.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1057] Length = 241 Score = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDGKPACKLSQNVDIGLQQITFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTSQDKIAFQEGIRFLDGTICQPAQLSILSSSSSLSRATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 180 KISEGKFHQIKKMFLAVGVKVIYLKRIQFGDFTLDPDLAKGDYRALNQEELE 231 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 55/237 (23%), Positives = 109/237 (45%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K++A G SR++V + + +NG+ A ++ T D + V+G+ ++ Sbjct: 1 MRVDKILASNGYGSRKDVRVFLKKNNCCINGVRCINPAQHIDPTKDTVTVNGISVQLRTS 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+ + +T F P + +GRLDI+TEGLL++TNDG L Sbjct: 61 VYIMLHKPAGCVSSTKDPIHKTVMDFLPAPFNAMDLFPIGRLDIDTEGLLIITNDGNLTH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-----VIQGICYGDM--QVTLDTQKGS 185 + P + ++ Y + + + +++ + + + G ++T + + Sbjct: 121 SITAPKSNCVKTYYLELERPLTETEIHNFTEKLAQGILLHTGYTCLPAALELTENIHTKN 180 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK +IKK+ F K+ L R+S +L +L AG+ RE++ + + Sbjct: 181 AQAFLIHITEGKYHQIKKMCTAFGVKLTYLKRVSMAGLELDPSLAAGNCRELTSEEI 237 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 51/232 (21%), Positives = 98/232 (42%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A I R+E+++ +A++++ V+G+ + + NV + + L Sbjct: 1 MRLDQLLAHYQI-PRKEIKQSLAKRQILVDGLAATKLSQNVDTGLQEVRWKDQVLTDCSH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + T + +GRLD +T GLLLLT++G L Sbjct: 60 HYFLLHKPQGLVTATKDAQHSTVLDLLRTEDRTPKTYPIGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y +G ++ + ++GI ++ + + + + V Sbjct: 120 QLLHPQYHIEKEYAATVNGPLEPAHIEKFQEGITFLDGTTCKPAKLEILSSSLTESQALV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 L EGK ++KK+ KV L RI +G F L L G R +++ L+ Sbjct: 180 TLSEGKFHQVKKMLLSVGVKVTSLKRIKFGDFSLDPNLAEGQYRPLNQDELQ 231 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 58/217 (26%), Positives = 93/217 (42%), Gaps = 4/217 (1%) Query: 34 MIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPD 92 M+ RV VNG + A + + D I +DG L E + + T Sbjct: 1 MLKAGRVTVNGKKEKSAKLQIDEERDEIRLDGQVLEYEEFVYYMMNKPQGVISATEDPKH 60 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 + + V VGRLDI+T GLLLLTNDG LA L P + Y + G Sbjct: 61 RTVLDLLDDLARTKEVFPVGRLDIDTHGLLLLTNDGQLAHALLSPKRHVDKTYLAQVKGI 120 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNW 210 + Q+ + KGI ++ ++ L + + + + V + EGK ++K++ + Sbjct: 121 MTQEDVETFAKGIPLKDFTCQPARLELVSIDTAKNQSQIRVTIAEGKFHQVKRMVAYCGK 180 Query: 211 KVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 +V L R++ G L L G R ++K+ L L Sbjct: 181 EVVDLQRLTMGTLMLDENLQRGEWRRLTKEELENLLA 217 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 86/233 (36%), Positives = 128/233 (54%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK----A 70 R+ K+IA AG SRR VER+I Q R++VN + T +++DG + Sbjct: 4 RLQKLIANAGYGSRRWVERLIEQGRIEVNNKIA-IIGDKTEITSLVKIDGRKINLSRYVE 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + T++ + +K G++ ++ D GR +V+ LP I VGRLD+NT GLLL+TN+G L Sbjct: 63 QETKVIILNKQAGVICSNRDDKGRKSVYSLLPKESRW-IMVGRLDLNTSGLLLVTNNGDL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS++ R Y VR GQV L L +G+V Q+T KG+N W Sbjct: 122 ANKLMHPSSEIDREYAVRVLGQVKNKDLKKLTQGVVFDDGFSKFNQITFSGGKGANRWYK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V LREGK RE+++++E +KV+RLIRI +G +L L A + ++ Sbjct: 182 VVLREGKKREVRRLWEVLGFKVSRLIRIRFGEIRLPDNLKANQYDYLKTVQIK 234 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 50/228 (21%), Positives = 90/228 (39%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAER 72 R+S+V+ G +RR+ +I V+V G +++ + + D + V G ++ Sbjct: 1 MRISQVLFSQGFGTRRDCAGLIHAGAVEVAGRVVDDPDEELPTEDLVFSVQGRAWPFHDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+ + P + VGRLD +T G LLLT+DG L Sbjct: 61 ALVLLHKPTHYECSQKPRHHPGVLSLLPTPLRVRGLQPVGRLDEDTTGALLLTDDGTLIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY + + +++ L +G+V+ ++ + G + + Sbjct: 121 RLTSPKHHVPKVYEITAKHALADEQIARLTEGVVLDDDP-QPVRAAAAERTG-EFTLRLT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 L EGK ++K++ + L R G L L G R V Sbjct: 179 LTEGKYHQVKRMLAAVGNRCEALHRSRIGALALDDLPVGQWRWVGPDE 226 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 104/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLKGDILVDGCPARSLAQNIDTGLQELLFQEQIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPPDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + YRV +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYRVEVNGLLTLDHIQAFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++KK+F KV L R +GP+ L L AG R ++ + L Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTSLKRTHFGPWSLDENLQAGDYRPLNSEEL 230 >gi|241662183|ref|YP_002980543.1| pseudouridine synthase [Ralstonia pickettii 12D] gi|240864210|gb|ACS61871.1| pseudouridine synthase [Ralstonia pickettii 12D] Length = 248 Score = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 51/237 (21%), Positives = 87/237 (36%), Gaps = 3/237 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++ V +NG+ +E V + + VDG R Sbjct: 9 LYRILQSQGFGTRRYCKDLVLAGLVCINGVEMESPDALVDTAGLVLDVDGERWAYHARAY 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + +P V VGRLD +T GLLLLT+DG + Sbjct: 69 LMLNKPAGVECSQKPKHHPSVYTLLPVPLRERAVQCVGRLDQDTTGLLLLTDDGQFVHTI 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V + ++ L G+++ + + + L Sbjct: 129 TSPRHQVPKVYEITTAEPVTEAQIAQLCAGVLLADENENVAAAWAERV--GTHHLRMALT 186 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 +GK ++K++ V L R + G LG L G R + L Sbjct: 187 QGKYHQVKRMVAAAGNHVVGLHRSAIGGLSLGDLAPGEWRWLEAADLEALNTTPPHA 243 >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 = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 72/232 (31%), Positives = 110/232 (47%), Gaps = 1/232 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + QR+++ +AR G+ASRR+ E +I RV++NG ++ AV V D +EVDG P+ Sbjct: 2 SEDSQRLNQYLARCGVASRRKAEALILGGRVRLNGCVVLDLAVRVQGEDRVEVDGEPVLP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L+ L + R VGRLD ++EGLLLLTNDG Sbjct: 62 RVALYLVLHKPRGVLSAVEDRREQTVVDLLPSRFRPERPFPVGRLDKDSEGLLLLTNDGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A+ L PS ++ Y V+ + + + +G+ +G + + W Sbjct: 122 FAQRLLHPSAGIVKSYEVQLDRPLAPEHRERMLEGLWSEGEFLRPLSIRSLGV-PDRRWT 180 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EGK REI+++ F + V RLIR G +L L G +E+S + L Sbjct: 181 VFDLVEGKKREIRRLAALFEYGVLRLIRRRVGKLELRRLETGVAQELSGEAL 232 >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 = 144 bits (362), Expect = 2e-32, Method: Composition-based stats. Identities = 65/244 (26%), Positives = 107/244 (43%), Gaps = 16/244 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ K R+ + I+ SR+ V ++A+ VKV+G + V HI Sbjct: 1 MESKRA--------RLDRFISATKRVSRKHVRVLLAKGLVKVDGEIARDIDQIVDEFSHI 52 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 ++G L+ L L+ +V+ D ++ + ++ VGRLD+NT G Sbjct: 53 TLEGEVLQANTPIYLMLHKPVG-VVSATVDDKHKTVIDLLSHPDKQQLHIVGRLDLNTSG 111 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVT 178 LLLLTNDG ++ L P + ++YRV +D + + + I ++ Sbjct: 112 LLLLTNDGRWSKRLMSPEHKVAKLYRVSLENPIDASYIQAFHEGMYFEFEDITTLPAKLE 171 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 + V L EG+ +IK++F F V L RIS G L + LLAG +R +S Sbjct: 172 IV----DPHTALVTLMEGRYHQIKRMFGRFRNPVIGLHRISVGEIVLDSQLLAGQSRVLS 227 Query: 238 KKIL 241 + Sbjct: 228 TAEI 231 >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 = 144 bits (362), Expect = 2e-32, Method: Composition-based stats. Identities = 80/270 (29%), Positives = 124/270 (45%), Gaps = 7/270 (2%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 ++ +R+ KV+AR G+ SRRE+ER I + R+K+NG + + + DH+ ++ + Sbjct: 11 NQSVDGERIQKVLARGGVGSRREIERWIDEGRLKINGKPV-GLGDRLKAGDHLLINDRVV 69 Query: 68 RK-----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L + +VT SR I+VGRLDINT GLL Sbjct: 70 HWEKFVEQPTRVLLYHKPVGEVVTRRDPEGRPVVFTQLPKLAISRWIAVGRLDINTSGLL 129 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+TN+G LA L PSTQ R Y VR G+V L LK+G+ ++ + Sbjct: 130 LVTNNGELANRLMHPSTQVEREYAVRILGEVSDATLAKLKQGVELEDGKAKFDDIIFFGG 189 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +G+N W V + EG+NR +++++E V+RL+R+ YGP L L S E++ K L Sbjct: 190 EGANKWYNVIVAEGRNRLVRRLWESQELIVSRLMRVRYGPVVLPERLKTHSFYELTDKEL 249 Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 + + R Sbjct: 250 ELLFEFAGMAGEKPVHITKPEVKAHKSGKR 279 >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 = 144 bits (362), Expect = 2e-32, Method: Composition-based stats. Identities = 56/229 (24%), Positives = 97/229 (42%), Gaps = 4/229 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K+++ G SRREV +I + + L ++ V D I +G PL + Sbjct: 6 RLDKLLSSLGYCSRREVALLIREGIITHAHNLPLKSDTKVS-HDEILCEGEPLDPPQGIV 64 Query: 75 LWLYHKPIGLVTTHSDPDG--RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + ++ + + + + ++ +VGRLD +T GLLLLT+DG L Sbjct: 65 ILMHKPAGLVCSHDDGEGKLVYDLLPERWRLRDPKISTVGRLDKDTSGLLLLTDDGALLH 124 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY R + D+ + G ++ T VT+ Sbjct: 125 RLTSPKHKVPKVYEARLDRALKGDEAEIFASGTLMLNGEKTPCLPAKLTVIDDTH-VTLE 183 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ +++++F V L R S+G LG L AG R + + L Sbjct: 184 IVEGRYHQVRRMFAAVGNHVTALHRCSFGTLTLGDLKAGEYRLIDAQSL 232 >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 = 144 bits (362), Expect = 2e-32, Method: Composition-based stats. Identities = 86/360 (23%), Positives = 137/360 (38%), Gaps = 24/360 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 48 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGTVAQT-GMSVRSGDKIELDGRSFVASALT 106 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 107 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 166 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 167 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 226 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV Sbjct: 227 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQDKVDA 286 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV----------PDDFTRMKKNSS 290 LR +L + + L I D R + Sbjct: 287 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGHTSGADEGRELRRFD 346 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + P + + A S + R + R+ Sbjct: 347 NLREDRGRGGRGKPGDFKGGLTVSGEAAARQSQQRPFKQRGPAKGDRGALPEGNPAAFRS 406 >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 = 144 bits (362), Expect = 2e-32, Method: Composition-based stats. Identities = 62/228 (27%), Positives = 101/228 (44%), Gaps = 3/228 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + ++ K + G A RR+ + I +RV VNG ++ V D++ VDG Sbjct: 17 KISLKGDENIKLQKYLQLCGFA-RRKADEYITSKRVIVNGKTVDEPWFEVNEDDNVLVDG 75 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L+ + L+ + T T+ + + I + + GRLD + G+L+L Sbjct: 76 KILKPNQFEYYVLHKPKDYVTTLFDPKQK-KTIGELIKHIKTPLKPAGRLDKDATGVLIL 134 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG L +L + + Y V+ V ++L LKKGI +G + + Sbjct: 135 TNDGELIDILTNAKYRVKKEYIVKVKSVVSAEELVKLKKGIYDKGEFLKLEHFKIIEKSS 194 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + V V L +GK EIK++F V L RIS+GP + L+ Sbjct: 195 EYSIVRVELIKGKKHEIKRLFSSIGHNVLELKRISHGPISIS-LVPNE 241 >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 = 144 bits (362), Expect = 2e-32, Method: Composition-based stats. Identities = 65/247 (26%), Positives = 112/247 (45%), Gaps = 7/247 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAERT 73 +++V+++ G+ SR E R IA RV V+ ++ + I VDG PL R Sbjct: 39 LARVLSKLGVCSRTEAARWIADGRVSVSARVVRDPEFPIRGDQQSSIAVDGQPLAGLARC 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T + + + + VGRLD +EGLLL +ND A Sbjct: 99 YLMLNKPRGVVTTVRDEQGRDTVYRCFDGAGLPWIAPVGRLDKASEGLLLFSNDPQWAAA 158 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAW 188 + P+T + Y V+ + +L L+ G+V QG+ QV++ + NAW Sbjct: 159 VTDPATGPDKTYHVQIDCRPSAAQLAQLQAGVVDPDPQGQGVLLRAKQVSVLREGERNAW 218 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + + L EG+NR+I+++ + V RL+R++ GP +G L + R +S + + + Sbjct: 219 LEIVLDEGRNRQIRRLVAAVDIGVLRLVRVAIGPLAMGELGKSAWRMLSAEEVSALVPAA 278 Query: 249 LLEEAQV 255 Sbjct: 279 HASAPDA 285 >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 = 144 bits (362), Expect = 3e-32, Method: Composition-based stats. Identities = 68/247 (27%), Positives = 105/247 (42%), Gaps = 11/247 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 RV K+IA++G+ SRR+ E+MI++ V VNG + D I+V+G + Sbjct: 2 PELVRVQKLIAQSGLMSRRDAEKMISKGLVFVNG-IKSSIGDKASINDEIKVNGKIINLT 60 Query: 71 ERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + T L + T+ + + +L + R++ VGRLD NT G+LLLT D Sbjct: 61 KNTVFKYYLLNKPKNTITTSKDPKGRHTVI--DLINTSERIVPVGRLDRNTTGVLLLTTD 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 L L P + RVYR R + + L GI I G + Sbjct: 119 YELVNKLTHPKYEIERVYRARIDSPLTLKEFKELNAGIEIDGKM-----SYQIVDQVDTK 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L G +KK+FE V L R+SY + L G RE++ K ++ Sbjct: 174 SYLISLHVGSYHHVKKLFEKIGHSVLTLKRVSYANLTVDKLPEGMYRELTIKEVKNLKLL 233 Query: 248 HLLEEAQ 254 +E + Sbjct: 234 VEQQEKK 240 >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 = 144 bits (362), Expect = 3e-32, Method: Composition-based stats. Identities = 48/226 (21%), Positives = 91/226 (40%), Gaps = 3/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G ++ + V G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVVSDLKKQFSPENFEFSVFGQNYQYREKIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + H I V +VGRLD +T GLLLLT+DG +VL Sbjct: 63 IALRKPQGFECSHHPQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQVL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V + V +++ +L +G+ + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTYDPVTPEQIEMLIQGVNLHQEKEVFAATDVALL--GTHQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G ++K++ KV +L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEDGDWVYLSEQE 226 >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 = 144 bits (362), Expect = 3e-32, Method: Composition-based stats. Identities = 51/237 (21%), Positives = 97/237 (40%), Gaps = 12/237 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A SR +V ++ +R++VNG + + S D + +D PL+ Sbjct: 1 MRLDKFVADNTSYSRSQVRGLLKAKRIRVNGQTALAPSAALKSDDEVTLDDAPLQARSDV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-----ISVGRLDINTEGLLLLTNDG 128 L L+ + + +S GRLD++T GL+L+T+DG Sbjct: 61 YLMLHKPAGYVCANTDAEHPTVFDLPGFSARYSNADIARLQIAGRLDLDTTGLVLITSDG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSN 186 + P + + Y V + + + +G+++ G ++ L + +N Sbjct: 121 QWNHRITSPRQKCRKAYYVECAAPIAAETKSAFAEGVLLHGEKRPTLPAELELLSANTAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + +G ++K++F KV RL R G L LL G R ++ +R Sbjct: 181 ----LYIEQGIYHQVKRMFASTGNKVLRLHRFQIGALALETDLLPGDMRALTSDEIR 233 >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 = 144 bits (362), Expect = 3e-32, Method: Composition-based stats. Identities = 60/228 (26%), Positives = 101/228 (44%), Gaps = 7/228 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM---STDHIEVDGVPLRKAER 72 +++++++AG+ SR I RV+V+G + I +DG+ + + R Sbjct: 22 LARILSKAGLCSRTVAVEWIRAGRVEVDGRRILDPEARFPLSGPG--IRIDGLDITASTR 79 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L+ L T + + +L + VGRLD + GLLL +ND A+ Sbjct: 80 QVLLLHKPRGVLTTRQDERGRATVY--DLLPGSPWLAPVGRLDQASSGLLLFSNDPHWAQ 137 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ + D + L V+ G MQ+ G W+ Sbjct: 138 RLLDPDQHVAKTYHVQIRPPLSTDTVVQLAADSVLDGEPCLPMQIRELRCGGKTQWLEFI 197 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 L+EG+NR+I+++ + +V RLIR++ G LG L AG R + Sbjct: 198 LQEGRNRQIRRLLAACDREVLRLIRVAVGNLPLGELRAGEWRWLHSGE 245 >gi|187927714|ref|YP_001898201.1| pseudouridine synthase [Ralstonia pickettii 12J] gi|187724604|gb|ACD25769.1| pseudouridine synthase [Ralstonia pickettii 12J] Length = 248 Score = 144 bits (362), Expect = 3e-32, Method: Composition-based stats. Identities = 51/229 (22%), Positives = 88/229 (38%), Gaps = 3/229 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKAERTR 74 + +++ G +RR + ++ V +NG+ +E V + + VDG R Sbjct: 9 LYRILQSQGFGTRRYCKDLVLAGLVFINGVEMESPDALVDTAGLVLDVDGERWAYHARAY 68 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + +P V VGRLD +T GLLLLT+DG + Sbjct: 69 LMLNKPAGVECSQKPKHHPSVYTLLPVPLRERAVQCVGRLDQDTTGLLLLTDDGQFVHTI 128 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P Q +VY + V + ++ L G+++ + + + L Sbjct: 129 TSPRHQVPKVYEITTAEPVTEAQIAQLYAGVLLADENENVAAAWAERVD--THHLRMALT 186 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +GK ++K++ V+ L R + G LG L G R + L Sbjct: 187 QGKYHQVKRMVAAAGNHVDGLHRSAIGGLSLGDLAPGEWRWLEAADLEA 235 >gi|224826005|ref|ZP_03699108.1| pseudouridine synthase [Lutiella nitroferrum 2002] gi|224601642|gb|EEG07822.1| pseudouridine synthase [Lutiella nitroferrum 2002] Length = 236 Score = 144 bits (362), Expect = 3e-32, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 100/231 (43%), Gaps = 5/231 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKAERT 73 + +++ + G SR+E +++ V+++G +++ + + D + +DG P Sbjct: 3 LYRLMQQQGFGSRKECRKLVEHGLVELDGAVVDDYRLEIDPAAIDELVIDGEPWEILMLP 62 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLAR 132 L HKP G T+H S I+ VGRLD++T GLLLLT DG Sbjct: 63 LYILLHKPAGYETSHKPMHNPSVFTLLPWQFSQLGIAAVGRLDVDTTGLLLLTTDGQFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V V + + LK G+ ++ + ++ + + Sbjct: 123 ALTSPKKHVPKCYEVTLKHPVSEALVKHLKAGVFLKDDNEKVVADQVEVVD--EITIRMT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + +GK ++K++ +V L R++ G QLG L G R + L E Sbjct: 181 ITQGKYHQVKRMIAAAGNRVQELHRVALGTLQLGELDEGEWRHLDAAELAE 231 >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 = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 111/232 (47%), Gaps = 3/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+SKVIA+AG ASRR+ E +I + +VKVN ++ V D I V+G PL K Sbjct: 2 ERLSKVIAQAGCASRRKAENLITEGKVKVNDEVINVLGYKVSPKDIITVEGKPLVKEPLV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLAR 132 L L TT R+ + L + + +L+ +T GLLL+TNDG L + Sbjct: 62 YYLLNKPTGYLSTTADIHKRRNILDLILKEDQNVRLFPIHKLEYDTSGLLLVTNDGELTK 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVT 190 L S + Y +R G + ++++ +K+GI ++ + + + ++ V Sbjct: 122 KLTSQSESIQKEYVIRTKGIMIKERIREIKRGIKVENKIIKPVDIAIVELDKAHQSTLVK 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + +E+K +F+ +V + RI + L + GS R++ ++ Sbjct: 182 MIITNESAKELKTMFKQLGHEVKNMTRIRFDSLTLEGVNRGSYRKLKSHEVK 233 >gi|193077698|gb|ABO12547.2| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii ATCC 17978] Length = 234 Score = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 48/226 (21%), Positives = 91/226 (40%), Gaps = 3/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G ++ + V G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVIIDGEVVSDLKKQFSPENFEFSVFGQNYQYREKIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + H I V +VGRLD +T GLLLLT+DG + L Sbjct: 63 IALRKPQGFECSHHPQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V + V +++ +L +G+ + G + +T+ + Sbjct: 123 THPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGGFAATDVALL--GTHQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G ++K++ KV +L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEEGGWVYLSEQE 226 >gi|239814633|ref|YP_002943543.1| pseudouridine synthase [Variovorax paradoxus S110] gi|239801210|gb|ACS18277.1| pseudouridine synthase [Variovorax paradoxus S110] Length = 249 Score = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 52/249 (20%), Positives = 91/249 (36%), Gaps = 11/249 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G +RR ++ Q V + G + ++ D + V G E+ Sbjct: 3 LQDILYSQGFGTRRVCAGLVQQGHVSIAGAAVTDPFADLDPEDLLFTVQGTEWAYHEKAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L+ + V ++GRLD +T GLLLLT+D Sbjct: 63 LMLHKPAGTECSQKPSTYPSIYTLLPSPLRLRPNKGAVQGVQAIGRLDQDTTGLLLLTDD 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + P +VY V VD ++ L G+V+ ++ + S Sbjct: 123 GQFIHKMGSPKHHVPKVYEVTAKHPVDAAQIEKLLAGVVLDDDP-KPVR-AAACESDSPL 180 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 + + L EGK ++K++ +V L R G L G L AG R ++ + + Sbjct: 181 HLRLTLTEGKYHQVKRMLAAVGNRVEGLHRSRIGDLALPGDLAAGQWRWLTAEQVAALRA 240 Query: 247 PHLLEEAQV 255 P + Sbjct: 241 PAKPPKTPK 249 >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 = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 60/259 (23%), Positives = 109/259 (42%), Gaps = 29/259 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERT 73 R+ K + G +R +V++ I + V VNG + ++A V D I G + A Sbjct: 4 RLDKYLTEMGCGTRSQVKKEILKGSVSVNGEIAKKAERKVDTEKDEIIFKGEKIFYAGYE 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +V+ D R+ + S + GRLD +TEGLLL+TNDG LA Sbjct: 64 YFMLNKPAG-VVSATEDKKERTVIDLIKESKRKDLFPAGRLDKDTEGLLLITNDGQLAHR 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDM----------------- 175 L P ++Y + G V ++ + L +KG+ I Sbjct: 123 LLSPKKHVDKIYYAKIKGIVTEEDVRLFEKGVHIGDEKPTMPAALEILSVQKERRKEKIK 182 Query: 176 --------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG- 226 + D ++ + + + ++EG+ ++K++F +V L RI +G L Sbjct: 183 EQKILPETKNETDEKEDGYSEIYLTIKEGRFHQVKRMFRAVGKEVVYLKRIQFGTLTLDP 242 Query: 227 TLLAGSTREVSKKILREQL 245 +L G R+++++ + + Sbjct: 243 SLKPGQYRKLTEEEVEQLC 261 >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 = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 51/232 (21%), Positives = 99/232 (42%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+A I SR+ ++R + + + ++ + NV + I D + Sbjct: 1 MRLDRLLAQASI-SRKSMKRALLRGAILIDQTPARSLSQNVDTGLQEILFDKQKVPAPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + S+GRLD +T GLLL+T++G L Sbjct: 60 RYFMMNKPRGYITANSDASKETVIDLIQKEDYSGELYSIGRLDRDTTGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P + Y V+ +G ++ + ++G+ Q+T+ + + +V Sbjct: 120 QLLHPQYHVDKTYYVQVNGLLNNQAIEAFQQGVRFLDGKVCKPAQLTIHSTTPVLSTASV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R +G FQL +L G R +++ L+ Sbjct: 180 TISEGKFHQVKKMFLAIGVKVTYLKRTHFGDFQLDPSLAEGDYRSLNQDELK 231 >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 = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 100/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + Sbjct: 1 MRLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATVDTQHPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + I Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV RL R + G L L G R + + Sbjct: 177 TIVEGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALAPGGYRALHAAEI 227 >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 = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 97/230 (42%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K IA G SR+EV R+ + R+ NG + A +V T + DG PL Sbjct: 1 MKLLKYIANLGYGSRKEVARIFREGRIT-NGEGEVLYADDHVQHTA-VRFDGEPLDPPPG 58 Query: 73 TRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ + +T + + +VGRLD +T GLLLLT+DG L Sbjct: 59 LMVMLHKPSGYICSTKDAGRLVYDLLPARFRLRSPLLSTVGRLDGDTSGLLLLTDDGALL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P T +VY + D+ L G ++ +Q + G V + Sbjct: 119 HRMISPKTHLPKVYEATLVQALRGDEATLFASGTLLLDGDTKPLQPAVLEVLGP-CQVRL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ +++++F +VN L R + G L L G R + + L Sbjct: 178 TLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVLEAQDL 227 >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 = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 60/244 (24%), Positives = 100/244 (40%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------- 64 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ Sbjct: 2 EKVRISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGARAFPDQAITLERAAAARQT 61 Query: 65 --------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + L+ S G + GRLDI Sbjct: 62 ARVTILLHKPVGYVSGQAEKGYTPAVALIDARSRYAGDRAPLRFERGQLQGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G Q Sbjct: 122 DSQGLLVLTQDGRIAKKLIGEDSEVDKEYLVRVQGRLSEAGLALLNHGLSLDGKPLRPAQ 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + LREGK R+I+++ E +V L R+ G LG L G R + Sbjct: 182 VRWQNADQ----LRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVSLGDLPVGQWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RADE 241 >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 = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 96/230 (41%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K IA G SR+EV R+ R+ NG + A +V T + DG PL Sbjct: 1 MKLLKYIANLGYGSRKEVARIFRDGRIT-NGEGEVLYADDHVQHTA-VRFDGEPLDPPPG 58 Query: 73 TRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ + +T + + +VGRLD +T GLLLLT+DG L Sbjct: 59 LMVMLHKPSGYICSTKDAGRLVYDLLPARFRLRSPLLSTVGRLDGDTSGLLLLTDDGALL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P T +VY + D+ L G ++ +Q + G V + Sbjct: 119 HRMISPKTHLPKVYEATLVQALRGDEATLFASGTLLLDGDTKPLQPAVLEVLGP-CQVRL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L EG+ +++++F +VN L R + G L L G R + + L Sbjct: 178 TLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVLEAQDL 227 >gi|167739176|ref|ZP_02411950.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 14] Length = 313 Score = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 65 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 124 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 125 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 184 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 185 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 244 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 245 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 300 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 301 QGEWRYLGPDE 311 >gi|167720171|ref|ZP_02403407.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei DM98] Length = 305 Score = 143 bits (361), Expect = 4e-32, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 57 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 116 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 117 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 176 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 177 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 236 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 237 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 292 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 293 QGEWRYLGPDE 303 >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 = 143 bits (361), Expect = 4e-32, Method: Composition-based stats. Identities = 96/252 (38%), Positives = 155/252 (61%), Gaps = 8/252 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVP 66 P R+SK +A+ + SRRE E+MI + V+G +E + V S + I+V +G Sbjct: 32 QPEPMRLSKYLAQTSVCSRREAEKMIESGMILVDGKKVES-NIPVTSENKIQVFTKNGEK 90 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLL 123 + + T++W+++KP+G++ +H+DP R + +D +ISVGRLD N+EGL++ Sbjct: 91 MPTKQSTKVWIFYKPVGMICSHNDPFKRPSFYDFAKLRLKTDQHIISVGRLDFNSEGLIV 150 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +TNDG LAR +ELP T+ R+YRVR +G ++KL ++ GI I G+ YG V ++ ++ Sbjct: 151 VTNDGELARCMELPETKLQRIYRVRVYGTFTEEKLKKIRNGITIAGVNYGPYWVNVENRQ 210 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK-ILR 242 N W+ + L +GKNREI+KV + F+ +VNRLIR SYGP++L L G E + ++ Sbjct: 211 SRNTWLIMRLEQGKNREIRKVMQKFDLRVNRLIRQSYGPYKLMGLKPGDFYEAQIEPEIK 270 Query: 243 EQLGPHLLEEAQ 254 +L H ++ Q Sbjct: 271 RKLYLHTRKKLQ 282 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 99/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + Sbjct: 1 MRLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATVDTQHPTILDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + +VY V +D+ + I Q+TL + + + Sbjct: 121 LTQPQNKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV RL R + G L L G R + + Sbjct: 177 TIVEGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALAPGGYRALHAAEI 227 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 RV + ++ +R++V ++ ++RV+++G + V +EVD L+ Sbjct: 1 MRVDRFLSNLPRFNRQQVRLLLVERRVRIDGQTVSDPHAQVREFSRVEVDDDVLQAGRPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ DP + + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPPGCVSATRDPQHPTVLDWLDEPDKNDLHIAGRLDFNTTGLMLITNDGSWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V + + + + + + ++TL + + + Sbjct: 121 LTQPQTKLPKVYYVETEQIITAEYADTFARGLYFAFEDLTTQPAELTLLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV RL R GP L L G R +S + + Sbjct: 177 SIVEGRYHQVKRMFGHFNNKVLRLHRERMGPLTLDAHLEPGQYRALSPEEV 227 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 63/242 (26%), Positives = 108/242 (44%), Gaps = 1/242 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AG+ SRRE + I V VNG ++ V+ D + Sbjct: 242 IEYKETHIDPNEPIRLNKYLANAGVCSRREADEFILAGVVTVNGNVVTELGTKVLRADEV 301 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ ++ + L + T+ ++ + R+ VGRLD NT G Sbjct: 302 KFHDQPVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMDLVKDVCPERIYPVGRLDRNTTG 361 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P +VY V V +D L + GI ++ Sbjct: 362 VLLLTNDGDLASKLTHPKFLKKKVYHVHLDKNVTEDDLQKIASGIELEDGEIH-ADAIEY 420 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + GKNR ++++FE ++V RL R+ + L G R ++++ Sbjct: 421 ADERDKKQVGIEIHSGKNRIVRRIFESLGYRVLRLDRVQFAGLTKKNLRRGDWRFLTEQE 480 Query: 241 LR 242 + Sbjct: 481 VD 482 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 58/243 (23%), Positives = 110/243 (45%), Gaps = 19/243 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPL 67 + P R++K +A++G+ SRRE + +I + V + G + A ++ + +D G L Sbjct: 8 DGAEPVRLNKWLAQSGVCSRREADTLIEEGCVAIAGETVRDAGRKILPGQTVTLDRGETL 67 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN----------LPSIFSRVISVGRLDIN 117 + + + + P S++ +GRLD + Sbjct: 68 PM----TVIYNKPIGIVSGQPEPGETPAVRMIRRANVFGPADVYPDQTSKLAPIGRLDKD 123 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLL+L+ DG LA+ + P ++ + Y V+ GQ+ + KL L+ G+ + G ++ Sbjct: 124 SHGLLVLSEDGVLAKAVIGPDSELDKAYHVQVRGQIIEAKLAWLRHGLELDGRKLKPAEI 183 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T + +T L+EG+ R+I+++ + +V L R GP QLG L G R ++ Sbjct: 184 T----QTGPQSLTFVLKEGRKRQIRRMCDMVELRVTDLYRDRIGPLQLGDLPEGQWRFMT 239 Query: 238 KKI 240 Sbjct: 240 PDE 242 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 60/244 (24%), Positives = 100/244 (40%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------- 64 R+SK+++ G+ SRRE + I + V+V+G+++ I ++ Sbjct: 2 EKVRISKLMSERGLCSRREADSYIERGWVRVDGVVVSELGARAFPDQAITLERAAAARQT 61 Query: 65 --------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y + L+ S G + GRLDI Sbjct: 62 ARVTILLHKPVGYVSGQAEKGYTPAVALIDARSRHAGDRAPLRFERGQLQGLAVAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 +++GLL+LT DG +A+ L ++ + Y VR G++ + L LL G+ + G Q Sbjct: 122 DSQGLLVLTQDGRIAKKLIGEDSEVDKEYLVRVQGRLSEAGLALLNHGLSLDGKPLRPAQ 181 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 V + LREGK R+I+++ E +V L R+ G LG L G R + Sbjct: 182 VRWQNADQ----LRFVLREGKKRQIRRMCELVGLRVVGLKRVRIGRVSLGDLPVGQWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RADE 241 >gi|297538780|ref|YP_003674549.1| pseudouridine synthase [Methylotenera sp. 301] gi|297258127|gb|ADI29972.1| pseudouridine synthase [Methylotenera sp. 301] Length = 245 Score = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 48/228 (21%), Positives = 92/228 (40%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 + ++I G +R+ +I Q V VNG + + V G E++ Sbjct: 11 LERIICNQGFGARKLCRILILNQEVTVNGEICDDPDAVFDTENLQYTVKGEAWDYREKSY 70 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ + + P + V +GRLD +T GL+L+++DG + Sbjct: 71 LMLHKPSNYECSHKTQHHPTIYSLLPHPLVVRDVQCIGRLDEDTTGLILISDDGQFIHRM 130 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VY V + +++ + KG+ + L + + + + L Sbjct: 131 SSPKHKVPKVYEVTCKHPMSDEQIAHILKGVQLVDEDAPIA--ALACTRITQNIIHMTLA 188 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L RI G +L L G R +++ L Sbjct: 189 EGKYHQVKRMVAAISNRVEGLKRIQIGEVKLPDDLAVGEWRWLTESEL 236 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 73/250 (29%), Positives = 118/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q +K+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTCYSRREADELIKQGLIKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+ A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGDILVDSCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQAFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAEGNYRPLNQKELQ 231 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 76/245 (31%), Positives = 120/245 (48%), Gaps = 9/245 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRK-- 69 R++K ++ AG+ SRR+ + IA +V+VNG ++ V TD IEV+G L Sbjct: 45 GTRLNKALSGAGVCSRRQADTFIAGGKVRVNGEVVTEMGRRVFPATDRIEVEGRLLACGE 104 Query: 70 ---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLL 124 R + +KP+ +V+T DP GR+T+ D LP V VGRLD +EGLLLL Sbjct: 105 ALNRHRHTYVMLNKPVQVVSTVRDPQGRTTILDILPDDLKTVRLYPVGRLDFFSEGLLLL 164 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQK 183 T+DG L L P + YRV + L ++ G+ + +G ++ + + Sbjct: 165 TDDGDLTHRLTHPKWHLPKYYRVLVREDIPPAALTAMRSGMTLAEGDRVAPVEAYIIDRS 224 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L +G NR+I+++ V RL+RI GP +LG L GS R + ++ Sbjct: 225 EYGVELEMVLHQGINRQIRRMCRDLGLTVLRLLRIQQGPVELGNLSRGSCRRLEDHEVKA 284 Query: 244 QLGPH 248 Sbjct: 285 LRKAA 289 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 74/250 (29%), Positives = 118/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIANA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >gi|307578345|gb|ADN62314.1| RNA-binding S4 domain-containing protein [Xylella fastidiosa subsp. fastidiosa GB514] Length = 519 Score = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 82/351 (23%), Positives = 142/351 (40%), Gaps = 12/351 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS++ R Y VR ++ + L +G++++ + Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLEDGTAKFDTIERIGNTD 205 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ K + Sbjct: 206 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPKTQVEA 265 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LE+ + + D+ N+ S++ + Sbjct: 266 LRTQLKLEKDMPLALTLQPVIGQRRSAKATLHVNRNDNNKHAYHNNHSTADESRELRRFD 325 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK-RSLRRTSAK 353 + + ++ ++ + P RSL S Sbjct: 326 TLRDDRGRGQGKHHFKDRLTVSGEAAAKQAHKPFKQYKPKNDRSLSEGSPA 376 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 53/205 (25%), Positives = 94/205 (45%), Gaps = 3/205 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R+ K++A G SR+EV++++ VK++GI ++ A V+V + + G + E Sbjct: 1 MRLDKLLANMGYGSRKEVKKLLKDGVVKIDGISVKDAKVHVNVEEQEVMIHGEVVEYKEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + T D L VGRLDI+TEG LL+TNDG L+ Sbjct: 61 VYLMMHKPQGVISATEDDNHETVIDLLELEDAIFNPFPVGRLDIDTEGFLLITNDGKLSH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 L P + Y G V ++ + KG+++ +T+ + + + + Sbjct: 121 QLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGALTIL-KSDDISEIEL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLI 216 + EGK ++K++FE K + L Sbjct: 180 VITEGKFHQVKRMFEAVGEKSSLLK 204 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 63/244 (25%), Positives = 103/244 (42%), Gaps = 19/244 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------- 64 R+SK++++ G+ SRRE + I + V V+G + + + V T I++ Sbjct: 2 EKIRLSKLMSQKGLCSRREADDYIERGWVFVDGERISQLGIKVFPTQEIKLARMAQAQQC 61 Query: 65 --------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y I L+ S+ P + GRLDI Sbjct: 62 DQITVLLHKPVGYVSGQPERGYKPAISLINRESEFQDSKASSSFSPLNLKGMAPAGRLDI 121 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 ++ GLL+ T DG +AR L ++ + Y VR G+V Q LNLL G+ + G Sbjct: 122 DSSGLLVFTQDGRIARKLIGAESEIEKEYLVRAEGEVSQRTLNLLSHGLSLDGQALKRA- 180 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + L+EG+ R+I+++ E KV L R+ G +LG L G R + Sbjct: 181 ---VVVQQNKDQLRFILKEGRKRQIRRMCELVGLKVTGLKRVRIGKVRLGELPLGKWRYL 237 Query: 237 SKKI 240 Sbjct: 238 RPGE 241 >gi|332362872|gb|EGJ40665.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK49] Length = 241 Score = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 104/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+T+ + + S + +V Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTPQDKIAFQEGIRFLDGTVCQPAQLTIFSSRSSLSRASV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 180 RISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQEEL 230 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 41/229 (17%), Positives = 81/229 (35%), Gaps = 5/229 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + +++ G +R+ +I V +NG++++ V +TD + R E Sbjct: 6 LDRILQSQGFGTRKYCRGLIEDGEVSINGVVVDNFKTAVDTTDLEFTIFDEVWRYREHVY 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + + VGRLD +T G+LL+++DG Sbjct: 66 IVLNKPANFECSRKPSHHPGVLTLLPEQFTWRDLQPVGRLDHDTTGMLLMSDDGPFIHAQ 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++Y H V + + L G+ + T + + + L Sbjct: 126 SSPKRHIPKIYVATTHDPVTPELIAQLLGGVQLHDEPAPLAAQTCRML--AEHQIEIVLE 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 +GK ++K++ + L R G L L G + + L Sbjct: 184 QGKYHQVKRMLAAAGNHCSALNRAEIGELTLESLGLEEGEWTYLDAEQL 232 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 74/250 (29%), Positives = 118/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 49/225 (21%), Positives = 90/225 (40%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++ + N + D +V G + E Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGAVSIDSQTCDHPKQNFSTEDLSFQVFGEQYQYREHIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ + + I V VGRLD +T GLLLLT+DG + L Sbjct: 63 IVLHKPQGYECSHQATHHRSVFSLLPEILIHRGVQCVGRLDQDTTGLLLLTDDGQYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V ++ L+ G+ ++ + D + S + + + Sbjct: 123 THPKKHVPKVYCVSTADPVTTEQKQQLELGVELRNE--KGIYAATDIKLISERQLEMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G ++K++ KV RL R G +L L G ++ + Sbjct: 181 QGVYHQVKRMIAAVGNKVERLHRQQIGLLELPNLEEGHWDYLTLE 225 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 74/250 (29%), Positives = 118/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 76/246 (30%), Positives = 118/246 (47%), Gaps = 1/246 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEV 62 ++ + R+ K +A AG+ASRR E MIA RV V+G ++ R V I V Sbjct: 447 RDTYTDVENGIRLQKALAAAGVASRRASEEMIAAGRVSVDGQVVRRFGARVDPESSEIRV 506 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG+ + A + +KP G+V+T DP+GR T+ D R+ VGRLD TEGL+ Sbjct: 507 DGMRVVTAPDKLYFALNKPRGVVSTMWDPEGRPTLADYTGQTEERIFHVGRLDTETEGLI 566 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG LA L P + ++ Y + G V + ++KG+ ++ + Sbjct: 567 LLTNDGELANRLTHPRYKVVKTYIAKVPGPVPHRVVREVQKGVELEDGPVEVDSFRVVDN 626 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + A V + L EG+ ++++ E V L R GP L L G+ R ++ + + Sbjct: 627 EPPKALVEIRLHEGRKHIVRRLMEAVGHPVADLARTQVGPIDLNALKLGTMRALTSREVS 686 Query: 243 EQLGPH 248 E Sbjct: 687 ELYEAA 692 >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 = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 74/250 (29%), Positives = 118/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIA-LLSDEVQFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 143 bits (360), Expect = 5e-32, Method: Composition-based stats. Identities = 47/226 (20%), Positives = 91/226 (40%), Gaps = 3/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G ++ + V G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVVSDLKKQFAPENFEFSVFGQNYQYREKIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + H I V +VGRLD +T GLLLLT+DG + L Sbjct: 63 IALRKPQGFECSHHPQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V + V +++ +L +G+ + + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTYDPVTPEQIEMLIQGVNLHQEKGVFAATDVALLE--THQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G ++K++ KV +L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEDGDWVYLSEQE 226 >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 = 143 bits (360), Expect = 5e-32, Method: Composition-based stats. Identities = 80/276 (28%), Positives = 117/276 (42%), Gaps = 10/276 (3%) Query: 26 ASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE-----RTRLWLYH 79 RRE+E +I RV V+G + + V V I +DG + E L Y Sbjct: 1 GPRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYK 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 L T + + +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-GTLLAGSTREVS---KKILREQLGPHLLEEAQV 255 E+++++E +V+RLIR+ YG L L G E+ LRE + ++V Sbjct: 181 EVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRELVELPPETSSKV 240 Query: 256 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 ++ + R R ++ Sbjct: 241 AVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 276 >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 = 143 bits (360), Expect = 5e-32, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTNLKRIQFGDFTLNPDLAEGNYHPLNQKELQ 231 >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 = 143 bits (360), Expect = 5e-32, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 100/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + Sbjct: 1 MRLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVREFSRVALDGEILQAGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATVDTQHPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + I Q+TL + + + Sbjct: 121 LTQPKTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV RL R + G L L G R + + Sbjct: 177 TIVEGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALAPGGYRALHAAEI 227 >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 = 143 bits (359), Expect = 5e-32, Method: Composition-based stats. Identities = 58/241 (24%), Positives = 97/241 (40%), Gaps = 19/241 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-------STDHIEVDGVP 66 R+ K++A G +R EV++++ + + V S + V Sbjct: 1 MRLDKLLAHTGYGTRTEVKKLLKSK------EVKVDGVVVKDAKVKVDLSKQCVTVFDEV 54 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + E L + L T + + V GRLD +TEGL+LLTN Sbjct: 55 VEYREFVYLMMNKPQDCLSATRDQRYRTVIDLLDDYYLMFDVAPAGRLDRDTEGLVLLTN 114 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-----YGDMQVTLDT 181 DG LA + P + Y G++ +KLN L+ G+ I +V + Sbjct: 115 DGKLAHEIISPKKDVYKRYVAHVTGELTDEKLNQLETGVEILDGTGEVFSTKPAKVKILQ 174 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + V + + EGK ++K++F KV L R++ G +L L G RE++ + Sbjct: 175 KNDEWTEVEICITEGKFHQVKRMFASVGGKVIYLKRLAIGGLELDESLELGEYRELTDEE 234 Query: 241 L 241 L Sbjct: 235 L 235 >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 = 143 bits (359), Expect = 5e-32, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 93/232 (40%), Gaps = 8/232 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P R+ K I+ R + + I ++ KVNG ++ V +D + L Sbjct: 4 PCRLDKFISHLTELPRTKTKAGIKRKYAKVNGTVITSFDYQVTESDVVLWQDKQLEVLGD 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + SD ++ + + S++ GRLD++T GL+L+TNDG + Sbjct: 64 RYFMLNKPEGYV-CATSDELHQTVLELLDEPVMSKLHIAGRLDLDTTGLVLITNDGEWSH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVT 190 + P Q + Y V + D L L+ G+ + G V L + V Sbjct: 123 KVTSPKYQKYKTYLVETLEPMTDDALQELRDGVQLHGEKGLTQPAIVELL----AEYSVR 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++K++F KV L R L L G R ++ + + Sbjct: 179 ISICEGKYHQVKRMFAAVGNKVEVLHREKIAGITLDQDLAPGQYRLLTAEEI 230 >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 = 143 bits (359), Expect = 5e-32, Method: Composition-based stats. Identities = 58/234 (24%), Positives = 95/234 (40%), Gaps = 13/234 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-----EVDGVPLR 68 ++ K IA G SR+EV R+ + R+ NG + + D + DG PL Sbjct: 1 MKLLKYIANLGYGSRKEVARIFREGRIT-NGE-----GEVLYADDQVQHIAVRFDGEPLD 54 Query: 69 KAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + L+ + +T + + +VGRLD +T GLLLLT+D Sbjct: 55 PPPGLMVMLHKPSDYICSTKDAGRLVYDLLPPRFRLRSPLLSTVGRLDGDTSGLLLLTDD 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + P T +VY + D+ L G ++ +Q + G Sbjct: 115 GALLHRMISPKTHLPKVYEATLVQALRGDEATLFASGTLLLDGDTKPLQPAVLEVLGP-C 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L EG+ +++++F +VN L R + G L L G R + + L Sbjct: 174 QVRLTLYEGRYHQVRRMFGATGNRVNTLHRSAIGGLVLDGLPEGQWRVLEAQDL 227 >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 = 143 bits (359), Expect = 5e-32, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 109/245 (44%), Gaps = 4/245 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + R+ K+++RAGIASRR E++I + RV+V+G L+ V + VDGV Sbjct: 10 MDRGAGAVRLQKILSRAGIASRRAAEKLIIEGRVEVDGQLVRELGTRVDPDVSVVRVDGV 69 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLL 122 + + +KP G+ +T SD GR V D + VGRLD +TEGL+ Sbjct: 70 KVVVDDSLVYLALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFHVGRLDADTEGLI 129 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG LA L PS + + Y G V + L G+ + + Sbjct: 130 LLTNDGELAHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDGPAHVDDFAVVDA 189 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + L EG+ R ++++ + V L+R G LG G R + + +R Sbjct: 190 IPGKTLVRLTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPGCLRALLRDEIR 249 Query: 243 EQLGP 247 + Sbjct: 250 QLYKE 254 >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 = 143 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 99/233 (42%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ R I V VNG + A+ V + + ++G PL Sbjct: 1 MRLDKFLCKSTDLDRDAASVAIINGSVTVNGTIATDCAMQVHENNAVCLNGKPLAPRPS- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP + ++ D S + VGRLD +T GL+LLT+DG + Sbjct: 60 RYFMLHKPADTLCSNVDGAYPSLFHLLDIEHAFDLHIVGRLDADTTGLVLLTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG----IVIQGICYGDMQVTLDTQKGSNAWV 189 + P Q +VYRV+ +D + + + +QG + TL Q+ V Sbjct: 120 IISPQYQCEKVYRVQLRDPLDSEATAAIATTFAAGLQLQGETALTLPATL--QQVDEKTV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EGK ++K++F KV L R G L + G RE++ + Sbjct: 178 LLTLTEGKFHQVKRMFAAVGNKVIALHRAQIGAVVL-DVDIGEWRELTLAEID 229 >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 = 143 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 68/242 (28%), Positives = 117/242 (48%), Gaps = 17/242 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K IA SRRE ++ I V+VNG + + A ++ D + V G P+ ++ Sbjct: 1 MRLNKYIAHHSSYSRREADKAIQDGYVRVNGEIQDNPATDIYEGVDVVYVSGKPVTPRDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +Y+KP G + T SDP R T++D LP + + VGRLD +EGLLLLT+ +A Sbjct: 61 YTVIVYNKPKGELVTKSDPKERKTIYDTLPKEYKHYVPVGRLDYASEGLLLLTDASKVAS 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L R+Y+++ G+V + + G+++ + Sbjct: 121 ALMES--NLERIYKIKIKGEVTSEMEAAMLNGMMLDDATAGGHSHSKVTSMEFKPFIGYK 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + + + V L EGKNRE+++ F F + L R+S+ +L L G R +S+ Sbjct: 179 IQKNEPNYSILKVALSEGKNRELRRFFAHFGTDIVDLKRVSFAEIELNNLPTGKVRFLSR 238 Query: 239 KI 240 Sbjct: 239 SE 240 >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 = 143 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 74/255 (29%), Positives = 122/255 (47%), Gaps = 20/255 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N +V + D + ++G L K + Sbjct: 1 MRINKFISHNSKYSRREADELIKQGLVKINKKTA-LLNDSVNAEDKVFINGKKLHKKTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++ LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYHTLPKQFSTWLSVGRLDFASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G +D++ + ++ G+ IQ + + Sbjct: 120 LMHSD--LEREYYLKVKGNIDKNVIEAMQNGLEIQNEKKGAHAKTKITSMSFAPFLGFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 178 FGSSGGYTKLKVIINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKYRYLENG 237 Query: 240 I---LREQLGPHLLE 251 LR+ L + ++ Sbjct: 238 EYEKLRDFLKTNNIK 252 >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 = 143 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ + SR+ +++ + + + V+G A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKV-SRKAMKQALLRGEILVDGCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMNLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTICKPARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L G+ +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSIGVKVTNLKRIQFGDFTLNPDLAEGNYHPLNQKELQ 231 >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 = 143 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 112/241 (46%), Gaps = 1/241 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ K ++ + P R++K +A AG+ SRRE + I V VNG+++ V +D + Sbjct: 183 MEYKEVLADPNEPIRLNKFLANAGLCSRREADEFITAGVVSVNGVVVTELGTKVKRSDEV 242 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P++ + + L + T+ + ++ + + R+ VGRLD NT G Sbjct: 243 KFHDQPVKIERKVYVLLNKPKDCVTTSDDPQERKTVLDLVKDACTERIYPVGRLDRNTTG 302 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P ++Y V V + L+ + GI + Sbjct: 303 VLLLTNDGDLASKLTHPKYLKKKIYHVFLDKNVTKADLDQIASGITLDDGEIH-ADAISY 361 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + GKNR ++++FE ++V +L R+ + L G R ++++ Sbjct: 362 ASDTDKSQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVYFAGLTKKGLRRGDWRYLTERE 421 Query: 241 L 241 + Sbjct: 422 V 422 >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 = 143 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 71/245 (28%), Positives = 109/245 (44%), Gaps = 4/245 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + R+ K+++RAGIASRR E++I + RV+V+G L+ V + VDGV Sbjct: 9 MDRGAGAVRLQKILSRAGIASRRAAEKLIIEGRVEVDGQLVRELGTRVDPDVSVVRVDGV 68 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLL 122 + + +KP G+ +T SD GR V D + VGRLD +TEGL+ Sbjct: 69 KVVVDDSLVYLALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFHVGRLDADTEGLI 128 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 LLTNDG LA L PS + + Y G V + L G+ + + Sbjct: 129 LLTNDGELAHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDGPAHVDDFAVVDA 188 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + L EG+ R ++++ + V L+R G LG G R + + +R Sbjct: 189 IPGKTLVRLTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPGCLRALLRDEIR 248 Query: 243 EQLGP 247 + Sbjct: 249 QLYKE 253 >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 = 142 bits (358), Expect = 6e-32, Method: Composition-based stats. Identities = 68/247 (27%), Positives = 105/247 (42%), Gaps = 11/247 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 RV K+IA++G+ SRR+ E+MI++ V VNG + D I+V+G + Sbjct: 2 PELVRVQKLIAQSGLMSRRDAEKMISKGLVFVNG-IKSSIGDKASMNDEIKVNGKIINLT 60 Query: 71 ERT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + T L + T+ + + +L + R++ VGRLD NT G+LLLT D Sbjct: 61 KNTVFKYYLLNKPKNTITTSKDPKGRHTVI--DLINTSERIVPVGRLDRNTTGVLLLTTD 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 L L P + RVYR R + + L GI I G + Sbjct: 119 YELVNKLTHPKYEIERVYRARIDSPLTLKEFRELNAGIEIDGKM-----SYQIVDQVDTK 173 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L G +KK+FE V L R+SY + L G RE++ K ++ Sbjct: 174 SYLISLHVGSYHHVKKLFEKIGHSVLTLKRVSYANLTVDKLPEGMYRELTIKEVKNLKLL 233 Query: 248 HLLEEAQ 254 +E + Sbjct: 234 VEQQEKK 240 >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 = 142 bits (358), Expect = 6e-32, Method: Composition-based stats. Identities = 65/245 (26%), Positives = 100/245 (40%), Gaps = 20/245 (8%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---------- 60 P R+SK +A G+ SRRE + I + V+VNG V D I Sbjct: 4 QEPLRLSKRMAELGLCSRREADAYIERGWVRVNGQTA-VLGQKVSPADRIDLAREAHETQ 62 Query: 61 -----EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + P+ Y + L T + +G + P + GRLD Sbjct: 63 ARRVTVLLNKPVGYVSGQPEKGYRAAVELFTPENRWEGDQSRIPFDPRHLRGLAPAGRLD 122 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 I++ GLL+LT DG A+ L + Y VR G++ ++ L LL G+ + G Sbjct: 123 IDSVGLLVLTQDGRTAKQLVGADGGSEKEYLVRVRGRLKENGLALLNHGLSLDGEPLRPA 182 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V + + LR+GK R+I+++ E V L RI G +LG L G R Sbjct: 183 KVEWQNRDQ----LRFVLRQGKKRQIRRMCELVGLTVVGLKRIRIGRVKLGALPPGKWRY 238 Query: 236 VSKKI 240 ++ Sbjct: 239 LASDE 243 >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 = 142 bits (358), Expect = 6e-32, Method: Composition-based stats. Identities = 52/238 (21%), Positives = 107/238 (44%), Gaps = 4/238 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + E R+ +++A +R+++++++A++++ V+ + ++ + N+ I++ Sbjct: 4 ISEKEPSMRLDQLMANHQY-TRKDIKQLLARRQILVDHLPAQKLSQNIDPGLQQIQIGER 62 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +++ L+ + + + + +GRLD +T GLLLLT Sbjct: 63 IIQEPRHHYYMLHKPIGAVTAKRDAHHPTVIDLVDPQQEYPDLYPLGRLDRDTSGLLLLT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKG 184 ++G L L P +VY V +G + + + GI +T+ Sbjct: 123 DNGPLGFQLLHPQYHVEKVYEVEVNGPLYAAHIEQFQNGISFTDGPICKPASLTILESTP 182 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 S + V + EGK ++KK+F KV L R+S+GPF L L G +R +++ L Sbjct: 183 SYSKAQVRISEGKYHQVKKMFLAIGVKVMTLKRLSFGPFTLDPQLAPGESRPLNEVEL 240 >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 = 142 bits (358), Expect = 6e-32, Method: Composition-based stats. Identities = 64/243 (26%), Positives = 106/243 (43%), Gaps = 8/243 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ K++++AGIASRR E +I + VK+N + D I V+G + + ++ Sbjct: 2 ERIQKLLSQAGIASRRSSEELIKKGLVKINDKVALV-GQKASFNDKITVNGKEILQEKKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + D + +L R+ VGRLD +T G+LLLTNDG L+ Sbjct: 61 YYILNKPAKYVCTNKDNFDRKKV--IDLLPNDVRIFPVGRLDYDTTGVLLLTNDGELSNK 118 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L PS + LR YR R + + LN L K +I G + ++ N V L Sbjct: 119 LIHPSFKILRKYRARLDEPLSRQDLNELNKDQIINGKL-----SSQSVEQLDNKTYLVSL 173 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G +K++F V L R+ + + + G R ++ K ++ Sbjct: 174 HQGTYHHVKELFSKVGRLVINLKRVEFAGLGVEKIPVGEFRSLTMKEIKSLHNLVKEVRK 233 Query: 254 QVN 256 Sbjct: 234 NEK 236 >gi|324018876|gb|EGB88095.1| hypothetical protein HMPREF9542_02380 [Escherichia coli MS 117-3] Length = 277 Score = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 80/274 (29%), Positives = 117/274 (42%), Gaps = 10/274 (3%) Query: 28 RREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE-----RTRLWLYHKP 81 RRE+E +I RV V+G + + V V I +DG + E L Y Sbjct: 4 RREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPE 63 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 L T + + +R I+VGRLD+NT GLLL T DG LA L PS + Sbjct: 64 GELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREV 123 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 R Y VR GQVD KL L +G+ ++ + +G N W V L EG+NRE+ Sbjct: 124 EREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREV 183 Query: 202 KKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILREQLGPHLLEEAQVNL 257 ++++E +V+RLIR+ YG L L G E+ LRE + ++V + Sbjct: 184 RRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRELVELPPETSSKVAV 243 Query: 258 DAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 + + R R ++ Sbjct: 244 EKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 277 >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 = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 54/235 (22%), Positives = 102/235 (43%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ ++ E I V VN + + V ++ I ++G PL+ E Sbjct: 1 MRLDKYLCKSTDLTKPEAIERIHNGEVNVNSETVTDESTQVHESNTILLNGTPLKLREFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++ + + + + + I+ GRLD +T GL+L+T+DG + Sbjct: 61 YLLMHKPAGTICSNVDEVYPSLFKYIEIDKASELHIA-GRLDADTTGLVLITDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + LP+ +VYRV + D + K G+ +QG ++ + T K V + Sbjct: 120 ITLPTKSCKKVYRVTLSRDIKDDVADKFKAGVKLQGEQNLTRPAELEVITSK----EVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R G +L + AG R ++K + Sbjct: 176 TITEGKFHQVKRMFAAVGNRVVGLHREQIGDVRL-DVEAGQWRYLTKAEVDSFQQ 229 >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 = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 71/255 (27%), Positives = 115/255 (45%), Gaps = 21/255 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +AR+G ASRR E +IA RV V+G + V + + + VDG ++ R Sbjct: 11 RLQVYLARSGCASRRACEALIASGRVTVDGQTVTTQGRTVCAQNVVCVDGTVVQLERVQR 70 Query: 75 LWLYHKPIGLVTT-----------------HSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 L +KP+G + + S + + P+ R+ +GRLD+ Sbjct: 71 YVLLYKPVGYICSLAPQFPAGYAHTQVRAGPSKQEYARAIDLVQPAYQERLYHIGRLDVR 130 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EG LL TNDG A+ L P + + Y V V L+ +G+ ++G Y ++ Sbjct: 131 SEGALLFTNDGSFAQALGHPRSGIEKEYIVETREPVPAALLSSFVRGVWVEGCRYRCVRA 190 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + L EGK REI+ VFE + V RL+R+ G +LG L G+ R + Sbjct: 191 RHLAAQ----CVQLVLVEGKKREIRVVFEAWGQDVVRLVRVRIGRVRLGPLRPGAFRTMR 246 Query: 238 KKILREQLGPHLLEE 252 + + + L Sbjct: 247 LQEVAQLLQCAGCAR 261 >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 = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 80/274 (29%), Positives = 117/274 (42%), Gaps = 10/274 (3%) Query: 28 RREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE-----RTRLWLYHKP 81 RRE+E +I RV V+G + + V V I +DG + E L Y Sbjct: 1 RREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPE 60 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 L T + + +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-GTLLAGSTREVS---KKILREQLGPHLLEEAQVNL 257 ++++E +V+RLIR+ YG L L G E+ LRE + ++V + Sbjct: 181 RRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRELVELPPETSSKVAV 240 Query: 258 DAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 + + R R ++ Sbjct: 241 EKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNG 274 >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 = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 65/313 (20%), Positives = 124/313 (39%), Gaps = 19/313 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + PQR++K + ++G+ SRRE E ++ Q + ++G+ + + + + + Sbjct: 8 DGEEPQRINKWLGQSGVCSRREAEGLVEQGLISIDGVKVTEPGRKIEKGETLTLADAATD 67 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN-----------LPSIFSRVISVGRLDIN 117 K + +KPI V+ H + V +P +R+ VGRLD + Sbjct: 68 KLASAMSVILNKPIDYVSAHPNEGEVPAVRLLTKANLSGQSETIPDRDTRLAPVGRLDKD 127 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + GLL+LT DG L + + P + Y V +G + +K+ L G+ + G V Sbjct: 128 SRGLLILTEDGVLTKAVIGPDADSEKEYLVTVNGTITHEKIRRLCHGLRMDGRALKPAIV 187 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 T + + + L EG+NR+I+++ E V L RI G +G L G R ++ Sbjct: 188 THEGGQ----VLRFILTEGRNRQIRRMAELVQLHVVDLFRIRIGHVHIGELPEGKWRTMT 243 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT---RMKKNSSQKNG 294 R+ L + + D + + + + + K Sbjct: 244 THE-RDGLIDKSKADKSLKPDPISSTFVPPEKPEKPVRRQGTSAKKLDPYRNADGYSKRN 302 Query: 295 LSKQKKLATPVHR 307 + + P + Sbjct: 303 YKAKSRPKYPGTK 315 >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 = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 54/231 (23%), Positives = 105/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ SR++ +I+ R++V+G + +V +E+D L+ Sbjct: 1 MRLDRFLSNFPRFSRQDSRLLISAGRLRVDGETVRDPRFDVRDFQRVELDDELLQAGRSA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R W+ HKP+G+V+ + + R+ + + GRLD+NT GLLL+TNDG +R Sbjct: 61 RYWMLHKPVGVVSATAHDEHRTVLDLLDEPDRHDLHLAGRLDLNTSGLLLITNDGRWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + +VY V + + + ++ + + ++ L + + Sbjct: 121 ITQPQQRKPKVYHVSTEQPITAEYAEVFERGLYFAFEDLTTLPARLELL----GSHSARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 L EG+ ++K++F F +V L R S G L L G R ++ + Sbjct: 177 TLFEGRYHQVKRMFGHFRNRVVALHRESMGEIVLDPQLAPGQYRALTAAEI 227 >gi|325193088|emb|CCA27453.1| RNA pseudouridine synthase putative [Albugo laibachii Nc14] Length = 285 Score = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 96/250 (38%), Positives = 138/250 (55%), Gaps = 10/250 (4%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 NI R+SK IA AGI SRR+ E+ I +V +NG +L ++ D + VD Sbjct: 28 NIESSTDQKMRISKWIAMAGICSRRQAEKKILSNQVVLNGNVLRDVGQSINPKVDRVTVD 87 Query: 64 GVPL-------RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--FSRVISVGRL 114 G+ L + + +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|239501492|ref|ZP_04660802.1| hypothetical protein AbauAB_04211 [Acinetobacter baumannii AB900] Length = 234 Score = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 47/226 (20%), Positives = 90/226 (39%), Gaps = 3/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G ++ + V G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVVGDLKKQFSPENFEFSVFGQNYQYREKIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + H I V +VGRLD +T GLLLLT+DG + L Sbjct: 63 IALRKPQGFECSHHPQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V + V +++ +L +G+ + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGVFAATDVALL--GTHQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G ++K++ KV +L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEEGGWVYLSEQE 226 >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 = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 84/350 (24%), Positives = 145/350 (41%), Gaps = 12/350 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA VKVNG + + ++ S D +E+DG Sbjct: 29 ERLHKVLAQAGLGSRRALEQRIADGLVKVNGEVAQV-GQSIRSGDRVELDGKAFVASALT 87 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + +R I++GRLDINT GLLLLT DG Sbjct: 88 EPARVLVYNKPEGEVTTREDPEGRPTIFESLPRLKGARWIAIGRLDINTTGLLLLTTDGE 147 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 +A + PS + R Y VR Q+ ++ L +G+ ++ Q+ Sbjct: 148 IANAMMHPSYEVEREYVVRVRAPEGQESVPDNIVDRLARGVALEDGPAKFDQIERIGGTD 207 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R+ YG L LL G ++E+ + E Sbjct: 208 SHDWFKVVVKEGRNREVRRLWESQGCQVSRLKRVRYGKVSLPRELLRGQSQEL-PQEQVE 266 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 L L E + R + + +++ G ++ Sbjct: 267 ALRKELKLEDSAASTLTLQPVIGQRRATKTAVRVGQGGQAYVNGHNTADEGRELRRFDHV 326 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 RR G+ S + Q ++ ++ + L + Sbjct: 327 REDRRGGRGGKKPHGGLTVSGEMAAKQSQKPFKQRAQKGGLKPLPDGNPA 376 >gi|167894879|ref|ZP_02482281.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 7894] Length = 307 Score = 142 bits (358), Expect = 7e-32, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 59 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 118 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 119 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 178 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 179 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 238 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 239 VPLKPAMVSWQNGEQ----LCFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 294 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 295 QGEWRYLGPDE 305 >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 = 142 bits (358), Expect = 8e-32, Method: Composition-based stats. Identities = 62/269 (23%), Positives = 96/269 (35%), Gaps = 48/269 (17%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------- 64 R++K +A G+ SRRE + + VKVNG + V D IEVD Sbjct: 37 RLNKRMAELGLCSRREADAWVENGWVKVNGRVA-EMGQQVSPADRIEVDPQAQNQQATQV 95 Query: 65 -----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 P+ + + LV + + GRLDI++ Sbjct: 96 TILLHKPIGYVSGQAEDGHEPAVVLVQAQNRWREDRAPHRFNGGQLRGLAPAGRLDIDST 155 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVR----------------------------FHG 151 GLL+LT DG +AR L ++ + Y VR Sbjct: 156 GLLVLTQDGRVARQLIGEDSEIEKEYLVRVVYLGTPAAASAPTELQPIHANDPVSANVQA 215 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 L L+ G+ + G +V + + + L+EGK R+I+++ E K Sbjct: 216 VFPPAMLAKLRHGLSLDGQALKPARVDWENTEQ----LRFVLKEGKKRQIRRMCELVGLK 271 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V L R+ G LG L G R ++ Sbjct: 272 VVGLKRVRIGRVMLGQLPQGQWRYLAPHE 300 >gi|315059155|gb|ADT73484.1| Putative ribosomal pseudouridine synthase [Campylobacter jejuni subsp. jejuni S3] Length = 253 Score = 142 bits (358), Expect = 8e-32, Method: Composition-based stats. Identities = 69/248 (27%), Positives = 111/248 (44%), Gaps = 16/248 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------------CYGDMQVTLDT 181 L + +V+ + + + + + Sbjct: 120 LMHSDLEREYYLKVKGTVSKQVIEAMQNGLEVKNEKKGAHAKTKITSMSFAPFIDFEIFG 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI- 240 G + V + EGKNRE+++ F F+ +V L R+++G LG L AG R + Sbjct: 180 SSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKAGKHRYLENGEY 239 Query: 241 --LREQLG 246 LR+ L Sbjct: 240 EKLRDFLK 247 >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 = 142 bits (358), Expect = 8e-32, Method: Composition-based stats. Identities = 133/327 (40%), Positives = 182/327 (55%), Gaps = 11/327 (3%) 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 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV--NLDAPIYSSETLVRDR 271 RLIRIS+GPF LG L G EV +L++QLGP L V + T R + Sbjct: 181 RLIRISFGPFMLGDLEPGQVEEVKTSVLKDQLGPRLARSLGVRREVVREEKRLSTPSRGK 240 Query: 272 PNIISEVPDDFTRMKKNSSQKNGLSK----QKKLATP-----VHRRNLASNVWMAKGIHS 322 P + + R ++ + + + P + ++ Sbjct: 241 PTYLRRKEAEPERPRRAFEEPQMRRRRVLSEDASEAPIVELVPVPKPPRADRGERGEKRD 300 Query: 323 SFLSDSGQREENHRRSPSFPSKRSLRR 349 D G+R + R + +RS R Sbjct: 301 FAPRDRGERSFDRPRDDAGGERRSFGR 327 Score = 40.5 bits (93), Expect = 0.41, Method: Composition-based stats. Identities = 13/118 (11%), Positives = 23/118 (19%), Gaps = 1/118 (0%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G R + + E F R + Sbjct: 567 GERRSFRPRE-GGGERKSFGPRDGADRPPFRKREGDRTDRPSRAAGEDRPRFRRSEDGGD 625 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 G + R+ ++ S +RE R+P +R Sbjct: 626 SARGPRPDRAPGDRPAYRSRSNEGGAGGERKSFDKPFRERREGAGDRAPQREGERQAS 683 >gi|332363998|gb|EGJ41777.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK355] Length = 241 Score = 142 bits (358), Expect = 8e-32, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 102/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+ + + NV ++ I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDDKPACKLSQNVDTSLQQITFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDEEVEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + + ++GI Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTPKDKSSFQEGIRFLDGTTCQPAQLSILSTSSSLSCATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 180 KISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPELATGDYRPLNQEEL 230 >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 = 142 bits (358), Expect = 8e-32, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 104/233 (44%), Gaps = 4/233 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A + SR+EV +I ++ V VNG +++ V D + VDG + + Sbjct: 1 MRIDKYLANMNVGSRKEVHNLIKKKIVTVNGEVVKTPKEQVKEEDQVAVDGEKVAYQQYH 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + T + + VGRLD +T GLLLLTNDG LA Sbjct: 61 YFLLNKPKGVISATEDRSQKTVLSLLKPKDRYKDIAPVGRLDKDTTGLLLLTNDGALAHE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKG--SNAWVT 190 L P+ + YR + G D++ + + G+ + G ++ + Q + + Sbjct: 121 LLAPNKHVTKKYRAKIAGVADEETVKIFASGMTLGDGTKLKPARLKILMQDKESDESEIE 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + ++EGK +IK++F KV L RIS L +L G +E+ K ++ Sbjct: 181 IEIQEGKYHQIKRMFGAVGMKVIELDRISMEKLVLPTSLKRGEYKEIRLKEIK 233 >gi|330889469|gb|EGH22130.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. mori str. 301020] Length = 230 Score = 142 bits (358), Expect = 8e-32, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 100/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G V + +DG L+ + Sbjct: 1 MRLDRFLSNLPSLNRKSVRLALASGRVQVDGQTTSDPHHEVRDFSRVALDGEILQAGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATVDTQHPTVLDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + I Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAATFAAGMYFSFENITTQPAQLTLLRPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV RL R + G L L G R + + Sbjct: 177 TIVEGRYHQVKRMFGHFNNKVLRLHRENIGALALDPALAPGGYRALHAAEI 227 >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 = 142 bits (357), Expect = 8e-32, Method: Composition-based stats. Identities = 98/251 (39%), Positives = 143/251 (56%), Gaps = 13/251 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---VPLRK 69 +++ KV+ARAG+ SRRE+E I RV++ G + DH+E+DG + + Sbjct: 11 GEKLQKVLARAGLGSRREMEAAIQAGRVRIEGRTAK-LGDRARPRDHVELDGRTVQRVHR 69 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R+ LY+KP G VTT SDP+GRSTVF+ LP R I+VGRLDIN++GLLL TNDG Sbjct: 70 EPPRRVLLYNKPEGEVTTRSDPEGRSTVFERLPRTPGRWIAVGRLDINSQGLLLFTNDGE 129 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-----VTLDTQKG 184 LA L PST R Y R HG+V ++ ++ L G+ ++ + Q+G Sbjct: 130 LANALMHPSTGVEREYACRIHGEVTEEMVHRLVDGVELEDGPAHFEVVESGMPVDEPQEG 189 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK---KI 240 +NAW V + EG+ RE+++++E V+RLIR+ YGP + L G RE+ + + Sbjct: 190 TNAWYHVIVTEGRRREVRRLWESQGVTVSRLIRVRYGPMVMPRDLRRGQLRELDEAGKRE 249 Query: 241 LREQLGPHLLE 251 L E +G E Sbjct: 250 LYEHVGLTPPE 260 >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 = 142 bits (357), Expect = 8e-32, Method: Composition-based stats. Identities = 62/242 (25%), Positives = 99/242 (40%), Gaps = 20/242 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--------- 64 R+SK +A G+ SRRE + I++ V VNG+ V D IE++ Sbjct: 1 MRLSKRMAELGLCSRREADEYISRGLVSVNGVPA-VLGQKVTERDRIEMNRVAERDQSRR 59 Query: 65 ------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 PL Y L+ + G + ++ GRLD+N+ Sbjct: 60 VTILLHKPLGYVSGQAEDGYRPARVLIRPENCWSGDKSPLRFDLRQLQNLVPAGRLDVNS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+LT DG +AR L + + Y VR G + + L LL G+ + G +V Sbjct: 120 TGLLVLTQDGRVARRLVGEDSAVEKEYLVRVAGSLSERGLALLNHGLSLDGEELLPARVR 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + L++GK R+I+++ +V L R+ G +LG L G R + Sbjct: 180 WQNDDQ----LRFVLQQGKKRQIRRMCALVGLEVLALKRVRVGSVRLGALPPGQWRYLLP 235 Query: 239 KI 240 + Sbjct: 236 EE 237 >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 = 142 bits (357), Expect = 8e-32, Method: Composition-based stats. Identities = 48/225 (21%), Positives = 90/225 (40%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++ + N + D +V G + E Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGAVSIDSQTCDNPKQNFSTEDLSFQVFGEQYQYREYVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ + + + V VGRLD +T GLLLLT+DG + L Sbjct: 63 IVLHKPQGYECSHQATHHRSVFSLLPEILVHRGVQCVGRLDQDTTGLLLLTDDGQYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V ++ L+ G+ ++ + D + S + + + Sbjct: 123 THPKKHVPKVYCVSTADPVTTEQKQQLELGVELRNE--KGIYAATDIKLISERQLAMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G ++K++ KV RL R G +L L G ++ + Sbjct: 181 QGVYHQVKRMIAAVGNKVERLHRQQIGLLELPNLEEGHWDYLTPQ 225 >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 = 142 bits (357), Expect = 8e-32, Method: Composition-based stats. Identities = 66/229 (28%), Positives = 105/229 (45%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 ++ K IA G SRR+ E +I Q +VKVN V D IE++G L + E Sbjct: 1 MKIQKRIAHLGYCSRRQAEALILQNKVKVNSSFAT-IGQIVSDQDIIEINGKILVEKENE 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + + + V +L SRV VGRLD NT G+L+LTNDG L + Sbjct: 60 KEYYLLHKPPKTISSTKDEKNRQVVTDLVKSKSRVYPVGRLDYNTTGVLILTNDGDLTQK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P Q R+Y + +++ +L L + + + V L Sbjct: 120 LLHPKYQIKRLYHCKLDIPLEEKELIYLNEEKIYIDKKL----SIHKVLQVEKKSYLVEL 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G +KK+FE N KV +L R+++GP + L G R+++ K ++ Sbjct: 176 HQGSYHHVKKIFEKVNRKVVKLKRLAFGPITIDNLPEGYFRKLTFKEIK 224 >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 = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 69/230 (30%), Positives = 123/230 (53%), Gaps = 2/230 (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 KVYILLNKPRGYISSVKDDRGRKTLLDIVKVN-ERVYPIGRLDYNTSGAIILTNDGEVYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++Y G +++ + GI I G + + ++ V + Sbjct: 122 NIAHPGSNKSKIYIAAIKGIPSSEEIKRFENGIDIGGYITAKAKFDFISSNKESSKVKIE 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++K+ + V L+RI+ G +LG L G+ R +++K ++ Sbjct: 182 IHEGKNRQVRKMCDAIGHPVITLMRIAIGDIKLGNLKEGAWRYLTEKEIQ 231 >gi|166712399|ref|ZP_02243606.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 553 Score = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 86/360 (23%), Positives = 136/360 (37%), Gaps = 24/360 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGTVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQDKVDA 266 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV----------PDDFTRMKKNSS 290 LR +L + + L I D R + Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVTRDGRSNAYVNGHTSGADEGRELRRFD 326 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + P + A S + R + R+ Sbjct: 327 NLREDRGRGGRGKPGDFMGGLTVSGEAAARQSQQRPFKQRGPAKGDRGALPEGNPAAFRS 386 >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 = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 105/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+ A N+ + + G ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGDILVDSCPARSLAQNIDTGLQELLFQGRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + F ++ +VGRLD +T GLLL+T++G L Sbjct: 60 TYLMLHKPAGVVTANKDKKLPTVMDFLPPDIQSDKLYAVGRLDRDTTGLLLVTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVEVNGLLTPDHIQTFQKGIVFLDGTVCKAARLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++KK+F KV L R +GP+ L L AG R ++ + L Sbjct: 180 TISEGKFHQVKKMFLSVGVKVTSLKRTHFGPWSLDDNLQAGDYRPLNSEEL 230 >gi|295111666|emb|CBL28416.1| pseudouridine synthase family [Synergistetes bacterium SGP1] Length = 244 Score = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 62/233 (26%), Positives = 99/233 (42%), Gaps = 1/233 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 R++ +A G+ASRR E +I RV+V ++ V D + DG L+ Sbjct: 2 EVRGTRLNAFLAACGVASRRRAEEVIRAGRVRVGDRIVLAPFFQVDPEVDEVTCDGRTLK 61 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E + + + D RV GRLD +EGLL+LTNDG Sbjct: 62 ATEPVYVVMNKPGGVVCAVSDKYDPVVVDLLPEAVKSRRVYPAGRLDRESEGLLILTNDG 121 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + PS + Y + +++ +L + G I+G + VTL ++ W Sbjct: 122 ALTQEVMHPSKGLHKEYEALLNVPINERQLARWRGGFEIEGRRAVPISVTLMDREPEGRW 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V+V + EG RE++ + + V RL+R G L L G ++S L Sbjct: 182 VSVVIGEGLKREVRVMANLAGFSVERLVRRRLGKMVLEKLRPGEFVDLSFSEL 234 >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 = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 47/226 (20%), Positives = 90/226 (39%), Gaps = 3/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G ++ + V G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVIIDGEVVSDLKKQFSPENFEFSVFGQNYQYREKIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + H I V +VGRLD +T GLLLLT+DG + L Sbjct: 63 IALRKPQGFECSHHPQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V + V +++ +L +G+ + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGVFAATDVALL--GTHQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G ++K++ KV +L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEEGGWVYLSEQE 226 >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 = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 52/202 (25%), Positives = 92/202 (45%), Gaps = 8/202 (3%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 +NG + V D + ++G + K E+ +HKP+G+ T +D + + Sbjct: 3 INGEICTH-GTRVRDGDIVTINGQVIEKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYI 61 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + R+ VGRLD +EGL+LLTNDG +A + + + Y V ++ Sbjct: 62 --NYPERIFPVGRLDKASEGLILLTNDGTIANQILHGDHEHEKEYVVTVDKPFTDWFIDE 119 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + G+ I+ +VT + V L +G NR+I+++ F + V +L R+ Sbjct: 120 MSGGVKIKDGMTKPCKVTRI----DQSTFRVVLTQGMNRQIRRMSRAFGFTVTKLKRVRI 175 Query: 221 GPFQLGTLLAGSTREVSKKILR 242 +L L AG R+++ K L Sbjct: 176 MNIELNELEAGKWRDITPKELE 197 >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 = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 46/226 (20%), Positives = 89/226 (39%), Gaps = 3/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G ++ + V G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVIIDGEVVSDLKKQFSPENFEFSVFGQNYQYREKIY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + I V +VGRLD +T GLLLLT+DG + L Sbjct: 63 IALRKPQGFECSHQPQHHQSVFSLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V + V +++ +L +G+ + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGVFAATDVALL--GTHQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G ++K++ KV +L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEEGGWVYLSEQE 226 >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 = 142 bits (357), Expect = 9e-32, Method: Composition-based stats. Identities = 64/242 (26%), Positives = 108/242 (44%), Gaps = 10/242 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + R++K++A G SRRE R I Q VKVNG++ A V TD +E+ Sbjct: 1 MNKLGVSIRLNKLLAHQGWCSRREANRFIEQGLVKVNGVVSRDA--RVAPTDTVELLPQA 58 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD-----NLPSIFSRVISVGRLDINTEGL 121 + + + L HKP+G V++ + D P + GRLDIN+ GL Sbjct: 59 VTVQAQQKTILVHKPVGYVSSQPETDSIPQEQASSRRLFHPRTQLGWATAGRLDINSTGL 118 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGIC--YGDMQVT 178 L+LT G +A+ L P + + Y VR D+ + ++ G++ Sbjct: 119 LVLTQSGRVAKTLIGPDVRVDKEYLVRVRPSPFFDRNQSTAAVLERLRDGIRDAGELLHA 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + ++ + + L EGK+R I+++ +V+ L R+ G LG L G R ++ Sbjct: 179 VSVERVNTDQLRFVLHEGKHRHIRRMCRAVGLEVDGLKRVRIGEIVLGNLPVGQWRYLAP 238 Query: 239 KI 240 Sbjct: 239 HE 240 >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 = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 96/284 (33%), Positives = 160/284 (56%), Gaps = 8/284 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVP 66 P R+SK +A+ + SRRE E+MI + V+G ++ + V S + I+V +G Sbjct: 32 QSEPMRLSKYLAQTSVCSRREAEKMIESGMILVDGKKVDS-NIPVTSENKIQVFTKNGER 90 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLL 123 + + T++W+++KPIG++ +H+DP R + +D +ISVGRLD N+EGL++ Sbjct: 91 MPVKQSTKVWIFYKPIGMICSHNDPFKRPSFYDFAKLRLKTDQHIISVGRLDFNSEGLIV 150 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +TNDG LAR +ELP T+ R+YRVR +G ++KL ++ G+ I G+ YG V ++ ++ Sbjct: 151 VTNDGELARCMELPETKLQRIYRVRVYGTFTEEKLKKIRNGLTIAGVNYGPYWVNVENRQ 210 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK-ILR 242 N W+ + L GKNREI+KV + F+ +VNRLIR SYGP++L L G E + ++ Sbjct: 211 SRNTWLIMRLESGKNREIRKVMQKFDLRVNRLIRQSYGPYKLMGLKPGDFYEAQIEPEIK 270 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 +L ++ Q + L + S+ + + Sbjct: 271 RKLYLQARKKLQNVQEQIQLEQTKLNIKALDEQSKNEKQIEKQE 314 >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 = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 51/232 (21%), Positives = 80/232 (34%), Gaps = 6/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +++R G SRRE I + + G V + I +DG P+ + Sbjct: 1 MRLDALLSRYGYCSRREAPGWIKRHSITFKGKPCSSPTDKVQAEG-ILLDGEPVEFPDGL 59 Query: 74 RLWLYHKPIGLVTTHSDPDG--RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 LY + + V SVGRLD T GLLLLT+DG Sbjct: 60 YAALYKPEGYTCSHDDGEGNLIYDLLPFQWRHRNPAVSSVGRLDKETSGLLLLTDDGKFI 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P +VY + + + L G + L + + + Sbjct: 120 HRMTSPRHHVAKVYEAVTEEDIPTEAVELFASGTLTLNGETRPCAPALLEIREPRRAL-L 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 L EGK +++++ V L R+S G L L G + L Sbjct: 179 TLTEGKYHQVRRMLAAVGAPVLSLCRVSIGSLHLDSLNLKPGEWAPIRPDAL 230 >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 = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 69/250 (27%), Positives = 114/250 (45%), Gaps = 10/250 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ K+++ G SRR +E MI V +NG + + + + I + G + Sbjct: 2 SEKIQKILSHLGYGSRRNIENMIKFGDVSINGKKI-VIGQRLNNKNIEVITIKGETVSIK 60 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + T + R IS+GRLDINT GLLL TN Sbjct: 61 KTDFKTKIIIYNKPEGEICTRNDYKKRPIVFDKLPLLNIHRWISIGRLDINTRGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKG 184 +G LA L PS + R Y +R G+++++ +N+LK G+ I+ +Q Sbjct: 121 NGNLANELMHPSNKIEREYYIRVFGKINKNTMNILKNGVKIKDGYAAFKSIQTIDHACSK 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 N W L EG+NREI+ +++ +V+RLIRI YG L L G E+S + + Sbjct: 181 KNKWFKGVLCEGRNREIRSMWQAVQCQVSRLIRIRYGNIFLPKNLKLGDWSELSSESVNN 240 Query: 244 QLGPHLLEEA 253 L+++ Sbjct: 241 LSNLVSLKDS 250 >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 = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 78/235 (33%), Positives = 131/235 (55%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N R++K++A SRRE+E +I+ Q++K+N ++ A V D I ++G + Sbjct: 2 NHAKIRIAKLLASYNYGSRREIENLISNQKIKLNNKIILTPATFVNEEDKITINGKKVLF 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + +KP ++ + + D R +++ L S + I GRLD +EGL++LTND Sbjct: 62 KKKISILKLYKPKNVICSKNKQDKREIIYEILDSKYKNFIFAGRLDFKSEGLIILTNDSS 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L R LELP ++ R Y VR G + +KL + +G I GI Y + ++ N + Sbjct: 122 LTRNLELPKNKFERKYEVRIFGDFNVEKLKIKSRGTKINGIQYKPFDFKIKSKIKKNTLI 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L+EGK EI+ +F+ N +VN+L R+SYGPF+L +L G ++ SK L + Sbjct: 182 EMNLKEGKKNEIRNIFKELNLQVNKLKRVSYGPFKLDNMLPGDLKKPSKIELEKY 236 >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 = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 68/278 (24%), Positives = 111/278 (39%), Gaps = 8/278 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGV 65 + ++ T R+ K +A AGI SRR E +IA V VNG + D I V G Sbjct: 1 MSDHATT-RLQKFLADAGICSRRAAETLIADGEVWVNGQPAT-LGQKITPDVDKITVRGK 58 Query: 66 PLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLL 122 +R + L ++ + + + + + R GRLD ++EGLL Sbjct: 59 NVRTVAQPKLTLAMHKPRGLVCSNDDPHNPETVFDLLPREMARHRFFCAGRLDKDSEGLL 118 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LT DG LA L PST ++ Y V +L L +G+ I+G L Sbjct: 119 ILTTDGDLANRLMHPSTVVVKRYHVVLAEPFPAKRLGALLRGVTIEGERLKVEYAALVNP 178 Query: 183 KGSN--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V L GK REI+++F ++V RL R G F L + + + ++ + Sbjct: 179 NAAELSTSLDVHLHHGKKREIRQLFMALGFEVRRLRRYQIGAFPLRGIPVRAMKLLTPRE 238 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 + ++ A + V + S Sbjct: 239 IATLFAQPGIQPAATTRRYGRPQARNAVSQKKLQSSRQ 276 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 98/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR+EV R+ + R+ N G +L A +V T + DG PL Sbjct: 1 MKLLKYIANLGYGSRKEVARIFREGRIT-NDEGEVLY-ADDHVQHTA-VRFDGEPLDPPP 57 Query: 72 RTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L+ + +T + + +VGRLD +T GLLLLT+DG L Sbjct: 58 GLMVMLHKPSGYICSTKDAGRLVYDLLPARFRLRSPLLSTVGRLDGDTSGLLLLTDDGAL 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|291001465|ref|XP_002683299.1| predicted protein [Naegleria gruberi] gi|284096928|gb|EFC50555.1| predicted protein [Naegleria gruberi] Length = 362 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 98/279 (35%), Positives = 150/279 (53%), Gaps = 12/279 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA-- 70 +RVSK +AR G+ S+++ +I +VKVNGIL+ + + D + V GV + K Sbjct: 83 ERVSKFLARVGVCSKQQGVDLIKAGQVKVNGILITESGQKMNPFYDVVTVKGVNITKKDV 142 Query: 71 ----ERTRLWLYHKPIGLVTTHSDP--DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 E +L+ YHKP G++ + D + + 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 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 +W+ V L EGKNREI+K+F+ N V+R++RI YGP++L + G + + L+E+ Sbjct: 263 KTSWIKVILHEGKNREIRKIFQQLNLPVSRIMRIQYGPYKLENIQKGQIKVL---ELKEE 319 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 + + + E ++ + + Sbjct: 320 FKQKCSNIYKTAVRSKEKELERDFKNNRAGNPKSNNSKR 358 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 47/225 (20%), Positives = 88/225 (39%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V V+G + + + + G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSVDGEVADDLKKQFSPENLEFSLFGETYQYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + I V ++GRLD +T GLLLLT+DG + L Sbjct: 63 LALKKPKGFECSHQPHHHQSVFSLLPEIMIQRGVQAIGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V +++ +L +G+ + + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTIDPVTPEQIEMLSQGVSLHQEKGIFAATDVAILE--MHQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G ++K++ KV L R G L L G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPELEDGEWVYLSEE 225 >gi|325122669|gb|ADY82192.1| 16S rRNA synthase [Acinetobacter calcoaceticus PHEA-2] Length = 234 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 46/225 (20%), Positives = 87/225 (38%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G + + + G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGYVSIDGEVADDLKKQFSSENLEFSLFGETYQYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + I V ++GRLD +T GLLLLT+DG + L Sbjct: 63 LALKKPKGFECSHQPHHHQSVFSLLPEIMIQRGVQAIGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V +++ +L +G+ + + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTIDPVTPEQIEMLSQGVSLHQEKGLFAATDVAILE--THQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G ++K++ KV L R G L L G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPELEDGEWVYLSEQ 225 >gi|327473408|gb|EGF18828.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK408] Length = 241 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 101/231 (43%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I + Sbjct: 1 MRLGQLLA-ANHISRKKMKQSLLQKQIFVDGKPACKLSQNVDTGLQQITFQSKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGSVTANRDAEKLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + + ++GI Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTPKDKSSFQEGIRFLDGTTCQPAQLSILSTNSSLSCATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK +IKK+F KV L RI +G F L L G R +++K L Sbjct: 180 KISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLATGDYRPLNQKEL 230 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 69/230 (30%), Positives = 123/230 (53%), Gaps = 2/230 (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 KVYILLNKPRGYISSVKDDRGRKTLLDIVKVN-ERVYPIGRLDYNTSGAIILTNDGEVYN 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++Y G +++ + GI I G + + ++ V + Sbjct: 128 NIAHPGSNKSKIYIAAIKGIPSSEEIKRFENGIDIGGYITAKAKFDFISSNKESSKVKIE 187 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EGKNR+++K+ + V L+RI+ G +LG L G+ R +++K ++ Sbjct: 188 IHEGKNRQVRKMCDAIGHPVITLMRIAIGDIKLGNLKEGAWRYLTEKEIQ 237 >gi|330937693|gb|EGH41591.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. pisi str. 1704B] Length = 230 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V +A RV+V+G V + +D L+ + Sbjct: 1 MRLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVGEFSCVALDEEILQAGKVP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENLTTQPAQLTLLGPQSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV RL R + G L L GS R ++ + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRETIGALALDPDLCPGSYRALNAGEI 227 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSLLQKQILVDGKPACKLSQNVDTGLQQITFQGKQVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 HYYMLNKPAGAVTANRDAEKLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+T+ + S + +V Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTPQDKIAFQEGIRFLDGTVCQPAQLTIFSSCFSLSRASV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F K+ L RI +G F L L G R ++++ L Sbjct: 180 RISEGKFHQIKKMFLVVGVKIIYLKRIQFGNFTLDPDLATGDCRPLNQEELE 231 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 46/226 (20%), Positives = 89/226 (39%), Gaps = 3/226 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V + G ++ + + G R E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIEGEIVTDLKKQFSPENLEFSLFGETYRYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + + I V ++GRLD +T GLLLLT+DG + L Sbjct: 63 LALKKPQGFECSHNPQHHQSVFSLLPEIMIQRGVQAIGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V +++ +L +G+ + + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTIDSVTPEQIEMLTQGVNLHQEKDVFAATDVALL--GSHQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +G ++K++ KV +L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEEGDWVYLSEQE 226 >gi|153002415|ref|YP_001368096.1| pseudouridine synthase [Shewanella baltica OS185] gi|151367033|gb|ABS10033.1| pseudouridine synthase [Shewanella baltica OS185] Length = 233 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 96/232 (41%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ R I V VNG++ A+ V + + +G L Sbjct: 1 MRLDKFLCKSTDLDRDAASVAILSGSVTVNGVIATDCAMQVHENNAVCFNGKSLVPRPS- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP + ++ D S + VGRLD +T GL+LLT+DG + Sbjct: 60 RYFMLHKPADTLCSNVDGAYPSLFHLLDIERAFDLHIVGRLDADTTGLVLLTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG----IVIQGICYGDMQVTLDTQKGSNAWV 189 + P Q +VYRV+ +D + + + +QG + TL V Sbjct: 120 IISPQYQCKKVYRVQLRDPLDSEATAAIAATFTAGLQLQGETALTLPATLQQVDDK--TV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGK ++K++F KV L R G L + G RE++ + Sbjct: 178 LLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAVTL-DVDVGEWRELTLAEI 228 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 75/253 (29%), Positives = 106/253 (41%), Gaps = 6/253 (2%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K + AG A SRR+ E +I RV VNG ++ V D + V G Sbjct: 5 DGIRLQKYLVLAGAAPSRRKAEDLIRAGRVSVNGAVV-GLGARVYPGDEVRVGGRRAELP 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ER + HKP G TT G TV++ LP + VGRLD ++EGLLL TNDG L Sbjct: 64 ERRVVLALHKPKGYETTRQSRSGAPTVYELLPD-LPGLHPVGRLDRDSEGLLLFTNDGAL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + L P +VYRV L + ++ + + G Sbjct: 123 TQRLTHPRYGVKKVYRVWSRKGTPPPDLLRKLERGLVLKSGVRVQALKARPKDGGAV--- 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L EGK RE++ + + V RL+R+ GP +LG G+ RE+S L+ Sbjct: 180 ITLTEGKKREVRYMMAAIGYPVERLVRVKMGPIRLGGQKPGTWRELSASELKALDRAAFG 239 Query: 251 EEAQVNLDAPIYS 263 E Sbjct: 240 PEEDEAKPRSAKR 252 >gi|170720236|ref|YP_001747924.1| pseudouridine synthase [Pseudomonas putida W619] gi|169758239|gb|ACA71555.1| pseudouridine synthase [Pseudomonas putida W619] Length = 233 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 106/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A +R++V ++ Q+RV+V+G + V IEVD L+ Sbjct: 1 MRLDRFLANLPSYNRQQVRLLLVQRRVRVDGETVADPRAEVREFSRIEVDDQLLQAGRPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP+G V+ D R+ + + + + GRLD NT GL++LTNDG +R Sbjct: 61 RYLMLHKPVGCVSATHDSQHRTVLDLLPEPLRADLHIAGRLDYNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+T+ + Y V ++ + + + + Q+ + + Sbjct: 121 LTQPATKLPKHYLVETEDEIGAHYIEKFRAGFYFAFEDLTTLPAQLDIL----GPRTARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +F+ KV L R + G QL L G R ++ + Sbjct: 177 AIIEGRYHQVKRMFGYFDNKVVGLHRETMGAIQLDPGLAPGEFRALTAAEI 227 >gi|119897119|ref|YP_932332.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119669532|emb|CAL93445.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 500 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 65/247 (26%), Positives = 107/247 (43%), Gaps = 18/247 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 E + R+SKV+A GI SRRE + +I + V V+G + + + + + Sbjct: 257 EAPSGVRLSKVMADRGICSRREADELIERGWVFVDGRRVSELGTRIDPDARVVLAPEAKK 316 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRS--------------TVFDNLPSIFSRVISVGRL 114 + L HKP+G V+ +P PS + GRL Sbjct: 317 AQAQRVTILLHKPVGYVSGQPEPGYEPAVTLIGGDNQFDRDVAQRFHPSQLKGLAPAGRL 376 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 DI++ GLL+LT DG +AR L ++ + Y VR G++ D L LL G+ + Sbjct: 377 DIDSTGLLVLTQDGRIARQLIGDDSKVEKEYLVRVEGELVDDGLALLNHGLSLDDKPLRP 436 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 +V + + L+EG+ R+I+++ E +V L R+ G +LG L G R Sbjct: 437 AKVEWINEDQ----LRFVLKEGRKRQIRRMCELVGLRVVGLKRVRIGRVKLGDLPLGEWR 492 Query: 235 EVSKKIL 241 + + Sbjct: 493 YLRDDEV 499 Score = 42.5 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 9/106 (8%), Positives = 19/106 (17%), Gaps = 2/106 (1%) Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 EE + + R + + Sbjct: 58 EEGRAPRSGARGGQASRGERPRQDAEPRRQPRARPAQEGEAPRRSRRDPGDGGTERHPRR 117 Query: 311 ASNVWMAKGIHSSFLSDSGQREENHRR--SPSFPSKRSLRRTSAKK 354 + + + R RR P+ R R ++ Sbjct: 118 DAGASEERPRRREAADERQARPGYGRRDDGPARAGARPAREQGRER 163 Score = 38.2 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 8/113 (7%), Positives = 23/113 (20%), Gaps = 2/113 (1%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + + R + R ++ ++ Sbjct: 38 DPAQSVAAGSDKRARPSSAGEEGRAPRSGARGGQASRGERPRQDAEPRRQPRARPAQEGE 97 Query: 303 TPVHRRNLASNVWMAKGIHSSFLS--DSGQREENHRRSPSFPSKRSLRRTSAK 353 P R + + + + +R E + P A+ Sbjct: 98 APRRSRRDPGDGGTERHPRRDAGASEERPRRREAADERQARPGYGRRDDGPAR 150 Score = 36.3 bits (82), Expect = 6.5, Method: Composition-based stats. Identities = 9/109 (8%), Positives = 17/109 (15%), Gaps = 3/109 (2%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 N S D + S K R Sbjct: 5 RKNPPQPAPSRIAGTLKLRKPAADDNGESAAGADPAQSVAAGSDKRARPSSAGEEGRAPR 64 Query: 308 ---RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R ++ + R +P + + + Sbjct: 65 SGARGGQASRGERPRQDAEPRRQPRARPAQEGEAPRRSRRDPGDGGTER 113 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 50/208 (24%), Positives = 102/208 (49%), Gaps = 1/208 (0%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 I+ V VNG ++ V TD + DG L ++ + L + TT+ + Sbjct: 2 YISAGNVTVNGEVMTTLGYRVKPTDEVRFDGKLLSSEKKEYILLNKPKGFITTTNDEKGR 61 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 ++ + + +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 EYKDFIAIEQGLELEDGFIQVDEISYVDQKPKN-EIGIKIHSGRNRIVRRIFEHLGYQVD 180 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKIL 241 +L R+ + L G R ++++ + Sbjct: 181 KLDRVVFAGLTKKDLPRGHWRRLTQQEV 208 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 108/231 (46%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A +R++ M+AQ+RV+V+G ++ V +E+D L+ Sbjct: 1 MRLDRFLANLPSHNRQQARLMLAQRRVRVDGQVVSDPLAEVREFSRVELDEQLLQAGRPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP G V+ DP + + ++ + GRLD NT GL++LTNDG +R Sbjct: 61 RYLMLHKPTGCVSATQDPQHPTVLDLLPAALRDDLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+T+ + Y V ++ + + ++ + + + + + + + Sbjct: 121 LTQPATKLPKHYLVDTEDEIGEHYVARFREGFYFAFENLTTQPALLDILGPRQA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FN KV L R S G L L G RE++ + Sbjct: 177 AIVEGRYHQVKRMFGHFNNKVVGLHRESMGAICLDPGLAPGEFRELTADEI 227 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 76/219 (34%), Positives = 110/219 (50%), Gaps = 7/219 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR---- 68 +++ KV+AR G+ SRRE+E I + RVKVN + V D I V+ +R Sbjct: 2 TEKLQKVLARVGLGSRREIETWIEEGRVKVN-QYIATLGARVSPHDEIRVNERRIRQSDL 60 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + L + + T H + + R IS+GRLD+NT GLLLLT Sbjct: 61 QTPSRQQILCYHKPIGEVCTRHDEEGRTTIFERLPSPKHGRWISIGRLDLNTAGLLLLTT 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS R Y VR G+VD D L L++GI ++ +V G+N Sbjct: 121 DGDLAHRLMHPSYDIEREYAVRILGEVDLDMLKRLREGIELEDGMAQFKRVFDAGGSGAN 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 W V L EG+ E+++++E V+RL+RI +GP L Sbjct: 181 HWYHVTLMEGRKHEVRRLWESQGVTVSRLMRIRFGPVSL 219 >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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 63/244 (25%), Positives = 110/244 (45%), Gaps = 13/244 (5%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-- 70 R++K IA +G SRRE +R+IA +RV VN L V D ++VDG PLR Sbjct: 15 STRLNKHIAESGFCSRREADRLIAARRVTVND-LPGGVGSVVGEGDEVKVDGQPLRARAK 73 Query: 71 ----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +KP+G+ T + R+ +GRLD ++EGL+L+T+ Sbjct: 74 HKGGRHHVYIALNKPVGVTCTTEREV--KGNIVDFVGHEQRIFPIGRLDKDSEGLILMTS 131 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 +G + + + + Y V + V + L + +G+ + + + G Sbjct: 132 NGDIVNEILRAENRHQKEYLVAVNKPVTDEFLRGIARGVRVHDQMTLPCRTARIAKFG-- 189 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + L +G NR+I+ + F+++V +L R+ +LG L G R ++++ LR L Sbjct: 190 --FRIVLEQGLNRQIRLMAAAFDYRVTQLRRVRIDNIKLGALKPGQWRNLTEQELRGLLP 247 Query: 247 PHLL 250 Sbjct: 248 QRQQ 251 >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 = 141 bits (355), Expect = 1e-31, Method: Composition-based stats. Identities = 51/230 (22%), Positives = 109/230 (47%), Gaps = 3/230 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 + ++I AG +R+ +R++ V V+G ++ + A V + I VD + + + Sbjct: 3 LGQLIMDAGQVTRKACKRLLKDGHVTVDGQVVTQFATVVDPSWQEIAVDQIVIDRHFGHT 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-VGRLDINTEGLLLLTNDGGLARV 133 +L HKP G ++ + D + + P+ ++ GRLD + GL+ +TN+G L + Sbjct: 63 YYLVHKPKGYLSANKDQTHPTVIDLIQPADNPGDLAITGRLDRDAHGLVFVTNNGQLHYI 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVG 192 + P + YR+ +G +D+ + + G++ Q ++ + + ++ V Sbjct: 123 FQQPKFDIPKTYRITVNGLIDKKMVAQFQAGVIFQDGTICKAARLEIISASPQSSTGLVT 182 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + EG+ ++KK+F KV L R G ++ L G R +++ ++ Sbjct: 183 ISEGRRHQVKKMFLACGVKVTDLYRQKIGDLRIDDLAVGDYRRLNEAEIQ 232 >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 = 141 bits (355), Expect = 1e-31, Method: Composition-based stats. Identities = 66/241 (27%), Positives = 108/241 (44%), Gaps = 5/241 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 +++V+++ G SR +I V+VNG + D +EV + +R A Sbjct: 15 LARVLSKLGYCSRARAFELIRADEVRVNGKVERNPERPTDPARDRVEVAHIAIRAARFLY 74 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + + T + + + LP V VGRLD +EGLLLLTND A + Sbjct: 75 YVVNKPRGLITTASDEKGRETI-YSLLPPDSPWVAPVGRLDKASEGLLLLTNDSEWAAKI 133 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P++ + Y V+ + + L +GI G +V++ G N W+ + L Sbjct: 134 TDPNSHLDKTYHVQVSTLPSEQMVEALSRGIRSDGELLLAKRVSILRAGGKNGWLEIVLE 193 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK---ILREQLGPHLLE 251 EGKNR+I+++ +V RLIR++ GP LG L G R ++ + L + L E Sbjct: 194 EGKNRQIRRMVAALQIEVLRLIRVAIGPLTLGELPKGGCRALTAEEKAELDDALRLVRGE 253 Query: 252 E 252 Sbjct: 254 H 254 >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 = 141 bits (355), Expect = 1e-31, Method: Composition-based stats. Identities = 52/234 (22%), Positives = 96/234 (41%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ +R ++A V VNG ++ A V + + G L Sbjct: 1 MRLDKFLCKSTKLTRSAATEVLALGEVSVNGSIVTEARFQVHENNSVLWRGERLIARPSR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ ++++ D D S + VGRLD +T GL+LLT+DG + Sbjct: 61 YIMLHKPL-NTLSSNVDGDYPSLFHCIDIERAEDLHIVGRLDADTSGLVLLTDDGRWSFE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + P + YRV + D G+ +Q + + + V + Sbjct: 120 IIRPDKLCPKTYRVTLRDPIAADVAEKFNVGVQLQNESKLTAPAMLKVINE----REVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + EG+ ++K++F +VN L R G QL ++ G+ R +S + + L Sbjct: 176 TITEGRYHQVKRMFAAVGNRVNGLHREQIGDLQL-DVVLGNWRFLSPQEVAGFL 228 >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 = 141 bits (355), Expect = 1e-31, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 110/232 (47%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V ++ Q+R++++G + V +E+D L+ + Sbjct: 1 MRIDRFLSNLPRFNRQQVRVLLVQRRIRIDGQPVSDPKAEVREFSRVELDDEVLQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP+G V+ DP+ ++ + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPMGCVSATRDPEHKTVLELIHEPDPQDLHIAGRLDYNTTGLMLITNDGNWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ ++Y V ++ + + + + Q+ + + + + Sbjct: 121 LTQPQTKLPKLYYVETEQEIGPEYVETFAHGLYFAFEDLTTLPAQLQILGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EG+ ++K++F FN KV RL R GP L L G R +S +R Sbjct: 177 SIVEGRYHQVKRMFGHFNNKVLRLHRERMGPLLLDERLAPGEYRALSDAEIR 228 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 52/235 (22%), Positives = 103/235 (43%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ ++ E I + VN ++ A V ++ + +DG L E Sbjct: 1 MRLDKFICKSTQLTKAEAIERIHAGDINVNSAVIINEATQVHESNTVIMDGKRLIAREFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + + + ++ +I I+ GRLD +T G++L+T++G + Sbjct: 61 YILIHKPAGTICSNIDEVYPSLFNYLDVDNIAELHIA-GRLDADTMGMVLITDNGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P+ + +VYRV + D K GI +QG +T+ + K V + Sbjct: 120 ITSPNQKCSKVYRVGLSRDITADVAEKFKAGIKLQGAQKLTAPALLTIISAK----EVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R + G L L G R ++K + + Sbjct: 176 TITEGKFHQVKRMFASVGNRVVSLHREAIGEVTL-DLEVGQWRYLTKDEVASFVK 229 >gi|167646666|ref|YP_001684329.1| pseudouridine synthase [Caulobacter sp. K31] gi|167349096|gb|ABZ71831.1| pseudouridine synthase [Caulobacter sp. K31] Length = 245 Score = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 47/229 (20%), Positives = 93/229 (40%), Gaps = 7/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEVDGVPLRKA 70 R+ +++A G SRR+V+ +++ +V ++G+ ++ A + T + + GVP+ Sbjct: 8 RLDRLLANLGYGSRRDVQALVSTGKVTLDGVAIKDAGQKIAVTADLPLRMRIRGVPVDPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSD-PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L ++ + + D + + SVGRLD +T GLLL+T+DG Sbjct: 68 APLVLLMHKPLGVVCSHREDGERIYDLLPKRWQIRDPALSSVGRLDKDTSGLLLITDDGD 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P +VYR ++ + G ++ + G Sbjct: 128 FLHRVISPKRHVPKVYRATLDRPLNGTEGAAFASGALMLEGEEKPLLPATLDVLGD-HEA 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + + EG+ +++++F V L R G L L G R ++ Sbjct: 187 RLTITEGRYHQVRRMFAAVGNHVVGLHRERIGGIDLPEDLAPGEHRILT 235 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 105/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+ I SR+ +++ + + + V+ A N+ + + ++ E Sbjct: 1 MRLDNLLAQEKI-SRKAMKQALLKGDILVDSCPARSLAQNIDTGLQELLFQDRIIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + ++ +VGRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPAGVVTANKDKELPTVMDLLPSDIQSDKLYAVGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y+V+ +G + D + +KGI + G ++ + + S + ++ Sbjct: 120 QLLHPQYHVDKTYQVQVNGLLTPDHIQAFQKGIVFLDGTVCKPAKLEILSASPSLSQASI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F L L + R +++K L+ Sbjct: 180 TISEGKFHQIKKMFLSVGVKVTSLKRIQFGDFTLNPDLAESNYRPLNQKELQ 231 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 69/230 (30%), Positives = 110/230 (47%), Gaps = 5/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 + KV+ A + SRR++ I Q V +NG E + V + D + +G P+ + R Sbjct: 11 LVKVLVEARLGSRRKMAEAIKQGLVTLNGQKAESYSQPVNTQQDKVTFEGKPVELSRIRR 70 Query: 75 -LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP +V+T SD GR TV D L + VGRLD T GLLLLTNDG L Sbjct: 71 IYLMLNKPPEIVSTTSDELGRKTVMDLLHRRYEGAGLFPVGRLDEATTGLLLLTNDGELT 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS Q + Y + + Q L+KG+++ +++ T + + Sbjct: 131 NRLTHPSYQIEKEYLISIDAALTQADKESLEKGMLLDDGLTSPARLSRVTDEPPYN-YKL 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK R ++++F +++ L R +LG L G TRE++ + Sbjct: 190 IIHEGKKRIVRRMFAHLGYQIKALKRSRIATLRLGKLEEGKTRELTPGEI 239 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 64/226 (28%), Positives = 106/226 (46%), Gaps = 7/226 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ K +++ R+ V M+AQ RV ++G+L AA + I VDGV L Sbjct: 91 RLDKHLSKQTGVPRKAVRLMLAQARVTIDGVLARDAAEVINPFSRIAVDGVGLPTNTPHY 150 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + T +LP + I VGRLDI + GL+LLTNDG +R L Sbjct: 151 IMLNKPSGVVCATRDARHRTVIDILDLPFQHTLHI-VGRLDIQSTGLVLLTNDGQWSRRL 209 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LP +++ + YRV + +++ + +G+ ++ L +N V Sbjct: 210 SLPQSKFAKHYRVTTEQAITSEQIAGFEAGIFFAYEGLTTRPARLHLINSHEAN----VT 265 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+ +I+++F + +V + R + GP+ L L G RE+S Sbjct: 266 LTEGRYHQIRRMFGRYGNRVLSIHRYATGPYVLSNLRPGQYREISP 311 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 49/232 (21%), Positives = 95/232 (40%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ SR E +I +V+VN +++ A V + I + G L Sbjct: 1 MRLDKFLCKSTDFSRAESIDLIEAGQVRVNELVIVTAQTQVHENNCIMLAGRRLVARPSR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ L + + + I GRLD +T GL+L+T+DG + Sbjct: 61 YIMLHKPIDTLCSNVDGDYPSVMNYIQVDRAEDLHI-TGRLDADTTGLVLITDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVD----QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P + YRV ++ + ++ ++G+ +QG + L+ V Sbjct: 120 IINPKYHCEKTYRVTLRDPIEDGDIDELVSRFEQGLQLQGEKKLTLAAKLEVITP--HQV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ ++K++F +V L R G L + G R ++ + Sbjct: 178 LLTLSEGRYHQVKRMFFTVGNRVVGLHRQQVGKLSL-DIELGEWRHLTADEV 228 >gi|217969527|ref|YP_002354761.1| pseudouridine synthase [Thauera sp. MZ1T] gi|217506854|gb|ACK53865.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 234 Score = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 63/235 (26%), Positives = 100/235 (42%), Gaps = 18/235 (7%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A G+ SRRE + I + V V+G + V V + + R ++ L H Sbjct: 1 MAERGLCSRREADEFIERGWVFVDGRRVSELGVRVGQDARVTLAPEATRTQQQRATILLH 60 Query: 80 KPIGLVTTHSDPDGRS--------------TVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 KP+G V+ +P PS + GRLDI++ GLL+LT Sbjct: 61 KPVGYVSGQPEPGYSPAVSLIGPDNQADRDVAQRFHPSHLKNLAPAGRLDIDSTGLLVLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG +AR L ++ + Y VR G + ++ L LL G+ + +V Sbjct: 121 QDGRIARQLIGEDSKVEKEYIVRVEGTLAENGLALLNHGLWLDDRPLRPAEVEWINDDQ- 179 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + LREG+ R+I+++ E KV L R+ G +LG L G R + + Sbjct: 180 ---LRFVLREGRKRQIRRMCELVGLKVVGLKRVRIGHVKLGDLPLGQWRFLREDE 231 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 57/245 (23%), Positives = 95/245 (38%), Gaps = 28/245 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------------G 64 ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 1 MSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQVTILLH 60 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ Y L+T + G + P + GRLDI++ GLL+L Sbjct: 61 KPVGYVSGQAEDGYEPATVLITRENHWSGDRSPLRFSPQHLRTLAPAGRLDIDSTGLLVL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQGICYGDM 175 T +G +A+ L + + Y VR + L L+ G+ + G+ Sbjct: 121 TQNGRIAKQLIGEQSDVDKEYLVRVRYGDMLTDIDRHFPAESLAKLRHGLELDGVALKPA 180 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 V+ + + LREG+ R+I+++ E V L R+ G LG L G R Sbjct: 181 MVSWQNGEQ----LRFVLREGRKRQIRRMCELVGLDVIGLKRVRMGRVMLGALPQGQWRY 236 Query: 236 VSKKI 240 +S Sbjct: 237 LSADE 241 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 54/235 (22%), Positives = 89/235 (37%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K +A G SR++V M + R+ +G +L A V I VDG L Sbjct: 1 MKLVKHLANLGYGSRKQVALMFREGRITDADGDVLY-ADDQV-PHAAIRVDGEVLDPPPG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L+ + + + +VGRLD +T GLLL+T+DG L Sbjct: 59 LILALHKPVGYTCSTKDPGRIVYDLLPSRFRLRSPLMSTVGRLDRDTSGLLLMTDDGALL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ ++Y + D+ G ++ + G V V Sbjct: 119 HRIVSPKSRLAKIYEATLAEDLRGDEAAQFASGTLLLDGETTPLLPVQLEVLGPRQ-VRV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+ +++++F V L R G L L AG R + L + Sbjct: 178 VLHEGRYHQVRRMFAAVGNHVLALHRSRIGGLALDALPAGQWRALEPMELAQVFE 232 >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 = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 59/243 (24%), Positives = 106/243 (43%), Gaps = 10/243 (4%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K++A SR +V+++ ++++ VNG L+ R+ V + D I V+G L Sbjct: 3 EIMRLDKLVASQFSDVSRADVKKLCLKKKISVNGKLMARSDAKVDTDDEIFVNGERLVYK 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + L + +T + + + GRLD +TEG +LLT+DG L Sbjct: 63 KHVYIMLNKPAGVVCSTKEGDSMTVLDLVPPELMRNGLFPAGRLDKDTEGFVLLTDDGEL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQKG 184 + + P T + Y VR + +++ G+ I + Q + Sbjct: 123 SHRMLSPKTHVPKTYFVRLEKPYQPEYADIMAAGMTIKGLDGGEDEKCLPAQFS--GSDE 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 ++ T+ L EGK ++K++F KV L R + G L G L +G E+ K + + Sbjct: 181 NDCECTLILHEGKFHQVKRMFAELGNKVVYLKRTAIGEMPLNGELASGKCLEILHKDVEK 240 Query: 244 QLG 246 L Sbjct: 241 LLA 243 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 65/239 (27%), Positives = 116/239 (48%), Gaps = 8/239 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +++ SR + ++A RV+VNG+ + + D +E+DG PL+ +E R Sbjct: 7 RLDRFLSQVLQVSRSGLRPVLAAGRVRVNGVPVRDRQQRIGPFDRVELDGQPLQ-SEAPR 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +KP G+V+ SD + + S + GRLD N+ GL+LLTNDG +R L Sbjct: 66 YLMVNKPAGVVSATSDDQHTTVMDLLPASQRQGLHLAGRLDFNSTGLVLLTNDGAWSRQL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV--IQGICYGDMQVTLDTQKGSNAWVTVG 192 P +Q + YRV + + + +G+ +GI ++ + + ++ W Sbjct: 126 SQPQSQVRKHYRVTVEQPLTEAYVAAFSEGMWFAFEGIKTRPAEIKIRSAYEADVW---- 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLL 250 L EG+ +IK++F F+ KV L R++ G L L G +R++ + G Sbjct: 182 LCEGRYHQIKRMFGRFDNKVLTLHRLAIGHLVLDESLAPGESRDLMPGEVAGIAGLSSR 240 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 50/233 (21%), Positives = 107/233 (45%), Gaps = 1/233 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N R+++ I+ +G+ SRR+ + I VKVNG ++ V TD ++ DGV + Sbjct: 59 SNPDEIRLNRYISNSGMCSRRDADIYIQSGNVKVNGEVITEMGYRVKLTDSVQFDGVNIT 118 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L + + + + ++ VGR+D T GLLL TND Sbjct: 119 PEKKEYILLNKPKNFSTAGDDSAGSANVLDLVRNATKANLMPVGRMDKTTTGLLLFTNDT 178 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + +P+ + +VY+V + + L ++KG+ I ++ Q + Sbjct: 179 EIVQKFTVPNQRSSKVYQVTLDKNLKFEDLEKIQKGLTIDDHKV-FVEEVTYIQDQPKSE 237 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + ++ + ++K+FE F + V ++ R+++ L G R ++++ + Sbjct: 238 IGIKMKTSNVKVVRKIFEHFKYDVLKVDRVTFAGLTKKNLPRGDWRFLTEQEI 290 >gi|227874423|ref|ZP_03992604.1| RluF protein [Oribacterium sinus F0268] gi|227839739|gb|EEJ50188.1| RluF protein [Oribacterium sinus F0268] Length = 240 Score = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 63/240 (26%), Positives = 112/240 (46%), Gaps = 13/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL------ 67 R++K ++ GI SRRE +R I++ ++ VNG + ++ + I +DG + Sbjct: 1 MRINKWLSAMGICSRREADRYISEGKLLVNGEKA-SLGMEILGKEEILLDGKLISGKGHK 59 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + L Y+KP G++ T + D V + + R+ +GRLD ++EGLLLLTN Sbjct: 60 KEKPKPVLLKYYKPRGIICTTGEKDRGKNVIEAIGY-KERIYPIGRLDKDSEGLLLLTNQ 118 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDM---QVTLDTQ 182 G L + S + Y V V ++ L + G+ + Q + Sbjct: 119 GDLVNQINKASGYKEKEYIVSVDKPVTKEFLQEMSSGVYLPELERTTRRAVLWQDPKLPK 178 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + + L EG NR+I+++ E ++V RL RI +LG + G E+ ++ L Sbjct: 179 EIQRRQFHIVLTEGLNRQIRRMCEALGYEVTRLKRIRVMNIELGKMKPGEYFEIKREELE 238 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 55/242 (22%), Positives = 101/242 (41%), Gaps = 7/242 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +V + +R+ K +++ SR+E +I + RV V+G AA+ + I +D Sbjct: 1 MVSDKVQKERLDKCVSKLTGLSRKEASALIKEGRVLVDGQAALEAALKIPVNSIITIDDD 60 Query: 66 PLRKAE----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + E + L + T + GRLDI+T GL Sbjct: 61 EISLYEEGFKKRVYMLNKPSDMVCADRDRNHRIVTSLFVEELRPDTLHCAGRLDIDTTGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 L++T+DG L + P + ++YR + + ++ KGI + + T Sbjct: 121 LIVTDDGELIHEITHPKKEITKLYRAVTDKPIPEKAVSAFLKGIKHPEEKF-PYKSAKLT 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + +N + V ++EG+ E+K++FE +V L R+ G +L L G R +S Sbjct: 180 IESANVGL-VEVKEGRFHEVKRLFECVGCEVIELTRLKIGSLELDDSLEEGEYRLLSDDE 238 Query: 241 LR 242 + Sbjct: 239 VD 240 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 57/235 (24%), Positives = 101/235 (42%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ ++ E I V VN + + V ++ I ++G PL+ E Sbjct: 1 MRLDKYLCKSTDLTKPEAIERIHNGEVNVNSETVTDESAQVHESNTILLNGTPLKLREFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++ + + D S S + GRLD +T GL+L+T+DG + Sbjct: 61 YLLMHKPAGTICSN-IDEVYPSLFNYIEIDKASELHIAGRLDADTTGLVLITDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 + LP+ +VYRV + D + K GI +QG ++ + T K V + Sbjct: 120 ITLPTKSCKKVYRVTLSRGIKDDVADKFKAGIQLQGEQKPTRPAELEVITSKQ----VLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R G +L + AG R ++K + Sbjct: 176 TITEGKFHQVKRMFAAVGNRVVGLHREQIGDVRL-DVEAGQWRYLTKAEVDSFQQ 229 >gi|291059845|gb|ADD72580.1| RNA pseudouridine synthase superfamily [Treponema pallidum subsp. pallidum str. Chicago] Length = 284 Score = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 71/255 (27%), Positives = 115/255 (45%), Gaps = 21/255 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +AR+G ASRR E +IA RV V+G + V + + + VDG ++ R Sbjct: 34 RLQVYLARSGCASRRACEALIASGRVTVDGQTVTTQGRTVCAQNVVCVDGTVVQLERVQR 93 Query: 75 LWLYHKPIGLVTT-----------------HSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 L +KP+G + + S + + P+ R+ +GRLD+ Sbjct: 94 YVLLYKPVGYICSLAPQFPAGYAHTQVRAGPSKQEYARAIDLVQPAYQERLYHIGRLDVR 153 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EG LL TNDG A+ L P + + Y V V L+ +G+ ++G Y ++ Sbjct: 154 SEGALLFTNDGSFAQALGHPRSGIEKEYIVETREPVPAALLSSFVRGVWVEGCRYRCVRA 213 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + V + L EGK REI+ VFE + V RL+R+ G +LG L G+ R + Sbjct: 214 RHLAAQ----CVQLVLVEGKKREIRVVFEAWGQDVVRLVRVRIGRVRLGPLRPGAFRTMR 269 Query: 238 KKILREQLGPHLLEE 252 + + + L Sbjct: 270 LQEVAQLLQCAGCAR 284 >gi|167581475|ref|ZP_02374349.1| pseudouridine synthase family protein [Burkholderia thailandensis TXDOH] Length = 324 Score = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 76 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQ 135 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 136 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 195 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 196 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTTDIERHFPAESLAKLRHGLELDG 255 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 256 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 311 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 312 QGQWRYLGPDE 322 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 74/250 (29%), Positives = 118/250 (47%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRRESDELIKQGLVKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A V Sbjct: 60 SVLIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADV 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L G R + Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGMLKVGKHRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 114/231 (49%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A +R++ M+AQ+RV+++G ++ V +++D L+ Sbjct: 1 MRLDRFLANLPHCNRQQARLMLAQRRVRLDGQVISDPLAEVREFSRVQLDEQLLQAGRPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP G V+ DP + + ++ + + GRLD NT GL++LTNDG +R Sbjct: 61 RYLMLHKPAGCVSATHDPQHPTVLELLPAALRADLHIAGRLDFNTTGLMILTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P+T+ + Y V ++ + + ++ + + Q+ + + + + Sbjct: 121 LTQPATKLPKQYLVETEDEIAEHYVAKFREGFYFAFENLTTQPAQLDILGPRQA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F FF+ KV L R S G +L L G+ R+++ + + Sbjct: 177 AIVEGRYHQVKRMFGFFDNKVVGLHRESMGAIRLDPGLAPGAFRQLTPEEI 227 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 46/225 (20%), Positives = 88/225 (39%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V ++G + + + + G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSIDGEVADDLKKQFSPENLEFSLFGETYQYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + I V ++GRLD +T GLLLLT+DG + L Sbjct: 63 LALKKPKGFECSHQPHHHQSVFSLLPEILIQRGVQAIGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V +++ +L +G+ + + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTIDPVTPEQIEMLSQGVSLHQEKGVFAATDVKILE--THQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G ++K++ KV L R G L L G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPELEDGEWVYLSEQ 225 >gi|330720777|gb|EGG98994.1| Ribosomal small subunit pseudouridine synthase A [gamma proteobacterium IMCC2047] Length = 239 Score = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 106/235 (45%), Gaps = 8/235 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ + I+ S++ V ++AQ RV V+G + + + I +DG L+ Sbjct: 4 KSARLDRFISSKMAISQKAVRPILAQGRVAVDGCVCRDRQQIINTFSRITLDGQILQANT 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + +V+ D ++ + S++ VGRLD N+ GLLLLTND G + Sbjct: 64 PLYLMMNKPKG-VVSATRDNQYQTVIDLLDHPERSKLHLVGRLDFNSTGLLLLTNDSGWS 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L P + + YRV + +DQ ++ + + + ++ Sbjct: 123 QQLMKPDQKVSKRYRVTVNNPLDQQTVDAFAAGMYFAYEDATTRPAGLNII----NDYEA 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 V L EG+ +IK++F N KV L RI+ G L +L AG +RE+S + + Sbjct: 179 EVTLTEGRYHQIKRMFARCNNKVLALHRIAIGNLLLDPSLSAGQSRELSAAEVTD 233 >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 = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 82/350 (23%), Positives = 144/350 (41%), Gaps = 13/350 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA VKVNG + + +++ S D IE+DG Sbjct: 29 ERLHKVLAQAGLGSRRALEQRIADGLVKVNGEVAQT-GMSIKSGDRIELDGRSFVASALT 87 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + +R I++GRLDINT GLLLLT DG Sbjct: 88 EPARVLIYNKPEGEVTTREDPEGRPTIFEALPALKGARWIAIGRLDINTTGLLLLTTDGE 147 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G+V++ ++ Sbjct: 148 LANAMMHPSYEIEREYVVRVRAPEGEESVPDSMIERLARGVVLEDGSAKFDEIERIGGTD 207 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L +L G + E+++ + Sbjct: 208 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVALPREVLRGQSMELAQDKVEA 267 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LEE A R + +V + + + ++ T Sbjct: 268 LRAELKLEEGTP--SALTLQPVIGQRKAAKAVVQVGRGGNAYVNGHNAADEGRELRRFDT 325 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R G + + ++ + + + + L + Sbjct: 326 FREDRGRGRGGKKPHGGLTVSGEMAAKQAQKPFKQRTPKGPKPLPDGNPA 375 >gi|167837045|ref|ZP_02463928.1| pseudouridine synthase family protein [Burkholderia thailandensis MSMB43] Length = 325 Score = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 98/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 77 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 136 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 137 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 196 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 197 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 256 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 257 APLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 312 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 313 QGQWRYLGLDE 323 >gi|289665762|ref|ZP_06487343.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 527 Score = 141 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 82/356 (23%), Positives = 142/356 (39%), Gaps = 17/356 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV+++ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQEKVDA 266 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL-- 301 LEE + + + + ++ + Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGHTSGADEGRELRRFD 326 Query: 302 ----ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + + Q+ +R P+ + +L + Sbjct: 327 NLREDRGRGGRGKPGGFKGGLTVSGEAAARQSQQRPFKQRGPAKGDRGALPEGNPA 382 >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 = 140 bits (353), Expect = 2e-31, Method: Composition-based stats. Identities = 66/254 (25%), Positives = 104/254 (40%), Gaps = 29/254 (11%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 +R++K +AR G+ SRRE + I+Q V++NG + VM D +EV Sbjct: 25 PEGERLNKHLARTGVCSRREADDWISQGWVRINGRPV-EMGQKVMPGDVVEVRQAARARQ 83 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + L+ S G + + + GRLD Sbjct: 84 QDKVTILLNKPVGYVSGQAEDGYRPAVTLIDAQSRWAGDTNPRRFERNQLRGLAVAGRLD 143 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIV 166 I++ GLL+LT DG +AR L + + Y VR D+L LL+ G+ Sbjct: 144 IDSVGLLVLTQDGRVARQLIGEDSSTTKEYLVRVRYGEVERNVQAAFPPDRLKLLRHGLS 203 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + G QV + + + L+EG++R+I+++ E V L RI G LG Sbjct: 204 LDGHKLKPAQVDWENPEQ----LRFVLQEGRHRQIRRMCELVGLAVTGLKRIRVGNVLLG 259 Query: 227 TLLAGSTREVSKKI 240 L G R + Sbjct: 260 RLPPGQWRYLGLDE 273 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 52/242 (21%), Positives = 98/242 (40%), Gaps = 27/242 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQ------------RVKVNGILLERAAVNVMSTDHIE 61 R+ K + G +R+EV+ ++ + +K+ V D + Sbjct: 1 MRLDKFLGNHGFGTRKEVKLLVKRGAVKVNDVVVKKSDIKI-----------VPENDTVT 49 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V + + L + ++ D + + + VGRLD +TEGL Sbjct: 50 VYDEVVMYEPFVYIMLNKPAGYI-SSTKDYKDETVLELIEGFEHYDLHPVGRLDKDTEGL 108 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD 180 L+LTNDG + + P + Y R G V D + L K GI + ++ + Sbjct: 109 LILTNDGQFSHDVLSPRKHVNKTYFARVDGYVTDDTVELFKAGITLDDGYKAMPAELQII 168 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKK 239 + G + + + ++EGK ++K++F + V L RI G L L G+ R+++ + Sbjct: 169 SA-GEISEIELVIQEGKFHQVKRMFIAVDMIVIYLKRIKMGGLPLDESLTPGAYRKLTLE 227 Query: 240 IL 241 + Sbjct: 228 EI 229 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 64/235 (27%), Positives = 108/235 (45%), Gaps = 8/235 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ R+++ M+AQ RV+V+GI+ + V H+ VD L+ + Sbjct: 7 RLDRFLSSELKIKRKDIRLMLAQNRVRVDGIVAKDIQQLVDEFSHVSVDDAVLKNNRPSY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L +V+ D ++ + S + VGRLD+NT GL+LLTNDG +R L Sbjct: 67 VMLNKPVG-VVSATKDDKHKTVIDLLDHPAKSELHIVGRLDLNTSGLMLLTNDGRWSRKL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P ++ + YRV + + ++ K + I ++ + S V Sbjct: 126 MSPESKVEKRYRVTLQNPLSTEYIDAFAKGFYFEFEDITTQAAKLEII----SEHIAEVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLG 246 L EGK +IK++F F V L R S G L L G +RE+S + + + G Sbjct: 182 LTEGKYHQIKRMFGRFRNPVIGLHRYSVGELLLDPDLDEGGSRELSVEEVNDIFG 236 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 67/241 (27%), Positives = 117/241 (48%), Gaps = 16/241 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRRE +R+I + +V +N ++ + V + ++G LR+ ++ Sbjct: 1 MRLNQYIAHHSKFSRREADRLIKEGKVTINKEVVSDFSYQVDKNTKVYLNGKCLREQDQY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + + D GR ++D+LP FS VGRLD +EGLLLL++ + R Sbjct: 61 SVIVYNKPKGELVSKRDDRGRRVIYDSLPKRFSHFKPVGRLDFASEGLLLLSDSVKVVRS 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTL 179 L + RVY ++ G + + ++ GI ++ + T Sbjct: 121 LMES--ELERVYLLKLSGLIKDSVFDAMESGITLEDASAGGHSKSKIKAMEFAPFVGYTC 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V L+EGKNRE+++ F F +V L RI+YG L L +G R + + Sbjct: 179 IKNTPKYSKIKVILKEGKNRELRRFFAHFGLEVLDLKRIAYGFVHLNNLPSGKVRFLERG 238 Query: 240 I 240 Sbjct: 239 E 239 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 54/235 (22%), Positives = 103/235 (43%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ ++ E + I V VN +++ + V ++ I ++G L E Sbjct: 10 MRLDKYLCKSTELTKLEAVQRIQNGEVSVNSVVVLDESTQVHESNAILLNGDALTLREFR 69 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + + + L I+ GRLD +T GL+L+T+DG + Sbjct: 70 YILMHKPAGTICSNIDEVYPSLFNYLELEKASELHIA-GRLDADTTGLVLITDDGRWSFN 128 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + LP+ +VYRV + D + K GI +QG ++ + T K V + Sbjct: 129 ITLPTKSCKKVYRVILSRDIKDDVADKFKAGIQLQGEQKLTRPAELEVITSK----EVLL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + EGK ++K++F +V L R G +L + AG R ++K + Sbjct: 185 TITEGKFHQVKRMFAAVGNRVVGLHREQIGDVRL-DVEAGQWRYLTKAEVDSFQQ 238 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 56/232 (24%), Positives = 104/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+A SR+++++ + ++++ V+ + + NV + I ++ P+ Sbjct: 10 MRLDILLAQA-HISRKKMKQALLKKKILVDDCPARKLSQNVDTGLQTITLEEQPVLGKPH 68 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + SVGRLD +T GLLL+T++G L Sbjct: 69 QYFMMNKPLGVVTANSDAKFQTVLDLIRPEDFSEDLYSVGRLDRDTSGLLLITDNGPLGF 128 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 +L P + Y V +G +D + +KGI + G +T+ + + + TV Sbjct: 129 LLLHPQYHVTKTYEVEVNGLLDDQAVQSFQKGIVFLDGTICKPATLTIRSSSSNKSRATV 188 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L RI +G F+L L G R +++ L Sbjct: 189 TISEGKFHQIKKMFLTVGVKVTSLKRIHFGDFELEPNLATGEYRVLNQAELE 240 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 60/220 (27%), Positives = 102/220 (46%), Gaps = 9/220 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAER 72 +R+ +V+A G+ +R+EV ++I V+V+G ++ + IEV G P+R A Sbjct: 3 ERLDRVLAHLGLGTRKEVGKLIRAGAVRVDGAVVRDRGYKLDPEAARIEVRGEPVRYARH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+ L T S+ + + VGRLD +TEGLLLLTN G L Sbjct: 63 FYVLLHKPAGVLTATRSERETTVLDLLPDALWRDDLRPVGRLDRDTEGLLLLTNHGELLH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + +VY ++ +D +G++ + ++ + + V Sbjct: 123 RLTHPRWKVAKVYFAELASELPEDAARRFAEGVLD----FAPAELEALGPRAA----RVT 174 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 L EGK+R+++++F V L R +GP +LG L G Sbjct: 175 LYEGKHRQVRRMFAALGAPVAYLRRERFGPLELGGLEPGQ 214 >gi|254251646|ref|ZP_04944964.1| Pseudouridine synthase [Burkholderia dolosa AUO158] gi|124894255|gb|EAY68135.1| Pseudouridine synthase [Burkholderia dolosa AUO158] Length = 238 Score = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 52/234 (22%), Positives = 88/234 (37%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV V G + + VDG R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAVGGATATDPDTAFDTDGLVFTVDGTAWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LTLNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y + +L+ L+ G+ + G + + ++ V + + Sbjct: 123 TSPKRKVPKTYVATVRHPLSDTQLHTLRTGVQLHGEP-KPIAAVAADARDAHTLV-LTVV 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V+ L R S G L L G+ R + + L P Sbjct: 181 EGKYHQVKRMVAAVSNRVDALHRESIGGLTLPDNLAPGTWRWLDEAELAALRNP 234 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 66/235 (28%), Positives = 101/235 (42%), Gaps = 4/235 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ KV+A AG+ASRR E++IA RV+VNG +++R V + + + Sbjct: 48 EDKVRLQKVLAAAGVASRRMSEKLIAAGRVEVNGKVVDRMGVRIDPNKDVVRVDGVRVQV 107 Query: 71 --ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTN 126 E T D S + VGRLD TEGLLLLTN Sbjct: 108 NDEMHYYIFNKPRGVQSTMSDDMGRPSVGNFIDERLKQGQGLFHVGRLDAQTEGLLLLTN 167 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + + Y G+ + ++ LKKGI + V + Sbjct: 168 DGELANRLMHPSYEVSKTYMATVLGEAKKGLVHELKKGIELDDGIAKADDVQIVDVWQGK 227 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + L EG+ ++++ + + V L+R QLG GS R +++ L Sbjct: 228 SLIKLELHEGRKHIVRRLLKAAGFPVQALVRTKIHTVQLGDQKPGSVRALNRSEL 282 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 87/359 (24%), Positives = 146/359 (40%), Gaps = 25/359 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG + T Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 ESSRVLVYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDSMIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELLRGQSVELAQEKVDA 266 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRP-----------NIISEVPDDFTRMKKNS 289 LR +L + + L I N + D+ +++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 290 SQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + + P + + A S + RS + + R Sbjct: 327 NLREDRGGRGGRGKPGGFKGGLTVSGEAAAKQSQQRPFKQRGPAKGDRSLPDGNPAAFR 385 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 62/237 (26%), Positives = 102/237 (43%), Gaps = 15/237 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRK 69 T R++ +A+ G+ASRR+ R+I RV +NG + + + VDG + Sbjct: 2 TSIRLAHYLAQCGVASRRQASRLIEAGRVLLNGNQASHTDY-IDEHNASSLRVDGKAIAP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E WLY+KPIG+ D S + + + GRLD ++ GLLLLTNDG Sbjct: 61 -EAKAYWLYNKPIGIDCRLLAQDPASLIHQLPSAPR--LYPAGRLDKDSRGLLLLTNDGD 117 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + Y V+ + + + + L G+ G+ +V Sbjct: 118 LTHKLMHPDFYHPKTYHVQVNQPLKDEDIMALSTGVAYPGVLTRRCEVRRLADDK----F 173 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----LLAGSTREVSKKIL 241 + L +G NR+I+++ + +KV L R + +L + L R + L Sbjct: 174 EMILTQGLNRQIRRMCKALGYKVIDLQRTAIMKLELNSKEFEQLADNKMRPLEAAEL 230 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 106/232 (45%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + + SR+ +++ + ++ + V+ + A NV + + G ++ E Sbjct: 1 MRLDKLLTQEKV-SRKAIKQALLKKEILVDELPATSLAQNVDTGLQELIFQGRKIQGYEH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L+ + + + ++GRLD +T GLLLLT++G L Sbjct: 60 TYLMLHKPNGVVTASKDKKLPTVMDLLPQSLQSEELYAIGRLDRDTTGLLLLTDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-VIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + YRV +G + DK+ K GI + G Q+ + + S++ + Sbjct: 120 QLLHPQYHVDKTYRVEVNGPLTPDKVQEFKDGIVFLDGTVCKPAQLDILSSSSSHSKAII 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L RI +G F L L G R ++++ L Sbjct: 180 TIAEGKFHQVKKMFLSIGVKVTSLKRIQFGDFTLDSELAEGQYRSLNQEELE 231 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 104/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 +R+ K+++ G+ SR+E +I + V VNGIL R D I ++G PLR Sbjct: 6 ERLDKILSSQGVGSRKEAGILIRRGLVHVNGILATRPETKTDPERDQITIEGKPLRFQRH 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + + + GRLD +T GLL+LT+DG LA Sbjct: 66 VYLMMNKPAGVVSASRDSREKTVVDLVPPVLSRRDLFPAGRLDRDTTGLLILTDDGELAH 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P ++Y G V +++ G+ ++ +T+ Q + + V Sbjct: 126 RMLSPKKHVYKLYEASVDGPVGAEEIEKFAAGVALEDGTVCLPAGLTVVKQGTAWETL-V 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 +REGK ++KK+F +V RL R+ G +L L G RE++K+ L Sbjct: 185 EIREGKFHQVKKMFLAVGRRVLRLKRVRIGGLELDKTLKEGECRELTKEEL 235 >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 = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 102/231 (44%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G + +V + D L+ + Sbjct: 1 MRLDRFLSNLPRFNRKSVRLALASGRVQVDGQITTDPHYDVREFSCVAFDMQILQPGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ +D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPQGCVSATTDAQHATVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + I Q+T+ + + + Sbjct: 121 LTQPHTKMPKVYYVETEQLIDERYALTFAEGLFFSFENIITQPAQLTVLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV +L R S G L L G R + + Sbjct: 177 SIIEGRYHQVKRMFGHFDNKVLQLHRESIGALILDPALPPGGYRSLQAAEI 227 >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 = 140 bits (352), Expect = 3e-31, Method: Composition-based stats. Identities = 75/238 (31%), Positives = 111/238 (46%), Gaps = 21/238 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILL----------ERAAVNVMS-TDHIEV 62 R+ KV+A AG+ASRR E MI + + TD ++V Sbjct: 1 MRLQKVLANAGVASRRVSEEMI----------VAGRVRVNGVVVTELGSRIHPETDLVDV 50 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG ++ R + +KP G+V++ SD GR + R+ +VGRLD +T GLL Sbjct: 51 DGTAIQLDTSKRYVILNKPTGVVSSMSDDRGRPDLRQYTKDWDERLFNVGRLDADTSGLL 110 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LTNDG LA VL PS +VY + GQV + L KG+ ++ + L Sbjct: 111 VLTNDGDLAHVLAHPSFGVTKVYIAKVEGQVLPQTIQHLLKGVDLEDGRIAADKARLLDS 170 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + L GKNR ++++ V L+R +GP LGTL G RE++ Sbjct: 171 SRGESLVELTLHSGKNRIVRRLMAEVGHPVIELVRRQFGPLHLGTLPVGKARELTTVE 228 >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 = 140 bits (352), Expect = 3e-31, Method: Composition-based stats. Identities = 50/231 (21%), Positives = 88/231 (38%), Gaps = 15/231 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 ++++K +A G SR+E+E I + RV + +E DG PL Sbjct: 2 TETRKLAKYLASLGYGSRKEMEVAIRRGRVT-------------GWGEDVEFDGEPLDPG 48 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + ++ + + ++ SVGRLD +T GLLL T+DG Sbjct: 49 PGMVILMHKPAGYTCSHQDQGKLVYDLLPPRFLKRDPKISSVGRLDADTTGLLLFTDDGA 108 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + + Y ++ + G +I G Sbjct: 109 LLHRLISPKSDIPKTYEATLARPLEGFEKEFFASGSLILRGEDKPCLPAELEVTGERT-A 167 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L EG+ +++++F V L R +GP +LG L G+ R +++ Sbjct: 168 RLTLSEGRYHQVRRMFAAAGNHVEALHRSRFGPLELGDLSEGAWRLLTEAE 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 = 140 bits (352), Expect = 3e-31, Method: Composition-based stats. Identities = 53/206 (25%), Positives = 96/206 (46%), Gaps = 8/206 (3%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 +NG + V D + +DG + K + +HKP+G+ T +D + + Sbjct: 3 INGEVCTH-GTIVTENDIVTIDGKTIEKEDKEKIYIAFHKPVGITCTAADHIDGNIIEYI 61 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + R+ VGRLD +EGL+LLTNDG +A + + + Y V ++ Sbjct: 62 --NHPERIFPVGRLDKASEGLILLTNDGRIANQILHGDHEHEKEYIVTVDKPFTDWFIDG 119 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + +G+ I+ +VT +++ + L +G NR+I+++ F + V +L R+ Sbjct: 120 MSRGVKIKDGITKQCKVTRV----NSSTFRIILTQGMNRQIRRMSRAFGYTVTKLKRVRI 175 Query: 221 GPFQLGTLLAGSTREVSKKILREQLG 246 +L L AG R V+ + L+E L Sbjct: 176 MNIKLDGLEAGEWRNVTVQELQELLK 201 >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 = 140 bits (352), Expect = 3e-31, Method: Composition-based stats. Identities = 51/202 (25%), Positives = 90/202 (44%), Gaps = 8/202 (3%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 +NG + V D + +DG + K E+ +HKP+G+ T +D + + Sbjct: 3 INGEICTH-GALVSDGDRVTIDGQVIVKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYI 61 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + R+ VGRLD +EGL+LLTNDG +A + + + Y V ++ Sbjct: 62 --NYPERIFPVGRLDKASEGLILLTNDGAIANQILHGDHEHEKEYVVTVDKPFTDWFIDE 119 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + G+ I+ +VT + + L +G NR+I+++ F + V +L R+ Sbjct: 120 MSSGVKIKDGMTKPCKVTRV----DQSTFRIVLTQGMNRQIRRMSRAFGFTVTKLKRVRI 175 Query: 221 GPFQLGTLLAGSTREVSKKILR 242 +L L G R V+ + L Sbjct: 176 MNIELNELEVGKWRSVTAEELE 197 >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 = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 85/356 (23%), Positives = 144/356 (40%), Gaps = 17/356 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPVLKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQDKVDA 266 Query: 244 QL-GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L E A L + +S + +S + + ++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 303 TPVHRRNLASNVWMAKGIH-----SSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + Q+ +R P+ + +L + Sbjct: 327 NLREDRGRGGRGKPGGFRGGLTVSGEAAAKQSQQRPFKQRGPAKGDRGALPDGNPA 382 >gi|302187757|ref|ZP_07264430.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae 642] Length = 230 Score = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 61/231 (26%), Positives = 106/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V +A RV+V+G V + +DG L+ + Sbjct: 1 MRLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDGEILQAGKAP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPQGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + +G+ Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFEGLTTQPAQLTLLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV RL R + G L L GS R ++ + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRENIGALALDPGLRPGSYRALNAGEI 227 >gi|328945586|gb|EGG39737.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1087] Length = 241 Score = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 103/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRIDQLLA-ANHISRKKMKQSLLQKQILVDGKPACKLSQNVDTGLQQINFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTPQDKIAFQEGIRFLDGTICQPAQLSILSTSSSLSRATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 180 KISEGKFHQIKKMFLAIGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQEEL 230 >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 = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 75/308 (24%), Positives = 134/308 (43%), Gaps = 20/308 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R++K IA SRRE ++ I V+++G + A V ++ + G + ++ Sbjct: 2 MRLNKFIAHYSTYSRREADQAILDGYVRIDGEIETNPATQVDERHANVMISGNKITPTDQ 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +Y+KP G + T DP GR T++D+L + I +GRLD +EGLLLLT+ Sbjct: 62 FTVIVYNKPRGELVTKKDPQGRKTIYDSLAKQYRHYIPIGRLDFASEGLLLLTDA--SRV 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV--------------T 178 L +++ RVY+++ G V + + +G+ ++ G + Sbjct: 120 ATALMTSKMERVYKIKIKGPVTEAMKVAMGEGLELEDASAGAHEHAEAGPMSFAPFYAYQ 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +G + + V + EG+NRE+++ F F +V L R+S+G L L G R + + Sbjct: 180 VQKDQGDYSVLKVAIGEGQNRELRRFFAHFGAEVVDLKRLSFGGIDLNNLPTGKVRFLER 239 Query: 239 KI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 LRE L E Q + + + K+S++ G Sbjct: 240 SEYASLREFLDALEKAEKQKQKSEKKAPRAEGKSEFKPAKTFTKEKSKAKPKSSNEPFGT 299 Query: 296 SKQKKLAT 303 +K K Sbjct: 300 NKYKPEKK 307 >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 = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 58/249 (23%), Positives = 98/249 (39%), Gaps = 24/249 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV--DGVPLRKA 70 +RVSK++AR G SRRE E++IA RV+VNG ++ D +E+ DG + Sbjct: 84 ERVSKILARRGACSRREAEQLIADGRVRVNGTVITEQGHKCDVNSDRVEITSDGSAWLSS 143 Query: 71 ERTRLWLYHKPIGL---VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + T L + P + + N + +++ L T Sbjct: 144 KLT-LAVNKPPGLVSNLPSADEVAACSIVEPSNAWMRSMKWVAMDDLRRATSDPSRFNVC 202 Query: 128 GGLARVLEL---------------PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 G L + ++ Y V V + + L +++ G+ Sbjct: 203 GRLDKDSRGLLILTEDGALARSVIGGNGVVKRYVVTTDADVRESHMQSLNGTVMLDGVEL 262 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 M V + + LREGKNR+I++V E F +V L R+ G +G L G+ Sbjct: 263 LPMNVKRL--GRGSRTLEFNLREGKNRQIRRVCEKFGLRVVDLHRVQIGEIDIGDLPEGA 320 Query: 233 TREVSKKIL 241 R +S+ + Sbjct: 321 WRILSEDEV 329 >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 = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 68/250 (27%), Positives = 103/250 (41%), Gaps = 29/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K +A G+ SRRE + IAQ RV+VNG + + V ++D I VD + Sbjct: 59 RLNKRMAELGLCSRREADDWIAQGRVRVNGQVAP-IGLRVTASDRIAVDKQARGAQRQRV 117 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRLDINTE 119 L HKP+G V+ ++ R V R GRLDI++ Sbjct: 118 TILLHKPMGYVSGQAEDGHRPAVALIDQRTHWRDDTSRNRFAPAQLRGLAPAGRLDIDSV 177 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIVIQGI 170 GLL+LT DG +AR L + + Y VR +L L G+ + G Sbjct: 178 GLLVLTQDGRVARQLIGADSTVDKEYLVRVQYGAVALDVRSVFPAGQLASLCHGLSLDGQ 237 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V + + L EG+ R+I+++ V L R+ G +LG L A Sbjct: 238 PLKPAVVDWQNPEQ----LRFVLTEGRKRQIRRMCALVGLTVVGLKRVRIGRVRLGLLPA 293 Query: 231 GSTREVSKKI 240 G R ++ Sbjct: 294 GQWRYLAADE 303 >gi|167846297|ref|ZP_02471805.1| pseudouridine synthase family protein [Burkholderia pseudomallei B7210] Length = 334 Score = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 86 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 145 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 146 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 205 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 206 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 265 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 266 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 321 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 322 QGEWRYLGPDE 332 >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 = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 68/250 (27%), Positives = 114/250 (45%), Gaps = 10/250 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ K+++ G SRR +E MI + +NG + + + + I + G + Sbjct: 2 SEKIQKILSHLGYGSRRNIENMIKFGDISINGKKI-VIGQRLNNKNIEVITIKGETVSIK 60 Query: 71 ER----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + + + T + R IS+GRLDINT GLLL TN Sbjct: 61 KTDFKTKIIIYNKPEGEICTRNDYKKRPIVFDKLPLLNIHRWISIGRLDINTRGLLLFTN 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKG 184 +G LA L PS + R Y +R G+++++ +N+LK G+ I+ +Q Sbjct: 121 NGNLANELMHPSNKIEREYYIRVFGKINKNTMNILKNGVKIKDGNAAFKSIQTIDHACSK 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 N W L EG+NREI+ +++ +V+RLIRI YG L L G E+S + + Sbjct: 181 KNKWFKGVLCEGRNREIRSMWQAVQCQVSRLIRIRYGNIFLPKNLKLGDWSELSSESVNN 240 Query: 244 QLGPHLLEEA 253 L+++ Sbjct: 241 LSNLVSLKDS 250 >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 = 139 bits (351), Expect = 4e-31, Method: Composition-based stats. Identities = 73/251 (29%), Positives = 108/251 (43%), Gaps = 29/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A G+ SRRE + IAQ V+VNG + + V D IEVD + + Sbjct: 59 MRLNKRMADLGLCSRREADDWIAQGWVRVNGQVA-VMGLQVGPQDRIEVDRAAQGRQSQQ 117 Query: 74 RLWLYHKPIGLVTTHSDPDGRS---------------TVFDNLPSIFSRVISVGRLDINT 118 L HKP+G V+ ++ + P+ + GRLDI++ Sbjct: 118 VTILLHKPMGYVSGQAEDGHTPAVALVNARSHWQGDASRMRFAPAQLKGLAPCGRLDIDS 177 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIVIQG 169 GLL+LT DG +AR L + + Y VR D+L LL G+++ G Sbjct: 178 VGLLVLTQDGRVARQLIGEDSAVDKEYLVRVQYGERTQDVRAVFPADRLALLCHGLLLDG 237 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 QV + + LREGK R+I+++ E KV L RI G LG L Sbjct: 238 QPLKPAQVDWQNPEQ----LRFVLREGKKRQIRRMCELVGLKVVGLKRIRIGRVLLGNLP 293 Query: 230 AGSTREVSKKI 240 G R ++ Sbjct: 294 VGQWRYLAPGE 304 >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 = 139 bits (351), Expect = 4e-31, Method: Composition-based stats. Identities = 82/285 (28%), Positives = 120/285 (42%), Gaps = 12/285 (4%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVM--STDHIEVDGVPLRKAE-----RTRLWLYHK 80 RRE+E I RV V+G + V I +DG + E L Y Sbjct: 9 RREIEAKIEAGRVSVDGKIAT-LGDRVEIVPGLKIRIDGHLISVKESAEQICRVLAYYKP 67 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 L T + + +R I+VGRLD+NT GLLL T DG LA L PS + Sbjct: 68 EGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSRE 127 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 R Y VR GQVD DKL L +G+ ++ + +G N W V L EG+NRE Sbjct: 128 VEREYAVRVFGQVDDDKLRQLSRGVQLEDGPAAFKTIKFTGGEGINQWYNVTLTEGRNRE 187 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILREQLGPHLLEEAQVN 256 +++++E +V+RLIR+ YG L L G E+ LRE + ++V Sbjct: 188 VRRLWEAVGVQVSRLIRVRYGDILLPKGLPRGGYTELDLAQTNYLRELVELTPETSSKVA 247 Query: 257 LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 ++ + R R NS++++ + Sbjct: 248 VEKDRRRLKANQIRRAVKRHSQTSANPRQGNNSNRRSSTRNKTNG 292 >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 = 139 bits (351), Expect = 4e-31, Method: Composition-based stats. Identities = 52/232 (22%), Positives = 89/232 (38%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q + + G +L A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAIT-DAQGEVLY-ADDQV-EHDAIRIDGEPLDPPA 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + + VGRLD T G+LL+T+DG L Sbjct: 58 GLSLLLHKPSGYTCSTKDTGRLIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY + + ++ L G ++ + G Sbjct: 118 LHRIISPKSALDKVYDITLAEDLHGEEAALFASGSLLLDGETKPLLPAELEVLGPRQ-AR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEANDLE 228 >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 = 139 bits (351), Expect = 4e-31, Method: Composition-based stats. Identities = 73/239 (30%), Positives = 112/239 (46%), Gaps = 6/239 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 QR+ K+IA AG+ SRRE ER+I +V+VNG + + +D I V+ PL Sbjct: 2 TEVEKQRIQKLIANAGLCSRREAERLIEDGKVRVNGKIAQ-LGDKARISDDIFVNNKPLN 60 Query: 69 K---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 K T L K + + D L R+ GRLD ++EGLL+LT Sbjct: 61 KHVERSVTVLMNKPKGVLCTNSDPHADRTVFDLLPLDLQRQRMFCAGRLDKDSEGLLVLT 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--QK 183 NDG LA + P++ ++ YRV H D+ + L G+ +G +V + Sbjct: 121 NDGDLAHRITHPTSNVVKRYRVVLHRDFDKADIPKLLNGVDYEGDFLKAEKVIPAPAVGE 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G + V L GK REI+++FE + V +L+R+ G L + G + + KK + Sbjct: 181 GHLRRLEVHLHHGKKREIRRLFEANRYYVKKLVRVQIGGMVLKNMPKGGIKVLGKKDIE 239 >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 = 139 bits (351), Expect = 4e-31, Method: Composition-based stats. Identities = 86/356 (24%), Positives = 145/356 (40%), Gaps = 17/356 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPVLKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++K+ L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQDKVDA 266 Query: 244 QL-GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L E A L + +S + +S + + ++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 303 TPVHRRNLASNVWMAKGIH-----SSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + Q+ +R P+ + +L + Sbjct: 327 NLREDRGRGGRGKPGGFRGGLTVSGEAAAKQSQQRPFKQRGPAKGDRGALPDGNPA 382 >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 = 139 bits (351), Expect = 4e-31, Method: Composition-based stats. Identities = 63/252 (25%), Positives = 103/252 (40%), Gaps = 30/252 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------- 64 R+SK ++ G+ASRRE + I Q V+V+G ++++ V I +D Sbjct: 171 RLSKRMSELGLASRREADEWIEQGYVRVDGEVVDQLGARVRPEQQITIDPQARLEQAQRV 230 Query: 65 -----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 PL + LVT + + S ++ GRLD+++ Sbjct: 231 TILLHKPLGYVSGQAEDGHAPAFTLVTAANRWATDGSKQRFNASQLKHLVPAGRLDLDST 290 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHG-----------QVDQDKLNLLKKGIVIQ 168 GLL+LT DG +A++L + + Y VR + L L+ G+ + Sbjct: 291 GLLVLTQDGRVAKLLIGEDSPVEKEYVVRVQWTARPELTDLKQHFPPEALARLRHGLALD 350 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G +V+ ++ + LREGK R+I+++ E KV L RI G LG L Sbjct: 351 GEKLKPAKVSWQNEQH----LRFVLREGKKRQIRRMCELVGLKVESLKRIRIGRVGLGEL 406 Query: 229 LAGSTREVSKKI 240 G R + Sbjct: 407 PPGQWRYLGPFE 418 >gi|126172676|ref|YP_001048825.1| pseudouridine synthase [Shewanella baltica OS155] gi|125995881|gb|ABN59956.1| pseudouridine synthase [Shewanella baltica OS155] Length = 233 Score = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 97/232 (41%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ R I V VNG + A+ V + + ++ PL Sbjct: 1 MRLDKFLCKSTDLDRDAASVAIINGSVTVNGAIATDCAMQVHENNAVCLNEKPLMPRPS- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP + ++ D S + VGRLD +T GL+LLT+DG + Sbjct: 60 RYFMLHKPADTLCSNVDGAYPSLFHLLDIEHAFDLHIVGRLDADTTGLVLLTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG----IVIQGICYGDMQVTLDTQKGSNAWV 189 + P Q +VYRV +D + + + +QG + TL Q+ V Sbjct: 120 IISPQYQCEKVYRVTLRDPLDSEATAAIAATFAAGLQLQGETALTLPATL--QQVDEKTV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGK ++K++F KV L R G L + G RE++ + Sbjct: 178 LLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAVTL-DVDVGEWRELTLAEI 228 >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 = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 86/358 (24%), Positives = 138/358 (38%), Gaps = 24/358 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L ++T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVITREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQDKVDA 266 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV----------PDDFTRMKKNSS 290 LR +L + + L I D R + Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + + A S + RS + + R Sbjct: 327 NLREDRGGRGRGKSGGFKGGLTVSGEAAAKQSQQRPFKQRGPAKGDRSLPEGNPAAFR 384 >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 = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 51/241 (21%), Positives = 99/241 (41%), Gaps = 7/241 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST----DHIEV 62 + N P R+ K+++ G +R+E++ + QR+ + + + V + + + Sbjct: 1 MSGNAKPVRLDKLLSNMGYGTRKEIDALARYQRILLGDKGFKSGSDKVTPNEDLQNRLTI 60 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGL 121 D P+ + L + + +F + ++ +GRLD T GL Sbjct: 61 DDKPVDPLPGFAVMLNKPAGVTCSRKDSGTLITELFPSRWDKRDPLLSPIGRLDKETSGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLT+DG L + P TQ + Y V ++ D+ ++ G ++ + + Sbjct: 121 LLLTDDGQLNHRVSSPKTQTPKRYHVILDRDLNGDEDSIFAAGELMLESETKPLLPAELS 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 G + L EG+ +++++F VN L R S G L L G R +S+ Sbjct: 181 ALG-KREAILTLHEGRYHQVRRMFAAVGNHVNALHRESIGGLTLPEDLQQGQWRIMSETD 239 Query: 241 L 241 + Sbjct: 240 I 240 >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 = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 65/251 (25%), Positives = 101/251 (40%), Gaps = 29/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R++K +A G+ SRRE + IA+ V VNG V IEVD Sbjct: 19 VRLNKRMAELGLCSRREADDWIARGWVLVNGAPA-VMGQPVAPDARIEVDRQAEQQQRQQ 77 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ + + LV + ++ P + GRLDI++ Sbjct: 78 VTILINKPVGYVSGQAEDGHEPAVVLVQPQNRWRECNSRMRWGPEQLRGLAPAGRLDIDS 137 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------HGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +AR L +++ + Y VR ++KL LL+ G+ + G Sbjct: 138 IGLLVLTQDGRVARQLIGENSEIEKEYLVRVSYGAETSNVQAVFPREKLALLRHGLSLDG 197 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 QV + + L+EGK R+I+++ E V L R+ G LG L Sbjct: 198 QALRPAQVDWQNPEQ----LRFVLKEGKKRQIRRMCEQVGLFVTGLKRVRIGRVNLGHLP 253 Query: 230 AGSTREVSKKI 240 G R ++ Sbjct: 254 VGQWRYLAAHE 264 >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 = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 45/225 (20%), Positives = 88/225 (39%), Gaps = 3/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V V+G + + + + G + E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKNGSVSVDGEIADDLKKQFSPENLEFSLFGQTYQYREQVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + I V ++GRLD +T GLLLLT+DG + L Sbjct: 63 IALKKPKGFECSHQPQHHQSVFSLLPEIMIHRGVQAIGRLDQDTTGLLLLTDDGKYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V V +++ +L +G+ + + + +T+ + Sbjct: 123 THPRKHVPKVYHVTTLDPVTPEQIAMLSEGVSLHQEKGIFAATDVAMLE--THQLTMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +G ++K++ KV L R G L + G +S++ Sbjct: 181 QGVYHQVKRMIAAVGNKVEALHRHQVGQLVLPEIADGEWVYLSEQ 225 >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 = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 68/216 (31%), Positives = 105/216 (48%), Gaps = 4/216 (1%) Query: 32 ERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSD 90 E +IAQ RV+VNG ++ R V V 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 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G+ D++ + L++G+ ++ V + + + V L EG+ ++++ + Sbjct: 123 TVLGEADRELVKKLREGVDLEDGIAKADYVQIVDTYEGRSLIRVELHEGRKHIVRRMLKE 182 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + V +L+R QLG L G+ R ++ LR Sbjct: 183 LGFPVQQLVRTKIHTVQLGELTPGAIRHLNDSELRA 218 >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 = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 85/347 (24%), Positives = 141/347 (40%), Gaps = 14/347 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR +D + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEDKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQEKVDA 266 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 LR +L + + L I + + + + + + ++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 KG + + ++ + P P K Sbjct: 327 NPRDDRGGRGRGKPGGFKGGLTVSGEAAARQSQQRPFKPRAPGKGDR 373 >gi|325694128|gb|EGD36046.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK150] Length = 241 Score = 139 bits (350), Expect = 5e-31, Method: Composition-based stats. Identities = 59/233 (25%), Positives = 103/233 (44%), Gaps = 8/233 (3%) Query: 14 QRVSKVIARAGIASRREVER--MIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSHL--QKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGP 57 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + H + + S+GRLD +TEGLLL+T++G L Sbjct: 58 AHRYYMLNKPAGAVTANHDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + +GI + G Q+++ + S + Sbjct: 118 GFQLLHPQYHVEKTYYVEVNGPLTPQDKIAFHEGIRFLDGTVCQPAQLSILSTSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 TV + EGK +IKK+F KV L RI +G F L L G R ++++ L Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQEEL 230 >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 = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 60/243 (24%), Positives = 99/243 (40%), Gaps = 5/243 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 +S+ +AR G SR++V+ +I Q RV +G+ L D + VDG PL E Sbjct: 3 LSRYLARLGYGSRKQVDILIRQHRVTTRDGVALRDGEC--PPHDTLAVDGEPLDPPEGAV 60 Query: 75 LWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + P + S + +VGRLD +T GLLLLT+DG L Sbjct: 61 VLLHKPLGYVCSTNDRPPIVYELLPSRFLSRSPVMATVGRLDADTSGLLLLTDDGALNHR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P T + YRV + D+ G ++ ++ + V + L Sbjct: 121 ITSPRTHVPKTYRVTLAESLHGDEAAQFASGTLMLKGEDAPLRPATLFVHDART-VDLSL 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 EG+ +++++F V L RI+ G L L G R +S + Sbjct: 180 VEGRYHQVRRMFAATGNHVVTLQRIALGSLTLEGLAEGEWRVLSAAEVETLRLAARRSGG 239 Query: 254 QVN 256 + Sbjct: 240 EAP 242 >gi|163851700|ref|YP_001639743.1| pseudouridine synthase [Methylobacterium extorquens PA1] gi|163663305|gb|ABY30672.1| pseudouridine synthase [Methylobacterium extorquens PA1] Length = 242 Score = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 97/233 (41%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ V + + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRVPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L+ + S + + + +VGRLD T GLLL+T+DG Sbjct: 65 PGVCLMLHKPLGVTCSHKEVGPLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTDDGA 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + + YRV + D+ +L G ++ + + ++ + Sbjct: 125 LLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPL-LPVEMETDDPTHC 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 TV L EG+ +++++F V+ L R G L L AG R + + Sbjct: 184 TVTLHEGRYHQVRRMFAALGNHVDALHRDRVGGLALPADLPAGEFRILGPGEI 236 >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 = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 58/237 (24%), Positives = 99/237 (41%), Gaps = 11/237 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ SR E ++I +RV VNG+ + A V +HI +DG L Sbjct: 1 MRLDKFVCKSTPLSRTEAVQVIHHERVLVNGVAIVDEAAQVHENNHIILDGKHLVPRPFR 60 Query: 74 RLWLYHKPIG----LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L+ + S S + VGRLD +T GLLL T+DG Sbjct: 61 YLLLHKPANCLSANISEPSKSTKYPSVFDVLNIDNSSELHLVGRLDADTTGLLLATDDGR 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNA 187 + + P++ +VYRV + + + GI++QG ++ + + Sbjct: 121 WSFTITSPNSDCSKVYRVGLAKPLGPEVADKFLAGILLQGEHELTLPAKLEVISPNQ--- 177 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 V + L +GK ++K++F KV L R G L + G R +++ + Sbjct: 178 -VLLTLTQGKFHQVKRMFAAVGNKVVSLHREKIGAISL-DVPQGQWRALTEAEVNAM 232 >gi|332361775|gb|EGJ39579.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1056] Length = 241 Score = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 60/244 (24%), Positives = 106/244 (43%), Gaps = 11/244 (4%) Query: 14 QRVSKVIARAGIASRREVER--MIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSHL--QKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGP 57 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 58 AHRYYMLNKPSGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + ++GI + G Q+++ + S + Sbjct: 118 GFQLLHPQYHVEKTYYVEVNGPLTSQDKIAFQEGIRFLDGTICQPAQLSILSSSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL---REQL 245 TV + EGK +IKK+F KV L RI +G F L L G R ++++ L +E L Sbjct: 178 TVKISEGKFHQIKKMFLAVGVKVIYLKRIQFGNFTLDPDLAKGDCRPLNQEELEIIKESL 237 Query: 246 GPHL 249 Sbjct: 238 EKSW 241 >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 = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 77/233 (33%), Positives = 115/233 (49%), Gaps = 7/233 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 + +V ++ARAG SRR +E I RV++NG + V D +E DG+ + Sbjct: 2 SAESVKVHVLLARAGCGSRRVLEDAIRDGRVRINGEVAT-IGARVRPGVDRVEFDGLEIA 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E+ WL +KP G+V++ DP+GR TV L + SRV VGRLD+++EGLL+LTNDG Sbjct: 61 TEEQREYWLLNKPRGVVSSVVDPEGRPTVRS-LVATTSRVYPVGRLDVDSEGLLILTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L L P + Y V V + L++G+ + G V Sbjct: 120 PLTYQLTHPRFHVPKEYLVWVDRPVPRRLGRELREGVEVDGELLRASSV----GTVGPRL 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + L EG+NR+I+++ V RL+R+ GP L G R + + L Sbjct: 176 VRIVLTEGRNRQIRRMVGAVGLSVERLVRVRIGPLVDPHLPPGVARRLEPREL 228 >gi|167619584|ref|ZP_02388215.1| pseudouridine synthase family protein [Burkholderia thailandensis Bt4] Length = 364 Score = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 116 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQ 175 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 176 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 235 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 236 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTTDIERHFPAESLAKLRHGLELDG 295 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 296 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 351 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 352 QGQWRYLGPDE 362 >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 = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 82/351 (23%), Positives = 142/351 (40%), Gaps = 12/351 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS++ R Y VR ++ + L +G++++ + Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLEDGTAKFDTIERIGNTD 205 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ K + Sbjct: 206 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPKTQVEA 265 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LE+ + + D+ N+ S++ + Sbjct: 266 LRTQLKLEKDMPLALTLQPVIGQRRSAKATLHVNRNDNNKHAYHNNHSTADESRELRRFD 325 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK-RSLRRTSAK 353 + + ++ ++ + P RSL S Sbjct: 326 TLRDDRGRGQGKHHFKDRLTVSGEAAAKQAHKPFKQYKPKNDRSLSEGSPA 376 >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 = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 74/212 (34%), Positives = 108/212 (50%), Gaps = 4/212 (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 RSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 R TV D L + VGRLD ++ G L+LTNDG +L P Q +VY+V+ Sbjct: 61 RKTVLDLLDSAFQRREGIHPVGRLDADSTGALILTNDGDFTYLLTHPRHQMSKVYQVKVR 120 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFFN 209 G QD L ++G++I G +V+L ++ + + L+EG+NR+I++V E Sbjct: 121 GIPSQDTLRQWREGVIIDGRKTLPARVSLLKSHSADGTLLQIDLKEGRNRQIRRVAEMLG 180 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V L R G LG L G R +++K + Sbjct: 181 HPVTALHRTKIGSLSLGNLACGRYRSLTEKEI 212 >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 = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 65/251 (25%), Positives = 100/251 (39%), Gaps = 24/251 (9%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------ 63 + R+SKV+A GI SRRE + I V V+G++++ + I + Sbjct: 164 STELPRLSKVMAERGICSRREADEWIMNSWVMVDGVIIDTLGTRINPDAEIVISSYAHEV 223 Query: 64 ---------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----- 109 P+ Y I LV ++ + F R Sbjct: 224 QAETVTIILHKPVGYVSGQAEDGYQPAIVLVHPDNEWLDDPELNQLHEREFQRRYLNGLA 283 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 GRLDI++ G+L+LT DG +AR L + + Y VR G +D D L L G+ + G Sbjct: 284 PAGRLDIDSTGMLVLTQDGRVARHLIGEDSTVEKEYLVRVEGSLDDDGLKRLNHGLSLDG 343 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +V+ + + LREGK R+I+++ E V L R+ G LG L Sbjct: 344 EKLKPAKVSWQNEDQ----LRFVLREGKKRQIRRMCEMVGLHVVGLKRVRIGSVNLGKLP 399 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 400 VGQWRYLRNGE 410 >gi|167816387|ref|ZP_02448067.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei 91] Length = 351 Score = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 103 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 162 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 163 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 222 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 223 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 282 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 283 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 338 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 339 QGEWRYLGPDE 349 >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 = 139 bits (350), Expect = 6e-31, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 91/232 (39%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q V + G ++ A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAVT-DAQGEVVY-ADDQV-EHDAIRIDGEPLDPPP 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + S + VGRLD +T G+LL+T+DG L Sbjct: 58 GFSLLLHKPSGYTCSTKDTGRLIYELLPPRFRSRAPVLAPVGRLDRDTSGMLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY + + D+ L G ++ + G Sbjct: 118 LHRIISPKSALDKVYDITLAEDLRGDEAALFASGTLLLEGETKPLLPAELEVLGLR-EAR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLLLDGLPSGQWRALEASDLE 228 >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 = 139 bits (350), Expect = 7e-31, Method: Composition-based stats. Identities = 72/250 (28%), Positives = 117/250 (46%), Gaps = 20/250 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ SRRE + +I Q VK+N + + V D I + G ++K + Sbjct: 1 MRINKFVSHNTRYSRREADELIKQGLVKINNKIA-LLSDEVKFDDKIFIKGKRVQKKTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPKQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGIVTKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIGFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V + EGKNRE+++ F F+ +V L R+++G LG L G R + Sbjct: 178 FGSSGGYTKLRVIINEGKNRELRRFFGHFDVEVMDLKRVAFGVLDLGMLKPGKHRYLENG 237 Query: 240 I---LREQLG 246 LR+ L Sbjct: 238 EYEKLRDFLK 247 >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 = 139 bits (350), Expect = 7e-31, Method: Composition-based stats. Identities = 43/229 (18%), Positives = 93/229 (40%), Gaps = 6/229 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ G SR+ +++I + +N + + EV G E+ Sbjct: 3 LEKILQSQGFGSRKYCQQLIKSGAISINHEICADTKAKFDLKNFTFEVHGEEFEYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + + + + VGRLD +T GLLLLT+DG + L Sbjct: 63 IALNKPQGYECSHQAQYHFSVFDLFDPALLNRGIQCVGRLDQDTTGLLLLTDDGQFLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGL 193 P +VY + + +++ LL++G+ + + + ++ S+ +++ + Sbjct: 123 THPRKHVAKVYDLITVDPITPEQIRLLEQGVELRNDGIFKASNI----KQTSSHQLSLAI 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G ++K++ KV +L R G +L L G + + + Sbjct: 179 HQGVYHQVKRMLAAVGNKVEKLHRSKIGELELPMLAEGEWTYLDQTEIE 227 >gi|325478230|gb|EGC81349.1| putative 16S pseudouridylate 516 synthase [Anaerococcus prevotii ACS-065-V-Col13] Length = 232 Score = 139 bits (349), Expect = 7e-31, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 102/232 (43%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +G+ +R+ ++R + + VNG +++ ++ V D + G + E Sbjct: 1 MRLDKMIGNSGLDTRKNIKRNAKKGAILVNGEVIKDSSYQVDPEVDEVYYMGQFVDYFEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + ++ D D + + GRLD +T GLLLL+ DG Sbjct: 61 IYIMMNKPQG-YLSATEDKDPTVIDLLDDFYRVLDLSIAGRLDKDTTGLLLLSTDGKFIH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 + P++ + Y + +D+ ++L K+G+ I ++ + + + Sbjct: 120 RVTSPNSNIEKTYIAKTRDPIDESLIDLFKEGVYIKEDDYTARSAKLEIIGKNEA----K 175 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + EGK +K++F +V L R++ G +L + L G RE+S + Sbjct: 176 VTVTEGKFHLVKRLFSNSGNEVVDLKRVAIGDLKLDSHLGLGEYRELSDDEV 227 >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 = 139 bits (349), Expect = 7e-31, Method: Composition-based stats. Identities = 74/268 (27%), Positives = 123/268 (45%), Gaps = 17/268 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R++K IA SRRE ++ + V+VN + A V D + + G + E+ Sbjct: 2 MRLNKYIAHYSTYSRREADKAVQDGYVRVNSEIETNPATQVQEGVDIVYISGKQVSPQEK 61 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +Y+KP G + T +DP GR T++D+L F I VGRLD +EGLLLLT+ +A Sbjct: 62 YTVIVYNKPKGELVTKNDPKGRKTIYDSLSKEFRHFIPVGRLDFASEGLLLLTDASHVAT 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--------------DMQVT 178 L R+Y+++ G+V D + + GI + G + Sbjct: 122 SLMESD--LERIYKLKIKGEVTPDMEDAMLNGIYLDDASAGAHSHSKITSMDIKPFIGYK 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + + + V L+EGKNRE+++ F F +V L R+S+ +L L G TR +S+ Sbjct: 180 IQKNQPNYSILKVALKEGKNRELRRFFAHFGAEVADLKRVSFAEIELNNLPTGKTRYLSR 239 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSET 266 E+ + + E Sbjct: 240 SEYSALYKFLKEEKKRARDNKRKEDKEQ 267 >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 = 139 bits (349), Expect = 7e-31, Method: Composition-based stats. Identities = 72/251 (28%), Positives = 103/251 (41%), Gaps = 29/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A + SRRE + IAQ V+VNG + + V D I+VD + Sbjct: 1 MRLNKRMADLRLCSRREADDWIAQGWVRVNGQVAA-MGLQVGPHDRIDVDRAAQGHQRQQ 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRLDINT 118 L HKP+G V+ ++ V P + GRLDI++ Sbjct: 60 VTILLHKPMGYVSGQAEDGHTPAVALINPRTHWKDDESRTRFAPAQLKGLAPCGRLDIDS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIVIQG 169 GLL+LT DG +AR L + + Y VR DKL LL G+ + G Sbjct: 120 VGLLVLTQDGRVARQLIGEDSTVDKEYLVRVQYGDRAQDVRAVFPADKLALLNHGLALDG 179 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + + LREGK R+I+++ E KV L RI G LG L Sbjct: 180 QQLKPALVEWQNPEQ----LRFVLREGKKRQIRRMCELVGLKVVGLKRIRIGQVLLGKLP 235 Query: 230 AGSTREVSKKI 240 G R ++ Sbjct: 236 PGQWRYLAPGE 246 >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 = 139 bits (349), Expect = 7e-31, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 91/231 (39%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K IA G SR++V ++ Q V V G +L A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAVTDVQGEVLY-ADDQV-EHDAIRIDGEPLDPPPG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L+ + + + S + VGRLD +T G+LL+T+DG L Sbjct: 59 FSLLLHKPSGYTCSTKDTGRLIYELLPPRFRSRAPVLAPVGRLDRDTSGMLLMTDDGALL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + +VY V + D+ L G ++ + G + Sbjct: 119 HRIISPKSALDKVYEVSLAEDLRGDEAALFASGTLLLEGETKPLLPAELEVLGPRQ-ARL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EG+ +++++F V L R G L L AG R + L Sbjct: 178 TLHEGRYHQVRRMFAAAGNHVAALHRSRIGGLSLDALPAGQWRALDASDLE 228 >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 = 139 bits (349), Expect = 7e-31, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 108/232 (46%), Gaps = 2/232 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 N R++K +A +G+ SRRE + IA V VNG ++ V TD + DG + Sbjct: 44 NPDEIRLNKYVANSGMCSRREADENIAIGLVSVNGKVVTEMGYKVKRTDEVRFDGQRITP 103 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L +KP G TT ++ GR+ + + + V +GRL N+ GLLL TND Sbjct: 104 -EAKVYVLLNKPKGFATTTAEGKGRTVMDLVANATNANVKPIGRLGRNSLGLLLFTNDDK 162 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + R+++V + + L +K+G ++G ++ + S + Sbjct: 163 IVQKFTNSKNGVARLFQVELDKNLKYEDLKKIKEGFKVEGKLI-TVEDISYIEGESKNKI 221 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + ++ N ++ +F+ FN+ + ++ ++ G + G + ++++ + Sbjct: 222 GLKIKNTGNTILRTIFDNFNYDIVKIDCVAIGHLTKKDIPRGHWKHLTEQEV 273 >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 = 139 bits (349), Expect = 8e-31, Method: Composition-based stats. Identities = 85/355 (23%), Positives = 143/355 (40%), Gaps = 16/355 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSIEVAQDKVDA 266 Query: 244 QL-GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L E A L + +S + +S + + ++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 303 TPVHRRNLASNVWMAKGIH----SSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R S + ++ ++ RSL + Sbjct: 327 NLREDRGRGGRGKPGGFKGGLTVSGEAAAKQSQQRPFKQRGPAKGDRSLPDGNPA 381 >gi|332366092|gb|EGJ43848.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK1059] Length = 241 Score = 139 bits (349), Expect = 8e-31, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 103/231 (44%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A SR+ +++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLEQLLA-ANHISRKNMKQSLLQKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 60 RYYMLNKPAGAVTANRDAEKLTVLDLLDKEVEKENLYSIGRLDRDTEGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + K ++GI + G Q+++ + S + TV Sbjct: 120 QLLHPQYHVEKTYYVEVNGPLTSQKKISFQEGIRFLDGTVCQPAQLSILSTSSSLSRTTV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK +IKK+F KV L RI +G F L L G R ++K+ L Sbjct: 180 RISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNKEEL 230 >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 = 139 bits (349), Expect = 8e-31, Method: Composition-based stats. Identities = 73/261 (27%), Positives = 111/261 (42%), Gaps = 6/261 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR- 74 + K + AG SRRE+ + RV VNG E + + D I +D P+ AE R Sbjct: 8 LLKALRDAGCGSRRELAEAVKAGRVAVNGTTAESFSAAITPADVITLDSRPVVTAESARV 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP+G++TT DP GR TV D LP R+ VGRLD NT GL++LTNDG L Sbjct: 68 YLLLNKPLGVITTTEDPQGRPTVIDLLPPDWQQKRLFPVGRLDENTTGLIILTNDGELTN 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V ++ + +K G + + + + + + Sbjct: 128 RLTHPRYGVEKEYLVGIDRSLNSEDFEKIKSGGLELDDGPASPAR--ISPVNAAPFNYRI 185 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 + EG+ R ++++F +V L RI G +LG L G+ R+++ LR Sbjct: 186 SIHEGRKRIVRRLFAALGHQVRVLRRIRVGSLELGNLKEGNWRQLTPLELRRLEAVPRRP 245 Query: 252 EAQVNLDAPIYSSETLVRDRP 272 Sbjct: 246 GRAGGRYQSASGDRPRNPRSR 266 >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 = 139 bits (349), Expect = 8e-31, Method: Composition-based stats. Identities = 61/220 (27%), Positives = 101/220 (45%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A G+ASRR E +I RVKV + A+++ D + VDG + + Sbjct: 1 MRLNRYLALCGVASRRRSEDIIRTGRVKVENVTATDPAMDISEEDQVSVDGKSVCFQKSV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + + 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 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +EG REI+ + F+ VN L R G +L L +G Sbjct: 181 QEGLKREIRIMASHFSLSVNVLFRRKVGRMELRKLKSGEY 220 >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 = 139 bits (349), Expect = 8e-31, Method: Composition-based stats. Identities = 73/251 (29%), Positives = 104/251 (41%), Gaps = 29/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A G+ SRRE + IAQ V+VNG + + V D I+VD + Sbjct: 113 MRLNKRMADLGLCSRREADDWIAQGWVRVNGQVAA-MGLQVGPHDRIDVDRAAQGHQRQQ 171 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRLDINT 118 L HKP+G V+ ++ V P + GRLDI++ Sbjct: 172 VTILLHKPMGYVSGQAEDGHTPAVALINPRTHWKDDESRTRFSPAQLKGLAPCGRLDIDS 231 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIVIQG 169 GLL+LT DG +AR L + + Y VR DKL LL G+ + G Sbjct: 232 VGLLVLTQDGRVARQLIGEDSTVDKEYLVRVQYGDRAQDVRAVFPADKLALLNHGLALDG 291 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V + + LREGK R+I+++ E KV L RI G LG L Sbjct: 292 QQLKPAVVEWQNPEQ----LRFVLREGKKRQIRRMCELVGLKVVGLKRIRIGQVLLGKLP 347 Query: 230 AGSTREVSKKI 240 G R ++ Sbjct: 348 PGQWRYLAPGE 358 >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 = 139 bits (349), Expect = 9e-31, Method: Composition-based stats. Identities = 57/231 (24%), Positives = 90/231 (38%), Gaps = 5/231 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K IA G SR++V ++ Q V V G +L A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAVTDVQGEVLY-ADDQV-EHDAIRIDGEPLDPPSG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L+ + + + S + VGRLD T G+LL+T+DG L Sbjct: 59 FSLLLHKPSGYTCSTKDTGRLIYELLPLRFRSRAPVLAPVGRLDRETSGMLLMTDDGALL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + +VY V + D+ L G ++ + G + Sbjct: 119 HRIISPKSALDKVYDVTLAEDLRGDEAALFSSGTLLLEGETKPLLPAELDVLGPR-EARL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EG+ +++++F V L R G L L +G R + L Sbjct: 178 TLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLEGLPSGQWRTLEAPDLE 228 >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 = 139 bits (349), Expect = 9e-31, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 101/234 (43%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K +A G+ SRR+VE I RV G + +V + + VD V +R + Sbjct: 1 MRLNKYLALCGVGSRRKVEEFIFAGRVVCGGYQVTEPGYDVPDGEIVTVDDVEVRPERKI 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ + + R+ VGRLD+ +EGLL+LTNDG ++ Sbjct: 61 YMVLHKPRGYICAVSDRNYPVILDLLPREYDYYRLFPVGRLDLQSEGLLMLTNDGDFSQE 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V ++ ++ L+ G V +G + V ++ W+ L Sbjct: 121 MIHPRAGITKEYEVLLDRMPNEREMRQLRDGTVFEGKRLHPVGVDFLQREPEGRWLRFVL 180 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 EG REI+ + E KV L R G +L L +G RE S LR + Sbjct: 181 NEGVKREIRLIAEGAGLKVQVLFRRRIGRMELRHLKSGCAREYSADQLRRMIRH 234 >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 = 139 bits (349), Expect = 9e-31, Method: Composition-based stats. Identities = 85/356 (23%), Positives = 144/356 (40%), Gaps = 17/356 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQDKVDA 266 Query: 244 QL-GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L E A L + +S + +S + + ++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 303 TPVHRRNLASNVWMAKGIH-----SSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + Q+ +R P+ + +L + Sbjct: 327 NLREDRGRGGRGKPGGFKGGLTVSGEAAARQSQQRPFKQRGPAKGDRGALPDGNPA 382 >gi|226939001|ref|YP_002794072.1| RsuA [Laribacter hongkongensis HLHK9] gi|226713925|gb|ACO73063.1| RsuA [Laribacter hongkongensis HLHK9] Length = 231 Score = 139 bits (349), Expect = 9e-31, Method: Composition-based stats. Identities = 48/229 (20%), Positives = 83/229 (36%), Gaps = 3/229 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 ++ +++ R G +SR+ +I Q RV V G + + + V VD E Sbjct: 1 MQLERLLHREGWSSRKGCRILINQGRVCVAGEVADDPGLEVEPEGLAYSVDDEAAIAREH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 61 LYLILNKPLDLECSRKPTVRTGVLTLFPPRYSERGVQPVGRLDADTSGLLLLSDDGQFIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + Y V+ + L L G+V+ + + + + Sbjct: 121 RITSPKHLVPKTYVATCARPVEPEHLRQLLAGVVLNDDPAPVV--ARSARTLDEHTLELV 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EG+ +++++ + L R G L L G RE++ L Sbjct: 179 VTEGRYHQVRRMIAAVGNHCDALHRSRIGELVLDGLAPGQWRELTAAEL 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 = 138 bits (348), Expect = 9e-31, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 104/235 (44%), Gaps = 6/235 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R+ K++AR G+ SR+EV R+I +V+V G ++ +V +EV+G PL Sbjct: 11 RGERLDKLLARLGLGSRKEVGRLIRSGKVRVGGGVVLDPGFHVPEGAALEVEGRPLAVRR 70 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L+ + + P + + VGRLD +TEGLLL T DG L Sbjct: 71 HLHLLLHKPAGYVTSRKEGPSVYALLEGFPTRDL---SPVGRLDKDTEGLLLFTTDGELL 127 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P + + Y V + ++GI++ G + WV + Sbjct: 128 HRLTHPRHKVEKRYLVHLLHPATAADVRAFQEGILLSGEKTLPAR---LHLGEDPTWVEL 184 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+ ++K++F+ +V L R++ GP L L G+ R ++ + R Sbjct: 185 TLLEGRFHQVKRMFQARGNQVLYLKRLALGPLTLEDLPLGAARPLTPEEERALYQ 239 >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 = 138 bits (348), Expect = 9e-31, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 107/230 (46%), Gaps = 5/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTR 74 + KV+ A + SRR++ I Q V +NG E + V + D + +G + + R Sbjct: 11 LVKVLVEARLGSRRKMAEAIKQGLVTLNGQKAESYSQPVNTQKDKVTFEGKLVVLSRVRR 70 Query: 75 -LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP +V+T SD GR TV D L + VGRLD T GL+LLTNDG + Sbjct: 71 IYLMLNKPPEIVSTTSDELGRKTVMDLLHRRYEGAGLFPVGRLDEATTGLILLTNDGEMT 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y + + Q L+KGI++ +++ T + + Sbjct: 131 NRLTHPSYEIEKEYLISIDAALTQADKESLEKGILLDDGLTSPARLSRVTDEPPYN-YKL 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK R ++++F + L R +LG L G TRE++ + Sbjct: 190 IIHEGKKRIVRRMFARLGHPIKALKRSRIATLRLGKLEEGKTRELTPGEI 239 >gi|167919518|ref|ZP_02506609.1| pseudouridine synthase family protein [Burkholderia pseudomallei BCC215] Length = 361 Score = 138 bits (348), Expect = 9e-31, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 113 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 172 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 173 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 232 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 233 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 292 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 293 VPLKPAMVSWQNGEQ----LCFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 348 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 349 QGEWRYLGPDE 359 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 52/202 (25%), Positives = 92/202 (45%), Gaps = 8/202 (3%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 +NG + V D + +DG + K E+ +HKP+G+ T +D + + Sbjct: 3 INGEICTH-GALVSDGDRVTIDGQVIVKEEKEKVYIAFHKPVGITCTAADHIEDNIIDYI 61 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + R+ VGRLD +EGL+LLTNDGG+A + + + Y V ++ Sbjct: 62 --NYPERIFPVGRLDKASEGLILLTNDGGIANQILHGDHEHEKEYVVTVDKPFTDWFIDE 119 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + +G+ I+ +VT + + L +G NR+I+++ F + V +L R+ Sbjct: 120 MSRGVKIKDGMTKPCKVTRV----DQSTFRIVLTQGMNRQIRRMSRAFGFTVIKLKRVRI 175 Query: 221 GPFQLGTLLAGSTREVSKKILR 242 +L L G R V+ + L Sbjct: 176 MNIELNELEVGKWRSVTAEELE 197 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 87/359 (24%), Positives = 146/359 (40%), Gaps = 25/359 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG + T Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 ESSRVLVYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDSMIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELLRGQSVELAQEKVDA 266 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRP-----------NIISEVPDDFTRMKKNS 289 LR +L + + L I N + D+ +++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 290 SQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + + P + + A S + RS + + R Sbjct: 327 NLREDRGGRGGRGKPGGFKGGLTVSGEAAAKQSQQRPFKQRGPAKGDRSLPDGNPAAFR 385 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 53/206 (25%), Positives = 97/206 (47%), Gaps = 8/206 (3%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 +NG + + V D + +DG + K + +HKP+G+ T +D + + Sbjct: 3 INGEVCKH-GTIVTENDIVMIDGKTIEKEDKEKIYIAFHKPVGITCTAADHIDGNIIEYI 61 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + R+ VGRLD +EGL+LLTNDG +A + + + Y V ++ Sbjct: 62 --NHPERIFPVGRLDKASEGLILLTNDGRIANQILHGDYEHEKEYIVTVDKPFTDWFIDG 119 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + +G+ I+ +VT +++ + L +G NR+I+++ F + V +L R+ Sbjct: 120 MSRGVKIKDGITKQCKVTRV----NSSTFRIILTQGMNRQIRRMSRAFGYTVTKLKRVRI 175 Query: 221 GPFQLGTLLAGSTREVSKKILREQLG 246 +L L AG R V+ + L+E L Sbjct: 176 MNIKLDGLEAGEWRNVTVQELQELLK 201 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 92/236 (38%), Gaps = 10/236 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAER 72 ++ ++ G +RR +I Q V V GI A+ V V GV E+ Sbjct: 1 MQLQDILFSQGFGTRRVCAGLIQQGFVAVAGIPCTEPAMEFVAEDLRFTVQGVAWEYHEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDG------RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L L+ + S + + V +VGRLD +T GLLLL++ Sbjct: 61 AYLMLHKPAGYECSQKPSTYPSIYTLLPSPIRQRGGGAAAGVQAVGRLDQDTTGLLLLSD 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + P +VY V VD ++ L G+V+ ++ +K Sbjct: 121 DGKFIHRMSSPRHHVPKVYEVTAKHAVDDRQVQKLLAGVVLDDDP-KPVR-AAACEKTGE 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +++ L EGK ++K++ +V L R G L L G R ++ + L Sbjct: 179 LQLSLTLTEGKYHQVKRMIAAVGNRVEDLHRSQLGGLMLPEDLKPGQWRWLTAQDL 234 >gi|167570375|ref|ZP_02363249.1| pseudouridine synthase family protein [Burkholderia oklahomensis C6786] Length = 414 Score = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 166 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 225 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y + LVT + G + P + GRLDI++ Sbjct: 226 VTILLHKPVGYVSGQAEDGYAPAVTLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 285 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 286 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERMADIDQHFPAESLAKLRHGLELDG 345 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 346 APLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 401 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 402 QGEWRYLGPDE 412 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 53/240 (22%), Positives = 96/240 (40%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ +R+ I + V VNG ++ V ++ + G L Sbjct: 1 MRLDKFICKSTELNRKHASDCIERAEVSVNGEVITDVRFQVHESNEVRYKGQRLVARPSR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ ++++ D D S + VGRLD +T GL+LLT+DG + Sbjct: 61 YIMLHKPI-HTLSSNVDGDYPSLFRCIDIDRVEDLHIVGRLDADTTGLVLLTDDGRWSFD 119 Query: 134 LELPSTQWLRVYRVRFHGQV----DQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNA 187 + P Q + YRV + D + + G+ +Q ++ + + Sbjct: 120 IIRPDKQCAKTYRVMLRDPIAGDVAADVIARFEAGLQLQNEQALTLPAKLEIV----APR 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EGK ++K++F +V L R G L L G R +S ++ P Sbjct: 176 EVLLTITEGKYHQVKRMFAAVGNRVIGLHREQIGDLSL-DLKVGEWRYLSDTEVKRLSTP 234 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 52/232 (22%), Positives = 89/232 (38%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q + + G +L A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAIT-DAQGEVLY-ADDQV-EHDAIRIDGEPLDPPA 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + + VGRLD T G+LL+T+DG L Sbjct: 58 GLSLLLHKPSGYTCSTKDTGRLIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY + + ++ L G ++ + G Sbjct: 118 LHRIISPKSALDKVYDITLAEDLRGEEAALFASGSLLLDGETKPLLPAELEVLGPRQ-AR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLSSGQWRALEANDLE 228 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 103/235 (43%), Gaps = 2/235 (0%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K IA +GI SRRE + I+ +V VNG ++ V D + DG + E Sbjct: 52 GIRLNKYIANSGICSRREADLYISTGQVTVNGEIINEMGFKVNLDDDVRFDGRRINP-EA 110 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G T S+ G + + S SR+ VGRL N GLLL TND + + Sbjct: 111 KAYVLLNKPKGFSVTTSNAKGMTVMDLVASSTKSRIQPVGRLGRNATGLLLFTNDDKVMK 170 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L T R++ + + + L+ +KKG+ + G ++ V + Sbjct: 171 KLTNSKTGLPRLFHIELDKNLKAEDLDKIKKGLTVDGKRLE-IEDLSYVDGAPKKEVGLK 229 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +R N I+ +FE ++V R+ + G L G R + ++ + + Sbjct: 230 MRNVGNSIIRSIFEHLGYQVVRVDCVILGTLTKKDLPRGKYRHLKEQEIHNLMML 284 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 82/351 (23%), Positives = 142/351 (40%), Gaps = 12/351 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS++ R Y VR ++ + L +G++++ + Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLEDGTAKFDTIERIGNTD 205 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ K + Sbjct: 206 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPKTQVEA 265 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LE+ + + D+ N+ S++ + Sbjct: 266 LRTQLKLEKDMPLALTLQPIIGQRRSAKATLHVNRNDNNKHAYHNNHSTADESRELRRFD 325 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK-RSLRRTSAK 353 + + ++ ++ + P RSL S Sbjct: 326 TLRDDRGRGQGKHHFKDRLTVSGEAAAKQAHKPFKQYKPKNDRSLSEGSPA 376 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 85/356 (23%), Positives = 144/356 (40%), Gaps = 17/356 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPVLKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV++ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGHSVEVAQDKVDA 266 Query: 244 QL-GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L E A L + +S + +S + + ++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 303 TPVHRRNLASNVWMAKGIH-----SSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + Q+ +R P+ + +L + Sbjct: 327 NLREDRGRGGRGKPGGFKGGLTVSGEAAARQSQQRPFKQRGPAKGDRGALPDGNPA 382 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 51/231 (22%), Positives = 105/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A R+++++++A++++ V+ + ++ + N+ I++ +++ Sbjct: 1 MRLDQLMADHQYA-RKDIKQLLARRQILVDHLPAQKLSQNIDPGLQQIQIGERIIQEPRH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + + +GRLD +T GLLL+T++G L Sbjct: 60 HYYMLHKPIGAVTAKRDAHHPTVIDLVDPQQEYPDLYPLGRLDRDTSGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P +VY V +G + + + GI +T+ S + V Sbjct: 120 QLLHPQYHVEKVYEVEVNGPLYAAHIEQFQNGISFTDGPICKPASLTILESTPSYSKAQV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++KK+F KV L R+S+GPF L L G +R +++ L Sbjct: 180 RISEGKYHQVKKMFLAIGVKVMTLKRLSFGPFTLDPQLAPGESRPLNEVEL 230 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 42/229 (18%), Positives = 92/229 (40%), Gaps = 3/229 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTR 74 + K++ G SR+ +++I V + +++ + EV G E+ Sbjct: 3 LEKMLQSQGFGSRKHCQQLIKNGAVSIQDEVIDNPKHKLDLNHLNFEVYGKSQTYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + + + + VGRLD +T GLLLLT+DG + L Sbjct: 63 IALNKPQGYECSHQATHHFSVFDLFDDILLNRGIQCVGRLDHDTTGLLLLTDDGQFLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY+++ V +++ L++G+ ++ + + + + + Sbjct: 123 THPKKHVAKVYQMQTADPVTDEQIQQLEQGVELRNEKGIFAATEVARLAENR--LQMTIH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G ++K++ KV +L R G L L G ++ + + + Sbjct: 181 QGVYHQVKRMLAAVGNKVEQLHRAQIGALALPELAEGEWLYLNAEQVAQ 229 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 57/232 (24%), Positives = 103/232 (44%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + + +RR ++A RV+V+G ++ + IEVDG L+ Sbjct: 1 MRLDRFLGNLPDFNRRNSRLLLASGRVRVDGQVVRDGCSEIREFSRIEVDGRILQPGRAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ HKP G+V+ R+ + + GRLD+ T GLLLLTNDG +R Sbjct: 61 LYFMLHKPAGVVSATRHERHRTVLDLLDEPDRQGLHLAGRLDLGTTGLLLLTNDGHWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P + +VY V + ++ + + + + + L + + Sbjct: 121 ITHPRYKLAKVYYVETAEPIGEEYIETFARGLYFAFEDLVTQPAHLELL----GSHSARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 L EG+ ++K++F +F V RL R S GP +L L G R ++ + ++ Sbjct: 177 TLFEGRYHQVKRMFGYFRNPVLRLHRESMGPLRLESELPPGHYRPLTSEEIQ 228 >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 = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 64/247 (25%), Positives = 117/247 (47%), Gaps = 17/247 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I +V VNG ++ + + +D I ++ ++ + Sbjct: 1 MRLNKFISHNTGYSRREADELIKNGKVSVNGRIISD-FIEINESDKIRINKHLIKLKKDF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + + D GR T++D+LP FS+ +S+GRLD +EGLLLLT+ +A Sbjct: 60 TMIIYNKPKGELVSKKDDRGRKTIYDSLPKGFSKFVSIGRLDYASEGLLLLTDAPAIATA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTL 179 L + + +V+ + + +K G + + + Sbjct: 120 LMQSNIEREYYLKVKGE--ITDEIKTAMKDGFFAKDATKGAHPKTEIKSMNFAPFVAFDI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + V ++EG+NRE+++ F +F+ +V L R+S+G LG L R + Sbjct: 178 FGSSGGYTKLRVLIKEGQNRELRRFFGYFDLEVMDLKRVSFGIIDLGMLKESKWRYFTNS 237 Query: 240 ILREQLG 246 E G Sbjct: 238 EYEELRG 244 >gi|330898470|gb|EGH29889.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. japonica str. M301072PT] Length = 230 Score = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V +A RV+V+G V + +D L+ + Sbjct: 1 MRLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAIKFAEGLYFAFENLTTQPAQLTLLGPQSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV RL R + G L L GS R ++ + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRETIGALALDPGLRPGSYRALNAGEI 227 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 91/233 (39%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMS--TDHIEVDGVPLRKA 70 ++ K +A G SR+EV M + RV +G +L D++ VDG PL Sbjct: 1 MKLVKHLANLGYGSRKEVAWMFREGRVTDADGEVL----YQDDPLDHDNVRVDGEPLDPP 56 Query: 71 ERTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L L+ + + + +VGRLD T GLLL+T+DG Sbjct: 57 QGLLLMLHKPAGYTCSTKDKGRIVYDLLPPRFRLRDPVLSTVGRLDRETTGLLLMTDDGQ 116 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P ++ +VY + D+ L G ++ + G Sbjct: 117 LLHRIVSPKSKLAKVYEADLAEDLRGDEAQLFASGTLMLESETTPLLPAQMEVLGPRR-A 175 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V L EG+ +++++F V L R G LG L G R++ + L Sbjct: 176 RVVLHEGRYHQVRRMFAAVGNNVVALHRPRIGGLALGDLAEGQWRQLGQDDLD 228 >gi|121606483|ref|YP_983812.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] gi|120595452|gb|ABM38891.1| pseudouridine synthase [Polaromonas naphthalenivorans CJ2] Length = 278 Score = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 63/252 (25%), Positives = 99/252 (39%), Gaps = 29/252 (11%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 R++K +A G+ SRRE + IA+ V+VNG+ V + IEV Sbjct: 30 TVRLNKRMADLGLCSRREADDWIARGWVRVNGLPA-VMGQPVAANARIEVAREAEQQQRQ 88 Query: 64 ------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 P+ + + LV + ++ + GRLDI+ Sbjct: 89 QVTILINKPVGYVSGQAEDGHEPAVALVQPENRWRECNSRMRWGFEQLRGLAPAGRLDID 148 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------DKLNLLKKGIVIQ 168 + GLL+LT DG +AR L + + Y VR + +KL LL G+ + Sbjct: 149 SIGLLVLTQDGRVARQLIGEDSDMEKEYLVRVSYGAENVNVQAAFPREKLALLCHGLSLD 208 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G QV+ + + L+EGK R+I+++ E V L R+ G LG L Sbjct: 209 GQLLRPAQVSWQNPEQ----LRFVLKEGKKRQIRRMCEQVGLFVTGLKRVRIGRVNLGHL 264 Query: 229 LAGSTREVSKKI 240 G R + Sbjct: 265 PIGQWRYLMPHE 276 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 81/351 (23%), Positives = 142/351 (40%), Gaps = 12/351 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS++ R Y VR ++ + L +G++++ + Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLEDGTAKFDTIERIGNTD 205 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W + ++EG+NRE+++++E +V+RL R YG L LL G + E+ K + Sbjct: 206 SHDWFRIVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPKTQVEA 265 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LE+ + + D+ N+ S++ + Sbjct: 266 LRTQLKLEKDMPLALTLQPVIGQRRSAKATLHVNRNDNNKHAYHNNHSTADESRELRRFD 325 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK-RSLRRTSAK 353 + + ++ ++ + P RSL S Sbjct: 326 TLRDDRGHGQGKHHFKDRLTVSGEAAAKQAHKPFKQYKPKNDRSLSEGSPA 376 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 81/351 (23%), Positives = 142/351 (40%), Gaps = 12/351 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ I+ +KVNG + + ++V S D IE+DG Sbjct: 27 ERLHKVLAQAGLGSRRALEQRISNGLIKVNGDIAQ-LGMSVKSGDKIELDGRSFVASALT 85 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + +R I++GRLDINT GLLLLT DG Sbjct: 86 EPARVLIYNKPEGEVTTREDPEGRPTVFETLPVLKGARWIAIGRLDINTTGLLLLTTDGE 145 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS++ R Y VR ++ + L +G++++ + Sbjct: 146 LANAMMHPSSEIEREYVVRVRSPEGEEHVQDELLEQLTRGVMLEDGTAKFDTIERIGNTD 205 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W + ++EG+NRE+++++E +V+RL R YG L LL G + E+ K + Sbjct: 206 SHDWFRIVVKEGRNREVRRLWESQGCQVSRLKRTRYGSVLLPRELLRGQSTELPKTQVEA 265 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 LE+ + + D+ N+ S++ + Sbjct: 266 LRTQLKLEKDMPLALTLQPVIGQRRSAKATLHVNRNDNNKHAYHNNHSTADESRELRRFD 325 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK-RSLRRTSAK 353 + + ++ ++ + P RSL S Sbjct: 326 TLRDDRGHGQGKHHFKDRLTVSGEAAAKQAHKPFKQYKPKNDRSLSEGSPA 376 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 103/232 (44%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ KVI + SR+E++R+ Q +V V+ + R NV S I V G L ER Sbjct: 1 MRLDKVIEQQLNTSRKEMKRLFQQGKVLVDQRIEGRPERNVDSAIHQIIVAGRQLETQER 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + +VGRLD +TEGL+L+T +G L Sbjct: 61 -YYIVNKPNGVVTANVDQQHQTVIDLIAPKDQHPDLYAVGRLDRDTEGLVLVTTNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 L P+ + + Y V + V + + GI G +T+ + + ++V++ Sbjct: 120 DLLHPTKKVTKRYEVVVNDLVTPEDVAAFATGITFHGGVTCKPAALTIIDARAARSFVSL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + EGK ++KK+F KV +L R + G L L GS R ++++ L+ Sbjct: 180 EIAEGKFHQVKKMFLARGKKVIQLKRTAMGSLVLPDDLAVGSYRSLTQEELK 231 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 94/235 (40%), Positives = 137/235 (58%), Gaps = 3/235 (1%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWLYHKP 81 +G+ SRRE E+ I V VNG ++ A V D + VDG L K ++T++W+ +K Sbjct: 2 SGLCSRREAEKRIQSFDVTVNGHVVADVATKVDAEKDVVAVDGRVLSKTQKTKVWMAYKM 61 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARVLELPST 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 EIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 E++K V +LIR+ YGP++L L +G+ EV K L ++ E+ Q Sbjct: 182 EVRKALAHVRLVVKQLIRVQYGPYRLADLPSGAVLEVRPKSLEKKQYRKRDEDEQ 236 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 39/229 (17%), Positives = 79/229 (34%), Gaps = 5/229 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + +++ G +R+ +I V +NG + ++D + R + Sbjct: 6 LDRILQSQGFGTRKYCRNLIEDGEVSINGESVTDYRAAFDTSDLEFTIFDEVWRYRQHVY 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + + VGRLD +T G+LL+++DG Sbjct: 66 IVLNKPANFECSRKPSHHPGVLTLLPEQFTWRELQPVGRLDHDTTGMLLMSDDGPFIHAQ 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY H V + + L G+ + T + + + L Sbjct: 126 SSPKRHIPKVYVATTHDPVTPELIAQLLGGVQLHDEPAPLAAQTCRMLGAN--ELEIVLE 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 +GK ++K++ + L R++ G L L G ++ L Sbjct: 184 QGKYHQVKRMLAAAGNHCSALRRVAIGALTLESLELDEGEWAYLTDAQL 232 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 97/233 (41%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ + + + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRIPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L+ + S + + + +VGRLD T GLLL+T+DG Sbjct: 65 PGVCLMLHKPLGVTCSHKEVGPLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTDDGA 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + + YRV + D+ +L G ++ + + ++ + Sbjct: 125 LLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPL-LPVEMETDDPTHC 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 TV L EG+ +++++F V+ L R G L L AG R + + Sbjct: 184 TVTLHEGRYHQVRRMFAALGNHVDALHRDRVGGLALPADLPAGEFRILGPGEI 236 >gi|260222138|emb|CBA31404.1| hypothetical protein Csp_F37360 [Curvibacter putative symbiont of Hydra magnipapillata] Length = 282 Score = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 67/285 (23%), Positives = 103/285 (36%), Gaps = 63/285 (22%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R++K +A G+ASRRE + IA+ VKVNG + + V+ IE+D Sbjct: 1 MRLNKRMADLGMASRREADEWIAKGWVKVNGKVA-EMGMQVLPDVRIEIDKQAQGQQANQ 59 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 PL + I L+ + + F S ++ GRLDI++ Sbjct: 60 VTILLNKPLGIVSGQAEDGHEPAIKLIQPQNRWRDDNARFFFHGSQLKSLVPAGRLDIDS 119 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------------------- 152 GLL+LT DG +AR L + + Y VR Sbjct: 120 TGLLVLTQDGRVARQLIGEDSVMEKEYLVRVAYTGVENPGAANSPAATYPALAGRGKPQQ 179 Query: 153 -----------------VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 +KL LL+ G+++ +V + + L E Sbjct: 180 LIRLDDDDPVTSDVQSVFPPEKLQLLRHGLILDDQRLKPAKVEWQNPEQ----LRFVLTE 235 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 GK R+I+++ E KV L R+ G LG L G R + Sbjct: 236 GKKRQIRRMCELVGLKVVGLKRVRVGKVMLGNLPVGQWRYLLPHE 280 >gi|289677892|ref|ZP_06498782.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae FF5] Length = 230 Score = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V +A RV+V+G V + +D L+ + Sbjct: 1 MRLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENLTTQPAQLTLLGPQSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV RL R + G L L GS R ++ + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRETIGALALDPGLRPGSYRALNAGEI 227 >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 = 138 bits (347), Expect = 1e-30, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 102/230 (44%), Gaps = 5/230 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +G+ +R+ +++ + + VNG +++ A V D + G + E Sbjct: 1 MRLDKMIGNSGLDTRKNIKKNAKKGAILVNGEVVKDTATQVDPEVDEVYYMGHFVDYFEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + ++ D D + + GRLD +T GLLLL+ DG Sbjct: 61 IYVMMNKPAG-FLSATEDKDPTVIDLLDDFYKVIDLSIAGRLDKDTTGLLLLSTDGKFIH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P++ + Y V ++D+ ++L K+G+ I+ Y L+ + A V V Sbjct: 120 KVTSPNSNIEKTYLVECRDKIDESLIDLFKEGVYIKEDDYTARSAKLEILEEKKAIVKVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 EGK +K++F KV +L RI+ G L L G RE+S + Sbjct: 180 --EGKFHLVKRLFSNCCNKVEKLKRIAIGDLSLDEHLAEGEYRELSDDEI 227 >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 = 138 bits (347), Expect = 2e-30, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 90/232 (38%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q V + G +L A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAVT-DAQGEVLY-ADDQV-EHDAIRIDGEPLDPPP 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + S + VGRLD T G+LL+T+DG L Sbjct: 58 GFSLLLHKPGGYTCSTKDTGRLIYELLPPRFRSRAPVLAPVGRLDRETSGMLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY + + D+ L G ++ + G Sbjct: 118 LHRIISPKSALDKVYDITLAEDLRGDEAALFASGSLLLEGETKPLLPAELEVLGPR-EAR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEASDLE 228 >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 = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 67/253 (26%), Positives = 112/253 (44%), Gaps = 18/253 (7%) Query: 4 KNIVQEN--FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHI 60 + E +R+SKV+A AG+ASRR E +I RVKVNG + V D I Sbjct: 230 RRFYNETYRAECERLSKVLAAAGVASRRGSEDIIFAGRVKVNGKVCTVPQTPVNPLKDTI 289 Query: 61 EVDGVPLRKAERTR-LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------- 108 +DG L K + + +KP G + + + + + Sbjct: 290 FLDGRSLPKKPPPKFYFALNKPKGYICSSAKDAPKPALSLLEDYWKIWDKKNPGVSRPRL 349 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +VGRLD+ T GLLL+TNDG A+ + PS+ + Y +V + +L L+ G +Q Sbjct: 350 FTVGRLDVATSGLLLITNDGDFAQRVSHPSSGLTKEYIATVTERVTKRQLQLIAGGTKVQ 409 Query: 169 GICYGDMQVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + +V L + + + + + EG+NRE++++ +V L R+ G L Sbjct: 410 DVHCVPTEVELLPPEPGDARNRIRIVVCEGRNREVRELVANAGLEVLALKRVRIGGLSLS 469 Query: 227 -TLLAGSTREVSK 238 L G +++ Sbjct: 470 RKLSPGKFEVLTE 482 >gi|218512381|ref|ZP_03509221.1| probable RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli 8C-3] Length = 244 Score = 138 bits (346), Expect = 2e-30, 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|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 = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 56/277 (20%), Positives = 104/277 (37%), Gaps = 52/277 (18%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+ + GI SR+E R+I ++R+ +NG V +D I DG P+ E+ Sbjct: 1 MRINKLFSNYGICSRKETNRLIEEKRIIINGRYCVE-GQWVNDSDEIIFDGKPISTVEKV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L T + + + VGRLD +++GL+L+TNDG +A Sbjct: 60 YIVLNKPVGITCTAENKVSDNIISY---MKYPHYIFPVGRLDKDSQGLILMTNDGEVANR 116 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------------ICYGDMQVT-- 178 + + Y V+ + D + L + G+ I G Y ++ Sbjct: 117 ILESDNMHEKEYLVQVNKNFDDEFLKRMSNGVEITGNKSSGVRRISDKLGLYKKIEDKEI 176 Query: 179 ---------------------------------LDTQKGSNAWVTVGLREGKNREIKKVF 205 ++ + + L +G N++I+K+ Sbjct: 177 LLGEEDPGDSSIVQLKELKNIEREQNKFVKTRPCQVERVDDNTFKIILTQGMNKQIRKMS 236 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +KV +L RI +L L G R + + ++ Sbjct: 237 GALGYKVIKLERIRIMNIKLNDLETGKWRYLEENEMK 273 >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 = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 100/228 (43%), Gaps = 3/228 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV + +AR G SRRE ++ +A+ RV+VNG V D I +DG P+ Sbjct: 1 MRVQRALARVGAVSRREADKAVAEGRVQVNGTTAIV-GQLVDPARDRITLDGTPVATQVT 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 W+ V T +L ++ VGRLD TEG+LLLT DG A Sbjct: 60 AHRWIVLHKPAAVMTTRKDPEGRATVFDLVDDAPGLVYVGRLDFMTEGVLLLTTDGTAAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 VL PS + R Y G ++G+ + +VT + Sbjct: 120 VLTHPSHEVERTYVATVRGDAVTAAREA-RRGVKLDDGLVVPSEVTAYPLGERRWAFELT 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + EG+ E++++ + +V RL+R +GP +LG L +G+ R ++ Sbjct: 179 ITEGRTHEVRRICDALGLEVERLVRTRFGPVRLGELPSGAARALTSAE 226 >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 = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 97/233 (41%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ + + + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRIPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L+ + S + + + +VGRLD T GLLL+T+DG Sbjct: 65 PGVCLMLHKPLGVTCSHKEVGPLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTDDGA 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + + YRV + D+ +L G ++ + + ++ + Sbjct: 125 LLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPL-LPVEMETDDPTHC 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 TV L EG+ +++++F V+ L R G L L AG R + + Sbjct: 184 TVTLHEGRYHQVRRMFAALGNHVDALHRDRVGGLVLPADLPAGEFRILGPGEI 236 >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 = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 91/232 (39%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q V + G +L A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAVT-DAQGEVLY-ADDQV-EHDAIRIDGEPLDPPP 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + S + VGRLD T G+LL+T+DG L Sbjct: 58 GFSLLLHKPGGYTCSTKDTGRLIYELLPPRFRSRAPVLAPVGRLDRETSGMLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY + ++ D+ L G ++ + G Sbjct: 118 LHRIISPKSALDKVYDITLAEELRGDEAALFASGSLLLEGETKPLLPAELEVLGPR-EAR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEASDLE 228 >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 = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 52/236 (22%), Positives = 92/236 (38%), Gaps = 10/236 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAER 72 ++ +++ G +RR ++ Q V V G+ A+ + V GV E+ Sbjct: 1 MQLQEILFSQGFGTRRVCAGLVQQGFVTVAGVPCTEPAMEFIAVGLRFTVQGVAWEYHEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTV------FDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L L+ + + V +VGRLD +T GLLLL++ Sbjct: 61 AYLMLHKPAGHECSQKPSTYPSIYTLLPAPIRQRGGGAAAGVQAVGRLDQDTTGLLLLSD 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + P +VY V VD ++ L G+V+ ++ ++ S Sbjct: 121 DGKFIHRMSSPRHHVPKVYEVTAKHPVDAQQVQKLLAGVVLDDDP-KPVR-AAACEQTSE 178 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 +++ L EGK ++K++ +V L R G L L G R ++ + L Sbjct: 179 LQLSLTLTEGKYHQVKRMIAAVGNRVEGLHRSRIGSLALPADLKPGEWRWLTVQDL 234 >gi|317055194|ref|YP_004103661.1| pseudouridine synthase [Ruminococcus albus 7] gi|315447463|gb|ADU21027.1| pseudouridine synthase [Ruminococcus albus 7] Length = 246 Score = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 58/246 (23%), Positives = 102/246 (41%), Gaps = 11/246 (4%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K++A SR +V+++ ++++ VNG L+ R+ V + D I +DG L Sbjct: 3 EIMRLDKLVASQFADISRADVKKLCLKKKIMVNGKLMARSDAKVDTDDEIIIDGRKLTYK 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + L + +T + GRLD +TEG +L+T+DG L Sbjct: 63 KHIYIMLNKPAGVVCSTKEGASTTVLDLVPDELRRDGLFPAGRLDKDTEGFVLITDDGEL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-------ICYGDMQVTLDTQK 183 + + P T + Y VR + +++ G+ I G Q Sbjct: 123 SHRVLSPKTHVPKTYFVRLEKPWEDSYKDIMAAGMTIDGLHEGDSEEKCQPAQ--FLASD 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + T+ + EGK ++K++FE KV L R++ G L L G E+ K + Sbjct: 181 ENVCECTLIIHEGKFHQVKRMFEKLGNKVVYLKRVAIGEMPLDRGLELGECLEIMHKDVE 240 Query: 243 EQLGPH 248 + L Sbjct: 241 KLLARK 246 >gi|218530506|ref|YP_002421322.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] gi|218522809|gb|ACK83394.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] Length = 242 Score = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 55/233 (23%), Positives = 97/233 (41%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLRKA 70 R+ +++A G SRREVE + V+++G L A+ + + + V G L Sbjct: 5 RLDRLLANLGYGSRREVEGLARAGLVRLDGQALRDASQRIPLEPDLSARMTVQGEALDPL 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L+ + S + + + +VGRLD T GLLL+T+DG Sbjct: 65 PGVCLMLHKPLGVTCSHKEVGPLVYSLLPERWRRRDPALSTVGRLDKETSGLLLMTDDGA 124 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + + YRV + D+ +L G ++ + + ++ + Sbjct: 125 LLHRIISPKAKVSKRYRVTLARPLQGDETAILASGEMMLEGEDKPL-LPVEMETDDPTHC 183 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 TV L EG+ +++++F V+ L R G L L AG R + + Sbjct: 184 TVTLHEGRYHQVRRMFAALGNHVDALHRDRVGGLVLPTDLPAGEFRILGPGEI 236 >gi|330877468|gb|EGH11617.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 230 Score = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 102/230 (44%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G + +V + +D L+ + Sbjct: 1 MRLDRFLSNLPRFNRKSVRLALASGRVQVDGQITTDPHYDVREFSCVALDAEILQPGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ +D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPQGCVSATTDAQHATVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + I Q+T+ + + + Sbjct: 121 LTQPQTKMPKVYYVETEQLIDERYALTFAEGLFFSFENIITQPAQLTVLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EG+ ++K++F F+ KV +L R S G L L G R + Sbjct: 177 SIIEGRYHQVKRMFGHFDNKVLQLHRESIGALILDPALPPGGYRSLQAAE 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 = 138 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 63/245 (25%), Positives = 110/245 (44%), Gaps = 13/245 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRR+ +++I + +VK+N L A D I V+G L E+ Sbjct: 6 MRLNQFIAHNLPCSRRQADKLIKEGKVKINHQLA-SFATPFSPYDKIFVEGRMLNSYEKR 64 Query: 74 RL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +YHKP G + + D GR T+F++L S F +GRLD + GLLLL++ + Sbjct: 65 SYTVLVYHKPKGELVSRIDHRGRKTIFESLESKFRHFTPIGRLDFASMGLLLLSDSKQVV 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----------CYGDMQVTLDT 181 L S + + + +++ + + + M + Sbjct: 125 NALMHSSLERVYLVKIQGNITQTMLEAMQTGLELQGLEGAHPKSKYTRMHIAPMACQILK 184 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + L+EG NREI++ F F +V L R+S+G L L G TR ++ K Sbjct: 185 NHRNYSKIKITLQEGHNREIRRFFAHFKKEVLDLRRVSFGFVSLNALPVGKTRYLNPKEY 244 Query: 242 REQLG 246 ++ Sbjct: 245 KQLHQ 249 >gi|330964551|gb|EGH64811.1| ribosomal small subunit pseudouridine synthase A [Pseudomonas syringae pv. actinidiae str. M302091] Length = 230 Score = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 57/230 (24%), Positives = 101/230 (43%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G + +V + D L+ + Sbjct: 1 MRLDRFLSNLPRFNRKSVRLALASGRVQVDGQITTDPHYDVREFSCVAFDTEILQPGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ +D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPQGCVSATTDAQHATVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + I Q+T+ + + + Sbjct: 121 LTQPQTKMPKVYYVETEQLIDERYALTFAEGLFFSFENIITQPAQLTVLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EG+ ++K++F F+ KV +L R S G L L G R + Sbjct: 177 SIIEGRYHQVKRMFGHFDNKVLQLHRESIGALILDPALPPGGYRSLQAAE 226 >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 = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 54/243 (22%), Positives = 100/243 (41%), Gaps = 18/243 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+SK++++ + SRRE + I V V+G+++ R V IE+ + Sbjct: 175 EPPRLSKLVSQLALCSRREADEWIENGWVTVDGVVVTRLGARVSPKAKIEITNAASQHQT 234 Query: 72 RTRLWLYHKP--------------IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +++KP L+ + T S + G+LD Sbjct: 235 ASVTIVFNKPIGDAAAPDAGLAAIATLIRPDTHWAEDGTCRRFQASHLRGLAVAGKLDTE 294 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 G+L+ T DG +AR L + Y +R G++ D L LL+ G+ + + QV Sbjct: 295 EHGMLVFTQDGSVARRLTGGGARLENEYHLRVQGELSPDGLQLLRHGLSLDNVRLERAQV 354 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +++ + + E + R+I++ E +V + R+ G LG L G R + Sbjct: 355 SWLSEQQ----LRFVVHENRKRQIQRQCELVGLQVTDIKRVRIGGVSLGKLPPGQWRYLR 410 Query: 238 KKI 240 Sbjct: 411 PDE 413 >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 = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 71/264 (26%), Positives = 111/264 (42%), Gaps = 7/264 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR 68 +F P R+ K +A AG+ SRR E +IA V VNG + V D + G P+R Sbjct: 3 SFEPIRLQKYLADAGVCSRRAAEALIASGEVWVNGAPAQV-GQKVTPGVDRVTTGGKPVR 61 Query: 69 --KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-FSRVISVGRLDINTEGLLLLT 125 R L ++ + T + + R GRLD ++EGL++LT Sbjct: 62 TTAQPRVTLAMHKPRGLVCTNEDPHNPETIFSVLPREFAKLRFFCAGRLDKDSEGLVILT 121 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 DG LA L PS ++ Y V +L LL KG++ QG + L S Sbjct: 122 TDGDLAHRLMHPSNLVVKRYHVTLEKPFPAKRLPLLVKGVIAQGERLKVERAALINPSVS 181 Query: 186 N--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + V + GK REI+ +F + V RL R G F+L + + +++S + Sbjct: 182 HEATNLDVHMHHGKKREIRLLFTELGYPVKRLRRYQIGGFRLKGIPLRAMKKMSPAEIES 241 Query: 244 QLGPHLLEEAQVNLDAPIYSSETL 267 A + + A ++S Sbjct: 242 LFRVPRTPHAAIEVTAESFASHHA 265 >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 = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 54/233 (23%), Positives = 105/233 (45%), Gaps = 3/233 (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+ + + Sbjct: 132 WSRRLTEPRIKLPKVYRVTTVEPVSTNAIERFAQGIWFEYERLTTSPARLEPLSANES-- 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + EG+ +IK++F +V+ L R G L TL G +R ++ + + Sbjct: 190 RVTIYEGRYHQIKRMFHATGNRVSSLHREQMGAITLDPTLEPGESRPLTSREI 242 >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 = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 50/231 (21%), Positives = 105/231 (45%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A A R+++++++A++++ V+ + ++ + N+ I++ +++ Sbjct: 1 MRLDQLMADHQYA-RKDIKQLLARRQILVDHLPAQKLSQNIDPGLQQIQIGDRIIQEPRH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L+ + + + + +GRLD +T GLLL+T++G L Sbjct: 60 HYYMLHKPIGAVTAKRDAHHPTVIELVDPQQEYPDLYPLGRLDRDTSGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P +VY V +G + + + GI +T+ S + + Sbjct: 120 QLLHPQYHVEKVYEVEVNGPLYAAHIEQFQNGISFTDGPICKPASLTILESTLSYSKAQI 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++KK+F KV L R+S+GPF L L G +R +++ L Sbjct: 180 RISEGKYHQVKKMFLAIGVKVMTLNRLSFGPFTLDPQLAPGESRPLNEVEL 230 >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 = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 55/244 (22%), Positives = 97/244 (39%), Gaps = 11/244 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ +R + I + VNG + + V ++ + G L Sbjct: 1 MRLDKFICKSTELNRAQASECIECAEISVNGETITEVSFQVHESNSVVFKGQRLVARPSR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L+ ++++ D D S + VGRLD +T GL+LLT+DG + Sbjct: 61 YIMLHKPI-HTLSSNVDGDYPSLFRCINIERAEELHIVGRLDADTTGLVLLTDDGRWSFD 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAW 188 + P Q + YRV + D + G+ +Q ++ + T+K Sbjct: 120 IIRPDKQCEKTYRVTLRDAIRDDVADMVARFAHGLQLQNEPALTLPAKLEVVTEK----E 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 V + + EGK ++K++F +VN L R G L L G R +S+ + P Sbjct: 176 VLLTITEGKYHQVKRMFAAVGNRVNGLHRERIGGLSL-ELDVGCWRHLSEDEVNRLSTPT 234 Query: 249 LLEE 252 Sbjct: 235 PQSP 238 >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 = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 105/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V +A RV+V+G V + +D L+ + Sbjct: 1 MRLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P ++ +VY V +D+ + +GI Q+TL + + + Sbjct: 121 LTQPQSKMPKVYYVETEQPIDERYAAKFAEGLYFAFEGITTQPAQLTLLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV RL R + G L L GS R ++ + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRETIGALLLDPDLRPGSYRALNAGEI 227 >gi|325690206|gb|EGD32210.1| ribosomal small subunit pseudouridine synthase A [Streptococcus sanguinis SK115] Length = 241 Score = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 58/234 (24%), Positives = 105/234 (44%), Gaps = 8/234 (3%) Query: 14 QRVSKVIARAGIASRREVER--MIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ +++A A SR+++++ + Q+++ V+G + + NV + I G + Sbjct: 1 MRLDQLLA-ANHISRKKMKQSHL--QKQILVDGKPAYKLSQNVDTGLQQITFQGKHVSGP 57 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + + + S+GRLD +TEGLLL+T++G L Sbjct: 58 AHRYYMLNKPAGAVTANRDAEKLTVLDLLDKEIEKENLYSIGRLDRDTEGLLLITDNGPL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-IQGICYGDMQVTLDTQKGSNAWV 189 L P + Y V +G + + + ++GI + G Q+++ + S + Sbjct: 118 GFQLLHPQYHVEKTYYVEVNGPLTPNDSSSFQEGIRFLDGTVCQPAQLSILSTSSSLSRA 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +V + EGK +IKK+F KV L RI +G F L L G R +++K L Sbjct: 178 SVRISEGKFHQIKKMFLAVGVKVTYLKRIQFGDFTLDPDLAKGDYRALNQKELE 231 >gi|144900938|emb|CAM77802.1| Ribosomal small subunit pseudouridylate synthase [Magnetospirillum gryphiswaldense MSR-1] Length = 230 Score = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 95/231 (41%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNG-ILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ ++IA G S+R++ ++ RV+ +G L+E V + D I VDG PL Sbjct: 1 MRLVRLIANLGYGSQRDIRFLLRDGRVRHADGRELVES--DKV-AHDDIRVDGEPLDPPA 57 Query: 72 RTRLWLYHKPIGLVTTHSD-PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L+ ++ + + VGRLD +T GLLLLT+DG L Sbjct: 58 GLVIMLHKPAGYTCSSSDPGRIVYELLPPRFMHRNPVLAPVGRLDRDTTGLLLLTDDGKL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P + Y V ++ + + G ++ + G N Sbjct: 118 LHRLTSPRHHVPKTYDVTLDRPLEGTEAEIFASGTLMLRSEKTPLAPAQLQVLGPNQ-AR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ ++K++F V L R GP LG L G R ++ + L Sbjct: 177 LTLHEGRYHQVKRMFAAVGNHVVSLHRAGLGPLTLGDLPEGQWRVMAAEEL 227 >gi|217974985|ref|YP_002359736.1| pseudouridine synthase [Shewanella baltica OS223] gi|217500120|gb|ACK48313.1| pseudouridine synthase [Shewanella baltica OS223] Length = 233 Score = 137 bits (345), Expect = 3e-30, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 97/232 (41%), Gaps = 8/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ R I V VNG + A+ V + + ++ PL Sbjct: 1 MRLDKFLCKSTDLDRDAASVAIINGSVTVNGAIATDCAMQVHENNAVCLNEKPLMPRPS- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP + ++ D S + VGRLD++T GL+LLT+DG + Sbjct: 60 RYFMLHKPADTLCSNVDGAYPSLFHLLDIERAFDLHIVGRLDVDTTGLVLLTDDGRWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG----IVIQGICYGDMQVTLDTQKGSNAWV 189 + P Q +VYRV +D + + + +QG + TL V Sbjct: 120 IISPQYQCKKVYRVTLRDPLDSEATAAIAATFAAGLQLQGETALTLPATLQQVDDK--TV 177 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EGK ++K++F KV L R G F L + G RE++ + Sbjct: 178 LLTLTEGKFHQVKRMFAAVGNKVVALHRAQIGAFIL-DVDIGEWRELTLAEI 228 >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 = 137 bits (344), Expect = 3e-30, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 109/230 (47%), Gaps = 1/230 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+ +G SRR+ + I VKVNGI + V D + DG L + Sbjct: 68 DEIRLNKYISNSGACSRRDADIYIQSGNVKVNGIPVIEMGYMVKPGDVVNFDGSVLTPEK 127 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + L + R+ + S S++ +VGR+D NT GLLL TND + Sbjct: 128 KEYILLNKPKNFTTAFDEGQENRNVLELVRGSTNSKIAAVGRMDKNTTGLLLFTNDTDMI 187 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 R LPS + ++Y+V + + L + KG+VI G ++ +K + + V + Sbjct: 188 RRFSLPSQKSSKIYQVSLDKNLKFEDLEKISKGLVIDGHRV-FVEEISYIEKEAKSEVGL 246 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 L+ + ++ +FE F + V R+ R+S+ L G+ R ++++ + Sbjct: 247 KLKTANVKVVRAIFESFKYDVLRIDRVSFAGLTKKNLPRGNWRFLTEQEI 296 >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 = 137 bits (344), Expect = 3e-30, Method: Composition-based stats. Identities = 61/242 (25%), Positives = 111/242 (45%), Gaps = 1/242 (0%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ K + P R++K +A AGI SRRE + I V VNG ++ V+ +D + Sbjct: 231 IEYKEEHIDPNEPIRLNKYLANAGICSRREADEFIQAGVVTVNGNVVTELGTKVLRSDEV 290 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + P+ ++ + L + T+ ++ + + R+ VGRLD NT G Sbjct: 291 KFHEQPVSLEKKVYVLLNKPKDYVTTSDDPQQRKTVMELVKGACEERIYPVGRLDRNTTG 350 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 +LLLTNDG LA L P +VY V V ++ + + +GI ++ Sbjct: 351 VLLLTNDGDLASKLTHPKFLKKKVYHVFLDKAVTEEDMQKIAEGIELEDGEIH-ADAIEY 409 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + V + + GKNR ++++FE ++V +L R+ + + G R +++K Sbjct: 410 ADERDKKQVGIEIHSGKNRIVRRIFESLGYRVIKLDRVQFAGLTKKNVRRGDWRYLTEKE 469 Query: 241 LR 242 + Sbjct: 470 VD 471 >gi|241766432|ref|ZP_04764306.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241363374|gb|EER58885.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 237 Score = 137 bits (344), Expect = 3e-30, Method: Composition-based stats. Identities = 66/239 (27%), Positives = 95/239 (39%), Gaps = 29/239 (12%) Query: 26 ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLV 85 SRRE + IAQ VKVNG + + V +TD IEVD E+ L HKP+G V Sbjct: 2 CSRREADDWIAQGWVKVNGQVAP-MGLQVHATDRIEVDKKAQGFQEQRVTILLHKPMGYV 60 Query: 86 T---------------THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + + P + GRLDI++ GLL+LT DG + Sbjct: 61 SGQAEDGHTPAVALINPRTHWREDPSRNRFSPPQLRGLAPAGRLDIDSVGLLVLTQDGRV 120 Query: 131 ARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 AR + + + Y VR +L L G+ + G +V Sbjct: 121 ARQIIGEDSSMDKEYLVRVQYGDVATNVQAVFPAQQLARLCHGLSLDGQALKPARVEWQN 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L EGK R+I+++ E +V L RI G LG L G R + Sbjct: 181 PEQ----LRFVLTEGKKRQIRRMCELVGLRVVGLKRIRIGRVTLGNLPVGQWRYLGPHE 235 >gi|110004423|emb|CAK98761.1| probable ribosomal large subunit pseudouridine synthase b protein [Spiroplasma citri] Length = 267 Score = 137 bits (344), Expect = 3e-30, Method: Composition-based stats. Identities = 70/237 (29%), Positives = 110/237 (46%), Gaps = 7/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-RKAER 72 +R+ KVIA G SRR+ E +I Q RVKVN +++ V D I + L + Sbjct: 2 ERLQKVIAAKGYCSRRKAEELIIQGRVKVNNVVVTTLGTKVGKNDQI--NNQILMNENSN 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +K V+T DP R TV + I R+ VGRLD +T GLLLLTNDG Sbjct: 60 KIYLMLNKRRNCVSTMYDPQHRKTVLTYVKGISERIYPVGRLDYDTSGLLLLTNDGEFTN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG---DMQVTLDTQKGSNAWV 189 ++ PS + Y V G + + +L L GI I+ ++ + + + + Sbjct: 120 IITHPSHIINKTYHVLLSGYLSKQQLQQLATGIEIEPGIIRSQAQAKLVKYEEVKNVSIL 179 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQL 245 + + E ++KK+ + +V +L RI+ G QL L G R + K ++ Sbjct: 180 LLTIHEVTKHQVKKMIQSLGHEVIKLKRIAIGFLQLDETLKPGEWRYLKPKEIKRFF 236 >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 = 137 bits (344), Expect = 3e-30, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 104/235 (44%), Gaps = 12/235 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + +A + +R +R + + V VNG L ++AA +V TD I G L T Sbjct: 1 MRLDRFLAESTELTRGLAKRALIRGEVSVNGELEKKAARHVQETDRITWLGERLSLV-GT 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R + HKP G+ T V R+ VGRLD+ T GLLL+T+DG + Sbjct: 60 RYIMLHKPEGVECTARRGLYPRAVDLLDVPKVERLQPVGRLDVETTGLLLITDDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDK----LNLLKKGIVIQGI--CYGDMQVTLDTQKGSNA 187 + P + + Y R ++ D+ + +GIV++G ++T + Sbjct: 120 ITSPRRRCPKAYVARLARPLEGDEARRAMQAFAEGIVLEGEDAPTRPAELTCL----DDH 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V + + EG+ +++++ V L R S G L L G RE++ + + Sbjct: 176 RVRLVIDEGRYHQVRRMLAAIGNHVETLHRESVGALVLDDTLEPGEWRELTPEEV 230 >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 = 137 bits (344), Expect = 3e-30, Method: Composition-based stats. Identities = 46/228 (20%), Positives = 87/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + +++ G SR+ +I RV ++G + + ++ + D + VD R ++ Sbjct: 3 IERILHSQGFGSRKVCRALIRAGRVTISGQIQDNPFADLPTADLVFTVDRETWRFRDKAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ + P + V +GRLD +T GLLLL++DG V Sbjct: 63 LMLHKPSGYECSRQPQFHAPVFALLPEPLVNRGVQPIGRLDQDTTGLLLLSDDGQFIHVW 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + ++Y V V++ L G+ + ++ + + + Sbjct: 123 SSGRKRVPKIYEVAVRHPVNETMTEALLAGVQLHDDPEPVA--AAACERTGERSLKLTIT 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ +V L R G L L G R + L Sbjct: 181 EGKYHQVKRMVAAAGNRVESLHRSGIGGLMLPDDLAPGQWRWLDDGDL 228 >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 = 137 bits (344), Expect = 3e-30, Method: Composition-based stats. Identities = 71/238 (29%), Positives = 111/238 (46%), Gaps = 4/238 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R+ KV+A+AG+ASRR E MIA RV+V+G ++ + V + + Sbjct: 74 PDGEKIRLQKVLAQAGVASRRVAEEMIADGRVEVDGEIVTEQGLRVDPSVAVVRVDGVRV 133 Query: 69 K-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLL 124 E +KP G +T SD GR V D + R+ VGRLD +TEGLLL+ Sbjct: 134 VVNENLVHLALNKPRGWHSTMSDDMGRPCVGDIVAERVAAGQRLFHVGRLDADTEGLLLV 193 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 TNDG LA L PS + + Y G+V ++ L+ G+ ++ + ++ Sbjct: 194 TNDGELAHRLMHPSYEVPKTYLAWVAGEVPRNLGKKLRDGVELEDGPVTVDRFSVLEAAE 253 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V V L EG+ ++++ V RL+R G LG GS R + + + Sbjct: 254 GKSTVRVVLHEGRKHIVRRLLAEVGHPVQRLVRTHVGTVALGDQRPGSLRVLGRDEVE 311 >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 = 136 bits (343), Expect = 3e-30, Method: Composition-based stats. Identities = 54/212 (25%), Positives = 95/212 (44%), Gaps = 4/212 (1%) Query: 35 IAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 + + V VNG + + T D + V G L + L + T + Sbjct: 17 LEKGLVLVNGRAEKSPKTQINETEDEVVVSGQKLTYEKFVYYLLNKPKGYISATEDERHK 76 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 + ++ V VGRLDI+T GLLLLTN+G LA + P ++YR + G + Sbjct: 77 TVLDLLDETALQKEVFPVGRLDIDTHGLLLLTNNGKLAHAMLSPKKHVEKIYRAQVAGLM 136 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +Q + +GI ++ Q+ + ++ + V + L EGK ++K++ + Sbjct: 137 NQSDVEQFARGIELKDFTCQPAQLKILEVDEEKETSLVEISLAEGKFHQVKRMVAACGKE 196 Query: 212 VNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V L R++ GP QL L G R ++++ L+ Sbjct: 197 VTDLQRLTMGPLQLDPELALGEWRRLTEEELK 228 >gi|119896376|ref|YP_931589.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119668789|emb|CAL92702.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 248 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 40/233 (17%), Positives = 77/233 (33%), Gaps = 10/233 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-------HIEVDG 64 ++ +++ G SR++ ++ V V G+ + VD Sbjct: 2 QAMQIERLLHSQGFGSRKDCRALLRAGYVSVAGVPCDDPRAEFDPGSKDGSPGLEFTVDD 61 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + L L+ + + V +GRLD +T GLLLL Sbjct: 62 EIWHFRAQAYLMLHKPAGYECSHKPTFHPSVFTLLPPQLLNRGVQCIGRLDQDTTGLLLL 121 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 ++DG + +VY + D + L G+ + + Sbjct: 122 SDDGQFIHQWSSGKKRTPKVYEIGLKHAADDALVAALLAGVELHDEPTPIAAAACEIT-- 179 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREV 236 ++ + + + EGK ++K++ +V L R G L L G R + Sbjct: 180 ASHALRLTITEGKYHQVKRMVAAAGNRVETLHRSRVGGLTLDPALKPGEWRWL 232 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 63/237 (26%), Positives = 110/237 (46%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKA- 70 +++ K++AR G SRR +E +I VK+N +++ + + ++ + Sbjct: 3 EKIQKILARHGYGSRRYIESLIKSHSVKINDEVVKV-GQRISINVIQKVIINNNNYKPKL 61 Query: 71 ----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L + T + R+ +R I++GRLD+N+ GLLL T Sbjct: 62 NINKSLKVLLYNKPEGEICTRKDQRNRRTIFEKLPKLSNARWINIGRLDLNSSGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS R+Y+VR GQ ++ L L + + + +G N Sbjct: 122 DGELAYRLTHPSFNIERIYKVRVFGQFTENILKQLNVRVKLLDGYANFKSIQFKYGEGKN 181 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 W V L EG++R +++++E ++VN+L+RISY L TL G+ ++K + Sbjct: 182 KWFNVSLCEGRHRIVRRIWEKLGFQVNKLVRISYAHLTLPKTLFPGTWITLNKHDID 238 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 99/232 (42%), Gaps = 5/232 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ + +R ++ + + V+VNG +++ AA + + G PL + Sbjct: 1 MRLDRFLSESTELTRSLAKKALHRGEVEVNGDVVKNAAFKLGDEHVVRWLGEPLARIGVR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L TT ++ I+ GRLD++T GL+L+T DG + Sbjct: 61 YLMLNKPAGYECTTRPGRYPSVIELLDVAKRGRLHIA-GRLDVDTTGLVLITEDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTV 191 L P + + Y V + + L +G++++G ++ V + Sbjct: 120 LTSPRRRCDKHYLVTLARPLAEGAETALAEGLMLEGEDKPTLPARLERLD-DADGVRVRL 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 ++EG+ +IK++F + +V L R G L L AG RE+++ + Sbjct: 179 VIQEGRFHQIKRMFAALDNEVVALHRERIGEIALDPALAAGEWRELTQAEID 230 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 62/240 (25%), Positives = 106/240 (44%), Gaps = 2/240 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + +++ R++K IA +GI SRRE + I+ +V VNG ++ V D + Sbjct: 53 KKQAPRKKDDGTMRLNKYIANSGICSRREADMYISIGQVTVNGKVVNEMGYQVKLEDDVR 112 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG + E L +KP G TT S+ G + + S SR+ +GRL N GL Sbjct: 113 FDGRRINP-EAKAYVLLNKPKGFATTTSNDKGNTVMDLVAGSTKSRIQPIGRLGRNAMGL 171 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL TND L + ++Y V + + + +G+ I G +++ Sbjct: 172 LLFTNDDELVQKFTNSKKGVDKLYHVELSNNLKGADIERINEGLKIDGKTITVDEISYVD 231 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + +R N I+ +FE N++V R+ ++ L G R ++K+ + Sbjct: 232 G-APKKEVGLRIRNTGNSVIRTIFEHLNYEVVRVDCVTIAGLTKKDLPRGHWRYLTKQEV 290 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 375 MRLSKRMSELGMCSRREADEWIEKGWVLVDGERIDTLGTKVRADQKIEIDERASAAQAAQ 434 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 435 VTILLHKPVGYVSGQAEDGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 494 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 495 TGLLVLTQNGVVAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 554 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E V L R+ G LG L Sbjct: 555 VALKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 610 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 611 QGQWRYLSADE 621 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 68/243 (27%), Positives = 109/243 (44%), Gaps = 11/243 (4%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 P +S+ +ARAG +E E I + RV VNG ++ + V + VDG +R+ Sbjct: 26 KTKPDWLSRALARAGALPLQEAEDAIQEGRVTVNGRVVRQPLAPVPEGAVLRVDGTEVRR 85 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------FSRVISVGRLDINTEGLLL 123 TR+ +HKP L+T+ TV++ L +VGRLD T GLLL Sbjct: 86 EVETRVLAFHKPADLLTSTVSQHRTGTVYEVLLPQLPSELARYTWHAVGRLDRGTTGLLL 145 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 TND L P T + Y G D+ ++ L++G+ ++ QV + Sbjct: 146 FTNDEKLVAHATSPETHLAKRYVATVQGTADEARVAPLRQGVQLEDGPTRPAQVRI---- 201 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 V V + EG+N ++K++ V L R + G L + G+ R ++ + + E Sbjct: 202 RDAHTVEVIVTEGRNHQVKRMLGAVGLPVRALHREAIGGVAL-DVPVGTFRLLTPEEVTE 260 Query: 244 QLG 246 LG Sbjct: 261 GLG 263 >gi|325524840|gb|EGD02796.1| ribosomal small subunit pseudouridine synthase A [Burkholderia sp. TJI49] Length = 238 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 52/234 (22%), Positives = 86/234 (36%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV + G + + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIDAGRVAIAGAPATDPDARFDTDGLVFTVDGTPWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+ + G + + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLDALRTGVQLHGEP-RPI-AAVAADARDTHALALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R G F L L G+ R + L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRERIGGFTLPDDLAPGAWRWLDDADLSALRNP 234 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 41/229 (17%), Positives = 81/229 (35%), Gaps = 5/229 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + +++ G SR+ +I V +NG +++ + D + + E Sbjct: 6 LDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLVLTIFEEEWEYREHVY 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + + P + + V VGRLD +T GLLL+++DG Sbjct: 66 IAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAFIHAQ 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V + + LK G+ + ++ + + L Sbjct: 126 SSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDEPAPLAATR--CRQLGENLLEIVLE 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 +GK ++K++ + L R + G QL L G + + + Sbjct: 184 QGKYHQVKRMLAAAGNHCSALQRTAIGGLQLEALALEEGEWTYLDAEQM 232 >gi|226360073|ref|YP_002777851.1| pseudouridine synthase [Rhodococcus opacus B4] gi|226238558|dbj|BAH48906.1| pseudouridine synthase [Rhodococcus opacus B4] Length = 350 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 75/234 (32%), Positives = 115/234 (49%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ KV+A+AG+ASRR E +I+Q RV+V+G ++ + + + VDGV + Sbjct: 108 DGMRLQKVLAQAGVASRRAAEELISQGRVEVDGRIVIEQGLRIDPENAVVRVDGVRVVVQ 167 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTND 127 + +KP G +T SD GR V D + R+ VGRLD +TEGLLLLTND Sbjct: 168 KDLVHLALNKPRGWQSTMSDDLGRPCVGDIVSERVAAGQRLFHVGRLDADTEGLLLLTND 227 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L PS + + Y G +++ LK+G+ + TL + Sbjct: 228 GDLAHRLMHPSFEVSKTYLATVSGALERGVGKKLKEGVELDDGPAKVDTFTLLDINEGKS 287 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V V L EG+ ++++F+ V RL+R G LG G+ R + + + Sbjct: 288 LVRVTLHEGRKHIVRRLFDAVGHPVIRLVRTDIGAVALGDQRPGTLRVLGRGEV 341 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 96/232 (41%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++A+A I SR+ +++ + ++ + V+ + NV + I + Sbjct: 1 MRLDRLLAQASI-SRKSMKQALLRRAILVDQTPARNLSQNVDTGLQDILFYKQKISAPAH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + S+GRLD +T GLLL+T++G L Sbjct: 60 RYFMMNKPRGYITANSDASKATVIDLIQKEDFSEELYSIGRLDRDTTGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P + Y V+ +G +D + ++G+ Q+ + + + +V Sbjct: 120 QLLHPQYHVDKTYFVQVNGLLDNQAIEAFQQGVRFLDGKVCKPAQLIIHSATPVLSTASV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK ++KK+F KV L R G FQL L G R +++ L+ Sbjct: 180 TISEGKFHQVKKMFLAIGVKVTYLKRTHLGDFQLDPNLDEGDYRSLNQDELK 231 >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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 74/243 (30%), Positives = 113/243 (46%), Gaps = 4/243 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIE 61 K+ R+ KV+A+AG+ASRR E +I Q RV+V+G ++ + V + Sbjct: 103 TKHDGPPKGDGVRLQKVLAQAGVASRRAAEELIDQGRVEVDGRIVVEQGLRVDPENAVVR 162 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINT 118 VDGV + + +KP G T SD GR V D + R+ VGRLD +T Sbjct: 163 VDGVRVVVQKDLVYLAMNKPRGWQCTMSDDLGRPCVGDIVSERVQSGQRLFHVGRLDADT 222 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 EGLLL TNDG LA L PS + + Y HG V++ L+ G+ + T Sbjct: 223 EGLLLFTNDGDLAHRLMHPSFEVPKTYLATVHGVVERSTGKQLRDGVTLDDGPAKVDAFT 282 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + L EG+ ++++ + V RL+R + G LG G+ R + + Sbjct: 283 VLEINEGKTLVKLVLHEGRKHIVRRLLDAVGHPVVRLVRTNVGVVALGDQRPGTQRVLGR 342 Query: 239 KIL 241 + Sbjct: 343 SEV 345 >gi|330981482|gb|EGH79585.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 230 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 104/231 (45%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V +A RV+V+G V + +D L+ + Sbjct: 1 MRLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKVP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RHFMLHKPEGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + + Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENLTTQPAQLTLLGPQSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV RL R + G L L GS R ++ + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRETIGALALDPNLRPGSYRALNAGEI 227 >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 = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 60/232 (25%), Positives = 103/232 (44%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A RV+V+G+ V + D L+ + Sbjct: 1 MRLDRFLSNLPRFNRKSVRLALASGRVQVDGLTTSDPHHEVREFSCVMFDTEILQPGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ +D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPPGCVSATTDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D + + + I Q+ + + + + Sbjct: 121 LTQPQTKMPKVYYVETEQLIDDRYVLKFAEGLYFSFENITTQPAQLNVLGPRSA----HL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F F+ KV RL R S G L TL AGS R + + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRESIGALTLDPTLAAGSYRALHAAEID 228 >gi|253996871|ref|YP_003048935.1| pseudouridine synthase [Methylotenera mobilis JLW8] gi|253983550|gb|ACT48408.1| pseudouridine synthase [Methylotenera mobilis JLW8] Length = 245 Score = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 96/237 (40%), Gaps = 7/237 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGV 65 + + + +R+ + G SR+ ++ + V VNG L + H + G Sbjct: 4 MAKKLSIERI---LHNQGFGSRKLCRILVINEEVTVNGELCDDPDTTFELENLHYTIKGE 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 E++ L ++ + + P + V +GRLD +T GL+L++ Sbjct: 61 AWVYHEKSYLMMHKPSNYECSHKTQHHPTIYSLLPHPLVERGVQCIGRLDEDTTGLILIS 120 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG + P + +VY V V +++ + KG+ + L K + Sbjct: 121 DDGQFIHRMSSPKHKVPKVYEVTCKHAVSDEQIAHILKGVQLVDEDAPIA--ALACTKIN 178 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + L EGK ++K++ + +V L RI G +L L G R +S L Sbjct: 179 DHVIHMTLAEGKYHQVKRMVAAISNRVEALKRIKIGRLELPQDLKVGEWRWLSASDL 235 >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 = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 51/227 (22%), Positives = 85/227 (37%), Gaps = 5/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K+IA G SR+E++ I V +G L+ + + I D PL A Sbjct: 1 MRLVKLIANLGYGSRKEIQTAIKNGWVTDRDGNTLKATSQ--TPHEDILFDDEPLDPAPG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + + + D + ++GRLD T GLLL T+DG Sbjct: 59 MVLAMNKPLGYTCSTNDQGKLVYDLLPDRYRMRKPVLSTIGRLDKETSGLLLFTDDGTFL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P +VY V + ++ L G ++ ++ + V Sbjct: 119 HKVISPKANVGKVYEVTLDRPMKGNETALFASGEMMLESEDKPLKPAMLEVLDDTH-ARV 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L EG+ +++++F V L R G LG L G R + + Sbjct: 178 ILHEGRYHQVRRMFAATGNHVTNLSRTQIGGLSLGCLEDGQWRMLDE 224 >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 = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 65/303 (21%), Positives = 112/303 (36%), Gaps = 47/303 (15%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 +R++K+++ G+ SRRE +R+I +V V+G+ + V + G + Sbjct: 4 ERLNKLLSAMGVCSRREADRLIESGKVLVDGVPAK-MGQKVRMDQTVVCRGKVVGRGEAA 62 Query: 69 ----------------------------------KAERTRLWLYHKPIGLVTTHSDPDGR 94 K R L +KP G+V T SD D Sbjct: 63 AGAGNGKTARRVGSGRADGTAAQDARPASLPRSMKKPRPVLLAVNKPKGVVCTASDKDKA 122 Query: 95 STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + D + VGRLD ++EGL+L+TN G L + + Y+V V Sbjct: 123 PNIVDMIQYPVRVYY-VGRLDKDSEGLVLMTNQGDLVNKIMRSGNAHEKEYQVVVDRPVT 181 Query: 155 QDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + L ++KG+ ++ +V +K + ++ L +G NR+I+++ E V Sbjct: 182 AEFLARMEKGVRLKELDRTTLPCKV----RKTGDKRFSIVLTQGLNRQIRRMCEACGCHV 237 Query: 213 NRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 L R+ LG L +G R+V RE + + Sbjct: 238 RSLKRVRVMNICLGDLKSGEYRQVEGAEYREFMKLLEHSTNLSFRQQNAARGPINRMENE 297 Query: 273 NII 275 N Sbjct: 298 NGR 300 >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 = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 69/239 (28%), Positives = 114/239 (47%), Gaps = 5/239 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ K+++ AG+ SRR+ E +I RV+VNG ++ TD IE G ++ Sbjct: 3 ERLQKILSHAGVCSRRKAEELILAGRVRVNGRVVRELGTEADVCTDKIEALGEIVKPEPL 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + GR TV D + RV VGRLD ++EGLLL+TNDG L Sbjct: 63 RYYLFHKPDCVITSVSDP-AGRRTVMDYFRRVRERVFPVGRLDYHSEGLLLVTNDGQLDF 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVT 190 +L P + + Y V G+ + ++KG+ I ++ + + + + Sbjct: 122 ILTHPCHEVQKEYEVVVRGKFSEKLAKKMEKGVKIDSGVTAPCEIEVLGYDAEKNKTRLR 181 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EGKNREI+K+ E F++ V L RI Y L + G R ++ +++ H Sbjct: 182 MVLHEGKNREIRKMMEIFHYPVFELKRIRYSFLTL-DVNRGQYRRLTAAEVKKLYELHR 239 >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 = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 67/248 (27%), Positives = 116/248 (46%), Gaps = 16/248 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ SRRE + +I Q VK+N + + + V D I + + K + Sbjct: 1 MRINKFLSHNTSYSRREADELIKQGLVKINQKIAQ-LSDEVKEEDKIFLKNKRIHKKTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T+++NLP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGELVSRKDDRGRKTIYENLPKNFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNL--LKKGIVIQGICYG----------DMQVTLDT 181 L + +++ + L+ +G + + Sbjct: 120 LMHSDLEREYYLKIKGQISKKVIEAMQNGLEIQNSTKGAHAKTKINSMKFAPFLDFEIFG 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI- 240 G + V + EG+NRE+++ F +F+ +V L R+++G +LG L AG R + + Sbjct: 180 WSGGYTKLRVVINEGQNRELRRFFGYFDLEVMDLKRVAFGIVELGMLKAGKYRFLERGEY 239 Query: 241 --LREQLG 246 LR+ L Sbjct: 240 EKLRDFLK 247 >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 = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 50/229 (21%), Positives = 100/229 (43%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K ++ SR EV+R++ + VN + + AA+ + + D I + PL Sbjct: 1 MRLDKYVSSVTDYSRAEVKRLLKNGSITVNDVSTKNAALQLDTQKDIICLFDEPLSAP-A 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R ++ +KPI + D + + ++ GRLD +T GL+L+T+DG + Sbjct: 60 PRYFMLNKPIDTICATEDSMHPTVIDLLDEPNTQQLHIAGRLDKDTTGLVLITDDGQWSH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P+ ++ YRV + L++G+++ + + + + + Sbjct: 120 QITSPNKHCIKTYRVELEEAFTETAKKALEEGVLLHNEK-KPTRSSTVNI-INKYCIELA 177 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + EGK ++K++ V +L R G QL +L G R ++ Sbjct: 178 ISEGKYHQVKRMLAAVGNHVKQLHRQQIGHIQLDSSLSLGQYRALTTDE 226 >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 = 136 bits (342), Expect = 6e-30, Method: Composition-based stats. Identities = 62/231 (26%), Positives = 103/231 (44%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + I ++ + + ++I V VNG+++ AV V + I ++G L Sbjct: 1 MRLDRFICKSTELVKYDAIQLIHNGEVFVNGVVVRNEAVQVHENNDISLNGQKLAARAF- 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R L +KP + ++ D S S + GRLD NT GL+L+T+DG Sbjct: 60 RYMLINKPANTLCSNVDGVYPSLFSLIDVERPSELHIAGRLDANTTGLVLITDDGRWTFA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + PS Q +VYRV+ + D +GI +QG Q+ + T + V + Sbjct: 120 ITSPSGQCHKVYRVKLAKPIAADAGESFLQGIALQGEQELTLPAQLQIITPQ----EVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 L EGK ++K++F KV L R S G + + G R +S ++ Sbjct: 176 TLTEGKFHQVKRMFAAVGNKVVSLHRESIGAVSV-DVAEGEWRYLSVDEVQ 225 >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 = 136 bits (341), Expect = 6e-30, Method: Composition-based stats. Identities = 58/232 (25%), Positives = 102/232 (43%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLE-RAAVNVMSTDHIEVDGVPLRKAER 72 R+ K++A SR+EV ++I +RV +NG + + + D + VDG + + Sbjct: 1 MRLDKLLANKAFGSRKEVHQIIKDRRVTINGEITTKKDIHIDIDIDTVAVDGQTVNTTQL 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + V+ VGRLD +TEGLLLLTNDG Sbjct: 61 YYVKFHKPKGYVTAVEDSTHPVVMDLLPPEYLKMGVVPVGRLDKDTEGLLLLTNDGVWGH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + +VY V F G++ ++ + +K+GIV+ G + L SN T+ Sbjct: 121 SIINGHKHVPKVYYVEFEGELSEEGIQRIKEGIVLGDGTQCKPALIELL----SNQSATI 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA-GSTREVSKKILR 242 + EGK ++K++ V L R++ G L + GS +++ + Sbjct: 177 TIEEGKYHQVKRMIGAAGGTVTYLKRLTIGHVDLSGIEEVGSVMDLTIDEVE 228 >gi|170693595|ref|ZP_02884753.1| pseudouridine synthase [Burkholderia graminis C4D1M] gi|170141377|gb|EDT09547.1| pseudouridine synthase [Burkholderia graminis C4D1M] Length = 239 Score = 136 bits (341), Expect = 6e-30, Method: Composition-based stats. Identities = 54/231 (23%), Positives = 91/231 (39%), Gaps = 6/231 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD---HIEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + GI+ + + D VDGVP E Sbjct: 3 LESILFSQGFGSRRQCRALIADARVAIGGIVCTDPDADFATDDASFSFSVDGVPWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 63 AYLLLNKPAGYECSRDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY +D +L+ L+ G+++ G +D + + Sbjct: 123 MFTSPKRKVPKVYVATTRHPIDDRQLSALRDGVMLHGE--SKAVAAIDAHARGEHSLALT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + EGK ++K++ + L R G L TL G+ + + + L+ Sbjct: 181 VMEGKYHQVKRMIAAAGNRCEALHRERVGGLALPATLAPGAWQWLDETELK 231 >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 = 136 bits (341), Expect = 6e-30, Method: Composition-based stats. Identities = 47/231 (20%), Positives = 94/231 (40%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K++A G SR+E++++I + + + G L+ + + D I + G PL A+ Sbjct: 1 MKLIKLLANLGYGSRKEMQQLIRRGTIT-DAAGQPLDDDSAI--AHDDIRLRGKPLDPAQ 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + + + +VGRLD +T GLLL+T+DG Sbjct: 58 GMILLLHKPTGFVCSTKDRGRLVYELLPERFSLRKPVISTVGRLDSDTSGLLLMTDDGDF 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P ++Y V + + + G ++ ++ G Sbjct: 118 LHKVISPRNHVAKIYEVTTARPISPTYVPVFASGELMLESEKEPLKPAQMEITG-ETTAR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + L EG+ +++++F V L R G L L G R ++ + Sbjct: 177 LTLYEGRYHQVRRMFAAVGNHVEALHRAQMGELTLDDLAPGKWRLMTPDDI 227 >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 = 136 bits (341), Expect = 7e-30, Method: Composition-based stats. Identities = 68/241 (28%), Positives = 120/241 (49%), Gaps = 16/241 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRRE +R+IAQ +V +N +++ + V + V+G LRK+E Sbjct: 1 MRLNQYIAHHSKYSRREADRLIAQGKVSINKEIIKDFSYQVDDKVKVYVNGKCLRKSEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + + D GR T++++LP F+ I VGRLD +EGLLLL++D + Sbjct: 61 TVIVYNKPKGELVSKKDDRGRRTIYESLPKRFAHFIPVGRLDFASEGLLLLSDDARVVTK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTL 179 L + R+Y ++ G++ ++ ++ G+ +Q + + Sbjct: 121 LMES--KMERIYLLKLSGKIQEEVFEAMENGLSLQDARAGGHKESKIQSMEFAPFLGYWV 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + EGKNRE+++ F F ++ L RISYG L L R + + Sbjct: 179 LKNSTRYSKIKVAINEGKNRELRRFFAHFGLEILDLKRISYGFVSLNNLPTQKVRFLERG 238 Query: 240 I 240 Sbjct: 239 E 239 >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 = 136 bits (341), Expect = 7e-30, Method: Composition-based stats. Identities = 80/265 (30%), Positives = 130/265 (49%), Gaps = 17/265 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 E P R+ + +ARAG+ASRR ER++ + RV+VNG+++ V T D +EVDG + Sbjct: 4 ERIVPMRLQRFLARAGVASRRGSERLMTEGRVRVNGVVVSELGSKVDPTRDTVEVDGHIV 63 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTN 126 A+ + +KP G +TT SDP GR T+ +P+ VGRLD++T GLLL T Sbjct: 64 GIADAPVYLMLNKPEGYLTTMSDPQGRPTIKTMVPTKRYPGLFPVGRLDMDTSGLLLFTT 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------- 179 DG +A+ L PS + Y G + +L L++GI++ +V L Sbjct: 124 DGTMAQELLHPSRHVWKHYLALVLGVPTEAELERLRRGIMLDDGMAQPAKVELRDDLLEL 183 Query: 180 --------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + K NA V + + EG+ ++KK+ +V L R ++GP +L + G Sbjct: 184 HGTSRYPQNPNKPQNAIVGIWIHEGRKHQVKKMMSAIGHRVLVLHRDAFGPLRLTNVEEG 243 Query: 232 STREVSKKILREQLGPHLLEEAQVN 256 RE+ + + ++ + Sbjct: 244 CWRELRDEEIAALREQTSADKEDAD 268 >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 = 135 bits (340), Expect = 8e-30, Method: Composition-based stats. Identities = 60/245 (24%), Positives = 107/245 (43%), Gaps = 16/245 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ K R+ + I+ +++ V ++A+ +V V+G + + H+ Sbjct: 1 MESKRA--------RLDRFISAKTGINKKHVRLLLAKGQVLVDGEVARDIDQIIDEFSHV 52 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG L+ + + LY +V+ D R+ + + VGRLD+NT G Sbjct: 53 CLDGKVLQANAPSYVMLYKPVG-VVSATVDDKHRTVIDLLERDDKHSLHIVGRLDLNTSG 111 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVT 178 LLLLTNDG ++ L P + +VYRV +D+ + + I ++ Sbjct: 112 LLLLTNDGRWSKKLMSPDHKVGKVYRVTLKNPIDESYIAAFAGGMYFAFEDITTQPAKLE 171 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + V L EG+ +IK++F F V L R+S G +L L G +R++S Sbjct: 172 IV----DEHTALVTLVEGRYHQIKRMFGRFRNPVIGLHRLSVGAIELDPQLAVGQSRDLS 227 Query: 238 KKILR 242 ++ Sbjct: 228 MTEIQ 232 >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 = 135 bits (340), Expect = 8e-30, Method: Composition-based stats. Identities = 51/237 (21%), Positives = 96/237 (40%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A G+ S++++ R++ ++ ++NG + A + D + +G L Sbjct: 3 VRIDKILAANGLGSQKDIRRLLRKEDFRINGTRVTDAGTLLDPEHDALSRNGETLHLRTC 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + +T P + +GRLD++TEGLL++TNDG L Sbjct: 63 CYLMLNKPAGVVTSTADPLHSTVMELLPPPFPAMELFPIGRLDLDTEGLLIITNDGALTH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNA 187 L P + ++ Y + + + + T + Sbjct: 123 RLTAPKSACIKSYYLETAEPFTESTFTAARIACAEGLPLGKNFTCLPATFERTTSQRVKT 182 Query: 188 W--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EGK ++KK+ + +V L RI+ G L L AGS RE++ + Sbjct: 183 EWAFLMHICEGKYHQVKKMVKALGNEVVYLKRIAMGGVTLDPKLPAGSCRELTPDEI 239 >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 = 135 bits (340), Expect = 9e-30, Method: Composition-based stats. Identities = 68/239 (28%), Positives = 115/239 (48%), Gaps = 7/239 (2%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 ++ R K++A AGI SRR E I V +NG V D + ++G + Sbjct: 2 DSPQLIRTQKLLADAGICSRRVAEEYIKNGEVTINGKTA-ELGSKVDPAIDDVRLNGRRI 60 Query: 68 RKAERTRL-WLYHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINTEGLLLL 124 + + +L +KP G + ++ DP TVFD LP R+ GRLD ++EGLL+L Sbjct: 61 KVVKHKQLVIALNKPKGFICSNDDPHNDRTVFDLLPTDYNRERLFCAGRLDKDSEGLLIL 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQ 182 TNDG LA L PS + Y V + K+ L +G+ ++G + D Sbjct: 121 TNDGDLANRLMHPSNLVTKRYHVSLKQPFPKAKIFRLMRGVTVEGEKLKVEKAVFAGDKN 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 K + + + + GK REI+++F+ ++ V +L R G + + + G++ +S + + Sbjct: 181 KAESTELDLAMHHGKKREIRRLFQALHYDVKKLKRYQIGRYSIKGMPKGASIGLSPRDI 239 >gi|311696250|gb|ADP99123.1| pseudouridine synthase, Rsu [marine bacterium HP15] Length = 230 Score = 135 bits (340), Expect = 9e-30, Method: Composition-based stats. Identities = 52/230 (22%), Positives = 98/230 (42%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + IA + SR+E +R I + V +N + + A + + + + G PL Sbjct: 1 MRLDQFIANSTELSRKEAKRAIGRGEVTINEQICKGANTRLAGDERVALSGTPLSLPGER 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L + +V+ +D D + + I + GRLD +T GLLLLT DG + Sbjct: 61 YLMMNKPAG-VVSATTDSDHPTALDLLPAEITRHLHIAGRLDADTTGLLLLTTDGQWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTV 191 + P T + YRV + + L++G+ + +V + + + Sbjct: 120 VTSPRTDCPKTYRVTLNEPLSDAAAQQLERGVDLHNDPRPTRPARVHFL----EDRIIEL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 + EG+ ++K++ V L R+ G +L L+ G RE++ + Sbjct: 176 TISEGRYHQVKRMMAAVGNHVEALHRVRIGQVELDDALMPGEYRELTAEE 225 >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 = 135 bits (340), Expect = 9e-30, Method: Composition-based stats. Identities = 45/229 (19%), Positives = 95/229 (41%), Gaps = 7/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMST--DHIEVDGVPLRKA 70 R+ +++A G SR+EV+ ++A +V ++G +L+ A V +T + + + G P+ Sbjct: 8 RLDRLLANLGYGSRKEVQALVAGGKVVLDGAILKDAGARIAVDATLPERMTIRGAPVDPP 67 Query: 71 ERTRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L ++ + + + + +VGRLD +T GL+L+T+DG Sbjct: 68 APLVLIMHKPLGVVCSHKEDGEKIYDLLPRRWRLRDPGLSTVGRLDKDTSGLILITDDGD 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P + Y ++ + + G ++ + ++A Sbjct: 128 FLHRVISPKRHVPKTYLATLDRPLNGSEGEVFAAGTLMLDSEEKPLLPARLDVVNAHA-A 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + + EG+ +++++F V L R G L L AG R ++ Sbjct: 187 RLTITEGRYHQVRRMFAAVGNHVVALHRERIGGIALPDDLAAGQHRILT 235 >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 = 135 bits (340), Expect = 9e-30, Method: Composition-based stats. Identities = 47/234 (20%), Positives = 98/234 (41%), Gaps = 4/234 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ ++ + + I VK+N ++ V + + + +D L Sbjct: 1 MRLDKFICKSTNLNKEQAQAQIQAGIVKINNDIVCDIKAQVHANNQVRLDNRLLYLRPFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + + + + S + VGRLD++T G++L+T+DG + Sbjct: 61 YILFHKPANTICSNLDE-NYPSLFNFLDIEYLDELHIVGRLDVDTTGMVLITDDGHWSFN 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P Q ++ YRV +D+ + K G+ +QG + L N + + Sbjct: 120 ITRPEKQCVKEYRVSLSQTLDESAIEQFKYGLKLQGEAELTLPARLTFIDDKNVVLGIT- 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 +GK ++K++F +V RL R + G L + G R +++ + P Sbjct: 179 -QGKFHQVKRMFAALGNRVVRLHRQAIGSVTL-DVAEGQWRYLTEAEVASFSAP 230 >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 = 135 bits (340), Expect = 1e-29, Method: Composition-based stats. Identities = 68/229 (29%), Positives = 110/229 (48%), Gaps = 17/229 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G + V + EGKNRE+++ F F+ +V L R+++G LG L Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFFGHFDLEVMDLKRVAFGALDLGML 226 >gi|322378546|ref|ZP_08052993.1| Pseudouridine synthase [Helicobacter suis HS1] gi|321149023|gb|EFX43476.1| Pseudouridine synthase [Helicobacter suis HS1] Length = 257 Score = 135 bits (340), Expect = 1e-29, Method: Composition-based stats. Identities = 63/245 (25%), Positives = 110/245 (44%), Gaps = 13/245 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRR+ +++I + +VK+N L A D I V+G L E+ Sbjct: 6 MRLNQFIAHNLPCSRRQADKLIKEGKVKINRQLA-SFATPFSPYDKIFVEGRMLNSYEKR 64 Query: 74 RL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +YHKP G + + D GR T+F++L S F +GRLD + GLLLL++ + Sbjct: 65 SYTVLVYHKPKGELVSRIDHRGRKTIFESLESKFRHFTPIGRLDFASMGLLLLSDSKQVV 124 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----------CYGDMQVTLDT 181 L S + + + +++ + + + M + Sbjct: 125 NALMHSSLERVYLVKIQGNITQTMLEAMQTGLELQGLEGAHPKSKYTRMHIAPMACQILK 184 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + + L+EG NREI++ F F +V L R+S+G L L G TR ++ K Sbjct: 185 NHRNYSKIKITLQEGHNREIRRFFAHFKKEVLDLRRVSFGFVSLNALPVGKTRYLNPKEY 244 Query: 242 REQLG 246 ++ Sbjct: 245 KQLHQ 249 >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 = 135 bits (340), Expect = 1e-29, Method: Composition-based stats. Identities = 52/230 (22%), Positives = 88/230 (38%), Gaps = 7/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K++A G SR+EV++ I V + G LL A I + PL A Sbjct: 1 MRLIKLLANLGYGSRKEVQKYIRMGIVT-DAEGNLLNDDAKTAHED--IRFNERPLDPAH 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L + + + + + +VGRLD +T GLLL T+DG Sbjct: 58 GVVLMLNKPTGYVCSLKDTGKLVYELLPHRFSERKPVLSTVGRLDADTSGLLLFTDDGDY 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P ++Y V + + + G ++ ++ Q G Sbjct: 118 LHRIISPKNHVAKIYEVTLARPLQGHEAAIFASGELMLESEKTPLKPAAMEQTGEKT-AR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L EG+ +++++F V L R G LG L G R ++ + Sbjct: 177 LTLYEGRYHQVRRMFAAVGNHVEALHRSQMGDLTLGELRPGKWRLLTTEE 226 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 52/230 (22%), Positives = 96/230 (41%), Gaps = 8/230 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + +A R+ V M+ RV V+ ++++ + + + VDG L+ + Sbjct: 7 RLDQFLAGKLQVPRKSVRFMLLAGRVSVDNMIIKDMDLQLDEFSQVCVDGAALQNNQPCY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +V+ D ++ + + GRLD+N+ GLLL+TND + L Sbjct: 67 LMLNKPVG-VVSATKDDIHKTALELLHGIKLEMLHIAGRLDLNSSGLLLITNDARWSEAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + + Y V +D+ ++ +GI + ++ + V Sbjct: 126 MSPDNKVSKKYLVTLANPIDETYISAFAGGMYFAFEGITTQAAGFEILSEYQA----RVS 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 L+EGK +IK++F F V L R + G L L G R ++ + Sbjct: 182 LKEGKYHQIKRMFGRFRNPVIGLHREAIGELVLDETLAPGEFRHLTPAEI 231 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 49/232 (21%), Positives = 105/232 (45%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +G+ +R+ ++R + ++VNG +++ ++ V D + + E Sbjct: 1 MRLDKMIGNSGLDTRKNIKRNAKKGAIRVNGQVVKDTSIQVDPDLDEVYYMDQFVDYFEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + ++ D D + + GRLD +T GL+LL+ DG Sbjct: 61 IYIMMNKPAG-FLSATEDKDPTVIDILDDFYKGLDLSIAGRLDKDTTGLILLSTDGKFIH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 + P++ + Y+V ++ D + + ++G+ I ++ + +K + V Sbjct: 120 KVTSPNSNIEKTYQVETRDEIKNDLIKIFEEGVYIKEDDYTARPAKLEILEEKKA--LVR 177 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V EGK +K++F + +V +L R++ G +L + L G RE+S + Sbjct: 178 VT--EGKFHLVKRLFANCDNEVLKLKRLAIGKLKLDSHLAEGEYRELSDDEI 227 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 68/230 (29%), Positives = 110/230 (47%), Gaps = 5/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 + KV+ A + SRR++ I Q V +NG E + V + D + +G P+ + R Sbjct: 11 LVKVLVEARLGSRRKMAEAIKQGLVTLNGQKAESYSQPVNTQQDKVTFEGKPVELSRIRR 70 Query: 75 -LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 + +KP +V+T SD GR TV D L + VGRLD T GLLLLTNDG L Sbjct: 71 IYLMLNKPPEIVSTTSDELGRKTVMDLLHRRYEGAGLFPVGRLDETTTGLLLLTNDGELT 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L PS + + Y + + Q L+KG+++ +++ T + + Sbjct: 131 NRLTHPSYEIEKEYLISIDAALTQADKESLEKGMLLDDGLTSPARLSRVTDEPPYN-YKL 189 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + EGK R ++++F +++ L R +LG L G TRE++ + Sbjct: 190 IIHEGKKRIVRRMFAHLGYQIKALKRSRIATLRLGKLEEGKTRELTPGEI 239 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 94/232 (40%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 ++S+V+ G +RRE E +I V V G+++E + V V+G + Sbjct: 1 MKLSQVLFSQGFGARRECEGLICAGLVSVGGVVIEEPSHEVAPEGLLFTVEGQTWAYHAK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + +VGRLD +T GLLL T+DG L Sbjct: 61 ALIVMNKPAGFECSKKPRHHPSIYNLLPAQFKRRDMQTVGRLDEDTTGLLLFTDDGNLIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSN-- 186 P ++Y VD+ ++ L G+V+ + ++T + ++ Sbjct: 121 RWTSPKHHVPKIYEAGCKHPVDEAQVARLLAGVVLHDDPLPVQALAAEITGAFEHPTHGT 180 Query: 187 -AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 + + L EGK ++K++ + +V L R +G ++L L G R + Sbjct: 181 LHGLRLTLAEGKYHQVKRMLAAVSNRVETLHRSGFGAYRLPDDLKLGEWRWL 232 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 87/359 (24%), Positives = 146/359 (40%), Gaps = 25/359 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG + T Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 74 ----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 ESSRVLVYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVPDSMIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV---SKKI 240 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + E+ Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRTRYGKVSLPRELLRGQSVELAQEKVDA 266 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRP-----------NIISEVPDDFTRMKKNS 289 LR +L + + L I N + D+ +++ Sbjct: 267 LRAELKLEEGAPSALTLQPVIGQRRAAKSTVHVSRDGRSNAYVNGQTSGADEGRELRRFD 326 Query: 290 SQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + + P + + A S + RS + + R Sbjct: 327 NLREDRGGRGGRGKPGGFKGGLTVSGEAAAKQSQQRPFKQRGPAKGDRSLPDGNPAAFR 385 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 45/229 (19%), Positives = 95/229 (41%), Gaps = 7/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMST--DHIEVDGVPLRKA 70 R+ +++A G SR+EV+ ++A +V ++G +L+ A V +T + + + G P+ Sbjct: 3 RLDRLLANLGYGSRKEVQALVAGGKVVLDGAILKDAGARIAVDATLPERMTIRGAPVDPP 62 Query: 71 ERTRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L ++ + + + + +VGRLD +T GL+L+T+DG Sbjct: 63 APLVLIMHKPLGVVCSHKEDGEKIYDLLPRRWRLRDPGLSTVGRLDKDTSGLILITDDGD 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P + Y ++ + + G ++ + ++A Sbjct: 123 FLHRVISPKRHVPKTYLATLDRPLNGSEGEVFAAGTLMLDSEEKPLLPARLDVVNAHA-A 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + + EG+ +++++F V L R G L L AG R ++ Sbjct: 182 RLTITEGRYHQVRRMFAAVGNHVVALHRERIGGIALPDDLAAGQHRILT 230 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 49/230 (21%), Positives = 100/230 (43%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K I ++ +R +R IA+ VK+NG ++ +A V + + G L + Sbjct: 1 MRLDKFICQSTNLTRTLAKREIARSNVKINGEVVRKADHKVTADMDVWFSGKSLSQRAPR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ ++ + D + S + + GRLD++T GL+L+T+DG + Sbjct: 61 YIMMHKPL-DVICSTVDEEHPSVMNLIEADKREELHIAGRLDVDTTGLVLITDDGKWSHR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTV 191 + P + YRV+ + + + GI + + ++ + ++K V + Sbjct: 120 VTSPKRACNKRYRVQLAEAIAPTAVADFEAGIHLRSEDKPCLPAKLEILSEK----EVLL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 ++EGK ++K++F V L R G L L G R ++ + Sbjct: 176 TIQEGKYHQVKRMFASQGNSVVGLHREQIGEIVLDPALELGEWRYLTDEE 225 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 56/243 (23%), Positives = 98/243 (40%), Gaps = 6/243 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +++ S+ + + + ++ V V+ ++ ++NV I+V + + Sbjct: 1 MRIDRLLQVNDFGSKSDRKHLFQRKIVTVDQRVITDGSINVDPGLQIIKVGNHLITGPQE 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + S+GRLD TEGLL+LT +G L+R Sbjct: 61 YYWMMNKPAGYVTANKDITKPVVFDLLQAQDRHPDLYSLGRLDRFTEGLLILTTNGPLSR 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G + D++ +GIVI Q+ + S + V Sbjct: 121 RLLQPHQHVAKTYAVEVNGFLGYDQVQAFAQGIVIDQSYQCQPAQLQIIQAGSSASRAQV 180 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL---REQLGP 247 L EGK ++KK+F KV +L R+S+ L L G R + L + LGP Sbjct: 181 TLHEGKFHQVKKMFLSLGVKVTQLKRLSFAGIDLDPDLAPGQYRVLKADELALIKAFLGP 240 Query: 248 HLL 250 Sbjct: 241 QKP 243 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 53/232 (22%), Positives = 89/232 (38%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q + + G +L A V I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAIT-DAAGEVLY-ADDQVD-HAAIRIDGEPLDPPP 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + L+ + + + + VGRLD T G+LL+T+DG L Sbjct: 58 GFSVLLHKPSGYTCSTKDTGRLIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY V + D+ L G ++ + G+ Sbjct: 118 LHRIISPKSALDKVYDVTLAEDLRGDEAALFASGTLLLEGETKPLLPAELEVLGARQ-AR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L AG R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLDAGHWRPLGPDDLE 228 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 57/214 (26%), Positives = 95/214 (44%), Gaps = 3/214 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKA 70 R+ K + G SR EV+R++ +++V VNG + A + + D I V+ L Sbjct: 3 EKMRLDKFLVEMGFGSRTEVKRLLKKKQVLVNGKIETSAKIQIDENQDEISVNNQVLIYK 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L + T D + + V VG LDI+T GLLLLTN+G L Sbjct: 63 RFVYYLLNKPKGVISATEDDKHRTVLDLLDENARQKEVFPVGWLDIDTHGLLLLTNNGTL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAW 188 A + P +VYR + G + + + + GI ++ ++T+ ++ + Sbjct: 123 AHAMLSPKKHAAKVYRAKVDGIITEKDVEHFEAGIELKDFTCRPAKLTILEVNEEPQTSL 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 V + + EGK + K++ + KV L R S GP Sbjct: 183 VEITISEGKFHQEKRMVQACGKKVTDLERFSMGP 216 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 49/234 (20%), Positives = 96/234 (41%), Gaps = 4/234 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 P + K++ G +RR ++ + VKVNG+L E + + V+G Sbjct: 3 KPISLEKILFSQGFGTRRYCSDLVYAELVKVNGVLAEDPEERIATENLMLNVEGKDWEYH 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ L + + P + + VGRLD +T GLLL+++DG Sbjct: 63 EKAYLAFNKPANYECSHKTIHHPSVYSLLPSPFVERGLQCVGRLDYDTTGLLLISDDGQF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P +VYR+ + Q +++ L G+V+ ++ S+ + Sbjct: 123 IHKMTTPKKNIGKVYRITTSEPITQKQIDHLLNGVVLDDDP-KPC-FATACKQVSDHVLA 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 + + +G+ ++K++ V +L R G +Q+ L G R + L++ Sbjct: 181 MTIVDGRYHQVKRMMAAVGNHVTQLHRTEIGAYQMPVDLAEGEWRWLYPDDLKQ 234 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 66/248 (26%), Positives = 115/248 (46%), Gaps = 16/248 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K ++ SRRE + +I Q VK+N + + + V D I + + K + Sbjct: 1 MRINKFLSHNTSYSRREADELIKQGLVKINQKIAQ-LSDEVKDEDKIFLKNKRIYKKTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T+++NLP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGELVSRKDDRGRKTIYENLPKNFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNL--LKKGIVIQGICYG----------DMQVTLDT 181 L + +++ + L+ +G + + Sbjct: 120 LMHSDLEREYYLKIKGQISKKVIEAMQNGLEIQNSTKGAHAKTKINSMKFAPFLDFEIFG 179 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI- 240 G + V + EG+NRE+++ F +F+ +V L R+++G +LG L G R + + Sbjct: 180 WSGGYTKLRVVINEGQNRELRRFFGYFDLEVMDLKRVAFGIVELGMLKVGKYRFLERGEY 239 Query: 241 --LREQLG 246 LR+ L Sbjct: 240 EKLRDFLK 247 >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 = 135 bits (339), Expect = 1e-29, Method: Composition-based stats. Identities = 63/235 (26%), Positives = 108/235 (45%), Gaps = 6/235 (2%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL----WLYHKPIGLVT 86 +E I V+VNG + V D + V G ++ RL Y + +V+ Sbjct: 1 MEEWIGNGWVQVNGKTAQ-LGDKVSPDDQVTVKGSAIKLKWADRLPRILLYYKQEGEIVS 59 Query: 87 THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 S + 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 FFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEEAQVNLDAP 260 V+RL+R+ +GP L L G E++ + L + Sbjct: 180 HIGLTVSRLVRVGFGPIGLPNRLKRGQFYELNPAEVAAILKWADMALPNSGKRRR 234 >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 = 134 bits (338), Expect = 1e-29, Method: Composition-based stats. Identities = 44/225 (19%), Positives = 87/225 (38%), Gaps = 4/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTD-HIEVDGVPLRKAERT 73 + K++ G SR+ +++I V + + + + TD + +V E+ Sbjct: 7 LEKMLQSQGFGSRKYCQQLIKNGAVSIQDEIQKDLKYRIHDLTDFNFQVFDQNYVYREKV 66 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + I + +VGRLD +T GLLLLT+DG Sbjct: 67 YIILNKPKGFECSHQPHHHQSVFSLLPDLLIQRNIAAVGRLDQDTTGLLLLTDDGQYLHT 126 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P +VY V + D+++ L++G+ + + +++ + Sbjct: 127 LTHPKKHVPKVYHVATIDPITVDQMHQLEQGVELHNEKGVFAATNVTLLN--ETQLSMTI 184 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +G ++K++ KV L R G +L L G +++ Sbjct: 185 HQGVYHQVKRMIAAVGNKVTALHRHKIGQLELPNLAEGEWMYLTE 229 >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 = 134 bits (338), Expect = 1e-29, Method: Composition-based stats. Identities = 45/233 (19%), Positives = 91/233 (39%), Gaps = 4/233 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKA 70 P + K++ G +RR ++ VKVNG+L E + + V+ Sbjct: 3 KPISLEKILFSQGFGTRRYCSDLVYADLVKVNGVLAEDPEERIATEGLVLTVEDRDWEYH 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ + + + P + + VGRLD +T GLLL+++DG Sbjct: 63 EKAYIAFNKPENYECSHKTTHHPSVYSLLPSPFVERGLQCVGRLDFDTTGLLLISDDGQF 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P +VY + + Q +++ L G+V+ + + + + Sbjct: 123 IHKMTTPKKNIGKVYEITTPEPITQSQIDHLLNGVVLDDDP-KPC-FAVACNQLTEYTLA 180 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 + + EG+ ++K++ V +L R G + + L G R + + L+ Sbjct: 181 MTIVEGRYHQVKRMMAAVGNHVAKLHRTEIGAYLMPTDLAEGEWRWLYPQDLQ 233 >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 = 134 bits (338), Expect = 1e-29, Method: Composition-based stats. Identities = 47/229 (20%), Positives = 90/229 (39%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPL--RK 69 ++ K I G+ SR++ + +I + VNG + A ++ + +DG P+ Sbjct: 1 MQLLKYIQAQGLGSRKQCQWLIDNGCIAVNGEIRSDAKSSIKPEEVETLAIDGEPIFAVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 LPYFYILLNKPANYETSHKPQQYPSVFSLFPNHMRNIDMQAVGRLDADTTGVLLITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 + P + ++YRV D LK G+++ + + Sbjct: 121 FNHRVTSPKHKVPKLYRVTLKHAADNRLCETLKNGVLLHDDNETVAADEAVLEK---PTV 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK ++K++ +V RL R +G + L +GS + + Sbjct: 178 LLMTITEGKYHQVKRMVAAAGNRVERLHREKFGDWSADDLPSGSWKFIR 226 >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 = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 66/258 (25%), Positives = 109/258 (42%), Gaps = 30/258 (11%) Query: 8 QENFTP-QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 Q+N R++K++A+ G+ SRRE E I V V+G ++ + V + +D Sbjct: 37 QDNEKSLVRLAKLMAQKGLCSRREAEAYIQAGDVLVDGERVQADWLKVPVDSDVSLDFRA 96 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------------------FSRV 108 R + + +KP+G V++ + + V ++ Sbjct: 97 QRHQNKKVTLVLNKPLGYVSSQPELNKTPAVRLLTFENECQELSRVKPRQNVEPVALWKM 156 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI- 167 GRLD+N+ GLLL T DG +A+ L P + Y VR +D + +K V+ Sbjct: 157 AVCGRLDVNSTGLLLFTQDGTVAKKLLDPKGGIEKEYLVRVDLNLDPLTDKIRRKIEVLQ 216 Query: 168 ------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 +GI Y V + + V L EGKNR I+++ E +V L R+ G Sbjct: 217 AGVTSDEGITYRAKSVEILNANQ----LRVVLTEGKNRHIRRMCEHVGLRVMALKRVRIG 272 Query: 222 PFQLGTLLAGSTREVSKK 239 +LG+L G R + Sbjct: 273 GVKLGSLPVGQWRYLQPN 290 >gi|86132523|ref|ZP_01051117.1| pseudouridylate synthase [Dokdonia donghaensis MED134] gi|85817084|gb|EAQ38268.1| pseudouridylate synthase [Dokdonia donghaensis MED134] Length = 296 Score = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 59/240 (24%), Positives = 105/240 (43%), Gaps = 2/240 (0%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + +++ R++K IA +G+ SRRE + I+ +V VNG ++ V D + Sbjct: 53 KKQTQRKKDDGTMRLNKYIANSGVCSRREADMYISIGQVTVNGKVINEMGYQVKIEDDVR 112 Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG + E L +KP G TT S+ G + + S SR+ +GRL N GL Sbjct: 113 FDGRRINP-EAKAYVLLNKPKGFATTTSNDKGNTVMDLVAGSTKSRIQPIGRLGRNAMGL 171 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LL TND L + ++Y + + +++G+ I G ++ Sbjct: 172 LLFTNDDELVQRFTNSKKGVDKLYHIELSNNLKAADAERIREGLKI-GGKTIMVEEISFV 230 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + ++ N I+ +FE N++V R+ ++ L G R ++K+ + Sbjct: 231 DGAPKKEVGLRIKNTGNSIIRTIFEHLNYEVVRVDCVTIAGLTKKDLPRGHWRHLTKQEV 290 >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 = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 55/232 (23%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ ++A+A SR+++++ + ++++ V+ + + NV + I ++ P+ Sbjct: 1 MRLDVLLAQA-HISRKKMKQALLKKKILVDDCPARKLSQNVDTGLQTITLEEQPVLGKPH 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + ++ SVGRLD +T GLLL+T++G L Sbjct: 60 QYFMMNKPLGVVTANSDAKSQTVLDLIKPEDFNDKLYSVGRLDRDTSGLLLITDNGPLGF 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTV 191 L P + Y V +G +D + +KGIV +T+ + + + TV Sbjct: 120 QLLHPQYHVTKTYEVEVNGLLDDRAVQSFQKGIVFLDGTSCKPAILTIHSSSSNKSCATV 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IKK+F KV L R +G F+L AG R +++ L Sbjct: 180 TISEGKFHQIKKMFLTVGVKVTSLKRTHFGDFELEPNSAAGEYRALNQAELE 231 >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 = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V ++G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMIDGTVEFRQNRNVDSLLHQIEVAGEHLETNES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPEKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+V + +V + + GIV G + + + V + Sbjct: 120 EMLLPEKKVSKTYQVVVNERVTPADVTAFENGIVFADGYQCKPADLKILKADKHQSTVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R+S GP +L L G R ++ ++ Sbjct: 180 TIQEGKFHQVKKMFLAQGKKVTALKRLSMGPLELDEQLGVGEYRSLTLAEMK 231 >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 = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 89/232 (38%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q + + G +L A V I VDG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAIT-DAQGEVLY-ADDQVEHGA-IRVDGEPLDPPA 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + + VGRLD T G+LL+T+DG L Sbjct: 58 GFSLLLHKPGGYTCSTKDTGRLIYELLPPRFRLRAPVLAPVGRLDRETSGMLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY V ++ D+ L G ++ + G Sbjct: 118 LHRIISPKSALDKVYDVTLAEELRGDEAALFASGSLLLEGETKPLLPAELEVLGPRQT-R 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGNHVVALHRSRIGGLSLDGLPSGQWRALEASDLD 228 >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 = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 89/232 (38%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 ++ K IA G SR++V ++ Q + + G +L A V D I +DG PL Sbjct: 1 MKLVKHIANLGYGSRKQVTQLFRQGAIT-DAQGEVLY-ADDQV-EHDAIRIDGEPLDPPA 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L+ + + + + VGRLD T GLLL+T+DG L Sbjct: 58 GLSLLLHKPSGYTCSTKDTGRLIYELLPPRFRLRAPVLAPVGRLDRETSGLLLMTDDGAL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY + + D+ L G ++ + G Sbjct: 118 LHRIISPKSALDKVYDITLAEDLRGDEAALFASGSLLLEGETKPLLPAELEVLGPRQ-AR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EG+ +++++F V L R G L L +G R + L Sbjct: 177 LTLHEGRYHQVRRMFAAAGSHVVALHRSRIGGLSLDGLPSGQWRALEASDLE 228 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 54/234 (23%), Positives = 93/234 (39%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTR 74 + K++ R G SR+ ++ Q RV ++ + H VDG E Sbjct: 8 LEKILQRQGFGSRKLCRTLVRQGRVHAGDVVCTDPDRRFETDALHFSVDGEDWVYREHLY 67 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + I + VGRLD +T GLLLL++DG Sbjct: 68 IVLNKPSGFECSHQPQHHSSVFTLFPTQFIQRGLQCVGRLDQDTTGLLLLSDDGDFIHRY 127 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VY + + ++D+ +L LK G+ ++ M L + + + + Sbjct: 128 TSPKKKVPKVYEISTNAEIDESQLEKLKNGVQLKDETG--MTKALSCESFDEYRMRLVIA 185 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 EGK ++K++ +V +L R + G F L L AG R + L + P Sbjct: 186 EGKYHQVKRMVAAAGNRVEKLHRSAIGGFALEESLPAGEWRYLDVNDLNKLDEP 239 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 60/246 (24%), Positives = 111/246 (45%), Gaps = 16/246 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ K R+ + I+ +++ V ++A+ +V V+G + + + H+ Sbjct: 1 MESKRA--------RLDRFISVKTGINKKYVRLLLAKGQVLVDGEIARDIDLIIDQFSHV 52 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +DG L+ + + LY +V+ D ++ + + VGRLD+NT G Sbjct: 53 SLDGQVLQANAPSYVMLYKPVG-VVSATIDDKHKTVIDLLDREDKHSLHIVGRLDLNTSG 111 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVT 178 LLLLTNDG ++ L P + +VYRV +D+ + + I ++ Sbjct: 112 LLLLTNDGRWSKKLMSPQHKVDKVYRVTLKNPIDESYIVAFAAGMYFAFEDITTQPAKLE 171 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVS 237 + + V L EG+ +IK++F F V L R+S G +LG L G +R++S Sbjct: 172 IV----DDHTALVTLVEGRYHQIKRMFGRFRNPVIGLHRLSVGTIELGLQLAVGESRDLS 227 Query: 238 KKILRE 243 + ++ Sbjct: 228 ESEIQN 233 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 73/227 (32%), Positives = 113/227 (49%), Gaps = 5/227 (2%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTRLWLY 78 +A+AG+ASRR E MI Q RV+V+G+++ + + T + VDGV + + Sbjct: 2 LAKAGVASRRAAEEMIDQGRVEVDGVIVREQGLRIDPQTAVVRVDGVRVVVRDEQVYVAL 61 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP G +T SD GR V D + R+ VGRLD +TEGLLLLTNDG LA L Sbjct: 62 NKPKGWQSTMSDDLGRPCVGDIVAERIAAGQRLFHVGRLDADTEGLLLLTNDGDLAHRLM 121 Query: 136 LPSTQWLRVYRVRFHGQVDQDKL-NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS + + Y HG+V + L+ GI ++ + + + V + L Sbjct: 122 HPSFEVSKTYLATVHGEVHHKVIGKRLRDGIELEDGPAKVDRFQVLELGEGRSLVKIVLH 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EG+ ++++ + V RL+R GP LG G+ R + + + Sbjct: 182 EGRKHIVRRLLDAVGHPVTRLVRTHIGPVALGDQRPGTLRVLGRDEI 228 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 114/236 (48%), Gaps = 7/236 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++++ SR+E + +I + RVKV+G ++++A V + +EV+G ++ + Sbjct: 1 MRLDKYLSKSLHISRKEAKELIREGRVKVSGKVVKQAEYRVKEGEEVEVEGKSVKPKKNV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISVGRLDINTEGLLLLTNDGGLAR 132 L LY L TT D S + SR S GRLD++ EGLLL+T+DG LA Sbjct: 61 YLMLYKPKGYLSTTEEDKKYPSFLELIREHFPSRKLFSAGRLDVDAEGLLLITDDGELAH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + + Y VR + ++L L + + ++ ++ + V Sbjct: 121 RLTHPKWKVEKEYIVRLDRDIGDEELKKLYE-VKLEEKPVQLVKAEKLSGD----TVKAI 175 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 L EG++ +K++F+ V L R G +L + G RE++++ ++E Sbjct: 176 LTEGRHHVVKRLFKAVGHNVVYLKRTRVGNLRLDENMEPGEWRELTEEEVKELKRL 231 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 51/203 (25%), Positives = 87/203 (42%), Gaps = 1/203 (0%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 VKVNG ++ V+ TD + P+ ++ + + + T+ ++ + Sbjct: 2 VKVNGNVVTELGTKVLRTDEVIFHEQPVTLEKKVYVLINKPKDYVTTSDDPQQRKTVMDL 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 R+ VGRLD NT G+LLLTNDG LA L P +VY V +V + L Sbjct: 62 VKGVCPERIYPVGRLDRNTTGVLLLTNDGDLASKLAHPKFLKKKVYHVFLDKEVTEHDLQ 121 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + G+ + V + + GKNR ++++FE ++V RL R+ Sbjct: 122 QIATGVTLDDGEVH-ADAIEYANDKDKTQVGIEIHSGKNRIVRRIFESLGYRVVRLDRVQ 180 Query: 220 YGPFQLGTLLAGSTREVSKKILR 242 + L G R +++K + Sbjct: 181 FAGLTKKNLKRGDWRFLTEKEVD 203 >gi|186475366|ref|YP_001856836.1| pseudouridine synthase [Burkholderia phymatum STM815] gi|184191825|gb|ACC69790.1| pseudouridine synthase [Burkholderia phymatum STM815] Length = 234 Score = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 52/225 (23%), Positives = 89/225 (39%), Gaps = 4/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + V+ G SRR+ MIA RV + G L+ ++V + + EVDG ER Sbjct: 3 LESVLFSQGFGSRRQCRAMIADGRVSIGGATLDDPDIDVDAKALVFEVDGTVWPYHERAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + VGRLD +T GLLLL++DG Sbjct: 63 VLLNKPAGYECSRDPQHHLSVFNLLPAQFATRGIQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L L++G+++ G + S + + + Sbjct: 123 TSPKRKVPKRYLATTRHPLDDAQLAALREGVLLHGEAKR--IAAVAAHARSAHELELTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 EGK ++K++ +V L R G L L G+ + + + Sbjct: 181 EGKYHQVKRMVAAAGNRVEALHRERIGGLALPAELAEGAWQWLDE 225 >gi|330950091|gb|EGH50351.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 230 Score = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 59/232 (25%), Positives = 104/232 (44%), Gaps = 7/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R++V +A RV+V+G V + +D L+ + Sbjct: 1 MRLDRFLSNLPRFNRQQVRLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKAA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPEGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + I Q+TL + + + Sbjct: 121 LTQPQTKMPKVYYVETEQPIDERYAAKFAEGLYFAFENITTQPAQLTLLGPRSA----RL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EG+ ++K++F F+ KV RL R + G L + GS R ++ + Sbjct: 177 SIVEGRYHQVKRMFGHFDNKVLRLHRENIGALALDHDVPPGSYRALNVGEID 228 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 57/234 (24%), Positives = 94/234 (40%), Gaps = 12/234 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+ +RR+V IAQ+R+ VNG V HI D L+ Sbjct: 7 RLDRFISLNSNLNRRDVRLAIAQKRILVNGKHASTIHQVVSQFCHITFDNQTLQANAPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + D + V + + + VGRLD N+ GL+LLTN+G +R L Sbjct: 67 IMLNKPAGRV-SATKDSTHPTVVGCLPQQLQANIHIVGRLDFNSTGLMLLTNNGAWSRHL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLK------KGIVIQGICYGDMQVTLDTQKGSNAW 188 P + ++Y V ++ D+ + + ++ T + Sbjct: 126 TSPENKVNKIYEVELERTINDDEWPQYISAFASGMYFAFEDLTTQPAKLERLTATRA--- 182 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V L EG+ +IK++F F KV L R G L L G R ++ + Sbjct: 183 -RVTLVEGRYHQIKRMFGRFRNKVIALHRTQLGALPLDPALQPGEHRLLNDDEI 235 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 44/232 (18%), Positives = 88/232 (37%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMST--DHIEVDGVPLRKA 70 R+ +++A G SR+EV+ ++A +V ++G L+ A + V +T + + + GV + Sbjct: 8 RLDRLLANLGYGSRKEVQALVAAGKVVLDGKPLKDAGLRIAVDATLPERMTIRGVAVDPP 67 Query: 71 ERTRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L ++ + + + + +VGRLD T GL+L+T+DG Sbjct: 68 APLVLMMHKPLGVVCSHKEDGEKIYDLLPRRWRLRDPALSTVGRLDKETSGLILITDDGD 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P + Y R + + G ++ + Sbjct: 128 FLHRVISPKRHVPKTYLARLDRPLSGSEGETFAAGTLMLEGEEKPLLPARLEI-VDERTA 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 + + EG+ +++++F V L R G L L G R + Sbjct: 187 RLTITEGRYHQVRRMFAAVGNHVTDLHRERIGRLVLPDDLEPGQHRILPAGE 238 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 100/231 (43%), Gaps = 8/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +A A SR+E + IA+ RV VNG +A V + +D PL + Sbjct: 1 MRLDYYLAHAANLSRKEAKIAIAKGRVLVNGESKLKANSPVTDLCDVILDKSPLSFQQNR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +Y +V D + + I + VGRLD +T GLLLLT DG Sbjct: 61 YYMMYKPAG-VVCALQDDEHDVVLDLLPHEIQKELKIVGRLDKDTTGLLLLTTDGQWLHK 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V ++ +D + L+KG++++G +V T+K +++ Sbjct: 120 ITSPKHDCPKTYLVDLADEITKDAIEALEKGVLLKGEIDLTKPAKVVSHTEKQ----ISL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EGK ++K++ KV L R G L + G E+S + + Sbjct: 176 TISEGKYHQVKRMLAAVGNKVEALHRTQIGEVCLSQDMALGEFTELSPEQV 226 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 47/228 (20%), Positives = 92/228 (40%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLR--K 69 ++ K I G+ SR++ + +I + +NG + RA N+ + + VDG + Sbjct: 1 MQLLKYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDNIDPSQVHTLSVDGEEIAAVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L+ + + +VGRLD +T G++L+TNDG Sbjct: 61 MPHFYILLHKPADYETSHKPQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 + P + ++YRV D LK G+++ + T Sbjct: 121 FNHRVTSPKHKVPKLYRVTLKHPADDTLCTTLKNGVLLHDDNETVAAAEAVLT---DPTT 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + EGK ++K++ +V +L R +G + + L AG + + Sbjct: 178 LMMTITEGKYHQVKRMVAAAGNRVEQLHREKFGDWNVDDLAAGEWKFI 225 >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 = 134 bits (336), Expect = 2e-29, Method: Composition-based stats. Identities = 48/240 (20%), Positives = 99/240 (41%), Gaps = 12/240 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K + ++ ++ + + I V VNG ++ + V + + + GV L + Sbjct: 1 MRLDKFVCKSTQLTKADAVQCIHLGEVGVNGEVITSESTQVHENNTVTLRGVKLIARDFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + ++ + + D S S + GRLD++T GL+L+T+DG Sbjct: 61 YILMHKPAGTICSN-IDEVYPSLFNSLDVENVSELHIAGRLDVDTTGLVLITDDGRWTFD 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLN----LLKKGIVIQGIC--YGDMQVTLDTQKGSNA 187 + +PS Q + YRV + D ++ G+ +QG + + + Sbjct: 120 ITVPSKQCAKTYRVTLSRGIAADGVDDLVSRFAAGVKLQGEQQLTLPATLQVI----TPT 175 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V + + EGK ++K++F +V L R G L + G R ++ + ++ + Sbjct: 176 EVLLTITEGKFHQVKRMFAAVGHRVVALHRERIGDICL-DVDVGQWRYLTDEEVKSVVRH 234 >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 = 134 bits (336), Expect = 3e-29, Method: Composition-based stats. Identities = 48/239 (20%), Positives = 107/239 (44%), Gaps = 3/239 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N R++K +A AGI SRR+ + IA V VNG ++ V D + DG + Sbjct: 50 SNSNEIRLNKYVANAGICSRRDADVHIATGLVTVNGKVVTEMGYKVKLEDEVRYDGARIN 109 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ + L TT S+ G++ + + SR+ +GRL N+ GLLL TND Sbjct: 110 PEKKAYVLLNKPKG-FATTTSEYKGKTVMDLVANATSSRIKPIGRLGRNSTGLLLFTNDD 168 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + + +R++ + + + L +++G+ I+G + +D Sbjct: 169 KVVDRFTNSNKGVVRLFHLELDKNLKLEDLKKIREGLRIEGKQINVEE--IDYVDNRKNE 226 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + + ++ N + +F++F +++ ++ + + G+ + ++++ ++ + Sbjct: 227 IGIKIKNTGNTILHTIFDYFKYELVKIDCVQIAHLTKKDIPRGNWKILTEQEVQTLMMM 285 >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 = 134 bits (336), Expect = 3e-29, Method: Composition-based stats. Identities = 73/258 (28%), Positives = 122/258 (47%), Gaps = 7/258 (2%) Query: 34 MIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL-RKAERTRLWLYHKPIGLVTTHSDP 91 MI + V VNG + + V +D I VDG PL + + + +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 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-----WVTVGLREGKNREIKKVFE 206 + + +L LKKG+ I G + + G N W + + EGKNR+I+++F Sbjct: 121 KPEPFQLEKLKKGVSIVGGKVSARHIEKIKKTGDNKSEKYEWYKIVITEGKNRQIRQMFA 180 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSET 266 + V RL R++ G ++G + G ++ ++ EE + ++ Sbjct: 181 KIGFDVMRLQRVAIGRLRMGAVKTGELVYLNDAAVQRVFLADDPEEIKTKRTYKGRATSE 240 Query: 267 LVRDRPNIISEVPDDFTR 284 +P + ++ Sbjct: 241 KKTAKPASKVKTTKKPSK 258 >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 = 134 bits (336), Expect = 3e-29, Method: Composition-based stats. Identities = 50/230 (21%), Positives = 100/230 (43%), Gaps = 9/230 (3%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 ++ A + SR++V+++I ++RVKVNG ++ + NV D + VD + + + Sbjct: 1 MSNAKVGSRKQVKKLIKEKRVKVNGSIVTKPEFNVDENDEVFVDDIEIIPHHNVYIVFNK 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 + R+ + VGRLD + EGL+L+TNDG + P + Sbjct: 61 PSGFTSSKS--EYERNIFEFIDHPYLDELHIVGRLDKDVEGLILITNDGNFTHKVISPKS 118 Query: 140 QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKN 198 + Y V+ G + ++ + + GI + + ++T + +++ + EGK Sbjct: 119 NIEKEYIVKIEGILTKEMIEIASNGITLNNGIKFKPAKITKIDDE----TISLVITEGKF 174 Query: 199 REIKKVFEFFNWKVNRLIRISYGP--FQLGTLLAGSTREVSKKILREQLG 246 E+K + F K ++ R+ G L G +E+ ++ L Sbjct: 175 HEVKLIVGFLGLKYKKIKRVRIGKLNLNDFNLNLGEWKEIDYNTAKKALE 224 >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 = 134 bits (336), Expect = 3e-29, Method: Composition-based stats. Identities = 58/244 (23%), Positives = 106/244 (43%), Gaps = 16/244 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ K R+ + I+ +R+ V ++A+ V+V+G + + + Sbjct: 1 MQSKRA--------RLDRFISVKTGINRKNVRLLLAKGLVEVDGDIARNIDQIIDEFSDV 52 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 ++G L+ + + L+ +V+ D ++ + + VGRLD+NT G Sbjct: 53 SLEGEVLQSNSPSYVMLHKPVG-VVSATVDDKHKTVIDLLTDKSKHDLHIVGRLDLNTSG 111 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVT 178 LLLLTNDG ++ L P + ++YRV +D + + + I Q+ Sbjct: 112 LLLLTNDGRWSKKLMSPHHKVGKLYRVTLQNPIDDSYVKAFAEGIYFEFEDIITKPAQLA 171 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVS 237 L + V L EG+ +IK++F F V L RIS G L + L G +R ++ Sbjct: 172 LV----DSHTALVTLVEGRYHQIKRMFGRFRNPVIGLHRISVGKILLDSQLTPGMSRSLT 227 Query: 238 KKIL 241 + + Sbjct: 228 AQEI 231 >gi|221133423|ref|ZP_03559728.1| pseudouridine synthase [Glaciecola sp. HTCC2999] Length = 226 Score = 134 bits (336), Expect = 3e-29, Method: Composition-based stats. Identities = 50/224 (22%), Positives = 99/224 (44%), Gaps = 4/224 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++++ + + +V +IA+ + VN + + + V + + L Sbjct: 1 MRLDKYVSKSTVLTAAQVLEVIARGEISVNDSVTDDPSYQVHKNNTVHWLDTRLECRPFR 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L P + + + ++P I+ GRLD +T GL+L+T+DG + Sbjct: 61 YIMLNKPPNMICSNIDEHYPSVFNLVDIPHQHELHIA-GRLDADTTGLVLITDDGSWSYR 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L P +VYRV + D + L+KG+++QG + +D + V + + Sbjct: 120 LTHPDNHCPKVYRVCLAKPISDDMIMRLEKGVLLQGESAPTLPAAIDVVGAN--EVLLTI 177 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +GK ++K++F +V L R + G L + G R +S Sbjct: 178 TQGKFHQVKRMFAAVGNRVKALHREAIGEINL-DVEVGQWRYIS 220 >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 = 134 bits (336), Expect = 3e-29, Method: Composition-based stats. Identities = 67/229 (29%), Positives = 116/229 (50%), Gaps = 4/229 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 ++K IA +G+ SRR+ + + +V VNG L+ A V + D + ++ + + Sbjct: 282 LNKYIAHSGLCSRRKAVDFVKEGKVTVNGELITEPAFKVTAKDEVAINNRKINIQKNLVY 341 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPS---IFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L +KP G +TT DP+GR TV + + RV VGRLD NT GLLLLTNDG LA+ Sbjct: 342 ILLNKPKGYITTTDDPEGRKTVMELIQDATTEEQRVYPVGRLDRNTSGLLLLTNDGELAQ 401 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P ++Y V + + + + +G+ ++ + + G V + Sbjct: 402 KLAHPKHNIKKIYHVGLNKPLTKAHFENILQGVTLEDGVANVDALGYV-EAGDKTQVGIE 460 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + GKNR ++++FE ++V +L R++Y + G R +++K + Sbjct: 461 IHSGKNRIVRRIFEHLEYEVEKLDRVTYAGLTKKNINRGKWRFLTEKEI 509 >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 = 133 bits (335), Expect = 3e-29, Method: Composition-based stats. Identities = 53/234 (22%), Positives = 87/234 (37%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV V G + + + VD R Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVTVAGASATDPDASFDTDGLVFTVDDTAWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +LN L+ G+ + G + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEP-KPIAAVAAHA-RDTHALALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R S G F L L G+ R + ++ L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESIGGFTLPEDLAPGAWRWLGERELSALRDP 234 >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 = 133 bits (335), Expect = 3e-29, Method: Composition-based stats. Identities = 64/248 (25%), Positives = 97/248 (39%), Gaps = 24/248 (9%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------- 64 RVSK+I G+ASRRE + I VKV+G + + IE+D Sbjct: 10 EGVRVSKLITERGLASRREADAWIEAGWVKVDGKMA-VLGQRAAADCRIEIDPRARNEQA 68 Query: 65 --------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y LV + T P + GRLDI Sbjct: 69 RRVTVLLHKPMGFVSGQAEDGYKPAATLVIPANRWKDDPTRLAFHPGQLRGLAPAGRLDI 128 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN----LLKKGIVIQGICY 172 ++ GLL+LT DG +A+ L T+ + Y VR + 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 TREVSKKI 240 R + + Sbjct: 245 WRYLGENE 252 >gi|218682423|ref|ZP_03530024.1| pseudouridine synthase [Rhizobium etli CIAT 894] Length = 538 Score = 133 bits (335), Expect = 3e-29, Method: Composition-based stats. Identities = 59/206 (28%), Positives = 96/206 (46%), Gaps = 1/206 (0%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLW 76 + +++ G SR + ER+IA+ RV V+G + + V +T I VDG+ + + L Sbjct: 24 RALSKLGYCSRTQAERLIAESRVAVDGRTISDTSAWVDLATAKISVDGLVIAAETKIYLM 83 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + T H + + VGRLD +EGLLL TND A++L Sbjct: 84 LNKPRGLVTTRHDPEGRPTVYDCLRDFDIPHLSPVGRLDKASEGLLLFTNDTEFAQILLD 143 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P T + Y V+ +D + + + GI G Q N+W+ V L EG Sbjct: 144 PVTHVTKTYHVQIDRIMDDEAIAAMTSGIRHDGELLTATAARRLRQGDRNSWIEVELDEG 203 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGP 222 +NR+I+++ E + RL+R++ G Sbjct: 204 RNRQIRRMLEALGTECLRLVRVAIGR 229 >gi|188581487|ref|YP_001924932.1| pseudouridine synthase [Methylobacterium populi BJ001] gi|179344985|gb|ACB80397.1| pseudouridine synthase [Methylobacterium populi BJ001] Length = 242 Score = 133 bits (335), Expect = 3e-29, Method: Composition-based stats. Identities = 57/241 (23%), Positives = 98/241 (40%), Gaps = 7/241 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPL 67 R+ +++A G SRREVE + V+ +G L A+ + + + V G PL Sbjct: 2 KAVRLDRLLANLGYGSRREVEGLARAGLVRRDGEALRDASQRIALEPDLSARMTVQGAPL 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L L+ + S + + + +VGRLD T GLLL+T+ Sbjct: 62 DPLPGVCLMLHKPLGVTCSHKEAGPLIYSLLPERWRRRDPALSTVGRLDKETSGLLLMTD 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L + P + + YRV + D+ +L G ++ + + ++ + Sbjct: 122 DGALLHRIIAPKAKVAKRYRVTLARPLQGDEAAILASGELMLEGEDKPL-LPVEMEGEDA 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 TV L EG+ +++++F V+ L R G L L AG R + + Sbjct: 181 THCTVTLHEGRYHQVRRMFAALGNHVDALHRDRVGGLALPADLPAGEFRILGPGEIAAVF 240 Query: 246 G 246 G Sbjct: 241 G 241 >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 = 133 bits (335), Expect = 3e-29, Method: Composition-based stats. Identities = 67/251 (26%), Positives = 104/251 (41%), Gaps = 29/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA G+ SRRE + + V VNG + NV+ D IE+D + ++ Sbjct: 453 VRINKRIADMGLCSRREADEWVENGWVTVNGEVAT-MGQNVVPGDRIEIDQKAQDRQDQQ 511 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRLDINT 118 L +KP+G V+ ++ V GRLDI++ Sbjct: 512 VTILLNKPMGYVSGQAEDGHEPAVVLITNENRWNEDRSKTRFNFSQLKGLAPCGRLDIDS 571 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------HGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +AR + ++ + Y VR ++KL LL+ G+ + Sbjct: 572 VGLLVLTQDGRVARQIIGEDSEVDKEYLVRVTFGDRDVDVQSVFPEEKLALLRHGLSLDE 631 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 QV + + L EGK R+I+++ E KV L RI G LG L Sbjct: 632 QPLKPAQVDWQNPEQ----LRFVLTEGKKRQIRRMCEQVGLKVVGLKRIRIGGVTLGNLP 687 Query: 230 AGSTREVSKKI 240 G R ++ Sbjct: 688 TGQWRYLAAHE 698 >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 = 133 bits (335), Expect = 3e-29, Method: Composition-based stats. Identities = 53/234 (22%), Positives = 85/234 (36%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV V G + + VD Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVTVAGASATDPDATFDTDGLVFSVDDTAWPFHAHAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +LN L+ G+ + G + + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDTQLNTLRTGVQLHGEP-KPI-AAVAADARDTHALALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R S G F L G L G+ R + L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESIGGFTLPGDLAPGAWRWLDDADLSALRNP 234 >gi|213619052|ref|ZP_03372878.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 270 Score = 133 bits (335), Expect = 4e-29, Method: Composition-based stats. Identities = 75/266 (28%), Positives = 110/266 (41%), Gaps = 10/266 (3%) Query: 35 IAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTH 88 I RV V+G + V V I +DG + E L Y L T + Sbjct: 3 IEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKESAEQICRVLAYYKPEGELCTRN 62 Query: 89 SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + +R I+VGRLD+NT GLLL T DG LA L PS + R Y VR Sbjct: 63 DPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVR 122 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 GQVD+ KL L +G+ ++ + +G N W V L EG+NRE+++++E Sbjct: 123 VFGQVDESKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAV 182 Query: 209 NWKVNRLIRISYGPFQL-GTLLAGSTREVS---KKILREQLGPHLLEEAQVNLDAPIYSS 264 +V+RLIR+ YG L L G E+ LR + ++V ++ Sbjct: 183 GVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRGLVELPPETSSKVAVEKDRRRM 242 Query: 265 ETLVRDRPNIISEVPDDFTRMKKNSS 290 + R R ++ Sbjct: 243 KANQIRRAVKRHSQIAGGRRSGGRNN 268 >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 = 133 bits (334), Expect = 4e-29, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 227 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 286 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 287 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 346 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 347 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 406 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 407 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 462 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 463 QGEWRYLGPDE 473 >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 = 133 bits (334), Expect = 4e-29, Method: Composition-based stats. Identities = 65/238 (27%), Positives = 98/238 (41%), Gaps = 12/238 (5%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + N RV +A GI SRR E +I + +KVNGI + V D +E G Sbjct: 1 MTNINSKGLRVHVFLAEKGIGSRRFCEELIRKNLIKVNGIFAK-LGDKVFLGDRVEY-GK 58 Query: 66 PL------RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + + + + L L + + + P R+ S+GRLD + Sbjct: 59 QVFVFQDSKVVNKIYIALNKPINYLCSNFDPMGRKLAISLVQPLFRERLFSIGRLDFKSS 118 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL TNDG A + P + + Y + V +D L K GI + + + Sbjct: 119 GLLLFTNDGRFANSIVHPKNEIEKEYIIESKRVVSEDLLVNFKNGIKVDNELFKLKSYVM 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 N + L EGKNREI+KVF N + ++ R+ G L L G + +S Sbjct: 179 L----GNNTARLILTEGKNREIRKVFLSRNIFLKKVHRVRIGNITLSNLKEGQIKVLS 232 >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 = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 43/230 (18%), Positives = 95/230 (41%), Gaps = 6/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTR 74 + K++ G SR+ +++I ++++G ++ + +V G E+ Sbjct: 3 LEKMLQSQGFGSRKHCQQLIKNAAIEIDGQIITDPKYKLKLDALNYKVHGKSFEYREKVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + + + + VGRLD +T GLLLLT+DG + L Sbjct: 63 IALNKPQGYECSHQATHHFSVFDLFDDVLLNRGIQCVGRLDQDTTGLLLLTDDGQFLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VYR++ V +++ L++G+ ++ D ++ + + + + Sbjct: 123 THPKKHVAKVYRMKTADPVTDEQVQQLEQGVELRNEKGSFAAT--DVKRLAECELQMTVH 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG---TLLAGSTREVSKKIL 241 +G ++K++ KV L R G L L+ G ++ + + Sbjct: 181 QGVYHQVKRMLAAVGNKVESLHRQQIGALDLTGIPDLVEGHWIYLNAEQV 230 >gi|328870986|gb|EGG19358.1| hypothetical protein DFA_02145 [Dictyostelium fasciculatum] Length = 534 Score = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 49/282 (17%), Positives = 106/282 (37%), Gaps = 13/282 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K+++ G+ +R +V++ I +V G + V D I V G + E Sbjct: 3 ERVRLDKLLSNLGLCTRSKVQQFINANKVTYQGQKV-SPKAKVDVED-IRVMGRKVDHPE 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV----GRLDINTEGLLLLTND 127 + ++ + + + ++D LP F+ GRLD GL++++ + Sbjct: 61 LLTIAVHKPIGYVCSNSREDGDHKIIYDLLPKEFADRSPTLSIAGRLDKWVTGLVVMSQN 120 Query: 128 G----GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 G + + + V + D++ + + + + Q+ Sbjct: 121 GKIVERIITPKDDKMGKVYEVVCESKFNGTEADEMASGRVQLRSEDGPCKPAHFEVVDQE 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 N + L EGK +++++ K + R GP QLG L G R +SK+ + E Sbjct: 181 --NKMARLTLYEGKYHQVRRMMSAVGNKAIGIHRTQVGPIQLGDLEVGKWRILSKEEM-E 237 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 L + + + + ++ RD + ++ + Sbjct: 238 LLEAIQVSKPAITKNLYRRKAKEDARDEAELDDKMTMKPGQK 279 >gi|167903268|ref|ZP_02490473.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei NCTC 13177] Length = 444 Score = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 196 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 255 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 256 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 315 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 316 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 375 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 376 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 431 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 432 QGEWRYLGPDE 442 Score = 35.9 bits (81), Expect = 9.6, Method: Composition-based stats. Identities = 12/113 (10%), Positives = 23/113 (20%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + A + P + K Sbjct: 39 RGKDRAPREGARPGARGATGAKFGGAAHRSDDADRRTPRATRADSRARDAAPSSFAGKTT 98 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A + + A G +S + +R P+ + S R + Sbjct: 99 TAGKRAPQRADDRYGAAGKRTSPRPERTERPARFGERPATRASASGERRPTAR 151 >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 = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 52/232 (22%), Positives = 91/232 (39%), Gaps = 4/232 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R++K I+ +GI SRRE + I V VNG ++ V D + DG + Sbjct: 56 KQEGIRLNKYISNSGICSRREADTYIETGLVSVNGKIVNEMGYKVKLEDDVRFDGRRINP 115 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 T + L TT S+ G + + + SR+ +GRL N GLLL TND Sbjct: 116 EPMTYVLLNKPKG-FATTTSESKGNTVMDLVANASNSRITPIGRLGRNATGLLLFTNDDK 174 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L L + + +++G I G ++ + + + Sbjct: 175 LKEKLSKKGMSRLFHV--ELDKNLKAADIQKIREGFTIAGKKIE-IEEINYVEGKTKKEI 231 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + ++ N I+ +F F + + RL ++ L G + ++ + L Sbjct: 232 GLKIKNLGNSVIRDIFAHFEYDIVRLDCVALAHLTKKDLPRGKWKILTTQEL 283 >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 = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 101/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V ++G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMIDGTVELRQNRNVDSLLHQIEVAGEHLETNES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPEKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+V + +V + + GIV G + + + V + Sbjct: 120 EMLLPEKKVSKTYQVVVNERVTSADVTAFENGIVFADGYQCKPADLKILKADKHQSTVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R+S GP +L L G R + ++ Sbjct: 180 TIQEGKFHQVKKMFLAQGKKVTALKRLSMGPLELDEQLGVGEYRSFTLAEMK 231 >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 = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 60/240 (25%), Positives = 104/240 (43%), Gaps = 8/240 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + ++ SR + ++A RV+VNG + + D + DG L+ Sbjct: 14 RLDRFLSARLQMSRSNLRLLLAAGRVRVNGQVERDRQRRIGLFDAVVCDGEILQANRPRY 73 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + +V+ D + + + GRLD N+ GL+LLTNDG +R L Sbjct: 74 LMINKPAG-VVSATRDEHHPTVLELLPRGQREGLHLAGRLDFNSTGLVLLTNDGAWSRRL 132 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTVG 192 LP T + YRV + + + + + ++T+ + ++ W Sbjct: 133 SLPETGLWKHYRVSVDKPLSDEDVVSFSQRMWFDFEQIYTQPARLTIRSSFEADVW---- 188 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLE 251 L EGK +IK++F KV L R++ G QL L G +RE+++ + L P +E Sbjct: 189 LHEGKYHQIKRMFGRTGKKVTALHRLAVGRIQLDAYLAPGESRELTQAEQQTALDPEPVE 248 >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 = 132 bits (333), Expect = 5e-29, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V V+G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETNES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV G + + + V + Sbjct: 120 EMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFADGYQCQPANLKILKADKHQSTVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R+S GP +L L G R ++ ++ Sbjct: 180 TIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEQLAVGEYRSLTLAEMK 231 >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 = 132 bits (333), Expect = 6e-29, Method: Composition-based stats. Identities = 45/228 (19%), Positives = 91/228 (39%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLR--K 69 ++ K I G+ SR++ + +I + +NG + RA ++ + + VDG + Sbjct: 1 MQLLKYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDDIDPSQVHTLSVDGEEIAAVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L+ + + +VGRLD +T G++L+TNDG Sbjct: 61 MPHFYILLHKPADYETSHKPQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 + P + ++YRV D LK G+++ + Sbjct: 121 FNHRVTSPKHKVPKLYRVTLKHPADDTLCTTLKNGVLLHDDNETVAAAEAVLA---DPTT 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + EGK ++K++ +V +L R +G + + L AG + + Sbjct: 178 LMMTITEGKYHQVKRMIAAAGNRVEQLHREKFGDWNVDDLAAGEWKFI 225 >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 = 132 bits (333), Expect = 6e-29, Method: Composition-based stats. Identities = 43/208 (20%), Positives = 83/208 (39%), Gaps = 2/208 (0%) Query: 36 AQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRS 95 V V+G + + A V +E +G + + LY + + + + Sbjct: 15 KSGEVTVDGEVQKSGAFKVPEGGVVEWEGREVGAPGPRYIMLYKPADFVCSHEDGHNP-T 73 Query: 96 TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + GRLD++T GL+L+T+DG + + P + + YRV + Sbjct: 74 AFVLLDEPKVENLHFAGRLDVDTTGLVLITDDGQWSHRITSPKHKCEKTYRVWLVDAIQP 133 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 D + +GI ++ + L+ + V + + EGK ++K++F KV L Sbjct: 134 DYVEKFAEGIELRNEREATLPAHLEIVNEAENEVLLTIVEGKYHQVKRMFAALGNKVEHL 193 Query: 216 IRISYGPFQLGT-LLAGSTREVSKKILR 242 R G L L G R ++++ + Sbjct: 194 HRERIGSIVLDEALEPGDYRFLTEEEVE 221 >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 = 132 bits (333), Expect = 6e-29, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 103/251 (41%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI------------- 60 R+SK ++ G+ SRRE + I + V+V+G +++ V + HI Sbjct: 274 MRLSKRMSELGLCSRREADEWIEKGWVRVDGQIVDTLGAKVTAAQHIDVLPNARAAQARQ 333 Query: 61 --EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 V P+ Y + L+T + + + GRLDI++ Sbjct: 334 VTIVLNKPVGYVSGQPEGDYPPAVALITPANRWSDDPAPTRFSATHLRSLAPAGRLDIDS 393 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG---------QVDQDKLNLLKKGIVIQG 169 GLL+LT DG +A+ L ++ + Y VR DKL L++G+ + G Sbjct: 394 TGLLVLTQDGRIAKQLIGEQSEVEKEYLVRVRYGTHTQQVERYFPIDKLAQLREGLSLDG 453 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + QV + + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 454 VRLKPAQVDWQNGEQ----LRFVLREGRKRQIRRMCELVGLEVVGLKRVRIGQLVLGALP 509 Query: 230 AGSTREVSKKI 240 +G R + Sbjct: 510 SGKWRYLRADE 520 >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 = 132 bits (333), Expect = 6e-29, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V V+G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETKES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV G + + + V + Sbjct: 120 EMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFADGYQCQPANLKILKADKHQSTVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R+S GP +L L G R ++ ++ Sbjct: 180 TIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEQLAVGEYRSLTLAEMK 231 >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 = 132 bits (332), Expect = 7e-29, Method: Composition-based stats. Identities = 52/229 (22%), Positives = 98/229 (42%), Gaps = 8/229 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ +A+ ++ V ++ +RV V+G + A+ + I + LR Sbjct: 7 RLDSFLAKTLNIPKKAVRELLKAERVTVDGKVALEMALQIGPFSQIYLGDTALRADTPRY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +V+ D + ++ + ++ + + VGRLD+NT GL+LL+ND + + Sbjct: 67 LMLNKPVG-VVSATKDKEHKTVLDLIPEALRAGLHIVGRLDLNTSGLVLLSNDSRWSESM 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTVG 192 P + Y V + +D + ++G +GI ++ + ++ + V Sbjct: 126 MQPGAHVPKEYWVTLEHPLTEDYIAAFERGFYFETEGITTLPARLAILGEREA----RVE 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 L EGK +IK++F F V L R G L L G R ++ Sbjct: 182 LCEGKYHQIKRMFGRFQNPVVALHRHRIGALMLDPGLAPGQWRPLTDDE 230 >gi|254673145|emb|CBA07952.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha275] Length = 256 Score = 132 bits (332), Expect = 7e-29, Method: Composition-based stats. Identities = 45/228 (19%), Positives = 87/228 (38%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 27 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 87 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 147 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENP--TTL 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK ++K++ +V L R + + L G + + Sbjct: 205 LLTITEGKYHQVKRMIAAVGNRVQHLHRRRFAHLETENLKPGEWKFID 252 >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 = 132 bits (332), Expect = 7e-29, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 88/238 (36%), Gaps = 12/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRK 69 R++K +A A SRRE E+ I V V+G+++E V I + L Sbjct: 2 TDSIRLAKRVADAVPCSRREAEQYIEGGWVTVDGVVIEEPGHRVSPQQAIHLSPDATLVA 61 Query: 70 AERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + L+ L+T + + L S + V L+ GL+ Sbjct: 62 INPVTILLHKPAGIDADAALRLITPENLYAEDRSGIRFLKKHTSELKPVDVLETYASGLM 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D +AR L + + Y G + + L LL G+ G ++V+ + Sbjct: 122 VFTQDWHVARKLVDDAATVEQEYIAEVSGDLIPNGLALLNHGLNFNGKPLAPIKVSWQNE 181 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L+ G+ +I + E K+ L RI + +L AG R + Sbjct: 182 ----TRLRFALKAGRRGQIAHMCEMVGLKLLNLKRIRIARLPMASLPAGQWRYLKGYE 235 >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 = 132 bits (332), Expect = 7e-29, Method: Composition-based stats. Identities = 45/228 (19%), Positives = 87/228 (38%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAVGNRVQHLHRRRFAHLETENLKPGEWKFID 226 >gi|325130337|gb|EGC53103.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis OX99.30304] Length = 230 Score = 132 bits (332), Expect = 7e-29, Method: Composition-based stats. Identities = 45/228 (19%), Positives = 87/228 (38%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVLHLHRRRFAHLETENLKPGEWKFID 226 >gi|325204300|gb|ADY99753.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis M01-240355] Length = 230 Score = 132 bits (332), Expect = 7e-29, Method: Composition-based stats. Identities = 44/227 (19%), Positives = 86/227 (37%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 225 >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 = 132 bits (332), Expect = 8e-29, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 377 MRLSKRMSELGMCSRREADEWIEKGWVLVDGERIDTLGTKVRADQKIEIDERASAAQAAQ 436 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 437 VTILLHKPVGYVSGQAEDGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 496 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 497 TGLLVLTQNGVIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 556 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E V L R+ G LG L Sbjct: 557 VALKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 612 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 613 QGQWRYLSADE 623 >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 = 132 bits (331), Expect = 9e-29, Method: Composition-based stats. Identities = 44/228 (19%), Positives = 86/228 (37%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFID 226 >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 = 132 bits (331), Expect = 9e-29, Method: Composition-based stats. Identities = 63/248 (25%), Positives = 100/248 (40%), Gaps = 24/248 (9%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 +R+SK +A G+ASRRE + I V+V+G + V I VD Sbjct: 171 EGERLSKRMAALGLASRREADEWIEAGWVRVDGKMA-VLGQRVGPQAKIHVDPAAHKQQA 229 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 P+ Y L+ + S+ + P + GRLDI Sbjct: 230 QRVTILVNKPVGYVSGQAEDGYEPAAALIRPENRWSEDSSGVNWHPGQLRGLAPAGRLDI 289 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL----LKKGIVIQGICY 172 ++ GLL+LT DG +A++L + + Y VR Q + L G+ + G Sbjct: 290 DSVGLLVLTQDGRVAKLLIGDESLVEKEYLVRVAYQGQGRLPDSALALLNHGLELDGQAL 349 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V+ + + LREGK R+I+++ E +V L R+ G LG L AG Sbjct: 350 RPAKVSWQNEDQ----LRFVLREGKKRQIRRMCEAVGLQVLGLKRVRIGSVSLGHLPAGQ 405 Query: 233 TREVSKKI 240 R + + Sbjct: 406 WRYLRRDE 413 >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 = 132 bits (331), Expect = 9e-29, Method: Composition-based stats. Identities = 54/250 (21%), Positives = 108/250 (43%), Gaps = 7/250 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAE 71 R+ + ++ GI+SR E+++ I + +V +NG ++ V + + G Sbjct: 1 MRLDRFLSEMGISSRSELKKEIRRGQVLLNGEEARDPSLFVDPENPPVVLYRGREFHYEA 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +++ D + + + VGRLD + EGLLL++NDG L+ Sbjct: 61 FSYYMMNKPAG-ILSASRDKKQSTVLDLIQEDRRRDLFPVGRLDKDCEGLLLISNDGPLS 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVT 190 L P + ++Y VR G++ + L ++G+ ++T+ + + + Sbjct: 120 HRLLRPKSHVPKLYFVRVSGRLTESDAELFRRGLRYDEDLTALPAELTILSAEDIISEAC 179 Query: 191 VGLREGKNREIKKVFEFF--NWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 V + EGK +IKK+F +V L RI+ GP +L L G R++ + + Sbjct: 180 VRITEGKFHQIKKMFLALPKKKEVLFLKRIALGPLRLDEALKPGEYRKLKEAEISALKEI 239 Query: 248 HLLEEAQVNL 257 ++ Sbjct: 240 PSSASEEMRR 249 >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 = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 91/230 (39%), Gaps = 6/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + G + A + + D VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIADARVSIGGAVCTDADADFPTGDTTFSFTVDGVVWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 63 AYLLLNKPAGYECSRDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY +D +L+ L G+++ G + ++ + + + + Sbjct: 123 LFTSPKRKVPKVYVATTRHPIDDVQLSALHDGVLLHGES-KPI-AAVNVEARGDHTLALT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++ + L R G F L G L G + + + L Sbjct: 181 VMEGKYHQVKRMIAAAGNRCEALHRERIGGFALPGALAPGGWQWLDETHL 230 >gi|323527102|ref|YP_004229255.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323384104|gb|ADX56195.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 239 Score = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 90/230 (39%), Gaps = 6/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKAER 72 + ++ G SRR+ +I RV ++G + A + + D VDGV ER Sbjct: 3 LESILFSQGFGSRRQCRALIVDARVSIDGTVCADADADFPAGDAAFCFSVDGVVWPYRER 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 63 AYLLLNKPAGYECSRDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + +VY +D +L LL+ G+++ G +D + + + Sbjct: 123 TFTSPKRKVPKVYVATTRHPLDDAQLGLLRHGVLLHGESKPVA--AVDAEARGEHSLALT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + EGK ++K++ + L R G L TL G+ + + + + Sbjct: 181 VMEGKYHQVKRMIAAAGNRCEALHRERIGGLALPATLAPGAWQWLDETEI 230 >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 = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 421 MRLSKRMSELGMCSRREADEWIEKGWVLVDGARIDTLGTKVRADQKIEIDERASAAQAAQ 480 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 481 VTILLHKPVGYVSGQAEDGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 540 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 541 TGLLVLTQNGVIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 600 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E V L R+ G LG L Sbjct: 601 VALKPALVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 656 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 657 QGQWRYLSADE 667 >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 = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 62/232 (26%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V V+G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETNES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV G + + + V + Sbjct: 120 EMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFADGYQCQPANLKILKADKHQSTVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R+S GP +L L G R ++ ++ Sbjct: 180 TIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDERLAVGEYRSLTLAEMK 231 >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 = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 51/234 (21%), Positives = 87/234 (37%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV + G + + + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAIGGAPATDPDAELDTDGLVFTVDGTPWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + P + V VGRLD +T GLLLL++DG Sbjct: 63 VVLNKPAGYECSRDPQHHPSVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+ + G + + + + Sbjct: 123 TSPKRKVPKTYVATVRHALDAAQLDALRGGVQLHGEP--KPVAAVAADARDPHTLALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R S G L L G+ R + + L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESVGGLALPADLAPGAWRWLGQAELAALRNP 234 >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 = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 52/245 (21%), Positives = 89/245 (36%), Gaps = 7/245 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ +++A G +R+EV I V + G L A + I D PL A Sbjct: 1 MRLVRLLANLGYGTRKEVALAIRNGWVT-DRAGRPLTADAR--TPHEDILFDDEPLDPAP 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L + + D + +VGRLD +T G LL T+DG L Sbjct: 58 GMVLLLNKPVGYTCSTKDRGRLVYDLLPDRFRLRKPVLSTVGRLDRDTSGALLFTDDGVL 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P ++ +VY + D+ G ++ ++ G Sbjct: 118 LHRIIAPKSEVPKVYEAELDRPLKGDEAAQFASGTLMLDGEDKPLKPAELEVLGERR-AR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L EG+ +++++F V L RI G L L G+ R + ++ + + P Sbjct: 177 LTLHEGRYHQVRRMFAATGNHVTALARIRIGALTLDGLAEGTWRLLDERDVAKIFAPPSG 236 Query: 251 EEAQV 255 Sbjct: 237 NVPPP 241 >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 = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 442 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQ 501 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 502 VTILLHKPVGYVSGQAEDGYEPASVLITRANQWSGDRSPLRFSPQHLHALAPAGRLDIDS 561 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 G+L+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 562 TGMLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLLDIDQHFPAESLAKLRHGLELDG 621 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 622 VALKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 677 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 678 QGQWRYLSPDE 688 Score = 41.7 bits (96), Expect = 0.16, Method: Composition-based stats. Identities = 12/105 (11%), Positives = 28/105 (26%), Gaps = 3/105 (2%) Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNL 310 E ++ + D R + ++ + P + Sbjct: 292 AEGGARAPYRDKATGDAPKRSFGERRAPSDRPARRSDDDTRPRRAGAEGGARAPYRDKAT 351 Query: 311 ASNVWMAKGIHSSFLSDSGQREENH---RRSPSFPSKRSLRRTSA 352 + G S+ +R ++ RR+ + R+ R A Sbjct: 352 GDAPKRSFGERSTSTDRPARRSDDDARPRRAGAEGGARAPYRDKA 396 Score = 39.8 bits (91), Expect = 0.58, Method: Composition-based stats. Identities = 10/113 (8%), Positives = 26/113 (23%), Gaps = 3/113 (2%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + E + + D R + ++ + Sbjct: 102 DARPRRAGAEGGARAPYRDKAEGYGEKRSFGERRTSSDRPARRSDDDTRPRRAGAEGGAR 161 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENH---RRSPSFPSKRSLRRTSA 352 P + + + +R ++ RR+ + R+ R A Sbjct: 162 APYRDKATGEGAKRSFDDRRTSSDRPARRSDDDTRPRRAGAEGGARAPYRDKA 214 Score = 36.3 bits (82), Expect = 6.6, Method: Composition-based stats. Identities = 13/110 (11%), Positives = 25/110 (22%), Gaps = 2/110 (1%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+ + P A ++ +R ++ Sbjct: 28 RKAVRPAGPPAADKPPRPKKAAAPAAAGERAFKPRGAERPGADRAPAKRAPRDGGAERGD 87 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 A P R S ++ G R ++ + KRS Sbjct: 88 ARPA--RPYRSAEGQPDARPRRAGAEGGARAPYRDKAEGYGEKRSFGERR 135 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 51/234 (21%), Positives = 88/234 (37%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV + G ++ + + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAIGGAPATDPDADLDTDGLVFTVDGTPWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + P + V VGRLD +T GLLLL++DG Sbjct: 63 VVLNKPAGYECSRDPQHHPSVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+ + G + + + + Sbjct: 123 TSPKRKVPKTYVATVRHALDAAQLDALRGGVQLHGEP--KPVAAVAADARDPHTLALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R S G L L G+ R + + L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESVGGLALPADLAPGAWRWLGEAELAALRNP 234 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 51/230 (22%), Positives = 90/230 (39%), Gaps = 4/230 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 ++ +++ G +RR ++ V+V G +++ + + + EVDG + Sbjct: 1 MKLEQILFTQGFGTRRVCAGLVDCGAVRVGGQVVDDPSADFDTAGLVFEVDGREWPFRQP 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L+ + P V VGRLD +T GLLL T+DG L Sbjct: 61 ALVMLHKPAGYECSQKPRHHPSVMSLLPPPLRTRGVQPVGRLDEDTTGLLLFTDDGKLIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P +VY VD+ + L G+V+ ++ G N + + Sbjct: 121 RLTSPKHHVPKVYEATTKHPVDEAVVQRLLAGVVLDDDP-QPVRALQAQCTGPNT-LRLV 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 L EGK ++K++ +V L R ++G L L G V + + Sbjct: 179 LAEGKYHQVKRMVAAAGNRVEALHRSAFGALTLPADLAPGRWCWVEPEAI 228 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 69/241 (28%), Positives = 115/241 (47%), Gaps = 8/241 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPL 67 E R++K +A AG+ SRR + ++AQ V VNG++++ V V+ D + V G + Sbjct: 43 EAEQSVRINKALADAGVCSRRAADELVAQGVVTVNGVVVDTPGVKVVPDRDELCVRGKKI 102 Query: 68 -----RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-SIFSRVISVGRLDINTEGL 121 T L ++ + T R+ + P R+ VGRLD +EGL Sbjct: 103 FLKSSSSRSHTYLMMHKPVEVVTTVSDPEGRRTVIDILPPLHRKKRLFPVGRLDFFSEGL 162 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD 180 LLLT+DG L L PS + Y V+ G V + L ++KG+ + +G ++V + Sbjct: 163 LLLTDDGVLTHRLTHPSWHLPKTYLVKVRGVVQDNDLQAMRKGMTLAEGEKLAPVEVEVL 222 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 ++ + + L +G NR+I+++ V L R+ GP LG L G RE++ Sbjct: 223 SRHHDWLLLEMTLFQGINRQIRRMCRDAGLTVLSLHRVRQGPLSLGELRTGEVRELTDSE 282 Query: 241 L 241 + Sbjct: 283 I 283 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 311 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 370 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 371 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 430 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 431 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 490 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 491 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 546 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 547 QGEWRYLGPDE 557 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 311 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 370 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 371 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 430 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 431 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 490 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 491 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 546 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 547 QGEWRYLGPDE 557 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 64/316 (20%), Positives = 121/316 (38%), Gaps = 30/316 (9%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEV----- 62 N + R++KV+A G+ASRR E +I++ RV+VNG ++ + TD +E+ Sbjct: 71 TNESRPRLAKVLAACGVASRRACEELISEGRVRVNGRVVSEQGTTIDPTTDRVELLVKYS 130 Query: 63 ----DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------- 108 G +R+ ++ + ++ L + Sbjct: 131 VNLHRGHRVRR--HNLIYPEPDKGYICSSSDVSGRGKLAVQLLNPWLEQWRRNSKDTKRL 188 Query: 109 ----ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 +VGRLD+ + GL+ +TNDG A + PS+ + Y V + +L L G Sbjct: 189 PPRFFTVGRLDVASSGLIFITNDGHWANRVIHPSSGLTKEYVVGLGRDASRPQLQALAAG 248 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + G ++V + G + + + ++EGK E++++ + ++ L R+ G F+ Sbjct: 249 TEVAGTFVSPVEVEVL---GDSRRLRIVVQEGKKHEVRELVKAAGLELTSLKRVRIGGFR 305 Query: 225 L-GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 L L G RE+ LR E A + + R + Sbjct: 306 LPRDLGIGGFRELKPSDLRTVTDLAAQEAASASGETRQAVQRQAAAQRAAAAAASVPRAL 365 Query: 284 RMKKNSSQKNGLSKQK 299 R + ++ Sbjct: 366 RGMGEEVLERLRKARE 381 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V ++G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMIDGTVEFRQNRNVDSLLHRIEVAGEHLETNES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV G + + + V + Sbjct: 120 EMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFADGYQCQPANLKILKADKHQSTVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R+S GP +L L G R ++ ++ Sbjct: 180 TIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEHLAVGEYRSLTLAEMK 231 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 55/251 (21%), Positives = 90/251 (35%), Gaps = 25/251 (9%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVK--------------VN---G-ILLERAAVNVMS 56 R+ ++++ G SRRE + V VN G L + V Sbjct: 4 RLDQLLSSLGYCSRREARDFLRAHTVTISPPPPPPPSAGNSVNVSVGLQPLRDPSAKVNP 63 Query: 57 TDH---IEVDGVPLRKAERTRLWLYHKPIGLVTTHSD--PDGRSTVFDNLPSIFSRVISV 111 D + VDG L L L+ + + P + + +V S+ Sbjct: 64 LDPARPVFVDGEALDHPGGLLLMLHKPTGFVCSHDEREGPRVYDLLPPRWRARNPQVTSI 123 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD +T GLL+LT+ L P + ++YR V ++L G + Sbjct: 124 GRLDKDTSGLLILTDRTELVHTYTSPRHKVPKLYRATLDRDVPASLVDLFAAGTLQLDGE 183 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF-NWKVNRLIRISYGPFQLGTLLA 230 + + L EGK +++++F V L R +G LG L Sbjct: 184 KAPCAPATLRL-PAPRVAELVLVEGKYHQVRRMFAAAAGATVLTLHRECFGRLTLGDLKP 242 Query: 231 GSTREVSKKIL 241 G RE+S+ + Sbjct: 243 GEYREISESEI 253 >gi|171914565|ref|ZP_02930035.1| putative pseudouridylate synthase [Verrucomicrobium spinosum DSM 4136] Length = 235 Score = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 101/230 (43%), Gaps = 7/230 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 +S++IAR R + IA +RVKV ++ V + +D +++ E Sbjct: 3 LSRLIARHKGMGRTAAMQAIAGKRVKVEDQVVTDGQHEVDRFSTVWLDDTLVQEGESALY 62 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 + HKP+G ++ DP + + + GRLD ++ GLLLLTNDG +R L Sbjct: 63 IMLHKPVGYLSATRDPQHPTVIDLIDHPARETLHIAGRLDRSSSGLLLLTNDGRWSRRLT 122 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTVGL 193 P + +VY V + + + L KG + + ++ + V L Sbjct: 123 EPGEKVDKVYLVETAEPIAPEAVELFAKGFYFHTEDLTTLPAELGIL----GERLARVTL 178 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 EG+ +IK++F +V L R S G L L G RE+ + +LR Sbjct: 179 HEGRYHQIKRMFHRVGNRVISLHRESIGSLVLPVELFPGQWREIRRDVLR 228 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 43/228 (18%), Positives = 91/228 (39%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLRKAE 71 ++ K I G+ SR++ + +I + +NG + RA ++ + + VDG + Sbjct: 1 MQLLKYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDDIDPSQVHTLSVDGEEIAAVP 60 Query: 72 RTRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + + + +VGRLD +T G++L+TNDG Sbjct: 61 MPYFYILLHKPADYETSHKPQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 + P + ++YRV + LK G+++ + Sbjct: 121 FNHRVTSPKHKVPKLYRVTLKHPANDTLCATLKNGVLLHDDNETVAAAEAVLA---DPTT 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + EGK ++K++ +V +L R +G + + L AG + + Sbjct: 178 LMMTITEGKYHQVKRMVAAAGNRVEQLHREKFGDWNVDDLAAGEWKFI 225 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 52/228 (22%), Positives = 85/228 (37%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV V G + + + VD R Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVSVAGASATDPDASFDTDGLVFTVDDTAWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPTPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +LN L+ G+ + G + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEP-KPIAAVAAHA-RDTHALALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R S G F L L G+ R + + L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESIGGFTLPDDLAPGAWRWLGEGEL 228 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 63/213 (29%), Positives = 102/213 (47%), Gaps = 3/213 (1%) Query: 39 RVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 +V VNG ++ V V ++ IEV+G+ L K E Y + D + Sbjct: 1 KVTVNGKVVTELGVKVSGSERIEVEGIQLTKEEHRYFLFYKPRGTVSAVTDDKGRTTVAD 60 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 I R+ VGRLD +T GLLL+TNDG A +L P + + Y R G +++ + Sbjct: 61 YF-TDIPERLYPVGRLDYDTSGLLLMTNDGDFANLLMHPKNEVAKTYIARIKGIPEREVI 119 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 L++G+VI G +V + + A V + + EG+NR+++K+FE ++V +L Sbjct: 120 RELERGVVIDGRKTAPAKVKIRSSDKAKDKAIVEITIHEGRNRQVRKMFEAVGFEVQKLS 179 Query: 217 RISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 R Y L L AG RE+S +++ Sbjct: 180 REEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 212 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 63/234 (26%), Positives = 112/234 (47%), Gaps = 2/234 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPL 67 E R+++ IA +G+ SRR+ + +I V VNG+++ V + D I +G L Sbjct: 181 EENGLIRLNRYIANSGVCSRRKADELIQAGVVTVNGVVVTELGTKVDAAKDEIRYNGEKL 240 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + + L + TT + ++ + + R+ VGRLD NT GLLLLTND Sbjct: 241 KREKMVYVLLNKPKDYITTTDDPQERKTVMHLVEKASRERIYPVGRLDRNTTGLLLLTND 300 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G LA L P +++Y V + + Q N + G+ ++ +V+ Q S Sbjct: 301 GNLAEKLSHPRNNIMKIYHVELNKSLTQGDFNKIGYGVELEDGFIKPDEVSYI-QGASKR 359 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + + G+NR ++++FE + V +L R+ Y L G R + +K + Sbjct: 360 EIGIQIHSGRNRIVRRIFESLGYDVIKLDRVIYANLTKKDLPRGRWRYLEEKEI 413 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 315 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 374 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 375 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 434 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 435 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 494 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 495 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 550 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 551 QGEWRYLGPDE 561 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 46/228 (20%), Positives = 85/228 (37%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPL--RK 69 ++ K + G+ SRR+ ER+ V+VNG + A + + + G + Sbjct: 1 MQLVKYLQAQGVGSRRQCERLAECGGVEVNGETVSGAKTEIAPDSVRTLRIGGAAVCVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 LPYFYIVLNKPAGYETSHKPRDWPGVFTLFPANLRNLDMQAVGRLDADTTGVLLITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P ++YR D L+ G+++ + + Sbjct: 121 FNHRMTSPKHHVAKLYRATLKHAADAALCETLQNGVLLHDDNETVAADAAELADP--HTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK ++K++ +V +L R+ +G + L G R VS Sbjct: 179 LLTIGEGKYHQVKRMVAAAGNRVEKLHRLRFGSWSAEDLAVGEWRFVS 226 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 402 MRLSKRMSELGMCSRREADEWIEKGWVLVDGERIDTLGTKVRADQKIEIDERASAAQAAQ 461 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 462 VTILLHKPVGYVSGQAEDGYEPAAVLITRANRWSGDHSPVRFSPQHLHALAPAGRLDIDS 521 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 522 TGLLVLTQNGVIAKQLIGEQSDIDKEYLVRVRFGERLIDIDQHFPAESLAKLRHGLELDG 581 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E V L R+ G LG L Sbjct: 582 VALKPALVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLDVIGLKRVRMGRVMLGALP 637 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 638 QGQWRYLSADE 648 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 45/228 (19%), Positives = 87/228 (38%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFID 226 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 51/234 (21%), Positives = 88/234 (37%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV + G ++ + + VDG P R Sbjct: 3 LESILYTQGFGSRRQCRGLIEAGRVAIGGAPATDPDADLDTDGLVFTVDGTPWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + P + V VGRLD +T GLLLL++DG Sbjct: 63 VALNKPAGYECSRDPQHHPSVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+ + G + + + + Sbjct: 123 TSPKRKVPKTYVATVRHALDAAQLDALRGGVQLHGEP--KPVAAVAADARDPHTLALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R S G L L G+ R + + L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESVGGLALPADLAPGAWRWLGEAELAALRNP 234 >gi|289671226|ref|ZP_06492301.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 291 Score = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 77/254 (30%), Positives = 123/254 (48%), Gaps = 11/254 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK---- 69 +R+ KV+A+AG+ SRR +E+ IA +KVNG + + ++V S D IE+DG Sbjct: 28 ERLHKVLAQAGLGSRRALEQRIADGLIKVNGAVAQT-GMSVRSGDKIELDGRSFVASALT 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + SR I++GRLDINT GLLLLT DG Sbjct: 87 EPSRVLIYNKPEGEVTTREDPEGRPTVFESLPALKGSRWIAIGRLDINTTGLLLLTTDGE 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKG 184 LA + PS + R Y VR ++ + L +G++++ ++ Sbjct: 147 LANAMMHPSYEVEREYVVRVRAPEGEEKVSDAIIERLSRGVLLEDGGAKFDEIERIGGTD 206 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 S+ W V ++EG+NRE+++++E +V+RL R YG L LL G + EV+++ + Sbjct: 207 SHDWFRVVVKEGRNREVRRLWESQGCQVSRLKRSRYGKISLPRELLRGQSVEVAQEKVDA 266 Query: 244 QLGPHLLEEAQVNL 257 LEE + Sbjct: 267 LRAELKLEEGAPSA 280 >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 = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 53/213 (24%), Positives = 85/213 (39%), Gaps = 10/213 (4%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHS 89 E +I V+VN ++ V D I V G + + + + Sbjct: 27 ECRTLIKHGFVEVNNQVINDHRYVVHDDDKINVFGKAIHSQPFVYYMMNKPKGYICANYD 86 Query: 90 DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + I VGRLD +T G LLLTND + + L LP + Y V Sbjct: 87 KNHLCVVD----LIERNDCICVGRLDKDTTGFLLLTNDKSIVKALLLPQNHQPKTYLVTT 142 Query: 150 HGQVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 +D++ + + GIVI IC Q+ L + + L EGK ++KK+F Sbjct: 143 RFPIDENSIYRFEMGIVIDQDICCLPAQLELI----NTHQCYLTLHEGKYHQVKKMFLSC 198 Query: 209 NWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 +V L RI++ L +L G R++++ Sbjct: 199 QNEVVDLKRIAFAGLVLDASLGYGEYRQLNQDE 231 >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 = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 60/249 (24%), Positives = 99/249 (39%), Gaps = 23/249 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P R+SK ++ G+ SRRE + I + V+V+G+++ V+ + V+ Sbjct: 2 TEPVRLSKRMSELGLCSRREADEWIEKGWVRVDGVVVSVLGSKVLPHQKVTVERQASAEQ 61 Query: 64 --------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + LV S T P ++ GRLD Sbjct: 62 AQRVTILLNKPMGYVSGQAEDGYKPAVVLVNEQSRWAEDQTEMRFHPRQLKSLVPAGRLD 121 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQGIC 171 I++ GLL+LT DG +A+ L + + Y VR L G+++ G Sbjct: 122 IDSVGLLVLTQDGRIAKQLIGEDSAVDKEYLVRVQYTRPGKLPESDLKRLNHGLIMDGKP 181 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 +V + + LREGK R+I+++ + KV L R+ G +LG L G Sbjct: 182 LRPAKVVWQNEDQ----LRFTLREGKKRQIRRMCDMVGLKVIGLKRVRIGGVKLGELPTG 237 Query: 232 STREVSKKI 240 R + Sbjct: 238 QWRYLRPDE 246 >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 = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 309 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQ 368 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 369 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 428 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 429 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTTDIERHFPAESLAKLRHGLELDG 488 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 489 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 544 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 545 QGQWRYLGPDE 555 >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 = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 47/235 (20%), Positives = 93/235 (39%), Gaps = 5/235 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K++A G SR+E++ I + +G ++ A + + I D PL E Sbjct: 1 MRLVKLLANLGYGSRKEMQAAIRNGWITDKDGNAIK-ADSKL-PHEEILFDDEPLDPPEG 58 Query: 73 TRLWLYHKPIGLVTT-HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + L + + D + VGRLD +T GLLL T+DG L Sbjct: 59 SVILLNKPLGYTCSMKDRGRLVFDLLPDRYRVRKPALSFVGRLDKDTTGLLLFTDDGKLL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++Y V + + +L G ++ ++ + + Sbjct: 119 HRIISPKADVAKIYEVELDRPMTGGEGDLFASGEMMLENETNPLKPAELEVLSETS-ARL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 L EG+ +++++F V L R G L + G+ + ++++ + + G Sbjct: 178 TLHEGRYHQVRRMFAATGNHVTNLHRAQLGGLTLEGVEEGTWKLLAQEEIAKIFG 232 >gi|257138757|ref|ZP_05587019.1| pseudouridine synthase family protein [Burkholderia thailandensis E264] Length = 547 Score = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 299 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAEQAAQ 358 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 359 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWGGDRSPLRFSPQHLRALAPAGRLDIDS 418 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 419 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTTDIERHFPAESLAKLRHGLELDG 478 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 479 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 534 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 535 QGQWRYLGPDE 545 >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 = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 52/230 (22%), Positives = 91/230 (39%), Gaps = 6/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + G + A + + D VDGV E Sbjct: 28 LESILFTQGFGSRRQCRALIADARVSIGGAVCTDADADFPTGDTTFSFTVDGVDWPYREH 87 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 88 AYLLLNKPAGYECSRDPQHHLSVFSLLPPQFAGRGVQCVGRLDQDTTGLLLLSDDGKFVH 147 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY +D +L+ L+ G+++ G + +D + + + + Sbjct: 148 LFTSPKRKVPKVYVATTRHPIDDAQLSALRDGVLLNGE-ARPI-AAVDVEARGDHTLALT 205 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++ + L R G L L G+ + + + L Sbjct: 206 VMEGKYHQVKRMIAAAGNRCEALHRERIGGLALPEALARGAWQWLDETDL 255 >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 = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 61/250 (24%), Positives = 104/250 (41%), Gaps = 28/250 (11%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---------- 64 R+SK+++ G+ SRRE + I + V V+G+++++ V I++D Sbjct: 377 RLSKLMSELGLCSRREADEWIEKGWVTVDGVVVDKLGTKVRPDADIQIDPAAQAAQQKQV 436 Query: 65 -----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 P+ Y + LV + DG T ++ GRLDI++ Sbjct: 437 TILVHKPVGYVSGQAEDGYEPAVTLVKPENRWDGDRTDIRFSAVHLRQLAPAGRLDIDST 496 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQGI 170 GLL+LT DG +A+ L ++ + Y VR + + L L+ G+ + G+ Sbjct: 497 GLLVLTQDGRIAKQLIGGHSEIDKEYLVRVSYGDIETDVEHEFPAESLAKLRHGLELDGV 556 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 V+ + + LREGK R+I+++ E V L R+ G LG L Sbjct: 557 PLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLHVVGLKRVRMGHVMLGALPP 612 Query: 231 GSTREVSKKI 240 G R + Sbjct: 613 GQWRYLGPDE 622 Score = 37.5 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 12/122 (9%), Positives = 22/122 (18%), Gaps = 9/122 (7%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R E A + P + Sbjct: 166 RSGAASRAGERAPRFSRDDDARVARRTAPDSDDGRRAPRPPRESDDVRRAPRTARTEGTP 225 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF---------PSKRSLRRTSA 352 + R + + S S R E P+ P +R + Sbjct: 226 SRERTERRYRDDAPEGRTTRSPRGERSEARGERSYARPARAAYEDRGAAPERRPRGEGAP 285 Query: 353 KK 354 ++ Sbjct: 286 RR 287 >gi|325128404|gb|EGC51287.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis N1568] Length = 230 Score = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 44/228 (19%), Positives = 86/228 (37%), Gaps = 6/228 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ +D G + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDLDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPEDYETSHKPKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFID 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 = 131 bits (328), Expect = 2e-28, Method: Composition-based stats. Identities = 52/234 (22%), Positives = 87/234 (37%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV V G + + +DG R Sbjct: 3 LESILYTQGFGSRRQCRGLIESGRVTVAGASATDPDAAFDTDGLVFTLDGTAWPYHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPAPLLARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D+ +LN L+ G+ + G + + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDETQLNALRSGVQLHGEP-KPI-AAVAAVARDTHTLALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R G F L L GS +++ L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRERIGGFALPAGLAPGSWCWLAEAELAALRNP 234 >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 = 131 bits (328), Expect = 2e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 323 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 382 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 383 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 442 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 443 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 502 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 503 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 558 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 559 QGEWRYLGPDE 569 >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 = 131 bits (328), Expect = 2e-28, Method: Composition-based stats. Identities = 50/226 (22%), Positives = 87/226 (38%), Gaps = 5/226 (2%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTRLWL 77 ++ G SRR+ ++A RV + G + + + +VDG + L L Sbjct: 6 ILFSQGFGSRRQCRALVAAGRVAIGGAICDDPEQSFPTDGLEFDVDGTRWLYRQHAYLVL 65 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + V VGRLD +T GLLLL++DG P Sbjct: 66 NKPAGYECSREPQHHESVFALLPPQLATRGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSP 125 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + + Y +D +L L+ G+++ G + LD Q + + ++EGK Sbjct: 126 KRKVPKTYLATLKHPLDAAQLTALRDGVLLHGEP-KPI-AALDAQARGTHQLEMTVQEGK 183 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQL--GTLLAGSTREVSKKIL 241 ++K++ + +L R G F L L G+ R + + L Sbjct: 184 YHQVKRMIAAAGNRCEQLHRERIGGFALPADALPPGAWRWLDEADL 229 >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 = 131 bits (328), Expect = 2e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 322 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 381 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 382 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 441 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 442 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 501 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 502 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 557 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 558 QGEWRYLGPDE 568 >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 = 131 bits (328), Expect = 2e-28, Method: Composition-based stats. Identities = 45/227 (19%), Positives = 87/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 27 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 87 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 147 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNP--TTL 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 205 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 251 >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 = 131 bits (328), Expect = 2e-28, Method: Composition-based stats. Identities = 45/227 (19%), Positives = 87/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 27 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 87 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 147 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLENP--TTL 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 205 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 251 >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 = 130 bits (327), Expect = 2e-28, Method: Composition-based stats. Identities = 47/229 (20%), Positives = 87/229 (37%), Gaps = 7/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ K++A G SR+E+++ I V + G L+ A D I D PL A+ Sbjct: 1 MRLVKLLANLGYGSRKEMQQAIRHGWVT-DRKGNQLK-ADAKTDHKD-ILFDDEPLDPAQ 57 Query: 72 RTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + + + + D + ++GRLD T G LL T+DG Sbjct: 58 GVVILMNKPLGYVCSTKDQGRLVYDLLPDRFRMRKPVLSTIGRLDKETSGALLFTDDGTF 117 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + +VY V ++ + L G ++ ++ Sbjct: 118 LHQVISPKSNVPKVYEVTLDRPMNGSEAALFASGEMMLENEQKPLKPAELDV-IDETHAR 176 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L EG+ +++++F V L R G L + G + +S+ Sbjct: 177 LTLHEGRYHQVRRMFAATGNHVTDLARSRIGTLTLEGVDEGQWKILSED 225 >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 = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 55/235 (23%), Positives = 96/235 (40%), Gaps = 7/235 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD----HIEVDGVPLR 68 R+ +++A G SRRE++ + R++++G L A + +T + V G PL Sbjct: 6 TIRLDRLLANLGYGSRREIQALARAGRIRLDGEALREADGRIAATADLPARLTVSGEPLD 65 Query: 69 KAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L+ + + + + +VGRLD +T GLLL+T+D Sbjct: 66 PPAPLALMLHKPTGVTCSHKEAGPLVYGLLPERWRRREPALSTVGRLDKDTSGLLLVTDD 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + P + + YRV + D+ +L G ++ + T +G Sbjct: 126 GALLHRIISPKAKIEKQYRVELDRPLRGDEGAILVSGTLMLEGEEAPLLPVGFTAQGPRQ 185 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 V L EG+ +++++F V L R G L L G+ R + L Sbjct: 186 -ARVVLTEGRYHQVRRMFAALGNHVTALHRDRVGGLTLPEDLAPGAYRILDAAAL 239 >gi|145342798|ref|XP_001416276.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144576501|gb|ABO94569.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 249 Score = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 65/252 (25%), Positives = 104/252 (41%), Gaps = 24/252 (9%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--- 65 E+ +RVSK++AR G SRRE ER+I RV V+G + + IE+ G Sbjct: 2 EDDELERVSKILARRGTCSRREAERLIEDGRVLVDGETI-ELGFKARANARIEITGEGTR 60 Query: 66 -------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF----------DNLPSIFSRV 108 + + + + + + S Sbjct: 61 WLREKLTVIVNKPPGYVSNLPAEGEIAAAACVEPRNAWMRAMEGTPMDDLKRVTRDVSSF 120 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++ GLL+LT DG LAR + + L+ Y V V + + L + + Sbjct: 121 NVCGRLDKDSRGLLILTEDGALARSVIGGN-GVLKKYVVTTDADVRESHMRSLNGRVQLD 179 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G+ M + + + LREGKNR+I++V E F +V L R+ G Q+G L Sbjct: 180 GVELLPM--NVQRLGHGSRTLEFNLREGKNRQIRRVCEKFGLRVVDLHRVQIGDVQIGDL 237 Query: 229 LAGSTREVSKKI 240 G+ R +S++ Sbjct: 238 PEGAWRLMSERE 249 >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 = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 51/282 (18%), Positives = 106/282 (37%), Gaps = 7/282 (2%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ +N R+ ++++ GI R V R + ++RV ++G + D + +DG Sbjct: 1 MIIKNSKKLRIDRLLSNLGIVERSSVPRFLNEKRVTISGKKAT-LSSKASP-DEVRIDGK 58 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLL 122 + L L+ + +T +D D + + S GRLD GL+ Sbjct: 59 LIENPSALHLALHKPSGYICSTVNDGDHKVVYDLLPKDFQSRKPIPSIAGRLDKWVTGLV 118 Query: 123 LLTNDGG--LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 + + DG + V + + G++++G L+ Sbjct: 119 IFSQDGKLVERIITPKDDGCGKDYEVVLKNKLGGDEIGVFESGGLMLRGEEAPCKPAKLE 178 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 S V V L EG+ +++++F + K + R GP +LG L G R +++K Sbjct: 179 ILDESKNKVKVTLFEGRYHQVRRMFAANDNKALEIHRTRIGPVELGDLPVGKWRHLTEKE 238 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 +++ + + + I + + I+ D Sbjct: 239 IQDLYNIQVSQSKKKRDYKEIKKDKEKDKLYKAIVEPDQDKT 280 >gi|308389419|gb|ADO31739.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha710] Length = 256 Score = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 45/227 (19%), Positives = 87/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 27 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 87 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 147 LNHSLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNP--TTL 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 205 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 251 >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 = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 44/228 (19%), Positives = 91/228 (39%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLR--K 69 ++ K I G+ SR++ + +I + +NG + RA ++ + + VDG + Sbjct: 1 MQLLKYIQSQGLGSRKQCQWLIDNDCIAINGEIHNRAKDDIDPSQVHTLSVDGEEIAAVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L+ + + +VGRLD +T G++L+TNDG Sbjct: 61 MPHFYILLHKPADYETSHKPQQYPSIFSLFPDHMRNIDMQAVGRLDADTTGIILITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAW 188 + P + ++YRV D LK G+++ + + Sbjct: 121 FNHRVTSPKHKVPKLYRVTLKHPADDTLCTTLKNGVLLHDDNET---VAAAEAVLAAPTT 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + EGK ++K++ +V +L R +G + + L G + + Sbjct: 178 LMMTITEGKYHQVKRMVAAAGNRVEQLHREKFGDWNVDDLATGEWKFI 225 >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 = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 45/227 (19%), Positives = 87/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 121 LNHSLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 225 >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 = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 66/241 (27%), Positives = 119/241 (49%), Gaps = 16/241 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRRE +++I + +V +N +++ + V + + V+G L++ E Sbjct: 1 MRLNQYIAHHSKFSRREADQLIKEGKVSINKEIIKDFSYQVKNHTKVYVNGKCLKEKEEY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +Y+KP G + + D GR ++++LP F I +GRLD +EGLLLLT+ +A Sbjct: 61 TVIVYNKPKGELVSKRDDRGRRVIYESLPKRFKDFIPIGRLDFASEGLLLLTDSVKVATK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--------------DMQVTL 179 L + RVY ++ G++ ++ ++ G+ +Q G M + Sbjct: 121 LMES--KLERVYLLKLSGEIKEEVFEAMENGLSLQDARLGGHQKSKIKAMEFSPFMGYWV 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + EGKNRE+++ F FN KV L R++YG L L R + + Sbjct: 179 SKNTAKLSKIKVAINEGKNRELRRFFAHFNLKVLDLKRVAYGFVSLNNLPTQKVRFLERG 238 Query: 240 I 240 Sbjct: 239 E 239 >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 = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 52/222 (23%), Positives = 93/222 (41%), Gaps = 2/222 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV ++ G SR E ++ + +V+VNG + V D I +D + L T Sbjct: 7 RVDAHLSSLGYCSRSEAKKFLKIFQVRVNGERVFDTNKKVYHNDII-IDEIVLDPETLTV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L I S + + ++ ++GRLD +T G +LLT+DG L L Sbjct: 66 LMHKPSGIICSHDDVGVLIYSLLPERWQKRNPKLSTIGRLDGDTTGAILLTDDGALNHRL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + ++Y V + ++ + G +I + S + V + + Sbjct: 126 TSPKSDISKLYEVTLAQPLKGNEAEIFTSGTLILRGEKKPLLPAKMNV-ISESVVHLEIS 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 EGK ++K++F KV L R+S+G + + L G + + Sbjct: 185 EGKYHQVKRMFAAVGNKVTALHRVSFGKYSIENLAIGEYKIL 226 >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 = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 51/231 (22%), Positives = 89/231 (38%), Gaps = 4/231 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 ++ + + G+ SRR ++ V NG+ V + VDG ++ Sbjct: 1 MKLYRALQSQGLGSRRGCAALVRAGAVLANGLACADPEAEVDPVGLELTVDGTVWAYRDK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L ++ + H P + V VGRLD +T GLLL ++DG Sbjct: 61 AYLVMHKPEGYECSHHPRHHPSVFSLLPAPLVQRGVQCVGRLDQDTTGLLLFSDDGQFIH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VYR R V+ L L+ G+ + L + + + + Sbjct: 121 RMTSPKKRVGKVYRARCAEPVNAATLAALRAGVQLNDEPAPLA--ALACEAVDDRTLRLV 178 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 L EGK +++++ V RL R + G + L L G R + L+ Sbjct: 179 LAEGKYHQVRRMIAAAGNHVARLHREAVGEYPLPDDLPPGGWRWLEAGDLQ 229 >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 = 130 bits (326), Expect = 3e-28, Method: Composition-based stats. Identities = 48/228 (21%), Positives = 96/228 (42%), Gaps = 5/228 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTR 74 + +++A G SR++ ++ V+++G +L+ + + I V+G E+ Sbjct: 6 LERLLASMGFGSRKDARGLVRMGLVELDGKVLDDPFMEFKTRPEFITVNGEEAPTVEKLY 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + LY + ++ + SVGRLD ++ GLLLL+N G + Sbjct: 66 VMLYKPTDVECSHNARDHKPVYDLLPERFTAMGIQSVGRLDADSSGLLLLSNQGDFIHKV 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 E P + YRV + L G++++ + ++ + V + + Sbjct: 126 ESPKKGLWKKYRVTLARPFTDAQKAELLAGVMLKDERRPVLAREIEVSGDA---VDISIG 182 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG +++++F V L RI+ GP L TL G R ++ + + Sbjct: 183 EGLYHQVRRMFAAVGNHVETLERIAIGPVVLDRTLGEGGWRFLTDEEV 230 >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 = 130 bits (326), Expect = 3e-28, Method: Composition-based stats. Identities = 67/266 (25%), Positives = 108/266 (40%), Gaps = 5/266 (1%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL---RKAERTRLWLYHKPIGLVTT 87 +ER I Q R++++G + + ++VDG L RK E L + + + Sbjct: 1 MERWIEQGRIEIDGRVAT-LGDRIYPDQRLKVDGRRLDLERKEEVRCLLYHKPVGEVCSR 59 Query: 88 HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 R+ R I +GRLD T GLLL T DG LA L PS++ R Y V Sbjct: 60 KDPEGRRTVFDSLPALNNGRWIVIGRLDYTTSGLLLFTTDGELANGLMHPSSEIDREYLV 119 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 R G+VD L+ L++G+++ + G N W V L EG+NRE+++++E Sbjct: 120 RVMGEVDDAMLDRLRQGVLLDDGPARFTDIQEGGGDGINRWFYVVLMEGRNREVRRLWES 179 Query: 208 FNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSET 266 V+RL R+ +G + L G E+ +K + L V + Sbjct: 180 QGLTVSRLKRVRFGEVFIPSKLKKGQWMELPEKDVEVLYQMAKLPAKPVVPLTAREQEKQ 239 Query: 267 LVRDRPNIISEVPDDFTRMKKNSSQK 292 + + +K Sbjct: 240 ERLTKKSGRRIQRPGKGGKPWRVRKK 265 >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 = 130 bits (326), Expect = 3e-28, Method: Composition-based stats. Identities = 45/228 (19%), Positives = 90/228 (39%), Gaps = 8/228 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGV--PLRKAE 71 + K + GI SR+ + +I V++NG ++ + + +DG + Sbjct: 3 LLKYLQAQGIGSRKMCQTLIRCGLVQINGEIINNEKAEITPENVQTMNIDGEDAVVIPLP 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L + + + + ++GRLD +T G+LL+TNDG Sbjct: 63 YYYILLNKPENYETSHKPRDYPSVFMLFPDHLRATDIQAIGRLDADTTGVLLITNDGQFN 122 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVT 190 + P + ++YRV ++ LK G+++ + T S + Sbjct: 123 HKMTSPKHKVAKIYRVTLKHSANESICETLKNGVLLHDDNETVSAENAELT---SPTELI 179 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + EGK ++K++ +V L R+ +G + L AG R + Sbjct: 180 LTISEGKYHQVKRMVAAAGNRVEALHRLQFGDWGTEDLAAGEWRFIQP 227 >gi|309379227|emb|CBX22184.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 230 Score = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 45/228 (19%), Positives = 89/228 (39%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +I V +NGI ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGICMDDTDADIDSSSVETLDIDGKAVTVIP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPTDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGH 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAW 188 L L P+ + ++Y V + LK G+++ + S + Sbjct: 121 LNHKLTSPNHKIPKLYEVTLKHPAGETLCETLKNGVLLHDENETVYAADAVL---ESPSA 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + EGK ++K++ +V L R + + L G + + Sbjct: 178 LLLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 225 >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 = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 62/236 (26%), Positives = 101/236 (42%), Gaps = 8/236 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + IA ++ V ++ +V V+G + + V HIE +GV LR+ ++ Sbjct: 7 RLDQFIAGTLQIPKKAVRLLLVTNKVLVDGQFAKSPDLQVDEFTHIECNGVVLRQYQKQY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +V+ D + + + GRLD+++ GLLLLTND + L Sbjct: 67 YMLNKPDG-VVSATIDDKHATALGLITGVNTDMLHIAGRLDLHSTGLLLLTNDAKWSEAL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVTVG 192 P + + Y V ++Q+ + KG+ + I Q+TL S+ V Sbjct: 126 MDPQHKVDKQYLVTLANPLEQEYVEAFSKGMYFGFEDITTLPAQLTLL----SSHRARVV 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 LREGK +IK++F F V L R S G L L G R ++K + Sbjct: 182 LREGKYHQIKRMFGRFRNPVVALHRESIGKIVLDKQLELGEFRSLTKAEVDSIFQH 237 >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 = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 44/227 (19%), Positives = 88/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 12 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTVVP 71 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 72 EPYFYILLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 131 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+ + + + Sbjct: 132 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENP--TTL 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 190 LLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 236 >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 = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 44/227 (19%), Positives = 88/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+ + + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 225 >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 = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 74/292 (25%), Positives = 130/292 (44%), Gaps = 18/292 (6%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + R+++ I+ SRRE + +I RV + +E A V + + +DG Sbjct: 4 IDPKEPTMRLNQYISHHSKYSRREADELIKAGRVNIEKRKIENLATQVKEDERVFIDGKF 63 Query: 67 LRKA--ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L++ E + +YHKP G + T SD GR T++D+LPS F I VGRLD +EGLLLL Sbjct: 64 LKEKSEENYTVIVYHKPKGELVTKSDDRGRKTIYDSLPSGFKHFIPVGRLDFASEGLLLL 123 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----------- 173 T+ +A+ L + RVY ++ +V + + +++G+V++ G Sbjct: 124 TDSPKVAKALMES--ELERVYHLKIDKRVSPEMIKAMEEGLVLEDASAGGHEKSEIKSMS 181 Query: 174 ---DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + +++ + V ++EGKNRE+++ F F KV L R+SYG L L Sbjct: 182 FSPFAGFEVAKDSPTHSKIKVAIKEGKNRELRRFFAHFGAKVLDLKRVSYGWVSLNALPD 241 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 G R +++ + + + + + + Sbjct: 242 GKNRYLNRSEYNKLHAFMKELQKSEEKEKKPRKASYRSATKSDSARAPRKKG 293 >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 = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 44/228 (19%), Positives = 88/228 (38%), Gaps = 8/228 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGH 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAW 188 L L P+ + ++Y V + LK G+++ + S + Sbjct: 121 LNHKLTSPNHKIPKLYEVTLKHPAGETLCETLKNGVLLHDENETVYAADAVL---ESPSA 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + EGK ++K++ +V L R + + L G + + Sbjct: 178 LLLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 225 >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 = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 101/251 (40%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 264 MRLSKRMSELGLCSRREADEWIEKGWVIVDGERIDTLGTKVRADQRIEIDERAQAAQAAQ 323 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 324 VTILLHKPVGYVSGQAEDGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 383 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR ++L L+ G+ + G Sbjct: 384 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 443 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 444 VALKPAMVSWQNGEQ----LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 499 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 500 QGQWRYLSADE 510 Score = 37.1 bits (84), Expect = 4.7, Method: Composition-based stats. Identities = 14/102 (13%), Positives = 30/102 (29%), Gaps = 4/102 (3%) Query: 257 LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWM 316 SSE R + T K + ++G + + S+ Sbjct: 134 FGERRASSERPARRNDDDARPRRAGATEGGKRAPYRDGAAGGEGPKRGSFGERRTSSERP 193 Query: 317 AKGIHSSFLSDSGQREENHRRSP----SFPSKRSLRRTSAKK 354 A+ E +R+P + + + R T+ ++ Sbjct: 194 ARRNDDDARPRRAGAAEGGKRAPYRDGAAGGEGAKRGTAERR 235 >gi|291543398|emb|CBL16507.1| pseudouridine synthase family [Ruminococcus sp. 18P13] Length = 255 Score = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 61/242 (25%), Positives = 101/242 (41%), Gaps = 6/242 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K IA SR+EV+ ++ + V+VNG + V D I + GV L A Sbjct: 1 MRLDKCIADHSAYSRKEVKELLRRGSVRVNGAPEQDPGRQVDPEGDEIMLAGVILPTALH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + ++ ++ V P + + GRLD++TEG+LLLTNDG LA Sbjct: 61 RTYMLNKPKGCI-SSTRTGKTKTVVEFLPPELRKGIFPAGRLDVDTEGMLLLTNDGDLAH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTV 191 + P + Y V+ V + + + G+V++ +V + A V Sbjct: 120 RILSPRRHIPKYYLVQLAKPVVEKTVETFENGVVLEDGTRCLPARVAALPGVENTALVE- 178 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 L EGK ++K++F V +L+R+ G + L G + K + Sbjct: 179 -LHEGKFHQVKRMFAAVENHVEQLLRVQMGGLPIDVKLGKGDYLLLLHKDIERLFKTPDF 237 Query: 251 EE 252 E Sbjct: 238 SE 239 >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 = 129 bits (325), Expect = 4e-28, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 398 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDERASAAQAAQ 457 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 458 VTILLHKPVGYVSGQAEDGYEPASVLITRANQWSGDRSPLRFSPQHLHALAPAGRLDIDS 517 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 G+L+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 518 TGMLVLTQNGRIAKQLIGEQSDIDKEYLVRVRFGERLLDIDQHFPAESLAKLRHGLELDG 577 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 578 VALKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 633 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 634 QGQWRYLSPDE 644 Score = 41.3 bits (95), Expect = 0.22, Method: Composition-based stats. Identities = 11/114 (9%), Positives = 30/114 (26%), Gaps = 3/114 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + E ++ + + D R + ++ + Sbjct: 239 DDTRPRRAGAEGGARAPYRDKTTGDAPKRSFDERRTSSDRPARRSDDDTRPRRAGAEGGA 298 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENH---RRSPSFPSKRSLRRTSA 352 P + + + G + +R ++ RR+ + R+ R A Sbjct: 299 RAPYRDKAIGDAPKRSFGERRTSTDRPARRSDDDARPRRAGAEGGARAPYRDKA 352 Score = 39.8 bits (91), Expect = 0.60, Method: Composition-based stats. Identities = 11/113 (9%), Positives = 29/113 (25%), Gaps = 3/113 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + E ++ + S D R + ++ + Sbjct: 147 DDARPRRAGAEGGARAPYRDKATGYGEKRSFGERSTSSDRPARRSDDDTRPRRAGGEGGA 206 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENH---RRSPSFPSKRSLRRTS 351 P + + + G + +R ++ RR+ + R+ R Sbjct: 207 RAPYRDKATSDAPKRSFGERRTSSDRPARRSDDDTRPRRAGAEGGARAPYRDK 259 Score = 39.8 bits (91), Expect = 0.68, Method: Composition-based stats. Identities = 12/113 (10%), Positives = 27/113 (23%), Gaps = 3/113 (2%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + E + + D R + ++ + Sbjct: 102 DARPRRAGAEGGARAPYRDKAEGYGEKRSFGERRTSTDRPARRSDDDARPRRAGAEGGAR 161 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENH---RRSPSFPSKRSLRRTSA 352 P + + G S+ +R ++ RR+ R+ R A Sbjct: 162 APYRDKATGYGEKRSFGERSTSSDRPARRSDDDTRPRRAGGEGGARAPYRDKA 214 Score = 39.8 bits (91), Expect = 0.74, Method: Composition-based stats. Identities = 10/114 (8%), Positives = 27/114 (23%), Gaps = 3/114 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + E ++ + D R + ++ + Sbjct: 193 DDTRPRRAGGEGGARAPYRDKATSDAPKRSFGERRTSSDRPARRSDDDTRPRRAGAEGGA 252 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENH---RRSPSFPSKRSLRRTSA 352 P + + + +R ++ RR+ + R+ R A Sbjct: 253 RAPYRDKTTGDAPKRSFDERRTSSDRPARRSDDDTRPRRAGAEGGARAPYRDKA 306 Score = 37.1 bits (84), Expect = 3.8, Method: Composition-based stats. Identities = 11/108 (10%), Positives = 26/108 (24%), Gaps = 3/108 (2%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 E AP + + + ++ + P Sbjct: 61 PRGAERPGADRAPAKRAPRDGGAERGDARPARPYRSAEGQPDARPRRAGAEGGARAPYRD 120 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENH---RRSPSFPSKRSLRRTSA 352 + + G + +R ++ RR+ + R+ R A Sbjct: 121 KAEGYGEKRSFGERRTSTDRPARRSDDDARPRRAGAEGGARAPYRDKA 168 Score = 35.9 bits (81), Expect = 9.6, Method: Composition-based stats. Identities = 13/110 (11%), Positives = 25/110 (22%), Gaps = 2/110 (1%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+ + P A ++ +R ++ Sbjct: 28 RKAVRPAGPPAADKPPRPKKAAAPAAAGERAFKPRGAERPGADRAPAKRAPRDGGAERGD 87 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 A P R S ++ G R ++ + KRS Sbjct: 88 ARPA--RPYRSAEGQPDARPRRAGAEGGARAPYRDKAEGYGEKRSFGERR 135 >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 = 129 bits (325), Expect = 4e-28, Method: Composition-based stats. Identities = 51/228 (22%), Positives = 88/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ ++ V V G A + +T + EVDG+ R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGHVAVGGATCADAHASFDTTQLVFEVDGIAWPYRARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VALNKPAGYECSREPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+++ G L + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLDALRAGVLLHGEPKPVA--ALAAVARGERLLEMTIA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R G F L L G+ R + ++ L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRSRIGGFALPEDLAEGAWRWLDERDL 228 >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 = 129 bits (325), Expect = 4e-28, Method: Composition-based stats. Identities = 52/228 (22%), Positives = 88/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ ++ V V G A + +T + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGHVAVGGATCADAHASFDTTQLVFEVDGVAWPYRARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VALNKPAGYECSREPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+++ G L + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLDALRAGVLLHGEPKPVA--ALAAVARGERLLEMTIA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R G F L L G+ R + ++ L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRSRIGGFALPEDLAEGAWRWLDERDL 228 >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 = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 337 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 396 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 397 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 456 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 457 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 516 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 517 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 572 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 573 QGEWRYLGPDE 583 >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 = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 50/228 (21%), Positives = 84/228 (36%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTR 74 + ++ G SRRE ++ + V + + VDGV + Sbjct: 28 LENILFSQGFGSRRECRALVIRGAVTIGEQRCDDPDAVFEPAGLVFHVDGVRWAYRHQAY 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+ P + I V VGRLD +T GLLLL++DG L Sbjct: 88 LVLHKPPGYECSHAPQHHPSVYSLLPPALITRGVQCVGRLDADTTGLLLLSDDGAFIHRL 147 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y V +L+ L++G+ + G + V + + + L Sbjct: 148 SSPKHKIPKTYVATTRHPVRDAQLDALRQGVQLHGEPA--VSVARSARLRDEHTIELVLT 205 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ +V +L R + G L L G + L Sbjct: 206 EGKYHQVKRMIAAAGNRVEQLHREAIGALVLPAALAPGQWWWLEADEL 253 >gi|302327988|gb|ADL27189.1| ribosomal small subunit pseudouridine synthase A [Fibrobacter succinogenes subsp. succinogenes S85] Length = 231 Score = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 48/228 (21%), Positives = 96/228 (42%), Gaps = 5/228 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTR 74 + +++A G SR++ ++ V+++G +L+ + + I V+G E+ Sbjct: 3 LERLLASMGFGSRKDARGLVRMGLVELDGKVLDDPFMEFKTRPEFITVNGEEAPTVEKLY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + LY + ++ + SVGRLD ++ GLLLL+N G + Sbjct: 63 VMLYKPTDVECSHNARDHKPVYDLLPERFTAMGIQSVGRLDADSSGLLLLSNQGDFIHKV 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 E P + YRV + L G++++ + ++ + V + + Sbjct: 123 ESPKKGLWKKYRVTLARPFTDAQKAELLAGVMLKDERRPVLAREIEVSGDA---VDISIG 179 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 EG +++++F V L RI+ GP L TL G R ++ + + Sbjct: 180 EGLYHQVRRMFAAVGNHVETLERIAIGPVVLDRTLGEGGWRFLTDEEV 227 >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 = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 326 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 385 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 386 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 445 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 446 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 505 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 506 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 561 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 562 QGEWRYLGPDE 572 Score = 36.3 bits (82), Expect = 6.8, Method: Composition-based stats. Identities = 13/113 (11%), Positives = 24/113 (21%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + A R + P + K Sbjct: 169 RGKDRAPREGARPGARGATGAKFGGAARRSDDADRRTPRATRADSRARDAAPSSFAGKTA 228 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 A + + A G +S + +R P+ + S R + Sbjct: 229 TAGKRAPQRADDRYGAAGKRTSPRPERTERPARFGERPATRASASGERRPTAR 281 >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 = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 61/225 (27%), Positives = 100/225 (44%), Gaps = 16/225 (7%) Query: 4 KNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDH 59 + EN PQR++KV+A AG+ASRR E +I Q +V VNG + V S D Sbjct: 160 RRFYNENIKEHEPQRLAKVLAAAGVASRRTCEELIFQGKVTVNGSVCTAPQTKVDISKDS 219 Query: 60 IEVDGVPLRKAERTRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--------I 109 I V+G + K +L+ + + S D L Sbjct: 220 IYVNGNRISKKLPPKLYFAVNKPKGYICSCGEPKSIISLFDDYLKGWNKIQPGVPKPRLF 279 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 +VGRLD+ T GL+++TNDG A+ L PS+ ++ Y V G V ++ L + +G I G Sbjct: 280 TVGRLDVATSGLIIITNDGEFAQKLSHPSSNIMKEYVVTIDGPVHRNHLIAISEGTKIDG 339 Query: 170 ICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + + EG+N E++++ + +V Sbjct: 340 VKCIPDLVEPLDVQSNTKRTRIRIAVHEGRNHEVRELVQNAGLEV 384 >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 = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 70/240 (29%), Positives = 113/240 (47%), Gaps = 16/240 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IAR SRR+ + +IA+ +VK+N + D I ++G L+ + Sbjct: 1 MRLNQFIARYAHCSRRQADTLIAEGKVKINHQVA-SFTTPFNKEDKIFIEGRLLKIPKAP 59 Query: 74 RL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R +YHKP G + D R T+F++L F+ I VGRLD + GLLLL++ G+A Sbjct: 60 RYSVVIYHKPKGELVARRDDRARPTIFESLDRKFAHFIPVGRLDFASSGLLLLSDHSGVA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-----------DMQVTLD 180 L + RVY ++ G + + L ++ GI + + Sbjct: 120 SALMHSA--LERVYLLKIQGPITPEILEGMQNGICSHKGAHPNNPKQSLELPPFAHCHII 177 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + + L EGKNRE+++ F F+ V L R+SYG L L G TR ++ K Sbjct: 178 KNHPHFSKLKITLTEGKNRELRRFFAHFDRAVLDLQRVSYGFTHLNALPEGKTRYLNPKE 237 >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 = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 326 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 385 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 386 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 445 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 446 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 505 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 506 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 561 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 562 QGEWRYLGPDE 572 >gi|167844683|ref|ZP_02470191.1| RNA pseudouridine synthase family protein [Burkholderia pseudomallei B7210] Length = 240 Score = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 52/228 (22%), Positives = 87/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ ++ V V G A +T + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGHVAVGGATCADAHAPFDTTQLVFEVDGVAWPYRARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VALNKPAGYECSREPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+++ G L + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLDALRAGVLLHGEPKPVA--ALAAVARGERLLEMTIA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R G F L L G+ R + ++ L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRSRIGGFALPEDLAEGAWRWLDERDL 228 >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 = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 51/228 (22%), Positives = 83/228 (36%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV V G + + + VD Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVNVAGASATDPDASFDTDGLVFTVDDTAWPFHAHAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHGY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +LN L+ G+ + G + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEP-KPIAAVAAHA-RDTHALALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R S G F L L G+ R + L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESIGGFTLPDDLAPGAWRWLGASEL 228 >gi|295677418|ref|YP_003605942.1| pseudouridine synthase [Burkholderia sp. CCGE1002] gi|295437261|gb|ADG16431.1| pseudouridine synthase [Burkholderia sp. CCGE1002] Length = 236 Score = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 52/227 (22%), Positives = 86/227 (37%), Gaps = 6/227 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAA--VNVMSTD-HIEVDGVPLRKAER 72 + ++ G SRR+ +I RV ++G + A V S VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIGDGRVGIDGAICTDADADFAVDSGALRFSVDGVEWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 63 AYLLLNKPVGYECSRDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + ++Y +D +L L+ G+++ G LD + + + Sbjct: 123 QFTSPKRKVPKLYVATTRHPLDDAQLAALRDGVLLHGE-TKP-SAALDAEARDTHTLALT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + EGK ++K++ + L R G L TL G+ + + + Sbjct: 181 VLEGKYHQVKRMIAASGNRCEALHRERIGGLVLPATLAPGAWQWLDE 227 >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 = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 323 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 382 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 383 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 442 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 443 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 502 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 503 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 558 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 559 QGEWRYLGPDE 569 >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 = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 49/227 (21%), Positives = 89/227 (39%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG + A ++ S +++DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVSINGTCMNDADADIDSASVHTLDIDGKAVTIIP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPADYETSHKPKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLVTNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V D LK G+++ D S + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPADGILCETLKNGVLLHDENETVC--AADANLESPTTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVQHLHRRQFAHLETKNLKPGEWKFI 225 >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 = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 75/235 (31%), Positives = 115/235 (48%), Gaps = 4/235 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 R+ KV+A AG+ASRR E +IA RV+V+G ++ + + I+VDG + Sbjct: 119 SDGMRLQKVLAAAGVASRRGAEELIAAGRVEVDGEVVVEQGLRIDPDTAIIKVDGARVVI 178 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTN 126 E + +KP G +T SD GR + D + R+ VGRLD +TEGLLLLTN Sbjct: 179 DESKQYLALNKPKGWHSTMSDDQGRPCIGDIIAERVMAGQRLFHVGRLDADTEGLLLLTN 238 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG LA L PS + + Y G+V++ L++G+ ++ L Sbjct: 239 DGELAHRLMHPSYEVPKTYLATVRGEVNRGLGRELRQGVELEDGPVAVDSFALLEVNQGK 298 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + V + L EG+ R ++++ + V L+R GP LG GS R + K + Sbjct: 299 SLVRLTLHEGRKRVVRRLLAEVGFPVVGLVRTDIGPVTLGKQRPGSLRVLDNKEI 353 Score = 37.9 bits (86), Expect = 2.3, Method: Composition-based stats. Identities = 8/84 (9%), Positives = 18/84 (21%) Query: 260 PIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKG 319 +S + + R + + S K +++A G Sbjct: 1 MASASRDGTPGKRRDNGRDDNRRGRSSDKQNPRGKSSGGKAAGKSAGGKSVAGKKGAPAG 60 Query: 320 IHSSFLSDSGQREENHRRSPSFPS 343 + + R P Sbjct: 61 KRGAGAKRGAPGQHPSSRKPHRKG 84 >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 = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 52/228 (22%), Positives = 88/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ ++ V V G A + +T + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGHVAVGGATCADAHASFDTTQLVFEVDGVAWPYRARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VALNKPAGYECSREPQHHSSVFALLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+++ G L + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLDALRAGVLLHGEPKPVA--ALAAVARGERLLEMTIA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R G F L L G+ R + ++ L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRSRIGGFALPENLAEGAWRWLDERDL 228 >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 = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 107/230 (46%), Gaps = 16/230 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL--R 68 +R+SKV+A AG+ASRR E +I +V VNG + +V D I +DG P+ R Sbjct: 18 KAERLSKVMAAAGVASRRACEEIIFAGKVVVNGKVCRTPETHVDPLKDLIYIDGKPIPRR 77 Query: 69 KAERTRLWLYHKPIGLVTTHSDP----------DGRSTVFDNLPSIFSRVISVGRLDINT 118 + LY + + D ++ +N R +VGRLD+ T Sbjct: 78 LPPKMVFALYKPKGYICSDAKDDKKTVYLLLEKYLKTWEKNNPGLTKPRFFTVGRLDVAT 137 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQV 177 GL+ +TNDG A+ + PS+ + Y V + V + +L + G I G+ + V Sbjct: 138 TGLIFVTNDGEFAQKVSHPSSGITKEYLVTVDNESVTKRQLKRIASGTEIDGVMCVPISV 197 Query: 178 TLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L + S + V + EG+N E++++ E KV+ L R+ G +L Sbjct: 198 ELVKSEPGDSRHRIRVVVTEGRNHEVRQLVESAFLKVHALKRVRVGGLRL 247 >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 = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 53/234 (22%), Positives = 87/234 (37%), Gaps = 4/234 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ +I RV V G + + + VD R Sbjct: 3 LESILYTQGFGSRRQCRGLIETGRVSVAGASATDPDASFDTDGLVFTVDDTAWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +LN L+ G+ + G + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDTQLNALRAGVQLHGEP-KPIAAVAAHA-RDTHALALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGP 247 EGK ++K++ + +V L R S G F L L G+ R + ++ L P Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESIGGFTLPVDLAPGAWRWLGERDLSALRDP 234 >gi|207091745|ref|ZP_03239532.1| hypothetical protein HpylHP_01046 [Helicobacter pylori HPKX_438_AG0C1] Length = 257 Score = 129 bits (324), Expect = 6e-28, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 117/249 (46%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKCSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 129 bits (324), Expect = 7e-28, Method: Composition-based stats. Identities = 66/230 (28%), Positives = 107/230 (46%), Gaps = 16/230 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPL--R 68 +R+SKV+A AG+ASRR E +I +V VNG + +V D I +DG P+ R Sbjct: 18 KAERLSKVMAAAGVASRRACEEIIFAGKVVVNGKVCRTPETHVDPLKDLIYIDGKPIPRR 77 Query: 69 KAERTRLWLYHKPIGLVTTHSDP----------DGRSTVFDNLPSIFSRVISVGRLDINT 118 + LY + + D ++ +N R +VGRLD+ T Sbjct: 78 LPPKMVFALYKPKGYICSDAKDDKKTVYLLLEKYLKTWEKNNPGLTKPRFFTVGRLDVAT 137 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQV 177 GL+ +TNDG A+ + PS+ + Y V + V + +L + G I G+ + V Sbjct: 138 TGLIFVTNDGEFAQKVSHPSSGITKEYLVTVDSESVTKRQLKRIASGTEIDGVMCVPISV 197 Query: 178 TLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 L + S + V + EG+N E++++ E KV+ L R+ G +L Sbjct: 198 ELVKSEPGDSRHRIRVVVTEGRNHEVRQLVESAFLKVHALKRVRVGGLRL 247 >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 = 129 bits (323), Expect = 7e-28, Method: Composition-based stats. Identities = 67/237 (28%), Positives = 102/237 (43%), Gaps = 10/237 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + N R +A G+ SRR E +I + VK+NG L + V D +E Sbjct: 1 MTNINSRGLRAHVFLAEKGMGSRRFCEELIRKNLVKINGTLAK-LGDKVFLGDRVEYRRQ 59 Query: 66 P-----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 L+ + + L+ L + + + P R+ S+GRLD + G Sbjct: 60 VFVLRDLKIESKIYIALHKPKNYLCSNFDPEGRKLAISLVQPLFKERLFSIGRLDFKSSG 119 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL TNDG A + P ++ + Y V V++D L K GI I+ + + Sbjct: 120 LLLFTNDGQFANSIVHPRSEVEKEYIVESKKDVNEDLLINFKHGIKIEREIFKLKSYEML 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 N V + L EGKNREI+KVF N + ++ RI G +L L G + +S Sbjct: 180 ----GNNSVKLVLTEGKNREIRKVFLSKNIFLKKVHRIRIGNIKLDNLKEGQIKVLS 232 >gi|254670490|emb|CBA06210.1| ribosomal small subunit pseudouridine synthase A [Neisseria meningitidis alpha153] Length = 256 Score = 129 bits (323), Expect = 8e-28, Method: Composition-based stats. Identities = 44/227 (19%), Positives = 86/227 (37%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD----GVPLRK 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ +D V + Sbjct: 27 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDEEAVTVVP 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 87 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+++ + + Sbjct: 147 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNP--TTL 204 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 205 LLTITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 251 >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 = 129 bits (323), Expect = 8e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 326 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 385 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 386 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 445 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 446 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 505 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 506 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 561 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 562 QGEWRYLGPDE 572 >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 = 129 bits (323), Expect = 8e-28, Method: Composition-based stats. Identities = 51/235 (21%), Positives = 91/235 (38%), Gaps = 7/235 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLR 68 R+ K++A G SRREV+ + + ++G + +A + ++VDG PL Sbjct: 4 SVRLDKLLANMGYGSRREVQALARAGAITLDGAPVPKADTRIALTPDLPARMQVDGRPLD 63 Query: 69 KAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L L+ + + S + + +VGRLD T GLLLLT+D Sbjct: 64 PLPGMALMLHKPTGVTCSHKETGELVYSLLPSRWRMREPPLSTVGRLDKETSGLLLLTDD 123 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + P + Y + D+ + G ++ + + + S Sbjct: 124 GDLLHRIISPRRHVAKRYVATLARPLRGDEGAIFAAGELMLEGEDKPLAPAVL-EPLSPT 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + EG+ +++++F V L R G L L G R + + L Sbjct: 183 LARLTITEGRYHQVRRMFAAVGNHVEALHRDRIGGLDLPADLAPGRYRLMGAEDL 237 >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 = 129 bits (323), Expect = 8e-28, Method: Composition-based stats. Identities = 61/251 (24%), Positives = 99/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 331 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDSNARAAQAAQ 390 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y LVT + G + P + GRLDI++ Sbjct: 391 VTILLHKPVGYVSGQAEDGYAPAATLVTRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 450 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR + L L+ G+ + G Sbjct: 451 TGLLVLTQNGRVAKQLIGEQSDIDKEYLVRVRFGERTADIERHFPAESLAKLRHGLELDG 510 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 511 VPLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGRVMLGALP 566 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 567 QGEWRYLGPDE 577 >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 = 129 bits (323), Expect = 9e-28, Method: Composition-based stats. Identities = 61/235 (25%), Positives = 113/235 (48%), Gaps = 7/235 (2%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ + I++ + S + R++AQQR+ V+G L V H+ +DG L Sbjct: 2 TSKTSRLDRFISQNSVYSLSDTRRLLAQQRIFVDGHLAYSIQQQVTQFTHVVLDGNCLND 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + L + + +DP + + + + VGRLD NT GL+LLTNDG Sbjct: 62 STAVYMMLNKPKGFV-SATTDPKHPTVLDLIQHPQKNELHIVGRLDFNTTGLVLLTNDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNA 187 +R + LP T+ ++Y V ++ + + + +KGI + I + + ++ + Sbjct: 121 WSRKISLPETKLAKIYEVTLSKPLNDEYIEVFRKGIYFSYENITTQPAYLEILSEYQA-- 178 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + L EGK ++K++F FF +V L R + GP L L G ++ ++K+ + Sbjct: 179 --RLSLIEGKYHQVKRMFGFFQNEVLALHRTAVGPISLDGLTVGHSKLLTKQTIE 231 >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 = 129 bits (323), Expect = 9e-28, Method: Composition-based stats. Identities = 54/253 (21%), Positives = 99/253 (39%), Gaps = 33/253 (13%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWL 77 +VI++ G SR + E ++ + RV + G ++ D I VDG P++ +E + Sbjct: 32 RVISKRGFCSRSQAENLVREGRVSLRGKIVRDPDTPARENDEICVDGKPVKASEFVYFMM 91 Query: 78 YHKPIGLVTTHSDPDGRSTVF--------DNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + T + + + + VGRLD +EGLLL TND Sbjct: 92 NKPRGYVTTASDEKGRATVMDLFREQYAKMFPGKPVPHISPVGRLDAASEGLLLFTNDTQ 151 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG---------------- 173 A L + + + + + ++ + + G Sbjct: 152 WADALLKTKDERRKTRDDKCVERESRGPIHTKIYRVQVNGHPTAEELSQMEAGFNVPPRV 211 Query: 174 ---------DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + L + N W+ + L EGKNREI+++ ++V RL+RI + ++ Sbjct: 212 FGEPEEFMHAVSAKLYSAGEKNCWLEITLDEGKNREIRRMLAKLGYEVLRLVRIKFCNYE 271 Query: 225 LGTLLAGSTREVS 237 LG L G R+++ Sbjct: 272 LGDLKQGEIRKIN 284 >gi|257899452|ref|ZP_05679105.1| pseudouridine synthase [Enterococcus faecium Com15] gi|257837364|gb|EEV62438.1| pseudouridine synthase [Enterococcus faecium Com15] Length = 238 Score = 129 bits (323), Expect = 9e-28, Method: Composition-based stats. Identities = 61/232 (26%), Positives = 102/232 (43%), Gaps = 4/232 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V ++G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMIDGTVEFRQNRNVDSLLHRIEVAGEHLETNES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + LP + + Y+ + +V + +KGIV G + + + V + Sbjct: 120 EMLLPEKKVSKTYQAVVNERVTSADVAAFEKGIVFADGYQCQSANLKILKADKHQSTVLL 179 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 ++EGK ++KK+F KV L R+S GP +L L G R ++ ++ Sbjct: 180 TIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDEQLAVGEYRSLTLAEMK 231 >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 = 128 bits (322), Expect = 9e-28, Method: Composition-based stats. Identities = 67/251 (26%), Positives = 104/251 (41%), Gaps = 29/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA G+ SRRE + + V VNG + NV+ D IE+D + ++ Sbjct: 395 VRINKRIADMGMCSRREADEWVENGWVTVNGEVAT-MGQNVVPGDRIEIDQKAQERQDQQ 453 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---------------ISVGRLDINT 118 L +KP+G V+ ++ V GRLDI++ Sbjct: 454 VTILLNKPMGYVSGQAEDGHEPAVVLITNENRWNEDRSKTRFNFSQLKGLAPCGRLDIDS 513 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------HGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +AR + ++ + Y VR ++KL LL+ G+ + Sbjct: 514 VGLLVLTQDGRVARQIIGEDSEVDKEYLVRVTFGDRDVDVQSVFPEEKLALLRHGLSLDE 573 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 QV + + L EGK R+I+++ E KV L RI G LG L Sbjct: 574 QPLKPAQVDWQNPEQ----LRFVLTEGKKRQIRRMCEQVGLKVVGLKRIRIGGVTLGNLP 629 Query: 230 AGSTREVSKKI 240 G R ++ Sbjct: 630 TGQWRYLAPHE 640 >gi|330957838|gb|EGH58098.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. maculicola str. ES4326] Length = 230 Score = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 59/231 (25%), Positives = 98/231 (42%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + ++ +R+ V +A VKV+G+ V + D L+ + Sbjct: 1 MRLDRFLSNLPRFNRKNVRLALAGGHVKVDGLTSTDPHHEVREFSCVVFDEEILQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ HKP G V+ D + + + GRLD NT GL+L+TNDG +R Sbjct: 61 RYFMLHKPQGCVSATVDAQHPTVIDLLDEPDRHELHIAGRLDFNTTGLMLITNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L P T+ +VY V +D+ + + I Q+TL + Sbjct: 121 LTQPQTRLAKVYYVETEQIIDERYAARFAEGLYFSFENITTQPAQLTLL----GPRCARL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F F+ KV L R S G L TL G+ R + + Sbjct: 177 SITEGRYHQVKRMFGHFDNKVVTLHRESVGELLLDPTLEPGNYRALHAPEI 227 >gi|226941109|ref|YP_002796183.1| Pseudouridine synthase [Laribacter hongkongensis HLHK9] gi|226716036|gb|ACO75174.1| Pseudouridine synthase [Laribacter hongkongensis HLHK9] Length = 703 Score = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 67/235 (28%), Positives = 116/235 (49%), Gaps = 8/235 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A AG+ SRR+++ ++A RV +NG + V D + VD P+ Sbjct: 453 MRLQKALALAGLGSRRDMDELVAAGRVSINGAVA-ELGARVRPGDKVRVDSKPVLIRWPD 511 Query: 74 RL----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 RL + + +VT + + S+ +++GRLD+NT GLL+ T G Sbjct: 512 RLPRVIVYHKQEGEIVTRDDPEGRTTVFDRLPQTRSSKWVAIGRLDVNTSGLLIFTTSGD 571 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNA 187 LA + PS + R Y VR G++ +++ G+ + ++ D + N Sbjct: 572 LANRMTHPSFEVEREYAVRVLGKLTPEQMKETTAGVQLDDGPASFQFIREDDDKEDSVNH 631 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 W VG+REG+NRE++++FE F V+RL+R+ +G L L G E+++ + Sbjct: 632 WYRVGIREGRNREVRRMFEHFGLTVSRLMRVRFGIVTLPSRLKRGQFYELNELEV 686 >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 = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 49/227 (21%), Positives = 90/227 (39%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ A ++ S +++DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCIDDADADIHSASVHTLDIDGKAVTVIP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPADYETSHKPKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLVTNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V D LK G+++ D S + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPADGILCETLKNGVLLHDENETVC--AADANLESPTTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ +V L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMIAAAGNRVQHLHRRQFAHLETENLKPGEWKFI 225 >gi|167835760|ref|ZP_02462643.1| RNA pseudouridine synthase family protein [Burkholderia thailandensis MSMB43] Length = 240 Score = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 55/236 (23%), Positives = 91/236 (38%), Gaps = 6/236 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHI-EVDGVPLRKAERT 73 + ++ G SRR+ ++ RV V G A + +T + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGRVAAV-GATCTDAHASFDTTQLVFEVDGVAWPYRARA 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + V VGRLD +T GLLLL++DG Sbjct: 62 YVVLNKPAGYECSREPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHA 121 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P + + Y +D +L+ L+ G+++ G L + + + Sbjct: 122 YTSPKRKTPKTYVATVRHPLDDAQLDALRAGVLLHGEPKPVA--ALAAVARGERLLEMTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 EGK ++K++ + +V+ L R G F L G L G+ R + + L G Sbjct: 180 AEGKYHQVKRMVAAASNRVDALHRSRIGGFALPGDLAEGAWRWLDEHDLAALRGTA 235 >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 = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 59/229 (25%), Positives = 109/229 (47%), Gaps = 9/229 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN-VMSTDHIEVDGVPLRKAERTR 74 +++ + + S+ + M+ + +V +NG ++ N V+ +DHI V+G L++ Sbjct: 61 INEFLIKRFHISKDKASNMVLENQVFING--VKALQRNDVLKSDHIVVNGEVLQEGRNFT 118 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + Y+KP G+ T + + + V VGRLD +EGLLLLTNDG L + + Sbjct: 119 YYAYYKPRGIECTLNAAIENNLLHTL--PFGEHVYPVGRLDKESEGLLLLTNDGKLYKDI 176 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + + + L GIVI G +V++ T+ + L Sbjct: 177 AFSDNFKEKEYLVEVDKPLTDEAVEQLSSGIVIMGQKTRPARVSMVTE----HSFRIILT 232 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 +G NR+I+++ ++V L RI +LG L G+ R +++ + + Sbjct: 233 QGLNRQIRRMCYKLRYEVTMLKRIRITSIELGDLKPGAYRVLTRAEIFD 281 >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 = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 49/202 (24%), Positives = 88/202 (43%), Gaps = 1/202 (0%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 V VNG ++ + +D ++ P+ + + L + T+ + R+ + Sbjct: 2 VSVNGEVVTELGTKIKRSDVVKFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDL 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + R+ VGRLD NT G+LLLTNDG LA L P ++Y V + + ++ Sbjct: 62 VKGACNERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADMD 121 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + GI ++ T V + + GKNR ++++FE +KV +L R+ Sbjct: 122 QIAAGIQLEDGEIH-ADAISYTDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVF 180 Query: 220 YGPFQLGTLLAGSTREVSKKIL 241 + L G R +S+ + Sbjct: 181 FAGLTKKGLRRGDWRYLSEAEV 202 >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 = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 56/268 (20%), Positives = 110/268 (41%), Gaps = 34/268 (12%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVP 66 +N R++K I+ SRR+ ++ I +K+N + +V + D I+V+ Sbjct: 40 NQNENIIRLNKFISINNNISRRKSDKFIQNGNIKINNKTIINPGTHVDITKDQIKVNDKK 99 Query: 67 LRKAE--------------RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS--IFSRVIS 110 + + L+ + T + D +S R++S Sbjct: 100 INIQNIKNILNNYNINNNSYKWIVLHKPKGLICTNQDEKDRKSVFSIFPEDLLQKYRIVS 159 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--- 167 VGRLD NT G+LL TN+ L P + +R Y + G V D L +L G+ + Sbjct: 160 VGRLDRNTSGILLFTNEYAWVNKLTHPKYERVRKYMIHIEGPVRMDALKMLANGVYLKDE 219 Query: 168 -----QGICYGDMQVTLDTQKGSN--------AWVTVGLREGKNREIKKVFEFFNWKVNR 214 + + + ++ + + + ++EG+NR+I+K+F+ N + + Sbjct: 220 DNDKKKNKKTQPALIEVLREENVKIQNQIKKISVLNISIKEGRNRQIRKMFQQINQPIIK 279 Query: 215 LIRISYGPFQLGTLL-AGSTREVSKKIL 241 + R ++ L + RE++KK + Sbjct: 280 IKRTAFENITLKNIHLPKQYRELTKKEI 307 >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 = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 66/243 (27%), Positives = 114/243 (46%), Gaps = 17/243 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRRE +++I RV + + + +DG + E+ Sbjct: 1 MRLNQYIAHHTKYSRREADKLIESGRVNIEKSKA-SLQSVLREGMSVFIDGKRIVPKEQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +YHK G + + SD GR ++D+L S F + VGRLD +EGLL+LT+ +A+ Sbjct: 60 TCIVYHKQKGELVSKSDERGRKVIYDSLESRFKHFMYVGRLDFASEGLLILTDSTPVAKA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTL 179 L RVY V+ +G++ ++ + ++KG+V + + Sbjct: 120 LMES--HLERVYLVKINGEITKEIIEAMEKGLVSEDARAGGHIKSNIVAMEFAPFAHYEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 ++ + V + EGKNRE+++ F F +V L RI+YG L L G R +K+ Sbjct: 178 LKNDKRHSKLKVSITEGKNRELRRFFGVFGREVLDLRRIAYGFVNLNALPCGKKRYFTKE 237 Query: 240 ILR 242 + Sbjct: 238 EYK 240 >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 = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 63/228 (27%), Positives = 101/228 (44%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR--- 68 RV +A G+ SRR E +I ++ V+VNG + + V D I Sbjct: 5 KTPRVQVFLAEKGVGSRRFCEELIKKKLVRVNGSIAK-LGDKVALGDRITYKKQIYVFTD 63 Query: 69 -KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 +++ +KP + ++ D +GR + R+ S+GRLD + GLLL TN Sbjct: 64 FQSKSKIYLALNKPKNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y + +D++ L K GI I+ + + + + Sbjct: 124 DGKFANYIIHPKGKVEREYIIESKKDIDENLLISFKSGIKIKKEFFKLKSYEILNKNSA- 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 ---RLILDEGKNREIRKVFLSKNVFLKKIHRIRIGNINLDSLREGQVK 227 >gi|317181142|dbj|BAJ58928.1| hypothetical protein HPF32_1346 [Helicobacter pylori F32] Length = 257 Score = 128 bits (321), Expect = 1e-27, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 118/249 (47%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKADPLKRCVIYESLEKKYTHFVPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLKRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 128 bits (321), Expect = 1e-27, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 99/237 (41%), Gaps = 10/237 (4%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + N RV +A G+ SRR E +I + V++N L + V D +E Sbjct: 1 MTNTNSKGLRVHVFLAEKGVGSRRFCEDLIRKNSVRINNTLAK-LGDKVFLGDRVECRKQ 59 Query: 66 PLRKAERT-----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + L+ L + + + P R+ S+GRLD + G Sbjct: 60 VFVFRDCKVESKIYIALHKPKNYLCSNFDPEGRQLAISLVQPLFKERLFSIGRLDFKSSG 119 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL TNDG A + P ++ + Y V V+++ L K GI I + + Sbjct: 120 LLLFTNDGQFANNIVHPRSKVEKEYIVESKRAVNENLLINFKHGIKIGREIFKLKSYVML 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 N V + L EGKNREI+KVF N + ++ RI G +L L G + +S Sbjct: 180 ----GNNSVKLVLTEGKNREIRKVFLSKNIFLKKIHRIRIGNIKLDDLKEGQIKVLS 232 >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 = 128 bits (321), Expect = 1e-27, Method: Composition-based stats. Identities = 49/202 (24%), Positives = 87/202 (43%), Gaps = 1/202 (0%) Query: 40 VKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 V VNG ++ + +D ++ P+ + + L + T+ + R+ + Sbjct: 2 VSVNGEVVTELGTKIKRSDVVKFHDEPVSIERKVYVLLNKPKDTVTTSDDPQERRTVMDL 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + R+ VGRLD NT G+LLLTNDG LA L P ++Y V + + + Sbjct: 62 VKGACNERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKFLKKKIYHVHLDKNLTKADME 121 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + GI ++ T V + + GKNR ++++FE +KV +L R+ Sbjct: 122 QIAAGIQLEDGEIH-ADAISYTDDFKKDQVGIEIHSGKNRIVRRIFESLGYKVVKLDRVF 180 Query: 220 YGPFQLGTLLAGSTREVSKKIL 241 + L G R +S+ + Sbjct: 181 FAGLTKKGLRRGDWRYLSEAEV 202 >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 = 128 bits (321), Expect = 1e-27, Method: Composition-based stats. Identities = 53/236 (22%), Positives = 93/236 (39%), Gaps = 7/236 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPL 67 R+ K++A G SRRE++ + ++++G L A V + + VDG L Sbjct: 5 RSVRLDKLLANLGYGSRREIQALARAGAIRLDGAELADAGDRVALAPDLPERLTVDGESL 64 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L L+ + + + + +VGRLD T GLLLLT+ Sbjct: 65 DPLPGLCLMLHKPLGVTCSHKEAGPLVYGLLPERWRRRDPPLSTVGRLDKETSGLLLLTD 124 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG L + P Q + YRV + + + G ++ + + + Sbjct: 125 DGALLHRIISPKAQVAKRYRVTLDRPLTGREAEVFAAGTLVLEGEERPLLPVRLDVEDAT 184 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 V L EG+ +++++F V L R G L L AG+ R ++ + + Sbjct: 185 RCA-VTLTEGRYHQVRRMFAAVGNHVAALHRDRVGGLALPADLPAGAHRVMTAEDV 239 >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 = 128 bits (321), Expect = 1e-27, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 101/251 (40%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 364 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQ 423 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 424 VTILLHKPVGYVSGQAEDGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 483 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR ++L L+ G+ + G Sbjct: 484 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 543 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 544 VALKPAMVSWQNGEQ----LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 599 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 600 QGQWRYLSADE 610 >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 = 128 bits (321), Expect = 1e-27, Method: Composition-based stats. Identities = 46/229 (20%), Positives = 89/229 (38%), Gaps = 8/229 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +IA V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAW 188 L L PS + ++Y V + LK G+++ + S + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPAGETLCETLKNGVLLHDENETVYAADAVL---ESPSA 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK ++K++ +V L R + + L G + + Sbjct: 178 LLLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPGEWKFID 226 >gi|187925109|ref|YP_001896751.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187716303|gb|ACD17527.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] Length = 236 Score = 128 bits (321), Expect = 2e-27, Method: Composition-based stats. Identities = 53/230 (23%), Positives = 91/230 (39%), Gaps = 6/230 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + G+ A + + D VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIADARVSIGGVACTDADADFPTGDTAFFFSVDGVDWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 63 AYLLLNKPAGYECSRDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY +D +L+ L+ G+++ G + +G+N + + Sbjct: 123 LFTSPKRKVPKVYIATTRHPLDDAQLSALRDGVLLHGEP-KPIAAVDAAARGANT-LALT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 + EGK ++K++ + L R G L L G+ + + + L Sbjct: 181 VMEGKYHQVKRMIAAAGNRCEALHRERIGGLALPETLAPGAWQWLDETDL 230 >gi|167582947|ref|ZP_02375821.1| ribosomal small subunit pseudouridine synthase A [Burkholderia thailandensis TXDOH] Length = 240 Score = 127 bits (320), Expect = 2e-27, Method: Composition-based stats. Identities = 52/228 (22%), Positives = 91/228 (39%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ ++ RV V G A + + + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGRVAVGGATCADAHTSFDTARLVFEVDGVAWPYRARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VALNKPAGYECSREPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+++ G + +G + + + Sbjct: 123 TSPKRKVPKTYVAAVRHPLDDAQLDALRAGVLLHGEP-KPIAALAAAARGER-LLEMTIA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V+ L R G F L L G+ R + ++ L Sbjct: 181 EGKYHQVKRMVAAVSNRVDALHRSRIGGFALPEDLAEGAWRWLDERDL 228 >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 = 127 bits (320), Expect = 2e-27, Method: Composition-based stats. Identities = 56/233 (24%), Positives = 99/233 (42%), Gaps = 10/233 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++I+ + +R++V ++AQ+RV V+G+L A V H+ +D L+ + Sbjct: 7 RLDRLISDSRQINRKKVRLILAQKRVYVDGVLATDIAQLVDQFSHVVMDNEVLQANQTHY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L + T + + VGRLD+NT GL+LLTND + Sbjct: 67 IMLNKPIGVVCATKDKKHKTVIDLLAEQFDQDVLDSLHIVGRLDLNTSGLVLLTNDSRWS 126 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWV 189 L P + + Y+V + D ++ K + I + + + Sbjct: 127 ERLTSPEHKVSKGYQVTLENALTTDYIDAFAKGMYFPYENITTKPAILHIVSL----FEA 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V L EG+ +IK++F F V L R S G +L L G +R ++ + Sbjct: 183 QVSLTEGRYHQIKRMFGRFRNPVIALHRYSIGSLRLDESLKDGESRVLNVSEV 235 >gi|261838734|gb|ACX98500.1| pseudouridine synthase B [Helicobacter pylori 51] Length = 262 Score = 127 bits (320), Expect = 2e-27, Method: Composition-based stats. Identities = 59/248 (23%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A + SRRE E+++ + RVK+N + + V D + +D ++ + + Sbjct: 7 RINQFLAHYTMHSRREAEKLVLEGRVKINHEHAK-LSSVVKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y V+ V ++ + +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLVKIQSFVTKEMESAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >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 = 127 bits (320), Expect = 2e-27, Method: Composition-based stats. Identities = 60/256 (23%), Positives = 97/256 (37%), Gaps = 28/256 (10%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV-NVMSTDHIEVDGVPLRKAER 72 R+ K +A++ I +R+ V + + VK+NGI + AAV D IE +G E+ Sbjct: 1 MRLDKFLAQSQIGTRKIVRQYVKDGLVKINGITIFEAAVEINEIEDIIEYNGQITEYKEK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + T D D ++ V VGRLD +TEGLLL TNDG Sbjct: 61 VYYMFNKPSGCI-TARKDADDKTVFDYFKEINMDGVFHVGRLDKDTEGLLLFTNDGDFNN 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQK------- 183 L P + Y G +D+ L+ G+ I ++ Sbjct: 120 KLMSPKFHVDKKYFFIALGSIDEKNKKNLESGVSIGENEPITKPAKIENLKNGTYEELKD 179 Query: 184 --------GSNAWV--------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 N+ + + EG+ ++K++ + V L R+S G L Sbjct: 180 KLNLKKYYHVNSEYYIQPVVCGHITISEGRRHQVKRMLKSIGCHVIYLKRMSIGNLALDE 239 Query: 228 -LLAGSTREVSKKILR 242 L G R ++K ++ Sbjct: 240 FLKKGDYRSLTKDEIK 255 >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 = 127 bits (320), Expect = 2e-27, Method: Composition-based stats. Identities = 40/230 (17%), Positives = 79/230 (34%), Gaps = 7/230 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + +++ G +R+ ++IA +++ G + + VD ER Sbjct: 6 LDRILHTQGFGTRKYCRQLIAAGAIRIGGDTITDTNTPIETDGLEFSVDDEHCIYRERIY 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLL+++DG Sbjct: 66 VALNKPANIECSRKPSHHPGVLSILPDQFTRRDVQPVGRLDHDTTGLLLMSDDGAFIHTQ 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTVGL 193 P +VY + V + + L G+ + + + + + + L Sbjct: 126 SSPKHHVPKVYVATTYAPVTGELIERLLAGVKLHDEPGTLAAE---ICRMIDDHHLEIVL 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVSKKIL 241 +GK ++K++ + L R G +L L G ++ L Sbjct: 183 EQGKYHQVKRMLAAADNHCTALNRSQIGNLKLAELALAPGEWCYLNDAQL 232 >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 = 127 bits (319), Expect = 2e-27, Method: Composition-based stats. Identities = 52/228 (22%), Positives = 91/228 (39%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAERTR 74 + ++ G SRR+ ++ RV V G A + + + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGRVAVGGATCADAHTSFDTARLVFEVDGVAWPYRARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VALNKPAGYECSREPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+++ G + +G + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLDALRAGVLLHGEP-KPIAALAAAARGER-LLEMTIA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V+ L R G F L L G+ R + ++ L Sbjct: 181 EGKYHQVKRMVAAASNRVDALHRSRIGGFALPEDLAEGAWRWLDERDL 228 >gi|209517428|ref|ZP_03266269.1| pseudouridine synthase [Burkholderia sp. H160] gi|209502082|gb|EEA02097.1| pseudouridine synthase [Burkholderia sp. H160] Length = 236 Score = 127 bits (319), Expect = 3e-27, Method: Composition-based stats. Identities = 53/227 (23%), Positives = 86/227 (37%), Gaps = 6/227 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAA--VNVMSTD-HIEVDGVPLRKAER 72 + ++ G SRR+ +I RV ++G + A V S VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIGDARVSIDGAICTDADADFAVESGALRFSVDGVEWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 63 AYLLLNKPVGYECSRDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 P + ++Y +D +L L+ G+++ G LD Q + + Sbjct: 123 QFTSPKRKVPKLYVATTRHPLDDAQLTALRHGVLLHGE-TRP-SAALDAQARDTHTLALT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + EGK ++K++ + L R G L TL G+ + + + Sbjct: 181 VLEGKYHQVKRMIAASGNRCEALHRERIGGLALPATLAPGAWQWLDE 227 >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 = 127 bits (319), Expect = 3e-27, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 101/251 (40%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 362 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRADQRIEIDERAQAAQAAQ 421 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 422 VTILLHKPVGYVSGQAEDGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 481 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR ++L L+ G+ + G Sbjct: 482 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 541 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 542 VALKPAMVSWQNGEQ----LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 597 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 598 QGQWRYLSADE 608 >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 = 127 bits (318), Expect = 3e-27, Method: Composition-based stats. Identities = 51/212 (24%), Positives = 88/212 (41%), Gaps = 2/212 (0%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHS 89 ++++I Q V V+ + NV IEV G + + + + L + Sbjct: 1 MKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKHSYIILNKPSGVVSAKKD 60 Query: 90 DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + VGRLD +TEGL+LLT++G L + PS + Y V Sbjct: 61 TNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGFRMLDPSHHVSKTYLVTV 120 Query: 150 HGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 +G + +D + GI G Q+T+ + ++ + EGK ++KK+F + Sbjct: 121 NGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASLTISEGKFHQVKKMFLTY 180 Query: 209 NWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 KV L R + +LG L +G R ++ Sbjct: 181 GLKVTSLKRTHFAGLELGHLASGEYRYLTASE 212 >gi|56807363|ref|ZP_00365352.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Streptococcus pyogenes M49 591] Length = 228 Score = 127 bits (318), Expect = 3e-27, Method: Composition-based stats. Identities = 48/212 (22%), Positives = 88/212 (41%), Gaps = 4/212 (1%) Query: 35 IAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 + ++ + VN + A ++ D + G PL L + T Sbjct: 7 LKKKAIFVNQKVETSAKAHIDEYKDLVTYQGTPLVYESFVYYLLNKPSGYVSATQDRQQA 66 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 + + V VGRLD +T GLLLLTN+G LA L P + Y + G + Sbjct: 67 TVMELLDDTARQKAVFPVGRLDKDTRGLLLLTNNGQLAHDLLSPKKHVTKEYLAKVAGIM 126 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + +GI ++ + + + + V + ++EGK ++K++ + Sbjct: 127 TEADKDYFARGISLKDHQCLPAHLEVLASDLQQQTSLVKITIQEGKFHQVKRMVAACGKE 186 Query: 212 VNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V L R+S GP +L +L G R ++ + L+ Sbjct: 187 VLDLQRLSMGPLKLDPSLAEGEFRRLTPEELQ 218 >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 = 127 bits (318), Expect = 3e-27, Method: Composition-based stats. Identities = 65/251 (25%), Positives = 111/251 (44%), Gaps = 16/251 (6%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R++K I+ SRRE + +I Q +V +NG ++ + V + I + ++ Sbjct: 2 QKMRLNKFISHNTAYSRREADELIKQGKVSINGRVVSD-FIEVSGEEKIRIGSRLIKPKT 60 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +Y+K G + T D GR T++D+LP FSR +SVGRLD +EGLLLLT+ +A Sbjct: 61 EFTMIVYNKRKGELVTKKDDRGRRTIYDSLPEGFSRFVSVGRLDFASEGLLLLTDAPAIA 120 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLL-----------KKGIVIQGICYGD-MQVTL 179 L + +V+ + + I+ + + + + Sbjct: 121 TALMNSDIEREYYLKVKGEVKEEVVTAIREGFFAADASKGAHAKSKIKSMEFKPFLGYRI 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 G + + EG+NRE+++ F +F+ V L R ++G LG L G R Sbjct: 181 MPSSGGYTKIKAIINEGQNRELRRFFGYFDLDVVELKRTAFGRMTLGMLKPGKWRYFDHS 240 Query: 240 I---LREQLGP 247 LR+ L Sbjct: 241 EYEDLRDFLKE 251 >gi|308805586|ref|XP_003080105.1| unnamed protein product [Ostreococcus tauri] gi|116058564|emb|CAL53753.1| unnamed protein product [Ostreococcus tauri] Length = 405 Score = 127 bits (318), Expect = 3e-27, Method: Composition-based stats. Identities = 60/250 (24%), Positives = 104/250 (41%), Gaps = 20/250 (8%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR-----K 69 ++K +A G+ASRR + +I RVKVNG + V D + VDG + Sbjct: 145 LNKALASLGVASRRGADDLIFGGRVKVNGTTITAPQTKVNLNTDVVMVDGKVVEGGVSFV 204 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV------------ISVGRLDIN 117 E T L + + + TV D +VGRLD+ Sbjct: 205 KEHTYFMLNKPKGFVCSARPGSESGKTVLDLFEQWREEFRSEYPGKLPPRLFTVGRLDVA 264 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T GLLL+T DG ++ + PS++ ++ Y V + + + ++ + KG + G ++V Sbjct: 265 TTGLLLVTTDGDWSQRVSHPSSEVVKQYVVTANAKPTRAQIVAMSKGTEVDGAHVVPVRV 324 Query: 178 TLDTQK-GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTRE 235 + G + V + +G+NRE++ + E +V L R G ++ L G Sbjct: 325 EVAGADGGPKNRIIVEVVDGRNREVRVLCESAGVEVKNLKRTRVGGLRMPKELPLGKYVR 384 Query: 236 VSKKILREQL 245 + + L Sbjct: 385 LKPAQIAHVL 394 >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 = 127 bits (318), Expect = 3e-27, Method: Composition-based stats. Identities = 52/198 (26%), Positives = 89/198 (44%), Gaps = 8/198 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-R 72 ++++ I+ A SRRE +R+I RV +NG + V D + +DG + K E Sbjct: 1 MKINQYISEAKSCSRRETDRLIKAGRVAINGEICTH-GALVSDGDVVTIDGQVIAKEEKE 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +HKP+G+ T +D + + R+ VGRLD +EGL+LLTNDG +A Sbjct: 60 KVYIAFHKPVGITCTAADHIEDNIIDYI--HYPERIFPVGRLDKASEGLILLTNDGTIAN 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + Y V +N + G+ I+ +VT + Sbjct: 118 QILHGDHEHEKEYVVTVDKPFTDWFINEMSSGVKIKDGMTKPCKVTRVRSINISYH---- 173 Query: 193 LREGKNREIKKVFEFFNW 210 L +G NR+I+++ + Sbjct: 174 LTQGMNRQIRRMSRAIGY 191 >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 = 126 bits (317), Expect = 4e-27, Method: Composition-based stats. Identities = 52/271 (19%), Positives = 106/271 (39%), Gaps = 37/271 (13%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVP 66 +N R++K+I+ SRR+ ++ I +K+N ++ +V + D I+V Sbjct: 40 NKNENIIRLNKLISINNNISRRKSDKFIQNANIKINNKVVLNPGTHVDITKDQIKVHDKK 99 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-------------------IFSR 107 + ++ + + + R Sbjct: 100 IDIENIKKILNNYNISNTNHNSYKWIVMHKPKGLICTNQDEKDRKSIFSIFPDDLLQKYR 159 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 ++SVGRLD NT G+LL TN+ L P + +R Y + G V D L +L G+ + Sbjct: 160 IVSVGRLDRNTSGVLLFTNEYTWVNKLTHPKYERVRKYMIHIEGPVRMDALKMLANGVYL 219 Query: 168 QGI--------CYGDMQVTLDTQKGSN--------AWVTVGLREGKNREIKKVFEFFNWK 211 + + + ++ + + ++EG+NR+I+K+F+ N Sbjct: 220 KDEDNNKKKKKKTQPAFIEVLREENVKIQNQIKKITVLNISIKEGRNRQIRKMFQQINQP 279 Query: 212 VNRLIRISYGPFQLGTLL-AGSTREVSKKIL 241 + ++ R ++ L + RE++KK + Sbjct: 280 IVKIKRTAFENITLKNIHLPKQYRELTKKEI 310 >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 = 126 bits (317), Expect = 4e-27, Method: Composition-based stats. Identities = 53/234 (22%), Positives = 92/234 (39%), Gaps = 4/234 (1%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLR 68 N + ++ G SRR+ ++ RV V G A + + + EVDGV Sbjct: 9 NARAMDLESILFTQGFGSRRQCRALVEAGRVAVGGATCADAHTSFDTARLVFEVDGVAWP 68 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R + L + V VGRLD +T GLLLL++DG Sbjct: 69 YRARAYVALNKPAGYECSREPQHHASVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDG 128 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 P + + Y +D +L+ L+ G+++ G + +G Sbjct: 129 QFVHAYTSPKRKVPKTYVATVRHPLDDAQLDALRAGVLLHGEP-KPIAALAAAARGER-L 186 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + EGK ++K++ + +V+ L R G F L L G+ R + ++ L Sbjct: 187 LEMTIAEGKYHQVKRMVAAASNRVDALHRSRIGGFALPEDLAEGAWRWLDERDL 240 >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 = 126 bits (317), Expect = 4e-27, Method: Composition-based stats. Identities = 46/230 (20%), Positives = 78/230 (33%), Gaps = 7/230 (3%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLRKAERT 73 + +++ G +R+ +I V V G + + TD++E V G R E Sbjct: 6 LDRILQSQGFGTRKWCRELIEDGEVLVAGDSITDY-RHAFETDNLEFSVYGESWRFREHV 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + V VGRLD +T GLLL+++DG Sbjct: 65 YIALNKPADYECSRKPSHHPGVLSLLPEQFALRDVQPVGRLDHDTTGLLLMSDDGAFIHA 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 P +VY H V + L G+ + V + + + L Sbjct: 125 QSSPKRHIPKVYVATTHDPVTPQLVRQLMSGVKLHDEPAPLAAVVCNMLD--TCQLKIVL 182 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKIL 241 +GK ++K++ L R G +L L G + + L Sbjct: 183 EQGKYHQVKRMLAAAGNHCTALRRTEIGKLRLEALGLAEGEWCYLGEAEL 232 >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 = 126 bits (317), Expect = 5e-27, Method: Composition-based stats. Identities = 73/255 (28%), Positives = 117/255 (45%), Gaps = 10/255 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPL----R 68 ++ K+++ G SRR +E MI ++ +NG I +D + Sbjct: 4 KIQKILSDLGYGSRRFIECMIKCGKISINGEKAIIGQYLNKKNPG-EILIDKKKIIVKRN 62 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K L + T + +R +SVGRLDINT+GLLL TNDG Sbjct: 63 KNLPKVLIYNKPIGEVCTRDDFQKRLTVFDKLPKLNLNRWVSVGRLDINTKGLLLFTNDG 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGSN 186 LA L P +Q R Y +R G+++++K+N+L+KG+ I ++ D ++G N Sbjct: 123 TLANKLMHPRSQIEREYNIRIFGEMNKNKINILRKGVKIIHGYVSFKEIVPLYDKKEGKN 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 W L EGKNREI+ +F+ +VN+LIR+ YG L L G ++ L++ Sbjct: 183 KWFKGILCEGKNREIRLMFKSIQCQVNQLIRVRYGNIILPKNLKEGQWMMLNSIFLKKLY 242 Query: 246 GPHLLEEAQVNLDAP 260 ++ +N Sbjct: 243 NLINFDKEIINKKKN 257 >gi|308062723|gb|ADO04611.1| hypothetical protein HPCU_07355 [Helicobacter pylori Cuz20] Length = 257 Score = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 117/249 (46%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRCVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 52/233 (22%), Positives = 100/233 (42%), Gaps = 9/233 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K+I G+ +R+ ++R + + +NG +++ ++V V D + G + E Sbjct: 1 MRVDKMIGNTGLDTRKNIKRNAKKGALVINGEIVKDSSVKVDPLVDEVFYMGHFVEYIEN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +++ D + + + GRLD +T GL++L+ DG Sbjct: 61 LYLILNKPSG-VLSATQDAEETVIDLLDDFYKNYDLSIAGRLDKDTTGLIILSTDGKFIH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAWVT 190 + P++ + Y V+ + ++ KKG+ I ++T+ +K + V Sbjct: 120 KITSPNSHITKTYEVKTRDPIAENLKEEFKKGVYIKEDDYTARPAELTITGEKEAIVKV- 178 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 EGK +K++F +V L R + G L L G RE+++ L Sbjct: 179 ---TEGKYHLVKRLFSNLGNEVVGLKRTAIGKLVLDPYLKEGDYRELTEAELE 228 >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 = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 101/251 (40%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V + IE+D Sbjct: 362 MRLSKRMSELGLCSRREADEWIEKGWVIVDGERIDTLGTKVRADQRIEIDERAQAAQAAQ 421 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L+T + G + P + GRLDI++ Sbjct: 422 VTILLHKPVGYVSGQAEDGYEPASVLITRENHWSGDRSPLRFSPQHLRALAPAGRLDIDS 481 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT +G +A+ L + + Y VR ++L L+ G+ + G Sbjct: 482 TGLLVLTQNGRIAKQLIGEQSDVDKEYLVRVRFGDRLTDIDQHFPAERLAQLRHGLELDG 541 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V+ + + LREG+ R+I+++ E +V L R+ G LG L Sbjct: 542 VALKPAMVSWQNGEQ----LRFVLREGRKRQIRRMCELVGLEVIGLKRVRMGRVTLGALP 597 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 598 QGQWRYLSADE 608 >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 = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 53/235 (22%), Positives = 102/235 (43%), Gaps = 12/235 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ + I+R + + V ++ ++++ V+G + V + VDG +++ + Sbjct: 7 RLDRFISRRLSVTNKAVRELLVRKKIIVDGEVASLMNQTVGPFTFVVVDGEVIQQRQPVY 66 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + +V+ D + + + GRLD NT GLLLLTNDG ++ L Sbjct: 67 LMMNKPKG-VVSATKDDKHTIVLDLIDHPLKEELHIAGRLDFNTTGLLLLTNDGAWSKQL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQD----KLNLLKKGIVI--QGICYGDMQVTLDTQKGSNAW 188 LP ++ YRV + +G+ + + I + + Sbjct: 126 SLPENNIMKKYRVTLKDHLFSSDVLIYQKKFSEGVFLSSENITTRPATLLALSSNI---- 181 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 V + + EG+ ++K++F FF +V L R+S G ++ G L G R ++ K + Sbjct: 182 VELSICEGRYHQVKRMFGFFQNEVLELHRLSVGSLEMEGGLALGRYRVLTPKEID 236 >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 = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 42/217 (19%), Positives = 83/217 (38%), Gaps = 4/217 (1%) Query: 51 AVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 V D + V+G P+ + L L + S + + R Sbjct: 5 GEQVFVGDSVSVNGQPIAPRKAEDLVLIALNKPVGVITSMGKQVRNNIGDWVNHSQRTFP 64 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +GRLD +++GL+ LTN G L + + Y V + + + + G+ I G Sbjct: 65 IGRLDKDSQGLIFLTNHGELVNKILRAGNNHQKEYLVSVDRPITDEFIQAMGAGVPILGT 124 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +K ++ + + L +G NR+I+++ ++F ++V +L R+ L L Sbjct: 125 VTKPC----LVEKIASQILRITLVQGLNRQIRRMCKYFGYQVTKLERVRIMNINLHGLAL 180 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 G R+ + + RE ++ + A Sbjct: 181 GEWRDFTDEERRELFRLIEHSSSEASQPATTSIPPVA 217 >gi|317182664|dbj|BAJ60448.1| hypothetical protein HPF57_1374 [Helicobacter pylori F57] Length = 257 Score = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 117/249 (46%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ + +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTKEMESAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 48/232 (20%), Positives = 105/232 (45%), Gaps = 9/232 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K ++ +R E++ ++ RV +NG L + + + + +DG+ + Sbjct: 1 MRIEKWLSDVTDYTRSEIKNLLKNNRVYINGRLYDET-IKYNEFNSLRIDGIDYATDKYV 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + + + +VF+ + +I+ GRLD++TEGLL+L+++ L Sbjct: 60 YIMLNKPQGYITSNKDELY--PSVFNLIDVPRKNLIAYGRLDVDTEGLLVLSDNHKLCHE 117 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ Q++ + +++ K+G I + ++ + N + Sbjct: 118 LLAPKKHVFKKYLVQVDKQLEPNLIDIFKQGFSIGEDKNTLPSKLEII----DNFTCYLT 173 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILRE 243 + EGK ++K++F+ + V L R+S+ L L R +S + + Sbjct: 174 ISEGKFHQVKRMFKTNGYNVIFLKRVSFKNIILDEKLKPSQWRFLSSDEIND 225 >gi|167585734|ref|ZP_02378122.1| Pseudouridine synthase, Rsu [Burkholderia ubonensis Bu] Length = 238 Score = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 53/228 (23%), Positives = 88/228 (38%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTR 74 + ++ G SRR+ ++ RV V G + VDGV R Sbjct: 3 LESILFTQGFGSRRQCRGLVDAARVAVAGAPCTDPDAEFDTDGLVVSVDGVAWPFHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + P + V VGRLD +T GLLLL++DG Sbjct: 63 LALNKPAGYECSRDPQHHASVFSLLPTPLVARGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+ + G + + + + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLHALRTGVQLHGEP-KPIAAVAADARDA-HVLALTVL 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R S G F L L G+ R +S+ L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRESIGGFALPADLEPGAWRWLSEADL 228 >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 = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 63/228 (27%), Positives = 97/228 (42%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ +A G+ SRR E +I ++ V+VNG + + V D I Sbjct: 5 KTPRIHVFLAEKGVGSRRFCEELIRKKLVRVNGSIAK-LGDKVALGDRIIYKKQIYVFKD 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L+ R L L L + + + P R+ S+GRLD + GLLL TN Sbjct: 64 LQSKSRVYLALNKPRNYLCSNFDANGRKLAISLVQPLFKERLFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y + +D++ L K GI I+ + + + + Sbjct: 124 DGKFANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKIKKEFFKLKSYEILNKNSA- 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 ---RLILDEGKNREIRKVFLSKNVFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 62/261 (23%), Positives = 107/261 (40%), Gaps = 28/261 (10%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + ++ R+SK+++ G+ SRRE + I + V V+G ++ V IE+D Sbjct: 391 RRDYEDAPGTLRLSKLMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQRIEID 450 Query: 64 G---------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + Y I LVT + +G + + ++ Sbjct: 451 PAAEAAQASQVTVLIHKTVGFVSGQAEDGYQPAITLVTPENRWEGDRSNIRFSVAHLRQL 510 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLN 159 GRLDI++ GLL+LT DG +A+ L ++ + Y VR + L Sbjct: 511 APAGRLDIDSTGLLVLTQDGRIAKRLVGGHSEIDKEYLVRVAFGEHTTDVESHFPPESLA 570 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 LL+ G+ + + QV+ + + LREGK R+I+++ E +V L R+ Sbjct: 571 LLRHGLSLDDVPLKPAQVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVR 626 Query: 220 YGPFQLGTLLAGSTREVSKKI 240 G LG L G R ++ Sbjct: 627 MGHVMLGALPPGQWRYLAADE 647 >gi|308064218|gb|ADO06105.1| hypothetical protein HPSAT_07015 [Helicobacter pylori Sat464] Length = 257 Score = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 61/259 (23%), Positives = 117/259 (45%), Gaps = 19/259 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLGPHLLEEAQVN 256 ++ E Sbjct: 238 RQEYNELHAFMANAANVKE 256 >gi|261840134|gb|ACX99899.1| pseudouridylate synthase [Helicobacter pylori 52] Length = 257 Score = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 118/249 (47%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRHVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 118/249 (47%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 120 SALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 62/259 (23%), Positives = 117/259 (45%), Gaps = 19/259 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLGPHLLEEAQVN 256 ++ E Sbjct: 238 RQEYNELHAFMANAANVKE 256 >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 = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 98/228 (42%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 RV +A G+ SRR E +I ++ ++VNG + + V D I Sbjct: 5 KSPRVQVFLAEKGVGSRRFCEELIRKKLIRVNGSIAK-LGDKVSPGDRIIYKKQIYVFKD 63 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 + +KP + ++ D +GR + R+ S+GRLD + GLLL TN Sbjct: 64 FQSKNKIYLALNKPKNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 124 DGEFANDIIHPRRKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA- 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L L G + Sbjct: 183 ---RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDNLKEGQVK 227 >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 = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 60/227 (26%), Positives = 104/227 (45%), Gaps = 7/227 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R+ + I++ S + +IAQ+R+ ++G + V ++E+DG L+ Sbjct: 2 KSTTNRLDRFISQNSPFSISDTRLLIAQKRILLDGHVAHSNQQKVTKFTYVELDGNCLQD 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L +V+ D + + + + VGRLD NT GL+LLTNDG Sbjct: 62 NNPLYIMLNKPKG-VVSATKDIKHSTVLDLIQHPQKNELHIVGRLDFNTTGLVLLTNDGA 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNA 187 +R + LP T+ +VY V + ++ + + ++GI + I + + S Sbjct: 121 WSRKISLPETKLAKVYEVTLSKPLTEEYVAVFREGIYFGYEDITTKPACLEIL----SEY 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGK ++K++F FF +V L R S G L L G +R Sbjct: 177 TARLSLVEGKYHQVKRMFGFFQNEVLELHRASVGNISLEGLEEGHSR 223 >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 = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 53/266 (19%), Positives = 101/266 (37%), Gaps = 7/266 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++++ G+ R V + + +RV V G + A D I++DG P+ E Sbjct: 10 RIERILSNLGVCERSRVPQFLRDKRVTVLGKKVT-PATKANIKD-IQIDGEPIENGETLH 67 Query: 75 LWLYHKPIGLVTTHSDPDG---RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ + +T +D D + + GRLD GL++L+ DG L Sbjct: 68 IAVHKPSGYICSTVNDHDHKIIYDILPKEFFKRKPTLSIAGRLDKWVTGLVVLSQDGKLV 127 Query: 132 RVLELPST--QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + P V V + I+++G L V Sbjct: 128 DRIISPKDDGCGKDYEVVLKDKLVGDEAEVFESGKIMLRGESTPCKPAKLQVLDKEKNKV 187 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 V L EG+ +I+++F K + R GP +LG L G R ++++ L+E + Sbjct: 188 KVTLYEGRYHQIRRMFASTENKAVEIHRTRIGPVELGDLGLGKWRHLTEQELKELYSIKI 247 Query: 250 LEEAQVNLDAPIYSSETLVRDRPNII 275 + + + + L + + Sbjct: 248 DDNSNKTDKKKVKLNSFLEKKKKLRG 273 >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 = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 119/249 (47%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRMIYESLERKYAHFVPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLIKIQGFVTKEMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN +V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKIRVVINEGKNRELRRFFAFFNARVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 126 bits (315), Expect = 6e-27, Method: Composition-based stats. Identities = 46/224 (20%), Positives = 85/224 (37%), Gaps = 5/224 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVDGVPLRKAERTR 74 + K++ G SR+ +++I V + + + N EV G E Sbjct: 3 LEKILQSQGFGSRKYCQQIIKNGSVTIENQICDNPKQNFPTEHLCFEVFGEEYLFRENVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + + + + VGRLD +T GLLLLT+DG + L Sbjct: 63 IVLNKPKGYECSHQATHHKSVFSLFPEILLHRGIQCVGRLDQDTTGLLLLTDDGQYLQAL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTVGL 193 P +VY V + Q++ L++G+ ++ S +++ + Sbjct: 123 TNPRKHVPKVYHVTTADPITQEQKQALEQGVELRNEKGIYAATDVHLF---SEHQLSMTI 179 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +G ++K++ KV L R G F+L + G +S Sbjct: 180 HQGIYHQVKRMLAAVGNKVEDLHRHQVGLFELPKIPEGEWLYLS 223 >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 = 126 bits (315), Expect = 6e-27, Method: Composition-based stats. Identities = 64/228 (28%), Positives = 97/228 (42%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ +A G+ SRR E +I ++ V+VNG + + V D I Sbjct: 5 KTPRIHVFLAEKGVGSRRFCEELIRKKLVRVNGSIAK-LGDKVALGDRIIYKKQIYVFKD 63 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L+ R L L L + + + P RV S+GRLD + GLLL TN Sbjct: 64 LQSKSRVYLALNKPRNYLCSNFDANGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y + +D++ L K GI I+ + + + + Sbjct: 124 DGKFANDIIHPRQKVEREYIIESKKDIDENLLISFKLGIKIKKEFFKLKSYEILNKNSA- 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 ---RLILDEGKNREIRKVFLSKNVFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 126 bits (315), Expect = 7e-27, Method: Composition-based stats. Identities = 43/227 (18%), Positives = 87/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+ + + + Sbjct: 121 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENP--TTL 178 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ + L R + + L G + + Sbjct: 179 LLTITEGKYHQVKRMVAAAGNRAQHLHRRRFAHLETENLKPGEWKFI 225 >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 = 126 bits (315), Expect = 7e-27, Method: Composition-based stats. Identities = 43/227 (18%), Positives = 87/227 (38%), Gaps = 6/227 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ + +++DG + Sbjct: 12 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSYVETLDIDGEAVTVVP 71 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 72 EPYFYILLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 131 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L PS + ++Y V + LK G+ + + + Sbjct: 132 LNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADAVLENP--TTL 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + EGK ++K++ + L R + + L G + + Sbjct: 190 LLTITEGKYHQVKRMVAAAGNRAQHLHRRRFAHLETENLKPGEWKFI 236 >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 = 126 bits (315), Expect = 8e-27, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 118/249 (47%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 STLMHA--NLEKEYLVKIQGFVTKEMENAMQEGLKLENATKGAHQKTSIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >gi|317013226|gb|ADU83834.1| ribosomal large subunit pseudouridinesynthase B [Helicobacter pylori Lithuania75] Length = 257 Score = 125 bits (314), Expect = 8e-27, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 118/249 (47%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHAD--LEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKIRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 125 bits (314), Expect = 9e-27, Method: Composition-based stats. Identities = 42/230 (18%), Positives = 88/230 (38%), Gaps = 10/230 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGV--PLRK 69 ++ K + GI SR++ + +I V++N + ++ + +DG + Sbjct: 1 MQLIKYLQSQGIGSRKQCQWLIQNDCVEINDTIRNDTKADIDPAEVQTLRIDGEDIVVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 MPYFYILLNKPADYETSHKPQQYPSVFSLFPDHMRNIDMQAVGRLDADTTGVLLITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNA 187 + P + ++YRV D LK G+++ + L+ + Sbjct: 121 FNHRVTSPKHKVPKIYRVTLKHPADDSLCETLKNGVLLHDDNETVRAAEAVLE----NPT 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK ++K++ +V L R + + L +G + ++ Sbjct: 177 TLLMTITEGKYHQVKRMVAAAGNRVEHLHRDEFNGRTVENLASGEWKFIT 226 >gi|167561885|ref|ZP_02354801.1| RNA pseudouridine synthase family protein [Burkholderia oklahomensis EO147] Length = 240 Score = 125 bits (314), Expect = 9e-27, Method: Composition-based stats. Identities = 53/228 (23%), Positives = 90/228 (39%), Gaps = 4/228 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 + ++ G SRR+ ++ RV V G A + + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGRVAVGGATCTDAHASFDTARLAFEVDGVAWPYHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VVLNKPAGYECSREPQHHSSVFRLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D +L+ L+ G+++ G + +G + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDAQLDALRAGVLLHGEP-KPIAAVAAHARGER-LLEMTVA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 EGK ++K++ + +V L R S G F L L G+ R + ++ L Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRASIGGFTLPADLAEGAWRWLDERDL 228 >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 = 125 bits (314), Expect = 9e-27, Method: Composition-based stats. Identities = 51/243 (20%), Positives = 89/243 (36%), Gaps = 17/243 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKV--NG----ILLERAAVNVMS-TDHIEVDGVP 66 ++ ++ G +RR +I Q V V G ++ A N+ + V G Sbjct: 1 MQLQDILYSQGFGTRRICAGLIQQGWVAVHSAGSLEPVVCLEPAQNLKEQGLVLRVQGQD 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINTE 119 + + L + S S V +VGRLD +T Sbjct: 61 WPYHAKAYVMLNKPAGTECSQKPSAYPSVYTLLPAPLRQRPGKSAVSGVQAVGRLDQDTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLL++DG + P +VY+V VD ++ L G+V+ ++ + Sbjct: 121 GLLLLSDDGQFIHRMSSPKKHVPKVYQVTVRHPVDAAQVECLLAGVVLDDDP-KPVR-AV 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 + + + L EGK ++K++ +V L R G +L + G R + Sbjct: 179 ACVQRDAHRIDLTLTEGKYHQVKRMIAAVGNRVEALHRARIGGLELPADMAPGQWRWLGL 238 Query: 239 KIL 241 L Sbjct: 239 DEL 241 >gi|255084639|ref|XP_002508894.1| predicted protein [Micromonas sp. RCC299] gi|226524171|gb|ACO70152.1| predicted protein [Micromonas sp. RCC299] Length = 248 Score = 125 bits (314), Expect = 9e-27, Method: Composition-based stats. Identities = 68/244 (27%), Positives = 101/244 (41%), Gaps = 32/244 (13%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR------------- 74 RRE + ++ RV+VNG L++ + V S D + +DG L Sbjct: 1 RREADEAVSAGRVRVNGALVK-PSFRVRSGDVVTLDGKALDWEPFAAATEGSIGAHAGSN 59 Query: 75 ---LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 Y+KP G+ T +RV VGRLD ++ GL+LLT+DG + Sbjct: 60 GFFYLKYNKPRGVTCTMESSQRTKPAKGV---GSARVFPVGRLDRDSSGLVLLTDDGRVP 116 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----------CYGDMQVTLDT 181 L PS + + Y V D + L+ G+VI V L Sbjct: 117 EALLDPSRKAPKTYEVDVRPAPTPDAIEALRDGVVITTTQQRDGVTTTSPTAPCPVDLIK 176 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVSKK 239 + ++A + LREG+NR+I+K+ E +V RL R+S G L L G R +S Sbjct: 177 KSETSATLRFELREGRNRQIRKMCEAVGVEVVRLHRVSVGGVWLDESALEVGGVRALSGD 236 Query: 240 ILRE 243 L Sbjct: 237 ELDA 240 >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 = 125 bits (314), Expect = 1e-26, Method: Composition-based stats. Identities = 57/247 (23%), Positives = 112/247 (45%), Gaps = 15/247 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLL------------KKGIVIQGICYGDMQVTL 179 L + + + +++ + + +K + + + Sbjct: 120 SALMHANLEKEYLIKIQGFVTREMENAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYEI 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++++ Sbjct: 180 IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQ 239 Query: 240 ILREQLG 246 E Sbjct: 240 EYNELHA 246 >gi|317010168|gb|ADU80748.1| ribosomal large subunit pseudouridinesynthase B [Helicobacter pylori India7] Length = 257 Score = 125 bits (314), Expect = 1e-26, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 118/249 (47%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDRVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+L+L++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLILSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTREIENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 125 bits (314), Expect = 1e-26, Method: Composition-based stats. Identities = 58/235 (24%), Positives = 110/235 (46%), Gaps = 2/235 (0%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R+++ IA++GI SRRE + I V VNG+++ V TD ++ + + Sbjct: 211 NKPTGEIRLNRFIAQSGICSRREADDFIQAGLVTVNGVVVTTLGTKVQPTDEVKFNDSRV 270 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ L L + + ++ + + R+ VGRLD N+ GLLL TND Sbjct: 271 EGEKKVYLVLNKPKGYVTSLDDPHADKTVMELVKDACTERIYPVGRLDKNSVGLLLFTND 330 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L R L PS Q ++Y+V + + + + +GI ++ + + K Sbjct: 331 GDLTRQLTHPSFQKKKIYQVSLDKPLTKADMEQIAQGITLEDGEIYADE--IAYVKEDKT 388 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + G+NR ++++FE + V +L R+ Y L G R ++++ ++ Sbjct: 389 EVGIEIHSGRNRIVRRIFEHLGYAVKKLDRVYYAGLSKKNLKRGQWRFLTREEVQ 443 >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 = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 98/228 (42%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 RV +A G+ SRR E +I ++ ++VNG + + V D I Sbjct: 5 KSPRVHVFLAEKGVGSRRFCEELIRKKLIRVNGSIAK-LGDKVSPGDRIIYKKQIYVFKD 63 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 + +KP + ++ D +GR + R+ S+GRLD + GLLL TN Sbjct: 64 FQSKNKIYLALNKPRNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 124 DGEFANDIIHPRGKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA- 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L L G + Sbjct: 183 ---RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDNLKEGQVK 227 >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 = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 64/245 (26%), Positives = 107/245 (43%), Gaps = 11/245 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 VQ + +++ + +AG+ R + E I + RV ++G + V + VDG+ Sbjct: 22 VQPSGRSDWLARALGKAGVMPRAQAEAAIREGRVTLDGRVEHEPFAPVRPEMEVRVDGLV 81 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------SRVISVGRLDINTEG 120 ++HKP GLV SD +G TVF+ L ++VGRLD +T G Sbjct: 82 RNLEAPVLTLMFHKPAGLVVHGSDAEGVGTVFECLRERLTQPLRDYEWLAVGRLDRDTTG 141 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLL TND L + P + Y G +D L L++G+V++ L Sbjct: 142 LLLFTNDERLVQHGTSPERHLPKRYVAGVVGPPPEDALRRLREGLVLEDGPTRPAGARLR 201 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V + L EG+N ++K++ V L R + G L + G+ R ++ + Sbjct: 202 APD----VVELTLTEGRNHQVKRMLAAVGHPVRTLHREAVGGVTL-DVPEGAWRLLTDEE 256 Query: 241 LREQL 245 + + L Sbjct: 257 VSQGL 261 >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 = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 42/230 (18%), Positives = 88/230 (38%), Gaps = 10/230 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGV--PLRK 69 ++ K + GI SR++ + +I V++N + ++ + +DG + Sbjct: 1 MQLIKYLQSQGIGSRKQCQWLIQNDCVEINDTVRNDTKADIDPAEVQTLRIDGEDIVVVP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 MPYFYILLNKPADYETSHKPQQYPSVFSLFPDHMRNIDMQAVGRLDADTTGVLLITNDGQ 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNA 187 + P + ++YRV D LK G+++ + L+ + Sbjct: 121 FNHRVTSPKHKVPKIYRVTLKHPADDSLCETLKNGVLLHDDNETVHAAEAVLE----NPT 176 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + EGK ++K++ +V L R + + L +G + ++ Sbjct: 177 TLLMTITEGKYHQVKRMVAAAGNRVEHLHRDEFNGRTVENLASGEWKFIT 226 >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 = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 44/227 (19%), Positives = 87/227 (38%), Gaps = 8/227 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGV--PLRKAERT 73 K + GI +R+ + ++ V++NG + ++ + +DG + Sbjct: 5 KYLQAQGIDTRKGCQWLVKHGLVQINGATVPDEKADIAPDSVQTLTIDGEDAVVIPLPYF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + + + +VGRLD +T G+LL+TNDG Sbjct: 65 YILLNKPAGYETSHKPRDYPSVFSLLPDQVRAADIQAVGRLDADTTGVLLITNDGQFNHR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++YR D L+ G+++ Q + + Sbjct: 125 MTSPKHKVDKIYRATLKHAADPSLCAQLQAGVLLHDDNETVSAQAAELH---DAHTLILT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +REGK ++K++ +V L R+ +GP+ L AG R + + Sbjct: 182 IREGKYHQVKRMVAAAGNRVEHLHRLQFGPWDTQDLQAGEWRFIRVE 228 >gi|317178163|dbj|BAJ55952.1| hypothetical protein HPF16_1355 [Helicobacter pylori F16] Length = 262 Score = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 61/248 (24%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNH 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >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 = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 57/218 (26%), Positives = 93/218 (42%), Gaps = 4/218 (1%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLW 76 +++ G +R E +I Q R +VNG + ++ + D EVDGV E+ + Sbjct: 5 QILFSQGFGTRHECTGLIVQGRFRVNGTAVTDPDEDIPTEDLTFEVDGVQWPFFEKAIIL 64 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L + P +V VGRLD +T GLLLLT+DG L L Sbjct: 65 LNKPEHYECSLKPIHHPSVLSLLPPPLRVRKVQPVGRLDEDTTGLLLLTDDGKLIHRLTH 124 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 P ++YRV V + ++ L KG+ + + + K S + +G+ +G Sbjct: 125 PKKHVTKIYRVTLKHPVTEKQIAQLLKGVQLADSPD--IVKAVSCDKVSELVIDLGITQG 182 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 K ++K++ + +V L RI +G L L G Sbjct: 183 KYHQVKRMMAAVSNRVVALERIRFGNLSLPEDLKPGEW 220 >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 = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 50/215 (23%), Positives = 92/215 (42%), Gaps = 9/215 (4%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHS 89 + + +I R++VN +++ V D I DG + ++ +KP G + + Sbjct: 10 KCKNLIKSSRIRVNNQIIKDIRYQVDIDDVIVFDG--VELKWPFVYYMLNKPKGYICANH 67 Query: 90 DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 D +GRLDI+T GLLL+TND L++ L LP + Y V Sbjct: 68 DK---KYKCVIDLIGRDDCYCLGRLDIDTTGLLLITNDKTLSKRLLLPENHIDKKYYVTV 124 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 ++ D + + GI+I + + + + EG+ +IKK+F N Sbjct: 125 KNKLTDDLIEIFNNGIIIDQKV--KCKPSYLEIIDDYHCY-LTINEGRYHQIKKMFLSCN 181 Query: 210 WKVNRLIRISYGPFQLG-TLLAGSTREVSKKILRE 243 KV L R+ + L L + R+++ + +++ Sbjct: 182 NKVLELKRVMFASINLDNNLSLANYRKLNNQEIKQ 216 >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 = 124 bits (312), Expect = 1e-26, Method: Composition-based stats. Identities = 62/252 (24%), Positives = 106/252 (42%), Gaps = 29/252 (11%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R++K +A G+ SRRE + + + V+VNG L NV++ D I V+ + ++ Sbjct: 343 GVRINKRLADMGLCSRREADEWVDKGWVRVNGELA-VMGQNVVAADRITVEREARERQDQ 401 Query: 73 TRLWLYHKPIGLVT---------------THSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 L HKP+G V+ + + ++ + + GRLDI+ Sbjct: 402 QVTILIHKPMGYVSGQAEDGHEPAVVLVTPQNHWNQDTSRTRFNFAQLKGLAPCGRLDID 461 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------HGQVDQDKLNLLKKGIVIQ 168 + GLL++T DG +AR + ++ + Y VR ++L L G+ + Sbjct: 462 SVGLLVMTQDGRVARQIIGEDSEMDKEYLVRVTYGDRDIDVQSVFPAEQLARLCHGLSLD 521 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 G +V + + L EGK R+I+++ E +V L RI G LG L Sbjct: 522 GEALKPAKVDWQNPEQ----LRFVLTEGKKRQIRRMCELVGLRVVGLKRIRIGRVTLGNL 577 Query: 229 LAGSTREVSKKI 240 G R + Sbjct: 578 PVGQWRYLGAHE 589 Score = 38.6 bits (88), Expect = 1.5, Method: Composition-based stats. Identities = 17/126 (13%), Positives = 30/126 (23%), Gaps = 5/126 (3%) Query: 229 LAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 G RE R + +A+ DA R + + ++ Sbjct: 182 PRGDWREQGGGENRAPREQRDMRDARDTRDARPPRPPRPDDRRDRPYGQRDERPRDGQR- 240 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + P A+G + + R P R R Sbjct: 241 -DGQRDGQRDGPRDGPREGGFRDRPRDDARGPRRDDARGPRR---DDARGPRRDDARGPR 296 Query: 349 RTSAKK 354 R A + Sbjct: 297 RDEAPQ 302 >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 = 124 bits (312), Expect = 1e-26, Method: Composition-based stats. Identities = 61/248 (24%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDRVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 126 ALMHAD--LEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >gi|396661|emb|CAA79503.1| unknown open reading frame [Buchnera aphidicola] Length = 258 Score = 124 bits (312), Expect = 1e-26, Method: Composition-based stats. Identities = 72/256 (28%), Positives = 117/256 (45%), Gaps = 11/256 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRKAER 72 ++ K+++ G SRR +E MI ++ +NG I +D + Sbjct: 4 KIQKILSDLGYGSRRFIECMIKCGKISINGEKAIIGQYLNKKNPG-EILIDKKKIIVKRN 62 Query: 73 TRL-----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 L + + T + +R +SVGRLDINT+GLLL TND Sbjct: 63 KNLPKVLIYNNKPIGEVCTRDDFQKRLTVFDKLPKLNLNRWVSVGRLDINTKGLLLFTND 122 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--LDTQKGS 185 G LA L P +Q R Y +R G+++++K+N+L+KG+ I ++ D ++G Sbjct: 123 GTLANKLMHPRSQIEREYNIRIFGEMNKNKINILRKGVKIIHGYVSFKEIVPLYDKKEGK 182 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 N W L EGKNREI+ +F+ +VN+LIR+ YG L L G ++ L++ Sbjct: 183 NKWFKGILCEGKNREIRLMFKSIQCQVNQLIRVRYGNIILPKNLKEGQWMMLNSIFLKKL 242 Query: 245 LGPHLLEEAQVNLDAP 260 ++ +N Sbjct: 243 YNLINFDKEIINKKKN 258 >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 = 124 bits (312), Expect = 2e-26, Method: Composition-based stats. Identities = 55/242 (22%), Positives = 93/242 (38%), Gaps = 10/242 (4%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEV 62 + + T R+ +++A G ASRRE++ + R++++G A + + V Sbjct: 1 MTKTPTS-RLDRLLANMGYASRREIQMLARNGRIQLDGAAFHDADKRIALTPDLETRLVV 59 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG L L L+ + + + +VGRLD T GL Sbjct: 60 DGEALDPLPGFALMLHKPLGVTCSHKEAGPLVYDLLPQRWRRRDPAISTVGRLDKETSGL 119 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD-MQVTLD 180 LL+T+DG L + P + YRV + D+ L G ++ L+ Sbjct: 120 LLMTDDGKLLHRIISPKRHVAKRYRVHLARSMTGDEAALFAAGTLMLEGEEKPLAPAELE 179 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 A + V EG+ +++++F V L R S G L L G+ R + Sbjct: 180 VVGPQEALLEV--HEGRYHQVRRMFAATGNHVEALHRESVGGLSLPADLAPGAIRRLDDA 237 Query: 240 IL 241 L Sbjct: 238 DL 239 >gi|317011592|gb|ADU85339.1| hypothetical protein HPSA_06915 [Helicobacter pylori SouthAfrica7] Length = 254 Score = 124 bits (312), Expect = 2e-26, Method: Composition-based stats. Identities = 62/249 (24%), Positives = 116/249 (46%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L + VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYVHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L R Y ++ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEREYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFVGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EILKNHAKYSKLKVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >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 = 124 bits (312), Expect = 2e-26, Method: Composition-based stats. Identities = 62/228 (27%), Positives = 99/228 (43%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 R+ +A G+ SRR E +I ++ V+VNG + + V D I + Sbjct: 5 KTPRIHVFLAEKGVGSRRFCEELIRKKLVRVNGSIAK-LGDKVTLGDRIIYKKQVYLFKD 63 Query: 72 RT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 +KP + ++ D +GR + RV S+GRLD + GLLL TN Sbjct: 64 FQSKDRVYLALNKPKNYLCSNFDANGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y + +D++ L K GI I+ + + + + Sbjct: 124 DGKFANDIIHPRLKVEREYIIESKKDIDENLLISFKSGIKIKKEFFKLKSYEILNKNSA- 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF + + ++ RI G L +L G + Sbjct: 183 ---RLILDEGKNREIRKVFLSKSVFLKKIHRIRIGNINLDSLKEGQVK 227 >gi|221134604|ref|ZP_03560907.1| RNA pseudouridine synthase family protein [Glaciecola sp. HTCC2999] Length = 211 Score = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 47/205 (22%), Positives = 86/205 (41%), Gaps = 11/205 (5%) Query: 41 KVNGILLERAAVNVMSTDHIEVDGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRST 96 VNG L + +D + + G + LYHKP+G+ T + Sbjct: 1 MVNGQLP-LLGTKITPSDTVSIQGKVISAVAADKSDRVYVLYHKPVGITCTTERHIKGNI 59 Query: 97 VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + +R+ VGRLD +EGL++LT+DG + + ++YRV + Sbjct: 60 IDAI--GHKTRIFPVGRLDKPSEGLIILTSDGDIVNKILRAENAHDKLYRVTVDKPITSK 117 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + ++ G+ I +V ++ + L +G NR+I+++ E+ + V RL+ Sbjct: 118 FIEIMSGGVPILDTVTKPCKV----KQIGKFSFDITLTQGLNRQIRRMCEYCGYDVKRLV 173 Query: 217 RISYGPFQLGTLLAGSTREVSKKIL 241 R L L G R ++ + L Sbjct: 174 RTRIMHLTLAKLPVGQWRNLTNEEL 198 >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 = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 62/248 (25%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 126 TLMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >gi|317179635|dbj|BAJ57423.1| hypothetical protein HPF30_1326 [Helicobacter pylori F30] Length = 262 Score = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 62/248 (25%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLVKIQGFVTREMENAIQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >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 = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 61/248 (24%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+L+L++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLILSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >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 = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 62/228 (27%), Positives = 98/228 (42%), Gaps = 10/228 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA- 70 RV +A G+ SRR E +I ++ ++VNG + + V D I Sbjct: 5 KSPRVHVFLAEKGVGSRRFCEELIRKKLIRVNGSIAK-LGDKVSPGDRIIYKKQIYVFKG 63 Query: 71 ---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-IFSRVISVGRLDINTEGLLLLTN 126 + +KP + ++ D +GR + R+ S+GRLD + GLLL TN Sbjct: 64 FQSKNKIYLALNKPRNYLCSNFDVNGRKLAISLVQPLFKERIFSIGRLDFKSSGLLLFTN 123 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG A + P + R Y V +D++ L K GI ++ + + + + Sbjct: 124 DGEFANDIIHPRRKVEREYIVESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA- 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L L G + Sbjct: 183 ---RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDNLKEGQVK 227 >gi|332674227|gb|AEE71044.1| RNA pseudouridine synthase [Helicobacter pylori 83] Length = 262 Score = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 62/248 (25%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKSLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKIRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >gi|297380685|gb|ADI35572.1| conserved hypothetical protein [Helicobacter pylori v225d] Length = 262 Score = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 61/248 (24%), Positives = 118/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >gi|315585848|gb|ADU40229.1| RNA pseudouridine synthase [Helicobacter pylori 35A] Length = 262 Score = 124 bits (311), Expect = 2e-26, Method: Composition-based stats. Identities = 61/248 (24%), Positives = 119/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + +V V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAKLVSV-VKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKIRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >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 = 124 bits (310), Expect = 2e-26, Method: Composition-based stats. Identities = 44/222 (19%), Positives = 90/222 (40%), Gaps = 2/222 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+ ++ G +R + ++ + + VN + + D I ++G L T Sbjct: 7 RIDAHLSSLGYCTRGDAKKFLKINELLVNENRVFNPSTKAYHDD-ITINGEKLDPETLTI 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + + S + ++ +VGRLD++T G ++LT+DG L L Sbjct: 66 LLNKPSGVICSHNDAGVLIYSLLPYRWTQRNPKISTVGRLDVDTTGAIILTDDGTLNHKL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + ++Y + D+ + G ++ + S V + + Sbjct: 126 ANPKKEISKIYEAHLKVPLKGDEEKIFASGELLLNGEDKPLLPAKLEV-LSPTCVRLEIV 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 EGK ++K++F + +V +L RIS+ F + L G + + Sbjct: 185 EGKYHQVKRMFAAVDNRVVKLHRISFDNFTVEDLKEGEYKSI 226 >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 = 124 bits (310), Expect = 3e-26, Method: Composition-based stats. Identities = 48/234 (20%), Positives = 82/234 (35%), Gaps = 9/234 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----DGVP 66 P R++K + SRRE E IA V V+G ++E V +E+ D P Sbjct: 2 TEPVRLAKRLVELVACSRREAELYIAGGWVMVDGQIVEEPQFMVSE-QLVELHPNADLTP 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + A L + + + L F ++ L+ N GL +LT Sbjct: 61 IEPATLLFHHLNATNTTAICAGTRSADDLSGIHLLRQHFFKLTPCTPLERNASGLTVLTQ 120 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 D + R L+ + + Y V G++ D L LL G+ G +V+ + Sbjct: 121 DFRIIRKLKDEAATIEQEYIVEIAGEIMADGLKLLNHGLKFNGKPLPPAKVSWQNETRLR 180 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + +I + + V + RI G + L R + Sbjct: 181 FALKGVI----PGQIAAMCQKVGLDVISMRRIRIGRISMAKLQPDQWRYLMLHE 230 >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 = 124 bits (310), Expect = 3e-26, Method: Composition-based stats. Identities = 61/249 (24%), Positives = 117/249 (46%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLIKIQGFVTREIENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >gi|167569105|ref|ZP_02361979.1| RNA pseudouridine synthase family protein [Burkholderia oklahomensis C6786] Length = 240 Score = 124 bits (310), Expect = 3e-26, Method: Composition-based stats. Identities = 52/225 (23%), Positives = 87/225 (38%), Gaps = 4/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAERTR 74 + ++ G SRR+ ++ RV V G A + + EVDGV R Sbjct: 3 LESILFTQGFGSRRQCRALVEAGRVAVGGATCTDAHASFDTARLAFEVDGVAWPYHARAY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V VGRLD +T GLLLL++DG Sbjct: 63 VVLNKPAGYECSREPQHHSSVFRLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGQFVHAY 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + + Y +D L+ L+ G+++ G + +G + + + Sbjct: 123 TSPKRKVPKTYVATVRHPLDDALLDALRAGVLLHGEP-KPIAAVAAHARGER-LLEMTVA 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 EGK ++K++ + +V L R S G F L L G+ R + + Sbjct: 181 EGKYHQVKRMVAAASNRVEALHRASIGGFTLPADLAEGAWRWLDE 225 >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 = 123 bits (309), Expect = 3e-26, Method: Composition-based stats. Identities = 58/251 (23%), Positives = 98/251 (39%), Gaps = 19/251 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 RV +++A G RRE + ++ + RV +G L+ V D + +D L Sbjct: 80 RVERLLANLGYGKRRECQVLVKKGRVTRRDGGKLKV-GDKVCWGDVV-LDEEDLDPPSPL 137 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVGRLDINTEGLLLLTNDG 128 L L+ +VT+ D + V +L + VGRLD +T GLLLLT+DG Sbjct: 138 LLALHKPGGYVVTSPDDENITDPVVYDLLPYRFARRRPFLAPVGRLDKDTSGLLLLTDDG 197 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-------IVIQGICYGDMQVTLDT 181 L + P +VY + ++ + + ++ L Sbjct: 198 ALLHRINSPRRGIWKVYEATLAEPMSTNQAAAAARRFASGSLVLEGDHTPLLPAKLDLIG 257 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 V + EGK +++++F V L R+S G LG+L G R + + L Sbjct: 258 A----RTARVAICEGKYHQVRRMFAAVGSHVVALHRVSVGGLTLGSLPEGEWRYLQPQEL 313 Query: 242 REQLGPHLLEE 252 + E+ Sbjct: 314 QLVFEGPSAED 324 >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 = 123 bits (309), Expect = 4e-26, Method: Composition-based stats. Identities = 60/249 (24%), Positives = 117/249 (46%), Gaps = 19/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAQ-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKNDPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y ++ G + ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLIKIQGFITREMENAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++ Sbjct: 178 EIIKNHAKYSKLRVVINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLN 237 Query: 238 KKILREQLG 246 ++ E Sbjct: 238 RQEYNELHA 246 >gi|294340758|emb|CAZ89150.1| putative ribosomal large subunit pseudouridine synthase [Thiomonas sp. 3As] Length = 300 Score = 123 bits (308), Expect = 4e-26, Method: Composition-based stats. Identities = 59/260 (22%), Positives = 96/260 (36%), Gaps = 38/260 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM---STDHIEVDG------ 64 R+SK ++ G+ASRRE + I + V ++G V I + Sbjct: 44 VRLSKRMSELGLASRREADDWIERGWVLLDGTPA-VLGTKVAGNLPASRIVIRKAAQHRQ 102 Query: 65 ---------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + L+ + P+ + GRLD Sbjct: 103 AAQVTILLHKPVGYVSAQAEHGYTPAVALIKAENRWAECEAPQPFSPAHLRHLAVAGRLD 162 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------------HGQVDQDKLNL 160 I++ GLL+LT DG +AR L + + Y VR + +L L Sbjct: 163 IDSTGLLVLTQDGRIARQLIGEDSAVEKEYLVRVSLTDAPARNGAEEDVQAAFTESRLAL 222 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 L+ G+ + QV + + LREGK R+I+++ E +V L R+ Sbjct: 223 LRHGLKLDDQPLRPAQVEWINPQQ----LRFVLREGKKRQIRRMCELVGLRVTGLKRVRI 278 Query: 221 GPFQLGTLLAGSTREVSKKI 240 G +LG L G R + + Sbjct: 279 GGLRLGALPLGQWRYLREDE 298 >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 = 123 bits (308), Expect = 4e-26, Method: Composition-based stats. Identities = 62/248 (25%), Positives = 117/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRHVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKARFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >gi|307730739|ref|YP_003907963.1| pseudouridine synthase [Burkholderia sp. CCGE1003] gi|307585274|gb|ADN58672.1| pseudouridine synthase [Burkholderia sp. CCGE1003] Length = 239 Score = 123 bits (308), Expect = 4e-26, Method: Composition-based stats. Identities = 54/232 (23%), Positives = 91/232 (39%), Gaps = 6/232 (2%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGVPLRKAER 72 + ++ G SRR+ +IA RV + + A + + D VDGV E Sbjct: 3 LESILFTQGFGSRRQCRALIADARVTIGDTVCTDADADFPAEDTSFCFSVDGVTWPYREH 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + V VGRLD +T GLLLL++DG Sbjct: 63 AYLLLNKPAGYECSRDPQHHLSVFSLLPPQFAERGVQCVGRLDQDTTGLLLLSDDGKFVH 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P + +VY VD +L+LL+ G+++ G + +G + + + Sbjct: 123 LFTSPKRKVPKVYVASTRHPVDDTQLSLLRNGVLLHGES-KPVAAVDAQLRGERS-LALT 180 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 + EGK ++K++ + L R G L TL G+ + + + L Sbjct: 181 VMEGKYHQVKRMIAAAGNRCEALHRERVGGLALPATLAPGAWQWLDEAALEA 232 >gi|317014873|gb|ADU82309.1| hypothetical protein HPGAM_07680 [Helicobacter pylori Gambia94/24] Length = 257 Score = 123 bits (308), Expect = 5e-26, Method: Composition-based stats. Identities = 57/247 (23%), Positives = 112/247 (45%), Gaps = 15/247 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLIYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLL------------KKGIVIQGICYGDMQVTL 179 L + + + +++ + + +K + + + Sbjct: 120 SALMHANLEKEYLVKIQGFVTREMENAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYEI 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++++ Sbjct: 180 IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKARFLNRQ 239 Query: 240 ILREQLG 246 E Sbjct: 240 EYNELHA 246 >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 = 123 bits (308), Expect = 5e-26, Method: Composition-based stats. Identities = 55/229 (24%), Positives = 106/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K+I A + +R+ ++R + + +NG +++ ++V V D + G + + Sbjct: 3 MRVDKMIGNANLDTRKNIKRNAKKGELIINGQIVKDSSVKVDPNLDEVIYMGELVDYFDN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + ++ DG + + + GRLD +T GLLLL+ DG Sbjct: 63 IYIMMNKREGLI-CQSNELDGTVMSDLDEFYLNLDLAIAGRLDKDTTGLLLLSTDGKFIH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P++ + Y V ++D + K G+ I+ Y LD A+V V Sbjct: 122 KVISPNSHIWKKYEVETSKKIDPSLVENFKDGVYIKEDDYYARSAKLDIIGEKKAYVYVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 EGK +K++F + +V +L R++ G +L +L G RE+S++ Sbjct: 182 --EGKFHLVKRLFSNNDNEVIKLKRLAIGDLELDQSLNPGQYRELSEEE 228 >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 = 123 bits (308), Expect = 5e-26, Method: Composition-based stats. Identities = 52/238 (21%), Positives = 87/238 (36%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G +++ V T +E+D A Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIDEPQFKVT-TQKVELDPEAKATA 60 Query: 71 ERTRLWLYHKPIGLVTTHSD--------PDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L + P G + + L F R+ + L N GLL Sbjct: 61 PEPVTLLLNVPAGTDVDTAMASLGPQTLSEEHRFGKRPLKGHFLRLTASADLQANASGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D + R L + + + Y V G++ LN L G+ +G ++ + + Sbjct: 121 VFTQDWKILRKLTADAAKIEQEYVVEVEGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + KV + RI G +G + G R +S K Sbjct: 181 NR----LRFAMKNPQPGVIALFCQAVGLKVVAIRRIRIGGVSIGKVPLGQWRYLSAKE 234 >gi|296136628|ref|YP_003643870.1| pseudouridine synthase [Thiomonas intermedia K12] gi|295796750|gb|ADG31540.1| pseudouridine synthase [Thiomonas intermedia K12] Length = 300 Score = 122 bits (307), Expect = 5e-26, Method: Composition-based stats. Identities = 57/260 (21%), Positives = 93/260 (35%), Gaps = 38/260 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM---STDHIEVDG------ 64 R+SK ++ G+ASRRE + I + V ++G V I + Sbjct: 44 VRLSKRMSELGLASRREADDWIERGWVLLDGTPA-VLGTKVAGNLPASRIVIRKAAQHRQ 102 Query: 65 ---------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ Y + L+ + P+ + GRLD Sbjct: 103 AAQVTILLHKPVGYVSAQAEHGYTPAVALIKAENRWAECEAPQPFSPAHLRHLAVAGRLD 162 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL--------------- 160 I++ GLL+LT DG +AR L + + Y VR + Sbjct: 163 IDSTGLLVLTQDGRIARQLIGEDSAVEKEYLVRVSLTDAPARNGAEEDVQAAFPESRLAL 222 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 L+ G+ + QV + + LREGK R+I+++ E +V L R+ Sbjct: 223 LRHGLKLDDQPLRPAQVEWINPQQ----LRFVLREGKKRQIRRMCELVGLRVTGLKRVRI 278 Query: 221 GPFQLGTLLAGSTREVSKKI 240 G +LG L G R + + Sbjct: 279 GGLRLGALPLGQWRYLREDE 298 >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 = 122 bits (307), Expect = 6e-26, Method: Composition-based stats. Identities = 61/248 (24%), Positives = 118/248 (47%), Gaps = 19/248 (7%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAQ-LASVVKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ + VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFVPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVT 178 L + Y ++ G V ++ N +++G+ ++ + Sbjct: 126 ALMHA--NLEKEYLIKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGYE 183 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + + V + EGKNRE+++ F FFN V L R+ YG L L G R +++ Sbjct: 184 IIKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNR 243 Query: 239 KILREQLG 246 + E Sbjct: 244 QEYNELHA 251 >gi|150020316|ref|YP_001305670.1| pseudouridine synthase [Thermosipho melanesiensis BI429] gi|149792837|gb|ABR30285.1| pseudouridine synthase [Thermosipho melanesiensis BI429] Length = 243 Score = 122 bits (307), Expect = 6e-26, Method: Composition-based stats. Identities = 60/233 (25%), Positives = 104/233 (44%), Gaps = 7/233 (3%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ +++ G A RR+ + +I ++VKVNG ++ + +V D I V+G Sbjct: 2 KGVDNIKLQRILQICGFA-RRKADELIFSKKVKVNGKIVTKPWFDVKVDDEITVEGKKFT 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L+ + + + + + GRLD + G+L+LTNDG Sbjct: 61 LPKFEYYVLHKPKGYVTSLYDPKEKNTIKEFFKDKPL---KPAGRLDKDVSGVLILTNDG 117 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L VL +VY + G+V + L LKKGI +G + Q + + Sbjct: 118 DLIDVLTNAKYGVKKVYIAKITGRVKFEDLLSLKKGIYDKGDFLKLEHFDILEQGFNYST 177 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVSKK 239 V V + +GK E+K++FE KV L RI +GP + L G R++ + Sbjct: 178 VKVEMIKGKKHEVKRLFEKIGHKVLELRRIKHGPVSIS-LAPNPGDMRKIEGE 229 >gi|307638112|gb|ADN80562.1| Ribosomal large subunit pseudo uridine synthase B [Helicobacter pylori 908] Length = 257 Score = 122 bits (307), Expect = 6e-26, Method: Composition-based stats. Identities = 56/241 (23%), Positives = 111/241 (46%), Gaps = 15/241 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 60 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLL------------KKGIVIQGICYGDMQVTL 179 L + + + +++ + + +K + + + Sbjct: 120 SALMHANLEKEYLVKIQGFVTREMESAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYEI 179 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++++ Sbjct: 180 IKNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQ 239 Query: 240 I 240 Sbjct: 240 E 240 >gi|329737424|gb|EGG73678.1| S4 domain protein [Staphylococcus epidermidis VCU028] Length = 180 Score = 122 bits (306), Expect = 7e-26, Method: Composition-based stats. Identities = 58/180 (32%), Positives = 95/180 (52%), Gaps = 1/180 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ K IA +G SRR+ E +I + RVKVNG + VM +D +EVDG+ + + Sbjct: 2 SKEQERLQKRIANSGYTSRRKAEVLITEGRVKVNGQTVTELGSKVMPSDLVEVDGIKIEQ 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ + LY ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG Sbjct: 62 EDKIYILLYKPT-QVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 ++ P + Y + G + ++++ L+KGI ++ QV + Q + Sbjct: 121 FTNLMTHPRYHIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKIRL 180 >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 = 122 bits (306), Expect = 8e-26, Method: Composition-based stats. Identities = 56/240 (23%), Positives = 111/240 (46%), Gaps = 15/240 (6%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + + Sbjct: 7 RINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNKK 65 Query: 75 --LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + +YHKP G + + +DP R ++++L ++ VGRLD +EG+LLL++ + Sbjct: 66 FSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLLLSDSKAVVS 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLL------------KKGIVIQGICYGDMQVTLD 180 L + + + +++ + + +K + + + Sbjct: 126 ALMHANLEKEYLVKIQGFVTREMESAMQEGLKLKNATKGAHQKTPIKSMEFAPFIGYEII 185 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + V + EGKNRE+++ F FFN V L R+ YG L L G R ++++ Sbjct: 186 KNHAKYSKLRVIINEGKNRELRRFFAFFNAGVLDLRRVRYGFVNLNALPVGKMRFLNRQE 245 >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 = 122 bits (306), Expect = 8e-26, Method: Composition-based stats. Identities = 52/238 (21%), Positives = 86/238 (36%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G +++ V T +E+D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVSVDGEVIDEPQFKVT-TQKVELDPEAKATV 60 Query: 71 ERTRLWLYHKPIGLV--------TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L H P G+ + + + L F R+ + L GLL Sbjct: 61 PEPVTILMHAPAGMDAETAMASISAETLSEEHRFSKRPLKGHFLRLTASADLQAKASGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D + R L + + + Y V G + LN L G+ +G ++ + + Sbjct: 121 VFTQDWKILRKLTADAAKIEQEYVVEVEGDMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I E KV + RI G +G + G R +S K Sbjct: 181 NR----LRFAMKNPQPGVIALFCEAVGLKVIAIRRIRIGGVSIGKVPVGQWRYLSGKE 234 >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 = 122 bits (305), Expect = 9e-26, Method: Composition-based stats. Identities = 74/301 (24%), Positives = 124/301 (41%), Gaps = 8/301 (2%) Query: 55 MSTDHIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 I +DG + L Y L T H R+ SR I Sbjct: 7 DENSVIRIDGHTITGKASEEVVCRVLAYYKPEGELCTRHDPEGRRTVFDRLPKIRGSRWI 66 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 SVGRLD NT GLLL T DG LA L PS Q R Y VR G+V + K+ + +G+ ++ Sbjct: 67 SVGRLDANTSGLLLFTTDGELANRLMHPSRQVEREYLVRVFGEVTEQKVKNVTRGVQLED 126 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TL 228 V +G N V + EG+NRE+++++E V+RL R+ YG L L Sbjct: 127 GMARFEDVVYAGGEGMNHTFYVAINEGRNREVRRLWESQETTVSRLKRVRYGDIYLDKKL 186 Query: 229 LAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 G +E+ + + L + + + + + T + + ++ R ++ Sbjct: 187 PRGGWKELDLQEV-NYLRELVELQPEKETLLDLDPANTSRKRERSRSQKIRRAVKRHEER 245 Query: 289 SSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 ++ G S Q K P R + + ++ + ++ + + P+ P+K R Sbjct: 246 ANAPKGRSNQTKRKKPATRGTTTPDSGRSAPA-TNGKPQATKKPKLNNGRPAKPAKPRSR 304 Query: 349 R 349 + Sbjct: 305 K 305 >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 = 122 bits (305), Expect = 1e-25, Method: Composition-based stats. Identities = 55/234 (23%), Positives = 103/234 (44%), Gaps = 5/234 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++R G SR E R+I V +NG+L + V TD + VDG PL Sbjct: 1 MRLDAFVSRFGRFSRSESRRIIRSNGVSLNGVLTNNPSEVVDETDTVIVDGRPLEAFWNV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + + +GRS + + + + GRLD + GLL+L+NDG Sbjct: 61 YIALNKPEGYVCSRERS-EGRSVFELIDANFSADLSTGGRLDKDATGLLILSNDGKFIHE 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + P + Y V ++ + +++++ +G+ I + ++ + + + L Sbjct: 120 VISPRKLVEKEYLVETAKEITKKEISMISQGLFIGNNEFSKPTHV---EQIDHFHMRIVL 176 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLG 246 EG+ E+K++ KV +L R G + L L G + +S+ ++ G Sbjct: 177 TEGRYHEVKRLVSASGNKVIQLHRRRIGSYCLSEELRPGDWQLLSENDRKKITG 230 >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 = 122 bits (305), Expect = 1e-25, Method: Composition-based stats. Identities = 48/200 (24%), Positives = 85/200 (42%), Gaps = 1/200 (0%) Query: 42 VNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 VNG+++ + D ++ + + + L + T+ R+ + Sbjct: 1 VNGVVVTELGTKIKRADEVKFHDQMVSIERKIYILLNKPKDTVTTSDDPQARRTVMDLVK 60 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + R+ VGRLD NT G+LLLTNDG LA L P ++Y V V + ++ + Sbjct: 61 GACDERIYPVGRLDRNTTGVLLLTNDGDLASKLTHPKFLKKKIYHVHTDKNVTKADMDQI 120 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 GI + T V + + GKNR ++++FE +KV +L R+ + Sbjct: 121 AAGIQLDDGEIH-ADAISYTDDVRRDEVGIEIHSGKNRIVRRIFESLGYKVVKLDRVFFA 179 Query: 222 PFQLGTLLAGSTREVSKKIL 241 L G R +S++ + Sbjct: 180 GLTKKGLRRGEWRYLSEQEV 199 >gi|299472407|emb|CBN77595.1| conserved unknown protein [Ectocarpus siliculosus] Length = 390 Score = 121 bits (304), Expect = 1e-25, Method: Composition-based stats. Identities = 68/255 (26%), Positives = 105/255 (41%), Gaps = 4/255 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK++A I +R EV+ ++ + RVKV+G +++ + IEV+G + Sbjct: 137 RLSKLLADRAIGTRSEVDTLVRRGRVKVDGAVVKSPKTKLPVDCVIEVNGE-VHGPVPLL 195 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + + + T D D S+ + VGRLD ++ GLLLL++DG L L Sbjct: 196 VAFHKPKGVITTLSDDWDREDLSDVLPKSLLLKHHPVGRLDADSSGLLLLSSDGALTHRL 255 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + R Y + ++ + +GI D D S V V +R Sbjct: 256 LNPRFEVEREYVASVDVPPEGEEPGDSLVTALKEGITTADGVYKADVPAISGRDVGVVVR 315 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL---REQLGPHLLE 251 EGKNR ++++ + V L R YG LG L G VS L R L Sbjct: 316 EGKNRMVRRMLANAGYPVLELRRERYGKILLGDLPEGEHVPVSGDALEWARSVLQLQAAT 375 Query: 252 EAQVNLDAPIYSSET 266 A V+ E Sbjct: 376 AAVVDGGGDEKGVEP 390 >gi|218533320|ref|YP_002424135.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] gi|218525623|gb|ACK86207.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] Length = 320 Score = 121 bits (304), Expect = 1e-25, Method: Composition-based stats. Identities = 69/238 (28%), Positives = 112/238 (47%), Gaps = 1/238 (0%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 + + +P + +V+++ G SRR E +I RV+V+G ++ A V V I V Sbjct: 15 RFAAHSSPSPVSLPRVLSKFGFCSRRSAEVLIESGRVRVDGRVVRNAGVRVDPQRAAICV 74 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 DG L A + L L L T ++ + VGRLD +EGLL Sbjct: 75 DGRRLVSAAKVYLLLNKPRGLLTTYGDPQGRKTVYDCLAGHDLPFLAPVGRLDCASEGLL 134 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 L+TND A L P++ +VY V+ + D+ L L++G+ G V Sbjct: 135 LMTNDTRWAHRLLDPASNVDKVYHVQIDRRPDEALLTGLREGVAHDGERLAAKSVAPLRV 194 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 NAW+ V L EG+NR+I+++ +V RL+R++ G +LG + G+ R ++ Sbjct: 195 GERNAWLEVVLSEGRNRQIRRMMALNGAEVLRLVRVAVGGVRLGDVRKGAFRHLTDAE 252 >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 = 121 bits (304), Expect = 1e-25, Method: Composition-based stats. Identities = 63/225 (28%), Positives = 95/225 (42%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 RV +A G+ SRR E +I ++ VKVN + + V D I + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAK-LGDKVALGDRIIYKKQIFVFKDFQI 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L L + + + P RV S+GRLD + GLLL TNDG Sbjct: 67 NNRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGK 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 127 FANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA---- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 121 bits (304), Expect = 1e-25, Method: Composition-based stats. Identities = 54/193 (27%), Positives = 87/193 (45%), Gaps = 4/193 (2%) Query: 52 VNVMS-TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + V IEV G L+ E + + + T+ + F + Sbjct: 1 MQVNPKESVIEVAGEILKYREYIYIMMNKPQGVISATYDNRHRTVIDILPDEYKFFNLFP 60 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 VGRLDI+TEGLLLLTNDG LA L P + Y G V +++ ++G+V+ Sbjct: 61 VGRLDIDTEGLLLLTNDGQLAHELLSPRKHVPKKYYALIDGIVTTKDVDVFREGVVLDDG 120 Query: 171 -CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-L 228 ++ + + G + V + + EGK ++K++FE KV L RI G +L L Sbjct: 121 YKTLPSELFIL-KSGPYSEVEIVIYEGKFHQVKRMFEAVGKKVKYLRRIGMGKLKLDETL 179 Query: 229 LAGSTREVSKKIL 241 G RE++ + + Sbjct: 180 EPGDVRELTDEEM 192 >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 = 121 bits (304), Expect = 1e-25, Method: Composition-based stats. Identities = 62/261 (23%), Positives = 116/261 (44%), Gaps = 17/261 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRRE +++I+Q RV + ++ + + + +DG + E Sbjct: 1 MRLNQYIAHHTKYSRREADKLISQGRVNIEKTKATLHSL-LGANQRVFIDGKKIIPKEHF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +YHKP G + + D GR ++++L + F + VGRLD +EGLL+LT+ +AR Sbjct: 60 TCIVYHKPKGEIVSKRDERGRRVIYESLEAKFKHFVYVGRLDFASEGLLILTDSTPVARA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQVTL 179 L + + +G + Q+ ++ ++ G++ + + Sbjct: 120 LMESDLLRTYIL--KINGFITQEIISAMENGLISEDTRVGAHSKSHITSMEFAPFNSYKI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V + +GKNRE+++ F F +V L RISYG L L G R + + Sbjct: 178 LKNDRRYSKIKVSIAQGKNRELRRFFGAFGREVLDLRRISYGFVHLNALPCGKKRFFTHE 237 Query: 240 ILREQLGPHLLEEAQVNLDAP 260 R+ + + N Sbjct: 238 EYRDLHIFLRDKIDKANNPQM 258 >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 = 121 bits (304), Expect = 1e-25, Method: Composition-based stats. Identities = 62/225 (27%), Positives = 95/225 (42%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 RV +A G+ SRR E +I ++ V+VN + + V D I + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVRVNNTIAK-LGDKVTLGDRIIYKKQIFVFKDFQI 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L L + + + P RV S+GRLD + GLLL TNDG Sbjct: 67 NNRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGK 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 127 FANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA---- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 54/208 (25%), Positives = 99/208 (47%), Gaps = 7/208 (3%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 M+AQ+R+ V+G + + + +++DG + + +KP G+V DP Sbjct: 1 MLAQRRIMVDGKVASDMSQTIDKFSRVQLDGE-WTQNHTAHYLMLNKPQGVVCATKDPLH 59 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R+ + ++ VGRLD N+ GL+LLTNDG +R L P ++ ++ YRV + Sbjct: 60 RTILDLLELPDKEQLHIVGRLDYNSTGLVLLTNDGQWSRKLSHPDSKLIKRYRVTTEQTI 119 Query: 154 DQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 ++ + + +GI +T+ + V L EG+ +IK++F F K Sbjct: 120 TEEYVQAFQSGMYFDFEGITTRPAPLTIL----DSKTAQVDLTEGRYHQIKRMFGRFQNK 175 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKK 239 V + R + G ++LG L G + ++ Sbjct: 176 VLSIHRFAVGSYELGELSPGEYKSIAPD 203 >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 = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 57/129 (44%), Positives = 75/129 (58%), Gaps = 5/129 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DH 59 +K NI+ P R+ K +A +GI SRR+ E++I RV +NG + + D Sbjct: 91 IKSYNIMS----PVRLQKFLAASGICSRRKAEQLILDGRVTLNGETVLILGTKITPDIDK 146 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG +++ E+ +L +KP G VTT SDP GR V D L I RV VGRLD +TE Sbjct: 147 ITVDGKLVKEEEQKVYYLLNKPKGYVTTLSDPQGRPVVTDLLHGINERVFPVGRLDFDTE 206 Query: 120 GLLLLTNDG 128 G LLLTNDG Sbjct: 207 GALLLTNDG 215 >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 = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 54/229 (23%), Positives = 109/229 (47%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K+I A + +R+ +++ + + +NG +++ ++V V D + G + E Sbjct: 3 MRVDKMIGNANLDTRKNIKKNAKKGGLVINGEIIKDSSVKVDPNIDEVIYMGELVDYFEN 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + ++ DG + + + GRLD +T GLLL++ DG Sbjct: 63 IYIMMNKREGLI-CQSNELDGTVMSDLDEFYLNLDLAIAGRLDKDTTGLLLMSTDGKFIH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P++ + Y V ++D D + + K+G+ I+ Y L+ + A+V V Sbjct: 122 RVISPNSNIWKKYEVETSKKIDPDLVEIFKEGVYIKEDDYYARSAKLEIIEDKKAYVYVT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKI 240 EGK +K++F + +V +L R++ G QL L G RE++++ Sbjct: 182 --EGKFHLVKRLFSNNDNEVVKLKRLAIGKLQLDKTLNPGDYRELTQEE 228 >gi|152981630|ref|YP_001352859.1| RNA pseudouridylate synthase [Janthinobacterium sp. Marseille] gi|151281707|gb|ABR90117.1| RNA pseudouridylate synthase [Janthinobacterium sp. Marseille] Length = 237 Score = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 81/237 (34%), Gaps = 12/237 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKA 70 R+SK +A A SRRE E+ I V V+G ++E V I + L Sbjct: 3 DSIRLSKRVAEALACSRREAEQYIEGGWVSVDGKVIEEPGHRVDPQQAIVLSPDATLVAV 62 Query: 71 ERTRLWLYHKPIG-------LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 + + L+ +T + + L + L+ GLL+ Sbjct: 63 DPVTILLHKPAGMDAAAALQCITPENLYAEDRSGIRFLKKHTVDLKPTDSLESLASGLLV 122 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D +AR L + + Y G + + L LL G+ + ++V+ + Sbjct: 123 FTQDWHVARKLVDDAAGIEQEYIAEVSGTLVANGLALLNHGLSMNRKPLAPVKVSWQNET 182 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 G++ G +I + E + L RI + L G R + Sbjct: 183 RLRFAGK-GIQRG---QIPYMCEQVGLTLVGLKRIRMARMPMAALPVGQWRYLKGYE 235 >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 = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 48/244 (19%), Positives = 87/244 (35%), Gaps = 17/244 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG------ILLERAAVNVMS-TDHIEVDGVP 66 ++ ++ G RR ++ Q V++ + + V V GV Sbjct: 1 MQLQDMLYSQGFGIRRVCSGLVQQGWVELWNPQTSDWEKVLDSTQQVDPEGLRFRVQGVE 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINTE 119 E + L + V +VGRLD +T Sbjct: 61 WEYHELGYVLLNKPAGTECSQKPSAYPSIYTLLPAPLRQRPNKGAVQGVQAVGRLDQDTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLL++DG + P +VYRV VD ++ L G+V+ ++ Sbjct: 121 GMLLLSDDGQFIHRMSSPKKHVSKVYRVTCKHPVDAKQIQRLLDGVVLDDDP-KPVK-AA 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 ++ + + + L EGK ++K++ + +V L R G +L L G R ++ Sbjct: 179 ACEQVDSHVLDLTLTEGKYHQVKRMIAAVSNRVEGLHRRRIGGMELPADLEPGQWRWLTA 238 Query: 239 KILR 242 L Sbjct: 239 HELE 242 >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 = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 55/229 (24%), Positives = 107/229 (46%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 RV K+I A + +R+ ++R + + +NG +++ ++V V D + G + + Sbjct: 1 MRVDKMIGNANLDTRKNIKRNAKKGELIINGQIVKDSSVKVDPNLDEVIYMGELVDYFDN 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + + + ++ DG + + + GRLD +T GLLLL+ DG Sbjct: 61 IYIMMNKREGLI-CQSNELDGTVMSDLDEFYLNLDLAIAGRLDKDTTGLLLLSTDGKFIH 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + P++ + Y V ++D + + K G+ I+ Y LD G A+V V Sbjct: 120 KVISPNSHIWKKYEVETSKKIDPSLVEIFKDGVYIKEDDYYARSAKLDIIGGKKAYVYVT 179 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 EGK +K++F + +V +L R++ G +L +L G RE+ ++ Sbjct: 180 --EGKFHLVKRLFSNNDNEVIKLKRLAIGDLELDQSLNPGQYRELIEEE 226 >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 = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 63/225 (28%), Positives = 95/225 (42%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 RV +A G+ SRR E +I ++ VKVN + + V D I + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAK-LGDKVALGDRIIYKKQIFVFKDFQI 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L L + + + P RV S+GRLD + GLLL TNDG Sbjct: 67 NNRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGK 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 127 FANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA---- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 121 bits (303), Expect = 2e-25, Method: Composition-based stats. Identities = 53/235 (22%), Positives = 93/235 (39%), Gaps = 7/235 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLRKA 70 R+ +++A G SRRE++ + + ++G L A + + + V GV L Sbjct: 8 RLDRLLANLGYGSRREIQALARAGAIILDGARLRAADERIPVTRDLPERLTVGGVALDPP 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L L+ + + + + +VGRLD T GLLLLT+DG Sbjct: 68 PGLVLMLHKPTGVTCSHKEAGPLVYGLLPERWRRRDPPLSTVGRLDKETSGLLLLTDDGA 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + + YRV + D+ L G ++ + +G Sbjct: 128 LLHRIISPKAKVAKRYRVELARPLAGDEGALFASGTLMLEGEDKPLLPVELVAEGP-TRA 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 +V L EG+ +++++F V L R G L L G+ R + + L + Sbjct: 187 SVTLTEGRYHQVRRMFAAVGNHVTALHRDRVGRLDLPADLAPGAYRILGEAELAQ 241 >gi|285019273|ref|YP_003376984.1| pseudouridylate synthase [Xanthomonas albilineans GPE PC73] gi|283474491|emb|CBA16992.1| putative pseudouridylate synthase protein [Xanthomonas albilineans] Length = 236 Score = 121 bits (302), Expect = 2e-25, Method: Composition-based stats. Identities = 43/237 (18%), Positives = 84/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-------STDHIEVD 63 P R+ K +A SR E ++ I V V+GI++E N+ + VD Sbjct: 2 SAPVRLDKYLAAMLHCSRGEAQQYIEGGWVSVDGIVVEEPQANITTQHVTLAPDAQLGVD 61 Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 + + + L + + T L F + L+ GLL+ Sbjct: 62 DAATLLLHKPIGLTAAQALALASPATRSRLDPTDRRMLKRHFLHLSMPLPLEQEASGLLV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ D + R L + + + V+ G + L+ L G+ +V+ + Sbjct: 122 LSQDRRVLRRLNEDAATIEQEFVVQVRGDLLPYGLHRLAHGLRHGSRTLPPCKVSWQNED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + +++ + ++ + +V L R+ G LG L +G R + Sbjct: 182 R----LRFAIKQVQPGQLHDMCAQVGLEVIGLRRLRIGRIALGKLASGEWRYLPNSE 234 >gi|218192109|gb|EEC74536.1| hypothetical protein OsI_10056 [Oryza sativa Indica Group] Length = 279 Score = 121 bits (302), Expect = 2e-25, Method: Composition-based stats. Identities = 58/234 (24%), Positives = 97/234 (41%), Gaps = 14/234 (5%) Query: 29 REVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAERTRLWL--YHKPIGLV 85 R E +I Q +V VNG + V S D I V+G + K +L+ + Sbjct: 46 RTCEELIFQGKVTVNGSVCTAPQTKVDISKDSIYVNGNRISKKLPPKLYFAVNKPKGYIC 105 Query: 86 TTHSDPDGRSTVFDNLPSIFSRV--------ISVGRLDINTEGLLLLTNDGGLARVLELP 137 + S D L +VGRLD+ T GL+++TNDG A+ L P Sbjct: 106 SCGERKSIISLFDDYLKGWNKIQPGVPKPRLFTVGRLDVATSGLIIITNDGEFAQKLSHP 165 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLRE 195 S+ ++ Y V G V ++ L + +G I G+ + + + + E Sbjct: 166 SSNIMKEYVVTIDGPVHRNHLIAISEGTKIDGVKCIPDLVEPLDVQSNTKRTRIRIAVHE 225 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPH 248 G+N E++++ + +V L R+ G F+L L G E+ + L+ G Sbjct: 226 GRNHEVRELVQNAGLEVYALKRVRIGRFRLPPDLGIGKFVELKQTDLKSLEGKK 279 >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 = 121 bits (302), Expect = 2e-25, Method: Composition-based stats. Identities = 46/225 (20%), Positives = 93/225 (41%), Gaps = 2/225 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV ++ G +R E ++ + + +N + ++ D I+++G L Sbjct: 7 RVDAHLSSLGYCTRSEAKKFLRMNEICINDNRVYNTSIKAYHDD-IKINGEVLDDETLLI 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + S S + ++ ++GRLDI+T G++LLT+DG L L Sbjct: 66 LLNKPQGYICSHNDSGKLIYSLLPQRYNRRNPKISTIGRLDIDTTGVILLTDDGVLNHKL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++Y + D++ + G ++ + + +V + + Sbjct: 126 TSPKKDISKIYEATLEKPLKGDEVEIFASGTLMLNGEEKPLLPAKLEI-ITPTFVKIEIV 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 EGK ++K++F + KV +L R + F+L L G + + K Sbjct: 185 EGKYHQVKRMFAAVSNKVIKLHRTKFADFELEDLKEGEFKIIKSK 229 >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 = 121 bits (302), Expect = 3e-25, Method: Composition-based stats. Identities = 94/298 (31%), Positives = 143/298 (47%), Gaps = 33/298 (11%) Query: 10 NFTPQRVSKVIA---RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH----IEV 62 + R+SKV++ + SRRE ERMI V + G +L + + D ++V Sbjct: 33 STDTVRLSKVLSLHTENLVISRREAERMIRSGDVTLAGNVLTSPMMMLKEEDLNDGALKV 92 Query: 63 DGVPLRKA---------------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS---- 103 +G + +TR+W+ HK G + +DP R ++ L Sbjct: 93 NGKVVNLRSSKGPRSVAGEENSVHKTRVWIAHKLPGEIVADNDPYDRPSLLQRLIRGGVG 152 Query: 104 ----IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + SVGRLD+NTEGL+L+TNDG AR +ELPS + R YRVR HG + KL Sbjct: 153 KVGKTRLHLKSVGRLDMNTEGLILVTNDGKYAREMELPSNKLHRTYRVRVHGLLTDHKLA 212 Query: 160 LLKKGIVIQGICYGDMQVTLD---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 ++KG+ ++GI Y M++ + + +N W+ V EGKNR+I+ VF++ V RLI Sbjct: 213 RIRKGVTVEGIRYPPMRIIPESTRQSQSTNKWLKVTCTEGKNRQIRNVFKYLGLTVTRLI 272 Query: 217 RISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI 274 RISYG ++L T+ G EV K + Q L +E+ + Sbjct: 273 RISYGDYRLQTIPPGMAIEVPAKHIENQKHRGRLIRPTKPAPKRSDEAESSKAVQWVR 330 >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 = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 48/245 (19%), Positives = 87/245 (35%), Gaps = 17/245 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNG------ILLERAAVNVMST-DHIEVDGV 65 ++ ++ G RR ++ Q V++ + + V V GV Sbjct: 2 SMQLQDMLYSQGFGIRRVCSGLVQQGWVELWNPQTSDWEKILDSTQQVDPGGLRFRVQGV 61 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINT 118 E + L + V +VGRLD +T Sbjct: 62 EWEYHELGYVLLNKPAGTECSQKPSAYPSIYTLLPAPLRQRPNKGAVQGVQAVGRLDQDT 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 G+LLL++DG + P +VYRV VD ++ L G+V+ ++ Sbjct: 122 TGMLLLSDDGQFIHRMSSPKKHVSKVYRVTCKHPVDAKQIQRLLDGVVLDDDP-KPVK-A 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 ++ + + + L EGK ++K++ + +V L R G +L L G R ++ Sbjct: 180 AACEQVDSHVLDLTLTEGKYHQVKRMIAAVSNRVEGLHRRRIGGMELPAELEPGQWRWLT 239 Query: 238 KKILR 242 L Sbjct: 240 ADELE 244 >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 = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 63/225 (28%), Positives = 95/225 (42%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 RV +A G+ SRR E +I ++ VKVN + + V D I + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAK-LGDKVALGDRIIYKKQIFVFKDFQI 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L L + + + P RV S+GRLD + GLLL TNDG Sbjct: 67 NNRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGK 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 127 FANDIIHPRKKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA---- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 60/251 (23%), Positives = 98/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE------------ 61 R+SK ++ G+ SRRE + I + V V+G ++ V IE Sbjct: 295 MRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPDQKIEIDDQAIAAQAAQ 354 Query: 62 ---VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + P+ Y + L+T + G + P + GRLDI++ Sbjct: 355 VTILLHKPVGYVSGQAEDGYEPAVTLITRENHWSGDRSALRLSPLHLRTLAPAGRLDIDS 414 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +A+ L + + Y VR + 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 VPLKPAMVSWQNSEQ----LRFVLREGKKRQIRRMCELVGLEVVGLKRVRMGRVMLGALP 530 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 531 QGQWRYLGADE 541 Score = 42.5 bits (98), Expect = 0.097, Method: Composition-based stats. Identities = 10/105 (9%), Positives = 20/105 (19%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + A +++ + D + ++G + P Sbjct: 39 GAPKPKSKPSAKGAAPRAAKPAGAGAVKPRAPREADRPSRSEARPARDGERPFRSEGRPA 98 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 S R P+ R R Sbjct: 99 RDGERPVRSGARPPRDGERPFRSEGRPARDGERPARNGARPPRDG 143 Score = 40.9 bits (94), Expect = 0.29, Method: Composition-based stats. Identities = 11/107 (10%), Positives = 21/107 (19%), Gaps = 1/107 (0%) Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + P EA + + R + D ++ + + + Sbjct: 65 VKPRAPREADRPSRSEARPARDGERPFRSEGRPARDGERPVRSGARPPRDGERPFRSEGR 124 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSG-QREENHRRSPSFPSKRSLRRT 350 R A+ R P R R Sbjct: 125 PARDGERPARNGARPPRDGERPFRSEGRPARDGERPVRSGARPPRDG 171 Score = 39.4 bits (90), Expect = 0.76, Method: Composition-based stats. Identities = 13/109 (11%), Positives = 19/109 (17%), Gaps = 1/109 (0%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + P E V A + + R ++G + Sbjct: 92 RSEGRPARDGERPVRSGARPPRDGERPFRSEGRPARDGERPARNGARPP-RDGERPFRSE 150 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 P S R P R R Sbjct: 151 GRPARDGERPVRSGARPPRDGERPFRSEGRPARDGERPVRSGARPPRDG 199 Score = 39.4 bits (90), Expect = 0.83, Method: Composition-based stats. Identities = 10/118 (8%), Positives = 20/118 (16%), Gaps = 1/118 (0%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 R + G + + + + R + D + Sbjct: 124 RPARDGERPARNGARPPRDGERPFRSEGRPARDGERPVRSGARPPRDGERPFRSEGRPAR 183 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSG-QREENHRRSPSFPSKRSLRRT 350 + + R + G R P R R Sbjct: 184 DGERPVRSGARPPRDGERPFRSEGRPARDGERPLRGTARPVRDGERPVRAGTRPPRDG 241 Score = 39.0 bits (89), Expect = 1.0, Method: Composition-based stats. Identities = 11/106 (10%), Positives = 19/106 (17%), Gaps = 1/106 (0%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + + + + R N D + + + Sbjct: 108 GARPPRDGERPFRSEGRPARDGERPARNGARPPRDGERPFRSEGRPARDGERPVRSGARP 167 Query: 306 HRRNLASNVWMAKGIHSSFLS-DSGQREENHRRSPSFPSKRSLRRT 350 R + SG R P R R Sbjct: 168 PRDGERPFRSEGRPARDGERPVRSGARPPRDGERPFRSEGRPARDG 213 Score = 39.0 bits (89), Expect = 1.1, Method: Composition-based stats. Identities = 13/105 (12%), Positives = 21/105 (20%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P + A P E R + + ++G + A P Sbjct: 53 APRAAKPAGAGAVKPRAPREADRPSRSEARPARDGERPFRSEGRPARDGERPVRSGARPP 112 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + +G R P R R Sbjct: 113 RDGERPFRSEGRPARDGERPARNGARPPRDGERPFRSEGRPARDG 157 Score = 37.9 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 12/109 (11%), Positives = 20/109 (18%), Gaps = 1/109 (0%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + P E A + + R ++G + Sbjct: 120 RSEGRPARDGERPARNGARPPRDGERPFRSEGRPARDGERPVRSGARPP-RDGERPFRSE 178 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 P S R P + R +R Sbjct: 179 GRPARDGERPVRSGARPPRDGERPFRSEGRPARDGERPLRGTARPVRDG 227 Score = 37.9 bits (86), Expect = 2.8, Method: Composition-based stats. Identities = 11/110 (10%), Positives = 25/110 (22%), Gaps = 1/110 (0%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR-MKKNSSQKNGLSKQKKLATP 304 G + + + + R + D + ++G + A P Sbjct: 164 GARPPRDGERPFRSEGRPARDGERPVRSGARPPRDGERPFRSEGRPARDGERPLRGTARP 223 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 V S R P+ + + R + + Sbjct: 224 VRDGERPVRAGTRPPRDGDRPSRVESRPARDTDRPARKPRVTTERPAPSR 273 Score = 35.9 bits (81), Expect = 9.6, Method: Composition-based stats. Identities = 9/107 (8%), Positives = 20/107 (18%), Gaps = 1/107 (0%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK-LATP 304 G + + R + V + + + P Sbjct: 157 GERPVRSGARPPRDGERPFRSEGRPARDGERPVRSGARPPRDGERPFRSEGRPARDGERP 216 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 + + G R P+ + R R+ Sbjct: 217 LRGTARPVRDGERPVRAGTRPPRDGDRPSRVESRPARDTDRPARKPR 263 >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 = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 64/225 (28%), Positives = 95/225 (42%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 RV +A G+ SRR E +I ++ VKVN + + V D I + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVKVNNTIAK-LGDKVALGDRIIYKKQIFVFKDFQI 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L L + R + P RV S+GRLD + GLLL TNDG Sbjct: 67 NNRIYLALNKPRNYLCSNFDINGRRLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGK 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 127 FANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA---- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 RLILDEGKNREIRKVFLTKNIFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 52/223 (23%), Positives = 89/223 (39%), Gaps = 2/223 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV ++ G +R E +R + V V + V I V+G L Sbjct: 7 RVDAHLSSLGYCTRSEAKRFLTTNNVSVYNERIFDVTKKVH-HSEIRVNGELLDAERLVI 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + + S S + +V ++GRLDI+T G +LL++DG L L Sbjct: 66 LMNKPHGVVCSHSDSGVLIYSLLPPRWQRRNPKVSTIGRLDIDTTGAILLSDDGALNHKL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++ ++Y V + D+ + G ++ + G V V + Sbjct: 126 TSPKSEVTKIYEVTLAQALRGDEAEIFASGELLLNGEKKPLLPAKMEVIGPIH-VRVEIC 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EG+ ++K++F +V L R S+G F + L RE+S Sbjct: 185 EGRYHQVKRMFASVGNRVTALHRASFGDFSVEDLKPSEFREIS 227 >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 = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 50/221 (22%), Positives = 89/221 (40%), Gaps = 4/221 (1%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLWL 77 ++ G SRR+ ++ RV ++GI+L+ A + + D H +VDG + L L Sbjct: 6 ILYSQGFGSRRQCRALVEAGRVSIDGIVLDDADADFATDDLHFDVDGTRWPYRAQAYLVL 65 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + V VGRLD +T GLLLL++DG P Sbjct: 66 NKPAGYECSRDPQHHLSVFSLLPPQFGARGVQCVGRLDQDTTGLLLLSDDGQFVHAYTSP 125 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + + Y +D +L L++G+++ G + + + + + + EGK Sbjct: 126 KKKVPKTYLAEVKHALDDRQLAALREGVLLHGEP-KPIAAVAARARELRS-LELTVLEGK 183 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 ++K++ +V L R G + L L G R + Sbjct: 184 YHQVKRMVAASGNRVEALHRERVGGYTLPADLAPGGWRWLD 224 >gi|145355123|ref|XP_001421818.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144582057|gb|ABP00112.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 238 Score = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 58/239 (24%), Positives = 92/239 (38%), Gaps = 26/239 (10%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER--------------- 72 RRE + ++ RV VNG L+ + V + D + +DG + Sbjct: 1 RREADAAVSAGRVLVNGELVR-PSQRVKAGDVVTLDGKVMLWEAYARRVEEEIANDATSS 59 Query: 73 -TRLWLYHKPIGLVTTHSDPD---GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L + T + + R+ VGRLD ++ GL+LLTNDG Sbjct: 60 FVYLLYNKPRGVVCTMEPHQRTSLHFALERERARMKKIRIFPVGRLDKDSSGLVLLTNDG 119 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ------GICYGDMQVTLDTQ 182 ++ L PS + + Y V V + L G+VI + + Sbjct: 120 RVSDALLDPSRKAEKEYDVDVDRDVSAADVERLAAGVVITTLQQRTMTETTAPTQPCEVR 179 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 K + L+EG+NR+I+K+ E ++ V RL R +LG L G R + L Sbjct: 180 KIGPRTLRFVLKEGRNRQIRKMCEALSYDVTRLHRTRIAELELGDLEIGGLRPLDVDEL 238 >gi|312148012|gb|ADQ30671.1| hypothetical RNA pseudouridine synthase [Borrelia burgdorferi JD1] Length = 249 Score = 120 bits (300), Expect = 3e-25, Method: Composition-based stats. Identities = 62/225 (27%), Positives = 95/225 (42%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 RV +A G+ SRR E +I ++ V+VN + + V D I + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLVRVNNTIAK-LGDKVALGDRIIYKKQIFVFKDFQI 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L L + + + P RV S+GRLD + GLLL TNDG Sbjct: 67 NNRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGK 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 127 FANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA---- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVK 227 >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 = 120 bits (300), Expect = 3e-25, Method: Composition-based stats. Identities = 51/243 (20%), Positives = 89/243 (36%), Gaps = 17/243 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-------EVDGVP 66 ++ ++ G RR ++ Q V++ + ST I V GV Sbjct: 3 MQLQDILYSQGFGIRRVCSGLVQQGWVELWDTEANDWVRCLDSTQDIDPEGLRYRVQGVE 62 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-------SVGRLDINTE 119 + L+ + LP +VGRLD +T Sbjct: 63 WAYHALGYVLLHKPAGTECSQKPSTYPSIYSLLPLPLRLRPNKGAVQGVQAVGRLDQDTT 122 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLLL++DG + P ++YRV VD ++ L G+V+ ++ Sbjct: 123 GLLLLSDDGQFIHRMSSPKKHVPKIYRVTTKHPVDASQVQRLLDGVVLDDDP-KPVK-AA 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 ++ S + + L EGK ++K++ +V L R G +L L G R ++ Sbjct: 181 ACEQVSEHVLDLTLTEGKYHQVKRMIAAVGNRVEGLHRWKIGELELTEDLQPGQWRWLTA 240 Query: 239 KIL 241 + L Sbjct: 241 EDL 243 >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 = 120 bits (300), Expect = 4e-25, Method: Composition-based stats. Identities = 56/239 (23%), Positives = 101/239 (42%), Gaps = 11/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K+IA G SR++V+ M + RV +G +L A V + + VDG PL Sbjct: 1 MKLVKLIANLGYGSRKQVQWMFREGRVTDADGEVLY-ADDQV-PHEAVRVDGEPLDPPVG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ + + + +VGRLD +T GLLLLT+DGGL Sbjct: 59 LSIALHKPAGYTCSTKDKGRLIYDLLPPRYRDRDPVLSTVGRLDRDTSGLLLLTDDGGLL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICY--GDMQVTLDTQKGSNAW 188 + P ++ +VY V + D++ L ++++ ++ + + + Sbjct: 119 HRIISPKSKLPKVYEVELSDDLRGDEVALFASGTLMLESEKTPLLPAELEVLDARRA--- 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L EG+ +++++F V L R G L L G R+++ L P Sbjct: 176 -RLVLHEGRYHQVRRMFAATGNHVQALHRSRVGGLDLQGLDEGQWRQLTPTDLDTLFAP 233 >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 = 120 bits (300), Expect = 4e-25, Method: Composition-based stats. Identities = 61/225 (27%), Positives = 95/225 (42%), Gaps = 10/225 (4%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL-----RK 69 RV +A G+ SRR E +I ++ ++VN + + V D I + Sbjct: 8 RVHVFLAEKGVGSRRFCEELIRKKLIRVNNTIAK-LGDKVTLGDRIIYKKQIFVFKDFQI 66 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L L + + + P RV S+GRLD + GLLL TNDG Sbjct: 67 NNRIYLALNKPRNYLCSNFDVDGRKLAISLVQPLFKERVFSIGRLDFKSSGLLLFTNDGK 126 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + P + R Y + +D++ L K GI ++ + + + + Sbjct: 127 FANDIIHPRQKVEREYIIESKKDIDENLLISFKSGIKVKKEFFKLKSYEILNKNSA---- 182 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + L EGKNREI+KVF N + ++ RI G L +L G + Sbjct: 183 RLILDEGKNREIRKVFLSKNIFLKKIHRIRIGNINLDSLKEGQVK 227 >gi|293363560|ref|ZP_06610316.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] gi|292552909|gb|EFF41663.1| pseudouridylate synthase [Mycoplasma alligatoris A21JP2] Length = 230 Score = 119 bits (299), Expect = 4e-25, Method: Composition-based stats. Identities = 49/234 (20%), Positives = 102/234 (43%), Gaps = 14/234 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST----DHIEVDGVPLRK 69 ++ K I+ +R ++++++ +++V +N L+ ++N D I + Sbjct: 1 MKLEKFISNVTDLTRSQIKKLLKEKKVFINDNLVTSDSINFKVEKLVIDQIAYN------ 54 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + +KP +T+H D S + +I+ GRLD++TEGLLL+++D Sbjct: 55 TDEYVYIMLNKPQNYITSHKDELYPSLFNLVSDAKRKNLIAYGRLDVDTEGLLLISDDTE 114 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + L P + Y V ++ + + G +I + L + Sbjct: 115 SSHKLLSPKHHVEKKYYVEVDKKIPTSLVEIFLNGFII-DKNDKVLPSKLLIISDNKC-- 171 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + ++EGK ++K++F+ V L RI + +L L G R ++KK + Sbjct: 172 YLTIKEGKFHQVKRMFKTHYLNVTFLKRIEFNNLKLDETLKPGQWRYLTKKEVE 225 >gi|224008973|ref|XP_002293445.1| pseudouridylate synthase [Thalassiosira pseudonana CCMP1335] gi|220970845|gb|EED89181.1| pseudouridylate synthase [Thalassiosira pseudonana CCMP1335] Length = 253 Score = 119 bits (299), Expect = 5e-25, Method: Composition-based stats. Identities = 61/262 (23%), Positives = 112/262 (42%), Gaps = 21/262 (8%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +KN+ F P R++KV + SRR+ ++++A R+ +N + A V + Sbjct: 3 VSNKNV---TFQPIRINKVFKKT--HSRRQADQLVADGRITINDEPVHSAGQRVSNGGA- 56 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDIN 117 + Y KP+G+ T + + SR+ VGRLD Sbjct: 57 ----NSESSTQVFEYIKYWKPLGVTCTTDRRIYDNLIDALQQDGCRPKSRIFPVGRLDKE 112 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 T G++L+T+DG L + + Y V+ + V D + L++G+ + +V Sbjct: 113 TSGIILMTSDGRLPNAALRGKYKHPKTYVVKANRPVANDDIKRLREGVPLT-APTLPCKV 171 Query: 178 TLDTQKG---SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGST 233 S+ ++ + L EG+NR+I+K+ E ++V L R S+ L L G Sbjct: 172 KAVQLSTLDLSSRYLEITLVEGRNRQIRKMLEAIGYRVMELHRKSFMNLTLENLEGEGDW 231 Query: 234 REVSKKI---LREQLGPHLLEE 252 ++ + +RE L E+ Sbjct: 232 AHLTNREMEIVREVLDRAEQED 253 >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 = 119 bits (299), Expect = 5e-25, Method: Composition-based stats. Identities = 55/231 (23%), Positives = 102/231 (44%), Gaps = 9/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K IA SR EV+ + ++ +KVNG++L + + + D +E+D L+ + Sbjct: 4 IRIEKYIADLTNLSRNEVKNKLKKKAIKVNGVILTKL-IKIDPEKDVVELDNGILKYEKF 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T+FD + + S GRLD +TEGLL+L+NDG + Sbjct: 63 QYYMFNKPANFICANSDSEEA--TIFDIVGLPAEKFFSFGRLDKDTEGLLILSNDGQMCH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ ++D + L + + + + + Sbjct: 121 RLLSPKNHVPKKYYVKVDKKIDSEILLNNSPIKINDDFV---VSKYILELIDDKSCF-LT 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + EGK +IK++F + V L R+ +G +L L G R++S+ ++ Sbjct: 177 IYEGKFHQIKRMFGSLGFSVLYLKRVEFGKLKLDNNLKLGQVRKLSEDEVK 227 >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 = 119 bits (299), Expect = 5e-25, Method: Composition-based stats. Identities = 56/249 (22%), Positives = 92/249 (36%), Gaps = 18/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKV---NGILL----ERAAVN-VMSTDHIEVDGV 65 ++ ++ G +RR MI Q V V N L +AA + + V GV Sbjct: 1 MQLQDILYSQGFGTRRVCAGMIQQGLVGVYESNQALAPVIYTQAATEFIAEGLRLRVQGV 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-------SVGRLDINT 118 E+ + L+ + +VGRLD +T Sbjct: 61 DWPYHEKAYVMLHKPSATECSQKPSTYPSVYTLLPSALRLRPQKGAVQGVQAVGRLDQDT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLT+DG + P +VY V +D ++ L G+V+ ++ Sbjct: 121 TGLLLLTDDGQFIHRMNSPRHHVPKVYEVTVKHPLDDTQVARLLAGVVLDDDP-KPVRAA 179 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + S+ + + L EGK ++K++ + +V L R G +L L G R +S Sbjct: 180 AA-EAVSSHHLRLTLTEGKYHQVKRMVAAVSNRVEALHRSQIGGLRLPDDLAPGQWRWLS 238 Query: 238 KKILREQLG 246 L G Sbjct: 239 AADLASIAG 247 >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 = 119 bits (299), Expect = 6e-25, Method: Composition-based stats. Identities = 57/239 (23%), Positives = 101/239 (42%), Gaps = 11/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K+IA G SR++V+ M + RV +G +L A V + I VDG PL Sbjct: 1 MKLVKLIANLGYGSRKQVQWMFREGRVTDADGEVLY-ADDQV-PHEAIRVDGEPLDPPVG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ + + + + +VGRLD T GLLLLT+DGGL Sbjct: 59 LSIALHKPAGYTCSTKDTGRLIYDLLPPRFRDRDPVLSTVGRLDRETSGLLLLTDDGGLL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICY--GDMQVTLDTQKGSNAW 188 + P ++ +VY V + D++ L ++++ ++ + + + Sbjct: 119 HRIISPKSKLPKVYEVELSDDLRGDEVALFASGTLMLESEKTPLLPAELEVLDARRA--- 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L EG+ +++++F V L R G L L G R+++ L P Sbjct: 176 -RLVLHEGRYHQVRRMFAATGNHVQALHRSRVGGLDLQGLDEGQWRQLTSTDLDTLFAP 233 >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 = 119 bits (298), Expect = 6e-25, Method: Composition-based stats. Identities = 45/223 (20%), Positives = 93/223 (41%), Gaps = 2/223 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 RV ++ G +R E ++ + + +N + ++ D I+++G L Sbjct: 7 RVDAHLSSLGYCTRSEAKKFLRMNEICINDNRVYNTSIKAYHDD-IKINGEVLDDETLLI 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + S S + ++ ++GRLDI+T G++LLT+DG L+ L Sbjct: 66 LLNKPQGYICSHNDSGKLIYSLLPQRYSRRNPKISTIGRLDIDTTGVILLTDDGVLSHRL 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P ++Y + D++ + G ++ + + +V + + Sbjct: 126 TSPKKDISKIYEATLEKPLKGDEVEIFASGTLMLNGEEKPLLPAKLEI-ITPTFVKIEIV 184 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 EGK ++K++F + KV +L R + F+L L G + + Sbjct: 185 EGKYHQVKRMFAAVSNKVIKLHRTKFADFELEDLKEGEFKIIK 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 = 119 bits (298), Expect = 6e-25, Method: Composition-based stats. Identities = 56/243 (23%), Positives = 101/243 (41%), Gaps = 9/243 (3%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLW 76 ++++ G R+EV ++AQ R+ ++G + V + +D L+ + + Sbjct: 2 DRLVSERGGVHRKEVRLLLAQGRIHIDGRPADSINQAVGPFTRVTLDARVLQANKARYVM 61 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 L+ +V+ D ++ + S + VGRLD N+ GL+LLTNDG +R L Sbjct: 62 LHKPSG-VVSATRDKQHKTVIDLLSVPYSSELHIVGRLDFNSTGLMLLTNDGRWSRSLSD 120 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLK--KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + YRV +D + +G+ ++ + V L Sbjct: 121 PQNNIAKTYRVLLEKALDDSYVKAFADGMYFDFEGVTTRPAELRIL----GQYEAEVDLI 176 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEEA 253 EG+ +IK++F F+ +V L R S G + G RE++ L + LG + Sbjct: 177 EGRYHQIKRMFGRFDNRVKALHRTSVGSLSMAAGPALGQWRELTLSEL-DLLGLEHCCLS 235 Query: 254 QVN 256 Sbjct: 236 PTE 238 >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 = 119 bits (298), Expect = 6e-25, Method: Composition-based stats. Identities = 62/251 (24%), Positives = 100/251 (39%), Gaps = 28/251 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G ++ V +IE+D Sbjct: 488 VRLSKRMSELGLCSRREADEWIEKGWVLVDGERIDTLGTKVRPEQNIEIDQRAQAAQAAQ 547 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y + L+T + G + P + GRLDI++ Sbjct: 548 VTILLHKPVGYVSGQAEDGYEPAVTLITRENHWSGDHSALRFSPQHLRTLAPAGRLDIDS 607 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVR---------FHGQVDQDKLNLLKKGIVIQG 169 GLL+LT DG +A+ L + + Y VR + L L+ G+ + G Sbjct: 608 TGLLVLTQDGRIAKQLIGEQSDIDKEYLVRVRFGERLTDIDQHFPAESLAKLRHGLELDG 667 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V+ + + LREGK R+I+++ E +V L R+ G LG L Sbjct: 668 APLKPAMVSWQNGEQ----LRFVLREGKKRQIRRMCELVGLEVIGLKRVRMGHVMLGALP 723 Query: 230 AGSTREVSKKI 240 G R +S Sbjct: 724 QGEWRYLSPDE 734 Score = 41.3 bits (95), Expect = 0.20, Method: Composition-based stats. Identities = 12/106 (11%), Positives = 27/106 (25%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + P + +P ++ P +++ G K A Sbjct: 18 APVRSGSLAGRKPTRPAPLDPATKPKPSAKRPAGAKSAAPRAAKPAGAGAVKPRAPRDGE 77 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R G + R+ + P+ +R R + Sbjct: 78 RGGFGRPPREGGDRPARDGARFSRDGDRPARPARDGERGAFRGEGR 123 Score = 37.9 bits (86), Expect = 2.7, Method: Composition-based stats. Identities = 11/109 (10%), Positives = 20/109 (18%), Gaps = 2/109 (1%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + G RD P + + Sbjct: 47 KRPAGAKSAAPRAAKPAGAGAVKPRAPRDGERGGFGRPPREGGDRPARDGARFSRDGDRP 106 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDS--GQREENHRRSPSFPSKRSLR 348 A P + + + G R P+ P++ R Sbjct: 107 ARPARDGERGAFRGEGRPARTGGDRPPRDGARFSRDGDRPARPARDGER 155 Score = 37.5 bits (85), Expect = 3.0, Method: Composition-based stats. Identities = 12/111 (10%), Positives = 19/111 (17%), Gaps = 2/111 (1%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P + R D + ++ A Sbjct: 61 KPAGAGAVKPRAPRDGERGGFGRPPREGGDRPARDGARFSRDGDRPARPARDGERGAFRG 120 Query: 306 HRRNLASNVWMAK--GIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 R + G S D R SF + R + Sbjct: 121 EGRPARTGGDRPPRDGARFSRDGDRPARPARDGERGSFRGEGRPAREGGDR 171 Score = 37.5 bits (85), Expect = 3.0, Method: Composition-based stats. Identities = 9/105 (8%), Positives = 18/105 (17%) Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 + + + E + + ++ R Sbjct: 145 RPARPARDGERGSFRGEGRPAREGGDRPPRDGARFSRDGDRPARPARDGERGSFRGEGRP 204 Query: 309 NLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 G S D R SF + R + Sbjct: 205 ARDGERPPRDGARFSRDGDRPARPARDSERGSFRGEGRPTRDGER 249 Score = 37.5 bits (85), Expect = 3.1, Method: Composition-based stats. Identities = 11/111 (9%), Positives = 24/111 (21%), Gaps = 6/111 (5%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 L P + A S+ + P ++ + + A Sbjct: 34 APLDPATKPKPSAKRPAGAKSAAPRAAKPAGAGAVKPRAPRDGERGGFGRPPREGGDRPA 93 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + + + G+ P+ R A+ Sbjct: 94 RDGARFSRDGDRPARPARDGERGAFRGEG------RPARTGGDRPPRDGAR 138 Score = 37.5 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 10/103 (9%), Positives = 20/103 (19%) Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + + RP + + K + + Sbjct: 29 KPTRPAPLDPATKPKPSAKRPAGAKSAAPRAAKPAGAGAVKPRAPRDGERGGFGRPPREG 88 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + G S D R +F + RT + Sbjct: 89 GDRPARDGARFSRDGDRPARPARDGERGAFRGEGRPARTGGDR 131 Score = 37.5 bits (85), Expect = 3.6, Method: Composition-based stats. Identities = 14/102 (13%), Positives = 22/102 (21%), Gaps = 1/102 (0%) Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASN 313 + D S R + D + ++ A R Sbjct: 344 RPARDGERGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGERSAFRGEGRPTRDG 403 Query: 314 VWMAK-GIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + G S D R SF + R S + Sbjct: 404 ERPPRDGARFSRDGDRPARPARDGERGSFRGEGRPARDSGNR 445 Score = 36.7 bits (83), Expect = 6.0, Method: Composition-based stats. Identities = 14/123 (11%), Positives = 22/123 (17%), Gaps = 3/123 (2%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 RE + R+ + RP E P + Sbjct: 166 REGGDRPPRDGARFSRDGDRPARPARDGERGSFRGEGRPARDGERPPRDGARFSRDGDRP 225 Query: 294 GLSKQKKLATPVHRRNLASNVWMAK---GIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + G S D R SF + R Sbjct: 226 ARPARDSERGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGERGSFRGEGRPTRD 285 Query: 351 SAK 353 + Sbjct: 286 GER 288 Score = 36.7 bits (83), Expect = 6.0, Method: Composition-based stats. Identities = 11/115 (9%), Positives = 19/115 (16%), Gaps = 3/115 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+ + RP E P + + Sbjct: 291 RDGARFSRDGDRPARPARDGERGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGE 350 Query: 302 ATPVHRRNLASNVWMAK---GIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + G S D R +F + R + Sbjct: 351 RGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGERSAFRGEGRPTRDGER 405 Score = 36.3 bits (82), Expect = 7.1, Method: Composition-based stats. Identities = 11/112 (9%), Positives = 18/112 (16%), Gaps = 2/112 (1%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+ P + ++G + Sbjct: 101 RDGDRPARPARDGERGAFRGEGRPARTGGDRPPRDGARFSRDGDRPARPARDGERGSFRG 160 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R G S D R SF + R + Sbjct: 161 EGRPAREGGDRPPRD--GARFSRDGDRPARPARDGERGSFRGEGRPARDGER 210 Score = 35.9 bits (81), Expect = 8.5, Method: Composition-based stats. Identities = 12/115 (10%), Positives = 19/115 (16%), Gaps = 3/115 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+ + RP E P + + Sbjct: 252 RDGARFSRDGDRPARPARDGERGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGE 311 Query: 302 ATPVHRRNLASNVWMAK---GIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + G S D R SF + R + Sbjct: 312 RGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGERGSFRGEGRPTRDGER 366 Score = 35.9 bits (81), Expect = 8.6, Method: Composition-based stats. Identities = 12/115 (10%), Positives = 19/115 (16%), Gaps = 3/115 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+ + RP E P + + Sbjct: 213 RDGARFSRDGDRPARPARDSERGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGE 272 Query: 302 ATPVHRRNLASNVWMAK---GIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + G S D R SF + R + Sbjct: 273 RGSFRGEGRPTRDGERPPRDGARFSRDGDRPARPARDGERGSFRGEGRPTRDGER 327 Score = 35.9 bits (81), Expect = 8.9, Method: Composition-based stats. Identities = 12/107 (11%), Positives = 25/107 (23%), Gaps = 1/107 (0%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + + P S D R ++ + + + T R Sbjct: 72 APRDGERGGFGRPPREGGDRPARDGARFSRDGDRPARPARDGERGAFRGEGRPARTGGDR 131 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREE-NHRRSPSFPSKRSLRRTSAK 353 + G + + G+R P+ R A+ Sbjct: 132 PPRDGARFSRDGDRPARPARDGERGSFRGEGRPAREGGDRPPRDGAR 178 Score = 35.9 bits (81), Expect = 10.0, Method: Composition-based stats. Identities = 14/107 (13%), Positives = 22/107 (20%), Gaps = 4/107 (3%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS---KQKKLA 302 G RD R + ++G + A Sbjct: 128 GGDRPPRDGARFSRDGDRPARPARDGERGSFRGEGRPAREGGDRPPRDGARFSRDGDRPA 187 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDS-GQREENHRRSPSFPSKRSLR 348 P S + G R P+ P++ S R Sbjct: 188 RPARDGERGSFRGEGRPARDGERPPRDGARFSRDGDRPARPARDSER 234 >gi|171911201|ref|ZP_02926671.1| ribosomal large subunit pseudouridine synthase B [Verrucomicrobium spinosum DSM 4136] Length = 345 Score = 119 bits (297), Expect = 8e-25, Method: Composition-based stats. Identities = 68/317 (21%), Positives = 131/317 (41%), Gaps = 7/317 (2%) Query: 34 MIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 M+ RV +NG + + V +D + VDG +R + + L+ + + + D Sbjct: 1 MVRDGRVILNGKICTNLSTTVTDSDDVVVDGNKVRPHKGVVIVLHKPRGLVCSRRDERDR 60 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 + + LP F + VGRLD +EGLLL+TN G +++ L PS + Y V + Sbjct: 61 DTI-YSLLPEKFHTLHHVGRLDKESEGLLLMTNRGEVSQRLLHPSQGVEKEYEVILETRF 119 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 D + L L KG + + + + + + L++G R+I+ + F ++V Sbjct: 120 DPENLTRLTKGFHTEDGYAKAERAWMI----GDYKIGMVLKQGLKRQIRMMLYFLGYEVK 175 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 RL+R+ G + +L G+ +E+S K + + L L ++ S + Sbjct: 176 RLVRVRIGNLAIKGILEGNWKELSDKDVDKMLLNPLAKDRPKMSKPKTASVRKSLEIHRQ 235 Query: 274 IISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREE 333 ++ T +K + + S ++ R ++ A+G S G+ + Sbjct: 236 KEAKRSSRKTGARKRTGGTSPASGAGAGSSFGGDRGQSAGEGAARGPR--GGSIRGRERD 293 Query: 334 NHRRSPSFPSKRSLRRT 350 + P S R+ Sbjct: 294 GGSKGSRGPKSESGPRS 310 >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 = 119 bits (297), Expect = 8e-25, Method: Composition-based stats. Identities = 51/245 (20%), Positives = 92/245 (37%), Gaps = 21/245 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVN--GI----LLERAAVNVM-STDHIEVDGVP 66 ++ ++ G +RR +I Q RV ++ G + + A ++ + V GV Sbjct: 1 MQLQDILYSQGFGTRRICAGLIQQGRVAIHATGTLEPTICQDATQDIDVEGLVLRVQGVD 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINTE 119 R + L+ + V +VGRLD +T Sbjct: 61 WPYQPRAYVMLHKPAGTECSQKPSAYPSIYTLLPAPLRQRPSKGSVDGVQAVGRLDQDTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV 177 GLLLL++DG + P +VYRV V +++++ L +G+V+ Sbjct: 121 GLLLLSDDGQFIHRMSSPKKHVPKVYRVTAKHPVTKEQIDRLLEGVVLDDDPRPVRAAAC 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 L + + L EGK ++K++ +V L R G L + G R + Sbjct: 181 ALVDA----HVLDLTLTEGKYHQVKRMIAAVGNRVEALHRSHIGRLALPADMQPGEWRWL 236 Query: 237 SKKIL 241 ++ L Sbjct: 237 GEEEL 241 >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 = 119 bits (297), Expect = 8e-25, Method: Composition-based stats. Identities = 43/190 (22%), Positives = 78/190 (41%), Gaps = 4/190 (2%) Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 D + V+ + E L + T+ + + ++ ++ +GRLD+ Sbjct: 2 KDKVSVEDEDVNYQENFYFMLNKPLGYITATYDENFPTVISLLDDETVKDKLFPIGRLDL 61 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYG 173 +TEGLL+LT DG LA L P + Y G V + + +K + Sbjct: 62 DTEGLLILTTDGQLAHRLAHPKWNIEKEYYAIVEGDVSKIDFSPFEKEGIYLKKDKYKTK 121 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGS 232 +V + + + V + + EGK +KK+ E V L R+ G +L L G Sbjct: 122 PFKVKVLSALEEESKVLITVSEGKYHIVKKIMESLGHPVKYLKRVRMGNLKLDENLQPGD 181 Query: 233 TREVSKKILR 242 R ++++ +R Sbjct: 182 YRPLTEEEIR 191 >gi|82523723|emb|CAI78504.1| S4 domain protein [uncultured beta proteobacterium] Length = 240 Score = 119 bits (297), Expect = 9e-25, Method: Composition-based stats. Identities = 54/242 (22%), Positives = 97/242 (40%), Gaps = 17/242 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+SK +A SRRE E++I V+V+G+++E V ++ IE+D Sbjct: 2 TDSIRLSKRVAELRACSRREAEQIITGGWVRVDGVVIEEPQFRV-ASQRIEIDPQADPSQ 60 Query: 71 ERTRLWLYHKPIGLVTTHSD------------PDGRSTVFDNLPSIFSRVISVGRLDINT 118 L HKP G+ + D + T L + F+++ + L+ + Sbjct: 61 IEPVTLLLHKPAGVRISDDDKTALQLLRADSLWEHDGTGISPLKAHFTQLTACVPLEADA 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL++ T D + R L + V G++ + L L KGI G ++V+ Sbjct: 121 SGLVVFTQDWRIVRKLTDDAATLEHEVIVEVSGELIPNGLKRLNKGIPYHGHTPAAIKVS 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + V L+ + +I + E +V + RI G L + G R + + Sbjct: 181 WQNE----TRLRVALKGCQIGQIAHLCEAVGLQVVSMKRIRLGGIPLAKVPPGQWRYMRE 236 Query: 239 KI 240 Sbjct: 237 DE 238 >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 = 118 bits (296), Expect = 1e-24, Method: Composition-based stats. Identities = 48/244 (19%), Positives = 87/244 (35%), Gaps = 17/244 (6%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNG------ILLERAAVNVMS-TDHIEVDGVP 66 ++ ++ G RR ++ Q V++ + + V V GV Sbjct: 1 MQLQDMLYSQGFGIRRVCSGLVQQGWVELWNPQTSDWEKVLDSTQQVDPEGLRFRVQGVE 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINTE 119 E + L + V +VGRLD +T Sbjct: 61 WEYHELGYVLLNKPAGTECSQKPSAYPSIYTLLPAPLRQRPNKGAVQGVQAVGRLDQDTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LLL++DG + P +VYRV VD ++ L G+V+ ++ Sbjct: 121 GMLLLSDDGQFIHRMSSPKKHVSKVYRVTCKHPVDAKQIQRLLDGVVLDDDP-KPVR-AA 178 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSK 238 ++ + + + L EGK ++K++ + +V L R G +L L G R ++ Sbjct: 179 ACEQVDSHVLDLTLTEGKYHQVKRMIAAVSNRVEGLHRRRIGGMELPAELEPGQWRWLTA 238 Query: 239 KILR 242 L Sbjct: 239 DELE 242 >gi|289677286|ref|ZP_06498176.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae pv. syringae FF5] Length = 208 Score = 118 bits (296), Expect = 1e-24, Method: Composition-based stats. Identities = 70/205 (34%), Positives = 96/205 (46%), Gaps = 8/205 (3%) 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 EVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 VDG +++ E R + + T + 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 QVTLDT-QKGSNAWVTVGLREGKNR 199 + +G N W + EG+NR Sbjct: 183 DIQQAPGGEGFNHWYHCVVMEGRNR 207 >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 = 118 bits (296), Expect = 1e-24, Method: Composition-based stats. Identities = 63/255 (24%), Positives = 100/255 (39%), Gaps = 32/255 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I V V+G + + IE+ Sbjct: 331 VRLSKRMSELGLCSRREADEWIPHGWVLVDGKPVTELGSRIRPDAEIEIMQEARSEQGER 390 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L T + +G T P + GRLDI++ Sbjct: 391 VTVLLNKPVGYVSGQAEDGYEPAAVLFTPENQWEGDPTRKRFAPWQRKSLAPAGRLDIDS 450 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------DKLNLLKKGI 165 GLL+LT DG +AR L + + Y VR Q 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 SLDGVPLKPAKVSWQNEEQ----LRFVLREGRKRQIRRMCEQVGLQVVGLKRVRMGRVVL 566 Query: 226 GTLLAGSTREVSKKI 240 G L G R + + Sbjct: 567 GDLPPGKWRFLGQFE 581 Score = 36.3 bits (82), Expect = 7.8, Method: Composition-based stats. Identities = 9/103 (8%), Positives = 18/103 (17%), Gaps = 1/103 (0%) Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 + R S P + G + + R Sbjct: 178 RGEARPRRFEGGEARPPRRFEGGDSRPPRRAGEDNNRPRRFEGAESRPRRVGDDENRPRR 237 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSF-PSKRSLRRTSAK 353 ++ + +R E P R + Sbjct: 238 FEGADSRPRRYGDDENRPRRFEGADSRPRRYGDDDQRPRPAPS 280 >gi|330504052|ref|YP_004380921.1| RNA-binding S4 domain-containing protein [Pseudomonas mendocina NK-01] gi|328918338|gb|AEB59169.1| RNA-binding S4 domain-containing protein [Pseudomonas mendocina NK-01] Length = 245 Score = 118 bits (296), Expect = 1e-24, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE + I V V+G ++E V + G L Sbjct: 11 SEPTRLSKRVIELFGCSRREADLYITGGWVTVDGQVVEAPQFKVKDQRVELLPGASLEPV 70 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L ++ L+ + + L F R L GL++ Sbjct: 71 EPVTLLVHCPAGSNAAQLQHLLARENHWEEDPHAQRILHGHFLRQEQSLPLQHGASGLVI 130 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ D R L + + Y V G++ LKKG+ +G + + + +++ Sbjct: 131 LSQDWRAQRKLREDGAKLEQEYLVDVTGELPASTFERLKKGLAHKGTQFPPCKASWQSEQ 190 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L+ ++++ + +VN + RI G + L G R + K Sbjct: 191 R----LRFALKNPAPDLLQQICKALGLQVNAMKRIRVGGVPMAKLPVGQWRYLGDKE 243 >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 = 118 bits (295), Expect = 1e-24, Method: Composition-based stats. Identities = 62/261 (23%), Positives = 100/261 (38%), Gaps = 32/261 (12%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 E+ R+SK ++ G+ SRRE + I + V V+G + V IE+ Sbjct: 369 TESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVKPDAIIEIHQSAR 428 Query: 64 -----------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P+ Y + L + +G T P + G Sbjct: 429 SEQGERVTVLMHKPVGYVSGQAEDGYQPAVSLFVPENQWEGDPTRKRFAPWQRRALAPAG 488 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLN 159 RLDI++ GLL+LT DG +AR L + + Y VR ++ + Sbjct: 489 RLDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWHSPDGVVEHDISKVFPEELME 548 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 549 KLRFGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLEVVGLKRIR 604 Query: 220 YGPFQLGTLLAGSTREVSKKI 240 G LG L G R + Sbjct: 605 MGSIVLGDLPVGQWRFLGPFE 625 Score = 37.9 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 10/109 (9%), Positives = 25/109 (22%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P ++ + D D+ + ++ Sbjct: 112 KPRRMQGDRPPRRFDDERPPRRFSDEQRSPRRSDDERPPRRFEDRPPRRFDDERPPRRFD 171 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R S +R ++ R +R+ RR ++ Sbjct: 172 NDRPPRRFDDERPPRRFSDDQRPPRRFDDERPRRYGDDQRAPRRDGDQR 220 Score = 37.9 bits (86), Expect = 2.8, Method: Composition-based stats. Identities = 14/119 (11%), Positives = 29/119 (24%), Gaps = 1/119 (0%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G TRE + ++ P ++ + D D R + Sbjct: 106 GQTREAKPRRMQGDRPPRRFDDERPPRRFSDEQRSPRRSDDERPPRRFEDRPPRRFDDER 165 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + R + F + +R + +R+P + R Sbjct: 166 PPRRFDNDRPPRRFDDERPPRRFSDDQRPPR-RFDDERPRRYGDDQRAPRRDGDQRPPR 223 Score = 36.3 bits (82), Expect = 7.7, Method: Composition-based stats. Identities = 10/115 (8%), Positives = 27/115 (23%), Gaps = 3/115 (2%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS---KQK 299 + P + + R DD +++ Q+ ++ Sbjct: 171 DNDRPPRRFDDERPPRRFSDDQRPPRRFDDERPRRYGDDQRAPRRDGDQRPPRRFDEERP 230 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 +R +R ++ +R+ RR ++ Sbjct: 231 PRRFNDEQRPPRRFDEERPPRKFGDDQRPPRRFDDEGPRRYGDDQRAPRRDGDQR 285 >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 = 118 bits (295), Expect = 1e-24, Method: Composition-based stats. Identities = 61/265 (23%), Positives = 110/265 (41%), Gaps = 37/265 (13%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R++K+I+ SRR+ + I VK+N +++ ++ S D I++ G + Sbjct: 56 VRLNKIISMEKKISRRKSDEFIKDGNVKLNNKVVKNPGTHIDVSKDKIKISGKLVNIVRT 115 Query: 73 TRLWL------------YHKPIGLVTTHSDPDGRSTVFDNLP--SIFSRVISVGRLDINT 118 ++ + L T++ + D S R++SVGRLD NT Sbjct: 116 QKMINRNDNNFYKWFVLHKPKGFLCTSNDEKDRASIYSLFPQDIMDNYRLVSVGRLDRNT 175 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------- 169 G+LLLTN+ L P Q +R YRV G L L GI +Q Sbjct: 176 SGVLLLTNEYAWVNKLTHPKYQRIRTYRVHIEGPAQMKVLKQLATGIYLQDDNRGKENKK 235 Query: 170 ----ICYGDMQVTLDTQKGSN--------AWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + + ++ + + + +REG+NR+I+K+FE N V ++ R Sbjct: 236 IVKKKRTQPAFIEILREETIKVKDQVKKVSVLNISVREGRNRQIRKMFEQINQPVIKIKR 295 Query: 218 ISYGPFQLGTL-LAGSTREVSKKIL 241 ++ L + RE++++ + Sbjct: 296 TAFENITLKDVFFPKQYRELTQREI 320 >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 = 118 bits (295), Expect = 2e-24, Method: Composition-based stats. Identities = 47/212 (22%), Positives = 81/212 (38%), Gaps = 8/212 (3%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSD 90 + +I ++VN ++ V + D I + L + L H Sbjct: 24 CKTLIRHGEIRVNDQVITDVRYPVKADDIIMYHHIQLNAQPFVYYMMNKPADYLCANHDK 83 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 +GRLDI+T GLL++TND L++ L LP + Y V Sbjct: 84 YHQCVID----LIGREDCYCLGRLDIDTTGLLIITNDTSLSKKLLLPQNHVNKKYYVTTK 139 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + G+VI +L + V + EG+ +IKK+F+ Sbjct: 140 FPLKDELIKKFFDGVVIDHKV--QCLPSLLEILDEYHCL-VTINEGRYHQIKKMFKSCQN 196 Query: 211 KVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +V L RI++ +L L G R+++ L Sbjct: 197 EVCTLKRIAFAGIELDQKLALGEYRDLTSTEL 228 >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 = 118 bits (295), Expect = 2e-24, Method: Composition-based stats. Identities = 62/261 (23%), Positives = 100/261 (38%), Gaps = 32/261 (12%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 E+ R+SK ++ G+ SRRE + I + V V+G + V IE+ Sbjct: 355 TESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVKPDAIIEIHQSAR 414 Query: 64 -----------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P+ Y + L + +G T P + G Sbjct: 415 SEQGERVTVLMHKPVGYVSGQAEDGYQPAVSLFVPENQWEGDPTRKRFAPWQRRALAPAG 474 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLN 159 RLDI++ GLL+LT DG +AR L + + Y VR ++ + Sbjct: 475 RLDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWHSPDGVVEHDISKVFPEELME 534 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 535 KLRFGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLEVVGLKRIR 590 Query: 220 YGPFQLGTLLAGSTREVSKKI 240 G LG L G R + Sbjct: 591 MGSIVLGDLPVGQWRFLGPFE 611 Score = 37.9 bits (86), Expect = 2.7, Method: Composition-based stats. Identities = 14/119 (11%), Positives = 29/119 (24%), Gaps = 1/119 (0%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G TRE + ++ P ++ + D D R + Sbjct: 92 GQTREAKPRRMQGDRPPRRFDDERPPRRFNDEQRSPRRSDDERPPRRFEDRPPRRFDDER 151 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + R + F + +R + +R+P + R Sbjct: 152 PPRRFDNDRPPRRFDDERPPRRFSDDQRPPR-RFDDERPRRYGDDQRAPRRDGDQRPPR 209 Score = 37.9 bits (86), Expect = 2.8, Method: Composition-based stats. Identities = 10/109 (9%), Positives = 25/109 (22%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P ++ + D D+ + ++ Sbjct: 98 KPRRMQGDRPPRRFDDERPPRRFNDEQRSPRRSDDERPPRRFEDRPPRRFDDERPPRRFD 157 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R S +R ++ R +R+ RR ++ Sbjct: 158 NDRPPRRFDDERPPRRFSDDQRPPRRFDDERPRRYGDDQRAPRRDGDQR 206 Score = 37.5 bits (85), Expect = 3.3, Method: Composition-based stats. Identities = 11/115 (9%), Positives = 27/115 (23%), Gaps = 3/115 (2%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS---KQK 299 + P + + R DD +++ Q+ ++ Sbjct: 157 DNDRPPRRFDDERPPRRFSDDQRPPRRFDDERPRRYGDDQRAPRRDGDQRPPRRFDEERP 216 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 RR +R ++ +R+ RR ++ Sbjct: 217 PRRFNDERRPPRRFDEERPPRKFGDDQRPPRRFDDEGPRRYGDDQRAPRRDGDQR 271 >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 = 118 bits (295), Expect = 2e-24, Method: Composition-based stats. Identities = 62/262 (23%), Positives = 101/262 (38%), Gaps = 33/262 (12%) Query: 4 KNIVQENFTP-QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + V E+ R+SK ++ G+ SRRE + I + V V+G + + IE+ Sbjct: 347 RQPVSEHEDGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGKPVTELGTRIRPEAEIEI 406 Query: 63 ---------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 P+ Y L + + T P Sbjct: 407 LQAARSEQGERVTVLLNKPVGYVSGQAEDGYEPAAVLFAPENQWELDPTRKRFAPWQRKN 466 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VD 154 + GRLDI++ GLL+LT DG +AR L + + Y VR + Sbjct: 467 LAPAGRLDIDSTGLLVLTQDGRVARALIGDDSNVEKEYLVRVEWESPQGLVERNISAVFP 526 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 D L L+ G+ + G+ +V+ ++ + LREG+ R+I+++ E KV Sbjct: 527 DDLLERLRHGLSLDGVALKPAKVSWQNEEQ----LRFVLREGRKRQIRRMCEQVGLKVVG 582 Query: 215 LIRISYGPFQLGTLLAGSTREV 236 L R+ G LG L G R + Sbjct: 583 LKRVRMGRVVLGDLPPGQWRFL 604 Score = 35.9 bits (81), Expect = 9.8, Method: Composition-based stats. Identities = 13/115 (11%), Positives = 25/115 (21%), Gaps = 2/115 (1%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R ++ + + R R E P R ++ Sbjct: 121 RPAQPRRYGDDNRAERPRRFSDEDRAARPRRFGDEERPQRERRYGDDNRPAQPRRYGDDN 180 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK--RSLRRTSAKK 354 RR N + +R P+ P + R ++ Sbjct: 181 RAERPRRFSDENRAASPRRFGDEERPQRERRYGDDNRPAQPRRYGDDNRAERPRR 235 >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 = 118 bits (295), Expect = 2e-24, Method: Composition-based stats. Identities = 66/241 (27%), Positives = 109/241 (45%), Gaps = 11/241 (4%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 +++ + RAG+ ++E E+ I RVKV G L V ++ VDG R + Sbjct: 29 LARALGRAGVMPQQEAEQAIRDGRVKVEGRLELEPFAPVRLGSNVFVDGWAHRLEAPLHV 88 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLP------SIFSRVISVGRLDINTEGLLLLTNDGG 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 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + L EG++ ++K++ V L R + G L + G R +S + LG Sbjct: 205 ELVLTEGRHHQVKRMLAAVGHPVRTLHRQAVGTVSL-DVPVGDWRSLSPGEVTGGLGFQA 263 Query: 250 L 250 Sbjct: 264 P 264 >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 = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 90/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G ++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 ----SRLRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAKE 234 >gi|237735675|ref|ZP_04566156.1| pseudouridine synthase [Mollicutes bacterium D7] gi|229381420|gb|EEO31511.1| pseudouridine synthase [Coprobacillus sp. D7] Length = 235 Score = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 47/212 (22%), Positives = 81/212 (38%), Gaps = 8/212 (3%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSD 90 + +I ++VN ++ V + D I + L + L H Sbjct: 24 CKTLIRHGEIRVNDQVITDVRYPVKADDIIMYHHIQLNAQPFVYYMMNKPADYLCANHDK 83 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 +GRLDI+T GLL++TND L++ L LP + Y V Sbjct: 84 YHQCVID----LIGREDCYCLGRLDIDTTGLLIITNDTSLSKKLLLPQNHVNKKYYVTTK 139 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + G+VI +L + V + EG+ +IKK+F+ Sbjct: 140 FPLKDELIKKFSDGVVIDHKV--QCLPSLLEILDEYHCL-VTINEGRYHQIKKMFKSCQN 196 Query: 211 KVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +V L RI++ +L L G R+++ L Sbjct: 197 EVCTLKRIAFAGIELDQKLALGEYRDLTSTEL 228 >gi|222110316|ref|YP_002552580.1| pseudouridine synthase [Acidovorax ebreus TPSY] gi|221729760|gb|ACM32580.1| pseudouridine synthase [Acidovorax ebreus TPSY] Length = 245 Score = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 49/247 (19%), Positives = 91/247 (36%), Gaps = 21/247 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRV------KVNGILLERAAVNVM-STDHIEVDGVP 66 ++ ++ G +RR +I Q RV + + + A ++ + + V GV Sbjct: 1 MQLQDILYSQGFGTRRICAGLIQQGRVAMHATGTLEPTICQDATQDIDVESLVLRVQGVD 60 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINTE 119 + + L+ + V +VGRLD +T Sbjct: 61 WPYQPKAYVMLHKPAGTECSQKPSAYPSIYTLLPAPLRQRPSKGAVDGVQAVGRLDQDTT 120 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQV 177 GLLLL++DG + P +VYRV V +++++ L G+V+ Sbjct: 121 GLLLLSDDGQFIHRMSSPKKHVPKVYRVTAKHPVTKEQVDRLLAGVVLDDDPRPVRAAAC 180 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREV 236 L + + L EGK ++K++ +V L R G L + G R + Sbjct: 181 ALVDA----HVLDLTLTEGKYHQVKRMIAAVGNRVEALHRSHIGRLALPADMQPGEWRWL 236 Query: 237 SKKILRE 243 ++ L + Sbjct: 237 GEEELAQ 243 >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 = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 63/198 (31%), Positives = 105/198 (53%), Gaps = 3/198 (1%) Query: 55 MSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 +D IEV+G+ + E L+HKP ++T+ SD GR+ V D I +R+ VGRL Sbjct: 2 KPSDTIEVEGIKIEL-EDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRL 60 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D +T GLLLLTNDG ++ P Q + Y + G + ++++ L+KGI ++ Sbjct: 61 DYDTSGLLLLTNDGEFTNLMTHPRYQIKKKYVAKLKGYLMREEVKALEKGIELEDGMTQP 120 Query: 175 MQVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V + Q + V + + EG+NR+++++FE F +V +L RI YGP + L AG Sbjct: 121 AEVKVKKQDKDKNTTLVEITITEGRNRQVRRMFEHFGHQVTKLSRIEYGPLNVVGLNAGE 180 Query: 233 TREVSKKILREQLGPHLL 250 R ++ ++ Sbjct: 181 GRVLTPHEVKVMRHLAEH 198 >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 = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 64/293 (21%), Positives = 119/293 (40%), Gaps = 57/293 (19%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVP 66 E+ R++K+I+ SRR+ + I +VK+N ++ +V D + + Sbjct: 40 NEDANIIRLNKLISMKRNISRRKSDEFIKDGKVKINNKIITNPGTHVHIGKDSLRIYDKK 99 Query: 67 LRK-----------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVG 112 ++ + + + HKP GL+ T +D R +++ R+++VG Sbjct: 100 IKLTNIINMIKQNENKLHKWIVLHKPKGLLCTSNDEKNRKSIYTLFPEEMLQKYRLVTVG 159 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGIC 171 RLD NT G+LLLTND L P Q +R YRV G V + L L +GI + + Sbjct: 160 RLDRNTSGVLLLTNDYAWVNKLTHPKYQRIRTYRVHIEGPVKMNALKELARGIYLEEDEK 219 Query: 172 YGDMQVTLDTQKGSNA----------------------------------------WVTV 191 ++ + + + + Sbjct: 220 TQPKKIYNYKESREKSNIDDKKKKKMSKMKKKTNPAFIEILREEKIKIKEDTKKITVLNI 279 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL-AGSTREVSKKILRE 243 ++EG+NR+I+K+F+ N V ++ R S+ L + RE+++K + + Sbjct: 280 SIKEGRNRQIRKMFQQINQPVIKIKRTSFENITLKNIYFPKQYRELNQKEVND 332 >gi|70728627|ref|YP_258376.1| S4 domain-containing protein [Pseudomonas fluorescens Pf-5] gi|68342926|gb|AAY90532.1| S4 domain protein [Pseudomonas fluorescens Pf-5] Length = 236 Score = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 50/238 (21%), Positives = 85/238 (35%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G +++ V + + +D A Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIDEPQFKVGA-QTVALDPEAKATA 60 Query: 71 ERTRLWLYHKPIGLVTTHSDP--------DGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L + P G + + L F R+ + L N GLL Sbjct: 61 PEPVTILLNVPAGQDLDSAMQSIGADSLSEEHRYGKRPLRGHFLRLTASDDLQPNASGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D + R L + + Y V G++ LN L G+ +G ++ + + Sbjct: 121 VFTQDWKVLRKLTADVAKIEQEYVVEVEGEMIDHGLNRLNHGLTYKGRELPPVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + KV + RI G +G + G R +S K Sbjct: 181 NR----LRFAMKNPQPGVIALFCQAVGLKVVAIRRIRVGGVSIGKVPLGQWRYLSAKE 234 >gi|217978386|ref|YP_002362533.1| pseudouridine synthase [Methylocella silvestris BL2] gi|217503762|gb|ACK51171.1| pseudouridine synthase [Methylocella silvestris BL2] Length = 255 Score = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 50/232 (21%), Positives = 91/232 (39%), Gaps = 7/232 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST----DHIEVDGVPLRKA 70 R+ +++A G +R +++ M R+K++G L A+ V +T + ++G L Sbjct: 12 RLDRLLANLGYGTRTQMQAMAHAGRIKLDGAALRDPALRVAATPEFCARLSINGEALDPP 71 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + + +VGRLD +T GLLL+T+DG Sbjct: 72 PGMVIALNKPRGVTCSRKEAGPLVFDLLPPRFRLREPALSTVGRLDKDTSGLLLITDDGA 131 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L L P + Y + + D+ + G ++ + + S Sbjct: 132 LLHRLISPKHNIAKRYCAKLARPLRGDEAEIFASGEMMLDDEAKPLLPAVLRV-LSPTEA 190 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 V + EG+ +I+++F V L R+S G F L TL G + Sbjct: 191 EVSVTEGRYHQIRRMFAATGNHVLELHRMSIGDFALPLTLAPGDFLLLRASE 242 >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 = 117 bits (293), Expect = 2e-24, Method: Composition-based stats. Identities = 57/239 (23%), Positives = 100/239 (41%), Gaps = 11/239 (4%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 ++ K IA G SR++V+ M + RV +G +L A V + I VDG PL Sbjct: 1 MKLVKHIANLGYGSRKQVQWMFREGRVTDADGEVLY-ADDQV-PHEAIRVDGEPLDPPVG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L+ + + + + +VGRLD T GLLLLT+DGGL Sbjct: 59 LSIALHKPAGYTCSTKDTGRLIYDLLPPRFRDRDPVLSTVGRLDRETSGLLLLTDDGGLL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICY--GDMQVTLDTQKGSNAW 188 + P ++ +VY V + D++ L ++++ ++ + + + Sbjct: 119 HRIISPKSKLPKVYEVELSEDLRGDEVALFASGTLMLESEKTPLLPAELEVLDARRA--- 175 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L EG+ +++++F V L R G L L G R+++ L P Sbjct: 176 -RLVLHEGRYHQVRRMFAATGNHVQALHRSRVGGLDLQGLDEGQWRQLTSTDLDTLFAP 233 >gi|224004838|ref|XP_002296070.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|209586102|gb|ACI64787.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 365 Score = 117 bits (293), Expect = 2e-24, Method: Composition-based stats. Identities = 92/295 (31%), Positives = 145/295 (49%), Gaps = 16/295 (5%) Query: 2 KDKNIVQEN----FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS- 56 K K+I N R++ ++ + SRR+ ERM+ RV + G +++ + + Sbjct: 63 KRKDITNTNLSNGTEGVRITTLLCKHLGLSRRQSERMVLLGRVTLFGKVVDSPSFEFSAS 122 Query: 57 TDH----IEVDGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-----SIFS 106 TD I+VDG + + TR+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 IQGICYGDMQVTLDTQKGS-NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++G +Q T GS N W+ + EGKNR+++++ V RLIRISYG + L Sbjct: 243 VRGASGEVVQSTGKDVNGSTNTWLQITCTEGKNRQLRRILGSMGLDVTRLIRISYGDYDL 302 Query: 226 GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 ++ G EV K L + + + + + R + V Sbjct: 303 NSIPPGLAIEVPVKPLESMKKKGSVGKIEETTRDKGGTRFDRRQKRNDGEEGVRS 357 >gi|289674640|ref|ZP_06495530.1| RNA-binding S4 [Pseudomonas syringae pv. syringae FF5] Length = 236 Score = 117 bits (293), Expect = 2e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 89/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G ++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAKE 234 >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 = 117 bits (293), Expect = 2e-24, Method: Composition-based stats. Identities = 53/249 (21%), Positives = 95/249 (38%), Gaps = 18/249 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKV---NGI----LLERAAVNVMS-TDHIEVDGV 65 ++ +++ G +RR +I V++ N + A++++ V G Sbjct: 1 MQLQEILYSQGFGTRRVCAGLIQHGHVQLRKKNDTGDAWVCTDASLDIDPEGLTFHVQGK 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINT 118 + ER + + + P V ++GRLD +T Sbjct: 61 VWQWHERAYVMMNKPAAVECSQKPSTYPSVYTLLPDPLRQRPGPGKILGVQTIGRLDQDT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLL++DG + P Q + YRV + Q + + L KG+V+ + Sbjct: 121 TGLLLLSDDGSFIHRVSSPKKQIQKTYRVHAKYDLSQQQKDQLLKGVVLNDDPKPVIAAD 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 Q+G + + + EGK +IK++ +V +L RI G L L AG R + Sbjct: 181 CVLQEG--SVFDLTVTEGKYHQIKRMVAAVGNRVEQLHRIRIGGLHLPDDLQAGDWRWLG 238 Query: 238 KKILREQLG 246 +R Sbjct: 239 DDDVRRIFE 247 >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 = 117 bits (293), Expect = 3e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 93/238 (39%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G++++ V T IE+ + Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIDEPHFKVS-TQKIELSPEAKADS 60 Query: 71 ERTRLWLYHKPI--------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + + HKP ++T + S L F R+ ++ L N GL+ Sbjct: 61 PESVTIILHKPASASAESALQMITPGTLSAEHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTKE 234 >gi|241765880|ref|ZP_04763813.1| pseudouridine synthase [Acidovorax delafieldii 2AN] gi|241364178|gb|EER59374.1| pseudouridine synthase [Acidovorax delafieldii 2AN] Length = 249 Score = 117 bits (293), Expect = 3e-24, Method: Composition-based stats. Identities = 49/244 (20%), Positives = 88/244 (36%), Gaps = 18/244 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRV-KVNGIL------LERAAVNVMSTD-HIEVDGV 65 ++ ++ G +RR ++ Q V +G A+ D ++V GV Sbjct: 1 MQLQDILYSQGFGTRRVCAGLVQQGWVETASGDPDAAFSACTEASAEFDVDDLRLKVQGV 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGR-------STVFDNLPSIFSRVISVGRLDINT 118 + + L+ + V +VGRLD +T Sbjct: 61 LWPYHAKAYIMLHKPAGTECSQKPSTYPSIYTLLPAPLRQRPCKGAIQGVQAVGRLDQDT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLL++DG + P +VY+V VD+ ++ L G+V+ ++ Sbjct: 121 TGLLLLSDDGQFIHRMSSPKKHVPKVYQVTTKHPVDERQIAALLAGVVLDDDP-KPVR-A 178 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + +++ L EGK ++K++ +V L R G L L G +S Sbjct: 179 AACSVVDSHRLSLTLTEGKYHQVKRMLAAVGNRVEALHRSRIGTLDLPADLAPGQWLWLS 238 Query: 238 KKIL 241 L Sbjct: 239 DADL 242 >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 = 117 bits (293), Expect = 3e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 89/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G ++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAKE 234 >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 = 117 bits (293), Expect = 3e-24, Method: Composition-based stats. Identities = 52/200 (26%), Positives = 84/200 (42%), Gaps = 4/200 (2%) Query: 48 ERAAVNVMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 + D I V G L L + T D + + Sbjct: 26 TSPKQQINEKKDQIAVAGQVLSHETFVYYLLNKPKGVISATEDDHHRTVLDLLDNTARQK 85 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 V VGRLDI+T GLLLLTN G LA + P ++YR + G + Q+ + GI Sbjct: 86 EVFPVGRLDIDTHGLLLLTNKGQLAHAMLSPKKHVDKLYRAQVDGIMTQEDVERFAAGIE 145 Query: 167 IQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 ++ Q+T+ + + + V + +REGK +IK++ + V L R++ GP + Sbjct: 146 LKDFTCQPAQLTILSTDEAKQTSLVDITIREGKFHQIKRMVQACGKTVTDLQRLTMGPLR 205 Query: 225 LG-TLLAGSTREVSKKILRE 243 L L G R ++ L++ Sbjct: 206 LDPKLALGEYRRLTAAELKQ 225 >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 = 117 bits (293), Expect = 3e-24, Method: Composition-based stats. Identities = 74/242 (30%), Positives = 119/242 (49%), Gaps = 8/242 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-----VDGVPLR 68 +++ K+++ G+ SRR +E+ I + +K+NG ++ + I+ + ++ Sbjct: 3 EKIQKILSNCGVDSRRNIEKHILNKSLKINGKIVHIGERFLKKN--IKSIFLKKKKIFIK 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L + + T + + FS+ IS+GRLDINT GLLL TN G Sbjct: 61 NEKTKILIYHKPVGEICTKKDQYNRITVFKKLPKLFFSKWISIGRLDINTSGLLLFTNFG 120 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 LA L PS + R Y V G++ + K+ LLKKGI+I ++ +K N W Sbjct: 121 ELAHRLMHPSYRIKREYLVCVLGKILKKKILLLKKGILINNSISKFHEIIFLKKKKKNQW 180 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGP 247 V L +GKNRE++ ++ N KVNRLIRI +G L L +G E+S + + L Sbjct: 181 FKVSLFQGKNREVRLLWNAINIKVNRLIRIKFGIITLPKFLKSGCFFELSYQKTKNILSL 240 Query: 248 HL 249 Sbjct: 241 VN 242 >gi|302187180|ref|ZP_07263853.1| RNA-binding S4 [Pseudomonas syringae pv. syringae 642] Length = 236 Score = 117 bits (293), Expect = 3e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 90/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G ++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAKE 234 >gi|330950630|gb|EGH50890.1| RNA-binding S4 [Pseudomonas syringae Cit 7] Length = 236 Score = 117 bits (292), Expect = 3e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 89/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G ++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKVS-TQKIELSPDAKADA 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAKE 234 >gi|330959244|gb|EGH59504.1| S4 domain-containing protein [Pseudomonas syringae pv. maculicola str. ES4326] Length = 236 Score = 117 bits (292), Expect = 3e-24, Method: Composition-based stats. Identities = 50/238 (21%), Positives = 90/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G+++E V T +E+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKVS-TQKVELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++T + + S L F R+ + L N GL+ Sbjct: 61 PEAVTIILHKPASASAESALQMITPGTLSEEHSYSKRPLKGHFMRLEPISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G + LN L G+ +G ++ + + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEITGDMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I ++ E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIAQLCEAVGLKIVSIRRIRIGGVSMGKLPEGQWRYMTSKE 234 >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 = 117 bits (292), Expect = 3e-24, Method: Composition-based stats. Identities = 52/238 (21%), Positives = 82/238 (34%), Gaps = 14/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G +++ V T +E+D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVSVDGEVIDEPQFKVT-TQKVELDPEAKATV 60 Query: 71 ERTRLWLYHKPIGLV--------TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L H P G+ + + + L F R+ + L GLL Sbjct: 61 PEPVTILLHAPAGVDAETAMASISAETLSEEHRFSKRPLKGHFLRLTASADLQAKASGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D + R L + + + Y V G + LN L G+ +G Sbjct: 121 VFTQDWKILRKLTADAAKIEQEYVVEVEGDMVAHGLNRLNHGLTYKGKEL-----XXXXX 175 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I E KV + RI G +G + G R +S K Sbjct: 176 XXXXNRLRFAMKNPQPGVIALFCEAVGLKVVAIRRIRIGGVSIGKVPVGQWRYLSGKE 233 >gi|126640866|ref|YP_001083850.1| putative ribosomal large subunit pseudouridine synthase B [Acinetobacter baumannii ATCC 17978] Length = 279 Score = 117 bits (292), Expect = 3e-24, Method: Composition-based stats. Identities = 69/281 (24%), Positives = 111/281 (39%), Gaps = 13/281 (4%) Query: 41 KVNGILLERAAVNVMSTDHIEVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRS 95 VNG + + + D + +DG ++ R L Y + + + + Sbjct: 2 SVNGRVAQV-GERIEPGDELRIDGRKVQFQIEDEIRRRVLIYYKPEGEICSRNDPEKRPT 60 Query: 96 TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 R + VGRLDIN+ GLLL TNDG LA L PS + R Y VR G+V Sbjct: 61 VFDHLPQIANDRWVMVGRLDINSTGLLLFTNDGELANRLMHPSNEIEREYAVRVMGEVTP 120 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + G+ ++ + +G N W V ++EG+NRE++++FE KV+RL Sbjct: 121 QLRQNMVNGVELEDGPAKFESFSEIGGEGINRWYQVVVKEGRNREVRRIFESQGLKVSRL 180 Query: 216 IRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI 274 +R YG L L G E+ K + ++ + + R Sbjct: 181 LRTRYGTVILPRELRTGRWMELDKTDIDNL------AKSVELKPRQGTGLFGMAKRRTER 234 Query: 275 ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVW 315 ++E P R Q+ K+ T R++ N Sbjct: 235 MTEKPMAARRGGYLRQQRRDDEKEAPANTGNQRKSTGFNRG 275 >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 = 117 bits (292), Expect = 3e-24, Method: Composition-based stats. Identities = 58/231 (25%), Positives = 106/231 (45%), Gaps = 9/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K IA SR EV+ + ++ +KVNGI+L + + + D++EVD V ++ + Sbjct: 4 IRIEKFIADLTGLSRNEVKAKLKKKAIKVNGIVLSKL-IKIDPESDYVEVDNVVVKYEKF 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + T+FD + + S GRLD +TEGLL+L+NDG + Sbjct: 63 QYYMFNKPANFVCANSDPNEA--TIFDIVGLPNKKFFSFGRLDKDTEGLLILSNDGEMCH 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L P + Y V+ +++ D L + + + L+ + ++ Sbjct: 121 KLLSPKNHIPKKYYVKVDKKINSDVLLNNRPIKISDDFIVS--KYELEPIDEKSCFL--T 176 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EGK ++K++F F V L R+ +G +L L G R++S+ + Sbjct: 177 IYEGKFHQVKRMFGAFGISVLYLKRVQFGNLKLDNSLKLGEIRKLSELEVE 227 >gi|315185613|gb|EFU19381.1| pseudouridine synthase [Spirochaeta thermophila DSM 6578] Length = 214 Score = 117 bits (292), Expect = 4e-24, Method: Composition-based stats. Identities = 65/204 (31%), Positives = 95/204 (46%), Gaps = 6/204 (2%) Query: 41 KVNGILLERAAVNVMS-TDHIEVDGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 +VNG ++ A V D + +DG + + L + P L T Sbjct: 2 RVNGRVITNPAHRVDPQEDRVTLDGRDVHLVGKFLYLAFHKPPGYLCTRSDPQGRPLVYD 61 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 P + +V S+GRLD + GLLLLTNDG A ++ P + + Y V + + L Sbjct: 62 LIDPVLPYKVFSIGRLDFLSSGLLLLTNDGEFADIVMHPKHRVEKEYLVETKRPIPRALL 121 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 KGI I+G Y V + S V + L EGKNREI+KVF + + R+ RI Sbjct: 122 ESYLKGIRIEGERY----VLKAYKSKSPHKVHLILEEGKNREIRKVFYSSHLPIVRIHRI 177 Query: 219 SYGPFQLGTLLAGSTREVSKKILR 242 GP +LG L G R ++K+ +R Sbjct: 178 RIGPVRLGRLRPGHFRNLTKEEIR 201 >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 = 117 bits (292), Expect = 4e-24, Method: Composition-based stats. Identities = 74/253 (29%), Positives = 112/253 (44%), Gaps = 10/253 (3%) Query: 43 NGILLERAA-VNVMSTDHIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRST 96 +G + +NV S+ + +DG + + L Y L T H + Sbjct: 2 DGKIATLGDRINVHSSVKVRIDGNLINLTQAQKEVCRVLMYYKPEGELCTRHDPEGRATV 61 Query: 97 VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 +R I+VGRLDINT GLLL T DG LA L P+ + R Y VR G VD Sbjct: 62 FDRLPRLTGARWIAVGRLDINTSGLLLFTTDGELANRLMHPNREVEREYSVRVFGHVDDA 121 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 LN LKKG+ ++ + G N W V L EG+NRE+++++E +V+RLI Sbjct: 122 MLNRLKKGVQLEDGPANFKDIKFGGGVGMNQWFDVTLMEGRNREVRRLWESQGIQVSRLI 181 Query: 217 RISYGPFQL-GTLLAGSTREVSKKI---LREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 RI YG +L TL G +E+ LR+ +G E +++++ S+ + Sbjct: 182 RIRYGNIKLMKTLPRGGWQEMPLDEVNYLRDLVGLAPETETKLDVNKQRRQSKAGQIRKA 241 Query: 273 NIISEVPDDFTRM 285 + Sbjct: 242 VKRYSELSRRYKK 254 >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 = 116 bits (291), Expect = 4e-24, Method: Composition-based stats. Identities = 58/255 (22%), Positives = 97/255 (38%), Gaps = 32/255 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 R+SK ++ G+ SRRE + I + V V+G + + IE+ Sbjct: 355 VRLSKRMSELGLCSRREADEWIPRGWVLVDGKPVTELGSRIRPDAEIEILQEARSEQGER 414 Query: 63 ----DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L + +G T P + GRLDI++ Sbjct: 415 VTVLLNKPVGYVSGQAEDGYEPAAALFAPENQWEGDPTRKRFAPWQRKNLAPAGRLDIDS 474 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------------LKKGI 165 GLL+LT DG +AR L + + Y VR + L+ G+ Sbjct: 475 TGLLVLTQDGRVARALIGEDSTVEKEYLVRVVWHSPHGPVERNISAEFPADDLELLRHGL 534 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G+ +V+ ++ + LREG+ R+I+++ E +V L R+ G L Sbjct: 535 SLDGVPLKPAKVSWQNEEQ----LRFVLREGRKRQIRRMCEQVGLQVVGLKRVRMGRVVL 590 Query: 226 GTLLAGSTREVSKKI 240 G L G R + + Sbjct: 591 GDLPPGKWRFLGQFE 605 Score = 37.1 bits (84), Expect = 4.3, Method: Composition-based stats. Identities = 7/114 (6%), Positives = 19/114 (16%), Gaps = 1/114 (0%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 + E + + +P + + ++ Sbjct: 45 VSEGIKRAQQRAGGKTGGSAAQGEAPAQPRQPRAPRPADSERQARPRRPDAGEARPRRFG 104 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 RR S +R + P ++ Sbjct: 105 DDESRPRRYGDDRGEARPRRFEGSESRPPRRFGDDDNRPRRAG-DDRGEARPRR 157 Score = 35.9 bits (81), Expect = 8.7, Method: Composition-based stats. Identities = 12/111 (10%), Positives = 22/111 (19%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E R + P F + ++ G + Sbjct: 185 EARPRRFEGSESRPPRRYGDDDNRPRRTGDDRGEARPRRFESSESRPPRRYGDDDNRPRR 244 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 T R + D +R + S P + A+ Sbjct: 245 TGDDRGEPRPRRFEGADTRPRRFGDDDKRPRRFEGADSRPRRHGDDERRAR 295 >gi|289667011|ref|ZP_06488086.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 236 Score = 116 bits (291), Expect = 4e-24, Method: Composition-based stats. Identities = 46/237 (19%), Positives = 87/237 (36%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A A SR E ++ I V V+G+++E + + L A Sbjct: 2 SDPIRLDKCVAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQALATAGQVTLAEDAVLAPA 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ L T + + L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGVSAEAALALATPTTRSALYPSDIRVLKRHFLRLTAPLPLEDAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L + + + V ++ + L G+V Q +V+ + Sbjct: 122 LSQDGRVLRRLSAEARSIEQEFLVEVQCELRPYGMARLAHGLVYQQRSLSPCKVSWQNED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKNVQPGQLRYMCGEVGLEVVNIRRLRVGRVSLGKLAIGQWRYLPTGE 234 >gi|160896898|ref|YP_001562480.1| RNA-binding S4 domain-containing protein [Delftia acidovorans SPH-1] gi|160362482|gb|ABX34095.1| RNA-binding S4 domain protein [Delftia acidovorans SPH-1] gi|222832645|gb|EEE71122.1| predicted protein [Populus trichocarpa] Length = 247 Score = 116 bits (291), Expect = 4e-24, Method: Composition-based stats. Identities = 46/248 (18%), Positives = 77/248 (31%), Gaps = 20/248 (8%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPL 67 R++K +A SRRE E I V+V+G +++ V + + G Sbjct: 2 SESESVRLAKRLAEQEQCSRREAELHITAGNVQVDGKVVQLPETRVRPEQQVTLRSGAQP 61 Query: 68 RKAERTRLWLYHKPIGLVTTH---------------SDPDGRSTVFDNLPSIFSRVISVG 112 L + L F + S Sbjct: 62 EAVPPVTLLMNKPAGYTQGRPYGRVRSAHSLLGEASMAQVDTPMPLLVLAQHFKNLESFL 121 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 L + GL++ T D +AR L + V GQ+ +D L L+K G+ I Sbjct: 122 PLPLPASGLIVYTQDKRVARKLGEEGMWLEQECIVGVEGQIHEDGLELMKAGLPIGKRQL 181 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +V+ + + L+ EI + +V L R+ G L + G Sbjct: 182 PPCRVSWQNENH----LRFALKGIAPDEIDAMCTEVGLRVVSLRRLRIGRLSLAKVPEGQ 237 Query: 233 TREVSKKI 240 R + Sbjct: 238 WRYLMPWE 245 >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 = 116 bits (290), Expect = 5e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 90/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G+++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKVS-TQKIELSPDAKANS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTKE 234 >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 = 116 bits (290), Expect = 5e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 92/238 (38%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G+++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I ++ E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIAQLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTKE 234 >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 = 116 bits (290), Expect = 6e-24, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 90/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G+++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTKE 234 >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 = 116 bits (289), Expect = 7e-24, Method: Composition-based stats. Identities = 50/238 (21%), Positives = 90/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G++++ V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIDEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++T + S L F R+ ++ L N GL+ Sbjct: 61 PESVTIILHKPASASAESALQMITPGTLSAEHSYSKRPLKGHFMRLEAISSLQANASGLM 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + + D + R L ++ + Y V G++ LN L G+ +G ++ + + Sbjct: 121 VFSQDWKILRKLTDDRSKIEQEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTKE 234 >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 = 116 bits (289), Expect = 8e-24, Method: Composition-based stats. Identities = 54/247 (21%), Positives = 92/247 (37%), Gaps = 18/247 (7%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGI-------LLERAAVNVMS-TDHIEVDGVPL 67 + ++ G +RR +I V++ A ++V V G Sbjct: 8 LQDILYSQGFGTRRVCAGLIQHGHVQLREKGDAGGAWTCTDAGLDVDPEGLTFYVQGTAW 67 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINTEG 120 + ER + + + P V ++GRLD +T G Sbjct: 68 QWHERAYVMMNKPAAVECSQKPSTYPSVYTLLPDPLRQRPGPGKILGVQTIGRLDQDTTG 127 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLL++DG + P Q + YRV + Q + + L KG+V+ + V Sbjct: 128 LLLLSDDGSFIHRVSSPKKQIQKTYRVHAKYDLSQQQKDQLLKGVVLNDDPKPVIAVDCV 187 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 Q+G + + EGK +IK++ +V +L RI G L L AG R + ++ Sbjct: 188 LQEGP--VFDLTVTEGKYHQIKRMVAAVGNRVEQLHRIRIGGLHLPDDLQAGDWRWLREE 245 Query: 240 ILREQLG 246 +R Sbjct: 246 DVRRIFE 252 >gi|145355350|ref|XP_001421926.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144582165|gb|ABP00220.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 287 Score = 115 bits (288), Expect = 9e-24, Method: Composition-based stats. Identities = 52/223 (23%), Positives = 92/223 (41%), Gaps = 7/223 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG----ILLERAAVNVMSTDHIEVDGV 65 +R+ +++R G+ SR + R IA++ V +G + + D + VDG Sbjct: 44 TAKAERLDALLSRLGLTSRADAARFIAERVVTTDGARATERATSGKLKARAAD-VRVDGE 102 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDG--RSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + + ++ + + + + + SVGRLD +T GLLL Sbjct: 103 TLEDVDGLLIVMHKARGVVCSHDVREGTSVYDALPERWRRRKPSIESVGRLDKDTSGLLL 162 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 LT+DG L L P + + YRV+ + +D + + G + + + Sbjct: 163 LTDDGALVHALTTPKKEIGKWYRVKTDRPIPRDAVEVFASGELTLDGETRACKPAVCELM 222 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + L EGK ++K++F FF V L R S+G L Sbjct: 223 DDETEARLRLTEGKFHQVKRMFAFFGCTVIGLHRESFGSLTLE 265 >gi|303286517|ref|XP_003062548.1| predicted protein [Micromonas pusilla CCMP1545] gi|226456065|gb|EEH53367.1| predicted protein [Micromonas pusilla CCMP1545] Length = 230 Score = 115 bits (288), Expect = 9e-24, Method: Composition-based stats. Identities = 53/229 (23%), Positives = 95/229 (41%), Gaps = 19/229 (8%) Query: 25 IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGL 84 SRR +R++A V VNG ++ A V D +E+ G +R + + Sbjct: 9 FTSRRNADRLVASGAVTVNGAVVA-AGAMVFPGDVVELRGERVRWETLNYVKYWKPRGVT 67 Query: 85 VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRV 144 TT + + + D + +R+ VGRLD ++ GL+LLT+DG L + + Sbjct: 68 CTTDARDR--TNIVDAVNYPDARLFPVGRLDKDSTGLILLTSDGRLPNAALRSGRKRDKK 125 Query: 145 YRVRFHGQVDQDKLNLLKKGIVI------------QGICYGDMQVTLDTQKGSNAWVTVG 192 Y V V + + +L+ G+VI ++ + + + Sbjct: 126 YLVVVDAVVRPEDVRMLRDGVVISTPVQRDRVDRVLTARTLPCEIDVVGA----RTLEIT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 LREG+NR+I+++ + ++V L R L G E ++ L Sbjct: 182 LREGRNRQIRRMLDAVGYRVINLHRTEIMGIGLRGTREGRWVECDEEEL 230 >gi|303275424|ref|XP_003057006.1| predicted protein [Micromonas pusilla CCMP1545] gi|226461358|gb|EEH58651.1| predicted protein [Micromonas pusilla CCMP1545] Length = 305 Score = 115 bits (288), Expect = 1e-23, Method: Composition-based stats. Identities = 54/235 (22%), Positives = 99/235 (42%), Gaps = 9/235 (3%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 P+R+ ++++R G +R E +R RV ++G + RA V D + +DG P + Sbjct: 54 PERLDRLLSRLGYCTRAEAKRWARDGRVLLHGEPVARAEAKVTPRD-VLIDGEPAEAPDG 112 Query: 73 TRLWLYHKPIGLVTTH--SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ + P + + + V ++GRLD +T GLLLLT+DG L Sbjct: 113 LLALMHKPRGRVCGHDASEGPSVYDLLPERWRARRPGVETIGRLDKDTTGLLLLTDDGDL 172 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----SN 186 L P + +VY + + +D ++L G + + Sbjct: 173 LHRLASPKKRVEKVYELVVDAPIPRDAVDLFASGSLTLTGEKKPCLPAKLIVSERADHNR 232 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 ++ + EGK ++K++ +V L R S+G L L G R +S++ Sbjct: 233 TRASLSVTEGKFHQVKRMMRAVGCEVTALHRESFGGMALSRMELREGEVRVLSRE 287 >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 = 115 bits (288), Expect = 1e-23, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A SRRE E I V V+G ++E V+ + G Sbjct: 2 TDPIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQRVELLPGARAETI 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ GL+ + L F+R LD GL++ Sbjct: 62 EPATLLLHKPAGWRHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G + L L+ G+ QG +V+ + Sbjct: 122 FSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQGRRLSPCKVSWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L++ +++ + E +V + R+ G L L G R + Sbjct: 181 ---SHLRFALKDVLPGQLRFMCESEGLEVRSIRRLRIGALSLARLPLGEWRYLGLHE 234 >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 = 115 bits (288), Expect = 1e-23, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A SRRE E I V V+G ++E V+ + G Sbjct: 2 TDPIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQRVELLPGARAETI 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ GL+ + L F+R LD GL++ Sbjct: 62 EPATLLLHKPAGWRHDDLEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G + L L+ G+ QG +V+ + Sbjct: 122 FSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQGRRLSPCKVSWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L++ +++ + E +V + R+ G L L G R + Sbjct: 181 ---SHLRFALKDVLPGQLRFMCESEGLEVRSIRRLRIGALSLARLPLGEWRYLGLHE 234 >gi|218459923|ref|ZP_03500014.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli Kim 5] Length = 199 Score = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 55/195 (28%), Positives = 88/195 (45%) Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I VDG+ + + L L + T H + + VGRLD +E Sbjct: 4 IRVDGLVIAAEAKIYLMLNKPRGLVTTRHDPEGRPTVYDCLKDFEIPHLSPVGRLDKASE 63 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 GLLL TND A++L P T + Y V+ +D + + + GI G V Sbjct: 64 GLLLFTNDTEFAQILLDPITHVTKTYHVQIDRIMDDEAIAAMTSGIRHDGELLTATAVRR 123 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 Q N+W+ V L EG+NR+I+++ E + RL+R++ G +LG L G+ R ++ Sbjct: 124 LRQGDRNSWIEVELDEGRNRQIRRMLEALGTECLRLVRVAIGGLELGELPKGAVRALTAA 183 Query: 240 ILREQLGPHLLEEAQ 254 L+ +E A+ Sbjct: 184 ELQALHRSAGMERAR 198 >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 = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 51/238 (21%), Positives = 90/238 (37%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R+SK + SRRE E I V V+G+++E V T IE+ D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKVS-TQKIELSPDAKADS 60 Query: 69 KAERTRLWLYHKPI------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T + ++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 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E K+ + RI G +G L G R ++ K Sbjct: 181 NR----LRFAMKNPQPGIIALLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTTKE 234 >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 = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 54/178 (30%), Positives = 87/178 (48%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 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 +L + R+ +GRLD +T GL+LLTNDG + Sbjct: 63 KVYIALNKPKGYVSTVKDERGRKT-ILDLVDVTERIYPIGRLDYDTSGLILLTNDGDIYN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + P + ++Y G ++ + + GI I G + + + Sbjct: 122 KIIHPKQEKNKIYIALIKGIPTENDIKKFEIGINIDGYVTAPAKFKIIKNLKIIVKLK 179 >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 = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A SRRE E I V V+G ++E V+ + G Sbjct: 2 TDPIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQRVELLPGARAETI 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ GL+ + L F+R LD GL++ Sbjct: 62 EPATLLLHKPAGWRHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G + L L+ G+ QG +V+ + Sbjct: 122 FSQQHGVLRKLVDDGARLEQEYLVEVTGDLAAGGLERLRHGLAYQGRRLSPCKVSWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L++ +++ + E +V + R+ G L L G R + Sbjct: 181 ---SHLRFALKDVLPGQLRFMCESEGLEVRSIRRLRIGALSLARLPLGEWRYLGLHE 234 >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 = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 69/262 (26%), Positives = 113/262 (43%), Gaps = 19/262 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ IA SRRE + +IAQ RV V + + VDG LR+ + Sbjct: 1 MRLNQYIAHHSKYSRREADGLIAQGRVNVEKKKA-VLGQELKEGQRVFVDGKQLREKKDG 59 Query: 74 --RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +YHKP G + T SD GR ++FD+L ++ VGRLD +EGLLLL++D +A Sbjct: 60 PSTVIVYHKPKGELVTRSDDRGRRSIFDSLGRRYAHFTPVGRLDFASEGLLLLSDDKKIA 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--------------DMQV 177 L + + + G V + ++ G+ ++ G Sbjct: 120 HFLMQSDLEREYIL--KISGAVTEKMKEAMENGLELEDARAGGHEKSKIQKMSFKPFAFY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + + + V + EGKNRE+++ F F +V L R+ YG L L G R +S Sbjct: 178 QIQKNDRNFSKLKVRITEGKNRELRRFFAHFKAEVLDLRRVGYGFVTLSALPVGKVRFLS 237 Query: 238 KKILREQLGPHLLEEAQVNLDA 259 K+ ++ Sbjct: 238 KEEYKKLHQLLKEHAKNPEGRN 259 >gi|255081278|ref|XP_002507861.1| predicted protein [Micromonas sp. RCC299] gi|226523137|gb|ACO69119.1| predicted protein [Micromonas sp. RCC299] Length = 257 Score = 114 bits (286), Expect = 1e-23, Method: Composition-based stats. Identities = 58/257 (22%), Positives = 107/257 (41%), Gaps = 30/257 (11%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRK 69 QR+SK +A G+ASRR E +I RV+VNG+ + V ++ D I VDG ++ Sbjct: 1 DEGQRLSKALAALGVASRRASEELIFAGRVQVNGVTVTMPQHAVSTSRDVIAVDGKVVQG 60 Query: 70 -------AERTRLWLYHKPIGLVTTH------------------SDPDGRSTVFDNLPSI 104 L+ L ++ + + + Sbjct: 61 GLESLGDGGHLYFLLHKPKGYLCSSKPAGAGARASGQDRLVLDLFEDWREGWRKRHPGQL 120 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+ +VGRLD+NT G+LL+T DG + + PS+Q + Y V + + ++ + +G Sbjct: 121 APRLFTVGRLDVNTTGMLLVTTDGQWCQRVAHPSSQIPKSYIVTAATRPTKAQIKKMAEG 180 Query: 165 IVIQGICYGDMQ---VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + G+ ++ + G + V + +G+NRE++ + V +L R+ G Sbjct: 181 CEVDGVHVTPLRVESMEGARDGGPAHRILVDVVDGRNREVRVLSASAGVDVKKLKRVRVG 240 Query: 222 PFQL-GTLLAGSTREVS 237 ++ L G + Sbjct: 241 GLRMPSELPIGKYMSLK 257 >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 = 114 bits (286), Expect = 2e-23, Method: Composition-based stats. Identities = 43/227 (18%), Positives = 89/227 (39%), Gaps = 8/227 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGV--PLRKAERT 73 K + GI +R+ + ++ Q V++NG + V + + ++G + Sbjct: 5 KYLQAQGIDTRKGCQWLVKHQLVQINGDTIASDKAEVQPENVRSLSIEGEDALIIPLPHF 64 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L V+ + + ++GRLD +T G+LL+TNDG Sbjct: 65 YILLNKPADYEVSHKPRDYPSVFTLLPDQIRAADIQAIGRLDADTTGVLLITNDGQFNHR 124 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 + P + ++YR+ + LK G+++ Q + + + + Sbjct: 125 MTSPKHKVAKIYRITLKHPASDTLCSSLKNGVLLHDDNETVAAQEAIL---QTPTTLLMT 181 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + EGK ++K++ +V +L R +G + L AG R + Sbjct: 182 ISEGKYHQVKRMIAAAGNRVAQLHRQQFGDWDTQDLAAGEWRFIQPD 228 >gi|296390524|ref|ZP_06879999.1| hypothetical protein PaerPAb_20321 [Pseudomonas aeruginosa PAb1] Length = 236 Score = 114 bits (286), Expect = 2e-23, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 87/237 (36%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A SRRE E I V V+G ++E V+ + G Sbjct: 2 TDPIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQRVELLPGARAETI 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ GL+ + L F+R LD GL++ Sbjct: 62 EPATLLLHKPAGWRHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G++ L L++G+ QG +V+ + Sbjct: 122 FSQQHGVLRKLVDDGARLEQEYLVEVTGELAAGGLERLRQGLAYQGRRLSPCKVSWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L++ +++ + E +V + R+ G L L G R + Sbjct: 181 ---SHLRFALKDVLPGQLRFMCESEGLEVRSIRRLRIGALSLARLPLGEWRYLGLHE 234 >gi|289661981|ref|ZP_06483562.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 236 Score = 114 bits (286), Expect = 2e-23, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 88/237 (37%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A A SR E ++ I V V+G+++E + + L A Sbjct: 2 SDPIRLDKCVAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQALATAGQVTLAEDAVLAPA 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ L T + + L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGVSAEAALALATPTTRSALDPSDIRVLKRHFLRLTAPLPLEDAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L + + + V G++ + L G+V Q +V+ + Sbjct: 122 LSQDGRVLRRLSAEARSIEQEFLVEVQGELRPYGMARLAHGLVYQQRRLSPCKVSWQNED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKNVQPGQLRYMCGEVGLEVVNIRRLRVGRVSLGKLAIGQWRYLPTGE 234 >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 = 114 bits (286), Expect = 2e-23, Method: Composition-based stats. Identities = 56/237 (23%), Positives = 106/237 (44%), Gaps = 9/237 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE-- 71 R+ K ++ G SR + E +I ++++ VNG V + I ++G L + + Sbjct: 1 MRLQKFLSDIGYCSRGQAEDLIRKRKIMVNGKQAT-LGDKVRGNEKIVIEGRLLERKKGP 59 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ L+HKP + + + T+ D RV VG LD +EG+LLLTNDG +A Sbjct: 60 AKKVLLFHKPEAVDCSLAPSKTTKTLLDF-DFGTDRVFPVGYLDQASEGILLLTNDGEIA 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 L LP + Y + ++D + + L + + +D ++ + + Sbjct: 119 NKLSLPEFRPEDEYLLTSPEEIDAEMIEKLTQA-----RKAEKNKSVVDIEQIDAKHLRI 173 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 + G++++IKK+ E + +L+R+ G L L G + + L+ L Sbjct: 174 LQQGGRSKDIKKMCEAVELVIEQLVRVRVGNITLEGLEKGIYIPLDPEQLKRLLKKQ 230 >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 = 114 bits (286), Expect = 2e-23, Method: Composition-based stats. Identities = 61/261 (23%), Positives = 99/261 (37%), Gaps = 32/261 (12%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 E+ R+SK ++ G+ SRRE + I + V V+G + V IE+ Sbjct: 416 TESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVKPDAIIEIHQAAR 475 Query: 64 -----------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P+ Y + L + + T P + G Sbjct: 476 SEQGERVTVLMHKPVGYVSGQAEDGYQPAVSLFVPENQWEADPTRKRFAPWQRRALAPAG 535 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLN 159 RLDI++ GLL+LT DG +AR L + + Y VR ++ + Sbjct: 536 RLDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWHSPDGVVERDISKVFPEELME 595 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 596 KLRFGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLEVVGLKRIR 651 Query: 220 YGPFQLGTLLAGSTREVSKKI 240 G LG L G R + Sbjct: 652 MGSIVLGDLPVGQWRFLGPFE 672 Score = 37.1 bits (84), Expect = 4.3, Method: Composition-based stats. Identities = 14/119 (11%), Positives = 29/119 (24%), Gaps = 1/119 (0%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G TRE + ++ P ++ + D D R + Sbjct: 107 GQTREAKPRRMQGDRPPRRFDDERPPRRFNEEQRPPRRSDDERPPRRFEDRPPRRFDDER 166 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + R + F + +R + +R+P + R Sbjct: 167 PPRRFDNDRPPRRFDDERPPRRFSDDQRPPR-RFDEERPRRYGDDQRAPRRDGDQRPPR 224 Score = 36.7 bits (83), Expect = 5.2, Method: Composition-based stats. Identities = 9/109 (8%), Positives = 24/109 (22%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P ++ + + D+ + ++ Sbjct: 113 KPRRMQGDRPPRRFDDERPPRRFNEEQRPPRRSDDERPPRRFEDRPPRRFDDERPPRRFD 172 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R S +R + R +R+ RR ++ Sbjct: 173 NDRPPRRFDDERPPRRFSDDQRPPRRFDEERPRRYGDDQRAPRRDGDQR 221 Score = 36.3 bits (82), Expect = 7.0, Method: Composition-based stats. Identities = 14/114 (12%), Positives = 31/114 (27%), Gaps = 2/114 (1%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL--SKQKK 300 +Q P +E + D + DD ++ ++ Q+ Sbjct: 219 DQRPPRRFDEERPPRRFNDEQRPPRRFDEERPPRKFGDDQRPPRRFDDERPRRYGDDQRA 278 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 +R S +R ++ R +R+ RR ++ Sbjct: 279 PRRDGDQRPPRRLDDERPPRRFSDDQRPPRRFDDERPRRYGDDQRAPRRDGDQR 332 Score = 36.3 bits (82), Expect = 7.3, Method: Composition-based stats. Identities = 11/115 (9%), Positives = 28/115 (24%), Gaps = 3/115 (2%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS---KQK 299 + P + + R DD +++ Q+ ++ Sbjct: 172 DNDRPPRRFDDERPPRRFSDDQRPPRRFDEERPRRYGDDQRAPRRDGDQRPPRRFDEERP 231 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 +R +R ++ R +R+ RR ++ Sbjct: 232 PRRFNDEQRPPRRFDEERPPRKFGDDQRPPRRFDDERPRRYGDDQRAPRRDGDQR 286 >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 = 114 bits (286), Expect = 2e-23, Method: Composition-based stats. Identities = 48/242 (19%), Positives = 95/242 (39%), Gaps = 17/242 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-PLRK 69 P R+++ +A SR E E+ I VKV+G ++E V S +E+D L+ Sbjct: 32 SNPIRLARRVAELAQCSRSEAEQYIEGGWVKVDGQVVELPGHMVTSE-RVEIDPKARLQP 90 Query: 70 AERTRLWLYHKPI-----------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 E L+ L+ +G ++ L F R+ S+ L+ Sbjct: 91 VEPATFLLHKPAGVDLEAVADTLATLLPPQERWEGDTSNIRTLRKNFQRLASLVPLEPEA 150 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL++L+ DG + R L + + V G ++ L+ L G+ +G+ +V+ Sbjct: 151 SGLVVLSQDGRVRRRLVEDFATIEQEFVVEVEGSLEPWGLSRLSHGLTFEGLELPPGKVS 210 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + L+ + +++ + +V + R+ G L + G+ R + Sbjct: 211 WQNE----TRLRFALKGPRPGQLRAMCTQVGLEVVSIRRLRIGRIPLAKMPPGAWRYLPV 266 Query: 239 KI 240 Sbjct: 267 GE 268 >gi|23007931|ref|ZP_00049587.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 179 Score = 114 bits (285), Expect = 2e-23, Method: Composition-based stats. Identities = 94/158 (59%), Positives = 113/158 (71%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 +R++K IARAGIASRR+ E +I RV +NG +L A+NV +D I VDG PL E Sbjct: 20 EGERIAKAIARAGIASRRDAEALIEAGRVTLNGQVLTSPAINVTDSDRITVDGEPLPARE 79 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RTRLWL HKP G+VTT DP+GR TVFD LP RV+++GRLDINTEGLLLLTNDGGLA Sbjct: 80 RTRLWLLHKPRGVVTTARDPEGRQTVFDGLPEELPRVVAIGRLDINTEGLLLLTNDGGLA 139 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 +V+ P T WLR YRVR G V Q L+ LKKG+ + G Sbjct: 140 KVIAHPDTGWLRRYRVRAFGDVTQADLDKLKKGVTVDG 177 >gi|146306738|ref|YP_001187203.1| RNA-binding S4 domain-containing protein [Pseudomonas mendocina ymp] gi|145574939|gb|ABP84471.1| RNA-binding S4 domain protein [Pseudomonas mendocina ymp] Length = 236 Score = 114 bits (285), Expect = 2e-23, Method: Composition-based stats. Identities = 52/243 (21%), Positives = 84/243 (34%), Gaps = 23/243 (9%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE + I + V+G ++E V + G L Sbjct: 2 SEPTRLSKRVIELLGCSRREADLYITGGWISVDGQVVEAPQFKVGDQRVELLPGANLEPV 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L ++ L+ + L F R L GL++ Sbjct: 62 EPVTLLVHCPTGTSAAQLQHLLVHERHWEEDPHARRVLHGHFLRQEQSLPLQNGASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ D R L + + Y V G++ L LKKG+V +G + + + +++ Sbjct: 122 LSQDWRAQRKLREDGAKLEQEYLVDVAGELPASALERLKKGLVHKGTQFPPCKASWQSEQ 181 Query: 184 GSNAWVTVGLREGKN------REIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + L KN R+I KV + RI G + L G R + Sbjct: 182 R----LRFAL---KNPAPDLLRQI---CAALGLKVLGMKRIRIGGVPMAKLPVGQWRYLG 231 Query: 238 KKI 240 K Sbjct: 232 DKE 234 >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 = 114 bits (285), Expect = 2e-23, Method: Composition-based stats. Identities = 36/210 (17%), Positives = 71/210 (33%), Gaps = 3/210 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTR 74 + +++ G +R+ ++I V V G ++ + E Sbjct: 6 LDRLLQSQGFGTRKWCRQLIDDGEVSVAGTVVTDYRTAFEPDGLTFRLFDEDWDFHEHVF 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L+ P + + V VGRLD +T GLLL+++ G Sbjct: 66 VALHKPPNFECSRKPSHHPGVLSILPENFTWRDVQPVGRLDHDTTGLLLMSDHGPFIHAQ 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P + +VY V + + LL G+ + V + + + L Sbjct: 126 SSPKSHIPKVYIATTAEAVTPELVALLLAGVQLHDEPAPLAAVRCSMVD--SHRIEIVLE 183 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 +GK ++K++ L R++ G Sbjct: 184 QGKYHQVKRMLAAAGNHCAALQRVAIGQLT 213 >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 = 114 bits (285), Expect = 2e-23, Method: Composition-based stats. Identities = 65/198 (32%), Positives = 91/198 (45%), Gaps = 8/198 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ N + P+R+ K++A+ GI SRR++E I Q RVKVNG + D I Sbjct: 1 MRRANQNNDKN-PERLQKLLAKYGIGSRRKIEEYIEQGRVKVNGKVAT-LGDKASEADKI 58 Query: 61 EVDGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 D L + + + + T+ + D ++ SR I VGRLD Sbjct: 59 SFDSKALHSYGQPMTRPRVVIYHKREGEVCTSKDEKDRQTVFDSLPKLAKSRWIMVGRLD 118 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGD 174 INT GLLL T DG LA L PS Q R Y VR GQ + +N LK+GI ++ Sbjct: 119 INTTGLLLFTTDGDLANRLMHPSYQIEREYAVRVFGQQLSDETINKLKEGIQLEDGIAKF 178 Query: 175 MQVTLDTQKGSNAWVTVG 192 + +G+N W V Sbjct: 179 NSIKFSGGEGANLWYYVT 196 >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 = 114 bits (285), Expect = 2e-23, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A SRRE E I V V+G ++E V+ + G Sbjct: 2 TDPIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQRVELLPGARAETI 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ GL+ + L F+R LD GL++ Sbjct: 62 EPATLLLHKPAGWRHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G + L L+ G+ QG +V+ + Sbjct: 122 FSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQGRRLSPCKVSWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L++ +++ + E +V + R+ G L L G R + Sbjct: 181 ---SHLRFALKDVLPGQLRFMCESEGLEVRSIRRLRIGALPLARLPLGEWRYLGLHE 234 >gi|145348269|ref|XP_001418577.1| predicted protein [Ostreococcus lucimarinus CCE9901] gi|144578806|gb|ABO96870.1| predicted protein [Ostreococcus lucimarinus CCE9901] Length = 230 Score = 114 bits (284), Expect = 2e-23, Method: Composition-based stats. Identities = 61/230 (26%), Positives = 100/230 (43%), Gaps = 19/230 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLR----- 68 R+SK +A G+ASRR + +I RVKVNG + V D + VDG + Sbjct: 1 RLSKALASLGVASRRGADDLIFGGRVKVNGETVTAPQTKVNLNADVVMVDGKIVEGGVNF 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV------------ISVGRLDI 116 E L + +T S+ TV+D +VGRLD+ Sbjct: 61 VKEHAYFMLNKPKGFVCSTKSNSAQGKTVYDLFEQWRDEFKAAYPGKLPPRLFTVGRLDV 120 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 T GLLLLT DG ++ + PS++ ++ Y V + + + ++ + KG + G ++ Sbjct: 121 ATTGLLLLTTDGDWSQRVAHPSSEVVKQYVVTANNKPTRAQIAAMAKGTEVDGARVVPVR 180 Query: 177 VTLDTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 V G A + V + +G+NRE++ + V L R G ++ Sbjct: 181 VESMGADGGPANRILVEVVDGRNREVRVLCADAGVDVKNLKRTRVGGLRM 230 >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 = 114 bits (284), Expect = 2e-23, Method: Composition-based stats. Identities = 51/250 (20%), Positives = 87/250 (34%), Gaps = 26/250 (10%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKA 70 P R++K +A SRRE E+ I V V+G+++E V IE+ L Sbjct: 2 EPVRLAKRLAEMLSCSRREAEQYIEGGWVTVDGVVVEEPQFRV-LDQTIELSKDASLLAL 60 Query: 71 ERTRLWLYHKPIG-----------------LVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 L L+ L+ + + L FS V Sbjct: 61 APVTLLLHKPAGHEAGLDAPAGRGVPSAAELLVAANQSPDDRSGIRPLKKHFSAAELVTP 120 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVIQGI 170 L GL++ T D +AR L + V G++ ++LN + G G+ Sbjct: 121 LATAASGLVVFTQDWRVARKLREDAGVLEHEVIVEVTGEIKPGGLERLNRIDHGFTFNGV 180 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V+ S A + L+ + +I + E +V + R+ G + L + Sbjct: 181 LLPPAKVSWQ----SEARLRFALKGERPGQIAYMCESVGLRVEAMKRLRIGRVPMSNLQS 236 Query: 231 GSTREVSKKI 240 G R + Sbjct: 237 GRWRYLLPHE 246 >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 = 114 bits (284), Expect = 3e-23, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A SRRE E I V V+G ++E V+ + G Sbjct: 2 TDPIRLSKRLAELTACSRREAELYIEGGWVSVDGEVIEEPQFKVLDQRVELLPGARAETI 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ GL+ + L F+R LD GL++ Sbjct: 62 EPATLLLHKPAGWRHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G + L L+ G+ QG +V+ + Sbjct: 122 FSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQGRRLSPCKVSWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L++ +++ + E +V + R+ G L L G R + Sbjct: 181 ---SHLRFALKDVLPGQLRFMCEREGLEVRSIRRLRIGALSLARLPLGEWRYLGLHE 234 >gi|325181472|emb|CCA15906.1| ribosomal large subunit pseudouridine synthase F put [Albugo laibachii Nc14] Length = 246 Score = 114 bits (284), Expect = 3e-23, Method: Composition-based stats. Identities = 59/235 (25%), Positives = 104/235 (44%), Gaps = 25/235 (10%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A + SRR+ ER I+ V VNG +++ + + +E G ++ ++ + + Sbjct: 1 MAERKMCSRRDAERYISAGDVYVNGEQIQQDWIKIPRDSCVEFSGKAVKAEKQKVSVILN 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---------------VGRLDINTEGLLLL 124 KP+G V++ +P + + ++ + GRLDIN+ GLLL Sbjct: 61 KPLGYVSSQPEPMRKPAIELLSIQNAFQLTARWYGKEPKSLSKLAVCGRLDINSTGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVR------FHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 T DG LA+ + P+ + Y VR + ++ ++ L++G + ICY V Sbjct: 121 TQDGVLAKQILDPNGGVEKEYLVRVDMDLERDTKQAEEVVDKLREGFIWNDICYRARSVR 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + L EGK R I+ + E KV L R+ G +LG L G+ Sbjct: 181 VLNANQ----LQFILTEGKKRHIRYMCEAVGIKVIALKRVRIGNIRLGALPVGNF 231 >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 = 114 bits (284), Expect = 3e-23, Method: Composition-based stats. Identities = 50/241 (20%), Positives = 91/241 (37%), Gaps = 7/241 (2%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTD--HIEV 62 + + RV +++ G SR E+ R+ + ++G L + V +E+ Sbjct: 1 MSKKIPTSRVDQLLGSMGYGSRAEMARLGKAGGIVLDGADLTDVSKRIPVTPDLPGRMEI 60 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGL 121 DG PL + L + D + D + ++GRLD T GL Sbjct: 61 DGEPLDPVAGLVVLLNKPLGMTCSHKEDGALVYDVLPDRWRRRDPAISTIGRLDKQTSGL 120 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT 181 LLLT+DG L + P +VYR ++ + L G ++ + + Sbjct: 121 LLLTDDGDLLHRVISPKRHVAKVYRATLARPLNGTEGALFASGELVLEGEDKPLAPAVLE 180 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 S + + EG+ +++++F V L R G L L G R +++ Sbjct: 181 V-VSPTEALLTVTEGRYHQVRRMFAAAGNHVEALHRERLGGLVLPDELAPGEWRLLTEDE 239 Query: 241 L 241 + Sbjct: 240 I 240 >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 = 114 bits (284), Expect = 3e-23, Method: Composition-based stats. Identities = 45/233 (19%), Positives = 85/233 (36%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMST--DHIEVDGVPLRKA 70 R+ +++ G SR ++ RM + ++ + A V + V PL Sbjct: 8 RIDQLLGSLGYGSRGDIARMAKSGWITLDDARIWDATTRIAVTPDLPARMVVSREPLDPL 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L+ + D + D + +VGRLD T GLLLLT+DG Sbjct: 68 AGMVILLHKPLGMTCSHKEDGPLVYDILPDRWKRRQPVISTVGRLDKQTSGLLLLTDDGP 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P + YR ++ ++ + G ++ + S Sbjct: 128 LLHRIISPKQHIKKTYRATLARPLEGNEAAIFAAGDLVLQGEDKPLAPAELRV-ISPTEA 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + EG+ +++++F V L R + G L L+ G R + + Sbjct: 187 VLTVTEGRYHQVRRMFAATGNHVTALHRDALGGLVLPDDLMPGQWRIIDGAQI 239 >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 = 114 bits (284), Expect = 3e-23, Method: Composition-based stats. Identities = 46/177 (25%), Positives = 74/177 (41%), Gaps = 3/177 (1%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E L ++ + T D L VGRLDI+TEG LL+TND Sbjct: 2 EYKEFVYLMMHKPQGVISATEDDNHETVIDLLELEDAIFDPFPVGRLDIDTEGFLLITND 61 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSN 186 G L+ L P + Y G V ++ + KG+++ +T+ + Sbjct: 62 GKLSHQLLSPKKHVPKKYYAHVAGVVTEEDVKEFAKGVILDDGYETKPGTLTIL-KSDDI 120 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 + + + + EGK ++K++FE KV L R GP L L G RE++ + + Sbjct: 121 SEIELVITEGKFHQVKRMFEAVGKKVVYLKRTEMGPLVLDEELELGQYRELTDEEVE 177 >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 = 113 bits (283), Expect = 3e-23, Method: Composition-based stats. Identities = 50/238 (21%), Positives = 78/238 (32%), Gaps = 15/238 (6%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + T R+SK + G+ SRRE + I Q VKV+G ++ V I + G P Sbjct: 2 DETSVRLSKRMVELGLCSRREADACIEQGLVKVDGKVVNTLGARVRPEQQITLAGKPQAM 61 Query: 70 AERTRLWLYH-------KPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 A L + P L+ S L + +VG +D GLL Sbjct: 62 ATLPVTMLLNRPAGEEAPPAQLLGPDSRAPQDGAEQVWLARHRQHLTAVGAVDERCHGLL 121 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LT D + L + + ++ D L I + G +++ + Sbjct: 122 VLTQD----KKLPRHLAECEMEFLLQVEQAPAADALKARVAAIRLDGKPLRQCKISRQSD 177 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 V R G EI + + I G L L G R + Sbjct: 178 HQLRCAVY-APRAGFFAEISR---QLGVSLQSARCIRIGRLALAGLQPGQWRYLQPFE 231 >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 = 113 bits (283), Expect = 4e-23, Method: Composition-based stats. Identities = 49/237 (20%), Positives = 88/237 (37%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A A SR E + I V V+G+++E + D L A Sbjct: 2 SDPIRLDKCVAAAFGCSRGEAQHYIEGGWVSVDGVVVEEPQALATAAQITLADDAVLSPA 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ L T + + L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGVSVEAALALATPTTRSALDQSDIRVLKRHFLRLTAPLPLENAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L++DG + R L ++ + + V G V + L G+V Q +V+ + Sbjct: 122 LSHDGRVLRRLSADASSIEQEFLVEVQGDVRPYGMARLAHGLVYQQRSLLPCKVSWQNED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKNVQPGQLRYMCGEVGLEVVSIRRLRVGRVSLGKLAIGEWRYLPTGE 234 >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 = 113 bits (282), Expect = 5e-23, Method: Composition-based stats. Identities = 65/287 (22%), Positives = 108/287 (37%), Gaps = 24/287 (8%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER------------TRL 75 RRE + ++ RV VNG L+ + V+ D + +DG + Sbjct: 106 RREADDAVSAGRVLVNGELVR-PSRRVVHGDVVTLDGKAMDWEPYAQSVESELGDARFVY 164 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTNDGGL 130 Y+KP G+V T SD + S R+ VGRLD ++ GL+LLTNDG + Sbjct: 165 LKYNKPRGVVCTMSDTERTSMFHALHHERKALGKDVRLFPVGRLDKDSSGLVLLTNDGRV 224 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQKG 184 + L P + + Y V V + L +G+VI + + K Sbjct: 225 SDALLDPERKAEKTYDVDVDRIVSEADARTLARGVVISTTQQRDLKETVAATLPCEVTKT 284 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L+EG+NR+I+K+ E ++ V RL R LG L G + + + Sbjct: 285 GEKSLRFVLKEGRNRQIRKMCEVLSYDVERLHRTRIDDVALGDLEVGGVAPLDEDEVNAL 344 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 + + S R + ++++S Sbjct: 345 SARVDARASTPRESSKHTSESRRRRRAIDANPGGWGAKMFKERDASA 391 >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 = 112 bits (281), Expect = 6e-23, Method: Composition-based stats. Identities = 46/248 (18%), Positives = 90/248 (36%), Gaps = 20/248 (8%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRK 69 +R++K +A SRRE E+ I V VNG ++E V +EVD L Sbjct: 14 EGERLAKRVAEMVPCSRREAEQYIEGGWVSVNGQVVEEPMFRVS-DQRVEVDPDASLLEL 72 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRS-----------------TVFDNLPSIFSRVISVG 112 + T L + + + L F+++ + Sbjct: 73 SAVTLLLHKPPGFDAMAAPGQANRHVKSAQQLLSAATHATDDASGVRLLKRHFAKLTACV 132 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 L+ GL++ T D + R L + + V G+V L + +G+ + G Sbjct: 133 PLETAASGLVVFTQDWRVLRKLTEDAQLMEQEVIVEVAGEVPAQSLQRINQGLAVDGQPL 192 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 ++V+L++ +++ + L+ I + E ++ + R+ G + L G Sbjct: 193 PAVKVSLNSTGETSSKLRFALKGSHPGLIAYLCERLGLQIVSMKRLRIGRVSMTQLPLGQ 252 Query: 233 TREVSKKI 240 R + Sbjct: 253 WRYLQAHE 260 >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 = 112 bits (281), Expect = 6e-23, Method: Composition-based stats. Identities = 48/237 (20%), Positives = 88/237 (37%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K IA A SR E ++ I V V+G+++E + + L A Sbjct: 2 SDPIRLDKCIAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQTLATAAQVTLAENAVLAPA 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV-------FDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ V +T L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGICVDAALALATPATRSALDQADVRVLKRHFLRLHAPLPLEDAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L ++ + + V G++ + L G+V Q +V+ + Sbjct: 122 LSQDGRVLRRLSADASAIEQEFLVEVRGELRPYGMARLAHGLVYQHRSLSPCKVSWQNED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKHVQPGQLRYMCGEVGPEVVSIRRLRVGRVSLGKLAIGEWRYLPAGE 234 >gi|146282670|ref|YP_001172823.1| pseudouridine synthase [Pseudomonas stutzeri A1501] gi|145570875|gb|ABP79981.1| pseudouridine synthase [Pseudomonas stutzeri A1501] Length = 297 Score = 112 bits (281), Expect = 6e-23, Method: Composition-based stats. Identities = 68/296 (22%), Positives = 113/296 (38%), Gaps = 21/296 (7%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + T + + R I++GRLDINT GLLL T DG LA L Sbjct: 2 LIYNKPDGEICTRNDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLLFTTDGELANRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSNAWVTVGL 193 PS + R Y VR G+VD + + LK G++++ + +G N W + Sbjct: 62 MHPSYEMDREYAVRVRGEVDDEMIERLKTGVMLEDGPARFTDIQEAPGGEGFNHWYHCVV 121 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL----------- 241 EG+NRE+++++E V+RL R+ +GP + L G RE+S+ + Sbjct: 122 MEGRNREVRRLWESQGLVVSRLKRVRFGPVFMTSDLPMGRWREMSQAEVDILSEEVGLKP 181 Query: 242 --------REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 + + ++ ++R V D + + S++ Sbjct: 182 VALPSMKAKTKEKIDRMQRKVAKPLGRGERRSRVLRPAHEADMPVADKPRAARDDKSERK 241 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 K TPV R + + S ++ + P F +RS R Sbjct: 242 PRGSDKPRGTPVAERPGDTRKGGKRHEGGGRSSGPARKPAGEGQRPGFGRERSKRP 297 >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 = 112 bits (281), Expect = 7e-23, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 88/237 (37%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A A SR E ++ I V V+G+++E + + L A Sbjct: 2 SDPIRLDKCVAAAFGCSRGEAQQYIEGGWVSVDGVVVEEPQTLATAAQVTLAENAVLAPA 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTV-------FDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ V +T L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGICVDAALALATPATRSALDQADVRVLKRHFLRLHAPLPLEDAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L ++ + + V G++ + L G+V Q +V+ + Sbjct: 122 LSQDGRVLRRLSADASAIEQEFLVEVRGELRPYGMARLAHGLVYQQRSLSPCKVSWQNED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKHVQPGQLRYMCGEVGLEVVSIRRLRVGRVSLGKLAIGEWRYLPAGE 234 >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 = 112 bits (281), Expect = 7e-23, Method: Composition-based stats. Identities = 63/258 (24%), Positives = 100/258 (38%), Gaps = 32/258 (12%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-- 64 + E+ R+SK ++ G+ SRRE + I + V V+G + V IE+ Sbjct: 372 LAESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEILPAA 431 Query: 65 -------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 P+ Y L T + + T + Sbjct: 432 RSEQGERVTVLLHKPVGYVSGQAEDGYEPAAALFTAENQWEEDPTRKHFAAWQHKGLAPA 491 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKL 158 GRLDI++ GLL+LT DG +AR L + + Y VR +D L Sbjct: 492 GRLDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWNAPQGPVEHDISKVFPEDLL 551 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 +L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 552 EMLRHGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLEVVGLKRI 607 Query: 219 SYGPFQLGTLLAGSTREV 236 G LG L G R + Sbjct: 608 RMGSVVLGDLPVGKWRFL 625 Score = 37.9 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 6/111 (5%), Positives = 17/111 (15%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + + R R + + + Sbjct: 251 RFEDRPPRRFDDERPPRRSGDDQRPPRRFGDERPPRRFEDRPPRRFDDERPPRRSGDDQR 310 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P R D + P+ + + ++ Sbjct: 311 PPRRFEDRPPRRFDDERPPRRSGDDQRPPRRFEDRPARAPRPERDERAPQR 361 Score = 35.9 bits (81), Expect = 9.4, Method: Composition-based stats. Identities = 7/98 (7%), Positives = 19/98 (19%) Query: 257 LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWM 316 D DD ++ ++ + + Sbjct: 248 PPRRFEDRPPRRFDDERPPRRSGDDQRPPRRFGDERPPRRFEDRPPRRFDDERPPRRSGD 307 Query: 317 AKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + F +R ++ R + R + Sbjct: 308 DQRPPRRFEDRPPRRFDDERPPRRSGDDQRPPRRFEDR 345 Score = 35.9 bits (81), Expect = 10.0, Method: Composition-based stats. Identities = 10/101 (9%), Positives = 17/101 (16%), Gaps = 2/101 (1%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + P R D+ + Q+ + + Sbjct: 261 DDERPPRRSGDDQRPPRRFGDERPPRRFEDRPPRRFDDERPPRRSGDDQRPPRRFEDRPP 320 Query: 303 TP--VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF 341 R S R E R+P Sbjct: 321 RRFDDERPPRRSGDDQRPPRRFEDRPARAPRPERDERAPQR 361 >gi|239813882|ref|YP_002942792.1| RNA-binding S4 domain protein [Variovorax paradoxus S110] gi|239800459|gb|ACS17526.1| RNA-binding S4 domain protein [Variovorax paradoxus S110] Length = 237 Score = 112 bits (280), Expect = 7e-23, Method: Composition-based stats. Identities = 40/232 (17%), Positives = 76/232 (32%), Gaps = 1/232 (0%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 R++K +A SRRE E +I V+V+G+ V + +E++ Sbjct: 5 SEEEGIRLAKRVAAIAGCSRREAELLIENGAVRVDGVPALLPQSRVHAHQKVEIEPGAKP 64 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + L HKP G+ T + + R + L G Sbjct: 65 EPVVPVTLLLHKPAGMATDTAHRLLVAANHHEPERAGMRFLPAHAKAQRCMTPLETGASG 124 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + E + L+ +V D L +++ +V++ Q Sbjct: 125 LVVYTQEWRIERKLQEDAGVLEHEVMVDVSGKLSPEQLVRFER-SPARVSIGRQADEQTG 183 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L+ + +I + + ++ + RI G L L G R +S Sbjct: 184 LRFALKGARPGQIAHLCDEAGLRILAMRRIRIGRVPLAGLEPGQWRYLSPHE 235 >gi|319791604|ref|YP_004153244.1| RNA-binding s4 domain protein [Variovorax paradoxus EPS] gi|315594067|gb|ADU35133.1| RNA-binding S4 domain protein [Variovorax paradoxus EPS] Length = 241 Score = 112 bits (280), Expect = 7e-23, Method: Composition-based stats. Identities = 43/250 (17%), Positives = 82/250 (32%), Gaps = 21/250 (8%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK+ N + R++K +A SRRE E +I V+V+G+ V + + Sbjct: 1 MKNNN--APDDEGIRLAKRVAALAGVSRREAELLIENGAVRVDGVPAVLPQSRVQAHQQV 58 Query: 61 EV-DGVPLRKAERTRLWLYHKPIGLVTTHS-------DPDGRSTVFDNLPSIFSRVISVG 112 E+ G + LY + LP+ + Sbjct: 59 EIAAGAKPEPVVPVTMLLYKPAGMPTDNAHRLLVAANHHEPERAGQKFLPAHLKGQHCMT 118 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 L+ GL+ T + + R L+ + V G V + L ++ Sbjct: 119 PLETGASGLVAYTQEFRIERKLQEDAGILEHEVMVDVAGTVSPEVLMRFERS-------- 170 Query: 173 GDMQVTL--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +V++ + G + L+ + +I + + + + RI G L L Sbjct: 171 -PARVSIGRQAEDGKQTGLRFALKGARPGQIAHLCDQMGLTIVAMRRIRIGRVPLAGLQP 229 Query: 231 GSTREVSKKI 240 G R ++ Sbjct: 230 GQWRYLAPHE 239 >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 = 112 bits (280), Expect = 7e-23, Method: Composition-based stats. Identities = 46/237 (19%), Positives = 87/237 (36%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A SR E ++ I V VNG+++E + L A Sbjct: 2 SDPIRLDKCVAAQFGCSRGEAQQYIEGGWVSVNGVVVEEPQALATAAQVELAADAVLEPA 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDN-------LPSIFSRVISVGRLDINTEGLLL 123 E L L+ ++ + L F R+ + L+ + GLL+ Sbjct: 62 EPATLLLHKPAGMTAAAAVALAKPASRSELDNAELRVLKRHFLRLNAPLPLEDDASGLLV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L ++ + + V G++ + L G+V Q +V+ ++ Sbjct: 122 LSQDGRVLRRLTADASSIEQEFLVEVRGELRPYGMARLAHGLVYQQRSLPPCKVSWQNEE 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + V L R+ G LG L G R + Sbjct: 182 R----LRFAIKHVQPGQLRYMCGEVGLDVVSLRRLRVGRVSLGKLAIGQWRYLPAGE 234 >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 = 112 bits (280), Expect = 7e-23, Method: Composition-based stats. Identities = 55/241 (22%), Positives = 97/241 (40%), Gaps = 29/241 (12%) Query: 14 QRVSKVIARAGIASRREVE-----------RMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K IA SR EV+ R+I + +K++ D +E+ Sbjct: 4 IRIEKYIADLTNLSRNEVKNKLKKKAIKVNRVILTKLIKID-----------SEKDVVEL 52 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 D L+ + + + T+FD + + S GRLD +TEGLL Sbjct: 53 DNSILKYEKFQYYMFNKPANFICANSDSEEA--TIFDIVGLPAEKFFSFGRLDKDTEGLL 110 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +L+NDG + L P + Y V+ ++D + L I I + + Sbjct: 111 ILSNDGQMCHRLLSPKNHVPKKYYVKVDKKIDSEILLN-HSPIKINDD---FIVSKYILE 166 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + + EGK +IK++F + V L R+ +G +L L G R++S+ + Sbjct: 167 LIDDKGCFLTIYEGKFHQIKRMFGSLGFSVLYLKRVEFGKLKLDNNLKLGQVRKLSEDEV 226 Query: 242 R 242 + Sbjct: 227 K 227 >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 = 112 bits (280), Expect = 8e-23, Method: Composition-based stats. Identities = 47/229 (20%), Positives = 85/229 (37%), Gaps = 5/229 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K++A G SR+E++ I V + G L+ A I D PL A Sbjct: 1 MRLVKLLANLGYGSRKEMQVAIRNGWVTDLKGNRLKADAKTAHED--ILFDDEPLDPAHG 58 Query: 73 TRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + + + D + ++GRLD T G LL T+DG Sbjct: 59 VVILMNKPLGYTCSIKDQGRLVYDLLPDRFRMRKPVLSTIGRLDKETSGALLFTDDGTFL 118 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + P ++ ++Y V + D+ L G ++ ++ + Sbjct: 119 HRVISPKSEVPKIYEVALDRPMKGDEGALFASGDMMLESEDKPLKPAELEV-IDETHARL 177 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 L EG+ +++++F V L R G L L G + +S++ Sbjct: 178 TLHEGRYHQVRRMFAATGNHVTDLTRSHIGGLGLEGLEEGQWKVLSEEE 226 >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 = 112 bits (279), Expect = 9e-23, Method: Composition-based stats. Identities = 58/220 (26%), Positives = 84/220 (38%), Gaps = 4/220 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERA-AVNVMSTDHIEVDGVPLRKAERTR 74 + +++ G SR E ++ RV V G + A VDG P Sbjct: 3 LERLLRSQGFGSRAECRGLVCTGRVSVEGRVCNDPLAQFEPEGLSFAVDGQPWAYRRFVY 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + +P + V +VGRLD +T GLLLLT+DG Sbjct: 63 LALNKPAGHECSRRPIHYPSVFSLLPIPLVRRGVQAVGRLDADTTGLLLLTDDGAFIHAC 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VY V VD ++ L G+V+ M D Q + +TV L Sbjct: 123 TSPRRMVPKVYEVSTRHAVDDGQVAALLSGVVLHDESQAIMAAACDRQGERSLRLTVTL- 181 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGST 233 GK +K++ +V L R++ G L TL AG Sbjct: 182 -GKYHLVKRMVAAAGNRVEALHRVAIGGLALPATLAAGRW 220 >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 = 112 bits (279), Expect = 1e-22, Method: Composition-based stats. Identities = 63/255 (24%), Positives = 100/255 (39%), Gaps = 32/255 (12%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+SK ++ G+ SRRE + I + V V+G + V + +IE+ Sbjct: 442 IRLSKRMSELGLCSRREADEWIPRGWVIVDGKPVTELGSRVRADANIEIHQAARSEQGER 501 Query: 64 -----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P+ Y L T + T P + GRLDI++ Sbjct: 502 VTVLLHKPMGYVSGQAEDGYEPAAVLFTAENQWSEDPTRKRFAPWQRKSLAPAGRLDIDS 561 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLNLLKKGI 165 GLL+LT DG +AR L + + Y VR DKL LL+ G+ Sbjct: 562 TGLLVLTQDGRVARALIGEDSNVEKEYLVRVQWHSPDGVVERNVSEVFPADKLELLRHGL 621 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + G+ +V+ ++ + LREG+ R+I+++ E +V L R+ G L Sbjct: 622 SLDGVVLKPAKVSWQNEEQ----LRFVLREGRKRQIRRMCEQVGLEVVGLKRVRMGRIVL 677 Query: 226 GTLLAGSTREVSKKI 240 G L G R + Sbjct: 678 GDLPPGQWRFLGPFE 692 Score = 36.7 bits (83), Expect = 5.9, Method: Composition-based stats. Identities = 8/103 (7%), Positives = 22/103 (21%) Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 EA+ + + R + + + ++ +R Sbjct: 305 EARPRRFSDDNRPQRPRRPEGGEQPQRRFRDDESRPRRFGDDEARPRRFSDDNRPQRPRR 364 Query: 312 SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 +R + R P + R + + Sbjct: 365 PEGGEQPQRRFRDDESRPRRFGDDDRQRRAPDAGARRGDAPAR 407 >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 = 112 bits (279), Expect = 1e-22, Method: Composition-based stats. Identities = 57/212 (26%), Positives = 97/212 (45%), Gaps = 9/212 (4%) Query: 33 RMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPD 92 +++AQ R+ ++G+ E + V H+ +D + +AE+ R + +KP G+V+ D Sbjct: 3 QLLAQGRILLDGLAAESISQVVGPFTHVVLD-QRVLQAEQPRYIMLNKPPGMVSATCDEQ 61 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 + + + VGRLD N+ GLLLLTNDG +R + P ++ YRV+ Sbjct: 62 HSTVLDLVSAPNAKSLHIVGRLDFNSTGLLLLTNDGRWSRGVSSPQKGVVKTYRVQLEQP 121 Query: 153 VDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 D + I ++ + V EG+ +IK++F +FN Sbjct: 122 FRSDYREAFAAGLYFAFENITTRPAEIRRLSDLSRGRSV-----EGRYHQIKRMFGYFNN 176 Query: 211 KVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 +V L R+S G L L G+ RE++ L Sbjct: 177 RVLNLHRLSIGALSLDPKLHQGAWRELTLSEL 208 >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 = 111 bits (278), Expect = 1e-22, Method: Composition-based stats. Identities = 53/215 (24%), Positives = 89/215 (41%), Gaps = 7/215 (3%) Query: 47 LERAAVNVMSTDH--IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + + + I VDG PL R L L + T + + + Sbjct: 2 VHDPEYPIRADQQSSITVDGQPLAGPARCYLMLNKPRGVVTTVRDEQGRDTVYRCFDGAG 61 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 + VGRLD +EGLLL +ND A + P+T + Y V+ + ++L L+ G Sbjct: 62 LPWIAPVGRLDKASEGLLLFSNDPQWAAAVTDPATGPDKTYHVQIDCRPSAEQLAQLRAG 121 Query: 165 IVI-----QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 +V G V + + NAW+ + L EG+NR+I+++ V RL+R++ Sbjct: 122 VVDPDPEGDGALLRAKHVGVLREGERNAWLEIVLDEGRNRQIRRLLAALEIGVLRLVRVA 181 Query: 220 YGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 G +G L G+ R +S + +R Sbjct: 182 IGALAMGELGKGAWRMLSAEEVRALTAAPASAPDA 216 >gi|49081944|gb|AAT50372.1| PA1110 [synthetic construct] Length = 237 Score = 111 bits (278), Expect = 1e-22, Method: Composition-based stats. Identities = 50/237 (21%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK +A SRRE E I V V+G ++E V+ + G Sbjct: 2 TDPIRLSKRLAELTACSRREAELHIEGGWVSVDGEVIEEPQFKVLDQRVELLPGARAETI 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ GL+ + L F+R LD GL++ Sbjct: 62 EPATLLLHKPAGWRHDDFEGLLAAGRRWSDDPSPLRALKKHFARQRPTLALDSEASGLVV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G + L L+ G+ QG +V+ + Sbjct: 122 FSQQHGVLRKLVDDGARLEQEYLVEVAGDLAAGGLERLRHGLAYQGRRLSPCKVSWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L++ +++ + E +V + R+ G L L G R + Sbjct: 181 ---SHLRFALKDVLPGQLRFMCEREGLEVRSIRRLRIGALSLARLPLGEWRYLGLHE 234 >gi|323253055|gb|EGA36888.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] Length = 171 Score = 111 bits (278), Expect = 1e-22, Method: Composition-based stats. Identities = 40/171 (23%), Positives = 76/171 (44%), Gaps = 7/171 (4%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP G V + DPD + ++ + ++ + GRLDI+T GL+L+T+DG + Sbjct: 1 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTV 191 + P + Y V V D KG+ + + + + V + Sbjct: 61 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVI----TPVQVRL 116 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 117 TISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 167 >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 = 111 bits (278), Expect = 1e-22, Method: Composition-based stats. Identities = 43/168 (25%), Positives = 77/168 (45%), Gaps = 3/168 (1%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + + T D +L + VGRLD +TEGLL+LTNDG L+ + Sbjct: 1 MNKPDGYISATTDKYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKLSHRVLS 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLRE 195 P + Y + G V ++ + +G+V+ Q+ + + + + + + E Sbjct: 61 PKKHVPKTYYAKIDGVVTEEDVEAFLEGVVLDDGYKTMPSQLNIL-KSDDESEIELTIHE 119 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 GK ++K++FE KV L R+S G +L L G RE++ + ++ Sbjct: 120 GKFHQVKRMFESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEVK 167 >gi|309792033|ref|ZP_07686509.1| pseudouridine synthase [Oscillochloris trichoides DG6] gi|308225926|gb|EFO79678.1| pseudouridine synthase [Oscillochloris trichoides DG6] Length = 637 Score = 111 bits (278), Expect = 1e-22, Method: Composition-based stats. Identities = 80/295 (27%), Positives = 122/295 (41%), Gaps = 2/295 (0%) Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 D IEVDG P+RK + +KP+G V+T DP GR TV +L + +RV VGRLD++ Sbjct: 6 DVIEVDGQPVRKPTTRTYLVLNKPVGFVSTVDDPQGRPTV-VDLVDVPARVYPVGRLDVD 64 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 +EGLLLLT+DG L L P + + YR +D + L ++G+++ G V Sbjct: 65 SEGLLLLTDDGELTHQLTHPRFEIEKEYRALLDRPLDTEALRQWREGVLLNGEPTAPAWV 124 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 L W V LREG+ R+I++V ++V RLIR+ G LG L + R ++ Sbjct: 125 DLLETTAEGPWFRVVLREGRKRQIREVARLLGYEVLRLIRVREGDLLLGDLPLRAWRPLT 184 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + + + + E D + ++ G + Sbjct: 185 EDEVAALRAHVAVRRESGERMDVGGKRQAAAGRGEPRREESRRDDSSPRREDGPPRGRGE 244 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLS-DSGQREENHRRSPSFPSKRSLRRTS 351 ++ P R F D R R P +R R S Sbjct: 245 FRREDGPPRGRGEFRREDGPPRGRGEFRREDGPPRGRGEFRREDGPPRRDEGRGS 299 Score = 37.5 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 14/108 (12%), Positives = 24/108 (22%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE P E + P E D P + + ++ Sbjct: 247 REDGPPRGRGEFRREDGPPRGRGEFRREDGPPRGRGEFRREDGPPRRDEGRGSYGAPRRE 306 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 P R + + + +RE+ R R Sbjct: 307 DGPPRRDEGRGSYGAPRRDEGRGGYGAPRREDGPPRRDEGRGGYGAPR 354 >gi|300691607|ref|YP_003752602.1| pseudouridine synthase [Ralstonia solanacearum PSI07] gi|299078667|emb|CBJ51325.1| Pseudouridine synthase [Ralstonia solanacearum PSI07] Length = 641 Score = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 62/256 (24%), Positives = 98/256 (38%), Gaps = 32/256 (12%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---- 64 E+ R+SK ++ G+ SRRE + I + V V+G + V IE+ Sbjct: 384 ESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEILPAARS 443 Query: 65 -----------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 P+ Y L T + + T + GR Sbjct: 444 EQGERVTVLLHKPVGYVSGQAEDGYEPAAALFTAENQWEEDPTHKRFAAWQHKGLAPAGR 503 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLNL 160 LDI++ GLL+LT DG +AR L + + Y VR ++ L Sbjct: 504 LDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDVSKVFPEELLEK 563 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 564 LRHGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLEVVGLKRIRM 619 Query: 221 GPFQLGTLLAGSTREV 236 G LG L G R + Sbjct: 620 GRVVLGDLPVGKWRFL 635 >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 = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 44/168 (26%), Positives = 78/168 (46%), Gaps = 6/168 (3%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +HKP+G+ T +D + + + R+ VGRLD +EGL+LLTNDGG+A + Sbjct: 2 YIAFHKPVGITCTAADHIEDNIIDYI--NYPERIFPVGRLDKASEGLILLTNDGGIANQI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + Y V ++ + +G+ I+ +VT + + L Sbjct: 60 LHGDHEHEKEYVVTVDKPFTDWFIDEMSRGVKIKDGMTKPCKVTRV----DQSTFRIVLT 115 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G NR+I+++ F + V +L R+ +L L G R V+ + L Sbjct: 116 QGMNRQIRRMSRAFGFTVIKLKRVRIMNIELNELEVGKWRSVTAEELE 163 >gi|121595983|ref|YP_987879.1| RNA-binding S4 domain-containing protein [Acidovorax sp. JS42] gi|120608063|gb|ABM43803.1| RNA-binding S4 domain protein [Acidovorax sp. JS42] Length = 266 Score = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 51/268 (19%), Positives = 86/268 (32%), Gaps = 38/268 (14%) Query: 7 VQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + E+ P R+SK +A+ SR E+ I V V+G ++E V S + + Sbjct: 1 MTESSHPTDAVRLSKRVAQQFQCSRTTAEQYIEGGWVSVDGQVVELPGARVASAQSVVLA 60 Query: 63 -DGVPLRKAERTRLWLYHK-----------------------------PIGLVTTHSDPD 92 D P+ T L + L+ S Sbjct: 61 PDANPMELTPVTLLLHKPPGYEAGLGLVTGATHRAPGAHGSRSQGAPQAVALLNAQSHLP 120 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 + L F ++ L GL++ T D +AR L+ + V GQ Sbjct: 121 EDAAGTRVLLRHFKQLECFTPLPTEASGLVVYTQDRRVARKLQEDIETLEQECIVEVAGQ 180 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + L L G+ G ++V+ S + L+ + +I + E V Sbjct: 181 IADGGLQKLCHGLSFNGRPLPPIKVSWQ----SETRLRFALKGIRPGQIPAMCEAVGLSV 236 Query: 213 NRLIRISYGPFQLGTLLAGSTREVSKKI 240 + RI G L + G R + Sbjct: 237 RAIKRIRIGRVPLAKVPEGQWRYLQPWE 264 >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 = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 52/242 (21%), Positives = 93/242 (38%), Gaps = 16/242 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRK 69 P R++K +A SRRE E I V V+G L+E + V IE+ G ++ Sbjct: 2 TDPVRLAKRVAEQFGCSRREAELYIEGGWVTVDGELVEAPFLKVGPQQRIELQPGATAKE 61 Query: 70 AERTRLWLYHKPIGLVTTHS-----------DPDGRSTVFDNLPSIFSRVISVGRLDINT 118 L L+ + + + + + L R + LD + Sbjct: 62 IAPVTLLLHKPAELPIDSDNDGPRRALQASEHWADDPSRTEPLQRHLLRHTLLLPLDADA 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL +L+ + R+L + + Y V G+ ++ L LL KGI +G +V+ Sbjct: 122 SGLSVLSQQREVIRLLGDTRNKLEQEYVVEVSGEAEEGGLALLAKGIGHRGRILPKAKVS 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 ++ + V ++E E++ + E +V RI G + L G R + + Sbjct: 182 WQSENR----LRVVVKEPAPGEVRMLCEAIGLRVVASKRIRIGRLSMAKLPVGHWRFLGE 237 Query: 239 KI 240 Sbjct: 238 HE 239 >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 = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 55/238 (23%), Positives = 95/238 (39%), Gaps = 18/238 (7%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 +R+ V R GI++ R V R++ + V VNG + + + +TD + +DG+ A Sbjct: 7 ERLDTVFIRRGISTHRRVRRLLQKHNVCVNGTRVLESGFGLNLATDELSIDGIKKNLAPD 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--------VISVGRLDINTEGLLLL 124 L + K + +T D ++ F + +VGRLD +TEGLL+ Sbjct: 67 IYLMMNKKSGTICSTKDDGLYKTVYSFIPQKYFYYAKENSLQKIHTVGRLDTDTEGLLIF 126 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T +G + L P + Y V + ++ + +G + + Sbjct: 127 TTNGDFSHSLANPLFHVKKTYYVELEKS-EPEEQRKFLEKKFSEGFFIPPEKNEREFISR 185 Query: 185 SNAW-------VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTR 234 + + EGK ++K++F KV L RIS G L L G +R Sbjct: 186 PAILEWNSANSCRLTITEGKFHQVKRMFSAQGNKVIFLKRISIGSLALDEKLAPGDSR 243 >gi|226943804|ref|YP_002798877.1| 16S rRNA uridine-516 pseudouridylate synthase [Azotobacter vinelandii DJ] gi|226718731|gb|ACO77902.1| 16S rRNA uridine-516 pseudouridylate synthase [Azotobacter vinelandii DJ] Length = 236 Score = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 47/236 (19%), Positives = 82/236 (34%), Gaps = 11/236 (4%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+SK + SRRE E I V V+G +E V + + E Sbjct: 3 EPIRLSKRLIELYRCSRREAELYIEGGWVSVDGRAVEEPQFKVGDEEVVLHPDAVATPVE 62 Query: 72 RTRLWLYHKPIGLVT-------THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L L+ + + + L F R+ ++ L+ GL + Sbjct: 63 PVTLLLHKPAGETLEQALARLGPATRAESDRDPRRPLSRHFHRLTALLPLEPAASGLQVF 122 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 + G+ R L S + + V G+ D L L G+ +G +V+ Sbjct: 123 SQQRGVLRRLGEESDAPEQEFVVEIAGEPAADGLARLGHGLDQRGRPLPPCKVSRQ---- 178 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 S + L+ + +I+ + +V L RI G + L G R + ++ Sbjct: 179 SERHLRFALKAPQAGQIEHMCRSLGLEVLALRRIRIGRLAMAGLPVGQWRYLGERE 234 >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 = 111 bits (276), Expect = 2e-22, Method: Composition-based stats. Identities = 66/267 (24%), Positives = 117/267 (43%), Gaps = 30/267 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV------MSTD-----HIEV 62 R++ IA SRRE +R+I + VK+N L V I + Sbjct: 1 MRLNHFIALHSKYSRREADRLIIEGAVKINHALATT-KTLVPQIALQNPHAAMKEFKIFI 59 Query: 63 DGVPLRKAERTRL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 G L A++ +YHKP G + + D GR ++D+L + ++ + VGRLD +EG Sbjct: 60 HGKMLHYAKKQNYTAIVYHKPKGELVSKKDSYGRKLIYDSLNARYAHFMPVGRLDFASEG 119 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG------- 173 LL+L++ + L + + + + + + +++G+ +Q G Sbjct: 120 LLILSDSKEVVSKLMHSNLPRTYIL--KIDSHITKQMIKAMEEGLTLQNAKAGGHRLSKI 177 Query: 174 ------DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 M+ + + S + + V + EGKNRE+++ F FN V L R+SYG L Sbjct: 178 KTMEFMPMEYEII-KSASISKLKVRISEGKNRELRRFFAHFNANVLDLRRVSYGFINLNA 236 Query: 228 LLAGSTREVSKKILREQLGPHLLEEAQ 254 L G TR +K+ + +++ Sbjct: 237 LPVGKTRFFTKQEYDDLHKFMSEKDSN 263 >gi|166712972|ref|ZP_02244179.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 236 Score = 111 bits (276), Expect = 2e-22, Method: Composition-based stats. Identities = 48/237 (20%), Positives = 87/237 (36%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A A SR E +R I V V+G+++E + D L Sbjct: 2 SDPIRLDKCVAAAFGCSRGEAQRYIEGGWVSVDGVVVEEPQAPATAAQITLADDAVLSPV 61 Query: 71 ERTRLWLYHKPI-------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ L T + + L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGVSAEAALALATPTTRSALDQSDIRVLKRHFLRLTAPLPLEEAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L++DG + R L ++ + + V G V + L G+V Q +V+ + Sbjct: 122 LSHDGRVLRRLSADASSIEQEFLVEVQGDVRPYGMARLAHGLVYQQRSLSPCKVSWQNED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G + Sbjct: 182 R----LRFAIKNVQPGQLRYMCGEVGLEVVSIRRLRVGRVSLGKLAIGEWCYLPTGE 234 >gi|222112171|ref|YP_002554435.1| RNA-binding s4 domain-containing protein [Acidovorax ebreus TPSY] gi|221731615|gb|ACM34435.1| RNA-binding S4 domain protein [Acidovorax ebreus TPSY] Length = 266 Score = 111 bits (276), Expect = 3e-22, Method: Composition-based stats. Identities = 50/268 (18%), Positives = 85/268 (31%), Gaps = 38/268 (14%) Query: 7 VQENFTP---QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + E+ P R+SK +A+ SR E+ I V V+G ++E V S + + Sbjct: 1 MTESSHPTDAVRLSKRVAQQFQCSRTTAEQYIEGGWVSVDGQVVELPGARVASAQSVVLA 60 Query: 63 -DGVPLRKAERTRLWLYHK-----------------------------PIGLVTTHSDPD 92 D + T L + L+ S Sbjct: 61 PDANLMELTPVTLLLHKPPGYEAGLGLVTGATHGAPGAHGSRSQGAPQAVTLLNAQSHLP 120 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 + L F ++ L GL++ T D +AR L+ + V GQ Sbjct: 121 EDAAGTRVLLRHFKQLECFTPLPTEASGLVVYTQDRRVARKLQEDIETLEQECIVEVAGQ 180 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + L L G+ G ++V+ S + L+ + +I + E V Sbjct: 181 IADGGLQKLCHGLSFNGRPLPPIKVSWQ----SETRLRFALKGIRPGQIPAMCEAVGLSV 236 Query: 213 NRLIRISYGPFQLGTLLAGSTREVSKKI 240 + RI G L + G R + Sbjct: 237 RAIKRIRIGRVPLAKVPQGQWRYLQPWE 264 >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 = 111 bits (276), Expect = 3e-22, Method: Composition-based stats. Identities = 41/227 (18%), Positives = 79/227 (34%), Gaps = 4/227 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAERTR 74 ++ ++ + G +R + + A V ++G L + + G+ ++ Sbjct: 3 LADILFKQGFGTRYDCRSIAASGAVSIDGRELTDPDEDFDPEGLVLTWRGMQWPVSDNVL 62 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + + + P V VGRLD +T GLLL T++G L L Sbjct: 63 IAMNKPTGYECSLKPSAHPSVMNLLPGPLRTRGVQPVGRLDWDTTGLLLFTDNGALLHRL 122 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 P +VYR L G+V+ + + + + + Sbjct: 123 THPKKHVNKVYRATLSHPAANGTCEKLLSGVVLDDDP-KPVFAKAAELMAPD-VLMLTIS 180 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 +GK ++K++ +V L RI G ++L L G + Sbjct: 181 QGKYHQVKRMVAACGNRVVALHRIKVGAYELPADLKPGEWCWLRGPE 227 >gi|330953605|gb|EGH53865.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 343 Score = 110 bits (275), Expect = 3e-22, Method: Composition-based stats. Identities = 60/277 (21%), Positives = 101/277 (36%), Gaps = 9/277 (3%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + T + R I++GRLDINT GLL+ T DG LA Sbjct: 15 VIMYNKPDGEICTRDDPEGRPTVFDRLPRPKEGRWINIGRLDINTTGLLMFTTDGELANR 74 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSNAWVTVG 192 L PS + R Y VR G+VD D L LK G++++ + +G N W Sbjct: 75 LMHPSFEMDREYAVRVRGEVDDDMLLRLKNGVILEDGPARFTDIQQAPGGEGFNHWYHCV 134 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLE 251 + EG+NRE+++++E V+RL R+ YGP L L G RE+S+ + + L + Sbjct: 135 VMEGRNREVRRLWESQGLVVSRLKRVRYGPVFLNSDLPMGRWREMSQYEV-DILAAEVGL 193 Query: 252 EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV------ 305 + + + + R + + + + ++ Sbjct: 194 QPVAQPQMNAKTKDKMERLQRQSSRPLGKGERVRTLRPAAGAPATGGERAPRQPQITGSE 253 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 R ++ + S P Sbjct: 254 RDRPRGGDLTQRPSPRKDSGKPGSRAPRPADNSRGTP 290 >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 = 110 bits (275), Expect = 3e-22, Method: Composition-based stats. Identities = 56/231 (24%), Positives = 101/231 (43%), Gaps = 7/231 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +++ + +RR V ++ Q RV VN +++ V + D + DG + + Sbjct: 1 MRLDRLLCQHPKWNRRHVLGLLVQGRVTVNEVVVTNPTHEVSAFDTVHADGELCQAGKPA 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +KP G+++ SDP + + ++ + GRLD + GL+LLTNDG +R Sbjct: 61 HYLMLNKPAGILSATSDPVHPTVMQLLPEALAKDLHIGGRLDRASTGLMLLTNDGQWSRR 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTV 191 P + +VYRV + D + + + I Q+ + Sbjct: 121 ATDPDKRSPKVYRVTLANPIHPDTEQVFAEGIYFPFEAITTSPAQLERL----GECECRL 176 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + EG+ +IK++F F V L R S G L TL G R ++ + + Sbjct: 177 TIYEGRYHQIKRMFGRFRNPVVALHRESMGAITLDPTLAPGQYRALTAEEI 227 >gi|290977401|ref|XP_002671426.1| predicted protein [Naegleria gruberi] gi|284084995|gb|EFC38682.1| predicted protein [Naegleria gruberi] Length = 244 Score = 110 bits (275), Expect = 3e-22, Method: Composition-based stats. Identities = 45/245 (18%), Positives = 94/245 (38%), Gaps = 21/245 (8%) Query: 15 RVSKVIARAGIASRREVERMIAQQRV--KVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 R+ +V++ GI SR +V I + V + + + + V+G P Sbjct: 3 RIDRVLSGMGICSRSDVIHYIRKNEVMDTIKKQRILSLKHKISEHQLESLMVNGKPFPFP 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISV----GRLDINTEGLLLLT 125 +KP + + ++D LP F GRLD+++ GLL++T Sbjct: 63 TLNLTIALNKPESYLCSTQRESSNHKIIYDLLPPEFLNRNPTLGNVGRLDLDSCGLLIMT 122 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI------VIQGICYGDMQVTL 179 DG L + + + + D + + + + + Sbjct: 123 QDGDLHHRILSADVEKTYLVEFVPPIESDVELNQMKELFFSGDLQLRSEDSTLKPITN-- 180 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL---AGSTREV 236 + + + +++ + EGK +++++F + +V L RI G L L +G+ + Sbjct: 181 -FEYINPSTISISIVEGKYHQVRRMFAACSKRVVGLKRIKIGDLTLEGLNIETSGAWCVL 239 Query: 237 SKKIL 241 SK++L Sbjct: 240 SKEVL 244 >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 = 110 bits (274), Expect = 4e-22, Method: Composition-based stats. Identities = 55/221 (24%), Positives = 94/221 (42%), Gaps = 26/221 (11%) Query: 27 SRREVERMIAQQRVKVNGILLER-AAVNVMS-TDHIEVDGVPL----RKAERTRLWLYHK 80 SRRE +++I RV VN I ++ V+ D I +DG+P+ Y K Sbjct: 1 SRREADKLIEAGRVSVNDIPVKSKGGFKVVPFHDKITLDGIPVTGTSDATINFDYVKYWK 60 Query: 81 PIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 P+G+ T + + R+ VGRLD T GL+LLT+DG + + Sbjct: 61 PVGVTCTTDRKIAGNIIDALEEAGFDSSKRIFPVGRLDKETSGLILLTSDGRVPNAVLRG 120 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-------------CYGDMQVTLDTQKG 184 + ++Y+V V + L+ G++I + V + ++ Sbjct: 121 RHKQPKIYQVWVDRPVLAKDVAQLRDGVIITTVAQRDGNRAEPLTARTKSCAVQVLGREK 180 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + L EG+NR+I+K+ N+ V RL R+ + L Sbjct: 181 ----LQLTLVEGRNRQIRKMLGALNYTVKRLHRVQFMELTL 217 >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 = 110 bits (274), Expect = 4e-22, Method: Composition-based stats. Identities = 49/233 (21%), Positives = 90/233 (38%), Gaps = 7/233 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLRKA 70 RV +++ G SR E+ RM + ++G L + + +E+DG PL Sbjct: 8 RVDRLLGSMGYGSRAEMARMAKAGGIVLDGADLTDVSRRIPVTRDLPTRMEIDGEPLDPV 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + L + + + S + ++GRLD T GLLLLT+DG Sbjct: 68 QGLVILLNKPLGMTCSHKEEGALVYDILPGRWRSRDPAISTIGRLDKQTTGLLLLTDDGD 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P +VYR + + +L G ++ + + S Sbjct: 128 LLHRVISPKRHVAKVYRAGLARPLMGTEGDLFASGELVLEGEDKPLAPAVLEV-VSPTEA 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + EG+ +++++F V L R G L L G R ++ + + Sbjct: 187 LLTVTEGRYHQVRRMFAAAGNHVETLHRERLGGLVLPADLAPGQWRLLTPEEI 239 >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 = 109 bits (273), Expect = 5e-22, Method: Composition-based stats. Identities = 47/194 (24%), Positives = 81/194 (41%), Gaps = 2/194 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ + SR +V+++I Q V V+ + NV IEV G + + Sbjct: 1 MRLDKLLEGTKVGSRSQVKKLIKAQGVWVDHMPARNGRQNVDPGLQLIEVTGQRVTHPKH 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + + L + + VGRLD +TEGL+LLT++G L Sbjct: 61 SYIILNKPSGVVSAKKDTNYLTVIDQLAEEDKSPDLYPVGRLDRDTEGLVLLTDNGPLGF 120 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTV 191 + PS + Y V +G + +D + GI G Q+T+ + ++ Sbjct: 121 RMLHPSHHVSKTYLVTVNGLLAEDASDFFAAGICFPTGEQCQPAQLTILKADTDQSQASL 180 Query: 192 GLREGKNREIKKVF 205 + EGK ++KK F Sbjct: 181 TISEGKFHQVKKCF 194 >gi|299067456|emb|CBJ38655.1| Pseudouridine synthase [Ralstonia solanacearum CMR15] Length = 687 Score = 109 bits (273), Expect = 5e-22, Method: Composition-based stats. Identities = 62/256 (24%), Positives = 99/256 (38%), Gaps = 32/256 (12%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG---- 64 E+ R+SK ++ G+ SRRE + I + V V+G + V +E+ Sbjct: 430 ESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEVEILPAARS 489 Query: 65 -----------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 P+ Y L T + + T + GR Sbjct: 490 EQGERVTVLLHKPVGYVSGQAEDGYEPAAALFTAENQWEEDPTRKHFAAWQHKGLAPAGR 549 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLNL 160 LDI++ GLL+LT DG +AR L + + Y VR +D L + Sbjct: 550 LDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWNAPQGPVEHDISKVFPEDLLEM 609 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 L+ G+ + G +V+ ++ + LREGK R+I+++ E +V L RI Sbjct: 610 LRHGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLEVVGLKRIRM 665 Query: 221 GPFQLGTLLAGSTREV 236 G LG L G R + Sbjct: 666 GSIVLGDLPVGKWRFL 681 Score = 35.9 bits (81), Expect = 9.2, Method: Composition-based stats. Identities = 8/112 (7%), Positives = 22/112 (19%) Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + ++ P + Q + + R + + Sbjct: 213 PRRFDDERPPRRSGDDQRPPRRFGDERPPRRFEDRPPRRFDDERPPRRSGDDQRPPRRFD 272 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 ++ R +R ++ R F + R Sbjct: 273 DERPPRRFEDRPPRRFDDERPPRKFGDDQRPPRRFDDERPPRRFGDDQRPPR 324 Score = 35.9 bits (81), Expect = 9.6, Method: Composition-based stats. Identities = 12/113 (10%), Positives = 22/113 (19%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + P S + R D R + S + Sbjct: 305 RRFDDERPPRRFGDDQRPPRRSDDARPPRRFEDRPPRRFDDERPPRRSGDDQRPPHRFGD 364 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 P R SD + P+ + + ++ Sbjct: 365 ERPPRRFEDRPPRRFDDERPPRRFSDDQRPPRRFEDRPARAPRPEREERAPQR 417 >gi|291532977|emb|CBL06090.1| ribosomal large subunit pseudouridine synthase B [Megamonas hypermegale ART12/1] Length = 173 Score = 109 bits (273), Expect = 6e-22, Method: Composition-based stats. Identities = 54/167 (32%), Positives = 89/167 (53%), Gaps = 2/167 (1%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + +KP G +++ D GR TV D L + R+ +GRLD NTEGLLLLTNDG L Sbjct: 1 MLNKPKGYISSVKDEKGRKTVVDILSDVEERIFPIGRLDYNTEGLLLLTNDGEFMNKLLH 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVGLR 194 P + + Y R G ++ + L+ L G+ ++ V LD+ + V + + Sbjct: 61 PKYEIGKTYVARIDGIINMEDLDKLANGVKLEDGKTAPADVYLDSINKTLKESRVEITIY 120 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 EGKNR+++++F+ ++V L RI++ L L G R++++ L Sbjct: 121 EGKNRQVRRMFKALGYEVKALKRIAFAGLTLSKLKRGEYRKLTETEL 167 >gi|282876081|ref|ZP_06284948.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] gi|281295106|gb|EFA87633.1| pseudouridylate synthase [Staphylococcus epidermidis SK135] Length = 194 Score = 109 bits (272), Expect = 7e-22, Method: Composition-based stats. Identities = 55/175 (31%), Positives = 98/175 (56%), Gaps = 2/175 (1%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L++KP ++T+ SD GR V D + SR+ VGRLD +T G+LLLTNDG Sbjct: 10 KKTKIYILFYKPTQVITSVSDDRGRRVVTDYFDDLESRIYPVGRLDYDTSGVLLLTNDGE 69 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 ++ P + + Y + G + ++++ L+KGI ++ QV + ++ + Sbjct: 70 FTNLMTHPRYRIKKKYVAKLKGYLMREEIKQLEKGIELEDGYTQPAQVKIKKQDKEKNTT 129 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 V + + EG+NR+++++FE+F +VN+L RI +GP L L AG R ++ ++ Sbjct: 130 LVEITISEGRNRQVRRMFEYFGHQVNKLTRIQFGPIDLKGLNAGEGRVLTPHEVK 184 >gi|167035218|ref|YP_001670449.1| RNA-binding S4 domain-containing protein [Pseudomonas putida GB-1] gi|166861706|gb|ABZ00114.1| RNA-binding S4 domain protein [Pseudomonas putida GB-1] Length = 236 Score = 109 bits (272), Expect = 7e-22, Method: Composition-based stats. Identities = 45/237 (18%), Positives = 81/237 (34%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E+ I V V+G+++E+ V + G Sbjct: 2 SEPVRLSKRLIEQLGCSRREAEQYIEGGWVTVDGVVVEQPQFKVEQQRVELLPGARAETL 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L T L F+R V L+ GL + Sbjct: 62 EPVTLLLNQPAGVDSETARASMNMASLSEAHREGVRALHGHFARQDCVAPLERGASGLQV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D + R +E + + + V G+ L L +G + + + Sbjct: 122 FTQDWRVTRKVEADLRRLEQEFIVEVRGETTPQALERLARGATRNDRELPKAKASWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ + +I ++ + ++ + RI G +G L G R ++ Sbjct: 181 ---THLRMVLKNPQPGQISELCAYLRLELISMRRIRLGGVSMGKLPLGQWRYLATTE 234 >gi|170723179|ref|YP_001750867.1| RNA-binding S4 domain-containing protein [Pseudomonas putida W619] gi|169761182|gb|ACA74498.1| RNA-binding S4 domain protein [Pseudomonas putida W619] Length = 252 Score = 109 bits (272), Expect = 7e-22, Method: Composition-based stats. Identities = 43/237 (18%), Positives = 82/237 (34%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G+++E+ V + G Sbjct: 18 SEPVRLSKRLIEQLGCSRREAELYIEGGWVTVDGVVVEQPQFKVEHQAVELLPGANAEAL 77 Query: 71 ERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 + L L + T L F+R+ L+ GL + Sbjct: 78 DPVTLLLNQPAGVDIDTARASMNMASLSEAHREGVRALHGHFTRLTCSAPLERGASGLQV 137 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D + R +E + + Y + G+ L L +G + + + Sbjct: 138 FTQDWRVTRKIEADLRRLEQEYIIEVRGETTPQALERLARGATRNDRELPKAKASWQNE- 196 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ + +I ++ + ++ + RI G +G L G+ R ++ Sbjct: 197 ---THLRLALKNPQPGQISEICAYLRLEILSMRRIRLGGVSMGKLPVGNWRYLAGTE 250 >gi|300704234|ref|YP_003745837.1| pseudouridine synthase [Ralstonia solanacearum CFBP2957] gi|299071898|emb|CBJ43227.1| Pseudouridine synthase [Ralstonia solanacearum CFBP2957] Length = 677 Score = 109 bits (272), Expect = 7e-22, Method: Composition-based stats. Identities = 62/256 (24%), Positives = 97/256 (37%), Gaps = 32/256 (12%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 E+ R+SK ++ G+ SRRE + I + V V+G + V IE+ Sbjct: 420 ESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEILPAARS 479 Query: 63 -DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 G + Y L T + + T + GR Sbjct: 480 EQGERVTVLLHKPMGYVSGQAEDGYEPAATLFTAENQWEEDPTHKRFAAWQHKGLAPAGR 539 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLNL 160 LDI++ GLL+LT DG +AR L + + Y VR ++ L Sbjct: 540 LDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDISKVFPEELLEK 599 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 L+ G+ + G +V+ ++ + LREGK R+I+++ E V L RI Sbjct: 600 LRHGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLTVVGLKRIRM 655 Query: 221 GPFQLGTLLAGSTREV 236 G LG L G R + Sbjct: 656 GSVVLGDLPVGKWRFL 671 >gi|26987926|ref|NP_743351.1| S4 domain-containing protein [Pseudomonas putida KT2440] gi|24982636|gb|AAN66815.1|AE016310_7 S4 domain protein [Pseudomonas putida KT2440] gi|313497548|gb|ADR58914.1| RNA-binding S4 domain-containing protein [Pseudomonas putida BIRD-1] Length = 236 Score = 109 bits (271), Expect = 8e-22, Method: Composition-based stats. Identities = 43/237 (18%), Positives = 82/237 (34%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E+ I V V+G+++E+ V + G Sbjct: 2 SEPVRLSKRLIEQLGCSRREAEQYIEGGWVTVDGVVVEQPQFKVEQQRVELLPGARAETL 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L L F+R V L+ GL + Sbjct: 62 EPVTLLLNQPAGMDSEDARASMNMGSLSEAHREGVRALHGHFARQACVAPLERGASGLQV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D ++R +E + + + + G+ L L +G + + + + Sbjct: 122 FTQDWRVSRKIEADLRRLEQEFIIEVRGETTPQALERLARGAMRNDRELPKAKASWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ + +I ++ + ++ + RI G +G L G R ++ Sbjct: 181 ---THLRMVLKNPQPGQISELCAYLRLELLGMRRIRLGGVSMGKLPLGQWRYLATSE 234 >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 = 109 bits (271), Expect = 9e-22, Method: Composition-based stats. Identities = 62/256 (24%), Positives = 97/256 (37%), Gaps = 32/256 (12%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 E+ R+SK ++ G+ SRRE + I + V V+G + V IE+ Sbjct: 420 ESSGLVRLSKRMSELGLCSRREADEWIPRGWVLVDGEPVTELGSRVRPDAEIEILPAARS 479 Query: 63 -DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 G + Y L T + + T + GR Sbjct: 480 EQGERVTVLLHKPMGYVSGQAEDGYEPAATLFTAENQWEEDPTHKRFAAWQHKGLAPAGR 539 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------------VDQDKLNL 160 LDI++ GLL+LT DG +AR L + + Y VR ++ L Sbjct: 540 LDIDSTGLLVLTQDGRVARHLIGEDSTVEKEYLVRVVWDAPQGPVEHDISKVFPEELLEK 599 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 L+ G+ + G +V+ ++ + LREGK R+I+++ E V L RI Sbjct: 600 LRHGLSLDGEALKPAKVSWQNEEQ----LRFVLREGKKRQIRRMCEQVGLTVVGLKRIRM 655 Query: 221 GPFQLGTLLAGSTREV 236 G LG L G R + Sbjct: 656 GSVVLGDLPVGKWRFL 671 Score = 36.3 bits (82), Expect = 7.2, Method: Composition-based stats. Identities = 8/104 (7%), Positives = 20/104 (19%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 + DD ++ + S ++ Sbjct: 94 AKPRRMQGDRPPRRFDDERPPRRFGDDQRPPRRFDDERPPRRFEDRPPRRSDDERPPRRF 153 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + + F +R ++ R F + R Sbjct: 154 GDDQRPPRRFGDERPPRRFEDRPPRRSDDERPPRKFGDDQRPPR 197 >gi|327480070|gb|AEA83380.1| S4 domain-containing protein [Pseudomonas stutzeri DSM 4166] Length = 241 Score = 109 bits (271), Expect = 9e-22, Method: Composition-based stats. Identities = 52/242 (21%), Positives = 92/242 (38%), Gaps = 16/242 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRK 69 P R++K +A SRRE E I V V+G L+E + V IE+ G ++ Sbjct: 2 TDPVRLAKRVAEQFGCSRREAELYIEGGWVTVDGELVEAPFLKVGPQQRIEMQPGATAKE 61 Query: 70 AERTRLWLYHKPIGLVTTHS-----------DPDGRSTVFDNLPSIFSRVISVGRLDINT 118 L L+ + + + + + L R + LD Sbjct: 62 IAPVTLLLHKPAELPIDSDNDGPRRALQASEHWADDPSRTEPLQRHLLRHTLLLPLDAGA 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL +L+ + R+L + + Y V G+ ++ L LL KGI +G +V+ Sbjct: 122 SGLSVLSQQREVIRLLGDTRNKLEQEYVVEVSGEAEEGGLALLAKGIGHRGRILPKAKVS 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 ++ + V ++E E++ + E +V RI G + L G R + + Sbjct: 182 WQSENR----LRVVVKEPAPGEVRMLCEAIGLRVVASKRIRIGRLSMAKLPVGHWRFLGE 237 Query: 239 KI 240 Sbjct: 238 HE 239 >gi|298492438|ref|YP_003722615.1| pseudouridine synthase ['Nostoc azollae' 0708] gi|298234356|gb|ADI65492.1| pseudouridine synthase ['Nostoc azollae' 0708] Length = 195 Score = 108 bits (270), Expect = 1e-21, Method: Composition-based stats. Identities = 50/188 (26%), Positives = 78/188 (41%), Gaps = 17/188 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + L + T+ D + + VGRLD ++EGL+LLTNDG Sbjct: 3 NDFKYIIFHKPYGVLSQFTQESPKHITLKDYID--VPEIYPVGRLDWDSEGLMLLTNDGQ 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L L P R Y V+ D + +N L G+ IQ QV L Sbjct: 61 LQHRLANPRFGHKRTYWVQLEHIPDGEAINKLCTGVEIQNYQTRPAQVKLFLEEPTVSER 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + AW+ + L EGKNR+++++ + RLIR+S QL L G R Sbjct: 121 NPPIRFRKNIPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLIRVSITNLQLNGLQPGEWR 180 Query: 235 EVSKKILR 242 ++ ++ Sbjct: 181 YLTAPEIQ 188 >gi|301510575|ref|ZP_07235812.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii AB058] Length = 210 Score = 108 bits (270), Expect = 1e-21, Method: Composition-based stats. Identities = 41/204 (20%), Positives = 77/204 (37%), Gaps = 3/204 (1%) Query: 38 QRVKVNGILLERAAVNVMSTD-HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRST 96 V ++G ++ + V G + E+ + L + Sbjct: 1 GSVIIDGEVVSDLKKQFSPENFEFSVFGQNYQYREKIYIALRKPQGFECSHQPQHHQSVF 60 Query: 97 VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 I V +VGRLD +T GLLLLT+DG + L P +VY V + V + Sbjct: 61 SLLPETMIHRGVQAVGRLDQDTTGLLLLTDDGKYLQALTHPRKHVPKVYHVTTYDPVTPE 120 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 ++ +L +G+ + + +T+ + +G ++K++ KV +L Sbjct: 121 QIEMLTQGVNLHQEKGVFAATDVALL--GTHQLTMTIHQGVYHQVKRMIAAVGNKVEKLH 178 Query: 217 RISYGPFQLGTLLAGSTREVSKKI 240 R G L + G +S++ Sbjct: 179 RHQIGQLVLPEIEEGGWVYLSEQE 202 >gi|120609486|ref|YP_969164.1| RNA-binding S4 domain-containing protein [Acidovorax citrulli AAC00-1] gi|120587950|gb|ABM31390.1| RNA-binding S4 domain protein [Acidovorax citrulli AAC00-1] Length = 267 Score = 108 bits (269), Expect = 1e-21, Method: Composition-based stats. Identities = 50/253 (19%), Positives = 79/253 (31%), Gaps = 30/253 (11%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+SK +A SRRE E +I V+V+G + E V + V + Sbjct: 17 IRLSKRVAEMRGCSRREAEWLIEGGWVQVDGRMTEAPGARVRPDQDVVVAQNAKAEEAPP 76 Query: 74 RLWLYHKPIGLVT--------------------------THSDPDGRSTVFDNLPSIFSR 107 L HKP G G S L F + Sbjct: 77 VTLLLHKPAGWEAGIGHGPAGDPRQARSGGAPDAGTLLEPGRRYVGDSPPVRVLQRHFRQ 136 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 L GL++ T D +AR L + G++ + L L +G+ Sbjct: 137 QECFTPLADAASGLVVYTQDRRMARRLAEDIELLEQECIATVDGRIAEGGLERLCRGLEF 196 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G +V+ S + L+ + +I + E +V L R+ G L Sbjct: 197 NGRPLPPAKVSWQ----SETRLRFALKGIRPGQIPAMCEAVGLQVTALKRLRIGRVSLAR 252 Query: 228 LLAGSTREVSKKI 240 + G R + Sbjct: 253 VPEGQWRYLLPWE 265 >gi|325919307|ref|ZP_08181345.1| pseudouridylate synthase, 16S rRNA uridine-516 [Xanthomonas gardneri ATCC 19865] gi|325550205|gb|EGD21021.1| pseudouridylate synthase, 16S rRNA uridine-516 [Xanthomonas gardneri ATCC 19865] Length = 236 Score = 108 bits (269), Expect = 1e-21, Method: Composition-based stats. Identities = 45/237 (18%), Positives = 86/237 (36%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A SR E ++ I V V+G+++E + L A Sbjct: 2 SEPIRLDKCVAALFGCSRGEAQQYIEGGWVSVDGVVVEEPQTLATAPQVTLAADAVLAPA 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRST-------VFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ + L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKSAGMTAEAALALAIPAARSSLDQANVRVLKRHFLRLSAPLPLEDEASGLLV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L +T + + V G++ + L G+V Q +V+ ++ Sbjct: 122 LSQDGRVLRRLSADATSIEQEFLVEVSGELRPYGMARLAHGLVYQQRSLSPCKVSWQNEE 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKHVQPGQLRFMCKEVGLEVVSIRRLRVGRISLGKLAIGEWRYLPAGE 234 >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 = 108 bits (269), Expect = 1e-21, Method: Composition-based stats. Identities = 52/196 (26%), Positives = 81/196 (41%), Gaps = 23/196 (11%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + R L++KP G++ +D V SVGRLD ++EGLL LTN+G Sbjct: 2 LNKNYRYLLFNKPYGVLCQFTDNTENPRPTLKDYIPVPDVYSVGRLDRDSEGLLFLTNNG 61 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L L R Y V+ D+ LN L++G+ I+ +V L Sbjct: 62 LLKHRLSHRQFAHPRTYLVQVERIPDETTLNQLRQGVAIKDYKTRPAKVKLLKSPPAIPP 121 Query: 181 -------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--------PFQL 225 + AW+ + L EG+NR+++++ + RLIR + G L Sbjct: 122 RDPPIRYRKTVPTAWLAMTLTEGRNRQVRRMTAAVGYPTLRLIRTAIGVQTQGKITNLTL 181 Query: 226 GTLLAGSTREVSKKIL 241 L G RE++ L Sbjct: 182 EGLNPGQWRELTPSEL 197 >gi|148546465|ref|YP_001266567.1| RNA-binding S4 domain-containing protein [Pseudomonas putida F1] gi|148510523|gb|ABQ77383.1| RNA-binding S4 domain protein [Pseudomonas putida F1] Length = 247 Score = 107 bits (268), Expect = 2e-21, Method: Composition-based stats. Identities = 43/238 (18%), Positives = 83/238 (34%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRK 69 P R+SK + SRRE E+ I V V+G+++E+ V +E + G Sbjct: 13 SEPVRLSKRLIEQLGCSRREAEQYIEGGWVTVDGVVVEQPQFKV-EQQRVELLPGARAET 71 Query: 70 AERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINTEGLL 122 E L L L F+R V L+ GL Sbjct: 72 LEPVTLLLNQPAGMDSEDARASMNMGSLSEAHREGVRALHGHFARQACVAPLERGASGLQ 131 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D ++R +E + + + + G+ L L +G + + + + Sbjct: 132 VFTQDWRVSRKIEADLRRLEQEFIIEVRGETTPQALERLARGAMRNDRELPKAKASWQNE 191 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ + +I ++ + ++ + RI G +G L R ++ Sbjct: 192 ----THLRMVLKNPQPGQISELCAYLRLELLGMRRIRLGGVSMGKLPLAQWRYLATSE 245 >gi|317406580|gb|EFV86770.1| RNA pseudouridylate synthase [Achromobacter xylosoxidans C54] Length = 241 Score = 107 bits (268), Expect = 2e-21, Method: Composition-based stats. Identities = 43/237 (18%), Positives = 84/237 (35%), Gaps = 16/237 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRK 69 R++K +A SR + ER I V V+G ++E V + + G L + Sbjct: 2 SDSVRLAKRLAAEQSCSRGDAERYIEGGWVAVDGKVVEEPGFRVSPGQVVVLLPGARLEE 61 Query: 70 AERTRLWLYHKPIGLVTTHSD-----------PDGRSTVFDNLPSIFSRVISVGRLDINT 118 + ++ + + G + L +F+ + L+ Sbjct: 62 MRPVSILVHKPAGLSASDPAHSALGLVVPENLMPGDRSGQRYLKRMFNGLKLATPLERAA 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL++ T + +AR L + Y + G +D L L++G+ +G M+V+ Sbjct: 122 SGLVVYTQEYAVARKLVEEGRHVEQEYIAQVRGTLDAVGLARLQRGLAYEGRPATPMKVS 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + L+ I+ + ++ L RI G + L G R Sbjct: 182 WQNE----THLRFALKTPALGFIEYACDMAGLELQALRRIRIGRLPMAGLAVGQWRY 234 >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 = 107 bits (268), Expect = 2e-21, Method: Composition-based stats. Identities = 55/188 (29%), Positives = 82/188 (43%), Gaps = 17/188 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + Y L D ST+ D + V VGRLD ++EGLLLLTNDG Sbjct: 3 NHYRYIIFYKPYGVLSQFTKDAPTHSTLKDYID--VPDVYPVGRLDWDSEGLLLLTNDGQ 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----- 184 L L P R Y V+ D+D + L+ G+ IQ QV L +++ Sbjct: 61 LQHRLAHPRFGHKRTYWVQVERIPDEDAIKRLQTGVKIQDYRTQPAQVRLLSKEPELPER 120 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 AW+ + L EGKNR+++++ + RL+R+S QL L G R Sbjct: 121 TPPIRFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVSIAHLQLDDLQLGEWR 180 Query: 235 EVSKKILR 242 +++ L+ Sbjct: 181 DLTTSELQ 188 >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 = 107 bits (267), Expect = 2e-21, Method: Composition-based stats. Identities = 44/231 (19%), Positives = 90/231 (38%), Gaps = 7/231 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVPLRKA 70 R+ +++ G SR E+ ++ +R+ ++G + A + T+ + V G PL Sbjct: 8 RIDRLLGSLGYGSRGEIAQIARARRIVLDGARVANVAKRIPMSPDLTERMTVHGAPLDPL 67 Query: 71 ERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + + + + D + VGRLD T GLLLLT+ G Sbjct: 68 LGMVVMMNKPAGYICSRKDSGPLVYDLLPDRWRHRKPMLSPVGRLDKETSGLLLLTDHGD 127 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 L + P+ + YR ++ ++N+ G ++ + + S Sbjct: 128 LLHRITSPNLAVEKTYRASLARPLEGHEVNVFASGELMLSGEKKPLHPAKLSV-LSPTEA 186 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKK 239 + + EG+ +++++F V L R + G L L A + ++ Sbjct: 187 RLNITEGRYHQVRRMFAAVGNHVEALHREALGDLTLPDNLQAAAWCLLNAD 237 >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 = 107 bits (267), Expect = 3e-21, Method: Composition-based stats. Identities = 42/189 (22%), Positives = 87/189 (46%), Gaps = 6/189 (3%) Query: 50 AAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + V + ++V + K + + +KP G+V T + + RV Sbjct: 1 MGMRVTAGQIVKVGKKTVSKQDEMIVLAVNKPKGIVCTEDQRE--RDSIVRFLNYPVRVT 58 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 GRLD ++ GLLL+TN+G + + + + + Y+V ++ + + + +G+ I Sbjct: 59 YAGRLDKDSRGLLLMTNNGDIINQMMRAANRHEKEYKVTVDKEITEQFIKKMSEGVPILD 118 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 V +K ++ L +G NR+I+++ F ++V L+RI +LG+L Sbjct: 119 TVTRPCTV----KKIGKYTFSIILTQGLNRQIRRMCAAFGYEVKDLVRIRIMNIRLGSLK 174 Query: 230 AGSTREVSK 238 G+ R+++ Sbjct: 175 EGAYRKLTD 183 >gi|221065112|ref|ZP_03541217.1| RNA-binding S4 domain protein [Comamonas testosteroni KF-1] gi|220710135|gb|EED65503.1| RNA-binding S4 domain protein [Comamonas testosteroni KF-1] Length = 255 Score = 107 bits (267), Expect = 3e-21, Method: Composition-based stats. Identities = 45/249 (18%), Positives = 78/249 (31%), Gaps = 18/249 (7%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVP 66 R++K +A SRRE E I V+V+G +++ V + + D P Sbjct: 6 PEQESIRLAKRLAEQEQCSRREAELHIVAGNVQVDGKVVQVPETRVRPDQVVILRKDAKP 65 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDG---------------RSTVFDNLPSIFSRVISV 111 + + L F + S Sbjct: 66 -EAIPPVTILMNKPAGMTQGPAYGRVRSAHSLLSEDTKAKLDTPMPQLVLDHHFRNLESF 124 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 + + GL++ T D +AR L + V GQ+ +D L +L +G+ I G Sbjct: 125 LTIPLPASGLIVYTQDKRVARKLAEEGIWLEQEIIVGVEGQIIEDGLEILYEGLPIPGGN 184 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 S + + L+ EI+K+ V + R+ G L + G Sbjct: 185 GHRRMPPCHVSWQSESHLRFALKGIAPEEIEKMCAAIGLTVVSMRRLRLGRVSLAKVPEG 244 Query: 232 STREVSKKI 240 R + Sbjct: 245 QWRYLMPWE 253 >gi|281202742|gb|EFA76944.1| hypothetical protein PPL_09696 [Polysphondylium pallidum PN500] Length = 614 Score = 107 bits (266), Expect = 3e-21, Method: Composition-based stats. Identities = 48/266 (18%), Positives = 93/266 (34%), Gaps = 22/266 (8%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL------- 75 +G+ SR + I RV V G + V D + + G L L Sbjct: 116 SGLCSRSKALSYIGINRVTVLGQKV-SPKTKVNVED-VRIMGKKLENTNPYILYYYYYSK 173 Query: 76 ---WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV----GRLDINTEGLLLLTNDG 128 HKP G + +++ ++D LP F++ + GRLD GL+L++ DG Sbjct: 174 RLTIAVHKPNGYICSNAREGDHKIIYDLLPPEFAKRLPTLSVAGRLDKWVTGLVLMSQDG 233 Query: 129 GLARVLELPST----QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 + + P + V + + + + + + Sbjct: 234 KIVERIITPKDDSFGKIYDVVCKAPFKGNEAEAFESGTMMLRSEEEPCKAAKFEVL--DN 291 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQ 244 + L EG+ +++++ + K + RI GP LG L AG R ++++ + + Sbjct: 292 DRNLARLTLYEGRYHQVRRMMAALDNKAMEIHRIKVGPIDLGDLPAGKWRYLTEEEMEKI 351 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRD 270 + + A + D Sbjct: 352 KAIQVTKSALTKKKYNKKKLDNSRAD 377 >gi|104783092|ref|YP_609590.1| hypothetical protein PSEEN4116 [Pseudomonas entomophila L48] gi|95112079|emb|CAK16806.1| conserved hypothetical protein; RNA-binding protein S4 domain [Pseudomonas entomophila L48] Length = 236 Score = 107 bits (266), Expect = 3e-21, Method: Composition-based stats. Identities = 49/237 (20%), Positives = 86/237 (36%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G+++E+ V + G Sbjct: 2 SEPIRLSKRLIEQLGCSRREAELYIEGGWVTVDGVVVEQPQFKVADQRVELLPGARAETL 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L + L F+R + L GL L Sbjct: 62 EPVTLLLNQQAGQDTAAAQASMSMASLSEAHREGVRPLHGHFARQACIAPLLPGATGLQL 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D + R L+ + + Y V+ G+ L L +G+ +G+ + + ++ Sbjct: 122 FTQDWRVTRKLDADLRRMEQEYIVQVSGEAKPGALERLARGVERKGVELPRAKASWQNEQ 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ + I+++ E KV + RI G +G L +G R ++ Sbjct: 182 H----LRMVLKNPQPGLIEQLCETAGLKVLAMRRIRLGGVSMGKLPSGQWRYLAATE 234 >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 = 107 bits (266), Expect = 3e-21, Method: Composition-based stats. Identities = 47/186 (25%), Positives = 75/186 (40%), Gaps = 15/186 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + Y L S + VGRLD ++EGLLLLT+DG + Sbjct: 3 YRYILFYKPYDVLTQFTDAESENKRSTLKDYIPISFIYPVGRLDRDSEGLLLLTDDGQMQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 L P R Y V+ +D + L+ GI IQ +V L Sbjct: 63 HRLSDPKFAHPRTYWVQVEKIPSEDAIAHLRSGITIQNYRTRPTKVQLLSTEPLLPPRNP 122 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + AW+ + L EGKNR+++++ + RL+R++ +L L G RE+ Sbjct: 123 PIRFRKNIPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVAIAHLRLDGLEPGQWREL 182 Query: 237 SKKILR 242 + + L+ Sbjct: 183 NPEELK 188 >gi|315929678|gb|EFV08855.1| conserved hypothetical protein [Campylobacter jejuni subsp. jejuni 305] Length = 204 Score = 107 bits (266), Expect = 4e-21, Method: Composition-based stats. Identities = 60/206 (29%), Positives = 97/206 (47%), Gaps = 17/206 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K I+ SRRE + +I Q VK+N + + V D + V G ++K + Sbjct: 1 MRINKFISHNTRYSRREADELIKQGLVKINNKIA-LLSDEVKFDDKVFVKGKRVQKRTQF 59 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +YHK G + + D GR T++D LP FS +SVGRLD +EGLLLLT+ +A Sbjct: 60 SVIIYHKQKGEIVSKKDDRGRKTIYDTLPRQFSTWLSVGRLDYASEGLLLLTDSPVIADA 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--------------YGDMQVTL 179 L R Y ++ G V + + ++ G+ I+ + + Sbjct: 120 LMHSD--LEREYYLKVKGTVSKQVIEAMQNGLEIKNEKKGAHAKTKITSMSFAPFIDFEI 177 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVF 205 G + V + EGKNRE+++ F Sbjct: 178 FGSSGGYTKLRVVINEGKNRELRRFF 203 >gi|213023264|ref|ZP_03337711.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 244 Score = 106 bits (265), Expect = 4e-21, Method: Composition-based stats. Identities = 68/241 (28%), Positives = 101/241 (41%), Gaps = 9/241 (3%) Query: 59 HIEVDGVPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 I +DG + E L Y L T + + +R I+VGR Sbjct: 2 KIRIDGHLISVKESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGR 61 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 LD+NT GLLL T DG LA L PS + R Y VR GQVD+ KL L +G+ ++ Sbjct: 62 LDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDESKLRDLSRGVQLEDGPAA 121 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGS 232 + +G N W V L EG+NRE+++++E +V+RLIR+ YG L L G Sbjct: 122 FKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGG 181 Query: 233 TREVS---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS 289 E+ LR + ++V ++ + R R + Sbjct: 182 WTELDLAQTNYLRGLVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQIAGGRRSGGRN 241 Query: 290 S 290 + Sbjct: 242 N 242 >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 = 106 bits (265), Expect = 4e-21, Method: Composition-based stats. Identities = 57/245 (23%), Positives = 106/245 (43%), Gaps = 19/245 (7%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+SK + G+ SRRE + I VKV+G+++ V IE+ + Sbjct: 2 SDTVRLSKRMTELGLCSRREADEFIEMGLVKVDGVVVNVLGSRVRPEQTIELTRQAMALQ 61 Query: 71 ERTRLWLYHKPIGLVT---------------THSDPDGRSTVFDNLPSIFSRVISVGRLD 115 +L +KP+G + + + + L + + G+LD Sbjct: 62 AERVTFLLNKPVGYGSGPSEAGERPAWQLIKPETRSPRDRSGYTFLKKHLNYLAPAGKLD 121 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +++ GLL+LT DG +AR L + + + + V G+V L L+ G+ + G + Sbjct: 122 VDSSGLLVLTQDGRIARALMAKAADFEQEFLVWVEGEVSDAMLEQLRHGLSLDGEALKPV 181 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +V+ S++ + LR+ R+I+++ E +V + RI G LG L G R Sbjct: 182 KVSRQ----SDSQLRFVLRDPVRRQIRRMAELVGLRVTAVRRIRIGRIALGDLEQGQWRY 237 Query: 236 VSKKI 240 +++ Sbjct: 238 LTEHE 242 >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 = 106 bits (265), Expect = 4e-21, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 84/187 (44%), Gaps = 1/187 (0%) Query: 55 MSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 +D I+VDG+ + L + T ++ D + + +R+ VGRL Sbjct: 2 KPSDEIKVDGLTVATQSYQFFSLNKPAGVVATMEDPEGRQNLG-DYVNNRETRLFHVGRL 60 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D TEG++LLTN G LA L P + Y G + +D LK GI ++ Sbjct: 61 DTETEGVILLTNHGELAHRLTHPRYGVRKTYLAHIVGPIPRDLGKRLKDGIELEDGWARA 120 Query: 175 MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + Q G N V V L EG+ ++++ + V++L+R ++GP LG +G R Sbjct: 121 DHFRVVEQTGKNYLVEVTLHEGRKHIVRRMLAEAGFPVDKLVRTAFGPITLGDQKSGWLR 180 Query: 235 EVSKKIL 241 +S + Sbjct: 181 RLSNTEV 187 >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 = 106 bits (265), Expect = 5e-21, Method: Composition-based stats. Identities = 42/217 (19%), Positives = 77/217 (35%), Gaps = 14/217 (6%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EG++LLT+ G L + P+ + Sbjct: 8 NKPFDTICQFSASPPHATLADWVPVAGVYPAGRLDTDSEGMVLLTDHGPLQHAIAHPAAK 67 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT--------------QKGSN 186 + Y V+ G + ++L L++G+ + V + + Sbjct: 68 APKTYWVQVEGTPEAEQLEQLRQGVDLGDFVTQPASVRILPEPELWPRQPPVRFRKTVPT 127 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 W+ + + EGKNR+++++ RL+R++ G +LG L G RE++K L Sbjct: 128 HWLEIIISEGKNRQVRRMTAKVGLPTLRLVRVAVGSLKLGELQPGEWREIAKGELPAVWQ 187 Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFT 283 + A SS Sbjct: 188 QAWSQTAAPKPHRAPQSSRAPRFKSTGAGRTARQRPK 224 >gi|293605498|ref|ZP_06687880.1| ribosomal large subunit pseudouridine synthase F [Achromobacter piechaudii ATCC 43553] gi|292816226|gb|EFF75325.1| ribosomal large subunit pseudouridine synthase F [Achromobacter piechaudii ATCC 43553] Length = 241 Score = 106 bits (264), Expect = 5e-21, Method: Composition-based stats. Identities = 43/237 (18%), Positives = 87/237 (36%), Gaps = 16/237 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRK 69 R++K +A SR + ER I V V+G +E V + + G L Sbjct: 2 SESVRLAKRLAADLSCSRGDAERYIEGGWVAVDGKTVEEPGARVSPGQTVALLPGAKLED 61 Query: 70 AERTRLWLYHKPIGL-----------VTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + ++ + + G + L +F+ + V L+ Sbjct: 62 IKPVTILVHKPAGTYADNEPGSALDLIIPKNLMPGDRSGRRYLKRMFNGLKLVTPLERAA 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL++ T + ++R L + Y + G++ + L L++G+ +G M+V+ Sbjct: 122 SGLVVYTQEYAVSRKLMEEGRLVEQEYVAQVTGKLSEADLARLQRGMAFEGRAATPMKVS 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + L+ I+ V + ++ +L RI G L + G R Sbjct: 182 WQNE----THLRFALKTPLPGFIEYVCDTAGLQLQQLRRIRIGRLPLAGMAVGQWRY 234 >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 = 106 bits (264), Expect = 6e-21, Method: Composition-based stats. Identities = 31/87 (35%), Positives = 45/87 (51%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA+AGIASRR+ E +I Q +VKVNG +++ V D +EV+ +PL K E Sbjct: 2 ERLQKVIAQAGIASRRKAEELIQQGKVKVNGKIVKELGTKVTPQDKVEVNNIPLEKEEPV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDN 100 LY + + D Sbjct: 62 YFLLYKPTGVISSVSDDKGRSVVTDFF 88 >gi|322490748|emb|CBZ26012.1| putative tRNA pseudouridine synthase A [Leishmania mexicana MHOM/GT/2001/U1103] Length = 694 Score = 106 bits (264), Expect = 6e-21, Method: Composition-based stats. Identities = 75/221 (33%), Positives = 112/221 (50%), Gaps = 4/221 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ERTRLWLY 78 + RAG SRRE +IA +V+VN + V + D + V G R RLW+Y Sbjct: 338 LPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAQDDVHVAGHRSRLRFAPPRLWMY 397 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGGLARVLELP 137 HKP ++ + +D GR+ + + + + VG L + G+LLLTNDG L+R LE P Sbjct: 398 HKPAHVIVSRNDAAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLENP 457 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + R Y +R D ++ L +GI I G Y + + ++ S V V +R G Sbjct: 458 KSMVQRTYLLRVRPAFDPVLVHKLNTEGIQINGRLYRNAEFFVNPATKSRYSVKVKVR-G 516 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ I ++ + KV R RIS+GPF L L GS REV+ Sbjct: 517 ESMPIAQLMQHLGRKVERGGRISFGPFALSNLAVGSVREVT 557 >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 = 106 bits (264), Expect = 6e-21, Method: Composition-based stats. Identities = 36/241 (14%), Positives = 70/241 (29%), Gaps = 13/241 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMST--DHIEVDGVPLRKA 70 RV K++ G SR E+ R+ + ++G+ L + V ++VDG PL Sbjct: 7 RVDKLLGSMGYGSRSEIARLGKVGGIVLDGVDLTDVSKRIAVTPDLPSRMQVDGRPLDPP 66 Query: 71 ERTRLWLYHKPIGLVTTHSD----PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L L + D D + S + + + L + Sbjct: 67 AGVVLILNKPLGMTCSHKEDGDLVYDVLPDRWRRRDPAISTIGRLDKQTSGLLLLTDDGD 126 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 + + R + D + + ++ + S Sbjct: 127 LLHRVISPKRHVAKVYHATLARPLAGTEGDVFAAGGLVLEGEDKPLAPAELEVL----SP 182 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQL 245 + + EG+ ++++F V L R G L L G R + + Sbjct: 183 TEARLTVTEGRYHMVRRMFAAVGNHVEALHRERVGGLVLPADLGPGDWRLATGAEVEAIF 242 Query: 246 G 246 Sbjct: 243 A 243 >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 = 106 bits (264), Expect = 6e-21, Method: Composition-based stats. Identities = 66/221 (29%), Positives = 98/221 (44%), Gaps = 4/221 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAERTRLWL 77 + RAG SRRE +IA +V+VN + V + D + V G LR A Sbjct: 338 LPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAEDDVHVAGHQSRLRFAPPRLWMY 397 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + +V+ ++ VG L + G+LLLTNDG L+R LE P Sbjct: 398 HKPAHVIVSRSDTAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLENP 457 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + R Y +R D ++ L +G+ I G Y + + ++ S V V +R G Sbjct: 458 KSMVQRTYLLRVRPAFDPVLVHKLNTEGVHINGRPYRNAEFFVNPATKSRYSVKVKVR-G 516 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ I + + V R RIS+GPF L L GS REV+ Sbjct: 517 ESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 557 >gi|326315537|ref|YP_004233209.1| RNA-binding S4 domain-containing protein [Acidovorax avenae subsp. avenae ATCC 19860] gi|323372373|gb|ADX44642.1| RNA-binding S4 domain protein [Acidovorax avenae subsp. avenae ATCC 19860] Length = 267 Score = 106 bits (264), Expect = 6e-21, Method: Composition-based stats. Identities = 51/263 (19%), Positives = 83/263 (31%), Gaps = 34/263 (12%) Query: 8 QENFTPQ----RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +N + R+SK +A SRRE E +I V+V+G + E V + V Sbjct: 7 NDNSAGEAGHIRLSKRVAGMRGCSRREAEWLIEGGWVQVDGRMTEAPGARVRPDQDVVVA 66 Query: 64 GVPLRKAERTRLWLYHKPIGLVT--------------------------THSDPDGRSTV 97 + L HKP G + G S Sbjct: 67 QNAKAEEAPPVTLLLHKPAGWEAGIGHGPAGDPRQARSGGAPDAGTLLEPGNRYVGDSPP 126 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 L F + L GL++ T D +AR L + G++ + Sbjct: 127 VRVLQRHFRQQECFTPLADAASGLVVYTQDRRMARRLAEDIELLEQECIATVEGRIAEGG 186 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 L L +G+ G +V+ S + L+ + +I + E +V L R Sbjct: 187 LERLCRGLEFNGRPLPPARVSWQ----SETRLRFALKGIRPGQIPAMCEAVGLQVTALKR 242 Query: 218 ISYGPFQLGTLLAGSTREVSKKI 240 + G L + G R + Sbjct: 243 LRIGRVSLAKVPEGQWRYLLPWE 265 >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 = 106 bits (263), Expect = 7e-21, Method: Composition-based stats. Identities = 64/231 (27%), Positives = 101/231 (43%), Gaps = 20/231 (8%) Query: 30 EVERMIAQQRVKVNGI-LLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTH 88 E R+I + R+ +NG +++ VNV D I V+G PL R L ++ +V+ Sbjct: 8 EAGRLIERGRISINGRPIVQNRWVNVH-KDSILVNGTPLEATCRLTLLMHKPAGYVVSRD 66 Query: 89 SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + F LP + + GRLD +T GLLLLTND L L P + +VYRV Sbjct: 67 DPLNRDTV-FQLLPDPSVYIGASGRLDKDTTGLLLLTNDTYLQSSLVDPVYKVPKVYRVV 125 Query: 149 FHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-------------AWVTVGLR 194 G + +L L+ G+ ++ V G + + L Sbjct: 126 VKGAALNGAQLMALRSGVSLEDGPTLPALVEPLDVNGDPLPLEMSEYDRYKCKQLNITLW 185 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL---GTLLAGSTREVSKKILR 242 EG+NR+++++ E V L RI GPF L G G R+++ + Sbjct: 186 EGRNRQVRRMVEAVGSTVRDLCRIQLGPFSLHAAGVPNPGDVRQLTIDEVE 236 >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 = 106 bits (263), Expect = 7e-21, Method: Composition-based stats. Identities = 46/238 (19%), Positives = 87/238 (36%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A SR E ++ I V V+G+++E + + + + Sbjct: 2 SDPIRLDKHVAAVFGCSRGEAQQYIEGGWVSVDGVVVEEPQAPIT-GQQVSLAADAVLGQ 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRS--------TVFDNLPSIFSRVISVGRLDINTEGLL 122 L +KP G+ + T L F R+ + LD GLL Sbjct: 61 AEPATLLLNKPAGMSCEAAVALATPQSRSSLDQTEIRVLKRHFLRLSAPMPLDDEASGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +L+ DG + R L + + Y V G++ + L G+V Q +V+ + Sbjct: 121 VLSQDGRILRRLTADAATIEQEYLVEVRGELRPYGMARLASGLVYQQRSLPACKVSWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + ++ + +++ + V + R+ G LG L G R + Sbjct: 181 ER----LRFAIKHVQPGQLRYMCNEVGLDVVTIRRLRVGRISLGKLALGEWRYLPTGE 234 >gi|291545735|emb|CBL18843.1| pseudouridine synthase family [Ruminococcus sp. SR1/5] Length = 610 Score = 106 bits (263), Expect = 8e-21, Method: Composition-based stats. Identities = 41/179 (22%), Positives = 74/179 (41%), Gaps = 4/179 (2%) Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R+ +GRLD ++EGLLLLTN+G L + + Y+V + V ++ + + Sbjct: 9 YPVRIYPIGRLDKDSEGLLLLTNEGDLVNRIMKAGNYHEKEYQVTVNKPVTEEFIRGMGG 68 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 G+ I +VT + G N+ + L +G NR+I+++ E+F +KV L R+ Sbjct: 69 GVPILDTVTRPCKVT---KTGKNS-FRIILTQGLNRQIRRMCEYFGYKVVTLKRVRIMNL 124 Query: 224 QLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 + L G RE+ + +E E+++ Sbjct: 125 YIDGLEEGKYREIRPEERKELEEMLSSEKSEKRTGGSHERIIHKKMKELGEKLREASRA 183 >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 = 106 bits (263), Expect = 8e-21, Method: Composition-based stats. Identities = 45/238 (18%), Positives = 88/238 (36%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A SR E ++ I V V+G+++E + + + + Sbjct: 2 SDPIRLDKHVAAVFGCSRGEAQQYIEGGWVSVDGVVVEEPQAPIT-GQQVSLAADAVLGQ 60 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRS--------TVFDNLPSIFSRVISVGRLDINTEGLL 122 + L +KP G+ + T L F R+ + LD GLL Sbjct: 61 AKPATLLLNKPAGMSCEAAVALATPQSRSSLDQTEIRVLKRHFLRLSAPMPLDDEASGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +L+ DG + R L + + Y V G++ + L G++ Q +V+ + Sbjct: 121 VLSQDGRILRRLTADAATIEQEYLVEVRGELRPYGMARLASGLLYQQRSLPACKVSWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + ++ + +++ + V + R+ G LG L G R + Sbjct: 181 ER----LRFAIKHVQPGQLRYMCNEVGLDVVTIRRLRVGRISLGKLALGEWRYLPTGE 234 >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 = 105 bits (262), Expect = 9e-21, Method: Composition-based stats. Identities = 53/242 (21%), Positives = 91/242 (37%), Gaps = 16/242 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K +A SR E E+ I + V+G+L E A V I + + Sbjct: 2 TDTIRLAKRVAEELGCSRTEAEQFIEGGWITVDGVLTEEAGARVAPEQAIVLLPDAVPAP 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFD------------NLPSIFSRVISVGRLDINT 118 L HKP G+ T + +S + L + L+ + Sbjct: 62 LDPVTILLHKPAGMRTIDAIDPEQSWITPATLGPDDRSGLRFLRRHTKALTLTNPLEDSA 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLL+LT D + R L +++ + + V G +D L LL+KG+ G M+V+ Sbjct: 122 SGLLVLTQDWRIERALVQEASRIEQEFVVEVTGTLDAAGLELLQKGLKWNGKPIASMKVS 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 S + ++ + +I + E +V + RI G + L G R + Sbjct: 182 WQ----SEHKLRFAIKAAERGQIPYLCEKVGLQVVSIKRIRIGRMSMAALPVGQWRYLLG 237 Query: 239 KI 240 Sbjct: 238 YE 239 >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 = 105 bits (262), Expect = 9e-21, Method: Composition-based stats. Identities = 50/184 (27%), Positives = 85/184 (46%), Gaps = 16/184 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++HKP G+++ + + V VGRLD ++EGLLLLTN+G L Sbjct: 6 RYIIFHKPYGVLS-QFTQESPKHITLKDYIDVPDVYPVGRLDWDSEGLLLLTNNGRLQHR 64 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------ 181 L P R Y V+ D++ ++ L+ G+ I+ +V L Sbjct: 65 LSDPRFGHERTYWVQVERIPDEEAISKLQTGVEIRDYRTRPAKVGLLPEYPPVGDRQPPI 124 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + AW+ + L EGKNR+++++ + RL+R+S G +L L G R+++ Sbjct: 125 RFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVSIGHLRLDGLALGEWRDLTS 184 Query: 239 KILR 242 L+ Sbjct: 185 LELK 188 >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 = 105 bits (262), Expect = 9e-21, Method: Composition-based stats. Identities = 55/182 (30%), Positives = 83/182 (45%) Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 I VDG L A + L L L T ++ + VGRLD + Sbjct: 7 VICVDGRRLVSAAKVYLLLNKPRGLLTTYGDPQGRKTVYDCLAGHDLPFLAPVGRLDCAS 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 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 NAW+ V L EG+NR+I+++ +V RL+R++ G +LG + G+ R ++ Sbjct: 127 PLRVGERNAWLEVVLSEGRNRQIRRMMALNGAEVLRLVRVAVGGLRLGDVRKGAFRHLTD 186 Query: 239 KI 240 Sbjct: 187 AE 188 >gi|241765949|ref|ZP_04763876.1| RNA-binding S4 domain protein [Acidovorax delafieldii 2AN] gi|241364099|gb|EER59324.1| RNA-binding S4 domain protein [Acidovorax delafieldii 2AN] Length = 265 Score = 105 bits (262), Expect = 9e-21, Method: Composition-based stats. Identities = 47/270 (17%), Positives = 83/270 (30%), Gaps = 37/270 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M DK+ ++ R++K +A SR E+ I V V+G + E V + Sbjct: 1 MTDKHPAPDH---IRLAKRVAEQLNCSRSTAEQFIEGGFVSVDGRVEEAPGARVRPDQAV 57 Query: 61 EVD-GVPLRKAERTRLWLYHKPIG-----------------------------LVTTHSD 90 V L L L+ L++ S Sbjct: 58 VVAPDASLLALTPVTLLLHKPAGFEAGLGQPGQGGAPHSSQGSRSQGAPSAATLLSAASH 117 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 ++ L F ++ L GL++ T D +AR L + V Sbjct: 118 LPEDASGIRVLQRHFKQLECFTPLPTEASGLVVYTQDKRIARKLAEDIESLEQECIVEVA 177 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 G + + L L G+ G ++V+ + + L+ + +I + E Sbjct: 178 GDIAPNGLQRLCHGLSFNGRPLPPIKVSWQNE----TRLRFALKGIRPGQIPAMCEAVGL 233 Query: 211 KVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + RI G L + G R + Sbjct: 234 TAVGIKRIRIGRVPLAKVPEGQWRYLQPWE 263 >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 = 105 bits (262), Expect = 1e-20, Method: Composition-based stats. Identities = 67/221 (30%), Positives = 99/221 (44%), Gaps = 4/221 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAERTRLWL 77 + RAG SRRE +IA +V+VN + V + D + V G LR A Sbjct: 521 LPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAQDDVHVAGHQSRLRFAPPRLWIY 580 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + +V+ + ++ VG L + G+LLLTNDG L+R LE P Sbjct: 581 HKPAHVIVSRNDAAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLENP 640 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + R Y +R D ++ L +GI I G Y + + ++ S V V +R G Sbjct: 641 KSMVQRTYLLRVRPAFDPVLVHKLNTEGIHINGRLYRNAEFFVNPATKSRYSVKVKVR-G 699 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ I + + V R RIS+GPF L L GS REV+ Sbjct: 700 ESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 740 >gi|297517087|ref|ZP_06935473.1| 23S rRNA pseudouridine synthase F [Escherichia coli OP50] Length = 147 Score = 105 bits (262), Expect = 1e-20, Method: Composition-based stats. Identities = 39/144 (27%), Positives = 62/144 (43%), Gaps = 1/144 (0%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNGQLIEPR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L L + + DG + + RV +GRLD +++GL+ LTN G L Sbjct: 63 EAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVD 154 + + Y V + Sbjct: 123 VNKILRAGNDHEKEYLVTVDKPIT 146 >gi|322503526|emb|CBZ38612.1| unnamed protein product [Leishmania donovani BPK282A1] Length = 877 Score = 105 bits (261), Expect = 1e-20, Method: Composition-based stats. Identities = 67/221 (30%), Positives = 99/221 (44%), Gaps = 4/221 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAERTRLWL 77 + RAG SRRE +IA +V+VN + V + D + V G LR A Sbjct: 521 LPRAGFCSRREAAAIIASGQVRVNNVTERNPFRLVQAQDDVHVAGHQSRLRFAPPRLWIY 580 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + +V+ + ++ VG L + G+LLLTNDG L+R LE P Sbjct: 581 HKPAHVIVSRNDAAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLENP 640 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + R Y +R D ++ L +GI I G Y + + ++ S V V +R G Sbjct: 641 KSMVQRTYLLRVRPAFDPVLVHKLNTEGIQINGRLYRNAEFFVNPATKSRYSVKVKVR-G 699 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ I + + V R RIS+GPF L L GS REV+ Sbjct: 700 ESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 740 >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 = 105 bits (261), Expect = 1e-20, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 83/187 (44%), Gaps = 17/187 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 R L++KP +++ +D L S VGRLD ++EGLLLLTN G L Sbjct: 6 YRYILFNKPYNVLSQFTDNRNVKHRSSTLKEYISVDSVYPVGRLDQDSEGLLLLTNHGQL 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 VSKKILR 242 ++ ++ Sbjct: 186 LNLSEIQ 192 >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 = 104 bits (260), Expect = 2e-20, Method: Composition-based stats. Identities = 46/237 (19%), Positives = 85/237 (35%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A A SR E + I V V+G+++E L A Sbjct: 2 SDPIRLDKCVAAAFGCSRGEAQHYIEGGWVSVDGVVVEEPQALATVAQVTLAANAVLAPA 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ +T L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGICADAALALATPATRSALDQSDLRVLKRHFLRLQAPLPLEDAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L ++ + + V G++ + L G+V Q +V+ ++ Sbjct: 122 LSQDGRVLRRLSADASAIEQEFLVEVQGELRPYGMARLAHGLVYQQRSLSPCKVSWQSED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKHVQPGQLRYMCGEVGLEVRSIRRLRVGRVSLGKLAIGEWRYLPAGE 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 = 104 bits (260), Expect = 2e-20, Method: Composition-based stats. Identities = 64/237 (27%), Positives = 101/237 (42%), Gaps = 18/237 (7%) Query: 23 AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPI 82 GI S E R+I + R+ +NG + + + D I V+G PL R L ++ Sbjct: 1 MGIPSGTEAGRLIERGRISINGRPIVQNRWVDVRKDSILVNGTPLEATCRLTLLMHKPAG 60 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 +V+ + + F LP + + GRLD +T GLLLLTND L L P + Sbjct: 61 YVVSRDDPLNRDTV-FQLLPDPSVYIGASGRLDKDTTGLLLLTNDTYLQSSLVDPVYKVP 119 Query: 143 RVYRVRFHGQV-DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-------------AW 188 +VYRV G + +L L+ G+ ++ V G Sbjct: 120 KVYRVVVKGAALNGAQLMALRSGVSLEDGPTLPALVEPLDVNGDPLPLEMSEYDRYKCKQ 179 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL---GTLLAGSTREVSKKILR 242 + + L EG+NR+++++ E V L RI GPF L G G R+++ + Sbjct: 180 LNITLWEGRNRQVRRMVEAVGSTVRDLCRIQLGPFSLHAAGVPNPGDVRQLTIDEVE 236 >gi|291615279|ref|YP_003525436.1| RNA-binding S4 domain protein [Sideroxydans lithotrophicus ES-1] gi|291585391|gb|ADE13049.1| RNA-binding S4 domain protein [Sideroxydans lithotrophicus ES-1] Length = 272 Score = 104 bits (260), Expect = 2e-20, Method: Composition-based stats. Identities = 45/272 (16%), Positives = 82/272 (30%), Gaps = 49/272 (18%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAE 71 P R+++ +A SRRE E IA V V+G ++E V +E+ L E Sbjct: 4 PVRLARRLAELVHCSRREAELYIAGGWVSVDGQVVEEPQFMVS-QQKVELHPDATLVPVE 62 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVF--------------------------------- 98 + + + R Sbjct: 63 SVTILFHQPSPQPSDGTTSHSTRPPKNGDQVAGYPSGRGSDREGQSLILADSIRQLPSAD 122 Query: 99 ----------DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 L F R+ L ++ GL + T D + R L + + Y V Sbjct: 123 TRAADDRSGIRLLKQHFVRLTQCLPLQLHASGLTVFTQDYRVIRKLTEDAATIEQEYVVE 182 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 G++ D LL G+ G ++V+ + + L+ + ++ + Sbjct: 183 VAGELVPDGFKLLNHGLSFNGKPLPPVKVSWQNE----THLRFALKGAQPGQVAHMCLAV 238 Query: 209 NWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 +V + R+ G + L G R + Sbjct: 239 GLQVQAMKRLRIGRMSMCKLPLGQWRYLMPYE 270 >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 = 104 bits (259), Expect = 2e-20, Method: Composition-based stats. Identities = 60/230 (26%), Positives = 103/230 (44%), Gaps = 14/230 (6%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K R L++KP G++T +DP+GR T+ D V GRLD+++EGLL L+ND Sbjct: 6 EKQGTYRYILFYKPYGVLTAFTDPEGRPTLKD--WIPVPDVYPAGRLDMDSEGLLFLSND 63 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----- 182 G L + P Q + Y V+ G V + L L++G+ ++G QV + + Sbjct: 64 GDLMHRITDPRYQHPKTYLVQVEGVVSGEALAKLRRGVEVKGRQTQRCQVMVIPEPDLPP 123 Query: 183 -------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 G W+ + L EGK R+++ + RL+R++ GP L L G R+ Sbjct: 124 RAKPVTPHGPTTWLRMVLTEGKKRQVRHMTAAVGHPTLRLVRVAIGPLSLEGLTPGEWRD 183 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 ++ + L L + ++ + + E+ R+ S + Sbjct: 184 LTPQELALLKRSLRLTDGRIPAMSAGNARESRYRNAARQSSNRGSRPSGA 233 >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 = 104 bits (258), Expect = 3e-20, Method: Composition-based stats. Identities = 47/182 (25%), Positives = 84/182 (46%), Gaps = 17/182 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + +++KP G+++ + G + V + GRLD ++EG LLLT++G L + L Sbjct: 4 VIIFNKPFGVLSQFTPEAGHPALDSF--GFPPGVYAAGRLDHDSEGALLLTDNGKLIKKL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + R Y + GQ+ ++ + L KG+ I+G + + Sbjct: 62 LDPKYEHPRTYLAQVDGQITEEAVCKLAKGVDIKGYHTKPCKAEIVEAPEWIWERNPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 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|325272758|ref|ZP_08139106.1| S4 domain-containing protein [Pseudomonas sp. TJI-51] gi|324102109|gb|EGB99607.1| S4 domain-containing protein [Pseudomonas sp. TJI-51] Length = 236 Score = 104 bits (258), Expect = 3e-20, Method: Composition-based stats. Identities = 46/237 (19%), Positives = 81/237 (34%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G+++E+ V + G Sbjct: 2 SEPVRLSKRLIEQLGCSRREAELYIEGGWVTVDGVVVEQPQFKVGQQRVELLPGARAEPL 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDG-------RSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 E L L + L F+R V L+ GL + Sbjct: 62 EPVTLLLNQPADMDSESARASINMGSLSETHREGVRALHGHFARQACVAPLERGASGLQV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D + R +E + + + V GQ L L +G + + + + Sbjct: 122 FTQDWRVTRKIEADLRRLEQEFIVEVRGQTTPQALERLARGAMRNDRELPKAKASWQNE- 180 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ + +I ++ + ++ + RI G +G L G R V+ Sbjct: 181 ---THLRMALKNPQPGQIAELCAYLRLELVGMRRIRLGGVSMGKLPLGQWRYVAATE 234 >gi|255654429|ref|ZP_05399838.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-23m63] Length = 141 Score = 104 bits (258), Expect = 3e-20, Method: Composition-based stats. Identities = 39/138 (28%), Positives = 59/138 (42%), Gaps = 1/138 (0%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E L + + T D +L + VGRLD +TEGLL+LTNDG L Sbjct: 63 EYIYLMMNKPDGYVSATTDKYDPTVLDLIDLSYLAFEPFPVGRLDKDTEGLLVLTNDGKL 122 Query: 131 ARVLELPSTQWLRVYRVR 148 + + P + Y + Sbjct: 123 SHRVLSPKKHVPKTYYDK 140 >gi|77457416|ref|YP_346921.1| RNA-binding S4 [Pseudomonas fluorescens Pf0-1] gi|77381419|gb|ABA72932.1| conserved hypothetical protein [Pseudomonas fluorescens Pf0-1] Length = 236 Score = 104 bits (258), Expect = 3e-20, Method: Composition-based stats. Identities = 49/238 (20%), Positives = 85/238 (35%), Gaps = 13/238 (5%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLR 68 P R+SK + SRRE E I V V+G +++ V +E+D Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIDEPQFKVG-DQKVELDKDAKATA 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPD------GRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 T L + + + + L F R+ + L GLL Sbjct: 61 PEPVTILLNVPAGMDVDSAMQSLNAETLSEEHRYGKRPLRGHFLRLTASADLQPKASGLL 120 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T D + R L + + + Y V G + LN L+ G+ +G ++ + + Sbjct: 121 VFTQDWKVLRKLTADAAKIEQEYVVEVEGDMVAHGLNRLQHGLTHKGKELPPVKASWQNE 180 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + I + E KV + RI G +G + G R +S K Sbjct: 181 NR----LRFAMKNPQPGIIAQFCEAVGLKVIGIRRIRIGGVSIGKVPVGQWRYLSGKE 234 >gi|330751986|emb|CBL80499.1| ribosomal large subunit pseudouridine synthase F [uncultured Polaribacter sp.] Length = 164 Score = 103 bits (257), Expect = 3e-20, Method: Composition-based stats. Identities = 43/162 (26%), Positives = 72/162 (44%), Gaps = 3/162 (1%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + N ++K I+ +G+ SRRE E+ I + R+ +NG + V D ++ DG Sbjct: 1 METNNQQSINLNKYISSSGVCSRREAEKFIKEGRITINGKK-TQLGNRVGKKDVVKFDGR 59 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + T +KP+G+V+T D + R+ +GRLD +EGL+ LT Sbjct: 60 LVEPKNITLYIALNKPVGIVSTTDD--REPNNIVQHVNYPERLFPIGRLDKPSEGLIFLT 117 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 NDG + + + Y V + D + + GI I Sbjct: 118 NDGDIVNKILRAGNNHEKEYFVSVDKSITDDFIASMGNGIPI 159 >gi|330826621|ref|YP_004389924.1| RNA-binding S4 domain-containing protein [Alicycliphilus denitrificans K601] gi|329311993|gb|AEB86408.1| RNA-binding S4 domain protein [Alicycliphilus denitrificans K601] Length = 241 Score = 103 bits (257), Expect = 3e-20, Method: Composition-based stats. Identities = 45/235 (19%), Positives = 74/235 (31%), Gaps = 9/235 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLRK 69 R++K +A+ SR E+ I V V+G ++E A V T + + D L Sbjct: 8 EAVRLAKRVAQQLGCSRATAEQYIEGGWVSVDGRVVEEPAARVAPTQAVALAPDANLLDL 67 Query: 70 AERTRLWL----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 T L + L + L + L GL + T Sbjct: 68 RPVTLLLHRPANANAQEFLRAERHAAELDRPGTRVLRRHLRALECAAPLPAGASGLTVYT 127 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + +AR L + V GQ+ D L L + + G L + Sbjct: 128 QERRIARRLAEDMALLEQECTVHVEGQIAPDGLQALGRNLPHHGG---PAAPHLKASWQN 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ I ++ +V + RI G L L G R + Sbjct: 185 ETHLRLALKGVDMARIPELCAAVGLRVLGVRRIRMGRLPLARLPEGQWRYLQPWE 239 >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 = 103 bits (257), Expect = 3e-20, Method: Composition-based stats. Identities = 72/221 (32%), Positives = 110/221 (49%), Gaps = 4/221 (1%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ERTRLWLY 78 + RAG SRRE +IA +V+VN ++ V + D + V G R RLW+Y Sbjct: 336 LPRAGFCSRREAAAIIASGQVRVNNVVERNPFRLVEAQDDVHVAGHQSRLRFAPPRLWMY 395 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-SVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP ++ + +D GR+ + + + + VG L + G+LLLTNDG L+R LE P Sbjct: 396 NKPANVIVSRNDVAGRTLITKHARILGMDHLVPVGSLPMRAHGILLLTNDGELSRFLESP 455 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + R Y +R ++ L +GI I G Y + + ++ S V V +R G Sbjct: 456 KSMVQRTYMLRVRPAFGPVLVHKLNTEGIQINGRRYRNTEFFVNPATKSRYSVKVKVR-G 514 Query: 197 KNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 ++ I + + V R RIS+GPF L L GS REV+ Sbjct: 515 ESMPIAHLMQHLGRTVERGGRISFGPFALSNLAVGSVREVT 555 >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 = 103 bits (257), Expect = 4e-20, Method: Composition-based stats. Identities = 52/184 (28%), Positives = 85/184 (46%), Gaps = 16/184 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++HKP G+++ + + V VGRLD ++EGLLLLTN+G L Sbjct: 6 RYIIFHKPYGVLS-QFTQESPKHITLKDYIDVPNVYPVGRLDWDSEGLLLLTNNGRLQHR 64 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------ 181 L P R Y V+ D++ +N L+ G+ IQ +V L Sbjct: 65 LSDPRFGHERTYWVQVERIPDEEAINRLQAGVEIQDYRTRPAKVRLLPEYPPVGDRQPPI 124 Query: 182 ---QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + AW+ + L EGKNR+++++ + RL+R+S G +L L G R+++ Sbjct: 125 RFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLLRVSIGHLRLDGLALGEWRDLTS 184 Query: 239 KILR 242 L+ Sbjct: 185 LELK 188 >gi|330752219|emb|CBL87177.1| ribosomal large subunit pseudouridine synthase B [uncultured Sphingobacteria bacterium] Length = 230 Score = 103 bits (257), Expect = 4e-20, Method: Composition-based stats. Identities = 51/237 (21%), Positives = 101/237 (42%), Gaps = 7/237 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA +RRE R++A+ +KVN +++ + VM D + PL++ Sbjct: 1 MRLNKYIAHTRYCTRREASRLLARGEIKVNNKVVKEESYRVMEGDEVTHLNKPLQEQLLY 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R L +KP T D D + + + +I+V + + GLLLLT+D L Sbjct: 61 RYLLINKPKHFTTDIGDKDSKYIMGLIKKEDPTGLIAVDHMGPKSVGLLLLTSDKALVEK 120 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 L + + RVY + + +++ +N L ++ ++ ++ + + Sbjct: 121 LNQKNRKVRRVYLIELNKDIEKKDINKL-----LKDRKTIKIESASHVDGYQANYIGLEM 175 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 G +K V +++ R+ R Y L G R + + + E++ H + Sbjct: 176 TIGSENILKGVINRMGFEIERIDRSYYAGLTKKDLKRGWIRPL--QEMEERMMKHFI 230 >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 = 103 bits (257), Expect = 4e-20, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 87/237 (36%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+S+ + SRRE E I V V+G ++E V+ + G Sbjct: 2 TEPIRLSRRLVELIACSRREAELYIEGGWVSVDGTVVEEPQFKVLDQRVELLPGARPEPL 61 Query: 71 ERTRLWLYHKPIG-------LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L L+ L+ + ++V L F+R + LD GLL+ Sbjct: 62 APVTLLLHKPAGCREDEAARLLVAAHRWEADASVLRPLKKHFARQRATLPLDTEASGLLV 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + G+ R L + + Y V G++ L L+ G+ +G +V+ + Sbjct: 122 FSQQHGVLRKLVEDGARIEQEYLVEVAGELPPGGLERLRHGLAYRGRALPPCKVSWQNEN 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + L+ + +++ + E +V + R+ G L L +G R + Sbjct: 182 H----LRFALKGAQPGQLRFMCESEGLEVRGIRRLRIGALSLARLPSGEWRYLGVHE 234 >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 = 103 bits (257), Expect = 4e-20, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 88/237 (37%), Gaps = 11/237 (4%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+ K +A A SR E + I V V+G+++E + + L A Sbjct: 2 SDPIRLDKCVAAAFGCSRGEAQHYIEGGWVSVDGVVVEEPQALATAAQVTLAENAVLAPA 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVF-------DNLPSIFSRVISVGRLDINTEGLLL 123 E L L+ V +T L F R+ + L+ GLL+ Sbjct: 62 EPATLLLHKPAGICVDAALALATPATRSALDQSDLRVLKRHFLRLQAPLPLEDAASGLLI 121 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 L+ DG + R L ++ + + V G++ + L G+V Q +V+ ++ Sbjct: 122 LSQDGRVLRRLSADASAIEQEFLVEVQGELRPYGMARLAHGLVYQHRSLSACKVSWQSED 181 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + ++ + +++ + +V + R+ G LG L G R + Sbjct: 182 R----LRFAIKHVQPGQLRYMCGEVGLEVRSIRRLRVGRVSLGRLAIGEWRYLPVGE 234 >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 = 103 bits (257), Expect = 4e-20, Method: Composition-based stats. Identities = 50/188 (26%), Positives = 77/188 (40%), Gaps = 17/188 (9%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + T+ D + V VGRLD ++EGLLLLTNDG Sbjct: 2 AHNFKYIIFHKPYGVLSQFTRELPEHVTLKDYID--VPDVYPVGRLDWDSEGLLLLTNDG 59 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L + P R Y V+ D + L +G+ IQ QV L ++ Sbjct: 60 KLQHHIANPRFGHQRTYWVQVERIPDPVAIAKLGQGVEIQNYRTLPAQVKLLLEEPIVGE 119 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 AW+ + L+EGKNR+++++ + RLIR+ QL L G+ Sbjct: 120 RYPPIRFRKNVPTAWLEMTLKEGKNRQVRRMTAAVGFPTLRLIRVRIAQLQLDDLPVGTW 179 Query: 234 REVSKKIL 241 R +S + Sbjct: 180 RYLSPVEV 187 >gi|319764400|ref|YP_004128337.1| RNA-binding s4 domain protein [Alicycliphilus denitrificans BC] gi|317118961|gb|ADV01450.1| RNA-binding S4 domain protein [Alicycliphilus denitrificans BC] Length = 241 Score = 103 bits (256), Expect = 5e-20, Method: Composition-based stats. Identities = 45/235 (19%), Positives = 74/235 (31%), Gaps = 9/235 (3%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLRK 69 R++K +A+ SR E+ I V V+G ++E A V T + + D L Sbjct: 8 EAVRLAKRVAQQLGCSRATAEQYIEGGWVSVDGRVVEEPAARVAPTQAVALAPDANLLDL 67 Query: 70 AERTRLWL----YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 T L + L + L + L GL + T Sbjct: 68 RPVTLLLHRPANANAQEFLRAERHAAELDRPGTRVLRRHLRALECAAPLPAGASGLTVYT 127 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + +AR L + V GQ+ D L L + + G L + Sbjct: 128 QERRIARRLAEDMALLEQECTVHVEGQIAPDGLQALGRNLPHHGGLAAP---HLKASWQN 184 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L+ I ++ +V + RI G L L G R + Sbjct: 185 ETHLRLALKGVDMARIPELCAAVGLRVLGVRRIRMGRLPLARLPEGQWRYLQPWE 239 >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 = 103 bits (256), Expect = 5e-20, Method: Composition-based stats. Identities = 55/230 (23%), Positives = 95/230 (41%), Gaps = 8/230 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ +I S + +R+I V G L + I+ G + Sbjct: 1 MRLLDLIQAECHLSATKAKRLIHAGEVFYKGHPLVDINQALDPDLMAIDYQGKRIGLGLG 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +Y+K G V+ T +D+LP + VGRLD + EGLLLLT++G L Sbjct: 61 HHYLVYNKAAGQVSAK-KDAHWPTPYDHLPECYQGTSIVGRLDRDVEGLLLLTDNGQLHY 119 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSNAWVTV 191 LE + Y+V +G + D + + G+ Q+ + + + + Sbjct: 120 FLEHARFHIPKTYQVTVNGDLGADLVEKFQAGVTFADGTTCRPAQLEIIGPRQA----YL 175 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKI 240 + +G ++KK+F KV+ L R+S GP +L L G R ++ + Sbjct: 176 TIDQGMRHQVKKMFLANGLKVSYLKRLSLGPLRLDPDLKRGHFRPLTGEE 225 >gi|167470950|ref|ZP_02335654.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis FV-1] Length = 165 Score = 103 bits (256), Expect = 5e-20, Method: Composition-based stats. Identities = 40/165 (24%), Positives = 77/165 (46%), Gaps = 2/165 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQ 176 + P + Y V + D G+ + Q Sbjct: 121 VTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLYNEKSLTKPAQ 165 >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 = 102 bits (255), Expect = 6e-20, Method: Composition-based stats. Identities = 54/143 (37%), Positives = 79/143 (55%), Gaps = 1/143 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K IA +G SRR+ E +I++ +VKVNG + V +D IEV+G+ + Sbjct: 2 TKELERLQKRIANSGYTSRRKAETLISEGKVKVNGTTVTELGTKVKPSDTIEVEGIKIEL 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E L+HKP ++T+ SD GR+ V D I +R+ VGRLD +T GLLLLTNDG Sbjct: 62 -EDKIYILFHKPTQVITSVSDDRGRTVVTDYFKDIEARIYPVGRLDYDTSGLLLLTNDGE 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQ 152 ++ P Q + Y + G Sbjct: 121 FTNLMTHPRYQIKKKYVAKLKGY 143 >gi|160901833|ref|YP_001567414.1| pseudouridine synthase [Petrotoga mobilis SJ95] gi|160359477|gb|ABX31091.1| pseudouridine synthase [Petrotoga mobilis SJ95] Length = 220 Score = 102 bits (255), Expect = 6e-20, Method: Composition-based stats. Identities = 59/215 (27%), Positives = 101/215 (46%), Gaps = 10/215 (4%) Query: 41 KVNGILLERAAVNVMSTDHIEVDGVPL-------RKAERTRLWLYHKPIGLVTTHSDPDG 93 KVNG L++ + + IE + + + L L T D Sbjct: 2 KVNGKLVKEPWYELKENNFIEFNNKKYGLSDLQKKAENKVYYLLNKPKGILCTFKDDFGR 61 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 ++ I RV VGRLD ++ GLLLLTNDG LA L P + +VY V G Sbjct: 62 KTINDLIKGKIEERVFYVGRLDYDSSGLLLLTNDGDLANYLLRPENKVTKVYEVLVKGSP 121 Query: 154 DQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + +L +L++GI ++ G +V + ++ + + + L EGK R+IK + + +KV Sbjct: 122 SKKELQMLEEGITLETGYKTMKSKVKILKKQKDLSLLQISLNEGKKRQIKLMIKALGYKV 181 Query: 213 NRLIRISYGPFQLGTLL-AGSTREV-SKKILREQL 245 L RI +GP+ + + G+ + + S + ++ +L Sbjct: 182 IELKRIKFGPWSIKEVPKPGNIKSLGSMEEVKNRL 216 >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 = 102 bits (255), Expect = 6e-20, Method: Composition-based stats. Identities = 54/185 (29%), Positives = 89/185 (48%), Gaps = 17/185 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L+HKP G+++ S +G T+ D + + V VGRLD ++EGL+LLTN G L Sbjct: 1 MHYRYLLFHKPYGVLSQFSGGEGPPTLKDYIT--VADVYPVGRLDRDSEGLMLLTNHGEL 58 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------ 184 L P R Y V+ G + L L G+++QG C QV + + Sbjct: 59 QHRLSDPRFAHPRTYWVQVEGCPTPEALEQLATGVMVQGKCTRPAQVEVLAAEPDLPPRD 118 Query: 185 ---------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 W+++ LREG+NR+++++ + RL+R++ LG+L G R+ Sbjct: 119 PPIRFRLSIPTTWLSLTLREGRNRQVRRMTAAVGFPTLRLVRVAIAHLNLGSLAPGQWRD 178 Query: 236 VSKKI 240 ++ Sbjct: 179 LTPVE 183 >gi|330722223|gb|EGH00111.1| Ribosomal large subunit pseudouridine synthase E [gamma proteobacterium IMCC2047] Length = 220 Score = 102 bits (255), Expect = 6e-20, Method: Composition-based stats. Identities = 48/222 (21%), Positives = 95/222 (42%), Gaps = 16/222 (7%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L++KP +++ +D GR T+ D + + GRLD N+EGLLLLT++G L Sbjct: 1 MPTLILFNKPYDVLSQFTDDKGRPTLADFITQKGV--YAAGRLDYNSEGLLLLTDNGQLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--------- 182 + P + + Y V+ G + + + L+ GI ++ +V + Sbjct: 59 HHIAHPRHKQEKTYWVQVEGDISEQAVKQLRTGIQLKDGLTRPAKVQKLPEPELWPRNPP 118 Query: 183 -----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +WV + + EG+NR+++++ + RL+R++ G ++L L G + ++ Sbjct: 119 VRFRAEIPTSWVEIKISEGRNRQVRRMTAAVGFPTLRLVRVAIGNWELENLQPGEYKVLT 178 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 E + L + S+ + P Sbjct: 179 VDAPAEPKKHASKKTRIPTLKPTVRYSKKRTKQALKRQKAKP 220 >gi|299533144|ref|ZP_07046529.1| RNA-binding S4 [Comamonas testosteroni S44] gi|298718921|gb|EFI59893.1| RNA-binding S4 [Comamonas testosteroni S44] Length = 255 Score = 102 bits (254), Expect = 7e-20, Method: Composition-based stats. Identities = 47/248 (18%), Positives = 78/248 (31%), Gaps = 16/248 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVP 66 R++K +A SRRE E I V+V+G +++ V + + D P Sbjct: 6 PEQESIRLAKRVAEQEQCSRREAELHIVAGNVQVDGKVVQVPETRVRPDQVVILRKDAKP 65 Query: 67 LRKAERTRLWLYHKPIGL--------------VTTHSDPDGRSTVFDNLPSIFSRVISVG 112 T L + L F + S Sbjct: 66 EAIPPVTILMNKPSGMTQGKAYGRVRSAHSLLREDTKAKLDTPMPQLVLDHHFRNLESFL 125 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + GL++ T D +AR L + V GQ+ +D L +L +G+ I G Sbjct: 126 TIPLPASGLIVYTQDKRVARKLAEEGMWLEQEIIVGVEGQIIEDGLEILYEGLPIPGGNG 185 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 S + L+ EI+K+ V + R+ G L + G Sbjct: 186 HRRMPPCHVSWQSENHLRFALKGIAPEEIEKMCAAIGLTVVSMRRLRLGRVSLAKVPEGQ 245 Query: 233 TREVSKKI 240 R + Sbjct: 246 WRYLMPWE 253 >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 = 102 bits (254), Expect = 9e-20, Method: Composition-based stats. Identities = 59/306 (19%), Positives = 110/306 (35%), Gaps = 70/306 (22%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKAER 72 R++K+I+ SRR+ ++ I VK+N +++ ++ D I++ G + + Sbjct: 22 VRLNKIISLEKKMSRRKSDQFIKDGNVKLNNKIVKNPGTHIDVKKDKIKICGKTVNILKT 81 Query: 73 TRLWL------------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINT 118 ++ + L T+ + + S I +SVGRLD NT Sbjct: 82 QKMISPNDSSMYKWFVLHKPKGLLCTSDDEKERASIYSLFPQDILDNYRLVSVGRLDRNT 141 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----------- 167 G+LLLTN+ L P Q +R YRV G L L G+ + Sbjct: 142 SGVLLLTNEYAWVNKLTHPKYQRIRTYRVHIEGAAQMKVLRELAAGVYLPDDDRGGKVKK 201 Query: 168 -----------------------------------QGICYGDMQVTLDTQKGSN------ 186 +G + + Q+ Sbjct: 202 GMQKGMQKGMQKGMQKGMQKGVPKGIQKGFPTGMQKGFPTQPAFIEILRQETIKVKDQVK 261 Query: 187 --AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL-LAGSTREVSKKILRE 243 + + + +REG+NR+I+K+FE N V ++ R ++ L + RE++ + + + Sbjct: 262 RVSVLNISVREGRNRQIRKMFEQINQPVIKIKRTAFENITLKDVFFPKQYRELTPREVSD 321 Query: 244 QLGPHL 249 Sbjct: 322 LKARRF 327 >gi|255069983|ref|XP_002507073.1| pseudouridylate synthase [Micromonas sp. RCC299] gi|226522348|gb|ACO68331.1| pseudouridylate synthase [Micromonas sp. RCC299] Length = 334 Score = 102 bits (254), Expect = 9e-20, Method: Composition-based stats. Identities = 56/236 (23%), Positives = 91/236 (38%), Gaps = 19/236 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA--------VNVMSTDHIEVDGV 65 QR+SK+IA SRRE ER+I++ +V VNG+L+ + + D + Sbjct: 90 QRISKIIALREFCSRREAERLISRSQVVVNGVLIHQGSKAECDSEIQLAEIGDQVWFQSK 149 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + R ++ + P +T S +S +N G L Sbjct: 150 STVALNKPRGYVSNLPSHGEVEACSLLITTTGSHIHSSKWSSRTENDNGQLNVCGRLDKN 209 Query: 126 NDGGLARVLELPSTQW-------LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 + G L + + + Y V V Q+ L+ L ++V Sbjct: 210 SRGLLVLSQDGVLAREVIAGVFVSKTYLVEVDKMVTQNDLDRLNGPCKFLTDVIRPIRVR 269 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 L + + LREGKNR+I+++ E V L R+ G +LG+L GS R Sbjct: 270 LL----APTLLEFVLREGKNRQIRRMCEQMGLIVVDLFRVRLGKSELGSLPEGSWR 321 >gi|159486060|ref|XP_001701062.1| pseudouridine synthase [Chlamydomonas reinhardtii] gi|158281561|gb|EDP07316.1| pseudouridine synthase [Chlamydomonas reinhardtii] Length = 241 Score = 102 bits (253), Expect = 9e-20, Method: Composition-based stats. Identities = 56/241 (23%), Positives = 90/241 (37%), Gaps = 13/241 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVPLRKAER 72 RV +++A G RRE ++M+ + V +G L+ V +D G L Sbjct: 1 MRVERLLANLGYGKRRECQQMVKKGHVMRKDGGKLKV-GDKVAWSDLELEGGEELDPPGP 59 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------FSRVISVGRLDINTEGLLLLTN 126 L + +VT D V +L + VGRLD +T GLLLLT+ Sbjct: 60 LLLAINKPTGYVVTAPDDEKVSDPVVYDLLPYSRFGRRRPFLSCVGRLDKDTSGLLLLTD 119 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----IQGICYGDMQVTLDTQ 182 DG L + P +VY + K + + + Sbjct: 120 DGTLLHRINSPKRGIWKVYEATLADPLSPKAAEAAAKKFASGTLTLEGDFSPLLPARLER 179 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 G + V + EG+ +++++F KV L R+S G LG L R ++ + L Sbjct: 180 TGERS-ARVAICEGRYHQVRRMFAAVGNKVVGLRRVSVGGLALGDLPEAEWRFLTPQDLE 238 Query: 243 E 243 Sbjct: 239 A 239 >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 = 102 bits (253), Expect = 1e-19, Method: Composition-based stats. Identities = 49/207 (23%), Positives = 81/207 (39%), Gaps = 17/207 (8%) Query: 38 QRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTV 97 ++VN +++ +++ + D L ++ + D Sbjct: 25 GLIQVNNEIVDE-DMDITDE-TVIYDSKILDPHPLKYYIIHKPSGYVCANKDSHD----P 78 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + VGRLD NT GL++LTND L + L LP R Y Sbjct: 79 CLISLLPDDNLHYVGRLDRNTTGLVILTNDLKLRKRLTLPEFHIPRTYAFTC--LNPLKD 136 Query: 158 LNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVT--VGLREGKNREIKKVFEFFNWKVNR 214 + K+GI I + V + + + L EG+ EIKK+F N K+ Sbjct: 137 ITPFKEGITIDGDVKCLPAIVEM------TSEYEGVITLEEGRYHEIKKMFLSLNNKITS 190 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKIL 241 L RI YG LG L +G+ R ++++ + Sbjct: 191 LHRIMYGDISLGDLPSGTYRTLTQEEI 217 >gi|311106376|ref|YP_003979229.1| S4 domain-containing protein [Achromobacter xylosoxidans A8] gi|310761065|gb|ADP16514.1| S4 domain protein [Achromobacter xylosoxidans A8] Length = 241 Score = 102 bits (253), Expect = 1e-19, Method: Composition-based stats. Identities = 45/237 (18%), Positives = 82/237 (34%), Gaps = 16/237 (6%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRK 69 R++K +A SR + ER I V+G +E V + + G L Sbjct: 2 SASVRLAKRLAEELSCSRGDAERYIEGGWAAVDGKPVEEPGFRVEPGQSVGLLPGARLED 61 Query: 70 AERTRLWLYHKPIGLVT-----------THSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + L+ + G + L +F+ + V L+ Sbjct: 62 VRPVTILLHKPAGIYANDEPGSARDLILPENLMPGDRSGQRYLKRMFNGLKLVTPLERAA 121 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GL++ T + +AR L + Y + GQ+ L L++G+ G M+V+ Sbjct: 122 SGLVVYTQEYPVARKLVEEGRYVEQEYVAQVSGQLSAADLARLQRGMAYDGRAATPMKVS 181 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + L+ I+ V + ++ L RI G + L+ G R Sbjct: 182 WQNE----THLRFALKTPAPGFIEYVCDAAGLRLQALRRIRIGRLPMAGLVPGQWRY 234 >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 = 102 bits (253), Expect = 1e-19, Method: Composition-based stats. Identities = 60/189 (31%), Positives = 93/189 (49%), Gaps = 17/189 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TR ++HKP ++ +DPDGR T+ D + + GRLD ++EGLLLLT+DG LA Sbjct: 7 TRTLVFHKPYDVLPCFTDPDGRPTLGDYIDVPGV--YAAGRLDRDSEGLLLLTSDGALAH 64 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------ 180 + P ++Y V+ D + L++G+V+ G Q L Sbjct: 65 RITDPEHHLPKIYFVQVERIPDAAAVERLQQGVVVGGRRTKPAQARLLLEAPSIPERPVP 124 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + AW+ + LREG NR+++++ RL+R++ GP LG LL G RE++ Sbjct: 125 IRFRKHVPTAWLELTLREGMNRQVRRMTAAVGHPTLRLVRVAIGPITLGALLPGQWRELT 184 Query: 238 KKILREQLG 246 K E G Sbjct: 185 KAETAEIYG 193 >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 = 101 bits (252), Expect = 1e-19, Method: Composition-based stats. Identities = 54/189 (28%), Positives = 79/189 (41%), Gaps = 17/189 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + Y L + ST+ D +P V VGRLD ++EGLLLLTNDG Sbjct: 2 ANHYRYIIFYKPYGVLSQFTQETPKHSTLKDYIP--VRDVYPVGRLDWDSEGLLLLTNDG 59 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L L P R Y V+ D D +N L+ G+ IQG +V L Sbjct: 60 QLQHRLAHPRFGHQRTYWVQVERIPDVDAINKLQTGVEIQGYRTQPAEVRLLLAATQLPE 119 Query: 181 -------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + AW+ + L EGKNR+++++ + RL+R++ L L G Sbjct: 120 RNPPIRFRKNVPTAWLEMTLTEGKNRQVRRMTAAVGFPTLRLVRVNIAHLNLDGLDLGEW 179 Query: 234 REVSKKILR 242 R++ L Sbjct: 180 RDLMPSELE 188 >gi|205373780|ref|ZP_03226582.1| ribosomal large subunit pseudouridine synthaseB (pseudouridylate synthase) (uracil hydrolyase) [Bacillus coahuilensis m4-4] Length = 131 Score = 101 bits (252), Expect = 1e-19, Method: Composition-based stats. Identities = 31/128 (24%), Positives = 61/128 (47%), Gaps = 2/128 (1%) Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 +TNDG + +L P + + Y + G + +L L++GI ++ +V + Sbjct: 1 MTNDGEFSNLLTHPKYEIDKTYIAKIKGIPTRQELTKLQRGIKLEDGMTAPAKVKFISAD 60 Query: 184 GSNAW--VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 S V + + EG+NR+++++FE + V +L R +G L L AG RE++ + Sbjct: 61 RSKNTCIVELTIHEGRNRQVRRMFEALGFPVMKLRRERFGTLTLKGLNAGEARELTPHEV 120 Query: 242 REQLGPHL 249 ++ Sbjct: 121 KQLRTLAQ 128 >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 = 101 bits (252), Expect = 1e-19, Method: Composition-based stats. Identities = 46/177 (25%), Positives = 85/177 (48%), Gaps = 15/177 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP ++ +D + RV + GRLD ++EGLLLLT++G LA L Sbjct: 12 LIAFNKPFNVLCQFTDRSVPPRPTLAGFGLPPRVYAAGRLDHDSEGLLLLTDNGTLAHKL 71 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L+ G+V+ ++ Sbjct: 72 TDPKHKADKTYWVQVEGMPSDEQLQQLRTGVVLNDGPTLPAKIERLDPAPSLWTRDPPVR 131 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++W+ + +REG+NR+++++ N RL+R+S GP++L L G R++ Sbjct: 132 FRKTVPDSWLAITIREGRNRQVRRMTAAVNLPTLRLVRVSMGPYRLDDLQPGQWRQI 188 >gi|121606251|ref|YP_983580.1| RNA-binding S4 domain-containing protein [Polaromonas naphthalenivorans CJ2] gi|120595220|gb|ABM38659.1| RNA-binding S4 domain protein [Polaromonas naphthalenivorans CJ2] Length = 251 Score = 101 bits (252), Expect = 1e-19, Method: Composition-based stats. Identities = 49/253 (19%), Positives = 84/253 (33%), Gaps = 28/253 (11%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLR 68 P R++K +A SRRE E+ I V V+G+++E V I + D L Sbjct: 2 TEPVRLAKRLAEMLACSRREAEQYIEGGFVTVDGVVVEEPQFRVQ-NQAIALSPDASLLA 60 Query: 69 KAERTRLWLY------------------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 T L L+T + + L FS Sbjct: 61 LTPVTILLHKPAGYEASDTPGANPASAGKTAAQLLTAANHASDDRSGIRPLKKHFSSSEL 120 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---DKLNLLKKGIVI 167 + L GL++ + D +AR L + V G++ ++LN + G Sbjct: 121 LTPLATAASGLVVFSGDWRVARKLREDARVLEHEVVVEVSGEIKPGGLERLNRIDHGFTY 180 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 +G +V+ S + L+ +I + + K+ + R+ G L Sbjct: 181 RGALLPPAKVSWQ----SETRLRFALKGEVPGQIAYMCDSVGLKIEAMKRLRVGRMPLSQ 236 Query: 228 LLAGSTREVSKKI 240 L G R + Sbjct: 237 LQPGQWRYLMPYE 249 >gi|264680273|ref|YP_003280183.1| RNA-binding S4 [Comamonas testosteroni CNB-2] gi|262210789|gb|ACY34887.1| RNA-binding S4 [Comamonas testosteroni CNB-2] Length = 255 Score = 101 bits (252), Expect = 1e-19, Method: Composition-based stats. Identities = 47/248 (18%), Positives = 78/248 (31%), Gaps = 16/248 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVP 66 R++K +A SRRE E I V+V+G +++ V + + D P Sbjct: 6 PEQESIRLAKRVAEQEQCSRREAELHIVAGNVQVDGKVVQVPETRVRPDQVVILRKDAKP 65 Query: 67 LRKAERTRLWLYHKPIGL--------------VTTHSDPDGRSTVFDNLPSIFSRVISVG 112 T L + L F + S Sbjct: 66 EAIPPVTILMNKPAGMTQGPAYGRVRSAHSLLREDTKAKLDTPMPQLVLDHHFRNLESFL 125 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + GL++ T D +AR L + V GQ+ +D L +L +G+ I G Sbjct: 126 TIPLPASGLIVYTQDKRVARKLAEEGMWLEQEIIVGVEGQIIEDGLEILYEGLPIPGGNG 185 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 S + L+ EI+K+ V + R+ G L + G Sbjct: 186 HRRMPPCHVSWQSENHLRFALKGIAPEEIEKMCAAIGLAVVSMRRLRLGRVSLAKVPEGQ 245 Query: 233 TREVSKKI 240 R + Sbjct: 246 WRYLMPWE 253 >gi|56808584|ref|ZP_00366315.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Streptococcus pyogenes M49 591] Length = 109 Score = 101 bits (252), Expect = 2e-19, Method: Composition-based stats. Identities = 27/83 (32%), Positives = 43/83 (51%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AGIASRR+ E +I Q V +NG ++ A V S D +E++G P+ E+ Sbjct: 1 MRINKYIAHAGIASRRKAEELIKQGLVTLNGQVIMDLATTVKSGDVVEIEGSPIYNEEKV 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRST 96 L + + D ++ Sbjct: 61 YYLLNKPRGAISSVSDDKGRKTV 83 >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 = 101 bits (251), Expect = 2e-19, Method: Composition-based stats. Identities = 46/216 (21%), Positives = 86/216 (39%), Gaps = 22/216 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L + L + + GRLD+++EGLL+LTN+G L + Sbjct: 5 LLINKPYNTLCQFTDGEGRNTLANLLPDGKYKDYYPAGRLDLDSEGLLILTNNGSLQHRI 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT---------------L 179 PS + + Y V+ G + Q+ + L+ G+ ++ + Sbjct: 65 SHPSQKLEKTYWVQVEGDITQEAIAQLEAGVELKDGKTKPAKAKKIAPPQNLWERNPPVR 124 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + +W+ + + EGKNR+++++ N+ RLIR + GP+QL L GS +E Sbjct: 125 ERKNIPTSWLRLTISEGKNRQVRRMTAAVNYPTLRLIRAAIGPWQLDNLAPGSYKE---- 180 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII 275 E + ++ T ++PN Sbjct: 181 ---ETVHLAPPKQKPRTSTGNYKKRTTKPTNKPNKR 213 >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 = 101 bits (251), Expect = 2e-19, Method: Composition-based stats. Identities = 50/188 (26%), Positives = 76/188 (40%), Gaps = 17/188 (9%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + + L + T+ D + V VGRLD ++EGLLLLTNDG Sbjct: 2 AHNFKYIIFHKPYGVLSQFTRELPEHVTLKDYID--VPDVYPVGRLDWDSEGLLLLTNDG 59 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L + P R Y V+ D + L +G+ IQ QV L ++ Sbjct: 60 KLQHHIANPRFGHQRTYWVQVERIPDPVAIAKLGQGVEIQNYRTLPAQVKLLLEEPTVGE 119 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 AW+ + L+EGKNR+++++ + RLIRI QL L G+ Sbjct: 120 RHPPIRYRKNVPTAWLEMTLKEGKNRQVRRMTAAVGFPTLRLIRIRIAQLQLDDLPVGTW 179 Query: 234 REVSKKIL 241 R + + Sbjct: 180 RYLGPVEV 187 >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 = 101 bits (250), Expect = 2e-19, Method: Composition-based stats. Identities = 44/238 (18%), Positives = 85/238 (35%), Gaps = 14/238 (5%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-PLRKA 70 QR++KV+A SRRE E+ IAQ V V+G ++ V V ++ +++D L+ Sbjct: 11 DAQRLAKVVAALVPCSRREAEQYIAQGWVSVDGQCVDAPQVRVTTSQRVQIDPQARLQAV 70 Query: 71 ERTRLWLYHKPIGLVTTHS-------DPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 ++ + G ++ + + ++ L + GL + Sbjct: 71 VPATFLVHKPAGMETESAMDLLGESAHWSGDASGIRRSKAHQVGLKTLLPLPVQASGLCV 130 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 + D + R L + + G + D L L G++ G +V+ Sbjct: 131 FSQDFRVVRKLTEDAAFVEQELVAEVKGTIAPDGLARLGHGLLRDGRPLPPARVSWQ--- 187 Query: 184 GSNAWVTVGLREGKNREIKKVFEF-FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 S + +G E +++ L RI G + L G R + + Sbjct: 188 -SETRLRFA-TKGIAPEWTAWMCAQVGLELSALRRIRIGRIAMAGLPLGQWRYLPEGE 243 >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 = 101 bits (250), Expect = 2e-19, Method: Composition-based stats. Identities = 51/198 (25%), Positives = 79/198 (39%), Gaps = 25/198 (12%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDG--RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + L++KP ++ +D V SVGRLD ++EGLL LTN Sbjct: 2 AKKNRHYLLFNKPYNVLCQFTDNSNLENPRPTLKDYIKVPDVYSVGRLDKDSEGLLFLTN 61 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------ 180 + L L R Y V+ DQ LN L++G+ I+ +V L Sbjct: 62 NAQLKHRLSHRQFAHPRTYLVQVERIPDQVALNQLRQGVRIKDYKTRPAKVKLLDSPPSV 121 Query: 181 ---------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--------PF 223 + AW+ + L EG+NR+++++ + RLIRI+ G Sbjct: 122 PPRDPPIRYRKTVPTAWLEMTLTEGRNRQVRRMTAAVGYPTLRLIRIAIGVQRKGKIINL 181 Query: 224 QLGTLLAGSTREVSKKIL 241 L L G RE++ L Sbjct: 182 TLEGLKPGQWRELTPSEL 199 >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 = 101 bits (250), Expect = 2e-19, Method: Composition-based stats. Identities = 48/197 (24%), Positives = 78/197 (39%), Gaps = 15/197 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L+ + T +DP V VGRLD ++EGLLLLTN G + Sbjct: 6 ILFYKPYDVLCQFTDNDPTTSPRKTLKDFISIPGVYPVGRLDRDSEGLLLLTNQGKIQHR 65 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L R Y V+ D+ LN L+ G+ I+ QV L + Sbjct: 66 LSHRKFNHPRTYWVQVEHIPDETALNALRAGVQIKDYQTRSAQVQLLPTEPALPPRDPPI 125 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 AW+ + L EG+NR+I+++ + RL+R++ F+L L G R++++ Sbjct: 126 RFRKTVPTAWLEITLTEGRNRQIRRMTAAVGFPTLRLVRVAIADFRLDGLKPGQWRDLTQ 185 Query: 239 KILREQLGPHLLEEAQV 255 + + Sbjct: 186 IEVHNLYKLTGFSPPKK 202 >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 = 100 bits (249), Expect = 3e-19, Method: Composition-based stats. Identities = 38/171 (22%), Positives = 72/171 (42%), Gaps = 4/171 (2%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 + + F ++ VGRLDI+TEGLL++T+DG LA + Sbjct: 1 MFNKPSGYITAVKDERYPTVMDFFADLPFSKKLFPVGRLDIDTEGLLIITDDGQLAHRIA 60 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---QGICYGDMQVTLDTQKGSNAWVTVG 192 P + + Y G + L+ +K ++ + ++ + + + + + Sbjct: 61 HPKWEIEKEYYAVVKGDISDLDLSRFEKEGIVLKKEKYRTKPFKINIISTSEERSEIYIT 120 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 +REGK +K++ E V L R+ GP +L L G RE++ + + Sbjct: 121 VREGKYHIVKRIMEELGHPVLYLKRVRIGPLRLDEDLEEGDFRELTDEEIE 171 >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 = 100 bits (249), Expect = 4e-19, Method: Composition-based stats. Identities = 36/134 (26%), Positives = 57/134 (42%), Gaps = 3/134 (2%) 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 + R+ +GRLD ++GL+ LTNDG + Sbjct: 67 YIALNKPTGITCTTER--DIPGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVTDS 124 Query: 135 ELPSTQWLRVYRVR 148 R Sbjct: 125 ARWYNHEKIRGACR 138 >gi|11967881|emb|CAC19451.1| hypothetical pseudouridine synthase [Streptococcus pneumoniae] Length = 75 Score = 100 bits (248), Expect = 4e-19, Method: Composition-based stats. Identities = 26/75 (34%), Positives = 40/75 (53%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K IA AG+ASRR+ E +I Q V VNG ++ A + S D +EV+G P+ E+ Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNGQVVRELATTIKSGDKVEVEGQPIYNEEKV 60 Query: 74 RLWLYHKPIGLVTTH 88 L + + Sbjct: 61 YYLLNKPRGVISSVT 75 >gi|206603683|gb|EDZ40163.1| Protein of unknown function [Leptospirillum sp. Group II '5-way CG'] Length = 298 Score = 100 bits (248), Expect = 4e-19, Method: Composition-based stats. Identities = 61/234 (26%), Positives = 97/234 (41%), Gaps = 13/234 (5%) Query: 17 SKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNV--MSTD--HIEVDGVPLRKAE 71 + I++ G+ +R + R+ + +G L++ V +D L Sbjct: 23 DRWISKLGLGTRGMAREWVRDGRLSLGDGTLVQHVDQFVQGTPGSEPVFRLDQKILSADP 82 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP-------SIFSRVISVGRLDINTEGLLLL 124 LVT + SR++ VGRLD + GL+LL Sbjct: 83 PAVFAFNKPRGVLVTRTDPGGRETICESIGRSSGQRTGMDMSRLMPVGRLDQASSGLILL 142 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQ-VDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 TN L P+ ++ R YRV+ +D L G + + + V + + Sbjct: 143 TNRSSELTRLLNPALEFPREYRVQVRPSLKKRDWEMGLFGGKWARELGLKPVDVRYEKEN 202 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 W+ VGL+EGKNREI+++FE ++V LIR+ +GPF L L G EVS Sbjct: 203 LRTTWLRVGLKEGKNREIRRLFESGGYEVLHLIRVGFGPFCLKNLPPGGIVEVS 256 >gi|330864071|emb|CBX74147.1| ribosomal large subunit pseudouridine synthase F [Yersinia enterocolitica W22703] Length = 162 Score = 99.9 bits (247), Expect = 5e-19, Method: Composition-based stats. Identities = 39/152 (25%), Positives = 68/152 (44%), Gaps = 1/152 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + R++K I+ +GI SRR+ +R + Q V +NG V D ++V+G + Sbjct: 3 TNSSIRLNKYISESGICSRRDADRYVEQGNVFINGKRAAV-GDQVYVGDVVKVNGQLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + + L L + + DG S + + RV +GRLD +++GL+ LTN G Sbjct: 62 RDESDLILIALNKPVGIISTTEDGESDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGD 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 L + + Y V + V + + L Sbjct: 122 LVNKILRAGNDHEKEYVVTVNKPVTDEFILGL 153 >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 = 99.9 bits (247), Expect = 5e-19, Method: Composition-based stats. Identities = 42/151 (27%), Positives = 71/151 (47%), Gaps = 2/151 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++A GI +R+EV+ +I + VKVNG+++++ V D I D + Sbjct: 3 MRLDKLLANYGIGTRKEVKSLIRKGFVKVNGMIIKKDDFKVDHEIDEIVFDDELIEYRPY 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + L + + D + + + VGRLD++TEGLLL+TNDG + Sbjct: 63 VYIMLNKPAGYI-SATKDNLHPTVLELIEGYENYDLFPVGRLDLDTEGLLLITNDGDFSH 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 L PS ++Y G +D+ + K Sbjct: 122 KLLAPSRNHSKIYFANIAGVMDEQDIQAFKD 152 >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 = 99.9 bits (247), Expect = 5e-19, Method: Composition-based stats. Identities = 41/177 (23%), Positives = 72/177 (40%), Gaps = 14/177 (7%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + V GRLD ++EGLLLLT+ G L + Sbjct: 5 ILFNKPFHVLSQFTDERASHPRATLADWIDQPGVYPAGRLDYDSEGLLLLTDQGALQHRI 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P+ + + Y V+ G++ + L+ L+KG+V++ + Sbjct: 65 ASPTNKMPKTYWVQVEGELTDEALHKLRKGVVLKDGITRPARAERLETPDLWPRNPPVRF 124 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q W+ + + EGKNR+++++ + RLIR+ G + L L G R V+ Sbjct: 125 RQNVPTTWLALTITEGKNRQVRRMTAAVGYPTLRLIRVRIGDWTLDNLKPGEYRSVT 181 >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 = 99.9 bits (247), Expect = 5e-19, Method: Composition-based stats. Identities = 54/273 (19%), Positives = 93/273 (34%), Gaps = 23/273 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P +L L +KP ++ +D GR T+ D + + GRLD ++EGLLLL Sbjct: 49 KPAPAPADRKLLLLNKPYMVLCQFTDEAGRETLKDYITEPGI--YAAGRLDRDSEGLLLL 106 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + + Y V+ G ++KL L G+ + Sbjct: 107 TNDGKLQARLTQPGEKTPKTYWVQVEGVPSEEKLAALCAGVELNDGMTLPAGARIMEEPA 166 Query: 176 -----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + ++ W+ + + EG+NR+++++ RLIR + G + L L Sbjct: 167 VWPRNPPIRERKEIPTCWLEIKIVEGRNRQVRRMTAHIGHPTLRLIRYAIGDWSLDGLAP 226 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G +R + L +S + + Sbjct: 227 GESRALPAPEL-------APAPRPATTQGKAQTSAKPQGAGQRGAPRAARRPQHQGQEQA 279 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSS 323 G ++ P HR + Sbjct: 280 PGQGRGSREAEPHPGHRSGGRGTARRPARSKPA 312 >gi|260219993|emb|CBA27086.1| hypothetical protein Csp_A00520 [Curvibacter putative symbiont of Hydra magnipapillata] Length = 279 Score = 99.9 bits (247), Expect = 6e-19, Method: Composition-based stats. Identities = 46/263 (17%), Positives = 89/263 (33%), Gaps = 34/263 (12%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-LRK 69 T +R+SK + SR+E E+ I V+VNG+++E V I +D L + Sbjct: 16 TTGERLSKRVMALKDCSRKEAEQYIEGGWVQVNGVVVEEPQHRVDRE-TITLDPNASLME 74 Query: 70 AERTRLWLYHKPIGLV--------------------------------TTHSDPDGRSTV 97 L L T + +G Sbjct: 75 LTPVTLLLNKPAGHTDGLEELTPVRAGAPARTGAPGHKAPPANARALLTPANHWEGDPAD 134 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 L F+ + + L+ GL++ T D R L + + V G+V+ D Sbjct: 135 TRVLKRHFNHLEADVELETGATGLVVFTQDWRTTRKLTEDMSTMEHEFLVEVKGEVEPDA 194 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 L + + + + ++V++++ ++ + ++ I + E + + R Sbjct: 195 LKPIAYALKDERLDLPQVKVSVNSTTPESSRLRFAIKGSHPGLIAFLCEKAGLHILGMKR 254 Query: 218 ISYGPFQLGTLLAGSTREVSKKI 240 I G L L G R ++ Sbjct: 255 IRLGRVALSDLPVGQWRYLAGWE 277 >gi|318606116|emb|CBY27614.1| ribosomal large subunit pseudouridine synthase E; LSU Psi2457 [Yersinia enterocolitica subsp. palearctica Y11] Length = 208 Score = 99.9 bits (247), Expect = 6e-19, Method: Composition-based stats. Identities = 55/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ R+ L++KP ++ +D GRST+ + +P F+ V + GRLD ++EGLL+L Sbjct: 21 KQVKPITPRRVLLFNKPFDVLPQFTDEAGRSTLKEFIP--FNDVYAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + +VY V+ G D+D L+ L+ GI ++ Sbjct: 79 TNDGKLQARLTQPAQKTGKVYFVQVEGLPDEDALSQLRTGITLKDGPTLPAGAELVSEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR S G LG L Sbjct: 139 WLWPRHPPIRERKAIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSIGNLSLGDLQ 198 Query: 230 AGSTREVS 237 G +E++ Sbjct: 199 PGEWKEIN 206 >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 = 99.5 bits (246), Expect = 6e-19, Method: Composition-based stats. Identities = 55/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ R+ L++KP ++ +D GRST+ + +P F+ V + GRLD ++EGLL+L Sbjct: 21 KQVKPITPRRVLLFNKPFDVLPQFTDEAGRSTLKEFIP--FNDVYAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + +VY V+ G D+D L+ L+ GI ++ Sbjct: 79 TNDGKLQARLTQPAQKTGKVYFVQVEGLPDEDALSQLRTGITLKDGPTLPAGAELVSEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR S G LG L Sbjct: 139 WLWPRQSPIRERKAIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSIGNLSLGDLQ 198 Query: 230 AGSTREVS 237 G +E++ Sbjct: 199 PGEWKEIN 206 >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 = 99.5 bits (246), Expect = 7e-19, Method: Composition-based stats. Identities = 50/180 (27%), Positives = 84/180 (46%), Gaps = 15/180 (8%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP +++ +D + S V VGRLD ++EGLLLLTN G L L Sbjct: 1 MFYKPYDVLSQFTDREDSPRRTLKDYIPVSEVYPVGRLDRDSEGLLLLTNHGRLQHRLSN 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS----------- 185 P + R Y V+ D+ LN L++G+VI+ QV +Q+ Sbjct: 61 PRFRHPRTYWVQVERIPDEAALNQLRQGVVIKDYQTRKAQVQRLSQEPDLPPRDPPIRFR 120 Query: 186 ----NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 W+ + L EG+NR+++++ + RLIR++ +L L G R+++ L Sbjct: 121 KTVPTCWLEITLTEGRNRQVRRMTAVVGFPTLRLIRVAIAHLRLDGLQPGQWRDLTPPEL 180 >gi|121608853|ref|YP_996660.1| RNA-binding S4 domain-containing protein [Verminephrobacter eiseniae EF01-2] gi|121553493|gb|ABM57642.1| RNA-binding S4 domain protein [Verminephrobacter eiseniae EF01-2] Length = 264 Score = 99.5 bits (246), Expect = 7e-19, Method: Composition-based stats. Identities = 43/255 (16%), Positives = 85/255 (33%), Gaps = 33/255 (12%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERT 73 R+++ +AR SR E++I V V G +++ V + ++ V L Sbjct: 12 RLTRRVARQLNCSRSTAEQLIENGCVSVQGQVVQAPGARVSAQQNVTVAQDAALPDPRPV 71 Query: 74 RLWLYHKPIGLVTTHSDPDGRS---------------TVFDNLPSIFSRVISVGRLDINT 118 L L+ ++ + PDG + LP F + + L Sbjct: 72 TLLLHKPAGFAASSAAPPDGPQASALLHAASHLAEDASGMRVLPRHFLHLACLTPLPTEA 131 Query: 119 EGLLLLTNDG-------------GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 GL++ T D R + + V+ G + D L L++G+ Sbjct: 132 SGLVVYTQDRRLARVFAQDFAQDMALRQPAQQTHSPEQECIVQVAGTIAPDGLQRLRQGL 191 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 ++ G+ ++ + + + L+ + +I + V + RI G L Sbjct: 192 LLDGLRLPPIRASWQNE----TRLRFALKGVRPGQIPAICAAVGLTVEAIKRIRIGRVAL 247 Query: 226 GTLLAGSTREVSKKI 240 G R + Sbjct: 248 ARQPPGQWRYLLPWE 262 >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 = 99.5 bits (246), Expect = 7e-19, Method: Composition-based stats. Identities = 59/185 (31%), Positives = 88/185 (47%), Gaps = 17/185 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L +KP ++ D GRST+ D +P V GRLD ++EGL+LLTNDG L Sbjct: 1 MNYRYILLYKPYRVLCQFQDQKGRSTLKDYVPIP--DVYPAGRLDYDSEGLVLLTNDGWL 58 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK------- 183 L P R Y V+ G+ D L+ L G+VIQG +V + Q Sbjct: 59 QHRLTDPRYGHPRTYWVQVEGKPDTAALSQLAAGVVIQGYRTRPARVEVLDQDPPLPPRY 118 Query: 184 --------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + W+++ LREG+NR+++++ + RL+R++ QLG L G RE Sbjct: 119 PPIRYRRHIPSQWLSLTLREGRNRQVRRMTAAVGFPTLRLVRVAIANLQLGNLAPGQWRE 178 Query: 236 VSKKI 240 + Sbjct: 179 ILPLE 183 >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 = 99.5 bits (246), Expect = 8e-19, Method: Composition-based stats. Identities = 49/182 (26%), Positives = 89/182 (48%), Gaps = 16/182 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RL L +KP ++T +D GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 5 PPAQPRLLLLNKPFDVLTQFNDEQGRATLKDFVDVPGV--YPAGRLDRDSEGLLLLTNDG 62 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ +++L L+ G+++ + Sbjct: 63 RLQARIADPKHKLAKTYWVQVEGEPSEEQLQQLRTGVMLNDGPTLPAEARRLDEPELWER 122 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + +REG+NR+++++ RL+R++ GP++L L G R Sbjct: 123 NPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVAIGPWRLDGLQPGQWR 182 Query: 235 EV 236 E+ Sbjct: 183 EL 184 >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 = 99.1 bits (245), Expect = 8e-19, Method: Composition-based stats. Identities = 48/195 (24%), Positives = 78/195 (40%), Gaps = 16/195 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 + Y +++ +D S + VGRLD ++EGLLLL+N GGL Sbjct: 4 QHILFYKPYG-VLSQFTDRQETSHPTLKEFIPIPDIYPVGRLDRDSEGLLLLSNHGGLQH 62 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------V 177 L P R Y V+ DQ L LK+G+ I+ Q Sbjct: 63 QLCNPKFGHPRTYWVQVENIPDQIALQKLKQGVTIRNYRTRPTQASLLSEPPLLPPRTPP 122 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + AW+T+ L EG+NR+++++ + RL+R++ QL L G R +S Sbjct: 123 VRFRKHIPTAWMTMTLYEGRNRQVRRMTAAVGFPTLRLVRVAIAHLQLQDLQPGQWRHLS 182 Query: 238 KKILREQLGPHLLEE 252 + + + Sbjct: 183 PAEIEQLQFLTHVSR 197 >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 = 99.1 bits (245), Expect = 8e-19, Method: Composition-based stats. Identities = 53/279 (18%), Positives = 99/279 (35%), Gaps = 20/279 (7%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E +L L +KP ++ +D GR T+ D + + GRLD ++EGLLLL Sbjct: 35 KPELAPEDRKLLLLNKPYMVLCQFTDEAGRETLKDYIKEPGI--YAAGRLDRDSEGLLLL 92 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + + Y V+ G ++KL L+ G+ + Sbjct: 93 TNDGKLQARLTQPGEKTPKTYWVQVEGIPSEEKLAALRAGVELNDGMTLPAGARIMDEPA 152 Query: 176 -----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + ++ +W+ + + EG+NR+++++ RLIR + G + L L Sbjct: 153 VWPRNPPIRERKEIPTSWLEIKIIEGRNRQVRRMTAHIGHPTLRLIRYAIGDWTLDGLAP 212 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G +R + L P + + + + + S+ Sbjct: 213 GESRSLPAPEL----TPSSSRSPRPASSRSGAHTAKPAKPAGDAPRRASQPRQDERPRST 268 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSG 329 + + A+ + + Sbjct: 269 HPTERAATNPTGGKHRSSGRGTARRPARAGNPNSNDKES 307 >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 = 99.1 bits (245), Expect = 8e-19, Method: Composition-based stats. Identities = 55/201 (27%), Positives = 96/201 (47%), Gaps = 7/201 (3%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R+ + I++ S + +IAQ+R+ V+G + V ++E+DG L+ Sbjct: 29 KSTTNRLDRFISQNSTFSISDTRLLIAQKRILVDGHVAHSNQQKVTKFTYVELDGNCLQ- 87 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +KP G+V+ D + + S + + VGRLD NT GL+LLTNDG Sbjct: 88 DNNPVYIVLNKPKGVVSATKDIKHSTVLDLIQHSQKNELHIVGRLDFNTTGLVLLTNDGA 147 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI--QGICYGDMQVTLDTQKGSNA 187 +R + LP T+ +VY V + + + + ++GI + I + + S Sbjct: 148 WSRKISLPETKLAKVYEVTLSKPLSDEYITVFREGIYFGYEDITTKPACLEIL----SEY 203 Query: 188 WVTVGLREGKNREIKKVFEFF 208 + L EGK ++K++F FF Sbjct: 204 TARLSLVEGKYHQVKRMFGFF 224 >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 = 99.1 bits (245), Expect = 9e-19, Method: Composition-based stats. Identities = 53/178 (29%), Positives = 88/178 (49%), Gaps = 17/178 (9%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTNDG L L Sbjct: 1 MLFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTNDGKLQARLT 58 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVTLD 180 P+ + +VY V+ G D D L LK+G+ ++ + Sbjct: 59 QPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLWPRHPPIRE 118 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +W+ + L EG+NR+++++ + RLIR S G LG L G +E++ Sbjct: 119 RKTIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGNLQPGEWKEITD 176 >gi|31747805|gb|AAO38400.1| Lfe193p2 [Leptospirillum ferrooxidans] Length = 164 Score = 99.1 bits (245), Expect = 9e-19, Method: Composition-based stats. Identities = 52/153 (33%), Positives = 79/153 (51%), Gaps = 11/153 (7%) Query: 3 DKNIVQENFTPQ---------RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN 53 K + R+ K++A GI SRR E +IA V VNG + Sbjct: 8 QKKTTSNKSDTEYATTLSGEVRLQKLLAHRGITSRRNAEELIAGGLVTVNGKVETTPGTK 67 Query: 54 VMST-DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 V D + V+G L + + T L+L++KP G+++ DPDG+ T+ D P+I ++ +G Sbjct: 68 VDPQRDVVVVEGRMLPREKETFLFLFYKPKGVISAVFDPDGKPTLKDFFPNIS-PLLHIG 126 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 RLD TEG+LLLTN+G L++ + P R Y Sbjct: 127 RLDFQTEGVLLLTNNGDLSQRILHPRFAIPRTY 159 >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 = 99.1 bits (245), Expect = 9e-19, Method: Composition-based stats. Identities = 39/162 (24%), Positives = 71/162 (43%), Gaps = 7/162 (4%) Query: 84 LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 V +H D + + GRLD++T GL+L+T+DG + + P + + Sbjct: 2 FVCSHEDGFNHTAFVLLDEVKMENLHFAGRLDVDTTGLVLITDDGQWSHRITSPKHKCAK 61 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 YRV V + + ++GI ++ Q+ + +K V + + EGK ++ Sbjct: 62 TYRVWLADPVQDNYIKAFEEGIELRNEKAPTLPAQLEIIDEK----EVLLTIHEGKYHQV 117 Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 K++F KV L R S G L L G R ++++ + Sbjct: 118 KRMFAALGNKVEGLHRESVGDIVLDEMLEPGEYRYLTQEEID 159 >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 = 99.1 bits (245), Expect = 9e-19, Method: Composition-based stats. Identities = 47/187 (25%), Positives = 80/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +ER + L ++ V + GRLD ++EGLL+L Sbjct: 91 RAISPSERKVVLFNKPYDTLSQFTDGDGRKTLANYI---QIKDVYAAGRLDRDSEGLLIL 147 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L++G+ ++ +V + + Sbjct: 148 TNDGILQARLTQPQSKAPKTYWVQVEGVPQESDLEALRQGVTLKDGPTLPAKVEIMPEPE 207 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+T+ L EG+NR+++++ + RLIR S G + LG L Sbjct: 208 LWPRNPPVRFRAAIPTTWLTITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 267 Query: 231 GSTREVS 237 G REV+ Sbjct: 268 GEWREVT 274 >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 = 99.1 bits (245), Expect = 1e-18, Method: Composition-based stats. Identities = 39/215 (18%), Positives = 84/215 (39%), Gaps = 15/215 (6%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + GRLD ++EGLLLLT+ G L ++ P + + Y V+ G++ ++ + L Sbjct: 29 FIDKANFYPAGRLDYDSEGLLLLTDHGALQHLIASPQHKMPKTYLVQVEGELTKEAVEQL 88 Query: 162 KKGIVIQGICYGDMQVTL--------------DTQKGSNAWVTVGLREGKNREIKKVFEF 207 + G+ ++ + + + + +W+ + + EGKNR+++++ Sbjct: 89 RVGVELKDGLTKPAEAKIASDFEPWPRHPPIRERKNIPTSWLELTITEGKNRQVRRMTAA 148 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 + RLIR GP+ L + G E + + E+ + SS Sbjct: 149 VGFPTLRLIRTQIGPYSLTDIELGHWLEKPIDEM-LAMELEKFEKNRARQKPRGTSSNNR 207 Query: 268 VRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 R + ++ + + G ++ Sbjct: 208 RRSHSAKNKLSRSPVSNGQRKKTGQAGTQPTRRTR 242 >gi|229894384|ref|ZP_04509567.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Pestoides A] gi|229703782|gb|EEO90798.1| ribosomal small subunit pseudouridine synthase A [Yersinia pestis Pestoides A] Length = 128 Score = 99.1 bits (245), Expect = 1e-18, Method: Composition-based stats. Identities = 25/131 (19%), Positives = 50/131 (38%), Gaps = 7/131 (5%) Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVT 178 ++L+T+DG + + P + Y V + D G+ + Q+ Sbjct: 1 MVLMTDDGQWSHRVTSPRHHCEKTYLVTLEHPLSDDTAQQFADGVQLYNEKSLTKPAQLD 60 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 + + V + + EG+ ++K++F +V L R G L L G R ++ Sbjct: 61 VIEPQR----VRLTISEGRYHQVKRMFAAVGNRVIELHRERIGDITLDDDLAPGEYRPLT 116 Query: 238 KKILREQLGPH 248 + + PH Sbjct: 117 TEEIASVGAPH 127 >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 = 99.1 bits (245), Expect = 1e-18, Method: Composition-based stats. Identities = 50/184 (27%), Positives = 92/184 (50%), Gaps = 17/184 (9%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R+ L++KP ++ +D GR T+ + +P F+ V + GRLD ++EGLL+LTN+G Sbjct: 25 PVPPQRVLLFNKPFDVLPQFTDESGRRTLKEFIP--FNDVYAAGRLDRDSEGLLVLTNNG 82 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------- 175 L L P+ + +VY V+ G ++ L L++G++++ Sbjct: 83 KLQAKLTQPAQKTGKVYFVQVEGVPTEEALTQLQRGVILKDGPTLPAGAELVCEPEWLWP 142 Query: 176 --QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + +W+ + L EG+NR+++++ + RLIR S G LG L G Sbjct: 143 RNPPIRERKSIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLQPGEW 202 Query: 234 REVS 237 +E++ Sbjct: 203 KEIN 206 >gi|254521474|ref|ZP_05133529.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219719065|gb|EED37590.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 179 Score = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 45/177 (25%), Positives = 85/177 (48%), Gaps = 15/177 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP ++ +D + RV + GRLD ++EGLLLLT++G LA L Sbjct: 2 LIAFNKPFNVLCQFTDRSVPPRPTLAGFGLPPRVYAAGRLDHDSEGLLLLTDNGTLAHKL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L+ G+++ ++ Sbjct: 62 TDPKHKADKTYWVQVEGTPSDEQLQQLRDGVLLNDGPTLPAKIERLDPAPSLWTRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +AW+ + +REG+NR+++++ N RL+R++ GP++L L G R++ Sbjct: 122 FRKTVPDAWLAITIREGRNRQVRRMTAAVNLPTLRLVRVAMGPYRLDDLQPGQWRQI 178 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 55/186 (29%), Positives = 91/186 (48%), Gaps = 17/186 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A R+ L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTND Sbjct: 24 PPAAPRRVLLFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P+ + +VY V+ G D D L LK+G+ ++ Sbjct: 82 GKLQARLTQPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR S G LG L G Sbjct: 142 PRHPPIRERKTIPTSWLKITLYEGRNRQVRRITAHVGFPTLRLIRFSIGNLSLGNLQPGE 201 Query: 233 TREVSK 238 +E++ Sbjct: 202 WKEITD 207 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 51/179 (28%), Positives = 82/179 (45%), Gaps = 17/179 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L +KP G+++ S T+ D +P V GRLD ++EGL+LLTNDG Sbjct: 18 NPKLVLLNKPYGVLSQFSGEPDDVTLKDFVPHS--NVYPAGRLDKDSEGLMLLTNDGVYQ 75 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------- 176 L P + + Y V+ G D+ +L L+ G + Q Sbjct: 76 ARLANPKYKVAKTYWVQVEGIPDEAQLTALRNGCELNDGLTKPAQAFAIDAPIGLWPRNP 135 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + ++W+++ + EGKNR+++++ RLIR GPF+L L G RE Sbjct: 136 PVRERKTVPDSWLSLSITEGKNRQVRRMTAHVGLPTLRLIRAQIGPFKLAGLQPGEWRE 194 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 106 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 162 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 163 TNDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 222 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 223 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 282 Query: 231 GSTREVS 237 G REV+ Sbjct: 283 GEWREVT 289 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 54/185 (29%), Positives = 90/185 (48%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 RL L +KP ++T +D DGR+T+ D +P GRLD ++EGLLLLTNDG Sbjct: 26 PPAEPRLLLLNKPFDVLTQFADADGRATLKDFVPVPGV--YPAGRLDRDSEGLLLLTNDG 83 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+VD+ +L L++G+ + + Sbjct: 84 RLQARIADPKHKLPKTYWVQVEGEVDETQLERLRQGVELNDGMTLPAEARQLDEPELWPR 143 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + +REG+NR+++++ RL+R+ GP+ L L G R Sbjct: 144 NPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWALDGLQPGEWR 203 Query: 235 EVSKK 239 EV + Sbjct: 204 EVPAQ 208 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 49/243 (20%), Positives = 84/243 (34%), Gaps = 22/243 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGI---------LLERAAVNVMSTDHI-EVDGV 65 + ++ G SRR+ +I + + VD Sbjct: 3 LESILYTQGFGSRRQCRGLI---------EAGRVAVAGAAATDPDAAFDTDGLVFSVDDA 53 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 R L L + P + V VGRLD +T GLLLL+ Sbjct: 54 AWPFHARAYLALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G + + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEP-KPIAAVAADARAP 172 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 +A + + + EGK ++K++ + +V L R S G F L L G+ R + + L Sbjct: 173 HA-LALTVLEGKYHQVKRMVAAASNRVELLHRESIGGFTLPADLAPGAWRWLDEADLAAL 231 Query: 245 LGP 247 P Sbjct: 232 RNP 234 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 5 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 61 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 62 TNDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 121 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 122 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 181 Query: 231 GSTREVS 237 G REV+ Sbjct: 182 GEWREVT 188 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 49/148 (33%), Positives = 72/148 (48%), Gaps = 14/148 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 VGRLD ++EGLLLLT+DG LA L P R Y V+ G D + L L G+ IQ Sbjct: 24 YPVGRLDRDSEGLLLLTDDGALAHRLTDPRFAHPRTYWVQVEGTPDGEALGRLAAGVEIQ 83 Query: 169 GICYGDMQ--------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 GI + +W+ + L EG+NR+++++ + R Sbjct: 84 GIRTRPATAVAIAEPDLPERPVPIRVRKSIPTSWIALTLTEGRNRQVRRMTAAVGYATLR 143 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKILR 242 L+R++ G LG L G RE+S++ LR Sbjct: 144 LVRVAIGALSLGDLAPGRWRELSERELR 171 >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 = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 53/185 (28%), Positives = 89/185 (48%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T +D GRST+ D +P GRLD ++EGLLLLTNDG Sbjct: 5 PPSEPKLLLFNKPFDVLTQFNDEQGRSTLKDFIPVPGV--YPAGRLDRDSEGLLLLTNDG 62 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G D+++L L++G+ + + L Sbjct: 63 RLQARIADPRHKLPKTYWVQVEGTPDEEQLRRLREGVTLNDGPTLPAEARLLDEPTLWER 122 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + +REG+NR+++++ RL+R+ GP+ L L G R Sbjct: 123 VPPVRFRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLGEWR 182 Query: 235 EVSKK 239 EV + Sbjct: 183 EVPAR 187 >gi|213028620|ref|ZP_03343067.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 122 Score = 98.7 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 36/119 (30%), Positives = 58/119 (48%), Gaps = 1/119 (0%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T R++K I+ +GI SRRE +R I Q V +NG V++ D ++V+G + Sbjct: 3 TDTSTRLNKYISESGICSRREADRFIEQGNVFINGKRAA-IGDQVVAGDVVKVNGRLIEP 61 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E L L + + DG + + R+ +GRLD +++GL+ LTN G Sbjct: 62 READDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRIFPIGRLDKDSQGLIFLTNHG 120 >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 = 98.3 bits (243), Expect = 2e-18, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 81/237 (34%), Gaps = 22/237 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGI---------LLERAAVNVMSTDHI-EVDGV 65 + ++ G SRR+ +I + + VD Sbjct: 3 LESILYTQGFGSRRQCRGLI---------EAGRVAVAGAAATDPDATFDTDGLVFSVDDT 53 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 R L L + P + V VGRLD +T GLLLL+ Sbjct: 54 AWPFHARAYLALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G + + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEP-KPI-AAVAADARD 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + EGK ++K++ + +V L R S G F L L G+ R + + L Sbjct: 172 THALALTVLEGKYHQVKRMVAAASNRVELLHRESIGGFALPADLAPGAWRWLDEADL 228 >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 = 98.3 bits (243), Expect = 2e-18, Method: Composition-based stats. Identities = 47/264 (17%), Positives = 83/264 (31%), Gaps = 40/264 (15%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER-----AAVNVMSTDHIEV 62 ++++ + GI S R V + KVN ++ V D IE+ Sbjct: 307 NTKKEKIKLNQYCSYNGICSSRFVNNNVQNGLFKVNDKIVYENVEICLGV-----DKIEL 361 Query: 63 --DGVPLRKAERTRLWLYHKPI-----------------------GLVTTHSDPDGRSTV 97 G L K + T + K + Sbjct: 362 TNRGKDLLKNKITIILNKPKHYLSISNDNKSYKKLLVRNLIRNENKYIQEEHKCMSYFIY 421 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL-ELPSTQWLRVYRVRFHGQVDQD 156 + + GRLD N+ GLL+ T + L + Y ++ + + Q+ Sbjct: 422 KNVNIEKVPNLYVCGRLDANSSGLLIFTQNTLSNNYLLYRYKYNIEKEYVIKTYNSITQE 481 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + LLK+ + G + N + + +G ++ I+K+ N K+ L Sbjct: 482 NMKLLKEHFYVDGKLIYKCHIQYV----DNFTLIFKIYQGFHKIIRKMCMLSNIKIKSLH 537 Query: 217 RISYGPFQLGTLLAGSTREVSKKI 240 RI G L L G R + Sbjct: 538 RIRIGNIHLNDLPIGKWRFLMPNE 561 >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 = 98.3 bits (243), Expect = 2e-18, Method: Composition-based stats. Identities = 55/188 (29%), Positives = 95/188 (50%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ R+ L++KP ++ +D GRST+ + +P F+ V + GRLD ++EGLL+L Sbjct: 21 KQVKPITPRRVLLFNKPFDVLPQFTDEAGRSTLKEFIP--FNDVYAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + +VY V+ G D+D L+ L+ GI ++ Sbjct: 79 TNDGKLQARLTQPAQKTGKVYFVQVEGLPDEDALSQLRIGITLKDGPTLPAGAELVSEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR S G LG L Sbjct: 139 WLWPRHPPIRERKAIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLQ 198 Query: 230 AGSTREVS 237 G +E++ Sbjct: 199 PGEWKEIN 206 >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 = 98.3 bits (243), Expect = 2e-18, Method: Composition-based stats. Identities = 54/188 (28%), Positives = 93/188 (49%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ R+ L++KP ++ +D GRST+ + +P FS V + GRLD ++EGLL+L Sbjct: 21 KQVKPIAPRRVLLFNKPFDVLPQFTDESGRSTLKEFIP--FSDVYAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + +VY V+ G D L+ L+ G+ ++ Sbjct: 79 TNDGKLQARLTQPAQKTGKVYFVQVEGVPGDDTLSQLRTGMTLKDGPTLPAGAELVSEPE 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR S G LG L Sbjct: 139 WLWPRNPPIRERKTIPTSWLKITLFEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGDLQ 198 Query: 230 AGSTREVS 237 G +E++ Sbjct: 199 PGEWKEIN 206 >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 = 97.9 bits (242), Expect = 2e-18, Method: Composition-based stats. Identities = 55/186 (29%), Positives = 91/186 (48%), Gaps = 17/186 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A R+ L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTND Sbjct: 24 PPAAPRRVLLFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P+ + +VY V+ G D D L LK+G+ ++ Sbjct: 82 GKLQARLTQPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR S G LG L G Sbjct: 142 PRHPPIRERKTIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGNLQPGE 201 Query: 233 TREVSK 238 +E++ Sbjct: 202 WKEITD 207 >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 = 97.9 bits (242), Expect = 2e-18, Method: Composition-based stats. Identities = 48/243 (19%), Positives = 81/243 (33%), Gaps = 22/243 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGI---------LLERAAVNVM-STDHIEVDGV 65 + ++ G SRR+ +I + VD Sbjct: 3 LESILYTQGFGSRRQCRGLI---------EAGRVAVAGAAATDPDAPFDTAGLVFSVDDT 53 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 R L L + P + V VGRLD +T GLLLL+ Sbjct: 54 AWPFHARAYLALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G + + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEP-KPI-AAVAADARD 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQ 244 + + + EGK ++K++ + +V L R S G F L L G+ R + + L Sbjct: 172 THALALTVLEGKYHQVKRMVAAASNRVELLHRESIGGFALPADLAPGAWRWLDEADLAAL 231 Query: 245 LGP 247 P Sbjct: 232 RNP 234 >gi|308125709|ref|ZP_07663492.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus K5030] gi|308114216|gb|EFO51756.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus K5030] Length = 221 Score = 97.9 bits (242), Expect = 2e-18, Method: Composition-based stats. Identities = 27/197 (13%), Positives = 58/197 (29%), Gaps = 10/197 (5%) Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + G+ I +VT K + + L +G NR+I+++ E ++V +L R+ Sbjct: 1 MSSGVRILDTVTLPCKVT----KETKFSFRIVLTQGLNRQIRRMCEALGYEVFKLRRVRI 56 Query: 221 GPFQLGTLLAGSTREVSKKILREQLGPHL----LEEAQVNLDAPIYSSETLVRDRPNIIS 276 L + G R ++ + E L EEA + + Sbjct: 57 MNISLDGIPNGKWRYLTDDEVAEILAMCDGSVGTEEASKTDSRGRNIRKATDAKLFDSRE 116 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 E R + + G + + P ++ + + Sbjct: 117 ENQGSTARRNQKTRTFRGNNADEFRHAPNSKKGQQKRRQRDDESSRPAKEHYKAKTQGEH 176 Query: 337 RSPSFPSKRSLRRTSAK 353 P + + + Sbjct: 177 AKP--QGEHGRPQNKPQ 191 >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 = 97.9 bits (242), Expect = 2e-18, Method: Composition-based stats. Identities = 41/179 (22%), Positives = 78/179 (43%), Gaps = 17/179 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP+ +++ + + D + + GRLD ++EGLLLLT+DG L + Sbjct: 2 LIAFNKPMNVLSQFTSEGKWRGLKDWIDVPGV--YAAGRLDRDSEGLLLLTDDGRLQARI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y G+ QD +N L +G+ ++ + Sbjct: 60 TDPRAKMPKTYYALVEGRPSQDAINRLCEGVSLKDGPTRPAKVAAVPAPDWLWPRDPPVR 119 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +AW+ + + EG+NR+++++ RLIR G + L L G R ++ Sbjct: 120 LRKTVPDAWLRLTITEGRNRQVRRMCAAVGLPCLRLIRTQIGDWTLDGLAPGQWRRIAP 178 >gi|170023963|ref|YP_001720468.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] gi|169750497|gb|ACA68015.1| pseudouridine synthase [Yersinia pseudotuberculosis YPIII] Length = 208 Score = 97.9 bits (242), Expect = 2e-18, Method: Composition-based stats. Identities = 55/186 (29%), Positives = 91/186 (48%), Gaps = 17/186 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A R+ L++KP ++ +D GR+T+ +P F V + GRLD ++EGLL+LTND Sbjct: 24 PPAAPRRVLLFNKPFDVLPQFTDESGRTTLQGFIP--FKDVYAAGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P+ + +VY V+ G D D L LK+G+ ++ Sbjct: 82 GKLQARLTQPAQKTGKVYFVQVEGVPDNDALTQLKRGVTLKDGLTLPAGAELVAEPEWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR S G LG L G Sbjct: 142 PRHPPIRERKTIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGNLQPGE 201 Query: 233 TREVSK 238 +E++ Sbjct: 202 WKEITD 207 >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 = 97.6 bits (241), Expect = 2e-18, Method: Composition-based stats. Identities = 59/255 (23%), Positives = 91/255 (35%), Gaps = 37/255 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAE 71 P ++ ++ G +RR ++ Q RV V G H+ V+G L Sbjct: 3 PMQLQDILFGQGFGARRVCAGLVQQGRVSVAGAACIDPLAEFEPEGLHLRVEG--LEGRT 60 Query: 72 RTR------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------- 108 R L + +KP G + S + R Sbjct: 61 GLREGGLDWVCHLSALIMLNKPAGYECSQKPSAWPSVYTLLPLPLRQRPAQGKKGATAGV 120 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV----DQDKLNLLKKG 164 +VGRLD +T GLLLLT+DG L L P + +VY V V + + L G Sbjct: 121 QAVGRLDQDTTGLLLLTDDGQLIHKLASPRHKVSKVYEVGLKHPVPSPAEASFVQRLLDG 180 Query: 165 IVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 +V+ L T + + + L +GK ++K++ +V L R G Sbjct: 181 VVLDDDPHPVRAAACELLTPQH----LRLTLTDGKYHQVKRMVAAVGNRVETLHRSRIGA 236 Query: 223 FQL-GTLLAGSTREV 236 QL L G R + Sbjct: 237 LQLPDDLAPGQWRWL 251 >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 = 97.6 bits (241), Expect = 3e-18, Method: Composition-based stats. Identities = 47/189 (24%), Positives = 79/189 (41%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +ER + L ++ V + GRLD ++EGLL+L Sbjct: 91 RVISPSERKVVLFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 147 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 148 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVEIIPEPE 207 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 208 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 267 Query: 231 GSTREVSKK 239 G REV+ K Sbjct: 268 GEWREVTLK 276 >gi|327482354|gb|AEA85664.1| pseudouridine synthase [Pseudomonas stutzeri DSM 4166] Length = 177 Score = 97.6 bits (241), Expect = 3e-18, Method: Composition-based stats. Identities = 41/145 (28%), Positives = 70/145 (48%), Gaps = 14/145 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLLLLTNDG L + P + + Y V+ G+VD+ +L L++G+ + Sbjct: 32 YPAGRLDRDSEGLLLLTNDGRLQARIADPKHKLPKTYWVQVEGEVDETQLERLRQGVELN 91 Query: 169 GICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + + +W+ + +REG+NR+++++ R Sbjct: 92 DGMTLPAEARQLDEPELWPRNPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLR 151 Query: 215 LIRISYGPFQLGTLLAGSTREVSKK 239 L+R+ GP+ L L G REV + Sbjct: 152 LVRVRIGPWALDGLQPGEWREVPAQ 176 >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 = 97.6 bits (241), Expect = 3e-18, Method: Composition-based stats. Identities = 51/194 (26%), Positives = 78/194 (40%), Gaps = 24/194 (12%) Query: 71 ERTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L T +D + SVGRLD ++EGLLLLTN+G Sbjct: 1 MYEYILFNKPYGVLCQFTDTDNPNSPRPTLKDYIPLPDIYSVGRLDFDSEGLLLLTNNGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L L R Y V+ D+ L+ L++G++I+ C Q+ L Sbjct: 61 LKHRLSHREFSHPRTYWVQVERIPDEIALDRLRQGVLIKDYCTRPAQIKLLATEPNLSPR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--------PFQLG 226 + AW+ + L EG+NR+++++ + RLIRIS G LG Sbjct: 121 NPPIRYRKTVPTAWLEITLTEGRNRQVRRMTAAIGYPTLRLIRISMGFKIGKTLEKLSLG 180 Query: 227 TLLAGSTREVSKKI 240 L G RE ++ Sbjct: 181 DLKPGEWREATQLE 194 >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 = 97.6 bits (241), Expect = 3e-18, Method: Composition-based stats. Identities = 53/185 (28%), Positives = 89/185 (48%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T +D GRST+ D +P GRLD ++EGLLLLTNDG Sbjct: 5 PPSEPKLLLFNKPFDVLTQFNDEQGRSTLKDFIPVPGV--YPAGRLDRDSEGLLLLTNDG 62 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G D+++L L++G+ + + L Sbjct: 63 RLQARIADPRHKLPKTYWVQVEGTPDEEQLRRLREGVTLNDGPTLPAEARLLDEPTLWER 122 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + +REG+NR+++++ RL+R+ GP+ L L G R Sbjct: 123 VPPVRFRKSVPTQWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLGEWR 182 Query: 235 EVSKK 239 EV + Sbjct: 183 EVPAR 187 >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 = 97.2 bits (240), Expect = 3e-18, Method: Composition-based stats. Identities = 52/188 (27%), Positives = 89/188 (47%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+R ++ +++KP ++ +D +GR T+ D +P + + GRLD ++EGLL+L Sbjct: 22 KPVRPRGERKVVIFNKPFDVLVQFTDENGRKTLKDFIPIR--DIYAAGRLDRDSEGLLVL 79 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----- 179 TNDG L L PS ++Y + G L + G+ ++ QV + Sbjct: 80 TNDGKLQAKLTQPSKNTGKIYYAQVEGVPCTAALQQFRDGLALKDGKTLPAQVEIVEQPE 139 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + Q W+ + L EGKNR+++++ + RLIR S G L LL Sbjct: 140 WLWERNPPIRERQTIPTTWLRITLFEGKNRQVRRMTAHIGYPTLRLIRFSMGNITLDNLL 199 Query: 230 AGSTREVS 237 G +E++ Sbjct: 200 PGEWKEIN 207 >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 = 97.2 bits (240), Expect = 3e-18, Method: Composition-based stats. Identities = 52/194 (26%), Positives = 78/194 (40%), Gaps = 24/194 (12%) Query: 71 ERTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L T +D + SVGRLD ++EGLLLLTN+G Sbjct: 1 MYEYILFNKPYGVLCQFTDTDNPNAPRPTLKDYIPLPDIYSVGRLDFDSEGLLLLTNNGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L L R Y V+ D+ L+ L++G++I+ C QV L Sbjct: 61 LKHRLSHREFSHPRTYWVQVERIPDEIALDRLRQGVLIKDYCTRPAQVKLLATEPNLSPR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--------PFQLG 226 + AW+ + L EG+NR+++++ + RLIRIS G LG Sbjct: 121 NPPIRYRKTVPTAWLEITLTEGRNRQVRRMTAAIGYPTLRLIRISMGFKIGKTLEKLSLG 180 Query: 227 TLLAGSTREVSKKI 240 L G RE ++ Sbjct: 181 DLKPGEWREATQLE 194 >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 = 97.2 bits (240), Expect = 3e-18, Method: Composition-based stats. Identities = 47/237 (19%), Positives = 80/237 (33%), Gaps = 22/237 (9%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGI---------LLERAAVNVM-STDHIEVDGV 65 + ++ G SRR+ +I + VD Sbjct: 3 LESILYTQGFGSRRQCRGLI---------EAGRVAVAGAAATDPDAPFDTAGLVFSVDDT 53 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 R L L + P + V VGRLD +T GLLLL+ Sbjct: 54 AWPFHARAYLALNKPAGYECSRDPQHHASVFSLLPAPLVARGVQCVGRLDQDTTGLLLLS 113 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG P + + Y +D +L+ L+ G+ + G + + Sbjct: 114 DDGQFVHAYTSPKRKVPKTYVATVRHPLDDTQLHALRTGVQLHGEP-KPI-AAVAADARD 171 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKIL 241 + + + EGK ++K++ + +V L R S G F L L G+ R + + L Sbjct: 172 THALALTVLEGKYHQVKRMVAAASNRVELLHRESIGGFALPADLAPGAWRWLDEADL 228 >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 = 97.2 bits (240), Expect = 3e-18, Method: Composition-based stats. Identities = 54/185 (29%), Positives = 89/185 (48%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T +D GRST+ D +P V GRLD ++EGLLLLTNDG Sbjct: 5 PPSEPKLLLFNKPFDVLTQFNDEQGRSTLKDFIP--LPGVYPAGRLDRDSEGLLLLTNDG 62 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G D+ +L L++G+ + + L Sbjct: 63 RLQARIADPRHKLPKTYWVQVEGTPDEKQLRRLREGVTLNDGPTLPAEARLLDEPTLWER 122 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + +REG+NR+++++ RL+R+ GP+ L L G R Sbjct: 123 VPPVRFRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLGEWR 182 Query: 235 EVSKK 239 EV + Sbjct: 183 EVPAR 187 >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 = 97.2 bits (240), Expect = 3e-18, Method: Composition-based stats. Identities = 45/177 (25%), Positives = 84/177 (47%), Gaps = 16/177 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 T + L+HKP G++ S R T+ + + + + GRLD ++EGLL+LTNDG L Sbjct: 75 TSTTILLFHKPFGVICQFSRDGTRPTLANYIS--LPDIYAAGRLDQDSEGLLVLTNDGKL 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------------- 176 + + P + + Y + G + ++ L+ L+ GI ++ + Sbjct: 133 QQRITHPKHKLEKTYLAQVEGIISEEALHQLRTGIALKDGKTLPAKAQRIEPPNFAERIP 192 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + +W+ + + EG+NR+++++ + RLIR G +QLG L G Sbjct: 193 PIRERKNIPTSWLELRICEGRNRQVRRMTAATGFPTLRLIRTRIGEWQLGELQPGEW 249 >gi|56808585|ref|ZP_00366316.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Streptococcus pyogenes M49 591] Length = 141 Score = 97.2 bits (240), Expect = 3e-18, Method: Composition-based stats. Identities = 39/141 (27%), Positives = 68/141 (48%), Gaps = 2/141 (1%) Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 +D +T G+L+LTNDG + P + +VY R G ++ L L +GIVI G Sbjct: 1 MDWDTSGVLILTNDGDFTDTMIHPRNEIDKVYLARVKGIATKENLRPLTRGIVIDGKKTK 60 Query: 174 DMQVTLDTQ--KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + + + V + + EG+N ++KK+FE V++L R +G L L G Sbjct: 61 PARYNIVRVEADKNRSIVELTIHEGRNHQVKKMFESVGLLVDKLSRTRFGTVDLKGLRPG 120 Query: 232 STREVSKKILREQLGPHLLEE 252 R ++KK + + ++ Sbjct: 121 EARRLNKKEISQLHNLANTKK 141 >gi|213620819|ref|ZP_03373602.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 165 Score = 97.2 bits (240), Expect = 4e-18, Method: Composition-based stats. Identities = 45/164 (27%), Positives = 75/164 (45%), Gaps = 2/164 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDM 175 + P + Y V V D KG+ + Sbjct: 121 ITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPA 164 >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 = 97.2 bits (240), Expect = 4e-18, Method: Composition-based stats. Identities = 52/185 (28%), Positives = 84/185 (45%), Gaps = 19/185 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP ++ S R+++ D L + GRLD ++EGLLLLT+DG L + Sbjct: 3 LILFNKPFQVMCQFSPHPTRASLADYLDIP--DIYPAGRLDADSEGLLLLTDDGKLQHAI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------------ 182 P + + Y + G + L L+ + + +V + Sbjct: 61 SHPDHKQTKTYLAQVEGIPHTEALARLRAPLNLGDFITQGCEVKRVQEPDWLWPRNPPIR 120 Query: 183 ---KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVS 237 + +W+ + L EGKNR+++++ RLIRI+ GP L + LL G REVS Sbjct: 121 ERAQVPTSWLAITLAEGKNRQVRRMTGAVGLPTLRLIRIAIGPISLQSHPLLPGQWREVS 180 Query: 238 KKILR 242 LR Sbjct: 181 AAELR 185 >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 = 96.8 bits (239), Expect = 4e-18, Method: Composition-based stats. Identities = 42/209 (20%), Positives = 81/209 (38%), Gaps = 18/209 (8%) Query: 48 ERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 +R + V + + + AE + L + + S+ Sbjct: 25 KRPNLKVAKSAVNFYEKKVISFAETKVILFNKPYDVLTQFSDENGRATLKDFI---PVSQ 81 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 V GRLD ++EGL+LLTN+G + L P + + Y + + L L++G+V+ Sbjct: 82 VYPAGRLDRDSEGLVLLTNNGEIQHRLAEPKFKTEKTYFAQVEAIPQEVDLEQLRQGVVL 141 Query: 168 QGICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + +W+ + + EG+NR+++++ + Sbjct: 142 NDGKTLPAKVRLVSEPNWLWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPT 201 Query: 213 NRLIRISYGPFQLGTLLAGSTREVSKKIL 241 RLIR F L L G R++S+ L Sbjct: 202 LRLIRYQMALFTLDNLPQGQYRQLSEAEL 230 >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 = 96.8 bits (239), Expect = 5e-18, Method: Composition-based stats. Identities = 37/143 (25%), Positives = 68/143 (47%), Gaps = 14/143 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P ++ + Y V+ G ++ L L+KG+ ++ Sbjct: 33 YAAGRLDRDSEGLMVLTNDGILQAKLTQPQSKSPKTYWVQVDGAPTEEDLEKLRKGVELK 92 Query: 169 GICYGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 ++ + + W+ + + EG+NR+++++ + R Sbjct: 93 DGMTLPAKIEVMPEPEIWERTPPVRFRANIPTTWLAITIIEGRNRQVRRMTAHIGFPTLR 152 Query: 215 LIRISYGPFQLGTLLAGSTREVS 237 L+R S G L L G RE+ Sbjct: 153 LVRYSMGGIALDDLKPGEWREIK 175 >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 = 96.8 bits (239), Expect = 5e-18, Method: Composition-based stats. Identities = 48/222 (21%), Positives = 77/222 (34%), Gaps = 19/222 (8%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 L + T + P G + SVGRLD+++EGLLLLTND Sbjct: 2 QHSYVLLHKPYNVLCQFTDNSPQGSQRQTLKDFVPVPDIYSVGRLDLDSEGLLLLTNDAP 61 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P R Y V+ D L L++G+++QG Sbjct: 62 LKHYLCEPKFAHSRTYWVQVENIPDGQALEQLRQGVMVQGKKTRPAIANLLTPEPTVPAR 121 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG----PFQLGTLLA 230 + AW+ + L EG+NR+++++ RL+R++ G L L Sbjct: 122 EPPIRFRKNVPTAWLELTLTEGRNRQVRRMTAAVGHPTLRLMRVAIGAGPAKLTLTGLGP 181 Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 G R ++ + + +S R Sbjct: 182 GEWRHLTTAEIGALQNLVKKAKPNQRSPHKKTASRKPKGKRR 223 >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 = 96.8 bits (239), Expect = 5e-18, Method: Composition-based stats. Identities = 48/190 (25%), Positives = 92/190 (48%), Gaps = 17/190 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T++ L++KP ++ SD +GRST+ D + V VGRLD ++EGLLLLTN+G + Sbjct: 40 QTQVILFNKPFDVLCQFSDENGRSTLKDFIDIA--EVYPVGRLDRDSEGLLLLTNNGEIQ 97 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------- 176 L P + + Y ++ G D+ L L++G+ ++ + Sbjct: 98 HRLAEPKFKMEKTYWMQVEGVPDETALEQLRRGVQLKDGMTKPAKVRLISEPDCLWQRVP 157 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + +W+ + + EG+NR+++++ + RLIR F L L + R + Sbjct: 158 PIRERKNIPTSWLEIKIYEGRNRQVRRMTAHIGFPTLRLIRCQLAGFTLQNLAPKTYRTL 217 Query: 237 SKKILREQLG 246 ++ L++ Sbjct: 218 TQDELKQLYQ 227 >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 = 96.8 bits (239), Expect = 5e-18, Method: Composition-based stats. Identities = 42/143 (29%), Positives = 69/143 (48%), Gaps = 14/143 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P ++ + Y V+ G + L L+ G+ ++ Sbjct: 33 YAAGRLDRDSEGLLILTNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLK 92 Query: 169 GICYGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 +V + + W+ + L EG+NR+++++ + R Sbjct: 93 DGPTLPAKVDIMPEPTLWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLR 152 Query: 215 LIRISYGPFQLGTLLAGSTREVS 237 LIR S G + LG L G REV+ Sbjct: 153 LIRYSMGDWNLGDLQPGEWREVT 175 >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 = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 47/189 (24%), Positives = 80/189 (42%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +ER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RAISPSERKVVLFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + ++ Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGVPQESDLEALRHGVTLKDGPTLPAKVEIMSEPE 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVSKK 239 G REV+ K Sbjct: 234 GEWREVTLK 242 >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 = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 45/176 (25%), Positives = 80/176 (45%), Gaps = 17/176 (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 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVT 178 + P + + Y V+ G D L+ L+ G++++ Sbjct: 61 ITDPKHKLPKTYWVQVEGVPDSAALDALRAGVLLKDGMTQPAGAALIDTPPGLWPRTPPV 120 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + +REGKNR+++++ + RLIR G + L L G+ + Sbjct: 121 RARKAIPTSWLELTIREGKNRQVRRMTAAVGFPTLRLIRYRIGAWTLDGLDQGTWK 176 >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 = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 42/196 (21%), Positives = 78/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E T + D + V + GRLD ++EGLL+L Sbjct: 31 KTLSLDETTVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 88 TNNGELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >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 = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 57/189 (30%), Positives = 94/189 (49%), Gaps = 20/189 (10%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G PL R+ L++KP ++ +D GR+T+ + +P F+ V + GRLD ++EGLL+ Sbjct: 23 GKPLSPR---RVLLFNKPFDVLPQFTDESGRATLKEFIP--FNDVYAAGRLDRDSEGLLV 77 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------- 175 LTNDG L L P+ + +VY V+ G D L L++GI ++ Sbjct: 78 LTNDGKLQAKLTQPAQKTGKVYFVQVEGVPGDDALMQLRRGISLKDGPTLPAGAELVDEP 137 Query: 176 -------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + +WV + L EG+NR+++++ + RLIR S G LG L Sbjct: 138 EWLWPRNPPIRERKNIPTSWVKITLFEGRNRQVRRMTAHVGFPTLRLIRFSMGNLSLGNL 197 Query: 229 LAGSTREVS 237 G +E++ Sbjct: 198 QPGEWKEIN 206 >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 = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 45/176 (25%), Positives = 84/176 (47%), Gaps = 5/176 (2%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + +KP G+++ SD + ++ + + + VGRLD +TEGLLL+TNDG L+ L Sbjct: 1 MLNKPAGVLSAVSDNNCKTVIDLLDVTPKKGLFPVGRLDKDTEGLLLITNDGELSHNLLS 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLRE 195 P+ + Y V +G + + L +KG+ I + + + + + + E Sbjct: 61 PAKHVDKTYYVELNGDLIDSDIELFEKGLDIGEKNLTKPAILKILEK---RSTALITITE 117 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLL 250 GK ++K++F+ V L R++ GP +L L G R+++ + L Sbjct: 118 GKYHQVKRMFQAIGLTVTFLKRLTMGPLKLDENLKPGEYRKLTVSEVEALLNNKPR 173 >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 = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 41/148 (27%), Positives = 74/148 (50%), Gaps = 1/148 (0%) Query: 96 TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 T+ D + + R+ +GRLD ++EGL+L+TNDG L++ + P + + Y G++ Sbjct: 9 TLRDIVGDKYERIFHMGRLDYDSEGLILMTNDGELSQHVMHPKYEVEKTYIATLEGRISG 68 Query: 156 DKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 L + + + + + V V L GKNR ++++F + V R Sbjct: 69 QVCRRLVTTGVKLDDGWIKLDRCAILDSSRESTLVKVVLHSGKNRIVRRIFGSIGFPVKR 128 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKILR 242 L+R GP +LG L +G+ R +S+ +R Sbjct: 129 LVRTQIGPIKLGDLKSGTYRVLSQAEVR 156 >gi|303286639|ref|XP_003062609.1| pseudouridylate synthase [Micromonas pusilla CCMP1545] gi|226456126|gb|EEH53428.1| pseudouridylate synthase [Micromonas pusilla CCMP1545] Length = 386 Score = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 66/265 (24%), Positives = 105/265 (39%), Gaps = 41/265 (15%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----DGVPL 67 QRVSK++++ G+ASRRE E +I + V VNG + + V I++ DG Sbjct: 90 QTQRVSKLMSQRGMASRREAEALIDRGDVIVNGGEVATRGMKVAIDATIDIAGDSDGGAN 149 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS----------------- 110 + + +KP G V+ R P S Sbjct: 150 ALLAKKVTVVLNKPPGYVSNLPSRGEREASELITPRNAIYHHSTGGGVVGGGADADAATR 209 Query: 111 ---------------VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 GRLD ++ GLL+LT DG LAR + + + +VY V + Sbjct: 210 RKLEDVCRDARALNVCGRLDKDSRGLLVLTTDGVLARAIVGGN-EIPKVYEVVVDAIATR 268 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 ++L L + + G M+V + LR+GK R+I+++ E +V L Sbjct: 269 EQLAALNGPVALDGERLLPMRVETLEG----TTLRFELRQGKKRQIRRLCEGLALRVLDL 324 Query: 216 IRISYGPFQLGTLLAGSTREVSKKI 240 R+ G +G L G R +S+ Sbjct: 325 RRVHVGTCDVGDLPEGRWRLMSEAE 349 >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 = 96.4 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 45/177 (25%), Positives = 85/177 (48%), Gaps = 15/177 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP ++ +D + + RV + GRLD ++EGLLLLT++G LA L Sbjct: 2 LIAFNKPFNVLCQFTDRSVPARPTLAGFGLPPRVYAAGRLDHDSEGLLLLTDNGTLAHKL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L+ G+ + ++ Sbjct: 62 TDPRHKADKTYWVQVEGTPSDEQLQQLRDGVELNDGPTLPAKIERLDPAPSLWTRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +AW+ + +REG+NR+++++ N RL+R++ GP++L L G R++ Sbjct: 122 FRKTVPDAWLAITIREGRNRQVRRMTAAVNLPTLRLVRVAMGPYRLDDLQPGQWRQI 178 >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 = 96.0 bits (237), Expect = 7e-18, Method: Composition-based stats. Identities = 52/188 (27%), Positives = 91/188 (48%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R+ L++KP ++ +D GR T+ + +P FS V + GRLD ++EGLL+L Sbjct: 21 KATAPVTPRRVLLFNKPFDVLPQFTDESGRRTLKEFIP--FSDVYAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + +VY V+ G ++ L L++G+ ++ Sbjct: 79 TNDGKLQAKLTQPAQKTGKVYFVQVEGVPGEEALTQLQRGVTLKDGPTLPAGAELVAEPE 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR S G LG L Sbjct: 139 WLWPRHPPIRERKSIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLQ 198 Query: 230 AGSTREVS 237 G +E++ Sbjct: 199 PGEWKEIN 206 >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 = 96.0 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 49/192 (25%), Positives = 84/192 (43%), Gaps = 19/192 (9%) Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 + L L++KP + S R ++ D++ + GRLD ++EGLLLL + Sbjct: 19 IHAISNMPLILFNKPFQTMCQFSPHPTRKSLADHIDIP--NIYPAGRLDADSEGLLLLND 76 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---- 182 DG L + P + + Y V+ G D D L L+ + + + +V + Sbjct: 77 DGKLQHAISHPDRKHTKTYLVQVEGVPDADALARLRAPLDLGDFVTQECEVKRVAEPDWL 136 Query: 183 -----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LL 229 +W+ + L EGKNR+++++ + RL+RI+ GP L + L Sbjct: 137 WPRNPPIRERANAPTSWLAITLSEGKNRQVRRMTGAVGYPTLRLVRIAIGPVSLQSHPLW 196 Query: 230 AGSTREVSKKIL 241 G RE+S L Sbjct: 197 PGEWREISVAEL 208 >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 = 96.0 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 41/206 (19%), Positives = 76/206 (36%), Gaps = 31/206 (15%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + + +++KP G++ +D + VGRLD ++EGLLLLT Sbjct: 32 LIALNKTPQTIVFYKPYGVLCQFTDNSAHPRPTLKDYINLPDLYPVGRLDQDSEGLLLLT 91 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--- 182 ++G L L R Y + G + L L++GI + T+ Sbjct: 92 SNGKLQHRLAHREFAHQRTYFAQVEGSPTDEDLEPLRRGITFADYPTRPAIAKIITEPDF 151 Query: 183 -----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY---GP------ 222 +W+++ L EG+NR+++++ + RL+R+ G Sbjct: 152 PPRNPPIRYRASIPTSWLSITLTEGRNRQVRRMTAAVGFPTLRLVRVQIQVTGRSPQQGK 211 Query: 223 --------FQLGTLLAGSTREVSKKI 240 L L G R ++ Sbjct: 212 GKSAATWCLTLEGLSPGQWRPLTPWE 237 >gi|254496292|ref|ZP_05109179.1| pseudouridine synthase [Legionella drancourtii LLAP12] gi|254354480|gb|EET13128.1| pseudouridine synthase [Legionella drancourtii LLAP12] Length = 240 Score = 96.0 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 48/182 (26%), Positives = 73/182 (40%), Gaps = 17/182 (9%) Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 +R + + + + + GRLD N+EGLLLLTN Sbjct: 48 IRHFMSELILFNKPFAVVCQFTGEKHEHTLAEFI---DKPDFYAAGRLDKNSEGLLLLTN 104 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------ 180 DG L L P + Y V+ G L LKKG+V++ I + +V Sbjct: 105 DGALQHQLTHPKFNKKKYYWVQVEGIPTAADLEPLKKGLVLKDITFLPAEVRCIEEPALW 164 Query: 181 --------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 Q +W+ + LREGKN +++++ + RL+R G +QLG L G Sbjct: 165 PRTPPVRFRQSIPTSWLEIILREGKNHQVRRMTAAMGFPTLRLVRHRIGDWQLGDLQPGE 224 Query: 233 TR 234 R Sbjct: 225 FR 226 >gi|325181473|emb|CCA15907.1| ribosomal large subunit pseudouridine synthase F put [Albugo laibachii Nc14] Length = 241 Score = 96.0 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 54/219 (24%), Positives = 96/219 (43%), Gaps = 25/219 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A + SRR+ ER I+ V VNG +++ + + +E G ++ ++ + + Sbjct: 1 MAERKMCSRRDAERYISAGDVYVNGEQIQQDWIKIPRDSCVEFSGKAVKAEKQKVSVILN 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---------------VGRLDINTEGLLLL 124 KP+G V++ +P + + ++ + GRLDIN+ GLLL Sbjct: 61 KPLGYVSSQPEPMRKPAIELLSIQNAFQLTARWYGKEPKSLSKLAVCGRLDINSTGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVR------FHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 T DG LA+ + P+ + Y VR + ++ ++ L++G + ICY V Sbjct: 121 TQDGVLAKQILDPNGGVEKEYLVRVDMDLERDTKQAEEVVDKLREGFIWNDICYRARSVR 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + + L EGK R I+ + E KV L R Sbjct: 181 VLNANQ----LQFILTEGKKRHIRYMCEAVGIKVIALKR 215 >gi|323969847|gb|EGB65128.1| RNA pseudouridylate synthase [Escherichia coli TA007] Length = 191 Score = 96.0 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 37/195 (18%), Positives = 77/195 (39%), Gaps = 4/195 (2%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + +GRLD +++GL+ LTN G L + + Y V + ++ + + G+ I Sbjct: 1 MFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPI 60 Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G +K + + L +G NR+I+++ E F ++V +L R L Sbjct: 61 LGTV----TKKCKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSG 116 Query: 228 LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 + G R+++ L + ++V A ++ + + + R Sbjct: 117 IPLGEWRDLTDDELIDLFKLIENSSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPAS 176 Query: 288 NSSQKNGLSKQKKLA 302 N + ++KK Sbjct: 177 NGKRFTSPGRKKKGR 191 >gi|261332662|emb|CBH15657.1| tRNA pseudouridine synthase A, putative [Trypanosoma brucei gambiense DAL972] Length = 688 Score = 96.0 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 65/225 (28%), Positives = 101/225 (44%), Gaps = 4/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAERT 73 + + + RAG SRRE +IA +V+V+ ++ V + ++I V LR A Sbjct: 346 LLRCLPRAGFCSRREALAVIASGQVRVDNVVERNPFRLVRAENNIHVASHSGRLRFAPPR 405 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +V+ + ++ VG L + GLLLLTNDG L+R Sbjct: 406 LWMYHKPAHVIVSRNDVAGRALFTKHARILGMDHLVPVGSLPMRAHGLLLLTNDGELSRF 465 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LE P + Y +R VD + L +GI I G Y +M+ ++ S + V Sbjct: 466 LENPKCMIQQTYLLRVRPAVDPVLAHKLNFQGITINGKQYKNMEFFVNPAMKSRFSLKVK 525 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G+ + + + V R RIS+GPF L L GS REV+ Sbjct: 526 VR-GEVMPVAHLMQHLGRTVERGGRISFGPFSLSGLPVGSLREVT 569 >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 = 96.0 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 65/225 (28%), Positives = 101/225 (44%), Gaps = 4/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAERT 73 + + + RAG SRRE +IA +V+V+ ++ V + ++I V LR A Sbjct: 346 LLRCLPRAGFCSRREALAVIASGQVRVDNVVERNPFRLVRAENNIHVASHSGRLRFAPPR 405 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +V+ + ++ VG L + GLLLLTNDG L+R Sbjct: 406 LWMYHKPAHVIVSRNDVAGRALFTKHARILGMDHLVPVGSLPMRAHGLLLLTNDGELSRF 465 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 LE P + Y +R VD + L +GI I G Y +M+ ++ S + V Sbjct: 466 LENPKCMIQQTYLLRVRPAVDPVLAHKLNFQGITINGKQYKNMEFFVNPAMKSRFSLKVK 525 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G+ + + + V R RIS+GPF L L GS REV+ Sbjct: 526 VR-GEVMPVAHLMQHLGRTVERGGRISFGPFSLSGLPVGSLREVT 569 >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 = 96.0 bits (237), Expect = 9e-18, Method: Composition-based stats. Identities = 52/185 (28%), Positives = 87/185 (47%), Gaps = 17/185 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L +KP ++T +D GR T+ D + + VGRLD ++EGLLLLTN+G + Sbjct: 34 TTLVLLNKPYDVLTQFTDEQGRKTLKDFITMP--NIYPVGRLDRDSEGLLLLTNNGEIQH 91 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------V 177 L P + Y V+ G + L L KG+ ++ + Sbjct: 92 RLAHPKFDKQKTYWVQVEGVPQPEDLAKLAKGVELKDGLTKPAKVRAIATPDFAWNIAPQ 151 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + + EGKNR+++++ + RLIR+ G F+LG L G + +S Sbjct: 152 IRERKTIPTSWIELIISEGKNRQVRRMTAHIGFPTLRLIRVGIGQFRLGNLGCGEFQVLS 211 Query: 238 KKILR 242 + R Sbjct: 212 ENEKR 216 >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 = 96.0 bits (237), Expect = 9e-18, Method: Composition-based stats. Identities = 36/144 (25%), Positives = 71/144 (49%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L + + P +W + Y V+ G QD + +L+ G+ ++ Sbjct: 40 YAAGRLDKDSEGLLVLTNDGVLQQEISNPKHKWPKTYVVQVEGTPTQDDIKVLESGVTLK 99 Query: 169 GICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + ++W+ + + EG+NR+++++ + Sbjct: 100 DGITKPAEAEIIDKPEGLWDRLPPIRYRKAIPDSWLMITITEGRNRQVRRMTAAIGFPTL 159 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S G F + + G +++ Sbjct: 160 RLIRYSIGNFTIDDIPNGQWKQLD 183 >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 = 95.6 bits (236), Expect = 9e-18, Method: Composition-based stats. Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 1/133 (0%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQG 169 +GRLD ++EGL+L+TNDG L++ + P + + Y G++ L + + Sbjct: 1 MGRLDYDSEGLILMTNDGELSQHVMHPKYEVEKTYIATLEGRISGTVCRRLVTTGVQLDD 60 Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + V V L GKNR ++++F + V RL+R GP +LG L Sbjct: 61 GWIKLDHCAIIDSSRDFTMVKVVLHSGKNRIVRRIFGSIGFPVKRLVRTQIGPIKLGELK 120 Query: 230 AGSTREVSKKILR 242 GS R +S+ +R Sbjct: 121 PGSYRVLSQAEVR 133 >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 = 95.6 bits (236), Expect = 9e-18, Method: Composition-based stats. Identities = 46/175 (26%), Positives = 77/175 (44%), Gaps = 17/175 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP G++ S T+ D + V GRLD ++EGLLLLT+DG L Sbjct: 3 RILLFNKPYGVICQFSRDGMHPTLADYIA--VPDVYPAGRLDTDSEGLLLLTDDGKLQHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VT 178 + P + + Y V+ G D L L++GI ++ + Sbjct: 61 ITDPKHKQPKTYWVQVEGIPDATALEQLRRGIQLKDGMTLPAEANLMAEPQGLWLRDPPV 120 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + W+ + + EGKNR+++++ + RLIR S G + + L G Sbjct: 121 RFRKDIPTCWLWLTIHEGKNRQVRRMTAAVGFPTLRLIRYSIGKWTIDGLAPGKW 175 >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 = 95.6 bits (236), Expect = 1e-17, Method: Composition-based stats. Identities = 52/185 (28%), Positives = 87/185 (47%), Gaps = 17/185 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 T L L +KP ++T +D GR T+ D + + VGRLD ++EGLLLLTN+G + Sbjct: 34 TTLVLLNKPYDVLTQFTDEQGRKTLKDFITMP--NIYPVGRLDRDSEGLLLLTNNGEIQH 91 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------V 177 L P + Y V+ G + L L KG+ ++ + Sbjct: 92 RLAHPKFDKQKTYWVQVEGVPQPEDLAKLAKGVELKDGLTKPAKVRAIATPDFAWHIAPQ 151 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + + EGKNR+++++ + RLIR+ G F+LG L G + +S Sbjct: 152 IRERKTIPTSWIELIISEGKNRQVRRMTAHIGFPTLRLIRVGIGQFRLGNLGCGEFQVLS 211 Query: 238 KKILR 242 + R Sbjct: 212 ENEKR 216 >gi|76665077|emb|CAJ17986.1| rRNA pseudouridylate synthase [Candidatus Phytoplasma solani] Length = 96 Score = 95.6 bits (236), Expect = 1e-17, Method: Composition-based stats. Identities = 25/88 (28%), Positives = 41/88 (46%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KV+A A + SRR+ E +I Q+RVKVN ++ V +D I VD + K Sbjct: 2 ERLQKVLAAANLVSRRKAETLILQKRVKVNNQIVYELGTKVSPSDVITVDNTLITKTPLF 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 L L T + ++ + + Sbjct: 62 YYLLNKPQGYLSTAKDNKTRQTVLDLII 89 >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 = 95.6 bits (236), Expect = 1e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 31 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 88 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >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 = 95.6 bits (236), Expect = 1e-17, Method: Composition-based stats. Identities = 44/240 (18%), Positives = 88/240 (36%), Gaps = 17/240 (7%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL ++KP ++ +D + L V GRLD ++EGL+LLT+ G Sbjct: 1 MTRLIRFNKPYDVLPQFTDRGSTDSPRATLSDWIDLPGVYPAGRLDRDSEGLMLLTDQGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L + P + + Y V+ G D + L +G+ ++ + L Sbjct: 61 LQAWISDPQHKMPKTYWVQVEGTPDAAAITALAEGVELKDGLTRPAKARLIAEPEGLWAR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++W+ + +REG+NR+++++ RLIR + G + L L G Sbjct: 121 NPPIRVRKSVPDSWIELTIREGRNRQVRRMTAAVGHPTLRLIRAAIGAWTLNGLGQGQWE 180 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 ++ + P + Q ++ + ++ + Sbjct: 181 DLEVPNIPGPPRPKHVPNRQAIARRHAREEAEAKQEARVSRPKPGKSTGTKAGSAKAGSA 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 = 95.6 bits (236), Expect = 1e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 60 RPLSPAERKVVLFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 117 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 176 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 177 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 236 Query: 231 GSTREVS 237 G REV+ Sbjct: 237 GEWREVT 243 >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 = 95.6 bits (236), Expect = 1e-17, Method: Composition-based stats. Identities = 50/188 (26%), Positives = 89/188 (47%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P R ++ +++KP ++ +D GR T+ D +P + + GRLD ++EGLL+L Sbjct: 22 KPSRPRGERKVIIFNKPFDVLVQFTDDSGRKTLKDFIPIP--DIYAAGRLDRDSEGLLVL 79 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TNDG L L P+ + +VY + G + L ++G+ ++ + Sbjct: 80 TNDGKLQAKLTQPNKKTGKVYYAQVEGIPTEIALQQFREGLNLKDGKTLPAKIERVEQPT 139 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + Q +W+ + L EGKNR+++++ + RLIR S G L LL Sbjct: 140 WVWTRFPPIRERQSIPTSWLKITLFEGKNRQVRRMTAHIGYPTLRLIRFSMGNITLDNLL 199 Query: 230 AGSTREVS 237 G +E++ Sbjct: 200 PGQWKEIN 207 >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 = 95.6 bits (236), Expect = 1e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 60 RPLSPAERKVVLFNKPYDTLSQFTDGDGRKTLADYI---QIKDVYAAGRLDRDSEGLLIL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 117 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 176 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 177 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 236 Query: 231 GSTREVS 237 G REV+ Sbjct: 237 GEWREVT 243 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 52/183 (28%), Positives = 91/183 (49%), Gaps = 17/183 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R+ L++KP ++ +D GR+T+ + +P F+ V + GRLD ++EGLL+LTNDG Sbjct: 26 ITPRRVLLFNKPFDVLPQFTDESGRTTLKEFIP--FNDVYAAGRLDRDSEGLLVLTNDGK 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P+ + +VY V+ G D L L++G+ ++ Sbjct: 84 LQARLTQPAKKTGKVYFVQVEGVPSDDALLQLQRGMTLKDGPTLPAGAELVSEPEWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR S G LG L G + Sbjct: 144 NPPIRERKSIPTSWLKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLQPGEWK 203 Query: 235 EVS 237 E++ Sbjct: 204 EIN 206 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 31 QTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 88 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >gi|261856640|ref|YP_003263923.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] gi|261837109|gb|ACX96876.1| pseudouridine synthase [Halothiobacillus neapolitanus c2] Length = 180 Score = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 43/174 (24%), Positives = 77/174 (44%), Gaps = 15/174 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP +++ + G + V + GRLD ++EGLLLLT+DG L L Sbjct: 2 LIAFNKPFDVLSQFTVEPGSAAGTLADYIDQPNVYAAGRLDRDSEGLLLLTDDGRLQAQL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y + G V L L+ G+V++ + + Sbjct: 62 TQPDAKQPKTYLAQVDGDVTAQALAQLRAGVVLKDGKTRPAEAHVVPEPDWLWPRTPPIR 121 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + +W+ + + EGKNR+++++ + RLIR++ G LG+L G Sbjct: 122 VRKNIPTSWIELTITEGKNRQVRRMTAAVGFPTLRLIRVAVGSHNLGSLQPGQW 175 >gi|126642165|ref|YP_001085149.1| 16S rRNA pseudouridylate 516 synthase [Acinetobacter baumannii ATCC 17978] Length = 201 Score = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 41/182 (22%), Positives = 72/182 (39%), Gaps = 2/182 (1%) Query: 59 HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 V G + E+ + L + H I V +VGRLD +T Sbjct: 14 EFSVFGQNYQYREKIYIALRKPQGFECSHHPQHHQSVFSLLPETMIHRGVQAVGRLDQDT 73 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 GLLLLT+DG + L P +VY V + V +++ +L +G+ + G Sbjct: 74 TGLLLLTDDGKYLQALTHPRKHVPKVYHVTTYDPVTPEQIEMLTQGVNLHQEKGGFAATD 133 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +T+ + +G ++K++ KV +L R G L + G +S+ Sbjct: 134 VALL--GTHQLTMTIHQGVYHQVKRMIAAVGNKVEKLHRHQIGQLVLPEIEEGGWVYLSE 191 Query: 239 KI 240 + Sbjct: 192 QE 193 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 57/183 (31%), Positives = 88/183 (48%), Gaps = 17/183 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++KP G++T +D GR T+ +P VGRLD ++EGLLLLT+DG L Sbjct: 2 RYLKFYKPYGVLTQFTDRQGRPTLKSFIPVPKV--YPVGRLDRDSEGLLLLTDDGRLNAR 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P R Y V+ G L L++G+VIQG +V + ++ Sbjct: 60 LIDPKFGHERTYWVQVEGIPTPQALQQLQEGVVIQGRKTRPAEVRVLAEEPELPPRDPPI 119 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W+ + LREG+NR+++++ RL+R+ GP L L G +E+S+ Sbjct: 120 RFRRSIPTTWLELMLREGRNRQVRRMTAAVGIPTLRLVRVGLGPLSLQGLAPGQWQELSE 179 Query: 239 KIL 241 L Sbjct: 180 AEL 182 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 56/197 (28%), Positives = 94/197 (47%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLL Sbjct: 32 KPQLSFEDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QIYPVGRLDRDSEGLLLL 89 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------ 178 TN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 90 TNNGEVQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPN 149 Query: 179 ---------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L Sbjct: 150 YEWQTAPKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELN 209 Query: 230 AGSTREVSKKILREQLG 246 +G R + +K R+ Sbjct: 210 SGEYRVLDEKEKRQLFQ 226 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 47/185 (25%), Positives = 91/185 (49%), Gaps = 16/185 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 +R +L ++KP G++ SD GR T+ D +P + V GRLD ++EGL+LLT Sbjct: 5 IIRPRAGKKLLRFNKPYGVLCQFSDQQGRKTLKDFVP--VADVYPAGRLDYDSEGLVLLT 62 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----- 180 +DG L + P ++ + Y V+ G + ++ + L G+ ++ + + Sbjct: 63 DDGRLQARIAQPHSKLPKTYWVQVEGMITENAVRQLAAGVRLKDGMTQPARARILTKPTL 122 Query: 181 ---------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + +W+ + L EG+NR+++++ + RL+R++ G ++L L G Sbjct: 123 WAREPPVRFRKTIPTSWLELTLYEGRNRQVRRMTAAVGFPTLRLVRVAIGMWRLNDLALG 182 Query: 232 STREV 236 + EV Sbjct: 183 AYEEV 187 >gi|330973498|gb|EGH73564.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aceris str. M302273PT] Length = 173 Score = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 49/174 (28%), Positives = 81/174 (46%), Gaps = 7/174 (4%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + R ++ HKP G V+ SD + + + GRLD NT GL+L+TNDG Sbjct: 1 KVPRYFMLHKPEGCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQW 60 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAW 188 +R L P ++ +VY V +D+ + +GI Q+TL + + Sbjct: 61 SRRLTQPQSKMPKVYYVETEQPIDERYAAKFAEGLYFAFEGITTQPAQLTLLGPRRA--- 117 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EG+ ++K++F F+ KV RL R + G L L GS R ++ + Sbjct: 118 -RLSIVEGRYHQVKRMFGHFDNKVLRLHRETIGALLLDPDLRPGSYRALNAGEI 170 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 56/197 (28%), Positives = 94/197 (47%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLL Sbjct: 31 KPQLSFEDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QIYPVGRLDRDSEGLLLL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------ 178 TN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 89 TNNGEIQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPN 148 Query: 179 ---------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L Sbjct: 149 YEWQTAPKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELN 208 Query: 230 AGSTREVSKKILREQLG 246 +G R + +K R+ Sbjct: 209 SGEYRVLDEKEKRQLFQ 225 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 60 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 117 TNDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 176 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 177 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 236 Query: 231 GSTREVS 237 G REV+ Sbjct: 237 GEWREVT 243 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 31 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 88 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 56/197 (28%), Positives = 94/197 (47%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLL Sbjct: 31 KPQLSFEDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QIYPVGRLDRDSEGLLLL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------ 178 TN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 89 TNNGEVQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPN 148 Query: 179 ---------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L Sbjct: 149 YEWQTAPKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELN 208 Query: 230 AGSTREVSKKILREQLG 246 +G R + +K R+ Sbjct: 209 SGEYRVLDEKEKRQLFQ 225 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 31 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 88 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 25 QTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 81 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 82 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 141 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 142 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLEN 201 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 202 GSFRLLSLDEIKALFQ 217 >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 = 95.2 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G REV+ Sbjct: 234 GEWREVT 240 >gi|10304093|gb|AAG16128.1|AF261151_1 pseudouridylate synthase-like protein [Vibrio cholerae] Length = 241 Score = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 78/187 (41%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYIPIKDG---YAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G REV+ Sbjct: 234 GEWREVT 240 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 42/179 (23%), Positives = 72/179 (40%), Gaps = 14/179 (7%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + G V GRLD ++EGLLLLT+DG L + Sbjct: 4 ILFNKPYGVLCQFTDERTGPPRPTLADHIHRPGVYPAGRLDHDSEGLLLLTDDGRLQARI 63 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D+ L L+KG+ ++ + L Sbjct: 64 ADPRHKMPKTYLAQVEGVPDEAALASLRKGVRLKDGMTLPAEAALIEDPALWPRDPPIRV 123 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + ++W+ + +REG+NR+++++ RL+R G + L L G REV + Sbjct: 124 RKTVPDSWLRLTIREGRNRQVRRMTAAVGHPTLRLVRWQVGDWSLDGLRPGEWREVEVR 182 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 55/191 (28%), Positives = 93/191 (48%), Gaps = 17/191 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLLTN+G + Sbjct: 38 EDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QIYPVGRLDRDSEGLLLLTNNGEI 95 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------------ 178 L P + + Y + G L L+KG+ ++ + Sbjct: 96 QHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPNYEWQTA 155 Query: 179 ---LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L +G R Sbjct: 156 PKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELNSGEYRV 215 Query: 236 VSKKILREQLG 246 + +K R+ Sbjct: 216 LDEKEKRQLFQ 226 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 55/188 (29%), Positives = 90/188 (47%), Gaps = 16/188 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P RL L++KP ++T +D GRST+ D +P GRLD ++EGLLLLT Sbjct: 2 PKAPPSEPRLLLFNKPFDVLTQFNDERGRSTLKDFIPVPGV--YPAGRLDRDSEGLLLLT 59 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----- 180 NDG L + P + + Y V+ G ++D+L L++G+ + + L Sbjct: 60 NDGRLQARIADPRHKLPKTYWVQVEGTPEEDQLRRLREGVTLNDGPSLPAEARLLDEPAL 119 Query: 181 ---------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + W+ + +REG+NR+++++ RL+R+ GP+ L L G Sbjct: 120 WERVPPVRFRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSLDGLGLG 179 Query: 232 STREVSKK 239 REV + Sbjct: 180 EWREVPAR 187 >gi|302135159|ref|ZP_07261149.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. tomato NCPPB 1108] Length = 222 Score = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 39 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 96 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 97 QLQARIADPKHKLAKTYWVQVEGEPTPEQLQQLRNGVQLNDGPTLPAEARQLDEPQLWPR 156 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 157 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 216 Query: 235 EVSKK 239 EV+ K Sbjct: 217 EVAAK 221 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 55/197 (27%), Positives = 93/197 (47%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E T + L++KP ++T +D R T+ D +P ++ VGRLD ++EGLLLL Sbjct: 31 KPQLSFEDTVVVLFNKPFDVLTQFTDEQRRQTLKDFIPIP--QIYPVGRLDRDSEGLLLL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------ 178 TN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 89 TNNGEIQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPN 148 Query: 179 ---------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L Sbjct: 149 YEWQTAPKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELN 208 Query: 230 AGSTREVSKKILREQLG 246 +G R + +K R+ Sbjct: 209 SGEYRVLDEKEKRQLFQ 225 >gi|301155121|emb|CBW14585.1| 23S rRNA pseudouridine synthase [Haemophilus parainfluenzae T3T1] Length = 228 Score = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 41/197 (20%), Positives = 77/197 (39%), Gaps = 18/197 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL + + D V + GRLD ++EGLL+L Sbjct: 27 KPLTLEQTIVILFNKP---FDVLTQFTDENGRATLKDFITIPNVYAAGRLDRDSEGLLIL 83 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G + L P + + Y V+ G ++ L+ L+KG+ ++ + Sbjct: 84 TNNGEVQHRLADPKFKTEKTYFVQVEGIPEETDLDKLRKGVELKDGMTKPAKVRLISEPD 143 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + Q + +W+ + + EG+NR+++++ + RLIR L L Sbjct: 144 FLWPRNPPIRERQSITTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYQMSHLTLDGLG 203 Query: 230 AGSTREVSKKILREQLG 246 G R ++K+ +R Sbjct: 204 NGEYRCLNKEEMRALFK 220 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 50/182 (27%), Positives = 86/182 (47%), Gaps = 16/182 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + RL L +KP ++T +D GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 22 PPAQPRLILLNKPFDVLTQFNDEQGRATLKDFVEVPGV--YPAGRLDRDSEGLLLLTNDG 79 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ + +L L+ G+ + + L Sbjct: 80 RLQARIADPRHKLAKTYWVQVEGEPSEAQLQQLRDGVTLNDGPTLPAEARLLDEPQLWDR 139 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + +REG+NR+++++ RL+R++ GP+ L L G Sbjct: 140 HPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVAIGPWALNGLQPGQWC 199 Query: 235 EV 236 EV Sbjct: 200 EV 201 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 38/197 (19%), Positives = 77/197 (39%), Gaps = 18/197 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L AE + L + + + + GRLD ++EGLL+L Sbjct: 29 RALSIAESQVILFNKPFDVLTQFTDENGRATLKDFIIIPNV---YAAGRLDRDSEGLLIL 85 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G + L P + + Y + G ++ L+ L++G+ ++ + Sbjct: 86 TNNGEVQHRLADPKFKTEKTYFAQVEGIPEESDLDKLRQGVELKDGMTKPAKVRLISEPD 145 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + Q +W+ + + EG+NR+++++ + RLIR L L Sbjct: 146 FLWPRNPPIRERQSIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYQMSHLTLDGLS 205 Query: 230 AGSTREVSKKILREQLG 246 G R ++++ +R Sbjct: 206 NGEYRRLNEEEMRALFK 222 >gi|323455461|gb|EGB11329.1| hypothetical protein AURANDRAFT_61729 [Aureococcus anophagefferens] Length = 294 Score = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 65/248 (26%), Positives = 108/248 (43%), Gaps = 29/248 (11%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---------LRKAERTRLWL 77 SRR + +A RV+VNG + ++ + S D + +DG L + Sbjct: 36 SRRAADAAVAAGRVRVNGETAK-PSLRLRSGDTLALDGKKRDWEALAAKLEGGGGLEYYA 94 Query: 78 YHKPIGLVTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 YHKP G+ T D RS L + R+ GRLD+++ GL++LTNDG A Sbjct: 95 YHKPEGVACTTDANDRRSLRRAPALKKLFAGGKRIFPAGRLDVDSCGLVVLTNDGAAADA 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----------QGICYGDMQVTLDTQ 182 PS++ +VY V + D + L G+ I + V Sbjct: 155 ALQPSSKLAKVYEVELDRRAADDDVAALAAGVEIATPLQRGSKAEKTGKTLPCDVARGDG 214 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G + + L EG+NR+++++ E ++V L R+++GP LG L G+ R ++ + Sbjct: 215 RG----LVITLAEGRNRQLRRMAEALGYEVTGLRRVAFGPVSLGDLRPGTLRPLAAAEVD 270 Query: 243 EQLGPHLL 250 L Sbjct: 271 ALLAHKDK 278 >gi|318042073|ref|ZP_07974029.1| pseudouridine synthase, Rsu [Synechococcus sp. CB0101] Length = 232 Score = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 52/192 (27%), Positives = 84/192 (43%), Gaps = 20/192 (10%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L++KP G+++ + G V + GRLD ++EGLLLLT +G L + L Sbjct: 11 LLFYKPYGVLSQFTPEPGSRWGCLADHIPVPDVYTAGRLDADSEGLLLLTANGRLQQRLT 70 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------------T 181 P+ R Y V+ G D +L L++G+VIQG + Sbjct: 71 DPAWGHWRRYWVQVEGIPDAAQLQQLEQGLVIQGQRTLPARANAIADPDLPPRDPPIRSR 130 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------GPFQLGTLLAGSTRE 235 Q+ +W+ V LREG+NR+++++ RL+R++ P L L G R Sbjct: 131 QQIPTSWLAVELREGRNRQVRRMTAAVGLPTLRLLRVAIDLMDGGAPLSLDGLEPGQWRA 190 Query: 236 VSKKILREQLGP 247 V+ + R Sbjct: 191 VTPEEERRLQAL 202 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 53/196 (27%), Positives = 82/196 (41%), Gaps = 19/196 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G ++ + +L V VGRLD ++EGLLLL+ND L Sbjct: 1 MFHYILLHKPFGYLSQFTPETPGQLTLADLGPFPPEVYPVGRLDQDSEGLLLLSNDSRLN 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKG--- 184 L P R Y V+ G D+ L L+ G+ I + + L + Sbjct: 61 VQLLDPRHAHWRTYWVQVEGIPDEAALAHLRSGVEIRFNKKTYHTLPARAQLLDPQPTVA 120 Query: 185 ------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 W+ + L+EGKNR+++++ + V RLIR++ QLG L G+ Sbjct: 121 ERNPPIRYRANIPETWLELSLQEGKNRQVRRMCAKVGYPVLRLIRVNIENLQLGDLAVGA 180 Query: 233 TREVSKKILREQLGPH 248 R ++K + L Sbjct: 181 WRACTQKEIYTYLKLK 196 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 45/187 (24%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +ER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RAISPSERKVVLFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + ++ Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGVPQESDLEALRHGVTLKDGPTLPAKVKIMSEPE 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRHSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G RE++ Sbjct: 234 GEWREMT 240 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 114 TNDGILQARLTRPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G REV+ Sbjct: 234 GEWREVT 240 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G REV+ Sbjct: 234 GEWREVT 240 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G REV+ Sbjct: 234 GEWREVT 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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G REV+ Sbjct: 234 GEWREVT 240 >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 = 94.9 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 48/182 (26%), Positives = 85/182 (46%), Gaps = 16/182 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L+L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPS 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EV 236 EV Sbjct: 205 EV 206 >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 = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 42/187 (22%), Positives = 82/187 (43%), Gaps = 15/187 (8%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLLLLT+DG L + P + +VY V+ G + + + L+ G+ ++ Sbjct: 35 YAAGRLDRDSEGLLLLTDDGPLQNRISHPLHKLKKVYWVQVDGAISDEAVERLRHGVELK 94 Query: 169 GICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +V++ + +W+++ + EG+NR+++++ + Sbjct: 95 DGMTSPARVSVMEAPATLWPRNPPIRTRAQIPTSWISLEISEGRNRQVRRMTAAVGFPTL 154 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 RLIR + GP L L G+ EV + L + + A + ++ RP Sbjct: 155 RLIRYAIGPITLDGLQPGTYDEVDAQQLWNLFPTQGSGVDRPVVSAGNSHKKFDLKHRPI 214 Query: 274 IISEVPD 280 + Sbjct: 215 RKKKQQR 221 >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 = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 53/237 (22%), Positives = 104/237 (43%), Gaps = 19/237 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +L + +KP +++ + DG+ T+ + + V + GRLD ++EGLLLLTN+G L Sbjct: 1 MPEKLIILNKPFHVLSQFTADDGKDTLANYIDDE--NVYAAGRLDYDSEGLLLLTNNGSL 58 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-------- 182 ++ P + + Y V+ G++ D + L +G+ ++ + Q Sbjct: 59 QHLIASPKFKMPKTYWVQVEGEITDDAIGSLCRGVELKDGMTKPAECRKIDQPNIWDRTP 118 Query: 183 ------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +WV + + EGKNR+++++ + RLIR S GP+ + +L +G ++ Sbjct: 119 AVRYRANIPTSWVALTITEGKNRQVRRMTAAVGFPTLRLIRYSIGPYTVDSLRSGESK-- 176 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 L QL + E Q P S + + + R +++ + Sbjct: 177 -IAELTSQLREQVSEFEQKKRATPPNRSRHRSKGQSLPDGKGNTRRHRSAQSARRPR 232 >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 = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 40/179 (22%), Positives = 73/179 (40%), Gaps = 14/179 (7%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + GRLD ++EGLLLLT++G L + P + + Y V+ G++++ L L Sbjct: 35 WLTIPAIYPAGRLDYDSEGLLLLTDNGQLQHRIASPRLKMPKTYWVQVEGEINESALTKL 94 Query: 162 KKGIVIQGICYGDMQ--------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 ++G+ ++ + +WV + + EGKNR+++++ Sbjct: 95 REGVELKDGKTRPADVATMTPPEIWPRNPPVRYRESIPTSWVRITITEGKNRQVRRMTAA 154 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSET 266 + RLIR G + L L G R +S + A++ AP Sbjct: 155 VGFPTLRLIRYGIGDWTLDGLTPGEYRAISVHAPAPPPEKAARKPAKLRKHAPRRRPRP 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 = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 48/240 (20%), Positives = 96/240 (40%), Gaps = 17/240 (7%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGG 129 TRL ++KP ++ +D + + L + + + GRLD ++EGL+LLT++G Sbjct: 1 MTRLIRFNKPYDVLPQFTDSGSQGSARPTLSAYINCPGVYAAGRLDRDSEGLMLLTDNGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L + P + + Y V+ G+ D L L++G+ ++ + L Sbjct: 61 LQAWISDPQHKMAKTYWVQVEGEPDSRALAALQQGVALKDGMTRPAKAHLMEAPAQLWQR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+++ L+EGKNR+++++ + RLIR S G + L L GS Sbjct: 121 EPPIRTRKSIPTSWISLTLKEGKNRQVRRMTAAVGFPTLRLIRYSIGVWTLDGLPQGSWE 180 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 ++ + P L + + + + ++ S Sbjct: 181 DLEVPSIPGPAKPSQLPNRRAQQKRNKEGQDQEGNPSERNATARQKQRGKPRRRSRSTKP 240 >gi|323447017|gb|EGB02989.1| hypothetical protein AURANDRAFT_34656 [Aureococcus anophagefferens] Length = 273 Score = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 65/243 (26%), Positives = 108/243 (44%), Gaps = 29/243 (11%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---------LRKAERTRLWL 77 SRR + +A RV+VNG + ++ + S D + +DG L + Sbjct: 36 SRRAADAAVAAGRVRVNGETAK-PSLRLRSGDTLALDGKKRDWEALAAKLEGGGGLEYYA 94 Query: 78 YHKPIGLVTTHSDPDGRSTVFDN----LPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 YHKP G+ T D RS L + R+ GRLD+++ GL++LTNDG A Sbjct: 95 YHKPEGVACTTDANDRRSLRRAPALKKLFAGGKRIFPAGRLDVDSCGLVVLTNDGAAADA 154 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-----------QGICYGDMQVTLDTQ 182 PS++ +VY V + D + L G+ I + V Sbjct: 155 ALQPSSKLAKVYEVELDRRAADDDVAALAAGVEIATPLQRGSKAEKTGKTLPCDVARGDG 214 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +G + + L EG+NR+++++ E ++V L R+++GP LG L G+ R ++ + Sbjct: 215 RG----LVITLAEGRNRQLRRMAEALGYEVTGLRRVAFGPVSLGDLRPGTLRPLAAAEVD 270 Query: 243 EQL 245 L Sbjct: 271 ALL 273 >gi|46205033|ref|ZP_00209673.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 228 Score = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 46/199 (23%), Positives = 84/199 (42%), Gaps = 6/199 (3%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV----MSTDHIEVDGVP 66 R+ +++A G SRREVE + V+++G L AA + + + + G Sbjct: 2 TKAVRLDRLLANLGYGSRREVEGLAWAGLVRLDGETLTDAAQRIPLDPDLSARMTIQGQL 61 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPD-GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L L L+ + S + + + +VGRLD T GLLLLT Sbjct: 62 LDPLPGLCLMLHKPLGVTCSHKEAGPLVYSLLPERWRRRDPALSTVGRLDKETSGLLLLT 121 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 +DG L + P + + YRV + D+ ++L G ++ + + ++ + Sbjct: 122 DDGALLHRIISPKAKVAKRYRVTLARPLQGDETSILASGELMLDGEDKPL-LPVEMEADD 180 Query: 186 NAWVTVGLREGKNREIKKV 204 TV L EG+ +++ + Sbjct: 181 ATHCTVTLHEGRYHKVRAL 199 >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 = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 46/187 (24%), Positives = 78/187 (41%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + +ER + L ++ V + GRLD ++EGLL+L Sbjct: 58 RAISPSERKVVLFNKPYDTLSQFTDGDGRKTLADYI---SIKDVYAAGRLDRDSEGLLIL 114 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 115 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 174 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 175 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRHSMGDWNLGDLQP 234 Query: 231 GSTREVS 237 G REV+ Sbjct: 235 GEWREVT 241 >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 = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 40/196 (20%), Positives = 76/196 (38%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 25 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 81 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 82 TNNGELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPN 141 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+ G + L Sbjct: 142 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVGMGSLSINGLAN 201 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 202 GSFRLLSLDEIKALFQ 217 >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 = 94.5 bits (233), Expect = 2e-17, Method: Composition-based stats. Identities = 37/144 (25%), Positives = 64/144 (44%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P +VY + G D L ++G+ ++ Sbjct: 33 YAAGRLDRDSEGLLILTNDGKLQARLTQPQKNTNKVYYAQVEGIPDDAALVKFRQGLTLK 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTRPAGIERVNEPDWLWPRTPPIRERKNIPTSWLKITLSEGRNRQVRRMTAHIGYPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR G + L L G +E++ Sbjct: 153 RLIRYQIGEYTLNNLAPGEWKEIT 176 >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 = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 51/189 (26%), Positives = 91/189 (48%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ R+ L++KP ++ +D GR T+ + +P F+ V + GRLD ++EGLL+L Sbjct: 21 KQVKPVGPRRVLLFNKPFDVLPQFTDESGRRTLKEFIP--FNDVYAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + ++Y V+ G + D L+ L+ G+V++ Sbjct: 79 TNDGKLQAKLTQPTAKTGKIYFVQVEGVPEDDALDKLRHGVVLKDGPTLPAGAELVSEPE 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L EG+NR+++++ + RLIR S G L L Sbjct: 139 WLWPRVPPIRERKNIPTRWLQITLYEGRNRQVRRMTAHIGFPTLRLIRFSVGNLSLADLQ 198 Query: 230 AGSTREVSK 238 G +E+ Sbjct: 199 PGEWKEIRD 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 = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 55/247 (22%), Positives = 97/247 (39%), Gaps = 24/247 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 RL L +KP G++ +D GR T+ + +P + GRLD ++EGLL L++DG L Sbjct: 22 PVPRLILLNKPYGVLPQFTDDQGRPTLAELVPVKGV--YAAGRLDRDSEGLLALSDDGPL 79 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-------- 182 + P+++ + Y V+ G + L L++G+ ++ +V + Sbjct: 80 IARIAAPASKMPKTYWVQVEGVPTDEALEALRRGVTLKDGPTLPAEVRRMEEPDPLWPRD 139 Query: 183 -------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 +W+ + LREG+NR+++++ + RLIR S G + L L G RE Sbjct: 140 PPVRYRAAIPTSWIALTLREGRNRQVRRMTAAVGFPTLRLIRWSIGDWTLDGLAPGQWRE 199 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 V P Q + + + + P K Sbjct: 200 V-------PQPPATPSSRQKSSGQKSTGQKLTGQKLTGPKAPAPTGKRGPIKPRRTVAPR 252 Query: 296 SKQKKLA 302 S + Sbjct: 253 SAPSRPR 259 >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 = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 82/187 (43%), Gaps = 17/187 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 R L++KP +++ +D D + L SVGRLD+++EGLLLLT+D L Sbjct: 3 YRYILFYKPYNVLSQFTDRDSHTPSRQTLKDYIPIPSVYSVGRLDLDSEGLLLLTDDRKL 62 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---------- 180 L P R Y V+ L L++GI IQ +V L Sbjct: 63 KYRLGQPEFAHPRTYWVQVERIPTTQALEQLRRGITIQNYRTRTARVQLLLTEPLLPPRI 122 Query: 181 -----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 Q AW+ + L EG+NR+++++ + RL+R++ L +L G R+ Sbjct: 123 PPIRFRQNVPTAWLEITLTEGRNRQVRRMTAAVGFPTLRLVRVAIAHLTLNSLQPGDWRD 182 Query: 236 VSKKILR 242 + ++ Sbjct: 183 LHPHEIQ 189 >gi|170718088|ref|YP_001785122.1| pseudouridine synthase [Haemophilus somnus 2336] gi|168826217|gb|ACA31588.1| pseudouridine synthase [Haemophilus somnus 2336] Length = 227 Score = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 49/194 (25%), Positives = 88/194 (45%), Gaps = 16/194 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T++ L++KP ++ +D GR+T+ D + + VGRLD ++EGLLLLTN+G L Sbjct: 35 QTKVILFNKPFDVLCQFTDEQGRATLKDFIKIP--HIYPVGRLDRDSEGLLLLTNNGELQ 92 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------V 177 L P + + Y V+ G + L L+KGI + + Sbjct: 93 HRLTNPKFKMEKTYWVQIEGIPVETDLAQLRKGIELNDGLTKPAKVRLISEPNIWQRHPP 152 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + + EG+NR+++++ + RLIR L L G RE++ Sbjct: 153 IRERKTVPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYETAGLTLTNLANGQFRELT 212 Query: 238 KKILREQLGPHLLE 251 L++ Sbjct: 213 LTELQDLYQQVKKS 226 >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 = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 56/197 (28%), Positives = 94/197 (47%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLL Sbjct: 32 KPQLSFEDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QIYPVGRLDRDSEGLLLL 89 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------ 178 TN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 90 TNNGEIQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPN 149 Query: 179 ---------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L Sbjct: 150 YEWQTAPKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPPLRLIRIGLGQFQLGELN 209 Query: 230 AGSTREVSKKILREQLG 246 +G R + +K R+ Sbjct: 210 SGEYRVLDEKEKRQLFQ 226 >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 = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 57/197 (28%), Positives = 94/197 (47%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E T + L++KP ++T +D GR T+ D +P +V VGRLD ++EGLLLL Sbjct: 32 KPQLSFEDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QVYPVGRLDRDSEGLLLL 89 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------ 178 TN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 90 TNNGEIQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPN 149 Query: 179 ---------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L Sbjct: 150 YEWQTAPKIRERKIIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELN 209 Query: 230 AGSTREVSKKILREQLG 246 +G R + +K R+ Sbjct: 210 SGEYRVLDEKEKRQLFQ 226 >gi|301169411|emb|CBW29011.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae 10810] Length = 240 Score = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 76/196 (38%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 44 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 100 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 101 TNHGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 160 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 161 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLEN 220 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 221 GSFRLLSLDEIKALFQ 236 >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 = 94.1 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 56/197 (28%), Positives = 94/197 (47%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E T + L++KP ++T +D GR T+ D +P ++ VGRLD ++EGLLLL Sbjct: 31 KPQLSFEDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QIYPVGRLDRDSEGLLLL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------ 178 TN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 89 TNNGEIQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAISAPN 148 Query: 179 ---------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIRI G FQLG L Sbjct: 149 YEWQTAPKIRERKIIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRIGLGQFQLGELN 208 Query: 230 AGSTREVSKKILREQLG 246 +G R + +K R+ Sbjct: 209 SGEYRVLDEKEKRQLFQ 225 >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 = 93.7 bits (231), Expect = 3e-17, Method: Composition-based stats. Identities = 48/179 (26%), Positives = 84/179 (46%), Gaps = 17/179 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G L L Sbjct: 1 MILFNKPYDVLPQFTDETGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGALQARL 58 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVTL 179 P + ++Y V+ G QD L L+ G+ + Sbjct: 59 TQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIR 118 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + +W+ + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 119 ERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVTD 177 >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 = 93.7 bits (231), Expect = 3e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 76/196 (38%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 25 QTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 81 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 82 TNHGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 141 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 142 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLEN 201 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 202 GSFRLLSLDEIKALFQ 217 >gi|309751708|gb|ADO81692.1| 23S rRNA U2457 pseudouridine synthase [Haemophilus influenzae R2866] Length = 227 Score = 93.7 bits (231), Expect = 3e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 76/196 (38%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 31 QTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 88 TNHGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 40/145 (27%), Positives = 67/145 (46%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L G REV+ Sbjct: 153 RLIRYAMGDYSLDNLANGEWREVTD 177 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 91 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 147 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 148 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 207 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 208 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 267 Query: 231 GSTREVS 237 G +EV+ Sbjct: 268 GEWQEVT 274 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 79/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 91 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 147 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 148 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 207 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 208 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 267 Query: 231 GSTREVS 237 G +EV+ Sbjct: 268 GEWQEVT 274 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 56/188 (29%), Positives = 91/188 (48%), Gaps = 17/188 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++KP G++T +D +GR T+ +P VGRLD ++EGLLLLT+DG L Sbjct: 29 RYLKFYKPYGVLTQFTDREGRPTLQSFIPVPRV--YPVGRLDRDSEGLLLLTDDGRLNAR 86 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 L P R+Y V+ G L L++G++IQG QV + ++ Sbjct: 87 LIDPKFGHERIYWVQVEGIPTPQALQQLQQGLIIQGRKTRPAQVKVLAEEPTLPPRDPPI 146 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W+ + LREG+NR+++++ RL+R+ GP L L G +++S+ Sbjct: 147 RFRRSIPTTWLELTLREGRNRQVRRMTAAVGIPTLRLVRVGLGPLSLAGLAPGQWQDLSE 206 Query: 239 KILREQLG 246 L + Sbjct: 207 VELAQLRQ 214 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 83/187 (44%), Gaps = 17/187 (9%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL 130 R L++KP +++ +D D + L SVGRLD+++EGLLLLT+D L Sbjct: 3 YRYILFYKPYNVLSQFTDRDSHAQSRQTLKDYIPIPSVYSVGRLDLDSEGLLLLTDDRKL 62 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---------- 180 L P R Y V+ L L++GI IQ +V L Sbjct: 63 KYRLGQPEFAHPRTYWVQVERIPTTQALEQLRQGITIQNYRTRTARVQLLLTEPLLPPRI 122 Query: 181 -----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 Q AW+ + L EG+NR+++++ + RL+R++ L +L G R+ Sbjct: 123 PPIRFRQNVPTAWLEITLTEGRNRQVRRMTAAVGFPTLRLVRVAIAHLTLNSLEPGHWRD 182 Query: 236 VSKKILR 242 + + ++ Sbjct: 183 LHPQEIQ 189 >gi|329577701|gb|EGG59128.1| pseudouridylate synthase [Enterococcus faecalis TX1467] Length = 197 Score = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 52/197 (26%), Positives = 86/197 (43%), Gaps = 2/197 (1%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L + + VGRLD +TEGLLLLT++G L L Sbjct: 1 MLNKPKGVVSAVSDASKKTVIDLIAPQDRRPGLYPVGRLDGDTEGLLLLTDNGQLGYQLI 60 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSNAWVTVGLR 194 P+ + + Y V+ +G V + K GIV+QG ++T+ + + V + ++ Sbjct: 61 RPNKEVAKCYEVKVNGLVSAEDCAKFKDGIVLQGGIQCKPAKITVLAATETESHVFLTIQ 120 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLEEA 253 EGK ++KK+F KV L R + GP +L L G+ R ++++ L+ L +E+ Sbjct: 121 EGKFHQVKKMFLSVGKKVTALKRQTMGPLRLDPQLPLGAYRSLTREELQLLLPYFFIEKQ 180 Query: 254 QVNLDAPIYSSETLVRD 270 Q + P R Sbjct: 181 QTSKALPSNLKREEERK 197 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L+L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >gi|205373779|ref|ZP_03226581.1| ribosomal large subunit pseudouridine synthase B [Bacillus coahuilensis m4-4] Length = 125 Score = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 29/95 (30%), Positives = 47/95 (49%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +R+ KVIA +GIASRR+ E +I + +VKVNG++++ V D +EV+GV + + E+ Sbjct: 2 ERLQKVIAHSGIASRRKSEELIVEGKVKVNGVIVKELGTKVGPNDTVEVEGVKVEREEKV 61 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 LY + D D + Sbjct: 62 YFLLYKPRGVISAVRDDKDRKVVTDFFPHIQERIY 96 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 90/187 (48%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++L Sbjct: 49 KPRIAPEDRKVIIFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMVL 106 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G ++ L L+KG+ ++ +V + + Sbjct: 107 TNDGILQAKLTQPQSKSPKTYWVQVDGAPTEEDLEKLRKGVELKDGMTLPAKVEVMPEPE 166 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RL+R S G L L Sbjct: 167 IWDRTPPVRFRANIPTTWLAITITEGRNRQVRRMTAHIGFPTLRLVRYSMGGIVLDDLKP 226 Query: 231 GSTREVS 237 G RE+ Sbjct: 227 GEWREIK 233 >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 = 93.7 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 37/142 (26%), Positives = 66/142 (46%), Gaps = 14/142 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLLLLTNDG L + P + + Y V+ G+ ++L L++G+ + Sbjct: 67 YPAGRLDRDSEGLLLLTNDGQLQARIADPKHKLAKTYWVQVEGEPSAEQLQRLREGVQLN 126 Query: 169 GICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + + +W+ + +REG+NR+++++ R Sbjct: 127 DGMTLPAEARQLEEPTLWPRNPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLR 186 Query: 215 LIRISYGPFQLGTLLAGSTREV 236 L+R+ G + L L G +EV Sbjct: 187 LVRVRIGDWTLDGLEQGQWKEV 208 >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 = 93.3 bits (230), Expect = 4e-17, Method: Composition-based stats. Identities = 38/145 (26%), Positives = 67/145 (46%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTN+G L L P + ++Y V+ G QD + L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGFPTQDAIEALRNGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L G RE ++ Sbjct: 153 RLIRYAMGDYTLDNLANGEWREATE 177 >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 = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 87/184 (47%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 26 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 84 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVTEPEWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 144 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYTLDNLANGEWR 203 Query: 235 EVSK 238 E ++ Sbjct: 204 EATE 207 >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 = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 80/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 60 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G++++ +V + + Sbjct: 117 TNDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVILKDGPTLPAKVDIMPEPT 176 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 177 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 236 Query: 231 GSTREVS 237 G +EV+ Sbjct: 237 GEWQEVT 243 >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 = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 41/143 (28%), Positives = 69/143 (48%), Gaps = 14/143 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P ++ + Y V+ G + L L+ G+ ++ Sbjct: 11 YAAGRLDRDSEGLLILTNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLK 70 Query: 169 GICYGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 +V + + W+ + L EG+NR+++++ + R Sbjct: 71 DGPTLPAKVEIMPEPTLWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLR 130 Query: 215 LIRISYGPFQLGTLLAGSTREVS 237 LIR S G + LG L G +EV+ Sbjct: 131 LIRYSMGDWNLGDLQPGEWQEVT 153 >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 = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 53/185 (28%), Positives = 93/185 (50%), 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 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + +VY V+ G D+ L+ L+ GI+++ Sbjct: 84 GKLQAQLTQPHKKTAKVYYVQVEGVPDEISLDKLRNGIILKDGPTLPAGVELVHEPTWLW 143 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR S G LG + G Sbjct: 144 SRHPPIRERKNIPVSWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFSMGNLPLGKMKPGE 203 Query: 233 TREVS 237 +E++ Sbjct: 204 WKEIN 208 >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 = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 48/175 (27%), Positives = 82/175 (46%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L+ G+V+ QV + Sbjct: 62 TDPRHKQPKTYWVQVEGAPQPEQLQALRDGVVLNDGPTRPAQVRMLDQAPQLWPRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 176 >gi|145580106|pdb|2OML|A Chain A, Crystal Structure Of E. Coli Pseudouridine Synthase Rlue Length = 189 Score = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 3 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 60 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 61 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 120 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 121 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 180 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 181 NGEWREVTD 189 >gi|331004981|ref|ZP_08328391.1| pseudouridine synthase [gamma proteobacterium IMCC1989] gi|330421223|gb|EGG95479.1| pseudouridine synthase [gamma proteobacterium IMCC1989] Length = 237 Score = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 43/213 (20%), Positives = 79/213 (37%), Gaps = 36/213 (16%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 V GRLD ++EGLLLLT+DG L + + P + + Y V+ G+ + + + L Sbjct: 47 YIKQKHVYPAGRLDYDSEGLLLLTDDGALQQHISHPQYKLPKTYWVQVEGEQNLEAIIAL 106 Query: 162 KKGIVIQGICYGDM--------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 +KG+ ++ Q W+++ + EGKNR+++++ Sbjct: 107 RKGVELKDGLTKPALVEAIEEPDLWPRNPPVRFRQSIPTHWLSITISEGKNRQVRRMTAA 166 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 RL+R S G + L L G R + A Sbjct: 167 VGLPTLRLVRASIGDWTLEGLQPGEHRSI----------------------AVPSPPNQP 204 Query: 268 VRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ + + N++ K+ K K+ Sbjct: 205 IKTKNKAGKPKAHRTRKSANNTNAKDKKGKHKR 237 >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 = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L+L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PTAEPKLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 93.3 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 43/228 (18%), Positives = 83/228 (36%), Gaps = 4/228 (1%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + + DG + + RV +GRLD +++GL+ LTN G L + Sbjct: 14 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 73 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V + ++ + G+ I G +K + + L Sbjct: 74 LRAGNDHEKEYLVTVDKPITEEFIRGXSAGVPILGTV----TKKCKVKKEAPFVFRITLV 129 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 +G NR+I++ E F ++V +L R L + G R+++ L + ++ Sbjct: 130 QGLNRQIRRXCEHFGYEVKKLERTRIXNVSLSGIPLGEWRDLTDDELIDLFKLIENSSSE 189 Query: 255 VNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 V A ++ + + R N + ++KK Sbjct: 190 VKPKAKAKPKTAGIKRPVVKXEKTAEKGGRPASNGKRFTSPGRKKKGR 237 >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 = 93.3 bits (230), Expect = 6e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTPEQLQQLRNGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 93.3 bits (230), Expect = 6e-17, Method: Composition-based stats. Identities = 35/143 (24%), Positives = 62/143 (43%), Gaps = 15/143 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGL+LLT++G L + P + + Y V+ G D + L+ G+ + Sbjct: 44 YPAGRLDRDSEGLMLLTDNGRLQSHISDPKHKMPKTYWVQVEGIPDAAAIRALRDGVELN 103 Query: 169 GICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + W+ + LREG+NR+++++ Sbjct: 104 DGMTRPAKARLIDEPEGLWPRTPPIRERKTVPDCWLELTLREGRNRQVRRMTAAVGHPTL 163 Query: 214 RLIRISYGPFQLGTLLAGSTREV 236 RLIR G + L L GS + Sbjct: 164 RLIRARIGDWTLDDLAPGSWDSL 186 >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 = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 31 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 88 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKPAKVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >gi|284920961|emb|CBG34024.1| ribosomal large subunit pseudouridine synthase E (rRNA pseudouridylate synthase E) [Escherichia coli 042] Length = 217 Score = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 KRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >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 = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 43/175 (24%), Positives = 81/175 (46%), Gaps = 17/175 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLAR 132 L L++KP ++ +D L ++ + GRLD ++EGLLLLTNDG L + Sbjct: 4 LLLFNKPFNVLCQFTDEPEFKDQRQTLADFINQPGFYAAGRLDRDSEGLLLLTNDGKLQQ 63 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------V 177 + P + + Y V+ G ++++ + L++G+ ++ + Sbjct: 64 HIANPKHKQPKTYLVQVEGDINKEAIKQLQQGVTLKDGLTRPAKARKIPEPKWLWPRNPP 123 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +WV + + EGKNR+++++ + RLIR G +QL L G Sbjct: 124 IRERKNIPTSWVELIITEGKNRQVRRMTAAVGFPTLRLIRTQIGDYQLKNLQPGE 178 >gi|330963493|gb|EGH63753.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. actinidiae str. M302091] Length = 210 Score = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTPEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDCDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 116 GVLQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 235 Query: 233 TREVSKK 239 RE++++ Sbjct: 236 WREIAQE 242 >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 = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 54/185 (29%), Positives = 93/185 (50%), Gaps = 17/185 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + A R+ L++KP ++ +D GR+T+ +P F+ V + GRLD ++EGLL+LTND Sbjct: 24 KPASPRRVLLFNKPFDVLPQFTDESGRTTLKGFIP--FTDVYAAGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P+ + +VY V+ G D L+ L++G+V++ Sbjct: 82 GKLQAKLTQPAQKTGKVYFVQVEGTPGDDALSQLRQGMVLKDGPTLPAGAELVDEPEWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + W+ + L EG+NR+++++ + RLIR S G LG L G Sbjct: 142 PRNPPIRERKTIPTCWMKITLFEGRNRQVRRMTAHIGFPTLRLIRFSMGNLSLGDLKPGE 201 Query: 233 TREVS 237 +E++ Sbjct: 202 WKEIN 206 >gi|52426397|ref|YP_089534.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] gi|52308449|gb|AAU38949.1| RsuA protein [Mannheimia succiniciproducens MBEL55E] Length = 247 Score = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 41/193 (21%), Positives = 75/193 (38%), Gaps = 18/193 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L +E + D V + GRLD ++EGLL+L Sbjct: 47 KQLAFSETQVILFNKP---FDVLTQFTDENGRATLKDFIHIPDVYAAGRLDRDSEGLLIL 103 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G + L P + + Y V+ G+ + L L++G+ ++ + Sbjct: 104 TNNGEIQHRLADPKFKMEKTYFVQVEGEPTETDLAKLRQGVELKDGMTRPAKVRLIAQPD 163 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIR + F L L Sbjct: 164 FIWQRTPPIRERKSIPTSWLEIKISEGKNRQVRRMTANIGFPTLRLIRYAVSSFTLDNLA 223 Query: 230 AGSTREVSKKILR 242 GS R ++ L Sbjct: 224 NGSYRLLTDNELE 236 >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 = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTPEQLQQLRNGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 48/183 (26%), Positives = 82/183 (44%), Gaps = 15/183 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + +V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSTPPKRTLAEFGLPPQVYAAGRLDHDSEGLLLLTDDGPLAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVTL 179 P + + Y V+ G D +L L G+++ Sbjct: 62 TDPRHKQPKTYWVQVEGDPDTSQLQALCDGVLLNDGPTRPANVRRLECAPTLWPRDPPVR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +AW+ V + EG+NR+++++ RL+R++ G + L +L G R + Sbjct: 122 VRKTVPDAWLEVQITEGRNRQVRRMTASVGLPTLRLVRVAIGAWSLASLQPGQWRVDDAR 181 Query: 240 ILR 242 +R Sbjct: 182 AVR 184 >gi|327483844|gb|AEA78251.1| Ribosomal large subunit pseudouridine synthase E LSU Psi2457 [Vibrio cholerae LMA3894-4] Length = 241 Score = 92.9 bits (229), Expect = 6e-17, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 80/187 (42%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G++++ +V + + Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGSPQESDLEALRHGVILKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G +EV+ Sbjct: 234 GEWQEVT 240 >gi|330873550|gb|EGH07699.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. morsprunorum str. M302280PT] Length = 210 Score = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTPEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 49/194 (25%), Positives = 88/194 (45%), Gaps = 16/194 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T++ L++KP ++ +D GR+T+ D + + VGRLD ++EGLLLLTN+G L Sbjct: 23 QTKVILFNKPFDVLCQFTDEQGRATLKDFIKIP--HIYPVGRLDRDSEGLLLLTNNGELQ 80 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------V 177 L P + + Y V+ G + L L+KGI + + Sbjct: 81 HRLTNPKFKMEKTYWVQIEGIPVETDLAQLRKGIELNDGLTKPAKVRLISEPNIWQRHPP 140 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + +W+ + + EG+NR+++++ + RLIR L L+ G RE++ Sbjct: 141 IRERKTVPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLIRYETAGLTLTNLVNGQFRELT 200 Query: 238 KKILREQLGPHLLE 251 L+ Sbjct: 201 LTELQNLYQQVKKS 214 >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 = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 40/168 (23%), Positives = 70/168 (41%), Gaps = 14/168 (8%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLLLLT+DG L + P + + Y V+ G + ++L L+ G++IQ Sbjct: 36 YPAGRLDKDSEGLLLLTDDGQLQNQIASPKHKMEKTYWVQVEGVPEDNELEPLRLGVIIQ 95 Query: 169 GICYGDMQ--------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + + + +W+ + + EGKNR+++++ + R Sbjct: 96 NYKTKPAKVRLLETPEVWPRNPPIRERKNIPTSWLEITISEGKNRQVRRMTAAVGFPTLR 155 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIY 262 LIR G +QL L G + + + GP Sbjct: 156 LIRAQIGQWQLDDLKVGEYKVIEVSTPKAMAGPRNKSTQSKRFSQRHK 203 >gi|255654430|ref|ZP_05399839.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-23m63] Length = 103 Score = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 22/99 (22%), Positives = 47/99 (47%), Gaps = 3/99 (3%) Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + G V ++ + +G+V+ Q+ + + + + + + EGK ++K++ Sbjct: 1 MTKIDGVVTEEDVEAFLEGVVLDDGYKTMPSQLNIL-KSDDESEIELTIHEGKFHQVKRM 59 Query: 205 FEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 FE KV L R+S G +L L G RE++ + ++ Sbjct: 60 FESVGKKVVYLKRLSMGNLKLDESLELGEYRELTDEEIK 98 >gi|319794805|ref|YP_004156445.1| pseudouridine synthase [Variovorax paradoxus EPS] gi|315597268|gb|ADU38334.1| pseudouridine synthase [Variovorax paradoxus EPS] Length = 182 Score = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 46/177 (25%), Positives = 80/177 (45%), Gaps = 17/177 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL ++KP G+++ + + D + V GRLD ++EGLLLLTNDG L Sbjct: 8 RLIRFNKPYGVLSQFTPEGRWRGLKDFIDIP--DVYVAGRLDADSEGLLLLTNDGQLQAR 65 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VT 178 + P + + Y V+ G ++ L L++G+ + + Sbjct: 66 IADPRFKMEKTYWVQVEGVPTEEALAALRQGVQLNDGLTRPARASLLDPPPDVWPRQPPI 125 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + AW+ + + EG+NR+++++ RLIR + GP L L G+ RE Sbjct: 126 RERKSIPTAWLELAISEGRNRQVRRMTAAVGLPTLRLIRAAIGPHTLDGLAPGTWRE 182 >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 = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 35/143 (24%), Positives = 62/143 (43%), Gaps = 15/143 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGL++LT+ G L + P + + Y V+ G+ D L L+ G+ ++ Sbjct: 40 YPAGRLDRDSEGLMVLTDHGRLQAQISDPRHKMAKTYWVQVEGRPDAAALKALQDGVELK 99 Query: 169 GICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + Q ++W+ + LREG+NR+++++ Sbjct: 100 DGLTRPAKALMINEPKGLWPRNPPIRVRQTIPDSWIELTLREGRNRQVRRMTAAVGHPTL 159 Query: 214 RLIRISYGPFQLGTLLAGSTREV 236 RLIR G + L L G + Sbjct: 160 RLIRARIGDWSLDGLAPGQWESL 182 >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 = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 43/184 (23%), Positives = 82/184 (44%), Gaps = 16/184 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 E+ + L++KP ++ +D + R T+ D + + GRLD ++EGLLLL Sbjct: 17 KVRPLDEKQIVVLFNKPFDVLCQFTDENNRRTLKDFITIPGI--YAAGRLDRDSEGLLLL 74 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L + P + + Y V+ G + L L++G+ ++ +V + + Sbjct: 75 TNDGKLQHQIANPVKKTEKTYWVQIEGAPSEQDLAKLRQGVELKDGMTKPAKVAIMLEPN 134 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RLIR G + L + Sbjct: 135 VWPRNPPIRERASIPTTWLEITITEGRNRQVRRMTANIGFPTLRLIRYRIGNWTLDNINN 194 Query: 231 GSTR 234 G + Sbjct: 195 GEYK 198 >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 = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 42/192 (21%), Positives = 77/192 (40%), Gaps = 17/192 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 31 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ Q Sbjct: 88 TNNGELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKQAQVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSIDGLAN 207 Query: 231 GSTREVSKKILR 242 GS R +S ++ Sbjct: 208 GSFRLLSLDEIK 219 >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 = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 40/178 (22%), Positives = 67/178 (37%), Gaps = 14/178 (7%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L L L + V GRLD ++EGLL+LT+DG L Sbjct: 1 MSRILLLNKPYGVLSQFTDARSPSPRPTLSGFVTVPGVYPAGRLDRDSEGLLVLTDDGAL 60 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---------- 180 + P + + Y V+ G L LL+ G+ + QV Sbjct: 61 QARIADPRHKLPKTYLVQVEGAPTDADLALLRHGVTLNDGPTRPAQVQRIAPPALWERDP 120 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ + + EG+NR+++++ + RL+R G + L L G+ R Sbjct: 121 PVRFRKSVPDQWIEITIHEGRNRQVRRMTAHIGFPTLRLVRWQIGDWTLDGLAPGAWR 178 >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 = 92.9 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 43/196 (21%), Positives = 78/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E T + D + V + GRLD ++EGLL+L Sbjct: 31 KTLSLDETTVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ Q Sbjct: 88 TNNGELQHRLSDPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKQAQVRLISEPN 147 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 148 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLEN 207 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 208 GSFRLLSLDEIKALFQ 223 >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 = 92.5 bits (228), Expect = 8e-17, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLSPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >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 = 92.5 bits (228), Expect = 8e-17, Method: Composition-based stats. Identities = 39/145 (26%), Positives = 67/145 (46%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L G RE ++ Sbjct: 153 RLIRYAMGDYTLDNLANGEWREATE 177 >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 = 92.5 bits (228), Expect = 8e-17, Method: Composition-based stats. Identities = 46/220 (20%), Positives = 86/220 (39%), Gaps = 17/220 (7%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL ++KP ++ +D S+ L V GRLD ++EGL+LLT+ G Sbjct: 1 MTRLIRFNKPYDVLPQFTDRGSDSSPRATLSDWIDLPGVYPAGRLDRDSEGLMLLTDHGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L + P + + Y V+ G D + L G+ ++ + L Sbjct: 61 LQAWISDPQHKMPKTYWVQVEGTPDAAAIQALANGVELKDGMTRPAKAALIEEPEGIWAR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++W+ + +REG+NR+++++ RLIR + G + L L G+ Sbjct: 121 NPPIRVRKSVPDSWIALTIREGRNRQVRRMTAAVGHPTLRLIRAAIGIWTLDGLSPGTWE 180 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI 274 ++ + P Q +S+ + Sbjct: 181 DLEAPTIPGPPKPKPAPNRQAIARRKAAASKPARPESDAG 220 >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 = 92.5 bits (228), Expect = 8e-17, Method: Composition-based stats. Identities = 52/180 (28%), Positives = 87/180 (48%), Gaps = 16/180 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDGGL Sbjct: 1 RLILFNKPFDVLTQFSDGEGRATLKDFIDIPGV--YPAGRLDRDSEGLLLLTNDGGLQAR 58 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 59 IADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVELNDGPTLPAEARRLAEPALWPRNPPVR 118 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + +W+ + +REG+NR+++++ RL+R+ G + L L G REV K Sbjct: 119 FRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQGCWREVPAK 178 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 49/211 (23%), Positives = 100/211 (47%), Gaps = 19/211 (9%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+++ +A SRRE E+++ + RVK+N + A V D + +D ++ + Sbjct: 1 MRINQFLAHYTKHSRREAEKLVLEGRVKINHEHAK-LASVVKENDKVFLDKRLIKPLKNK 59 Query: 74 R--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +YHKP G + + +DP R ++++L ++ VGRLD +EG+L+L++ + Sbjct: 60 KFSVLVYHKPKGELVSKADPLKRRVIYESLEKKYAHFAPVGRLDFASEGVLILSDSKAVV 119 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--------------ICYGDMQV 177 L + Y V+ G V ++ N +++G+ ++ + Sbjct: 120 SALMHA--NLEKEYLVKIQGFVTREMENAMQEGLKLENATKGAHQKTPIKSMEFAPFIGY 177 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + V + EGKNRE+++ F F Sbjct: 178 EIIKNHAKYSKLRVVINEGKNRELRRFFVVF 208 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 44/188 (23%), Positives = 84/188 (44%), Gaps = 16/188 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P ++ ++ L++KP ++ +D R T+ + +P V + GRLD ++EGLLLL Sbjct: 39 KPQIASKDRKIVLFNKPFDVLCQFTDDADRKTLAEFIPIK--EVYAAGRLDRDSEGLLLL 96 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TN G L L P + + Y + G+ + +N L G+ ++ V + Sbjct: 97 TNCGKLQNSLTAPDKKTNKTYWAQVEGEPTSESINDLCNGVELKDGLTLPANVKIIDEPT 156 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + W+++ + EG+NR+++++ RLIR S G + L + Sbjct: 157 IWARNPPVRERKAIPTTWLSITINEGRNRQVRRMTAHIGHPTLRLIRYSIGNYTLDDINC 216 Query: 231 GSTREVSK 238 G + + Sbjct: 217 GEYKVIKG 224 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 46/181 (25%), Positives = 74/181 (40%), Gaps = 15/181 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L HKP G+++ + G + V +GRLD ++EGLLLL+++ GL L Sbjct: 2 LCALHKPYGVLSQFTPEPGSRWRTLAEFGLPPAVYPLGRLDADSEGLLLLSDEPGLNTRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVTL 179 P R Y V+ L L++G+ I Sbjct: 62 LNPDQAHRREYWVQVERVPTDAALAQLQRGVKIGDYATRPCAARRLDPAPTLPPRDPPIR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + W+ + L EGKNR+++++ RL+R+ G F LG L G RE++ Sbjct: 122 ARKNVPDCWLALELIEGKNRQVRRMTAAIGHPTLRLVRVRIGDFALGKLAVGQWRELTAD 181 Query: 240 I 240 Sbjct: 182 E 182 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 44/150 (29%), Positives = 74/150 (49%), Gaps = 15/150 (10%) Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 F+ V + GRLD ++EGLL+LTNDG L L P + +VY V+ G+ D++ L L++ Sbjct: 58 PFNDVYAAGRLDRDSEGLLVLTNDGKLQARLTQPGQKTAKVYYVQVEGEPDEEALRHLRQ 117 Query: 164 GIVIQGICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 G++++ + + W+ + L EG+NR+++++ Sbjct: 118 GVILKDGPTLPADAEKVEQPEWLWPRNPPIRERKSIPTHWLKMTLYEGRNRQVRRMTAHI 177 Query: 209 NWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + RLIR S G LG L G +E+S Sbjct: 178 GFPTLRLIRFSMGNLTLGNLQPGEWKEISD 207 >gi|330987630|gb|EGH85733.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. lachrymans str. M301315] Length = 210 Score = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 88/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L+L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L +L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDSLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKHENQPTRVILFNKPYDVLPQFTDETGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >gi|330960137|gb|EGH60397.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. maculicola str. ES4326] Length = 210 Score = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 48/182 (26%), Positives = 85/182 (46%), Gaps = 16/182 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEGGRATLKDFIDIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ +++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPSEEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EV 236 EV Sbjct: 205 EV 206 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 53/190 (27%), Positives = 89/190 (46%), Gaps = 17/190 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+L Sbjct: 55 KPRKENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVL 112 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + ++Y V+ G D + L L+ G+ + Sbjct: 113 TNDGALQARLTQPDKRTGKIYYVQVEGIPDHEALQALRAGVTLNDGPTLPAGIEIVAEPD 172 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ V L EG+NR+I+++ RLIR S G + L L Sbjct: 173 WLWPRTPPIRERKNIPTTWLKVTLYEGRNRQIRRMTAHVGHPTLRLIRYSMGDYMLNGLN 232 Query: 230 AGSTREVSKK 239 G RE++++ Sbjct: 233 NGQWREIAQE 242 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 38/110 (34%), Positives = 58/110 (52%), Gaps = 2/110 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL--RKAE 71 +R+ KVI+ G SRR E++I + RVKVN ++ V + I++D + Sbjct: 4 ERLQKVISSRGYCSRRAAEKLILENRVKVNDQIINTLGVKIDPKAEIKIDNRLVLSDSNN 63 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + +L++KP ++TT DP R TV D + RV VGRLD + GL Sbjct: 64 QKYYYLFYKPRLVLTTMYDPKKRKTVNDYFKDLNHRVYPVGRLDYDVSGL 113 >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 = 92.5 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 48/192 (25%), Positives = 83/192 (43%), Gaps = 15/192 (7%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + L L +KP G+++ SD + +V + GRLD ++EGLLLLT Sbjct: 29 AICLDGLLMLVLLNKPYGVLSQFSDRSTPPKRTLAEFGLPPQVYAAGRLDHDSEGLLLLT 88 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------- 175 +DG LA L P + + Y V+ G D +L L G+++ Sbjct: 89 DDGPLAHRLTDPRHKQPKTYWVQVEGDPDTSQLQALCDGVLLNDGPTRPANVRRLECAPT 148 Query: 176 -----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + +AW+ V + EG+NR+++++ RL+R++ G + L +L Sbjct: 149 LWPRDPPVRVRKTVPDAWLEVQITEGRNRQVRRMTASVGLPTLRLVRVAIGAWSLASLQP 208 Query: 231 GSTREVSKKILR 242 G R + +R Sbjct: 209 GQWRVDDARAVR 220 >gi|192361547|ref|YP_001983032.1| pseudouridylate synthase [Cellvibrio japonicus Ueda107] gi|190687712|gb|ACE85390.1| pseudouridylate synthase [Cellvibrio japonicus Ueda107] Length = 258 Score = 92.5 bits (228), Expect = 1e-16, Method: Composition-based stats. Identities = 48/246 (19%), Positives = 93/246 (37%), Gaps = 25/246 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP G+++ + + R T+ + V GRLD ++EGLLLLT+DG L ++ Sbjct: 9 LILFNKPYGVLSQFTAKEERPTLAQYIRIP--NVYPAGRLDHDSEGLLLLTDDGDLQHLI 66 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------VTLD 180 P+ + + Y V+ G + L L++G+ + + + Sbjct: 67 SHPAHKQPKTYWVQVEGAPNSYALTKLRQGVELNDGMTQPAEVRLIPAPKLWERKPPIRE 126 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 W+ + + EG+NR+++++ RL+R+ GP+ L + G R Sbjct: 127 RANIPTQWLEIVITEGRNRQVRRMTAAVGHPTLRLVRVKIGPWTLEGIEPGKYR------ 180 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 H + P S + + + P + + + Sbjct: 181 ---TETVHAPKMGNTTNRRPSGSRPSGAKTGVPHKTPHPKATQERAHAGPRGKPAAPKST 237 Query: 301 LATPVH 306 A P Sbjct: 238 AAKPAK 243 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 47/232 (20%), Positives = 90/232 (38%), Gaps = 17/232 (7%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL ++KP ++ +D S+ L V GRLD ++EGL+LLT+ G Sbjct: 1 MTRLIRFNKPYDVLPQFTDRGSDSSPRATLSDWIDLPGVYPAGRLDRDSEGLMLLTDHGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L + P + + Y V+ G D + L G+ ++ + L Sbjct: 61 LQAWISDPQHKMPKTYWVQVEGTPDAAAIQALANGVELKDGMTRPAKAALIEEPEGIWAR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++W+ + +REG+NR+++++ RLIR + G + L L G+ Sbjct: 121 NPPIRVRKSVPDSWIALTIREGRNRQVRRMTAAVGHPTLRLIRAAIGIWTLDGLSPGTWE 180 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 ++ + P Q +S++ + + R + Sbjct: 181 DLEAPTIPGPPKPKPAPNRQAIARRKAAASKSARPEPDAGLKLRKPRKPRKR 232 >gi|89092944|ref|ZP_01165896.1| RsuA protein [Oceanospirillum sp. MED92] gi|89082969|gb|EAR62189.1| RsuA protein [Oceanospirillum sp. MED92] Length = 223 Score = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 39/210 (18%), Positives = 82/210 (39%), Gaps = 29/210 (13%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + GRLD ++EGLL+LTNDG L P + + Y + G+V ++ L L Sbjct: 29 YIELPDYYAAGRLDYDSEGLLILTNDGPTQHYLANPQFKMEKTYWAQVEGEVTEEALETL 88 Query: 162 KKGIVIQGICYGDMQ--------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G+ ++ + + + +W+ + + EGKNR+++++ Sbjct: 89 SSGVELKDGMTRPAKAKKINEPAIWQRTPPIRERKNIPTSWIELKITEGKNRQVRRMTAA 148 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 + RL+R + G + L L G L E+ + + + + Sbjct: 149 VGFPTLRLVRYAIGEWTLDNLKPGQ---------------SSLIESDIKIPKRKPKNRST 193 Query: 268 VRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + + +R K+++ + G ++ Sbjct: 194 TARSLSGKRKERPGESRQKRSAPKNKGYNR 223 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 89/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D + L L+ G+ + Sbjct: 116 GALQARLTQPGKRTGKIYYVQVEGIPDNEALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 235 Query: 233 TREVSKK 239 RE++++ Sbjct: 236 WREIAQE 242 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 50/194 (25%), Positives = 82/194 (42%), Gaps = 25/194 (12%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L++KP ++ +D G T L V SVGRLD+++EGLLLLT++G Sbjct: 1 MYKYILFYKPYNVLCQFTDNSGDKTNRQTLKDFIDIPHVYSVGRLDLDSEGLLLLTDNGP 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------- 181 L L R Y V+ D+ LN L++G+ I+ V Sbjct: 61 LQHRLGHRQFAHPRTYWVQVENIPDEAALNRLREGVKIEDYWTRKASVIKLPTEPVLPPR 120 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--------PFQLG 226 + W+ + L EG+NR+++++ + RL+R++ G L Sbjct: 121 NPPIRYRKSIPTCWLEITLTEGRNRQVRRMTAAVGYPTLRLVRVAMGIGKGKNEFQLGLE 180 Query: 227 TLLAGSTREVSKKI 240 L G REV++ Sbjct: 181 GLEPGQWREVTEIE 194 >gi|302185134|ref|ZP_07261807.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae 642] Length = 210 Score = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 78/187 (41%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 PL AER + L ++ V + GRLD ++EGLL+L Sbjct: 57 RPLSPAERKVILFNKPYDTLSQFTDGDGRKTLADYI---PIKDVYAAGRLDRDSEGLLIL 113 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+ G+ ++ +V + + Sbjct: 114 TNDGILQARLTQPQSKAPKTYWVQVEGAPQESDLEALRHGVTLKDGPTLPAKVDIMPEPT 173 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + L EG+NR+++++ + RLIR S G + LG L Sbjct: 174 LWPRNPPVRFRAAIPTTWLAITLMEGRNRQVRRMTAHIGFPTLRLIRYSMGDWNLGDLQP 233 Query: 231 GSTREVS 237 G EV+ Sbjct: 234 GEWSEVT 240 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKHENQPTRVILFNKPYDVLPQFTDETGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 198 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 199 NGEWREVTD 207 >gi|271500470|ref|YP_003333495.1| pseudouridine synthase [Dickeya dadantii Ech586] gi|270344025|gb|ACZ76790.1| pseudouridine synthase [Dickeya dadantii Ech586] Length = 218 Score = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 51/182 (28%), Positives = 85/182 (46%), Gaps = 17/182 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + R+ L +KP +++ +D GR T+ D +P F + + GRLD ++EGLL+LTNDG L Sbjct: 37 TQRRIVLLNKPFDVLSQFTDEGGRPTLKDYVP--FRDIYAAGRLDRDSEGLLILTNDGKL 94 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------------- 175 L P Q ++Y + G D+D L + G+V+ Sbjct: 95 QARLTQPGKQTPKIYYAQVEGIPDEDALRAFRTGLVLNDGPTLPAGAECVDEPVWLWPRQ 154 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + +W+ + L EG+NR+++++ + RLIR S L LL G +E Sbjct: 155 PPIRQRKNIPVSWLKITLYEGRNRQVRRMTAHIGYPTLRLIRYSMANLTLDGLLPGDWKE 214 Query: 236 VS 237 + Sbjct: 215 ID 216 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 39/142 (27%), Positives = 70/142 (49%), Gaps = 14/142 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P ++ + Y V+ G + L+ L+KG+ ++ Sbjct: 31 YAAGRLDRDSEGLMVLTNDGILQAKLTQPKSKSPKTYWVQVDGAPSESDLDKLRKGVELK 90 Query: 169 GICYGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 +V + + W+ + + EG+NR+++++ + R Sbjct: 91 DGMTLPAKVEVMAEPNVWERTPPVRFRANIPTTWLAITIIEGRNRQVRRMTANIGFPTLR 150 Query: 215 LIRISYGPFQLGTLLAGSTREV 236 LIR S G +LG L G +E+ Sbjct: 151 LIRYSMGDIKLGELQPGEWKEI 172 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 47/177 (26%), Positives = 80/177 (45%), Gaps = 15/177 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP ++ +D + + V GRLD ++EGLLLLT+DG LA L Sbjct: 2 LIAFNKPFNVLCQFTDRNASPRRTLAGFGLPGGVYVAGRLDYDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L G+ + QV+ Sbjct: 62 TDPRHKQPKTYWVQVEGVPQPEQLQRLGDGVALNDGPTAPAQVSRLDAAPALWPRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +AW+ + LREG+NR+++++ RL+R++ G +L L GS R + Sbjct: 122 FRKTVPDAWLQIVLREGRNRQVRRMTAAVGLPTLRLVRVAMGTHRLDGLAPGSWRAL 178 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 39/145 (26%), Positives = 67/145 (46%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L G RE ++ Sbjct: 153 RLIRYAMGDYSLDNLANGEWREATE 177 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >gi|323209958|gb|EFZ94867.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] Length = 150 Score = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 55/148 (37%), Positives = 71/148 (47%), Gaps = 6/148 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVD 154 DG LA L PS + R Y VR GQVD Sbjct: 122 DGELANRLMHPSREVEREYAVRVFGQVD 149 >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 = 92.2 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + T + L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTHVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 38/177 (21%), Positives = 70/177 (39%), Gaps = 14/177 (7%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T + L + + V + GRLD ++EGLL+LT+DG L Sbjct: 1 MTTILFNKPFGVLTQFTDAKCPTERPTLSGFDLPKGVYAAGRLDRDSEGLLVLTDDGKLQ 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 L P + + Y V+ G L+ ++ + ++ +V L Sbjct: 61 AQLSSPKFKTPKTYLVQVEGDTTDADLDPMRASLSLKDGPTLPARVHLIDPPDLWLRDPP 120 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ V + EG+NR+++++ + RL+R S G + L + G R Sbjct: 121 VRVRKSIPDTWIKVTITEGRNRQVRRMCAALGFPCLRLVRWSVGSWTLDGISQGQWR 177 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 41/178 (23%), Positives = 71/178 (39%), Gaps = 14/178 (7%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T + L + G V GRLD+++EGLLLLT+DG L Sbjct: 1 MTLILFNKPYGVLCQFTDESTGPPRPTLAAFIKRPGVYPAGRLDLDSEGLLLLTDDGRLQ 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 + P + + Y + G D+ L L++G+ ++ QV Sbjct: 61 AQIADPRFKTPKTYLAQVEGDPDEAALEALRRGVKLKDGPTLPAQVERIDDPALWPRDPP 120 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + W+ + +REG+NR+++++ RL+R G + L + G RE Sbjct: 121 VRFRKSVPDCWLRLTIREGRNRQVRRMTAAVGHPTLRLVRWRIGDWTLDGIAQGQWRE 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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 89/187 (47%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P A RT++ L++KP ++T +D GR T+ D +P + + GRLD ++EGLL+L Sbjct: 8 KPKTPASRTKIVLFNKPFNVLTQFTDATGRQTLKDFIPIP--DIYASGRLDKDSEGLLVL 65 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TNDG L L P + + Y V+ G + +L L+ G+ ++ + Sbjct: 66 TNDGKLQSKLTDPKKKTSKTYWVQVEGIPQERQLQALRDGVELKDGLTRPAKVESMPEPA 125 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 Q +W+++ + EGKNR+++++ + RL+R G + L + Sbjct: 126 LWPRTPPVRFRQSIPTSWLSITISEGKNRQVRRMTAHIGFPTLRLVRYRIGNWTLDGIDT 185 Query: 231 GSTREVS 237 G E+ Sbjct: 186 GQYVELD 192 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 89/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D + L L+ G+ + Sbjct: 116 GALQARLTQPGKRTGKIYYVQVEGIPDNEALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLSGLDNGQ 235 Query: 233 TREVSKK 239 RE++++ Sbjct: 236 WREIAQE 242 >gi|262365461|gb|ACY62018.1| putative RNA pseudouridylate synthase-family protein [Yersinia pestis D182038] Length = 194 Score = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 51/201 (25%), Positives = 83/201 (41%), Gaps = 8/201 (3%) 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-GTLLAGSTREVSKKILREQLGPH 248 V L EG+NRE+++++E +V+RLIR+ YG L L G E+ L+ Sbjct: 61 NVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDINLPKGLPRGGWTELD---LKATNYLR 117 Query: 249 LLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRR 308 L E V S + +DR + + + S + +Q R+ Sbjct: 118 ELVELDVETV----SKLPVEKDRRRVKANQIRRAVKRHTEVSGRQVAGRQGSARKGSTRQ 173 Query: 309 NLASNVWMAKGIHSSFLSDSG 329 N+ + A S G Sbjct: 174 NVGNAAPAATASRRSGPKKRG 194 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPSIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 55/192 (28%), Positives = 94/192 (48%), Gaps = 20/192 (10%) Query: 65 VPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 PL+ E T + L++KP ++T +D GR T+ D +P +V VGRLD ++EGL Sbjct: 29 QPLKPQLSFEDTVVVLFNKPFDVLTQFTDEQGRQTLKDFIPIP--QVYPVGRLDRDSEGL 86 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--- 178 LLLTN+G + L P + + Y + G L L+KG+ ++ + Sbjct: 87 LLLTNNGEIQHRLANPKFEKQKTYLAQVEGIPQAADLAKLEKGVELKDGLTKPAKAKAIS 146 Query: 179 ------------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + + +W+ + + EGKNR+++++ + RLIR+ G FQLG Sbjct: 147 APNYEWQTAPKIRERKTIPTSWIELKIHEGKNRQVRRMTAHIGFPTLRLIRVGLGQFQLG 206 Query: 227 TLLAGSTREVSK 238 L +G R +++ Sbjct: 207 DLDSGEYRILNE 218 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 91/189 (48%), Gaps = 16/189 (8%) Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 + P E ++ +++KP ++ +D DGR T+ D + V + GRLD ++EGL Sbjct: 42 IKNKPKVAPEDRKVVVFNKPFDTLSQFTDGDGRKTLADYIT--VKDVYAAGRLDRDSEGL 99 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD- 180 ++LTNDG L L P+++ + Y V+ G + L+ L+KG+ ++ +V + Sbjct: 100 MVLTNDGILQARLTQPNSKSPKTYWVQVDGAPSDEDLDKLRKGVELKDGMTLPAKVEVMD 159 Query: 181 -------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 W+ + + EG+NR+++++ + RLIR S G LG Sbjct: 160 APNVWERNPPVRFRANIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDVTLGD 219 Query: 228 LLAGSTREV 236 L G +E+ Sbjct: 220 LQPGEWKEI 228 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 48/230 (20%), Positives = 89/230 (38%), Gaps = 19/230 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L +KP G++ S+ T+ +P GRLD ++EGLLLLT DG L Sbjct: 24 MPQLILLNKPYGVICQFSEHPTHPTLKSCVPQAGV--YPAGRLDTDSEGLLLLTGDGALQ 81 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 + P + + Y V+ G +++L +L++G+ + +V Sbjct: 82 HRIADPRWKLPKTYWVQVEGDPKEEQLEMLRRGVDLGDFVTRPAEVRRIETPELWPRNPP 141 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+ + + EGKNR+++++ RL+R++ GP++L L G R + Sbjct: 142 VRFRKTVPDCWLEIIISEGKNRQVRRMTAKAGLPTLRLVRVAIGPWKLDGLQPGEMRAID 201 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 +R + P + K Sbjct: 202 ---VRTEDLPRGASAGPGGKPGDRAPQSRSAAAAKSGKIPSFRFARNRKG 248 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 51/234 (21%), Positives = 90/234 (38%), Gaps = 20/234 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGG 129 RL ++KP ++ +D + + L GRLD ++EGL+LLT+ G Sbjct: 1 MPRLIRFNKPYDVLPQFTDRGSQESSRKTLSDFIDCPGVYPAGRLDRDSEGLMLLTDFGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L + PS + + Y V+ GQ D+ L L KG+ ++ Sbjct: 61 LQAWISDPSHKMAKTYWVQVEGQPDRAGLEALSKGVELKDGLTLPASAHLMEEPAMLWAR 120 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+++ ++EGKNR+++++ RLIR S G + L L GS Sbjct: 121 TPPIRERKNIPTSWISLTIKEGKNRQVRRMTAAIGHPTLRLIRYSIGTWTLEGLSQGSWE 180 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 ++ + G + S + E D R +K Sbjct: 181 DL---EVPRVPGRPKPSGLPKSRTEKTVPSTKPNSKKRKSPPEKRDSARRKRKT 231 >gi|157370266|ref|YP_001478255.1| pseudouridine synthase [Serratia proteamaculans 568] gi|157322030|gb|ABV41127.1| pseudouridine synthase [Serratia proteamaculans 568] Length = 178 Score = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 42/151 (27%), Positives = 67/151 (44%), Gaps = 15/151 (9%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 F V + GRLD ++EGLL+LTNDG L L P + +VY V+ G + L L Sbjct: 26 FIPFPDVYAAGRLDRDSEGLLVLTNDGKLQAQLTEPGKRTGKVYYVQVEGAPQDNDLVSL 85 Query: 162 KKGIVIQGICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + G+ ++ + + AW+ + L EG+NR+++++ Sbjct: 86 RNGVTLKDGPTLPAGVELVAEPQWLWPRNPPIRERKSIPTAWLKITLYEGRNRQVRRMTA 145 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RLIR S G LG L G + + Sbjct: 146 HIGFPTLRLIRYSMGNISLGELQPGEWKCLD 176 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 53/186 (28%), Positives = 89/186 (47%), Gaps = 16/186 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G P RL L++KP ++T DGR+T+ D +P GRLD ++EGLLL Sbjct: 22 GPPEAPQAAPRLILFNKPFDVLTQFRGGDGRATLKDFIPVPGV--YPAGRLDRDSEGLLL 79 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--- 180 LT+DG L + P + + Y V+ G+ D+ +L L++G+ + +V Sbjct: 80 LTDDGRLQARIADPRHKLAKTYWVQVEGEPDEAQLQRLREGVTLNDGPTRPAEVRRLDAP 139 Query: 181 -----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + AW+ + +REG+NR+++++ RL+R+ GP+ + L Sbjct: 140 ELWPRDPPVRFRKSVPTAWLELTIREGRNRQVRRMTAAVGLPTLRLVRVRIGPWSVDGLA 199 Query: 230 AGSTRE 235 G RE Sbjct: 200 PGEWRE 205 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDILPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 34/177 (19%), Positives = 62/177 (35%), Gaps = 4/177 (2%) Query: 62 VDGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 +DG + + L + + +VGRLD +T Sbjct: 18 IDGEAVTVVPEPYFYILLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTT 77 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL+TNDG L L PS + ++Y V + LK G+ + Sbjct: 78 GVLLITNDGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADA 137 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + + EGK ++K++ +V L R + + L G + + Sbjct: 138 VLENP--TTLLLTITEGKYHQVKRMVAAAGNRVQHLHRRRFAHLETENLKPGEWKFI 192 >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 = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 52/197 (26%), Positives = 92/197 (46%), Gaps = 17/197 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P T + L++KP +++ SD GR+T+ D +P V VGRLD ++EGLLLL Sbjct: 29 KPKVSFAETIVLLFNKPYNVLSQFSDQQGRATLKDFIPIE--NVYPVGRLDRDSEGLLLL 86 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G + L P + ++ Y + GQ L L G+ ++ + Sbjct: 87 TNNGEIQHRLAHPKFEKVKTYLAQLEGQPQAVDLAKLTCGVELKDGLTRPAKVSVIAPPN 146 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EGKNR+++++ + RLIR++ F+LG L Sbjct: 147 YNWHTAPNIRERKTIPTSWLELKIYEGKNRQVRRMTAHIGFPTLRLIRVALSGFELGNLA 206 Query: 230 AGSTREVSKKILREQLG 246 G R +++ R+ Sbjct: 207 TGEYRLLTEIEKRQLFA 223 >gi|242239490|ref|YP_002987671.1| pseudouridine synthase [Dickeya dadantii Ech703] gi|242131547|gb|ACS85849.1| pseudouridine synthase [Dickeya dadantii Ech703] Length = 208 Score = 91.8 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 47/188 (25%), Positives = 86/188 (45%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + R+ L++KP +++ +D GR T+ + +P F + S GRLD ++EGL+LL Sbjct: 21 KSIPIGQARRIVLFNKPFDVLSQFTDESGRETLKNYIP--FGDIYSAGRLDRDSEGLMLL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + ++Y + G D+ L + G+ + Sbjct: 79 TNDGKLQARLTQPGKKTPKIYYAQIEGIPDEAALQAFRTGLQLNDGLTQPAGAERVDAPL 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + ++ +W+ + L EG+NR+++++ + RLIR S L L Sbjct: 139 WLWPRNPPIRERKQIPTSWLKITLYEGRNRQVRRMTAHIGFPTLRLIRYSMANHTLDGLQ 198 Query: 230 AGSTREVS 237 G +E+ Sbjct: 199 PGEWKEID 206 >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 = 91.8 bits (226), Expect = 2e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 26 KRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 83 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 84 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPA 143 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 144 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 203 Query: 230 AGSTREVSK 238 G RE + Sbjct: 204 NGEWREATD 212 >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 = 91.8 bits (226), Expect = 2e-16, Method: Composition-based stats. Identities = 48/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD + L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGFPTQDAIEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 208 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 209 NGEWREATE 217 >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 = 91.8 bits (226), Expect = 2e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 198 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 199 NGEWREVTD 207 >gi|330952996|gb|EGH53256.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 210 Score = 91.8 bits (226), Expect = 2e-16, Method: Composition-based stats. Identities = 50/185 (27%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 RL L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPRLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARRLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 91.8 bits (226), Expect = 2e-16, Method: Composition-based stats. Identities = 40/182 (21%), Positives = 72/182 (39%), Gaps = 14/182 (7%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFLFNKPFDVLTQFSDEGGRATLKDFIDIPGIYPAGRLDRDSEGLLLLTNDG 86 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++ +L L+ G+ + + Sbjct: 87 QLQARIADPKHKLAKTYWVQVEGEPNEAQLQQLRDGVQLNDGPTLPAEARQLEEPQLWPR 146 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 147 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVKIGNWTLDGLDQGQYR 206 Query: 235 EV 236 EV Sbjct: 207 EV 208 >gi|323187623|gb|EFZ72930.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli RN587/1] Length = 177 Score = 91.8 bits (226), Expect = 2e-16, Method: Composition-based stats. Identities = 39/145 (26%), Positives = 66/145 (45%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGAELVEEPAWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L G RE + Sbjct: 153 RLIRYAMGDYSLDNLANGEWREATD 177 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >gi|289810570|ref|ZP_06541199.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 147 Score = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 51/142 (35%), Positives = 67/142 (47%), Gaps = 6/142 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE 71 +++ KV+ARAG SRRE+E +I RV V+G + V V I +DG + E Sbjct: 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKIRIDGHLISVKE 61 Query: 72 -----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTN 126 L Y L T + + +R I+VGRLD+NT GLLL T Sbjct: 62 SAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTT 121 Query: 127 DGGLARVLELPSTQWLRVYRVR 148 DG LA L PS + R Y VR Sbjct: 122 DGELANRLMHPSREVEREYAVR 143 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 116 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 235 Query: 233 TREVSKK 239 RE++++ Sbjct: 236 WREIAQE 242 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 46/175 (26%), Positives = 80/175 (45%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLL+LT+DG LA L Sbjct: 4 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLVLTDDGALAHRL 63 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G + L L+ G+ + QV + Sbjct: 64 TDPRHKQPKTYWVQVEGAPQAEHLQALRDGVALNDGPTRPAQVRMLDPAPQLWPRDPPVR 123 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 124 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 178 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 48/195 (24%), Positives = 81/195 (41%), Gaps = 25/195 (12%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDG 128 R +++KP ++ +D +T L V VGRLD+++EGLLLLT+DG Sbjct: 1 MSYRYIVFYKPYNVLCQFTDEGNSTTSRQTLKDYINIPNVYPVGRLDLDSEGLLLLTDDG 60 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------- 181 L L R Y V+ D+ LN L++G+ I+ V + Sbjct: 61 QLQHRLAHRKFAHPRTYWVQVENIPDEPALNRLREGVKIKDYQTRKAWVKVFPTEPPLPP 120 Query: 182 --------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG--------PFQL 225 + W+ + L EG+NR+++++ + RL+R++ G L Sbjct: 121 RNPPIRYRKNIPTCWLEITLTEGRNRQVRRMTAAVGYPTLRLVRVAMGIGKGKNGFQLDL 180 Query: 226 GTLLAGSTREVSKKI 240 L G R+V+ Sbjct: 181 KGLEPGQWRDVTDIE 195 >gi|159028310|emb|CAO87208.1| unnamed protein product [Microcystis aeruginosa PCC 7806] Length = 194 Score = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 54/196 (27%), Positives = 88/196 (44%), Gaps = 22/196 (11%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L++KP ++ +D +GRST+ D +P + SVGRLD ++EGLLLLT++G L Sbjct: 1 MNKYILFYKPYDVLCQFTDENGRSTLKDYIPIP--NIYSVGRLDRDSEGLLLLTDNGQLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 L R Y V+ D + L L++G+ IQ V + Sbjct: 59 HRLGHRQFAHPRTYWVQVERIPDLNALEKLRQGLAIQDYRTRPAIVNILDFEPDLPPREP 118 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY-----GPFQLGTLLAG 231 + AW+ + L EG+NR+++++ + RLIR + L L G Sbjct: 119 PIRYRKSIPTAWLEITLTEGRNRQVRRMTAAVGYPTLRLIRTAITIDKNNKLCLTGLQPG 178 Query: 232 STREVSKKILREQLGP 247 REV++K + Sbjct: 179 QWREVTEKERKALERL 194 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 36/143 (25%), Positives = 66/143 (46%), Gaps = 14/143 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLL+LT+DG L + P + + Y + G+ D L+ L +G+ + Sbjct: 43 YPAGRLDKDSEGLLVLTDDGALQARISSPKHKMPKTYLAQVEGEPDDAALDALARGVTLN 102 Query: 169 GICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 V + ++W+ + + EG+NR+++++ R Sbjct: 103 DGPTRPATVRRIGAPKLWDRDPPVRYRKSVPDSWLELTITEGRNRQVRRMTAAVGHPTLR 162 Query: 215 LIRISYGPFQLGTLLAGSTREVS 237 L+R G +++G L G+ REV Sbjct: 163 LVRWRIGGWEIGDLAVGAWREVK 185 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 50/185 (27%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 RL L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPRLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 208 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 209 NGEWREATE 217 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 48/174 (27%), Positives = 87/174 (50%), Gaps = 16/174 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L+HKP +++ +D +GR T+ D + + + GRLD ++EGLLLL NDG L + + Sbjct: 4 LILFHKPYRVLSQFTDSEGRGTLGDFIT--KAGFYAAGRLDYDSEGLLLLCNDGRLQQRI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y V+ G + + L L+ G+ ++ + ++ Sbjct: 62 ADPRFKLWKSYAVQLEGDITEAALCSLRDGVELKDGATLPARASIIRTPAFWPRNPPIRE 121 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +WV + +REG+NR+++++ + V RLIR G + L L G R Sbjct: 122 RKTQTTSWVEISIREGRNRQVRRMCAKVGFPVLRLIRTRIGDWGLDDLAPGEYR 175 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGRTLPAGVELVDEPT 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G REV+ Sbjct: 209 NGEWREVTD 217 >gi|332342737|gb|AEE56071.1| ribosomal pseudouridine synthase, large subunit [Escherichia coli UMNK88] Length = 207 Score = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 48/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD + L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGFPTQDAIEALRNGVTLNDGPTLPAGAELVDEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 198 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 199 NGEWREATE 207 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 45/190 (23%), Positives = 87/190 (45%), Gaps = 16/190 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P A+ ++ L++KP ++ +D R T+ + +P V + GRLD ++EGLLLL Sbjct: 38 KPAIAAQDIKIVLFNKPFDVLCQFTDDANRKTLAEFIPIK--EVYAAGRLDRDSEGLLLL 95 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TN G L L P + + Y V+ G+ + + L G+ ++ +V++ Sbjct: 96 TNCGKLQNTLTAPGKKTSKTYWVQVEGEPSSESIAALCTGVELKDGLTLPAKVSIISEPT 155 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + W+++ + EG+NR+++++ RLIR S G + L + Sbjct: 156 VWTRNPPVRERKLIPTTWLSITISEGRNRQVRRMTAHIGHPTLRLIRYSIGKYTLDGIKN 215 Query: 231 GSTREVSKKI 240 G + ++ Sbjct: 216 GEYKVMTGIE 225 >gi|291336757|gb|ADD96295.1| hypothetical protein [uncultured organism MedDCM-OCT-S08-C1656] Length = 169 Score = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 44/166 (26%), Positives = 78/166 (46%), Gaps = 3/166 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N ++ K +A AG+ SRR+ E I V +NG + + +D ++V+G ++ Sbjct: 4 TNSQRPKLQKFLADAGLCSRRKGEEWIEDGLVTINGENAKLGERVIPDSDIVKVNGKRVQ 63 Query: 69 KAERTRL-WLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLT 125 + L +KP G ++ D +F+ L R+ GRLD+++EG+++LT Sbjct: 64 VKRIPNITLLVNKPKGYTCSNDDEYADRLIFELLESKYRSVRLFCAGRLDVDSEGMVILT 123 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 N+G LA L PS + Y++ D L L G +++ Sbjct: 124 NNGTLAHRLTHPSQMVRKKYKIEIDTPFDTKDLPSLINGELVEEEF 169 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 48/175 (27%), Positives = 80/175 (45%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPADVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y V+ G +L L+ G+V+ + Sbjct: 62 TDPRHKQPKTYWVQVEGTPAPSQLQALRDGVVLNDGPTRPAKVRSIDPSPQVWPRDPPVR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RLIR++ G + L TL G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTASVGLPTLRLIRVAIGDWTLDTLAPGQWR 176 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + +VY V+ G+ + L ++G+ ++ Sbjct: 33 YAAGRLDRDSEGLLVLTNDGQLQAQLTQPGKRTGKVYYVQVEGEPTEHDLARFRQGLTLK 92 Query: 169 GICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 Q + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAQAERVAEPEWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHIGYPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S G L L +G RE+ Sbjct: 153 RLIRYSMGSITLEDLASGCWREID 176 >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 = 91.4 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 52/187 (27%), Positives = 96/187 (51%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ +++KP ++ +D +GR T+ D +P V + GRLD ++EGL++L Sbjct: 45 KPKVAPEDRKVIVFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLMVL 102 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G ++ L+ L+KG+ ++ +V + + Sbjct: 103 TNDGVLQAKLTQPQSKSPKTYWVQVDGAPSEEDLDKLRKGVELKDGMTLPAKVEVMDEPS 162 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+++ + EG+NR+++++ + RLIR S G +LG L Sbjct: 163 VWERNPPVRFRANIPTTWLSITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIKLGDLQP 222 Query: 231 GSTREVS 237 G+ +EVS Sbjct: 223 GAWKEVS 229 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 40/144 (27%), Positives = 67/144 (46%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + +VY + G D+ L ++G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNDGKLQAELTQPQKKTGKVYYAQVEGVPDETALAKFRQGLTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGIERVDEPEWLWVRNPPIRERKNIPTSWLKITLYEGRNRQVRRMTANIGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S G F L L +G +EV+ Sbjct: 153 RLIRYSMGSFTLNNLSSGEWKEVT 176 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQLKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 116 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 235 Query: 233 TREVSKK 239 RE++++ Sbjct: 236 WREIAQE 242 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 55/181 (30%), Positives = 90/181 (49%), Gaps = 17/181 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ +++KP ++ +D GR+T+ D +P F V + GRLD ++EGLL+LTNDG L Sbjct: 47 PRRVLIFNKPYDVLPQFTDEMGRTTLKDFIP--FPDVYAAGRLDRDSEGLLILTNDGKLQ 104 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------Q 176 L P + +VY V+ G D+ LN L+ G+ ++ Sbjct: 105 AKLTQPHKKTAKVYYVQVEGIPDESTLNKLRNGVTLKDGPTLSAGAELVEEPEWLWERTP 164 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + +W+ + L EG+NR+++++ + RLIR S G QLG L G RE+ Sbjct: 165 PIRERKNIPVSWLKITLFEGRNRQVRRMTAHVGFPTLRLIRFSIGSLQLGQLSPGEWREI 224 Query: 237 S 237 Sbjct: 225 D 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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 116 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 235 Query: 233 TREVSKK 239 RE++++ Sbjct: 236 WREIAQE 242 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 46/175 (26%), Positives = 80/175 (45%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLL+LT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLVLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G + L L+ G+ + QV + Sbjct: 62 TDPRHKQPKTYWVQVEGAPQAEHLQALRDGVALNDGPTRPAQVRMLDPAPQLWPRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 176 >gi|224824759|ref|ZP_03697866.1| pseudouridine synthase [Lutiella nitroferrum 2002] gi|224603252|gb|EEG09428.1| pseudouridine synthase [Lutiella nitroferrum 2002] Length = 225 Score = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 47/180 (26%), Positives = 85/180 (47%), Gaps = 17/180 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +L L++KP G++ S + T+ D++ GRLD ++EGLLLLT DG L Sbjct: 1 MPQLILFNKPYGVICQFSQHELHPTLKDHIDIPGV--YPAGRLDTDSEGLLLLTGDGELQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 + P + + Y V+ G +++L L+ G+ + +V L Sbjct: 59 HRISDPRWKQSKTYWVQVEGTPVEEQLEALRAGVNLGDFITQPAEVRLLSEPPQLWERKP 118 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +AW+ + + EGKNR+++++ RL+R++ GP++L L G R + Sbjct: 119 PVRFRKTVPDAWLEIIISEGKNRQVRRMTAKVGLPTLRLVRVAVGPWRLDGLQPGEFRRL 178 >gi|320184392|gb|EFW59203.1| 23S rRNA pseudouridine synthase E [Shigella flexneri CDC 796-83] Length = 207 Score = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 198 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 199 NGEWREATE 207 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 36 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 94 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 153 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 154 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWR 213 Query: 235 EVSK 238 E + Sbjct: 214 EATD 217 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 116 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEMVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 235 Query: 233 TREVSKK 239 RE++++ Sbjct: 236 WREIAQE 242 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKHENQPTRVILFNKPYDVLPQFTDETGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 198 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 199 NGEWREATE 207 >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 = 91.0 bits (224), Expect = 2e-16, Method: Composition-based stats. Identities = 53/185 (28%), Positives = 89/185 (48%), Gaps = 17/185 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D + VGRLD ++EGLLLLTN+G + Sbjct: 29 EETIIVLFNKPYDVLTQFTDEQGRKTLKDFIDIPKI--YPVGRLDRDSEGLLLLTNNGEI 86 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------------ 178 L P + + Y V+ G Q L L+KG+ ++ + Sbjct: 87 QHRLAHPKFEKEKTYWVQVEGIPSQADLAKLEKGVELKDGLTQPAKAKQIEAPDFDWQTA 146 Query: 179 ---LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIR+ G +QLG L +G R Sbjct: 147 PKIRERKTVPTSWIELKITEGKNRQVRRMTAHIGFPTLRLIRVGLGHYQLGELGSGEYRI 206 Query: 236 VSKKI 240 +S Sbjct: 207 LSLSE 211 >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 = 91.0 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 26 KRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 83 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 84 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGSTLPAGVELVDEPA 143 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 144 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 203 Query: 230 AGSTREVSK 238 G RE + Sbjct: 204 NGEWREATD 212 >gi|289669952|ref|ZP_06491027.1| pseudouridylate synthase [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 190 Score = 91.0 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 48/175 (27%), Positives = 82/175 (46%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y V+ G+ ++L L+ G+V+ Q Sbjct: 62 TDPRHKQPKTYWVQVEGEPQAEQLQALRDGVVLNDGPTLPAQVRSLDPVPQLWPRDPPVR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDTLAPGQWR 176 >gi|289664922|ref|ZP_06486503.1| pseudouridylate synthase [Xanthomonas campestris pv. vasculorum NCPPB702] Length = 190 Score = 91.0 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 48/175 (27%), Positives = 82/175 (46%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y V+ G+ ++L L+ G+V+ Q Sbjct: 62 TDPRHKQPKTYWVQVEGEPQAEQLQALRDGVVLNDGPTLPAQVRSLDPAPQLWPRDPPVR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDTLAPGQWR 176 >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 = 91.0 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 30 KRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 87 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 88 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVDLVEEPE 147 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 148 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTANVGFPTLRLIRYAMGDYSLDNLA 207 Query: 230 AGSTREVSK 238 G RE + Sbjct: 208 NGEWREATD 216 >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 = 91.0 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 56/285 (19%), Positives = 97/285 (34%), Gaps = 31/285 (10%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P +L L +KP ++ +D GR T+ D + + GRLD ++EGLLLL Sbjct: 49 KPQVAPADRKLLLLNKPYMVLCQFTDEAGRETLKDYIKEPGI--YAAGRLDRDSEGLLLL 106 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TNDG L L P + + Y V+ G +++L L+ G+ + + Sbjct: 107 TNDGKLQARLTQPGEKTPKTYWVQVEGIPSEEELAALRAGVELNDGLTLPAEARLMDEPN 166 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--- 227 + ++ W+ + + EG+NR+++++ RLIR + G + LG Sbjct: 167 VWPRNPPIRERKEVPTRWLEIKIVEGRNRQVRRMTAHIGHPTLRLIRYAIGDWTLGNWQE 226 Query: 228 --LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 L G +R + L + + N R Sbjct: 227 DGLAPGESRSLPAPEL----------APVSPARPRKPQTGSSTAKPANDRPRRTAQSNRK 276 Query: 286 KKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ 330 S Q P + +S A+ Sbjct: 277 NPPRSAGKPAIDQAGSRPPAESKPRSSGRGTARRPARHTTDKESS 321 >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 = 91.0 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 48/185 (25%), Positives = 86/185 (46%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 28 PPAEPKLILFNKPFDVLTQFSDEGGRATLKDFIDIPGI--YPAGRLDRDSEGLLLLTNDG 85 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ +++L L+ G+ + + L Sbjct: 86 QLQARIADPKHKLAKTYWVQVEGEPTEEQLQRLRDGVALNDGKTLPAEARLLEEPALWPR 145 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + +REG+NR+++++ RL+R+ G + + L G + Sbjct: 146 NPPVRFRKSVPTHWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIDGLDQGQWK 205 Query: 235 EVSKK 239 EV + Sbjct: 206 EVPAR 210 >gi|218506664|ref|ZP_03504542.1| pseudouridylate synthase, subunit B protein [Rhizobium etli Brasil 5] Length = 157 Score = 91.0 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 72/110 (65%), Positives = 87/110 (79%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+R Sbjct: 48 EAKAERISKVMARAGVASRRDIERMIMEGRVTLNGKVLETPVVNVTLADRIEVDGVPIRG 107 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 ERTRLWLYHKP GLVTT++DP+GR TVFDNLP RV+S+GRLDINTE Sbjct: 108 IERTRLWLYHKPAGLVTTNADPEGRPTVFDNLPEELPRVMSIGRLDINTE 157 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 50/188 (26%), Positives = 82/188 (43%), Gaps = 17/188 (9%) Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V P + E TRL +HKP G+++ + V GRLD ++EG Sbjct: 29 TVVRQPAPRPEVTRLLCFHKPYGVLSQFTPEG--KWQGLKDWIDVPGVYVAGRLDADSEG 86 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDG L + P + + Y V+ G D+ L L++G+ + + L Sbjct: 87 LLLLTNDGQLQARIADPRHKMEKTYWVQVEGIPDEAALQRLREGVELSDGKTLPAKARLI 146 Query: 181 ---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q + W+ + +REGKNR+++++ RL+R++ GP+ + Sbjct: 147 EPQPLMWPRNPPIRVRQNIPDCWIELIIREGKNRQVRRMTAAVGHPTLRLVRMAVGPYSI 206 Query: 226 GTLLAGST 233 L G Sbjct: 207 EGLEPGQW 214 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 31/111 (27%), Positives = 55/111 (49%) Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + PS + + Y G + KL L++GI+++G +V + +QK + V Sbjct: 12 PKRPCHPSYETFKTYEADLSGTPSRAKLQRLEQGILLEGKPTAPARVKILSQKKHSTKVA 71 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 + + EG+ ++KK+F VN L RI+YG +L TL G + +S + Sbjct: 72 ITIHEGRKHQVKKMFAAIGHPVNHLKRIAYGKLELQTLATGQFKRLSPTEI 122 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 44/186 (23%), Positives = 80/186 (43%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + +R + T DG + + GRLD ++EGL++LT Sbjct: 47 RISAQDRKVVVFNKP---FDTLSQFTDGEGRKTLADYIPIKDIYAAGRLDRDSEGLMVLT 103 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--- 182 NDG L L PS++ + Y V+ G ++ L+ L+KG+ ++ +V + + Sbjct: 104 NDGILQARLTQPSSKSPKTYWVQVDGAPNEADLDKLRKGVELKDGMTLPAKVEVMAEPSV 163 Query: 183 -----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR S G LG L G Sbjct: 164 WERNPPVRFRANIPTTWIAITIVEGRNRQVRRMTANIGFPTLRLIRYSMGDVTLGDLQPG 223 Query: 232 STREVS 237 +E++ Sbjct: 224 EWKEIT 229 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 85/188 (45%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + R+ L++KP ++ +D GR+T+ +P F+ V + GRLD ++EGLL+L Sbjct: 16 KHVAAQDLYRVVLFNKPFDVLPQFTDAAGRTTLKAFIP--FTDVYAAGRLDRDSEGLLVL 73 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 N+G L L P + +VY V+ G L L+ G+ ++ Sbjct: 74 NNEGKLQAQLTQPGKRIGKVYFVQVEGVPQDRDLTPLRHGVTLKDGPTLPAIVERVDEPQ 133 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L EG+NR+I+++ + RLIR S G LG L Sbjct: 134 WLWPRNPPIRERKSIPTTWLKITLFEGRNRQIRRMTAHIGFPTLRLIRYSMGNLSLGELQ 193 Query: 230 AGSTREVS 237 G + + Sbjct: 194 PGEWKNLD 201 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 87/184 (47%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 26 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 84 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 144 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLANGEWR 203 Query: 235 EVSK 238 E ++ Sbjct: 204 EATE 207 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 87/184 (47%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 26 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 84 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 144 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWR 203 Query: 235 EVSK 238 E ++ Sbjct: 204 EATE 207 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD +TEGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDTEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 198 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 199 NGEWREATE 207 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 53/196 (27%), Positives = 86/196 (43%), Gaps = 22/196 (11%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + L++KP ++ +D +GRST+ D +P + SVGRLD ++EGLLLLT++G L Sbjct: 1 MNKYILFYKPYDVLCQFTDENGRSTLKDYIPIP--NIYSVGRLDRDSEGLLLLTDNGQLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------Q 176 L R Y V+ D + L L++G+ IQ Sbjct: 59 HRLGHRQFAHPRTYWVQVERIPDLNALEKLRQGLPIQDYRTRPAIVNLLDFEPDLPPREP 118 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY-----GPFQLGTLLAG 231 + AW+ + L EG+NR+++++ + RLIR + L L G Sbjct: 119 PIRYRKSVPTAWLEITLTEGRNRQVRRMTAAVGYPTLRLIRTAITIDKNNKLCLTGLQPG 178 Query: 232 STREVSKKILREQLGP 247 REV++K + Sbjct: 179 QWREVTEKERKALERL 194 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 41/192 (21%), Positives = 80/192 (41%), Gaps = 18/192 (9%) Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 ++ L E + + L ++ ++ V +GRLD ++EG Sbjct: 14 RINNAKLTFDETIVVLVNKPYGVLSQFTNNQACKTLKEFI---SIPNVYPIGRLDKDSEG 70 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTN+G + L P + + Y V+ G + LN L G++++ +V + Sbjct: 71 LLLLTNNGQIQHRLANPKFEKEKTYWVQIEGIPQPEDLNRLASGVILKDGLTKPAKVKII 130 Query: 181 T---------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + +W+ + + EGKNR+++++ + RL+R+ F+L Sbjct: 131 PDPHFKWQSAPKIRERKNIPTSWIELKIVEGKNRQVRRMTAHIGFPTLRLVRVGVSYFKL 190 Query: 226 GTLLAGSTREVS 237 G+L G + Sbjct: 191 GSLAPGEYLILD 202 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 38/145 (26%), Positives = 66/145 (45%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTN+G L L P + ++Y V+ G +D L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGAEMVEEPEWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L G RE + Sbjct: 153 RLIRYAMGDYSLDNLANGEWREATD 177 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 26 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 84 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 144 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWR 203 Query: 235 EVSK 238 E + Sbjct: 204 EATD 207 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 44 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 100 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 101 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKSAKVRLISEPN 160 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 161 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLEN 220 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 221 GSFRLLSLDEIKALFQ 236 >gi|330938238|gb|EGH41915.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. pisi str. 1704B] Length = 210 Score = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 90.6 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 46/188 (24%), Positives = 86/188 (45%), Gaps = 16/188 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P A+ ++ L++KP ++ +D R T+ + +P V + GRLD ++EGLLLL Sbjct: 38 KPQIDAKDKKIVLFNKPFDVLCQFTDDADRKTLAEFIPIK--DVYAAGRLDRDSEGLLLL 95 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN G L L P+ + + Y V+ G+ + + L KG+ ++ Sbjct: 96 TNCGKLQNTLTAPNKKTNKTYWVQVEGEPSTESIQALCKGVELKDGLTLPANVKMIEEPN 155 Query: 176 -----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+++ + EGKNR+++++ RLIR S G + L + Sbjct: 156 IWQRTPPVRERKSIPTSWLSITINEGKNRQVRRMTAHIGHPTLRLIRYSIGNYTLDDINT 215 Query: 231 GSTREVSK 238 G + + Sbjct: 216 GEYKIIKG 223 >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 = 90.6 bits (223), Expect = 4e-16, Method: Composition-based stats. Identities = 52/190 (27%), Positives = 80/190 (42%), Gaps = 20/190 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L+HKP ++ S D V VGRLD ++EGLLLLTN+G L Sbjct: 3 YRYLLFHKPYDVLCQFSPSDRPDQQTLKDYIDVPEVYPVGRLDRDSEGLLLLTNNGALQH 62 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------ 180 L P R Y V+ + + L L++G+ IQ +V Sbjct: 63 RLCHPRFGHDRTYWVQVEREPTEAALQALRQGVQIQDYRTRPAKVQRLDDPQIPERDPPI 122 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 + AW+ + L+EG+NR+++++ RLIR + P QL L G+ Sbjct: 123 RFRKTVPTAWLALTLQEGRNRQVRRMTAAVGHPTLRLIRAAIATHPDQPPLQLQGLAPGT 182 Query: 233 TREVSKKILR 242 R+++ R Sbjct: 183 WRDLTAIECR 192 >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 = 90.6 bits (223), Expect = 4e-16, Method: Composition-based stats. Identities = 46/175 (26%), Positives = 80/175 (45%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVTL 179 P + + Y V+ G+ + +L L+ G+V+ Sbjct: 62 TDPRHKQPKTYWVQVEGEPQEAQLQALRDGVVLNDGPTRPASVRMLDPAPELWPRTPPVR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTASVGLPTLRLVRVAIGDWRLDGLAPGQWR 176 >gi|330976863|gb|EGH76892.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 210 Score = 90.6 bits (223), Expect = 4e-16, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 87/185 (47%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG+NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRVRIGDWTLEGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 90.6 bits (223), Expect = 4e-16, Method: Composition-based stats. Identities = 42/177 (23%), Positives = 82/177 (46%), Gaps = 16/177 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP +++ +D GR T+ + + GRLD ++EGLLLL ++G L + + Sbjct: 4 LILLNKPYQVLSQFTDSAGRDTLAKFIRTPGF--YPAGRLDYDSEGLLLLCDEGRLQQRI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--------------LD 180 P + + Y V+ G++ L LK G+ ++ +V Sbjct: 62 ADPHFKLWKTYCVQLEGEITAQALQSLKNGLNLKDGPTRPARVKTLQEPLFWERNPPIRQ 121 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +W+ + + EG+NR+++++ + V RL+R G + + L G R ++ Sbjct: 122 RKHQPTSWIEISINEGRNRQVRRMCAAVGFPVLRLVRTRIGDWAIDGLQPGQHRRMT 178 >gi|322833615|ref|YP_004213642.1| pseudouridine synthase [Rahnella sp. Y9602] gi|321168816|gb|ADW74515.1| pseudouridine synthase [Rahnella sp. Y9602] Length = 208 Score = 90.6 bits (223), Expect = 4e-16, Method: Composition-based stats. Identities = 42/143 (29%), Positives = 69/143 (48%), Gaps = 15/143 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + ++Y V+ G+ D + L++GI ++ Sbjct: 63 YAAGRLDRDSEGLLVLTNDGKLQAALTQPGKRTGKIYYVQVEGEPDDAAVKSLREGITLK 122 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + AW+ + L EG+NR+++++ + Sbjct: 123 DGPTLPAGAAIVPEPEWLWARNPPIRERKSIPTAWLKITLYEGRNRQVRRMTAHVGFPTL 182 Query: 214 RLIRISYGPFQLGTLLAGSTREV 236 RLIR S G F LG L G +E+ Sbjct: 183 RLIRYSMGEFTLGDLQPGQWKEI 205 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 36 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 94 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPAWLWPR 153 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 154 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWR 213 Query: 235 EVSK 238 E + Sbjct: 214 EATD 217 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 46/186 (24%), Positives = 85/186 (45%), Gaps = 16/186 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + L++KP ++ +D GR T+ D +P + GRLD ++EGLLLLTND Sbjct: 56 KTVANPVIVLFNKPFDVLCQFTDEQGRKTLKDYIPVPGV--YAAGRLDRDSEGLLLLTND 113 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L + P + + Y + G D L L++G+ ++ ++++ Sbjct: 114 GKLQSQITEPKKKTYKTYWAQVEGAPDDSDLEKLRQGVELKDGMTLPAKISIMDNPAIWP 173 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + W+ + + EG+NR+++++ + RLIR G + L L G Sbjct: 174 RTPPIRERANIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLQNGEY 233 Query: 234 REVSKK 239 R++ K Sbjct: 234 RQLDMK 239 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 45/180 (25%), Positives = 81/180 (45%), Gaps = 17/180 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL ++KP G+++ + + + + + GRLD ++EGLLLLTNDG L Sbjct: 33 RLLCFNKPYGVLSQFTPEGRWRGLKEYIDVPGV--HAAGRLDADSEGLLLLTNDGPLQAR 90 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VT 178 + P + + Y V+ G D+ L L++G+ + Q Sbjct: 91 IADPRFKMEKTYWVQVEGLPDEAALQALRQGVQLNDGMTLPAQARRLEPPPVLWQRDPPI 150 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q + W+ + +REG+NR+++++ RL+R + GP+ L L G ++V Sbjct: 151 RVRQNIPDCWIELVIREGRNRQVRRMTAAIGHPTLRLVRAAIGPYTLDGLEPGQWKDVEP 210 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 41/196 (20%), Positives = 77/196 (39%), Gaps = 17/196 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + D + V + GRLD ++EGLL+L Sbjct: 42 KTLSLDETKVVLFNKP---FDVLTQFTDEQGRATLKDFISIPNVYAAGRLDRDSEGLLIL 98 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G L L P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 99 TNNGELQHRLADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGVTKSAKVRLISEPN 158 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ + + EG+NR+++++ + RL+R+S G + L Sbjct: 159 LWERNPPIRERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGLLSINGLEN 218 Query: 231 GSTREVSKKILREQLG 246 GS R +S ++ Sbjct: 219 GSFRLLSLDEIKALFQ 234 >gi|170719828|ref|YP_001747516.1| pseudouridine synthase [Pseudomonas putida W619] gi|169757831|gb|ACA71147.1| pseudouridine synthase [Pseudomonas putida W619] Length = 209 Score = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 54/189 (28%), Positives = 90/189 (47%), Gaps = 16/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P RL L++KP ++T SD DGR+T+ D + GRLD ++EGLLLL Sbjct: 22 QPKAPPAEPRLILFNKPFDVLTQFSDSDGRATLKDYIDIPSI--YPAGRLDRDSEGLLLL 79 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TNDGGL + P + + Y V+ G+ + ++L L++G+ + + Sbjct: 80 TNDGGLQARIADPRHKLAKTYWVQVEGEPNDEQLKRLREGVELNDGPTLPAEARRLDEPE 139 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + +W+ + +REG+NR+++++ RL+R+ G + L L Sbjct: 140 LWPRNPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQ 199 Query: 231 GSTREVSKK 239 G REV K Sbjct: 200 GCWREVPAK 208 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 209 NGEWREATE 217 >gi|254521767|ref|ZP_05133822.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] gi|219719358|gb|EED37883.1| pseudouridylate synthase [Stenotrophomonas sp. SKA14] Length = 232 Score = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 37/232 (15%), Positives = 64/232 (27%), Gaps = 6/232 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+ K ++ R E R I V V+G ++E+ V I V Sbjct: 2 EPIRLDKRLSALLGIPRGEARRYIEGGWVTVDGEVVEQPQRPVDDNAVIVVAEQASDDKA 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G+ S L + R + + L + G + Sbjct: 62 ERVSMLLHKPAGVAAETLCALVSSDSRSELDASGIRPLQRHFHGLQLAASLPAADSGLVV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + L+ R + + + S + Sbjct: 122 VSQDPATLAHLQRNLGRTEQEYLIEVAEGGPERGPWLLARLQHESGGAKVSWQSEQRLRF 181 Query: 192 GLREGK---NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 GK + ++ +V + R+ G LG L G R + Sbjct: 182 A---GKGLTAKGLRVAVTAAGLQVAAVRRLRIGRVALGPLPPGQWRYLGSDE 230 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 37/144 (25%), Positives = 65/144 (45%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 S GRLD ++EGL++LTNDG L L P + ++Y + G D++ L+ + G+++ Sbjct: 63 YSAGRLDRDSEGLMILTNDGKLQARLTQPGKKTPKIYYAQVEGVPDKEALHAFRTGLILS 122 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 123 DGPTLPAGVEQVEEPAWLWPRQPPIRERKTIPVSWLKITLYEGRNRQVRRMTAHIGYPTL 182 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S L L G RE+ Sbjct: 183 RLIRYSMAGQTLDGLHPGEWREID 206 >gi|251789551|ref|YP_003004272.1| pseudouridine synthase [Dickeya zeae Ech1591] gi|247538172|gb|ACT06793.1| pseudouridine synthase [Dickeya zeae Ech1591] Length = 218 Score = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 35/144 (24%), Positives = 63/144 (43%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + ++Y + G D + L+ + G+ + Sbjct: 73 YAAGRLDRDSEGLMILTNDGQLQARLTQPGKKTPKIYYAQVEGIPDDEALHAFRTGLQLN 132 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 133 DGTTLPAGAERVEEPAWLWPRQPPIRERKNIPVSWLKITLYEGRNRQVRRMTAHIGYPTL 192 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S L L G +E+ Sbjct: 193 RLIRYSMANQTLDGLSPGEWKEID 216 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 49/175 (28%), Positives = 83/175 (47%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L+ G+V+ QV + Sbjct: 62 TDPRHKQPKTYWVQVEGAPQAEQLQALRDGVVLNDGPTRPAQVRMLDPAPQLWPRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLETLAPGQWR 176 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 50/181 (27%), Positives = 86/181 (47%), Gaps = 17/181 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 TR+ L +KP ++ +D DGR+T+ D +P + GRLD ++EGL++LT+DG Sbjct: 4 RAMTRVILLNKPYDVLCQFTDADGRATLKDFVPVPGV--YAAGRLDRDSEGLVVLTDDGA 61 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-------- 181 L + P + + Y + G + L L++G+V+ +V Sbjct: 62 LTARIADPRHKMAKTYWAQVEGIPEDAALEALRRGVVLNDGPTLPAEVRAIPEPPGLWPR 121 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + AW+ + LREG+NR+++++ RL+R + GP+ L L G R Sbjct: 122 TPPVRFRKSIPTAWLELTLREGRNRQVRRMTAAVGLPTLRLVRRAVGPWTLEGLAPGEWR 181 Query: 235 E 235 E Sbjct: 182 E 182 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 52/189 (27%), Positives = 87/189 (46%), Gaps = 16/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 RL L++KP ++T SD +GR+T+ D + GRLD ++EGLLLL Sbjct: 23 QAKAPPAEPRLILFNKPFDVLTQFSDCEGRATLKDFIDIAGV--YPAGRLDRDSEGLLLL 80 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TNDGGL + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 81 TNDGGLQARIADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVELNDGPTLPAEARRLEEPE 140 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + +W+ + +REG+NR+++++ RL+R+ G + L L Sbjct: 141 LWPRNPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQ 200 Query: 231 GSTREVSKK 239 G REV K Sbjct: 201 GCWREVPAK 209 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 42/154 (27%), Positives = 69/154 (44%), Gaps = 14/154 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLLLLT DG LA + P + + Y V+ G+ + L L++G+ ++ Sbjct: 94 YPAGRLDYDSEGLLLLTGDGALAHRISHPRHKQPKTYWVQVEGEPEPAALQALRQGVTLR 153 Query: 169 GICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 +V + AW+ + L EG+NR+++++ R Sbjct: 154 DGPTRPAKVRRLESPDVAPRHPPVRHREAVPTAWLELTLSEGRNRQVRRMTAHVGHPTLR 213 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKILREQLGPH 248 LIR++ G + L L G R + R Q P Sbjct: 214 LIRVAIGSWHLAGLAPGEWRRETLHAPRAQAAPA 247 >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 = 90.2 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 40/192 (20%), Positives = 75/192 (39%), Gaps = 18/192 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + AE + L + + V GRLD ++EGL+LL Sbjct: 42 KTVNFAETQVILFNKPYDVLTQFSDEEGRATLKAFI---PIPHVYPAGRLDRDSEGLVLL 98 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TN+G + L +P + Y + G + L L++G+V+ + Sbjct: 99 TNNGEIQHRLAVPKFNTEKTYFAQVEGIPQETDLAQLRQGVVLNDGKTLPAKVRLVPEPN 158 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + ++ +W+ + + EG+NR+++++ + RLIR F L L Sbjct: 159 WLWQRNPPIRERKQIPTSWLEIKIHEGRNRQVRRMTAHIGFPTLRLIRYQMALFNLANLE 218 Query: 230 AGSTREVSKKIL 241 G R++S+ L Sbjct: 219 QGQYRQLSEVEL 230 >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 = 90.2 bits (222), Expect = 5e-16, Method: Composition-based stats. Identities = 51/204 (25%), Positives = 97/204 (47%), Gaps = 5/204 (2%) Query: 48 ERAAVNVMS-TDHIEVDGVPLRKAERTR--LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + D I +DG +R ++ R L L + D ++ I Sbjct: 2 TEPWFEIDPVKDSITLDGKKVRPRKQQRVVYALNKPRGYLSSMSDDRGRKTIADLIKGKI 61 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 +V VGRLD++TEGL++LTNDG LAR L PS++ + Y R G++ ++ L+ G Sbjct: 62 PEKVFHVGRLDMDTEGLIILTNDGELARKLSHPSSKIRKTYVARVTGKLSHHEIKRLENG 121 Query: 165 IVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 +V++ + + + V + + EG REI+++F+ F+ V L R + G Sbjct: 122 VVLRDGFKTSGASIRVIRASLRDTLVEIIIHEGHKREIREMFKVFDKHVLYLKRTAIGSL 181 Query: 224 QLGTL-LAGSTREVSKKILREQLG 246 ++ + G ++++ + +++ L Sbjct: 182 KVDIVPNPGDIKKLTGQEIQKLLK 205 >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 = 90.2 bits (222), Expect = 5e-16, Method: Composition-based stats. Identities = 47/173 (27%), Positives = 85/173 (49%), Gaps = 16/173 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G++T S+ + ++ + + V GRLD ++EGL++LT++G L L Sbjct: 2 LIIFNKPYGVITQFSEHEVYPSLKEFISHK--NVYPAGRLDADSEGLVILTDNGALQNKL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P++ +VY V+ + L L+KG++I +V L Sbjct: 60 SDPTSNIEKVYVVQVENIPSSEDLAKLEKGVMISKYITKPAKVRLIEDPMLWERVPPIRK 119 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 AW+ + + EGKNR+++K+ + RLIR S G +++G L G+ Sbjct: 120 RSSIPTAWLEIRITEGKNRQVRKMTAAVGFPTLRLIRTSVGNYKIGDLEPGNY 172 >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 = 90.2 bits (222), Expect = 5e-16, Method: Composition-based stats. Identities = 48/185 (25%), Positives = 86/185 (46%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 28 PPAEPKLILFNKPFDVLTQFSDGEGRATLKDFIDVPGI--YPAGRLDRDSEGLLLLTNDG 85 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------------ 176 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 86 QLQARIADPKHKLAKTYWVQVEGEPSAEQLQRLRDGVELNDGMTLPAEARSLDEPQLWPR 145 Query: 177 --VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +WV + +REG+NR+++++ RL+R+ G + + L G + Sbjct: 146 NPPVRFRKSVPTSWVELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIEGLDQGQWK 205 Query: 235 EVSKK 239 EV + Sbjct: 206 EVPAR 210 >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 = 90.2 bits (222), Expect = 5e-16, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 81/178 (45%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL ++KP G+++ + + D + V GRLD ++EGLLLLT+ G L Sbjct: 6 RLIRFNKPYGVLSQFTPEGRWRGLKDFID--LPGVYVAGRLDADSEGLLLLTDSGPLQAR 63 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + + Y V+ G D L L++GI + +V Sbjct: 64 ISDPRHKMEKTYWVQVEGIPDDAALAALQRGITLNDGPTRPARVHRLEPPPALCPRDPPI 123 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++W+ + +REG+NR+++++ RL+R + GP+ L L G+ ++ Sbjct: 124 RVRRNIPDSWIELVIREGRNRQVRRMTAAVGHPTLRLVRTAIGPYTLDGLAPGAWDDI 181 >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 = 90.2 bits (222), Expect = 5e-16, Method: Composition-based stats. Identities = 47/184 (25%), Positives = 84/184 (45%), Gaps = 16/184 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P ++ L++KP ++ +D R T+ + +P V + GRLD ++EGLLLL Sbjct: 36 KPQIAQSDKKVILFNKPYDVLCQFTDEQNRQTLANFIPIK--DVYAAGRLDRDSEGLLLL 93 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TN G L L P + + Y V+ G + ++ L +G+ ++ QV L Sbjct: 94 TNCGKLQNTLTAPGKKTNKTYWVQVEGVPTEASIDALSQGVELKDGLTLPAQVKLIDEPA 153 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + +W+++ + EGKNR+++++ RLIR S G + L + Sbjct: 154 LWPRTPPVRERKSIPTSWLSITINEGKNRQVRRMTAHIGHPTLRLIRYSIGKYTLDGIET 213 Query: 231 GSTR 234 G + Sbjct: 214 GQYK 217 >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 = 90.2 bits (222), Expect = 5e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVELVDEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G RE + Sbjct: 209 NGEWREATD 217 >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 = 89.9 bits (221), Expect = 5e-16, Method: Composition-based stats. Identities = 44/191 (23%), Positives = 84/191 (43%), Gaps = 16/191 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP G+++ +D + L V GRLD ++EGLLLLT+DG L Sbjct: 3 RLILFNKPYGVLSQFTDKGMADSKRATLSDHIDLPGVYPAGRLDRDSEGLLLLTDDGKLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 + P + ++Y V+ D + L +G+ ++ +V+ Sbjct: 63 ERIASPRFKTEKIYLVQVERIPDDAAIEALCRGVTLKDGPTRPARVSRIAPPDLWERDPP 122 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+++ + EG+NR+++++ RL+R G + L L G+ R+ Sbjct: 123 VRFRKSVPDCWLSITISEGRNRQVRRMTAHVGHPTLRLVRWRIGAWSLDGLAPGTWRDAP 182 Query: 238 KKILREQLGPH 248 + L + Sbjct: 183 PETLGTPVKNR 193 >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 = 89.9 bits (221), Expect = 5e-16, Method: Composition-based stats. Identities = 49/175 (28%), Positives = 83/175 (47%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L+ G+V+ QV + Sbjct: 62 TDPRHKQPKTYWVQVEGAPQAEQLQALRDGVVLNDGPTRPAQVRMLDPAPQLWPRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L TL G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLETLAPGQWR 176 >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 = 89.9 bits (221), Expect = 5e-16, Method: Composition-based stats. Identities = 47/185 (25%), Positives = 84/185 (45%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 28 PPAEPKLILFNKPFDVLTQFSDGEGRATLKDYIDIPGI--YPAGRLDRDSEGLLLLTNDG 85 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------ 182 L + P + + Y V+ G ++L L+ G+ + + + Sbjct: 86 QLQARIADPRHKLAKTYWVQVEGLPTAEQLQRLRDGVELNDGMTLPARARQLDEPELWPR 145 Query: 183 --------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 W+ + +REG+NR+++++ RL+R+ G + + L G + Sbjct: 146 NPPVRFRATIPTTWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIEGLDQGQWK 205 Query: 235 EVSKK 239 EV + Sbjct: 206 EVPAR 210 >gi|313500758|gb|ADR62124.1| Pseudouridine synthase [Pseudomonas putida BIRD-1] Length = 210 Score = 89.9 bits (221), Expect = 5e-16, Method: Composition-based stats. Identities = 52/189 (27%), Positives = 87/189 (46%), Gaps = 16/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 RL L++KP ++T SD +GR+T+ D + GRLD ++EGLLLL Sbjct: 23 QAKAPPAEPRLILFNKPFDVLTQFSDGEGRATLKDFIDIPGV--YPAGRLDRDSEGLLLL 80 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TNDGGL + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 81 TNDGGLQARIADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVELNDGPTLPAEARRLEEPE 140 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + +W+ + +REG+NR+++++ RL+R+ G + L L Sbjct: 141 LWPRNPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLEQ 200 Query: 231 GSTREVSKK 239 G REV K Sbjct: 201 GCWREVPAK 209 >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 = 89.9 bits (221), Expect = 5e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 198 Query: 230 AGSTREVSK 238 G RE ++ Sbjct: 199 NGEWREATE 207 >gi|240950257|ref|ZP_04754536.1| pseudouridylate synthase [Actinobacillus minor NM305] gi|240295234|gb|EER46035.1| pseudouridylate synthase [Actinobacillus minor NM305] Length = 224 Score = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 52/185 (28%), Positives = 89/185 (48%), Gaps = 17/185 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E T + L++KP ++T +D GR T+ D + VGRLD ++EGLLLLTN+G + Sbjct: 29 EETIIVLFNKPYDVLTQFTDEQGRKTLKDFIDIPKI--YPVGRLDRDSEGLLLLTNNGEI 86 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT------------ 178 L P + + Y V+ G Q L L+KG+ ++ + Sbjct: 87 QHRLAHPKFEKEKTYWVQVEGIPSQADLAKLEKGVELKDGLTQPAKAKQIEAPDFDWQTA 146 Query: 179 ---LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + +W+ + + EGKNR+++++ + RLIR+ G +QLG L +G + Sbjct: 147 PKIRERKTIPTSWIELKITEGKNRQVRRMTAHIGFPTLRLIRVGLGHYQLGELGSGEYQV 206 Query: 236 VSKKI 240 +S Sbjct: 207 LSLSE 211 >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 = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 52/189 (27%), Positives = 87/189 (46%), Gaps = 16/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 RL L++KP ++T SD +GR+T+ D + GRLD ++EGLLLL Sbjct: 23 QAKAPPAEPRLILFNKPFDVLTQFSDGEGRATLKDFIDIPGV--YPAGRLDRDSEGLLLL 80 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TNDGGL + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 81 TNDGGLQARIADPKHKLAKTYWVQVEGEPSDEQLQRLRDGVALNDGPTLPAEARRLEEPE 140 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + +W+ + +REG+NR+++++ RL+R+ G + L L Sbjct: 141 LWPRNPPVRFRKSVPTSWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWALDGLGQ 200 Query: 231 GSTREVSKK 239 G REV K Sbjct: 201 GCWREVPAK 209 >gi|223992791|ref|XP_002286079.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220977394|gb|EED95720.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 370 Score = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 52/279 (18%), Positives = 93/279 (33%), Gaps = 45/279 (16%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKV---------NGILLERAAVNVMSTDH 59 + QR+ KV+A G+ +R + + +R+ ++ + V S Sbjct: 85 KKAALQRIDKVLADRGVGTRSQTFDLAKAKRITWSTSPDATHEERTRIKGPSEKVPSNAS 144 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGR 113 + +DG L L + L D + +L I + VGR Sbjct: 145 LFLDGNLLPAPTPLLLVYHKPKFVLSVMEDDKKYQDQQRKHLGHILEPRYARSGMHPVGR 204 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH-GQVDQDKLNLLKKGIVIQGICY 172 LD +T GL+L ++DG L + L P + Y + +L G+ + Sbjct: 205 LDYDTTGLILFSSDGKLTQRLLHPRRGVEKEYVATVQGEVNASELREMLANGVETTDGTF 264 Query: 173 GD-----------------------------MQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + T + G + V + + EGK R +++ Sbjct: 265 AANLIAVTSSNGPSEVSEEDLNNVPEEDEGGDETTDEPYNGPYSDVRLVVSEGKYRMVRR 324 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 + V L R +G L L G R+V+ + L Sbjct: 325 ILANSGHPVVELRRERHGEILLDDLPVGKFRDVTPEELE 363 >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 = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 51/225 (22%), Positives = 96/225 (42%), Gaps = 5/225 (2%) Query: 43 NGILLERAAVNV-MSTDHIEVDGVPL--RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 NG + ++V + I +DG L E+ + L D ++ Sbjct: 2 NGRIETYPRLDVFSESSEILLDGNRLIFSSEEKVVYLVNKPIGYLSAMSDDRGRKTLSDL 61 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 I RV VGRLD ++ GL+L+TNDG L+ ++ P+++ + Y V G++ L Sbjct: 62 VSDRIKERVFHVGRLDQDSCGLILMTNDGDLSNLVSHPASEIEKTYVVGIKGKLTDRDLE 121 Query: 160 LLKKGIVIQGI-CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 +K G+ + ++ L G + + + EG REI+++F N V+ L+R+ Sbjct: 122 AVKGGLTLGDGFKTSPAKIRLVRSDGDFSKYAITIHEGHKREIREIFRVLNKSVSSLVRV 181 Query: 219 SYGPFQLGTLL-AGSTREVSKKILREQLGPHLLEEAQVNLDAPIY 262 S GP + + G + +S+K + + + + Sbjct: 182 SIGPLSISLVPSPGDIKRLSRKEIALLENGAHRKAPKKAQRKNNF 226 >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 = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 38/144 (26%), Positives = 65/144 (45%), Gaps = 14/144 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLL+LTNDG L L P ++ + Y V+ G ++ L L+ G+ ++ Sbjct: 23 YPAGRLDKDSEGLLVLTNDGILQARLTQPKSKSAKTYWVQVEGIPSENALKSLRNGVELK 82 Query: 169 GICYGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 V + + W+++ L EG+NR+++++ R Sbjct: 83 DGWTLPAIVEIMDEPAIWDRNPPIRHRPSVPTTWLSITLTEGRNRQVRRMTAAVGHPTLR 142 Query: 215 LIRISYGPFQLGTLLAGSTREVSK 238 L+R G + + L G REV Sbjct: 143 LVRYQMGHWTVDGLQPGEWREVPP 166 >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 = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 86/185 (46%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L+L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLFLFNKPFDVLTQFSDEGGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYWVQVEGEPTDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + ++EG NR+++++ RL+R+ G + L L G R Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGCNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYR 204 Query: 235 EVSKK 239 EV+ K Sbjct: 205 EVAAK 209 >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 = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 60/225 (26%), Positives = 101/225 (44%), Gaps = 4/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAERT 73 + + + RAG SRRE +IA +V+V+ ++ V + + I V+ LR A Sbjct: 345 LLRCLPRAGFCSRREALSIIASGQVRVDNVVERNPFRLVRAENSIHVESHSGRLRFAPPR 404 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +V+ + ++ VG L + GLLLLTNDG L+R+ Sbjct: 405 LWMYHKPAYVIVSRNDVAGRTLITKHARILGMDHLVPVGSLPMRAHGLLLLTNDGELSRL 464 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 LE P T + Y +R +D + L ++ G Y +++ ++ S + V Sbjct: 465 LENPKTMIQQTYLLRVRPAIDPVLAHKLNTEGILVNGKRYNNVEFFVNPAMKSRHSLKVK 524 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G+ + + + V R RIS+GPF + L GS REV+ Sbjct: 525 VR-GETMPVAHLMQHLGRTVERGGRISFGPFSMSGLPVGSIREVT 568 >gi|320195863|gb|EFW70488.1| Ribosomal large subunit pseudouridine synthase E [Escherichia coli WV_060327] Length = 177 Score = 89.9 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 38/145 (26%), Positives = 66/145 (45%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 93 DGPTLPAGAELVEEPAWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L G R+ + Sbjct: 153 RLIRYAMGDYSLDNLANGEWRDATD 177 >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 = 89.5 bits (220), Expect = 6e-16, Method: Composition-based stats. Identities = 44/225 (19%), Positives = 86/225 (38%), Gaps = 17/225 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 RL ++KP ++ +D + L GRLD ++EGL+LLT++G L Sbjct: 3 RLIRFNKPFDVLPQFTDRGSEGSPRATLSDYVDCPGVYPAGRLDRDSEGLMLLTDNGRLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------- 176 + P + + Y + G D+D LNLL++G+ ++ + Sbjct: 63 AWISDPKHKLEKTYWAQVEGIPDEDALNLLRQGVELKDGMTRPAKARLINEPAQLWARTP 122 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + AW+ + + EGKNR+++++ RLIR + G + L L G +++ Sbjct: 123 PIRERKSVPTAWLELKITEGKNRQVRRMTAAVGHPTLRLIRYAIGAWTLDGLAQGKWQDL 182 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 + P + + + + Sbjct: 183 DPPRVPGPPKPSQKPPRRKPHAQNTENGASRSPSKRRKPRSKSTR 227 >gi|194366722|ref|YP_002029332.1| RNA-binding S4 domain-containing protein [Stenotrophomonas maltophilia R551-3] gi|194349526|gb|ACF52649.1| RNA-binding S4 domain protein [Stenotrophomonas maltophilia R551-3] Length = 232 Score = 89.5 bits (220), Expect = 6e-16, Method: Composition-based stats. Identities = 38/232 (16%), Positives = 67/232 (28%), Gaps = 6/232 (2%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+ K ++ R E R I V VNG ++E+ V + I V Sbjct: 2 EPTRLDKRLSALLGIPRGEARRYIEGGWVSVNGEVVEQPQRPVDESAVIVVAEQASDDKA 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L HKP G+ S L + +R + + L ++ G + Sbjct: 62 ERVTMLLHKPAGVAAEALCALISSDSRSELDASGTRPLQRHFHGLQLAAALPASDSGLVV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + L+ R + + + S + Sbjct: 122 VSQDPATLAHLQRNLGRTEQEYLIEVAEGGPERGPWLMARLQHESGGAKVSWQSEQRLRF 181 Query: 192 GLREGK---NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 GK + ++ +V + R+ G LG L G R + Sbjct: 182 A---GKGLTAKGLRVAVGAAGLQVAAVRRLRIGRVALGPLPPGQWRYLGSDE 230 >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 = 89.5 bits (220), Expect = 6e-16, Method: Composition-based stats. Identities = 41/180 (22%), Positives = 72/180 (40%), Gaps = 14/180 (7%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 T + L + ++ V + GRLD ++EGLL+LT+DG Sbjct: 25 PIPMTTILFNKPFGVLTQFTDAKSPTERPTLSGFNLPKGVYAAGRLDRDSEGLLVLTDDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L L P+ + + Y V+ G L L+ + ++ QV L Sbjct: 85 KLQAQLSKPTFKTPKTYLVQIEGDPTDADLAPLRTRVTLKDGPTLPAQVRLIDPPDVWHR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ V + EG+NR+++++ + RL+R S G + L + G R Sbjct: 145 DPPVRVRKSIPDAWIEVTITEGRNRQVRRMCAHIGFPCLRLVRWSVGAWTLDGIDQGQWR 204 >gi|324113926|gb|EGC07900.1| RNA pseudouridylate synthase [Escherichia fergusonii B253] Length = 217 Score = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 47/189 (24%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G +D L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + + EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITIYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G RE + Sbjct: 209 NGEWREATD 217 >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 = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 34/142 (23%), Positives = 66/142 (46%), Gaps = 15/142 (10%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 GRLD ++EGL++LT+DG L + P + + Y + G + + L+ G+ + Sbjct: 39 FYPAGRLDRDSEGLMVLTDDGKLQARISNPKHKMTKTYLAQIEGTPEPQHIEALRAGVRL 98 Query: 168 QGICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + QV++ + +AW+ + + EG+NR+++++ Sbjct: 99 KDGMTRPAQVSVATPPDTLWERSPPVRFRKTVPDAWLQISISEGRNRQVRRMCAHVGLPC 158 Query: 213 NRLIRISYGPFQLGTLLAGSTR 234 RLIR+ G + L L+ G+ R Sbjct: 159 LRLIRMRIGDWALNDLVPGAWR 180 >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 = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 53/190 (27%), Positives = 94/190 (49%), Gaps = 17/190 (8%) Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + + + R+ +++KP ++ +D GR+T+ D +P + V + GRLD ++EGLL Sbjct: 20 NNITQKPTGPRRVLVFNKPYDVLPQFTDEMGRTTLKDFIP--LTDVYTAGRLDRDSEGLL 77 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------- 175 +LTNDG L L P + ++Y V+ G D+ LN L+ GI ++ Sbjct: 78 VLTNDGKLQARLTQPHKKTAKIYYVQVEGIPDESALNKLRNGITLKDGPTLPAGAELVKE 137 Query: 176 --------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + + +W+ + L EG+NR+++++ + RLIR S G QL T Sbjct: 138 PEWLWERTPPIRERKNIPVSWLKITLYEGRNRQVRRMTAHIGFPTLRLIRFSLGSIQLET 197 Query: 228 LLAGSTREVS 237 L G +E++ Sbjct: 198 LSPGEWKEIN 207 >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 = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 24 KENQPKRVVLFNKPYDVLPQFTDEAGRKTLKDFIPVPGI--YAAGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 82 GALQARLTQPGKRTGKIYYVQVEGEPTPEALEALRTGVALNDGPTLPAGVEVVEEPAWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + W+ V L EG+NR+++++ + RLIR + G + L L G Sbjct: 142 PRNPPIRERKNIPTRWLKVTLYEGRNRQVRRMTAHVGYPTLRLIRYAMGNYTLDNLANGE 201 Query: 233 TREV 236 RE+ Sbjct: 202 WREL 205 >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 = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGVDLVEEPE 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 198 Query: 230 AGSTREVSK 238 G RE + Sbjct: 199 NGEWREATD 207 >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 = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 2/131 (1%) Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY- 172 +D +TEGL+L+T +G L L P+ + + Y V + V + + GI G Sbjct: 1 MDRDTEGLVLVTTNGQLGYDLLHPTKKVTKRYEVVVNDLVTPEDVAAFAAGITFHGGVTC 60 Query: 173 GDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAG 231 +T+ + +++V++ + EGK ++KK+F KV +L R + G L L G Sbjct: 61 KPAALTIIDARADHSFVSLEIAEGKFHQVKKMFLARGKKVIQLKRTAMGSLVLPDDLAVG 120 Query: 232 STREVSKKILR 242 S R ++++ L+ Sbjct: 121 SYRSLTQEELK 131 >gi|323967074|gb|EGB62500.1| RNA pseudouridylate synthase [Escherichia coli M863] Length = 217 Score = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAEMVEEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G RE + Sbjct: 209 NGEWREATD 217 >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 = 89.5 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 54/186 (29%), Positives = 90/186 (48%), Gaps = 16/186 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ ++KP ++ +D DGR T+ D +P V + GRLD ++EGLL+L Sbjct: 45 KPKIAPEARKVIAFNKPFDTLSQFTDGDGRKTLADFIP--VKDVYAAGRLDRDSEGLLIL 102 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TNDG L L P ++ + Y V+ G + L+ L+KG+ ++ QV + Sbjct: 103 TNDGVLQAKLTQPKSKSPKTYWVQVDGAPSEADLDKLRKGVELKDGMTLPAQVEVMEAPE 162 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RLIR S G +LG L Sbjct: 163 IWERNPPVRFRANIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIKLGDLQP 222 Query: 231 GSTREV 236 G +EV Sbjct: 223 GEWKEV 228 >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 = 89.5 bits (220), Expect = 8e-16, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 89/185 (48%), Gaps = 17/185 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GRST+ D +P + GRLD ++EGLL+LTND Sbjct: 24 KENQPKRVVLFNKPYDVLPQFTDEAGRSTLKDFIPVPGI--YAAGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G+ + L+ L+ G+ + Sbjct: 82 GALQARLTQPGKRTGKIYYVQVEGEPTAEALDALRNGVTLNDGPTLPAGIEVVEEPVWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR + G + L L G Sbjct: 142 PRNPPIRERKNIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLENLANGE 201 Query: 233 TREVS 237 RE+ Sbjct: 202 WRELK 206 >gi|321223855|gb|EFX48918.1| Ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] Length = 181 Score = 89.5 bits (220), Expect = 8e-16, Method: Composition-based stats. Identities = 41/146 (28%), Positives = 67/146 (45%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + ++Y V+ G D L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNDGALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ V L EG+NR+++++ Sbjct: 93 DGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTL 152 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR S G + L L G RE++++ Sbjct: 153 RLIRYSMGDYTLNGLDNGQWREIAQE 178 >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 = 89.5 bits (220), Expect = 8e-16, Method: Composition-based stats. Identities = 51/227 (22%), Positives = 101/227 (44%), Gaps = 17/227 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R L++KP ++T +DPD R T+ D + V S GRLD ++EGLLLLT+DG L Sbjct: 3 RYLLFNKPFQVLTQFTDPDNRQTLADFID--VPEVYSAGRLDYDSEGLLLLTDDGALIHS 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VT 178 + P + + Y + G + + + L+ G+ ++ + Sbjct: 61 MMNPRFKTPKTYLAQVEGDITDEAIRRLESGLQLKDGPTLPAKARRVSEPAWLWPRQPPI 120 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +WV + L EG+NR+++++ + RLIR++ + +L G +EV + Sbjct: 121 RERATIPASWVELTLVEGRNRQVRRMTAAVGFPTLRLIRVALAELTVESLSVGQYKEVDR 180 Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 +++ + ++++ + + +DR + P R Sbjct: 181 ELIVDNGIKWQIKKSSPKAAHSKHQTTVKRQDRRRHRNRRPQSRNRK 227 >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 = 89.5 bits (220), Expect = 8e-16, Method: Composition-based stats. Identities = 37/153 (24%), Positives = 69/153 (45%), Gaps = 15/153 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 +GRLD ++EGLLLLTN+G + L P + + Y V+ G D+ L L++G+ + Sbjct: 24 YPIGRLDRDSEGLLLLTNNGDIQHRLAEPKFKMEKTYWVQVEGVPDEIALERLRRGVELN 83 Query: 169 GICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + AW+ + + EG+NR+++++ + Sbjct: 84 DGMTLPAKVRLISEPNFLWPRVPPIRERKNIPTAWLEIKIYEGRNRQVRRMTAHIGFPTL 143 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 RLIR F L L + R +++ L++ Sbjct: 144 RLIRYQQAGFSLQHLAPKTYRTLTQDELKQLYQ 176 >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 = 89.5 bits (220), Expect = 8e-16, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 91/187 (48%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P + ++ +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++L Sbjct: 48 KPKVAPKDRKVIIFNKPYDTLSQFTDGDGRKTLADYIPIK--NVYAAGRLDRDSEGLMVL 105 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + L L+KG+ ++ +V + + Sbjct: 106 TNDGILQAKLTQPKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAEVEVIPEPQ 165 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RLIR S G L L+ Sbjct: 166 VWDRTPPVRFRANIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLIRHSMGDIVLNDLMP 225 Query: 231 GSTREVS 237 G RE+S Sbjct: 226 GEWREIS 232 >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 = 89.1 bits (219), Expect = 8e-16, Method: Composition-based stats. Identities = 48/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPIQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G +D L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G R+V+ Sbjct: 209 NGEWRDVTD 217 >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 = 89.1 bits (219), Expect = 8e-16, Method: Composition-based stats. Identities = 43/144 (29%), Positives = 73/144 (50%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + +VY V+ G D++ L+ L+KGI+++ Sbjct: 16 YAAGRLDRDSEGLLILTNDGKLQAQLTQPGKKTAKVYYVQVEGVPDEESLDKLRKGIILK 75 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 76 DGLTLPAGVELVNEPTWLWVRHPPIRERKSIPVSWLKITLYEGRNRQVRRMTAHIGFPTL 135 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S G QLG + G +E++ Sbjct: 136 RLIRFSMGTLQLGEIKPGEWKEIN 159 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 48/176 (27%), Positives = 86/176 (48%), Gaps = 16/176 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +++KP+ ++T +D GR+T+ D + V + GRLD ++EGLLLLT+DG + Sbjct: 3 ILVVFNKPMNVLTQFNDSQGRATLSDFID--KPGVYAAGRLDYDSEGLLLLTDDGAIQAR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------VTL 179 + P + + Y V+ G + + L L+KG+++ Sbjct: 61 ISQPKFKLPKTYWVQVEGVIGEAALRRLEKGVMLNDGPTRPAHASLISPPEVWERDPPIR 120 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + +W+ + L EG+NR+++++ + RLIR S GP+ + L G RE Sbjct: 121 QRKNIPTSWIALTLFEGRNRQVRRMTAAVGFPTLRLIRYSIGPWSINGLQPGEWRE 176 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 41/222 (18%), Positives = 87/222 (39%), Gaps = 19/222 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 38 GRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + ++ +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPAKAIKVSEPEWLWDRDPPVRYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLI 157 Query: 217 RISYGPFQL--GTLLAGSTREVSKKILREQ--LGPHLLEEAQVNLDAPIYSSETLVRDRP 272 R G L L G T+E+ + + + ++ + P + + + Sbjct: 158 RTKIGTIDLVQLGLQPGETKEIEPLLYPDFKDVPAEQPYRSRSYVKKPGGTGGKPMVRKN 217 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 S R+ + + K P + + Sbjct: 218 KDGSAKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGRSR 259 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 43/185 (23%), Positives = 74/185 (40%), Gaps = 17/185 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P + L + + + + GRLD ++EGLLLL Sbjct: 51 KPKESGPTQVYVFNKPYMVLTQFTDADNRETLKDYI---KVPDIYAAGRLDRDSEGLLLL 107 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----- 179 TN+G L L P + + Y V+ G+ +KL+ L+ GI+++ +V + Sbjct: 108 TNNGRLQAKLTQPGEKTEKTYWVQVEGEPSPEKLSDLRYGIILKDGPTLPAKVEIMTEPS 167 Query: 180 ---------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + Q W+ + + EG+NR+I+++ RLIR GP+ L + Sbjct: 168 VWPRVPPIRERQNIPTTWLAITIIEGRNRQIRRMTAHIGHPTLRLIRYRIGPWTLDNIQP 227 Query: 231 GSTRE 235 G E Sbjct: 228 GELVE 232 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 44/177 (24%), Positives = 74/177 (41%), Gaps = 16/177 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP +++ +D + L RV GRLD ++EGLLLLT+DG L Sbjct: 3 RLILFNKPYDVLSQFTDRGSEGSPRATLSDFIDIPRVYPAGRLDRDSEGLLLLTDDGQLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------V 177 + P + + Y + G D L L+ G+ + + Sbjct: 63 ARIANPRFKTEKTYYAQVEGLPDDTALAALRAGVTLSDGPTRPARVERTEPPTLWPRTPP 122 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ + + EG+NR+++++ RLIR G + L L G R Sbjct: 123 VRFRKSVPDCWLKLTISEGRNRQVRRMTAHIGHPTLRLIRWRIGDWTLDGLGPGEWR 179 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 51/184 (27%), Positives = 88/184 (47%), Gaps = 16/184 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + E + L++KP ++ +D GR T+ D +P + V + GRLD ++EGLLLLTND Sbjct: 51 PRPENPVIVLFNKPFDVLCQFTDEAGRQTLKDFIP--VADVYAAGRLDRDSEGLLLLTND 108 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L L PS + + Y V+ G+ + +N L G+ ++ +V + Sbjct: 109 GQLQAKLTQPSQKTFKTYWVQVEGEPSDEAINALCNGVGLKDGMTLPAKVCVMASPDIWP 168 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ V + EG+NR+++++ RLIR G + L L G Sbjct: 169 RTPPVRERKAIPTTWLEVQICEGRNRQVRRMTAHVGHPTLRLIRYKIGQWCLDDLPNGEY 228 Query: 234 REVS 237 + +S Sbjct: 229 KVIS 232 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 49/255 (19%), Positives = 103/255 (40%), Gaps = 21/255 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ + +KP +++ + T+ D + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIVILNKPYDVLSQFRADEKHPTMADFVNDKDLRL--AGRLDMDSEGLVFLTDHGGLNQY 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----------- 182 + P+ + + Y V+ G V ++ L L+KG+ ++ + ++ Sbjct: 60 ITNPANKKFKTYMVQVEGDVTEEALEQLRKGVELKDGITLPARAEKVSEPEWLWERNPPV 119 Query: 183 ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL--GTLLAGSTREV 236 +WV + + EG+NR+++++ + RLIR G L L G TRE+ Sbjct: 120 RFRASVPTSWVEISICEGRNRQVRRMTSAVGFPTLRLIRTKIGEIDLVRMGLQPGETREI 179 Query: 237 SKKILREQLGPHLLE--EAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG 294 + + E ++ + P + + + S R+ + + Sbjct: 180 EPLLYPDFQNVPAEEPYRSRSYVKKPGGTGGKPMVRKNKDGSVKKSGTKRIWQMDESEKP 239 Query: 295 LSKQKKLATPVHRRN 309 K P + Sbjct: 240 RRKTNGTTRPNTKAP 254 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 48/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G +D L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G RE + Sbjct: 209 NGEWREATD 217 >gi|196233257|ref|ZP_03132103.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] gi|196222728|gb|EDY17252.1| pseudouridine synthase [Chthoniobacter flavus Ellin428] Length = 188 Score = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 51/181 (28%), Positives = 81/181 (44%), Gaps = 16/181 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +HKP G+++ PDG V +GRLD +EGLLLL+++ L L Sbjct: 2 LLAFHKPYGVLS-QFTPDGSRHRPLAEFDFPKGVYPLGRLDAESEGLLLLSDEAALNARL 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P+ R Y + ++ L L++G+VI G +V L + Sbjct: 61 LHPTRGHYRTYWAQVERVPTREALTQLERGVVIGGRQTLPCRVWLLDPQPAVSPRVPPIR 120 Query: 185 -----SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ + L EGKN +++++ RL+R+ G F+LG+L AGS RE+ Sbjct: 121 FRKNVPETWIALELVEGKNHQVRRMTAAVGHPTLRLVRVKIGKFELGSLAAGSWRELDAT 180 Query: 240 I 240 Sbjct: 181 E 181 >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 = 89.1 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 48/184 (26%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 36 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 94 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 153 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 154 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWR 213 Query: 235 EVSK 238 + + Sbjct: 214 DATD 217 >gi|327253839|gb|EGE65468.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli STEC_7v] Length = 207 Score = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAEMVEEPE 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 198 Query: 230 AGSTREVSK 238 G RE + Sbjct: 199 NGEWREATD 207 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 39/175 (22%), Positives = 70/175 (40%), Gaps = 16/175 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L L + T+ D + + GRLD ++EGLL+LT+DG L Sbjct: 4 VILLNKPFGVLSQFTDEGTNHPTLKDYVKIPGV--YAAGRLDRDSEGLLVLTDDGRLQNR 61 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + + Y + G D L L+ G+ ++ + + Sbjct: 62 IASPKFKQPKTYWAQVEGTPDDAALEALRAGVKLKDGMTKPARARIIDAPDVWERDPPIR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ + L EG+NR+++++ RLIR S G + + L G R Sbjct: 122 VRKAIPDTWIELVLTEGRNRQVRRMTAAVGHPTLRLIRYSIGDWTIDNLALGQWR 176 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 41/186 (22%), Positives = 76/186 (40%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + +R + L ++ V + GRLD ++EGL++LT Sbjct: 51 RIAPKDRKVVIFNKPYDTLSQFTDGDGRKTLADYI---PVKDVYAAGRLDRDSEGLMVLT 107 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--- 182 NDG L L P ++ + Y V+ G ++ L L+KG+ ++ V + + Sbjct: 108 NDGILQAKLTQPQSKSPKTYWVQVDGAPTEEDLEKLRKGVELKDGITLPAIVEVMPEPEI 167 Query: 183 -----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RL+R S G L L G Sbjct: 168 WERNPPVRFRANIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGSIVLDNLKPG 227 Query: 232 STREVS 237 RE++ Sbjct: 228 EWREIN 233 >gi|166714192|ref|ZP_02245399.1| pseudouridylate synthase [Xanthomonas oryzae pv. oryzicola BLS256] Length = 200 Score = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 46/175 (26%), Positives = 81/175 (46%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA + Sbjct: 12 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRV 71 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y V+ G+ ++L L+ G+V+ Q Sbjct: 72 TDPRHKQPKTYWVQVEGEPQAEQLQALRDGVVLNDGPTRPAQVRSLDPAPPLWPRDPPVR 131 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 132 VRKTVPDAWLELRITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDMLAPGQWR 186 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 48/177 (27%), Positives = 81/177 (45%), Gaps = 15/177 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-VISVGRLDINTEGLLLLTNDGGLARV 133 L ++KP G++ +D I V GRLD+++EGLLLLT+DG L Sbjct: 2 LIAFNKPYGVLCQFTDESTGPARPTLATFIDVPGVYPAGRLDLDSEGLLLLTDDGRLQAR 61 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + + Y V+ G+ D+D L L++G+ ++ QV Sbjct: 62 IADPRYKAPKTYLVQVEGEPDEDALAALRRGVRLKDGMTLPAQVERIEAPDLWPRNPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + W+ + LREG+NR+++++ RL+R G + L + G REV Sbjct: 122 FRKSVPDCWLKLILREGRNRQVRRMTAAVGHPTLRLVRWRIGDWTLEGIAPGEWREV 178 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 37/141 (26%), Positives = 63/141 (44%), Gaps = 15/141 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGL++LT+DG L + P + + Y + G D L L++G+ ++ Sbjct: 40 YPAGRLDRDSEGLMILTDDGRLQARIAHPRYKAAKTYLAQVEGLPDHAALEALRRGVTLK 99 Query: 169 GICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +V + + W+ + L EG+NR+++++ Sbjct: 100 DGPTRPARVRRIDVPEDLWDRDPPVRYRKSVPDCWIELTLTEGRNRQVRRMTAHVGHPTL 159 Query: 214 RLIRISYGPFQLGTLLAGSTR 234 RLIRI G +QL L G R Sbjct: 160 RLIRIRIGDWQLDHLPPGHWR 180 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 88/185 (47%), Gaps = 17/185 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ L++KP G++ + G ++ D +P GRLD ++EGL+LLT++G L Sbjct: 1 MPRIILFNKPYGVICQFTPTCGHRSLQDFIPFAGF--YPAGRLDADSEGLVLLTDNGKLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT---------- 181 + P + + Y V+ G+ D LN +++GIV+ QV+L Sbjct: 59 DKICSPKYKLSKTYWVQVEGKPDDVALNAMRRGIVLSDFKTKSAQVSLMNEPSFIWDRQP 118 Query: 182 -----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+++ L+EGKNR+I+++ + RLIR + G L + G R + Sbjct: 119 PIRFRKSIPTTWLSLILKEGKNRQIRRMTAAVFFPTLRLIRYAIGLHTLKGIAPGEWRML 178 Query: 237 SKKIL 241 + + Sbjct: 179 AASDI 183 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 46/177 (25%), Positives = 83/177 (46%), Gaps = 17/177 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP G+V S + T+ D + V + GRLD ++EGLL+LT+DG L + Sbjct: 2 LILFNKPFGVVCQFSAHENHPTLKDYIAMP--DVYAAGRLDTDSEGLLILTDDGRLQHRI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + +++Y + G D + L+ L++G+ + QV + Sbjct: 60 AHPKHKEIKIYWAQVEGAPDDEALSPLRRGVDLGDFVTQPAQVKIIAEPANLWARVPPIR 119 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + W+ + + EGKNR+++++ + RLIR + G L L G + + Sbjct: 120 ERKAIPTTWLEIRISEGKNRQVRRMTAKIGFPTLRLIRYAIGAHTLAGLQPGEFKIL 176 >gi|291617070|ref|YP_003519812.1| RluE [Pantoea ananatis LMG 20103] gi|291152100|gb|ADD76684.1| RluE [Pantoea ananatis LMG 20103] Length = 219 Score = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 49/191 (25%), Positives = 89/191 (46%), Gaps = 17/191 (8%) Query: 62 VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGL 121 V + R+ L++KP ++ +D GR T+ D + S V + GRLD ++EGL Sbjct: 28 VQRKAVAPPAVRRVLLFNKPFDVLPQFTDEAGRRTLKDFID--VSEVYAAGRLDRDSEGL 85 Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------ 175 ++LTNDG L L P + ++Y V+ G ++ L L+ G+ ++ Sbjct: 86 MVLTNDGALQAALTQPGKRTGKIYYVQVEGAPEERDLQPLRDGVNLKDGLTLPAGIEKVA 145 Query: 176 ---------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + + W+ + L EG+NR+++++ + RL+R + G F+L Sbjct: 146 EPEWLWARQPPIRERKAIPTQWLKITLYEGRNRQVRRMTAHIGFPTLRLVRYAMGDFELD 205 Query: 227 TLLAGSTREVS 237 L G R++S Sbjct: 206 NLAPGEWRDIS 216 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 43/183 (23%), Positives = 73/183 (39%), Gaps = 17/183 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ER + T DG V + GRLD ++EGL++LTND Sbjct: 2 SPQERQVVIFNKP---FDTLSQFTDGDGRKTLADFIPVKEVYAAGRLDRDSEGLMVLTND 58 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----- 182 G L L P ++ + Y V+ G + L+ L+ G+ ++ V + + Sbjct: 59 GILQAKLTQPQSKSPKTYWVQVEGAPQEADLDKLRNGVELKDGPTLPAIVEIMPEPEVWE 118 Query: 183 ---------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 W+ + + EG+NR+++++ + RLIR S G LG L G Sbjct: 119 RHPPVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIVLGDLQPGEW 178 Query: 234 REV 236 + + Sbjct: 179 KHI 181 >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 = 89.1 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 41/222 (18%), Positives = 87/222 (39%), Gaps = 19/222 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 38 GRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + ++ +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPAKAIKVSEPEWLWDRDPPVRYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLI 157 Query: 217 RISYGPFQLG--TLLAGSTREVSKKILREQ--LGPHLLEEAQVNLDAPIYSSETLVRDRP 272 R G L L G T+E+ + + + ++ + P + + + Sbjct: 158 RTKIGTIDLVQLGLQPGETKEIEPLLYPDFKDVPAEQPYRSRSYVRKPGGTGGKPMVRKN 217 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 S R+ + + K P + + Sbjct: 218 KDGSAKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGRSR 259 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 45/178 (25%), Positives = 78/178 (43%), Gaps = 15/178 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ + DG V + GRLD ++EGLLLLT+DG L Sbjct: 4 CKKIMIILFNKPYDVLTKFTDGEGRKTLKDYIKIPNVYAAGRLDKDSEGLLLLTDDGKLN 63 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 +L P ++ + Y V+ G+ + L+KG++++ +V L Sbjct: 64 HLLTDPKSKSYKTYLVQVEGEFSSEAAQKLQKGLLLKDGKTLPAKVKLIDEPDWLWERTP 123 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +WV + ++EGKNR+I+++ + RLIR S G + LG L +G + Sbjct: 124 PIRERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYSLGNLKSGEYK 181 >gi|6689331|emb|CAB65436.1| hypothetical protein [Synechococcus elongatus PCC 6301] Length = 199 Score = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 53/190 (27%), Positives = 79/190 (41%), Gaps = 20/190 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R L+HKP V S D V VGRLD ++EGLLLLTN+G L Sbjct: 3 YRYLLFHKPYDAVCQFSPSDRPDQQTLKDYIDVPEVYPVGRLDRDSEGLLLLTNNGALQH 62 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------ 180 L P R Y V+ + + L L++G+ IQ +V Sbjct: 63 RLCHPRFGHDRTYWVQVEREPTEAALQALRQGVQIQDYRTRPAKVQRLDDPQIPERDPPI 122 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 + AW+ + L+EG+NR+++++ RLIR + P QL L G+ Sbjct: 123 RFRKTVPTAWLALTLQEGRNRQVRRMTAAVGHPTLRLIRAAIATHPDQPPLQLQGLAPGT 182 Query: 233 TREVSKKILR 242 R+++ R Sbjct: 183 WRDLTAIECR 192 >gi|56475798|ref|YP_157387.1| pseudouridine synthase [Aromatoleum aromaticum EbN1] gi|56311841|emb|CAI06486.1| Pseudouridine synthase [Aromatoleum aromaticum EbN1] Length = 230 Score = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 45/176 (25%), Positives = 75/176 (42%), Gaps = 17/176 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L +KP G++ S T+ +P GRLD ++EGLLLLT+DG L Sbjct: 30 RLILLNKPYGVICQFSGDGVHVTLKAFVPVPGV--YPAGRLDTDSEGLLLLTDDGALQHR 87 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVT 178 + P + + Y + G+ + L L+ G+ + Sbjct: 88 IADPRHKLPKTYLAQVEGEPGETALTALRGGLDLGDFVTRPCSARRVAEPDWLWPRDPPV 147 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + L EGKNR+++++ + RLIR++ G + L L G R Sbjct: 148 RFRKNVPTSWLEIVLHEGKNRQVRRMTAKAGFPTLRLIRVAIGDWSLAGLAPGQWR 203 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 50/188 (26%), Positives = 78/188 (41%), Gaps = 23/188 (12%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L HKP G+++ + D V + GRLD ++EGLL+LT++G L + L Sbjct: 1 MLLHKPYGVLSQFTPEDNSRWDCLRDFVDIPDVYAAGRLDADSEGLLVLTSNGRLQQQLT 60 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK------------ 183 P R Y V+ G +L L+ GI IQG + + Sbjct: 61 NPRFGHWRTYWVQVEGSPQPHQLQQLRDGITIQGYRTRPAKAAWLNAEAIPTIGERIPPI 120 Query: 184 -----GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 W+ + L+EG+NR+++++ RLIR + PF L L G+ Sbjct: 121 RVRAAIPTHWLEISLQEGRNRQVRRMTAAVGLPTLRLIRHTIDLMDGDTPFTLKGLEPGA 180 Query: 233 TREVSKKI 240 R V+K Sbjct: 181 WRTVTKAE 188 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 45/178 (25%), Positives = 78/178 (43%), Gaps = 15/178 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ + DG V + GRLD ++EGLLLLT+DG L Sbjct: 4 CKKIMIILFNKPYDVLTKFTDGEGRKTLKDYIKIPNVYAAGRLDKDSEGLLLLTDDGKLN 63 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 +L P ++ + Y V+ G+ + L+KG++++ +V L Sbjct: 64 HLLTDPKSKSYKTYLVQVEGEFSPEAAQKLQKGLLLKDGKTLPAKVKLIDEPDWLWERTP 123 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +WV + ++EGKNR+I+++ + RLIR S G + LG L +G + Sbjct: 124 PIRERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYSLGNLKSGEYK 181 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 89/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 34 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D + L L+ G+ + Sbjct: 92 GALQARLTQPGKRTGKIYYVQVEGIPDNEALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 151 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 152 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLSGLDNGQ 211 Query: 233 TREVSKK 239 RE++++ Sbjct: 212 WREIAQE 218 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 39/174 (22%), Positives = 68/174 (39%), Gaps = 14/174 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + G GRLD+++EGLLLLT+DG L + Sbjct: 4 ILFNKPYGVLCQFSDERTGPPRPTLAAYIDRPGFYPAGRLDLDSEGLLLLTDDGRLQARI 63 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G D+ L L+ G+ ++ QV Sbjct: 64 ADPRFKMPKTYLVQVEGDPDEAALAALRHGVRLKDGPTLPAQVERIEAPALWPRDPPVRF 123 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ + +REG+NR+++++ RL+R G + L + G R Sbjct: 124 RKSVPDRWLRLTIREGRNRQVRRMTAAIGHPTLRLVRWRIGDWTLDGIPQGQWR 177 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 52/199 (26%), Positives = 85/199 (42%), Gaps = 18/199 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R + +L L++KP G++T + T+ + + GRLD +EGLL+LT+D Sbjct: 19 RNHKMPQLILFNKPYGILTQFTGELPEQTLSAFIK--LPGFYAAGRLDKQSEGLLILTDD 76 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ----------- 176 G L L P + + Y V+ G L L+KG+VI+ I + + Sbjct: 77 GKLQHRLTHPKFEKKKHYWVQVEGVPTDKDLQPLRKGLVIKDITFLPAEARLISEPKIWP 136 Query: 177 ---VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + LREGKN +I+K+ + RLIR G + L L G Sbjct: 137 RIPPIRERKHIPTTWLEIILREGKNHQIRKMTAAIGFPTLRLIRYQIGDWHLDQLQPGEY 196 Query: 234 R--EVSKKILREQLGPHLL 250 + ++ L E Sbjct: 197 KLINLTNDKLNELTRKSNP 215 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 87/187 (46%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 58 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 115 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 116 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 175 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 176 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 235 Query: 233 TREVSKK 239 E++++ Sbjct: 236 WCEIAQE 242 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 48/188 (25%), Positives = 81/188 (43%), Gaps = 17/188 (9%) Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 V P + TRL +HKP G+++ + V GRLD ++EG Sbjct: 29 TVVRQPAPRPGVTRLLCFHKPYGVLSQFTPEG--KWQGLKDWIDVPGVYVAGRLDADSEG 86 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 LLLLTNDG L + P + + Y V+ G D+ L L++G+ + + L Sbjct: 87 LLLLTNDGQLQARIADPRHKMEKTYWVQVEGIPDEAALQRLREGVELSDGKTLPAKARLI 146 Query: 181 ---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 Q + W+ + +REG+NR+++++ RL+R++ GP+ + Sbjct: 147 EPQPLMWPRNPPIRVRQNIPDCWIELIIREGRNRQVRRMTAAVGHPTLRLVRMAVGPYSI 206 Query: 226 GTLLAGST 233 L G Sbjct: 207 EGLEPGQW 214 >gi|218461411|ref|ZP_03501502.1| probable RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli Kim 5] Length = 153 Score = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 68/108 (62%), Positives = 86/108 (79%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + + +R+SKV+ARAG+ASRR++ERMI + RV +NG +LE VNV D IEVDGVP+ Sbjct: 46 ESDAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRVLETPVVNVTLADRIEVDGVPI 105 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 R ERTRLWLYHKP GLVTT++DP+GR+TVFDNLP RV+S+GRLD Sbjct: 106 RGIERTRLWLYHKPAGLVTTNADPEGRATVFDNLPEELPRVMSIGRLD 153 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 44/186 (23%), Positives = 69/186 (37%), Gaps = 16/186 (8%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 + + GRLD +EGLL+LT+DG L L P + Sbjct: 8 NKPYGILTQFTGELPEQTLSAFIKLPGFYAAGRLDKQSEGLLILTDDGKLQHRLTHPKFE 67 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------VTLDTQKGSN 186 + Y V+ G L L+KG+VI+ I + + + + Sbjct: 68 KKKHYWVQVEGVPTDKDLQPLRKGLVIKDITFLPAEARLISEPKIWPRIPPIRERKHIPT 127 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--EVSKKILREQ 244 W+ + LREGKN +I+K+ + RLIR G + L L G + ++ L E Sbjct: 128 TWLEIILREGKNHQIRKMTAAIGFPTLRLIRYQIGDWHLDQLQPGEYKLINLTNDKLNEL 187 Query: 245 LGPHLL 250 Sbjct: 188 TRKSNP 193 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 53/199 (26%), Positives = 86/199 (43%), Gaps = 18/199 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R + +L L++KP G++T + T+ + + GRLD +EGLL+LT+D Sbjct: 16 RNHKMPQLILFNKPYGVLTQFTGELPEQTLSAFIKFPGF--YAAGRLDKQSEGLLVLTDD 73 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------- 180 G L L P + + Y V+ G L L+KG+VI+ I + + L Sbjct: 74 GKLQHRLTHPKFEKKKHYWVQVEGAPTDKDLQPLRKGLVIKDITFLPAEAKLISEPKIWP 133 Query: 181 -------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + W+ + LREGKN +I+K+ + RLIR G ++L L G Sbjct: 134 RIPPIRERKHIPTTWLEIILREGKNHQIRKMTAAIGFPTLRLIRHQIGDWRLDQLQPGEY 193 Query: 234 R--EVSKKILREQLGPHLL 250 + ++ L E Sbjct: 194 KLINLTNDKLNELTRKSNP 212 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 44/140 (31%), Positives = 74/140 (52%), Gaps = 14/140 (10%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLLLLTNDG L + + P + + Y V+ G V+ + L L KG+ ++ Sbjct: 44 GRLDYDSEGLLLLTNDGVLQQRIANPRHKQWKTYWVQIEGAVNNEILGQLMKGVELKDGP 103 Query: 172 YGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + T ++ ++W+ + LREG+NR+I+++ + RL+R Sbjct: 104 TQPCKATAISEPALWSRDPPVRYRRNVPDSWIEMSLREGRNRQIRRMTAAVGFPTLRLVR 163 Query: 218 ISYGPFQLGTLLAGSTREVS 237 + GP+QL TL G R ++ Sbjct: 164 RAIGPWQLDTLRPGEHRRLT 183 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 80/184 (43%), Gaps = 17/184 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P + E TRL +HKP G+++ + V GRLD ++EGLLLL Sbjct: 33 QPAPRPEVTRLLCFHKPYGVLSQFTPEG--KWQGLKDWIDAPGVYVAGRLDADSEGLLLL 90 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TNDG L + P + + Y V+ G D+ L L+ G+ + + L Sbjct: 91 TNDGQLQARIADPRHKMEKTYWVQVEGVPDEAALQRLRDGVELSDGKTLPARARLIEPQP 150 Query: 181 -----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 Q + W+ + +REGKNR+++++ RL+R++ GP+ + L Sbjct: 151 SMWPRNPPIRVRQNIPDCWIELIIREGKNRQVRRMTAAVGHPTLRLVRMAVGPYSIEGLE 210 Query: 230 AGST 233 G Sbjct: 211 PGQW 214 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 49/190 (25%), Positives = 88/190 (46%), Gaps = 17/190 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R+ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+L Sbjct: 31 KRRRENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + ++Y V+ G + LN L+ G+ + Sbjct: 89 TNDGALQARLTQPGKRTGKIYFVQVEGDPTAEALNALRNGVTLNDGPTLPAGVELVAEPD 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKTIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDNLA 208 Query: 230 AGSTREVSKK 239 G R+++ + Sbjct: 209 NGEWRDITGE 218 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 41/225 (18%), Positives = 87/225 (38%), Gaps = 19/225 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 38 GRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + ++ +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPAKAIKVSEPEWLWDRDPPVRYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLI 157 Query: 217 RISYGPFQLG--TLLAGSTREVSKKILREQ--LGPHLLEEAQVNLDAPIYSSETLVRDRP 272 R G L L G T+E+ + + + ++ + P + + + Sbjct: 158 RTKIGSIDLVQLGLQPGETKEIEPLLYPDFKDVPAEQPYRSRSYVKKPGGTGGKPMVRKN 217 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMA 317 S R+ + + K P + + Sbjct: 218 KDGSVKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGRSRNGR 262 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 44/225 (19%), Positives = 87/225 (38%), Gaps = 19/225 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ ++ Sbjct: 38 GRLDMDSEGLVFLTDHGGLNQYITNPANKKFKTYLVQVDGDVTEEALEQLRKGVELKDGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + Q +WV + + EG+NR+++++ + RLI Sbjct: 98 TLPAEASKVEQPEWLWERDPPVRFRASVPTSWVEISICEGRNRQVRRMTAAVGFPTLRLI 157 Query: 217 RISYGPFQL--GTLLAGSTREVSKKILREQLGPHLLE--EAQVNLDAPIYSSETLVRDRP 272 R G L L G T+E+ + + E ++ + P + + + Sbjct: 158 RTKIGAIDLVQMGLQPGETKEIEPLLYPDFQNIPAEEPYRSRSYVKKPGGTGGKPMVRKN 217 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMA 317 S R+ + + K P + Sbjct: 218 KDGSVKKSGTKRIWQMDDSEKPKRKTNGTTRPNTKAPRGRGRNGR 262 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 33/141 (23%), Positives = 61/141 (43%), Gaps = 15/141 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLL+LT+DG + P + + Y + G ++ L L+KG+ ++ Sbjct: 36 YPAGRLDFDSEGLLILTDDGREQARIADPKHKIPKTYLAQVEGIPSEEALQALRKGVDLK 95 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + W+ + + EG+NR+++++ Sbjct: 96 DGRTRPATARLAAEPENLWPRDPPIRYRKSVPDTWIELTITEGRNRQVRRMTAAAGHPTL 155 Query: 214 RLIRISYGPFQLGTLLAGSTR 234 RLIR+ G + L L G+ R Sbjct: 156 RLIRLRIGDWDLENLPPGAWR 176 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 40/225 (17%), Positives = 85/225 (37%), Gaps = 19/225 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 38 GRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + ++ +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPAKAIKVSEPEWLWERNPPVRYRANIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLI 157 Query: 217 RISYGPFQL--GTLLAGSTREVSKKILREQ--LGPHLLEEAQVNLDAPIYSSETLVRDRP 272 R G L L G +E+ + + + ++ + P + + + Sbjct: 158 RTKIGSIDLVQLGLRPGDVKEIEPLLYPDFKDVPAEQPYRSRSYVKKPGGTGGKPMVRKN 217 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMA 317 S R+ + + K P + Sbjct: 218 KDGSAKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGRGRNGR 262 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 44/245 (17%), Positives = 83/245 (33%), Gaps = 30/245 (12%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + PS + + Y + G V ++ L L+ G+ + Sbjct: 38 GRLDLDSEGLMFLTDHGGLNQFITHPSNKKYKTYLAQVDGDVTEEALEQLRNGVELADGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPAKAMKVDEPEWLWDRDPPVRYRASIPTSWIELQICEGRNRQVRRMTAAVGFPTLRLI 157 Query: 217 RISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 R G L +R L P E + L R Sbjct: 158 RTQIGSINL---------------IRLGLQPGEQTEIEPLLFPDFKDLPEDKPYRSRSYV 202 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 + P + +K G K +R + ++ + + R Sbjct: 203 KKPGGTGGKPMHQKKKEGDKKDPNKKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGR 262 Query: 337 RSPSF 341 S Sbjct: 263 SRNSR 267 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 49/281 (17%), Positives = 103/281 (36%), Gaps = 27/281 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ +++KP +++ + T+ + R+ GRLD+++EGL+ LT+ GGL + Sbjct: 2 KIIIFNKPYDVLSQFREDSKHLTLSHFIHDPELRL--AGRLDLDSEGLMFLTDHGGLNQF 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----------- 182 + P + + Y + G + ++ L L++G+ + + Q Sbjct: 60 ITNPKNKKFKTYLAQVDGDITEEALEQLRRGVELADGMTLPAKARKVEQPEWLWDRDPPV 119 Query: 183 ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREV 236 WV + + EG+NR+++++ + RLIR G L L G E+ Sbjct: 120 RFRASIPTTWVELQICEGRNRQVRRMTAAVGFPTLRLIRTQIGTIDLVKLGLQPGEQVEI 179 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 E L ++ + S+ +P + F + + N Sbjct: 180 ------EPLLYPDFKDVPADKPYTGRSAPRSAAKKPFEQKDGKSKFNKEQPKDKGANKAG 233 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR 337 K+ +R + AK + + + R Sbjct: 234 KKLPSGG--TKRVWQTEEGEAKPRRKTNGTTRPGKIRRSNR 272 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 47/187 (25%), Positives = 93/187 (49%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P + ++ +++KP +++ +D R T+ D + V + GRLD ++EGLL+L Sbjct: 21 KPRPAPKDRKVIIFNKPFDVLSQFTDDQHRQTLADFIS--VKDVYAAGRLDRDSEGLLIL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G +D L+ L++G+ ++ +V + + Sbjct: 79 TNDGVLQARLTQPESKSPKTYWVQVEGAPTEDDLDKLRQGVELKDGMTLPAKVEIIPEPN 138 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+++ + EG+NR+++++ + RLIR S G + + + Sbjct: 139 VWERNPPVRFRAAIPTTWISITITEGRNRQVRRMTANIGFPTLRLIRYSMGDWTIKDVAH 198 Query: 231 GSTREVS 237 G+ +EVS Sbjct: 199 GTWKEVS 205 >gi|315179854|gb|ADT86768.1| pseudouridine synthase family 1 protein [Vibrio furnissii NCTC 11218] Length = 183 Score = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 43/183 (23%), Positives = 73/183 (39%), Gaps = 17/183 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ER + T DG V + GRLD ++EGL++LTND Sbjct: 2 SPHERQVVIFNKP---FDTLSQFTDGDGRKTLADFIPVKDVYAAGRLDRDSEGLMVLTND 58 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----- 182 G L L P ++ + Y V+ G + L+ L+ G+ ++ V + + Sbjct: 59 GILQAKLTQPQSKSPKTYWVQVEGAPQEADLDKLRNGVELKDGPTLPAIVEIMPEPEVWE 118 Query: 183 ---------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 W+ + + EG+NR+++++ + RLIR S G LG L G Sbjct: 119 RHPPVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDIVLGDLQPGEW 178 Query: 234 REV 236 + + Sbjct: 179 KHI 181 >gi|3402689|gb|AAC28992.1| unknown protein [Arabidopsis thaliana] Length = 303 Score = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 52/149 (34%), Positives = 73/149 (48%), Gaps = 15/149 (10%) Query: 4 KNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 + ENF PQR+SKV+A AG+ASRR E +I +V VNGIL V + D I Sbjct: 148 RRFYNENFKEQPQRLSKVLAAAGVASRRTSEELIFDGKVTVNGILCNTPQTRVDPSRDII 207 Query: 61 EVDGVPLRKA-ERTRLWLYHKPIGLVTTH-----------SDPDGRSTVFDNLPSIFSRV 108 V+G + K + +KP G + + D S N + R+ Sbjct: 208 YVNGNRIPKKLPPKVYFALNKPKGYICSSGEKEIKSAISLFDEYLSSWDKRNPGTPKPRL 267 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELP 137 +VGRLD+ T GL+++TNDG A+ L P Sbjct: 268 FTVGRLDVATTGLIVVTNDGDFAQKLSHP 296 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 45/180 (25%), Positives = 84/180 (46%), Gaps = 21/180 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G++ S + ++ D++ + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIIFNKPCGVICQFSPHEKHPSLKDHIDAPGF--YPAGRLDTDSEGLLLLTDDGQLQARI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P + + Y + G D DKL LL++ + + ++ L +++ Sbjct: 62 TQPRFKVEKTYWAQLEGIPDTDKLQLLQRPMDLGDFTTRPAKIRLLSEEETDGLWPRNPP 121 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTRE 235 + W+ + + EGKNR+++++ + RLIR++ G L L G R Sbjct: 122 VRVRKTVPDFWLEIKISEGKNRQVRRMTAKAGYPCLRLIRVAIGRLNLFDEQLGLGEWRY 181 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 41/222 (18%), Positives = 87/222 (39%), Gaps = 19/222 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 16 GRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGM 75 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + ++ +W+ + + EG+NR+++++ + RLI Sbjct: 76 TLPAKAIKVSEPEWLWDRDPPVRYRASIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLI 135 Query: 217 RISYGPFQL--GTLLAGSTREVSKKILREQ--LGPHLLEEAQVNLDAPIYSSETLVRDRP 272 R G L L G T+E+ + + + ++ + P + + + Sbjct: 136 RTKIGTIDLVQLGLQPGETKEIEPLLYPDFKDVPAEQPYRSRSYVKKPGGTGGKPMVRKN 195 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 S R+ + + K P + + Sbjct: 196 KDGSAKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGRSR 237 >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 = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 41/185 (22%), Positives = 74/185 (40%), Gaps = 17/185 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + R + L ++ V + GRLD ++EGL++LT Sbjct: 55 RVDLQNRKVIIFNKPYDTLSQFTDGDGRKTLADYI---PVKDVYAAGRLDRDSEGLMVLT 111 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----- 180 NDG L L P ++ + Y V+ G + L L+KG+ ++ +V + Sbjct: 112 NDGILQAKLTQPKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAKVEVIDAPTI 171 Query: 181 ---------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RL+R S G LG L G Sbjct: 172 WERNPPVRFRANIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGDITLGDLQPG 231 Query: 232 STREV 236 +E+ Sbjct: 232 QWKEI 236 >gi|319762719|ref|YP_004126656.1| pseudouridine synthase [Alicycliphilus denitrificans BC] gi|317117280|gb|ADU99768.1| pseudouridine synthase [Alicycliphilus denitrificans BC] Length = 188 Score = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 81/178 (45%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL ++KP G+++ + + D + V GRLD ++EGLLLLT+ G L Sbjct: 6 RLIRFNKPYGVLSQFTPEGRWRGLKDFID--LPGVYVAGRLDADSEGLLLLTDSGPLQAR 63 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + + Y V+ G D L L++GI + +V Sbjct: 64 ISDPRHKMEKTYWVQVEGIPDDAALAALQRGITLNDGPTRPARVHRLEPPPALCPRDPPI 123 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++W+ + +REG+NR+++++ RL+R + GP+ L L G+ ++ Sbjct: 124 RVRRNIPDSWIELVIREGRNRQVRRMTAAVGHPTLRLVRAAIGPYTLDGLAPGAWDDI 181 >gi|298710181|emb|CBJ26256.1| pseudouridine synthase [Ectocarpus siliculosus] Length = 387 Score = 88.7 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 28/168 (16%), Positives = 56/168 (33%), Gaps = 1/168 (0%) Query: 173 GDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + W+ V LREGKNR+I+++ +++ RL RIS GP LG + G Sbjct: 139 QPVPWRFKPGTVATITWIEVVLREGKNRQIRRLCRRSEFELTRLHRISVGPIVLGDVEEG 198 Query: 232 STREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQ 291 S RE++++ + L E+ + + + + + + Sbjct: 199 SCRELTRQEVEALYKRCLPEDPLCPTIDAVQDILQSRLSQTARRIRTTAEVGGHRFKARE 258 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSP 339 + + P + A + + R Sbjct: 259 HSSAMDVPQKDMPERPTAEDAEQRRAAKARDGERGCPCRTTQGPGRRR 306 >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 = 88.3 bits (217), Expect = 1e-15, Method: Composition-based stats. Identities = 43/245 (17%), Positives = 82/245 (33%), Gaps = 30/245 (12%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + PS + + Y + G V ++ L L+ G+ + Sbjct: 38 GRLDLDSEGLMFLTDHGGLNQFITHPSNKKYKTYLAQVDGDVTEEALEQLRNGVELADGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPAKAMKVDEPEWLWDRDPPVRYRASIPTSWIELQICEGRNRQVRRMTAAVGFPTLRLI 157 Query: 217 RISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 R G L +R L P E + L R Sbjct: 158 RTQIGSINL---------------IRLGLQPGEQTEIEPLLFPDFKDLPEDKPYRSRSYV 202 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 + P + +K G K +R + ++ + + R Sbjct: 203 KKPGGTGGKPMHQKKKEGDKKDPNKKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGR 262 Query: 337 RSPSF 341 Sbjct: 263 SRNGR 267 >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 = 88.3 bits (217), Expect = 1e-15, Method: Composition-based stats. Identities = 50/234 (21%), Positives = 90/234 (38%), Gaps = 34/234 (14%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGG 129 TRL ++KP ++ +D + + L + GRLD ++EGLLLLT++G Sbjct: 1 MTRLIRFNKPYDVLPQFTDSGSQDSPRATLSKYIDCPGVYAAGRLDRDSEGLLLLTDNGR 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------------- 176 L + P + + Y V+ G DQ+ L L +G+ ++ + Sbjct: 61 LQAWITDPKHKMDKTYWVQVEGIPDQEALKNLAEGVELKDGITRPAKVRLMPEPTGLWAR 120 Query: 177 --VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++W+ + LREG+NR+++++ RLIR S G + L L G+ Sbjct: 121 TPPVRVRKTVPDSWIALTLREGRNRQVRRMTAAVGHPTLRLIRYSIGAWTLDGLAQGAW- 179 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKN 288 E+ + RP + P R ++ Sbjct: 180 ----------------EDVEPPRVPGPPKPSQKPPRRPKPSAARPPKGDRPRRR 217 >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 = 88.3 bits (217), Expect = 1e-15, Method: Composition-based stats. Identities = 47/184 (25%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 36 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPIQGV--YAAGRLDRDSEGLLVLTNNGA 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G Q+ L L+ G+ + Sbjct: 94 LQARLTQPGKRTGKIYYVQVEGIPTQEALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 153 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 154 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWR 213 Query: 235 EVSK 238 + + Sbjct: 214 DATD 217 >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 = 88.3 bits (217), Expect = 1e-15, Method: Composition-based stats. Identities = 42/222 (18%), Positives = 84/222 (37%), Gaps = 19/222 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 38 GRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 ++ +WV + + EG+NR+++++ + RLI Sbjct: 98 TLPATAIKVSEPEWLWERNPPVRYRANIPTSWVEISICEGRNRQVRRMTSAVGFPTLRLI 157 Query: 217 RISYGPFQLG--TLLAGSTREVSKKILREQLGPHLLE--EAQVNLDAPIYSSETLVRDRP 272 R G L L G +E+ + + E ++ + P + + + Sbjct: 158 RTKIGSIDLVQLGLRPGDVKEIEPLLYPDFKDVPAEEPYRSRSYVKKPGGTGGKPMVRKN 217 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 S R+ + + K P + Sbjct: 218 KDGSAKKSGTKRIWQMDESEKPRRKTNGTTRPNTKAPRGRGR 259 >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 = 88.3 bits (217), Expect = 1e-15, Method: Composition-based stats. Identities = 36/176 (20%), Positives = 72/176 (40%), Gaps = 14/176 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + V GRLD ++EGLL+LT+DG L Sbjct: 4 VILFNKPFGVLSQFTDAKSPTPRPTLSAFIDVPGVYPAGRLDRDSEGLLVLTDDGKLQAR 63 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + + Y V+ G+ + L+LL+ G+ ++ ++ L Sbjct: 64 IAAPKNKMSKTYFVQVEGEPTEKDLSLLRDGVTLKDGPTRPAKLRLIDPPQLWDRDPPVR 123 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + W+ + + EG+NR+++++ + RL+R G + L + +G+ E Sbjct: 124 FRKSVPDTWIEITISEGRNRQVRRMTAHIGFPTLRLVRWRIGNWTLDGIESGTWIE 179 >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 = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 46/186 (24%), Positives = 71/186 (38%), Gaps = 16/186 (8%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 + F + GRLD +EGLL+LT+DG L L P + Sbjct: 8 NKPYGVLTQFTGELPEQTLSAFIKFPGFYAAGRLDKQSEGLLVLTDDGKLQHRLTHPKFE 67 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------------TQKGSN 186 + Y V+ G L L+KG+VI+ I + + L + Sbjct: 68 KKKHYWVQVEGAPTDKDLQPLRKGLVIKDITFLPAEAKLISEPKIWPRIPPIRERKHIPT 127 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--EVSKKILREQ 244 W+ + LREGKN +I+K+ + RLIR G ++L L G + ++ L E Sbjct: 128 TWLEIILREGKNHQIRKMTAAIGFPTLRLIRHQIGDWRLDQLQPGEYKLINLTNDKLNEL 187 Query: 245 LGPHLL 250 Sbjct: 188 TRKSNP 193 >gi|190575386|ref|YP_001973231.1| putative RNA-binding protein [Stenotrophomonas maltophilia K279a] gi|190013308|emb|CAQ46942.1| putative RNA-binding protein [Stenotrophomonas maltophilia K279a] Length = 232 Score = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 38/238 (15%), Positives = 71/238 (29%), Gaps = 18/238 (7%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 P R+ K ++ R E R I V VNG ++E+ V I V + Sbjct: 2 EPIRLDKRLSALLGIPRGEARRYIEGGWVTVNGDVVEQPQRPVDDRAVIVVAEQASDEKA 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L +KP G+ S L + R + + L ++ G + Sbjct: 62 ERVSMLLNKPAGVAAETLCALVSSDSRSELDASDIRPLQRHFHGLQLAASLPASDSGLVV 121 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + + L+ R + + + + ++ + G +W Sbjct: 122 VSQDPATLAHLQRNLGRTEQEYLIE-----VAEGGPERGPWLMARLQQEAGGGKVSW--- 173 Query: 192 GLREGKNRE---------IKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 E + R ++ +V + R+ G LG L G R + Sbjct: 174 -QSEQRLRFAGKGLTAKGLRAAVTAAGLQVTGVRRLRIGRVALGPLPPGQWRYLGSDE 230 >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 = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 87/187 (46%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 34 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ D L L+ G+ + Sbjct: 92 GALQARLTQPGKRTGKIYYVQVESIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 151 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 152 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 211 Query: 233 TREVSKK 239 RE++++ Sbjct: 212 WREIAQE 218 >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 = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 42/178 (23%), Positives = 83/178 (46%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ L++KP G+++ +D + L GRLD ++EGL++LT+DG L Sbjct: 3 RVILFNKPYGVLSQFTDKGSEGSPRPTLSAYIDQPGFYPAGRLDRDSEGLMVLTDDGKLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT---------- 181 + P + + Y V+ G + +L +L+ G+ ++ + TL Sbjct: 63 ARISNPKHKMAKTYLVQVEGTPEPQQLEVLRAGVRLKDGMTKPAKATLACPPENLWERTP 122 Query: 182 -----QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++W+ + + EG+NR+++++ RLIR+ G + L L+ G+ R Sbjct: 123 PVRYRKTVPDSWLQISISEGRNRQVRRMTAHVGLPCLRLIRMRVGDWALNDLVPGAWR 180 >gi|327393520|dbj|BAK10942.1| ribosomal large subunit pseudouridine synthase E RluE [Pantoea ananatis AJ13355] Length = 219 Score = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 48/188 (25%), Positives = 88/188 (46%), Gaps = 17/188 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + R+ L++KP ++ +D GR T+ D + S V + GRLD ++EGL++L Sbjct: 31 KAIAPPAVRRVLLFNKPFDVLPQFTDEAGRRTLKDFID--VSEVYAAGRLDRDSEGLMVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + ++Y V+ G ++ L L+ G+ ++ Sbjct: 89 TNDGALQAALTQPGKRTGKIYYVQVEGAPEERDLQPLRDGVNLKDGLTLPAGIEKVAEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L EG+NR+++++ + RL+R + G F+L L Sbjct: 149 WLWARQPPIRERKAIPTQWLKITLYEGRNRQVRRMTAHIGFPTLRLVRYAMGDFELDNLA 208 Query: 230 AGSTREVS 237 G R++S Sbjct: 209 PGEWRDIS 216 >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 = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 45/195 (23%), Positives = 80/195 (41%), Gaps = 26/195 (13%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +++HKP G VT D + + R+ VGRLD T GLLL+T+DG Sbjct: 21 TMPHYYMFHKPFGCVTARRDDRYPTVMDYFEELQNDRLSPVGRLDRETTGLLLITDDGIF 80 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTL--------- 179 + L PS + Y G + + ++ L+ G++++ ++T+ Sbjct: 81 NQKLTHPSYHKEKTYEFTLLGDLTPELVHKLETGVILKGADTLTAPAKITVTGHAVMSDI 140 Query: 180 -----------DTQKGSNAWVT---VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 + + +T + + EGK R+I+++ + + V L RIS G L Sbjct: 141 LSTLPEEIQKDIHKNRPDHPITYGIITISEGKKRQIRRMMKSVHCCVIELKRISIGDIVL 200 Query: 226 GT-LLAGSTREVSKK 239 L G +E+ Sbjct: 201 DKALCPGEWKEIFPH 215 >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 = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 50/192 (26%), Positives = 87/192 (45%), Gaps = 16/192 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P R ++ L++KP ++T S G T+ D +P V GRLD ++EGLL+ Sbjct: 24 NKPKRPRGPRKIILFNKPFNVLTQFSGEPGDITLADFIP--VKDVYPAGRLDKDSEGLLV 81 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------- 175 LTNDG L L P ++ + Y V+ G ++ L L+KG+ ++ Sbjct: 82 LTNDGILQARLTQPKSKQPKTYWVQVEGAPSEESLQALRKGVELKDGMTLPAGVEVMSEP 141 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L+EG+NR+++++ RLIR + + L Sbjct: 142 NIWPRNPPIRERKNIPTTWLAITLKEGRNRQVRRMTAHIGHPTLRLIRYKMADWTVDDLE 201 Query: 230 AGSTREVSKKIL 241 G RE++ + L Sbjct: 202 PGQWREITLETL 213 >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 = 88.3 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 85/189 (44%), Gaps = 18/189 (9%) Query: 65 VPLRKA--ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 P+ K + L++KP ++ +D GR T+ D +P + GRLD ++EGLL Sbjct: 34 KPISKPSVANPVMVLFNKPFDVLCQFTDEAGRKTLKDFIPVPGV--YAAGRLDRDSEGLL 91 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------ 176 LLTNDG L P + + Y V+ G+ +Q ++ L G+ ++ + Sbjct: 92 LLTNDGKFQSKLTEPKQKTFKTYWVQVEGEPNQAAIDALCAGVELKDGMTLPAKVRLMAT 151 Query: 177 --------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + Q AW+ V + EG+NR+++++ RLIR G + L L Sbjct: 152 PDVWPRTPPVRERQSIPTAWLEVQICEGRNRQVRRMTAHVGHPTLRLIRYKIGQWSLDDL 211 Query: 229 LAGSTREVS 237 G + ++ Sbjct: 212 NNGDYKLLN 220 >gi|330910949|gb|EGH39459.1| ribosomal large subunit pseudouridine synthase E [Escherichia coli AA86] Length = 207 Score = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 47/184 (25%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 26 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPIQGV--YAAGRLDRDSEGLLVLTNNGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G Q+ L L+ G+ + Sbjct: 84 LQARLTQPGKRTGKIYYVQVEGIPTQEALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 144 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWR 203 Query: 235 EVSK 238 + + Sbjct: 204 DATD 207 >gi|281178245|dbj|BAI54575.1| conserved hypothetical protein [Escherichia coli SE15] Length = 217 Score = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 48/184 (26%), Positives = 86/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+LTN+G Sbjct: 36 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLTNNGA 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 94 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 153 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 154 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWR 213 Query: 235 EVSK 238 + + Sbjct: 214 DATD 217 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 47/184 (25%), Positives = 85/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L N+G Sbjct: 36 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLANNGA 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 94 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 153 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 154 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWR 213 Query: 235 EVSK 238 + + Sbjct: 214 DATD 217 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 48/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 208 Query: 230 AGSTREVSK 238 G R+ + Sbjct: 209 NGEWRDATD 217 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 55/211 (26%), Positives = 100/211 (47%), Gaps = 27/211 (12%) Query: 45 ILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + ER + RK T+L L++KP ++ +D GR T+ D +P Sbjct: 4 KIAERPSAKAAP-----------RKPAVTQLVLFNKPFDVLCQFTDEAGRQTLKDFIP-- 50 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 V + GRLD ++EGLLLLTNDG L L P Q + Y V+ G D+ L+ L++G Sbjct: 51 LPGVYAAGRLDRDSEGLLLLTNDGQLQSRLTEPKKQTYKTYWVQVEGIPDESALDKLREG 110 Query: 165 IVIQGICYGDMQ--------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + ++ + + + + W+ + + EG+NR+++++ + Sbjct: 111 VELKDGPTLPARVRRIDAPQIWPRNPPVRERKSIPDCWLEIQICEGRNRQVRRMTAHIGY 170 Query: 211 KVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 RL+R + G +LG L +G R++++ + Sbjct: 171 PTLRLVRAAIGEIRLGHLGSGEYRKLNRDEI 201 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 34 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 92 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 151 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 152 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 211 Query: 233 TREVSKK 239 RE++++ Sbjct: 212 WREIAQE 218 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 60/225 (26%), Positives = 101/225 (44%), Gaps = 4/225 (1%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--PLRKAERT 73 + + + RAG SRRE +IA +V+V+ ++ V + + I V+ LR A Sbjct: 345 LLRCLPRAGFCSRREALSIIASGQVRVDNVVERNPFRLVRAENSIHVESHSGRLRFAPPR 404 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + +V+ + ++ VG L + GLLLLTNDG L+R+ Sbjct: 405 LWMYHKPAYVIVSRNDVAGRTLMTKHARILGMDHLVPVGSLPMRAHGLLLLTNDGELSRL 464 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVG 192 LE P T + Y +R +D + L ++ G Y +++ ++ S + V Sbjct: 465 LENPKTMIQQTYLLRVRPAIDPVLAHKLNTEGILVNGNRYNNVEFFVNPAMKSRYSLKVK 524 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +R G+ + + + V R RIS+GPF + L GS REV+ Sbjct: 525 VR-GETMPVAHLMQHLGRTVERGGRISFGPFSMSGLPVGSIREVT 568 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 46/190 (24%), Positives = 70/190 (36%), Gaps = 16/190 (8%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 + F + GRLD +EGLL+LT+DG L L P + Sbjct: 8 NKPYGVLTQFTGELPEQTLSAFIKFPGFYAAGRLDKQSEGLLILTDDGKLQHRLTHPKFE 67 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------------TQKGSN 186 + Y V+ G L L+KG+VI+ I + + L + Sbjct: 68 KKKHYWVQVEGVPTDKDLQPLRKGLVIKDITFLPAEAKLISEPKIWPRIPPIRERKHIPT 127 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR--EVSKKILREQ 244 W+ + LREGKN +I+K+ + RLIR G + L L G + ++ L E Sbjct: 128 TWLGIILREGKNHQIRKMTAAIGFPTLRLIRYQIGDWHLDQLQPGEYKLINLTNDKLNEL 187 Query: 245 LGPHLLEEAQ 254 Sbjct: 188 TRKSNPRPES 197 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 41/177 (23%), Positives = 74/177 (41%), Gaps = 16/177 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP +++ + + L RV GRLD ++EGLL+LT+DG L Sbjct: 3 RLILFNKPYDVLSQFTGRGSADSPRATLSDFIDVPRVYPAGRLDRDSEGLLVLTDDGQLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------V 177 + P + + Y + G D L L++G+ + + Sbjct: 63 ARIANPRFKTEKTYFAQVEGLPDDATLAALRQGVTLNDGPTRPARVDRMEPPTLWPRTPP 122 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ + + EG+NR+++++ RLIR G + L + G R Sbjct: 123 VRFRKSVPDCWLKLTISEGRNRQVRRMTAHIGHPTLRLIRWRIGDWTLDGIGPGQWR 179 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 46/176 (26%), Positives = 80/176 (45%), Gaps = 17/176 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L++KP G+++ + + D + GRLD ++EGLLLL NDG L Sbjct: 34 RLILFNKPYGVLSQFTPEGRWRGLKDFIAIPGV--YVAGRLDADSEGLLLLANDGKLQAH 91 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VT 178 + P + ++Y V+ G + L L++G+ + + Sbjct: 92 IADPRFKMEKIYWVQVEGTPGEAALQALREGVALNDGPTRPARARLMDAPAALWQREPPV 151 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 Q AW+ +G+REG+NR+++++ + RL+R + G + L L GS R Sbjct: 152 RVRQSIPTAWIELGIREGRNRQVRRMTAAVGFPTLRLVRAAIGNWSLDGLAPGSWR 207 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 47/189 (24%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G +D L L+ G+ + Sbjct: 89 TNNGALQARLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLA 208 Query: 230 AGSTREVSK 238 G R+ + Sbjct: 209 NGEWRDATD 217 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 47/184 (25%), Positives = 85/184 (46%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L N+G Sbjct: 26 NQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVLANNGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G QD L L+ G+ + Sbjct: 84 LQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPAWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L G R Sbjct: 144 NPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLANGEWR 203 Query: 235 EVSK 238 + + Sbjct: 204 DATD 207 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 48/175 (27%), Positives = 82/175 (46%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA L Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRL 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G ++L L+ G+V+ QV + Sbjct: 62 TDPRHKQPKTYWVQVEGAPQPEQLQALRDGVVLNDGPTRSAQVRMLDPAPQLWPRDPPVR 121 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 122 VRKTVPDAWLELQITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDALAPGQWR 176 >gi|269468805|gb|EEZ80409.1| 16S rRNA uridine-516 pseudouridylate synthase [uncultured SUP05 cluster bacterium] Length = 174 Score = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 33/147 (22%), Positives = 63/147 (42%), Gaps = 15/147 (10%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + GRLD ++EGL++LT+DG L + P + Y V+ G + + + L Sbjct: 25 YIDIKNIYPAGRLDKDSEGLIVLTDDGKLQHQISHPKFDKEKTYVVQVEGSITDNAITQL 84 Query: 162 KKGIVIQGICYGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFE 206 +G+ ++ + + T+ +W+ + + EGKNR+++++ Sbjct: 85 CRGVALKDGMTKPAKAKIITKPSWVWDRIPPIRKRQNIPTSWIELSITEGKNRQVRRMSA 144 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGST 233 + RLIR G + L L G Sbjct: 145 HVGFPTLRLIRTEIGSWSLKRLPLGKY 171 >gi|237653664|ref|YP_002889978.1| pseudouridine synthase [Thauera sp. MZ1T] gi|237624911|gb|ACR01601.1| pseudouridine synthase [Thauera sp. MZ1T] Length = 229 Score = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 51/189 (26%), Positives = 89/189 (47%), Gaps = 17/189 (8%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 TRL L +KP G++ +D GR T+ D + + GRLD ++EGL+LLT DG Sbjct: 26 RAETRLLLLNKPFGVLCQFTDEAGRRTLKDYVEVPGV--YAAGRLDADSEGLVLLTGDGA 83 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L + P + + Y V+ G++D+ L +L+ G+ + Sbjct: 84 LQHRIADPRHKLAKTYLVQVEGEIDEAALAILRAGVDLGDFRSLPCAARRMPAPDWLWPR 143 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+ + L EGKNR+++++ + RL+R++ GP+ L L G R Sbjct: 144 DPPVRFRKSVPTSWIEIVLCEGKNRQVRRMTAKVDHPTLRLVRVAIGPWTLAGLGVGEWR 203 Query: 235 EVSKKILRE 243 E++ + E Sbjct: 204 ELAGAEIAE 212 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 41/222 (18%), Positives = 84/222 (37%), Gaps = 19/222 (8%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y V+ G V ++ L L+KG+ + Sbjct: 38 GRLDMDSEGLVFLTDHGGLNQFITNPANKKYKTYLVQVDGDVTEEALEQLRKGVELNDGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 ++ +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPATAIKVSEPEWLWERNPPVRFRANIPTSWIEISICEGRNRQVRRMTSAVGFPTLRLI 157 Query: 217 RISYGPFQL--GTLLAGSTREVSKKILREQLGPHLLE--EAQVNLDAPIYSSETLVRDRP 272 R G L L G +E+ + + E ++ + P + + + Sbjct: 158 RTKIGSIDLVQLGLKPGDVKEIEPLLYPDFKDVPAEEPYRSRSYVKKPGGTGGKPMVRKN 217 Query: 273 NIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNV 314 S R+ + + K P + Sbjct: 218 KDGSTKKSGTKRIWQMDEGEKPRRKTNGTTRPNAKAPRGRGR 259 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 40/187 (21%), Positives = 79/187 (42%), Gaps = 21/187 (11%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ L + + L ++++GRLD ++EGLLLLT DG + Sbjct: 21 PHQDYKIFKPHGFLSQFVPETKKNKKLLGELAQFPVGIMAIGRLDHDSEGLLLLTTDGMV 80 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQ---------- 176 + + + + Y V+ G +D + + L++G+ I + + Sbjct: 81 SHRVRSK--KVEKEYYVQVDGIIDDEAIIRLQQGVEIGIKGEKYLTLPCKVVKLDGEPNL 138 Query: 177 -----VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 D + G +WV++ + EGKNR+I+K+ + RL+R+ G L + G Sbjct: 139 PDNGRRVRDPRHGPLSWVSITISEGKNRQIRKMTAAAGFPTMRLVRVRIGNIHLSDMQPG 198 Query: 232 STREVSK 238 E+++ Sbjct: 199 EVFELTQ 205 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 50/182 (27%), Positives = 87/182 (47%), Gaps = 17/182 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ +L L +KP G+++ + +G T+ +P V GRLD ++EGLLLLTND Sbjct: 6 KRPANPKLVLLNKPYGVLSQFTGEEGDQTLKPFIPHN--DVYPAGRLDKDSEGLLLLTND 63 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ----------- 176 G L P + + Y V+ G +++L L+ G+ + + Sbjct: 64 GVYQARLANPKYKVWKTYWVQVEGDPSEEQLEQLRNGVELNDGMTRPAEAFVMPEPMNLW 123 Query: 177 ----VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + ++W+ + +REGKNR+++++ RLIR + GPFQL T+ G Sbjct: 124 PRNPPVRERKSVPDSWLCLKIREGKNRQVRRMTAHVGLPTLRLIRAAVGPFQLKTMQPGE 183 Query: 233 TR 234 R Sbjct: 184 WR 185 >gi|289811254|ref|ZP_06541883.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 114 Score = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 20/113 (17%), Positives = 40/113 (35%), Gaps = 7/113 (6%) Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWV 189 + P + Y V V D KG+ + + + + V Sbjct: 2 HRITSPRHHCEKTYLVTLESPVADDTAAQFAKGVQLHNEKDLTKPATLEVI----TPVQV 57 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 58 RLTISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 110 >gi|328473240|gb|EGF44088.1| pseudouridine synthase family 1 protein [Vibrio parahaemolyticus 10329] Length = 232 Score = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 89/187 (47%), Gaps = 16/187 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P + ++ +++KP ++ +D DGR T+ D +P V + GRLD ++EGL++ Sbjct: 46 NKPRVVLQNRKVIVFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLMV 103 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--- 180 LTNDG L L P ++ + Y V+ G + L L+KG+ ++ +V + Sbjct: 104 LTNDGILQAKLTQPKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAKVEVIDAP 163 Query: 181 -----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 W+ + + EG+NR+++++ + RL+R S G LG L Sbjct: 164 TIWERNPPVRFRANIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGDITLGDLQ 223 Query: 230 AGSTREV 236 G +E+ Sbjct: 224 PGQWKEI 230 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 42/219 (19%), Positives = 84/219 (38%), Gaps = 17/219 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 RL ++KP ++ +D + L GRLD ++EGL+LLT++G L Sbjct: 3 RLIRFNKPFDVLPQFTDRGSEGSPRATLSDYVDCPGVYPAGRLDRDSEGLMLLTDNGRLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------- 176 + P + + Y V+ G +D L L++G+ ++ + Sbjct: 63 AWISDPKHKLEKTYWVQVEGIPTEDALKALRQGVDLKDGMTRPAKAELISEPAQLWARTP 122 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + AW+ + + EGKNR+++++ + RLIR + G + L L G ++ Sbjct: 123 PIRERKSVPTAWLELKISEGKNRQVRRMTAAMGYPTLRLIRYAIGAWTLDGLAQGKWDDL 182 Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII 275 + P + ++ + Sbjct: 183 DPPRVPGPPKPAAKPHRKHAAKRRATATPARKPRQRRDG 221 >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 = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 88/188 (46%), Gaps = 17/188 (9%) Query: 65 VPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 92 KPVQSQTLAPIIVLFNKPFDVLCQFTDEQGRKTLKDYIPIA--DVYAAGRLDRDSEGLLL 149 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y V+ G +D L L++G+ + +V + Sbjct: 150 LTNDGQLQARLTEPKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSP 209 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 210 DIGPRNPPVRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLP 269 Query: 230 AGSTREVS 237 +G + + Sbjct: 270 SGEHKCIR 277 >gi|153000988|ref|YP_001366669.1| pseudouridine synthase [Shewanella baltica OS185] gi|151365606|gb|ABS08606.1| pseudouridine synthase [Shewanella baltica OS185] Length = 282 Score = 87.9 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 88/188 (46%), Gaps = 17/188 (9%) Query: 65 VPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 92 KPVQSQTLAPIIVLFNKPFDVLCQFTDEQGRKTLKDYIPIA--DVYAAGRLDRDSEGLLL 149 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y V+ G +D L L++G+ + +V + Sbjct: 150 LTNDGQLQARLTEPKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSP 209 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 210 DIWPRNPPVRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLP 269 Query: 230 AGSTREVS 237 +G + + Sbjct: 270 SGEHKCIR 277 >gi|162138450|ref|YP_540277.2| 23S rRNA pseudouridine synthase E [Escherichia coli UTI89] Length = 207 Score = 87.5 bits (215), Expect = 2e-15, Method: Composition-based stats. Identities = 48/189 (25%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G QD L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVEEPA 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLA 198 Query: 230 AGSTREVSK 238 G R+ + Sbjct: 199 NGEWRDATD 207 >gi|238910944|ref|ZP_04654781.1| ribosomal large subunit pseudouridine synthase E [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] Length = 211 Score = 87.5 bits (215), Expect = 2e-15, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 88/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 24 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAEGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 82 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+NR+++++ RLIR S G + L L G Sbjct: 142 PRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 201 Query: 233 TREVSKK 239 RE++++ Sbjct: 202 WREIAQE 208 >gi|217973052|ref|YP_002357803.1| pseudouridine synthase [Shewanella baltica OS223] gi|217498187|gb|ACK46380.1| pseudouridine synthase [Shewanella baltica OS223] Length = 282 Score = 87.5 bits (215), Expect = 2e-15, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 88/188 (46%), Gaps = 17/188 (9%) Query: 65 VPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 92 KPVQSQTLAPIIVLFNKPFDVLCQFTDEQGRKTLKDYIPIA--DVYAAGRLDRDSEGLLL 149 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y V+ G +D L L++G+ + +V + Sbjct: 150 LTNDGQLQARLTEPKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSP 209 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 210 DIGPRNPPVRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLP 269 Query: 230 AGSTREVS 237 +G + + Sbjct: 270 SGEHKCIR 277 >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 = 87.5 bits (215), Expect = 2e-15, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 88/188 (46%), Gaps = 17/188 (9%) Query: 65 VPLRKAER-TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 92 KPVQSQTIAPIIVLFNKPFDVLCQFTDEQGRKTLKDYIPIA--DVYAAGRLDRDSEGLLL 149 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y V+ G +D L L++G+ + +V + Sbjct: 150 LTNDGQLQARLTEPKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSP 209 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 210 DIWPRNPPVRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLP 269 Query: 230 AGSTREVS 237 +G + + Sbjct: 270 SGEHKCIR 277 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 51/189 (26%), Positives = 92/189 (48%), Gaps = 16/189 (8%) Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + P + ++ +++KP ++ +D DGR T+ D +P V + GRLD ++EGL+ Sbjct: 46 NQKPKVDPKDRKVIIFNKPYDTLSQFTDGDGRKTLADYIP--VKDVYAAGRLDRDSEGLM 103 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LTNDG L L P ++ + Y V+ G + L L+KG+ ++ +V + + Sbjct: 104 VLTNDGILQAKLTQPKSKSPKTYWVQVDGAPLEQDLEKLRKGVELKDGMTLPAEVEVIPE 163 Query: 183 --------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EG+NR+++++ + RLIR S G L L Sbjct: 164 PQVWDRTPPVRFRANIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLIRHSMGDIVLKDL 223 Query: 229 LAGSTREVS 237 + G RE+S Sbjct: 224 MPGEWREIS 232 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 39/144 (27%), Positives = 65/144 (45%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + +VY V+ G+ D+ L +G+ ++ Sbjct: 68 YAAGRLDRDSEGLLVLTNDGRLQAQLTQPGKRTGKVYYVQVEGEPDEADLRRFCQGLTLK 127 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 128 DGPTLPALAERVAQPEWLWPRNPPIRERKNIPTSWLKITLYEGRNRQVRRMTAHIGYPTL 187 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S G L L G R + Sbjct: 188 RLIRYSMGSLTLQDLAPGEWRLID 211 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 55/186 (29%), Positives = 87/186 (46%), Gaps = 17/186 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + R L+ KP G+++ +D +GR T+ D + V VGRLD+++EGLLLLTNDG Sbjct: 2 RKPVRHILFWKPYGVLSQFTDREGRPTLKDYID--VPDVYPVGRLDMDSEGLLLLTNDGL 59 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI-CYGDMQVTLD-------- 180 L L P R Y + D + L L +G+VI G +V Sbjct: 60 LKYRLLHPRYGHWRTYWAQVERIPDDEALRRLAEGVVIAGGYRTRPARVRRIEPPELPPR 119 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + +REGKNR+++++ RL+R++ GP +L L G R Sbjct: 120 PVPIRYRKTVPTYWLEISIREGKNRQVRRMTAAVGHPTLRLVRVAIGPLRLDGLEPGHWR 179 Query: 235 EVSKKI 240 ++ Sbjct: 180 PLTPDE 185 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 83/178 (46%), Gaps = 16/178 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP G+++ +D + L + GRLD ++EGLLLLT+DG L Sbjct: 3 RLLLFNKPFGVLSQFTDRGTADSPRATLSDHINIPGVYPAGRLDRDSEGLLLLTDDGRLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 + P + + Y V+ G+ D L L++G+ ++ Q Sbjct: 63 ARISHPKFKAPKTYLVQVEGEPDDAALAALRRGVTLKDGPTRPAQAERIAPPDLWPRDPP 122 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + ++W+ + + EG+NR+++++ + RL+R S G + L + G+ +E Sbjct: 123 VRYRKSVPDSWLRLTITEGRNRQVRRMTAHVGYPTLRLVRWSVGDWTLDGIAPGTWQE 180 >gi|312945697|gb|ADR26524.1| 23S rRNA pseudouridine synthase E [Escherichia coli O83:H1 str. NRG 857C] Length = 207 Score = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 47/189 (24%), Positives = 87/189 (46%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + TR+ L++KP ++ +D GR T+ + +P + GRLD ++EGLL+L Sbjct: 21 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGV--YAAGRLDRDSEGLLVL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN+G L L P + ++Y V+ G +D L L+ G+ + Sbjct: 79 TNNGALQARLTQPGKRTGKIYYVQVEGIPTEDALEALRNGVTLNDGPTLPAGAEMVEEPE 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 139 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGNYSLDNLA 198 Query: 230 AGSTREVSK 238 G R+ + Sbjct: 199 NGEWRDATD 207 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 43/179 (24%), Positives = 79/179 (44%), Gaps = 17/179 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G+++ + + + + V GRLD ++EGLL+LT+DG L + Sbjct: 4 LVFFNKPYGVLSQFTPEGKWRALNEFIT--VKDVYVAGRLDADSEGLLILTDDGKLQAKI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------------ 182 P + + Y + G D+ L+ L+ GI + +V L + Sbjct: 62 ADPRHKLEKTYWAQVEGVPDEAALDRLRAGIELSDFTAKPAKVRLIDEPAGLWQRDPPIR 121 Query: 183 ---KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 +W+ + + EGKNR+++++ + RLIR + G L L G R++ Sbjct: 122 FRAAIPTSWLEIRISEGKNRQVRRMTAAIGYPTLRLIRAAIGAATLDGLALGQWRKIDG 180 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 33/177 (18%), Positives = 61/177 (34%), Gaps = 4/177 (2%) Query: 62 VDGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 +DG + + L + + +VGRLD +T Sbjct: 18 IDGEAVTVVPEPYFYILLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTT 77 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G+LL+TNDG L L PS + ++Y V + LK G+ + Sbjct: 78 GVLLITNDGKLNHNLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVPLHDENETVCAADA 137 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + + + EGK ++K++ + L R + + L G + + Sbjct: 138 VLENP--TTLLLTITEGKYHQVKRMVAAAGNRAQHLHRRRFAHLETENLKPGEWKFI 192 >gi|104783740|ref|YP_610238.1| pseudouridylate synthase [Pseudomonas entomophila L48] gi|95112727|emb|CAK17455.1| pseudouridylate synthase [Pseudomonas entomophila L48] Length = 209 Score = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 52/186 (27%), Positives = 89/186 (47%), Gaps = 16/186 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P RL L++KP ++T SD +GR+T+ D + GRLD ++EGLLLL Sbjct: 22 QPKAPPAEPRLILFNKPFDVLTQFSDGEGRATLKDFIDIPGI--YPAGRLDRDSEGLLLL 79 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---- 180 TNDG L + P + + Y V+ G+ +++L L++G+ + + L Sbjct: 80 TNDGRLQARIADPKHKLAKTYWVQVEGEPSEEQLKRLREGVELNDGPTLPAEARLLEEPE 139 Query: 181 ----------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + AW+ + +REG+NR+++++ RL+R+ G + + L Sbjct: 140 LWPRNPPVRFRKSVPTAWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIEGLEQ 199 Query: 231 GSTREV 236 G REV Sbjct: 200 GCWREV 205 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 43/176 (24%), Positives = 79/176 (44%), Gaps = 17/176 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ L +KP ++ +D +GR T+ +P + GRLD ++EGL++LT+DG L Sbjct: 1 MPRIILLNKPFDVLCQFTDREGRRTLAVYVPEPGV--YAAGRLDRDSEGLVVLTDDGRLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--------- 182 + P + + Y V+ G D L L +G+ ++ +V + + Sbjct: 59 ARISDPKHKMSKTYWVQVEGVPDAQALKALAEGVELKDGLTLPARVKIIDEPPGLWPRDP 118 Query: 183 ------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 +W+ + + EG+NR+++++ RLIR G + L L G Sbjct: 119 PIRVRQSIPTSWLELTISEGRNRQVRRMTAAVGHPTLRLIRYRVGSWTLDGLGPGE 174 >gi|253995971|ref|YP_003048035.1| pseudouridine synthase [Methylotenera mobilis JLW8] gi|253982650|gb|ACT47508.1| pseudouridine synthase [Methylotenera mobilis JLW8] Length = 184 Score = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 36/176 (20%), Positives = 69/176 (39%), Gaps = 15/176 (8%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 ++ S V + GRLD ++EGLL+LT+DG L L Sbjct: 8 PFNVVCQFSPHDSPNPDNRHATLKDFIPIPDVYAAGRLDTDSEGLLILTDDGALQHRLSH 67 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTLDT 181 P + ++ Y V+ G + L L+ G+ + + + Sbjct: 68 PKHKEIKTYWVQVEGAPSDEALQPLRVGVDLGDFITQPAEVSVMNEPAGIWLRNPPIRER 127 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + W+ + + EGKNR+++++ + RLIR + G + L + G + ++ Sbjct: 128 KAIPTTWLQIKISEGKNRQVRRMTAKVGFPTLRLIRYAIGRYTLDGIANGEYKVLT 183 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 52/178 (29%), Positives = 92/178 (51%), Gaps = 17/178 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP ++T +D +GR T+ D + V + GRLD ++EGLLLLT+DG L +L Sbjct: 2 IILFNKPFDVLTKFTDSEGRKTLKDYIEIP--NVYAAGRLDKDSEGLLLLTDDGKLNHLL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P ++ + Y V+ G+ + L+KG++++ +V L Sbjct: 60 TDPKSKSFKTYLVQVEGEFSIEAAQKLEKGVLLKDGKTLPAKVKLIDEPEWLWERTPPIR 119 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +WV + ++EGKNR+I+++ + RLIR S G + LG L +G + + Sbjct: 120 ERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTLRLIRWSIGQYTLGNLKSGDYKIIK 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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 40/175 (22%), Positives = 68/175 (38%), Gaps = 14/175 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + L + V GRLD ++EGLL+LT+DG L Sbjct: 4 VILFNKPFGVLSQFTDTRSPTERPTLSRYVDVPAVYPAGRLDRDSEGLLVLTDDGRLQAR 63 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------------QVTL 179 + P + +VY + G D D L L++G+ ++ Sbjct: 64 IASPKARTEKVYLAQVEGDPDDDALAPLRRGLELKDGPTRPAVARLIEPPALWERDPPVR 123 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + WV V + EG+NR+++++ + V RL+R G + L L G+ R Sbjct: 124 FRKSVPDRWVEVTITEGRNRQVRRMCAAIGFPVLRLVRWRVGDWTLEGLAPGAWR 178 >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 = 87.5 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 91/187 (48%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R+++ L++KP ++T +D GR T+ D +P + + GRLD ++EGLL+L Sbjct: 8 KRKAPIRRSKIVLFNKPFNVLTQFTDATGRQTLKDFIPIP--DIYAAGRLDKDSEGLLVL 65 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P + + Y V+ G+ + +L L+ G+ ++ +V + Sbjct: 66 TNDGKLQHKLTDPKKKTSKTYWVQVEGEPQEYQLQALRDGVALKDGMTRPAKVERMQEPS 125 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 +W+ + + EGKNR+++++ + RL+R G + L + + Sbjct: 126 LWARNPPVRFRQSIPTSWLAITISEGKNRQVRRMTAHIGFPTLRLVRYRVGNWTLDGIAS 185 Query: 231 GSTREVS 237 G+ RE+ Sbjct: 186 GTYRELD 192 >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 = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 51/188 (27%), Positives = 84/188 (44%), Gaps = 16/188 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P R ++ L++KP +T S G ST+ D +P V GRLD ++EGLL+ Sbjct: 24 NKPKRARGPQKIILFNKPFNTLTQFSGEPGDSTLADFIP--VKDVYPAGRLDKDSEGLLV 81 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------- 175 LTNDG L L P ++ +VY V+ G + L L+ G+ ++ Sbjct: 82 LTNDGVLQARLTQPKSKQAKVYWVQVEGTPTEANLQALRDGVELKDGMTLPAGVEVIESP 141 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L+EG+NR+++++ RLIR + + L Sbjct: 142 IVWDRNPPIRERKSIPTTWLAITLKEGRNRQVRRMTAHIGHPTLRLIRYQMAQWTVNDLA 201 Query: 230 AGSTREVS 237 G REV+ Sbjct: 202 PGEWREVT 209 >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 = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 37/144 (25%), Positives = 63/144 (43%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + +VY V+ G+ + L +G+ ++ Sbjct: 30 YAAGRLDRDSEGLLVLTNDGRLQAQLTQPGKRTGKVYYVQVEGEPSEADLQRFCQGLTLK 89 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 90 DGPTLPALAERVAQPDWLWPRNPPIRERKNIPTSWLKITLYEGRNRQVRRMTAHIGYPTL 149 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S L L G R + Sbjct: 150 RLIRYSMDSLTLQDLAPGEWRRID 173 >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 = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 44/180 (24%), Positives = 82/180 (45%), Gaps = 16/180 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 ++ L++KP ++ +D GR T+ D + + + GRLD ++EGLL+LTNDG Sbjct: 39 AKSEQKIVLFNKPFDVLCQFTDEAGRQTLADFIDIK--DIYAAGRLDRDSEGLLVLTNDG 96 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------- 181 L L P + + Y V+ G + + L +G+ ++ QV L Sbjct: 97 QLQNKLASPKHKTSKTYWVQVEGIPSAEAIKSLCQGVELKDGPTLPAQVELMHAPDIWPR 156 Query: 182 -------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +W+++ L EG+NR+++++ RLIR G + + + G + Sbjct: 157 NPPIRERKNIPTSWLSITLTEGRNRQVRRMTAHIGHPTLRLIRYRIGHWTIDGIENGQFK 216 >gi|311694975|gb|ADP97848.1| RNA pseudouridylate synthase [marine bacterium HP15] Length = 175 Score = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 37/149 (24%), Positives = 66/149 (44%), Gaps = 14/149 (9%) Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + GRLD ++EGLLLLT +G L + PS + + Y V+ G + ++ L L Sbjct: 1 MHIPGIYPAGRLDYDSEGLLLLTAEGSLQHRIASPSLKMPKTYWVQVEGNISEEALRHLA 60 Query: 163 KGIVIQGICYGDMQ--------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 G+ ++ + +W+ + + EGKNR+++++ Sbjct: 61 SGVQLKDGLTRPAKADRMPAPTVWPRVPPVRHRDNIPTSWIELTITEGKNRQVRRMTAAV 120 Query: 209 NWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RLIR G + L L +G+ R V+ Sbjct: 121 GFPTLRLIRYRIGDWTLDGLESGAHRTVT 149 >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 = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 45/180 (25%), Positives = 84/180 (46%), Gaps = 16/180 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ +++KP G++T +D + + I GRLD ++EGL++LT+DG L Sbjct: 3 RIIVFNKPYGVLTQFTDREHGRATLADFIPIPGVR-PAGRLDRDSEGLIVLTDDGRLQAR 61 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----------- 182 + P + + YRV+ G D+ LN L++G+ + + + + Sbjct: 62 IADPRHKMAKTYRVQVEGLPDEAALNRLRRGVRLNDGLTLPAEANIIPEPAWLWPRDPPV 121 Query: 183 ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W+ + +REG+NR+++++ + RLIR + G + L L G RE+ Sbjct: 122 RFRATIPTTWLELVIREGRNRQVRRMTAAVGFPTLRLIRWAIGAWTLEGLAPGEWRELPP 181 >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 = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 46/185 (24%), Positives = 83/185 (44%), Gaps = 16/185 (8%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 28 PPAEPKLILFNKPFDVLTQFSDEGGRATLKDFIDIPGI--YPAGRLDRDSEGLLLLTNDG 85 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++ L L+ G+ + + Sbjct: 86 QLQARIADPKHKLAKTYWVQVEGEPTEEHLQRLRDGVELNDGKTLPAEARRLDEPQLWPR 145 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + W+ + +REG+NR+++++ RL+R+ G + + L G + Sbjct: 146 NPPVRFRKNIPTYWLELVIREGRNRQVRRMTAAVGLPTLRLVRVRIGDWTIDGLDQGQWK 205 Query: 235 EVSKK 239 V + Sbjct: 206 AVPAR 210 >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 = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 40/159 (25%), Positives = 71/159 (44%), Gaps = 18/159 (11%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 GRLD ++EGLLLLT++G L + P + + Y V+ G+ D + L L+ G+ + Sbjct: 39 FYPAGRLDYDSEGLLLLTDEGSLQHRISEPKMKLAKTYWVQVEGEPDSEALAQLRGGVDL 98 Query: 168 QGICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + QV L + +W+ + + EG+NR+++++ Sbjct: 99 KDGRTHPAQVKLLETPTLWERTPPVRHRAQIPTSWLELKISEGRNRQVRRMTAAVGHPTL 158 Query: 214 RLIRISYGPFQLGTLLAGSTR----EVSKKILREQLGPH 248 RLIR + G +QL L G R + + ++ G Sbjct: 159 RLIRYAIGSWQLAGLQPGEHRWDEVHLPQSERKKPHGMA 197 >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 = 87.2 bits (214), Expect = 3e-15, Method: Composition-based stats. Identities = 49/254 (19%), Positives = 95/254 (37%), Gaps = 31/254 (12%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T+L L++KP ++T +D GR T+ D++ +V GRLD ++EGLLLLT+ G L Sbjct: 1 MTQLILFNKPYDVLTQFTDSAGRRTLKDHID--LEQVYPAGRLDRDSEGLLLLTDSGPLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------V 177 ++ P + + Y V+ D+ L L+ G+ ++ + Sbjct: 59 HLIANPKFKLEKTYWVQVENIPDETALQQLRDGVELKDGLTLPAKARLIDPPPVWPRTPP 118 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+ + ++EG+NR+++++ RLIR S + L L G Sbjct: 119 IRERKSIPTQWLELKIQEGRNRQVRRMTAAIGCPTLRLIRYSIDIWTLDNLSQGQW---- 174 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + R R + R + + Sbjct: 175 -----------QAAPDADMIKWRNDLETKNNRRRRDPTQRSVPAGRRRNPRKTDLKPARR 223 Query: 298 QKKLATPVHRRNLA 311 + ++R + + Sbjct: 224 SSRTRRKLNRGSDS 237 >gi|262190430|ref|ZP_06048686.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae CT 5369-93] gi|262033696|gb|EEY52180.1| ribosomal small subunit pseudouridine synthase A [Vibrio cholerae CT 5369-93] Length = 99 Score = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 7/98 (7%) Query: 147 VRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + D +GI ++G Q+ + S V + + EGK ++K++ Sbjct: 1 MWLADPIQADYAEQFNRGIELRGEREMTLPAQLEVI----SETEVLLTIHEGKYHQVKRM 56 Query: 205 FEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 F KV L R G L L G R ++++ + Sbjct: 57 FAALGNKVIGLHRERIGQITLDETLEPGEYRYLTEEEV 94 >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 = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 36/142 (25%), Positives = 69/142 (48%), Gaps = 15/142 (10%) Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 GRLD ++EGL++LT++G L + P + + Y V+ G D +N L++G+ + Sbjct: 39 FYPAGRLDRDSEGLIVLTDNGALQARISHPKYKLAKTYWVQVEGTPDDAAINALRQGVTL 98 Query: 168 QGICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + +V+L + +AW+++ + EG+NR+++++ Sbjct: 99 KDGKTAPAKVSLIDTPAGLWDRDPPVRFRKSVPDAWLSITITEGRNRQVRRMTAHVGLPT 158 Query: 213 NRLIRISYGPFQLGTLLAGSTR 234 RLIR G +QL + G+ R Sbjct: 159 LRLIRAQIGDWQLNAMRPGTWR 180 >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 = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 42/144 (29%), Positives = 73/144 (50%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLLLLT+DG L +L P ++ + Y V+ G+ + L+KG++++ Sbjct: 34 YAAGRLDKDSEGLLLLTDDGKLNHLLTDPKSKSFKTYLVQVEGEFSIEAAQKLEKGVLLK 93 Query: 169 GICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +V L + +WV + ++EGKNR+I+++ + Sbjct: 94 DGKTLPAKVKLIDEPEWLWERTPPIRERKAIPTSWVEISIKEGKNRQIRRMTAAVGFPTL 153 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR S G + LG L +G + + Sbjct: 154 RLIRWSIGQYTLGNLKSGDYKIIK 177 >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 = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 51/188 (27%), Positives = 85/188 (45%), Gaps = 16/188 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P R ++ L++KP +T S G ST+ D +P V GRLD ++EGLL+ Sbjct: 24 NKPKRARGPQKIILFNKPFNTLTQFSGEPGDSTLADFIP--VKDVYPAGRLDKDSEGLLV 81 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------- 175 LTNDG L L P ++ +VY V+ G + L L+ G+ ++ Sbjct: 82 LTNDGVLQARLTQPKSKQAKVYWVQVEGAPTEADLQALRDGVELKDGMTLPAGVEVIESP 141 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L+EG+NR+++++ + RLIR + + L Sbjct: 142 QIWDRNPPIRERKNIPTTWLAITLKEGRNRQVRRMTAHIGFPTLRLIRYKMAQWTVDDLA 201 Query: 230 AGSTREVS 237 G REV+ Sbjct: 202 PGEWREVT 209 >gi|289807291|ref|ZP_06537920.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 153 Score = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 39/146 (26%), Positives = 65/146 (44%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + ++Y V+ G D L L+ G+ + Sbjct: 5 YAAGRLDRDSEGLLVLTNDGALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLN 64 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ V L EG+N +++++ Sbjct: 65 DGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTL 124 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR S G + L L G E++++ Sbjct: 125 RLIRYSMGDYTLNGLDNGQWCEIAQE 150 >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 = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 36/146 (24%), Positives = 63/146 (43%), Gaps = 14/146 (9%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + GRLD ++EGLLLLT+DG L + P + + Y V+ G ++ L L Sbjct: 35 WINQPGIYPAGRLDYDSEGLLLLTSDGQLQHCIASPRGKMEKTYWVQVEGTINPQTLRQL 94 Query: 162 KKGIVIQGICYGDM--------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 ++G+ ++ Q +W+ + + EG+NR+++++ Sbjct: 95 EQGVQLKDGLTRPALARAMDEPVIWLRTPPVRFRQNIPTSWLELTICEGRNRQVRRMTAA 154 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGST 233 + RLIR G + LG L G Sbjct: 155 LGFPTLRLIRYRIGDWSLGLLEPGQY 180 >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 = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 41/185 (22%), Positives = 74/185 (40%), Gaps = 17/185 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + R + L ++ V + GRLD ++EGL++LT Sbjct: 49 RVDLKNRKVIIFNKPYDTLSQFTDGDGRKTLADYI---PVKDVYAAGRLDRDSEGLMVLT 105 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----- 180 NDG L L P ++ + Y V+ G + L L+KG+ ++ +V + Sbjct: 106 NDGILQAKLTQPKSKSPKTYWVQVDGAPQEQDLEKLRKGVELKDGMTLPAKVEVIDAPTI 165 Query: 181 ---------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RL+R S G LG L G Sbjct: 166 WERNPPVRFRANIPTTWLAITIVEGRNRQVRRMTAHIGFPTLRLVRYSMGDITLGGLQPG 225 Query: 232 STREV 236 +E+ Sbjct: 226 QWKEI 230 >gi|20807974|ref|NP_623145.1| pseudouridylate synthase, 23S RNA-specific [Thermoanaerobacter tengcongensis MB4] gi|20516547|gb|AAM24749.1| Pseudouridylate synthase, 23S RNA-specific [Thermoanaerobacter tengcongensis MB4] Length = 309 Score = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 29/240 (12%), Positives = 65/240 (27%), Gaps = 35/240 (14%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP- 66 ++ +R+ +A SR ++++I + V VNG ++ + V D + V+ Sbjct: 12 EKEDEGKRIDVFLASELDYSRSYIKKLIEEGLVLVNGKNVK-PSYKVKEDDEVIVNIKEA 70 Query: 67 -------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 + + + + +V + V L + G Sbjct: 71 EKIEVVPENIPLDILYEDEDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGINGI 130 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 L L G + + L Sbjct: 131 LRPGIVHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKYVAIVEGVIKEEEGKIEAP 190 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K+ V+Q Y + + +N +V ++ G+ +I+ + V Sbjct: 191 IGRHPVDRKRMAVVQDGRYALTLYKVLERFKNNTFVEATIKTGRTHQIRVHLSYIGHPVV 250 >gi|325181474|emb|CCA15908.1| ribosomal large subunit pseudouridine synthase F put [Albugo laibachii Nc14] Length = 248 Score = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 51/213 (23%), Positives = 93/213 (43%), Gaps = 25/213 (11%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYH 79 +A + SRR+ ER I+ V VNG +++ + + +E G ++ ++ + + Sbjct: 1 MAERKMCSRRDAERYISAGDVYVNGEQIQQDWIKIPRDSCVEFSGKAVKAEKQKVSVILN 60 Query: 80 KPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---------------VGRLDINTEGLLLL 124 KP+G V++ +P + + ++ + GRLDIN+ GLLL Sbjct: 61 KPLGYVSSQPEPMRKPAIELLSIQNAFQLTARWYGKEPKSLSKLAVCGRLDINSTGLLLF 120 Query: 125 TNDGGLARVLELPSTQWLRVYRVR------FHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 T DG LA+ + P+ + Y VR + ++ ++ L++G + ICY V Sbjct: 121 TQDGVLAKQILDPNGGVEKEYLVRVDMDLERDTKQAEEVVDKLREGFIWNDICYRARSVR 180 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + L EGK R I+ + E K Sbjct: 181 VLNANQ----LQFILTEGKKRHIRYMCEAVGIK 209 >gi|304397253|ref|ZP_07379132.1| pseudouridine synthase [Pantoea sp. aB] gi|304355402|gb|EFM19770.1| pseudouridine synthase [Pantoea sp. aB] Length = 184 Score = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + +VY V+ G+ + L L+ G+ ++ Sbjct: 37 YAAGRLDRDSEGLMVLTNDGALQAALTQPGKRTGKVYYVQVEGEPQEADLQPLRDGVNLK 96 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + W+ V L EG+NR+++++ + Sbjct: 97 DGMTLPAGIEKVPEPQWLWPRQPPIRERKNIPTQWLKVTLYEGRNRQVRRMTAHIGFPTL 156 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR + G + L L G+ RE+S Sbjct: 157 RLIRYAMGQYSLDDLAPGAWRELS 180 >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 = 87.2 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 84/187 (44%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P R ++ L++KP ++T S G T+ D + + GRLD ++EGLL+L Sbjct: 25 NPKRPRGPQKIILFNKPFNVLTQFSGEPGDKTLADYISIK--DIYPAGRLDKDSEGLLVL 82 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TNDG L L P ++ + Y V+ G D L L+KG+ ++ Sbjct: 83 TNDGILQARLTQPQSKQPKTYWVQVEGVPSDDDLEQLRKGVTLKDGLTLPADIERMEQPV 142 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + W+ + LREG+NR+++++ + RLIR + + L Sbjct: 143 IWDRTPPIRERKNIPTTWLALTLREGRNRQVRRMTAHIGFPTLRLIRYKMADWTVDDLAP 202 Query: 231 GSTREVS 237 G REV+ Sbjct: 203 GEWREVT 209 >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 = 86.8 bits (213), Expect = 4e-15, Method: Composition-based stats. Identities = 41/178 (23%), Positives = 72/178 (40%), Gaps = 14/178 (7%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L G + RV GRLD ++EGLLLLT+DG L + Sbjct: 5 ILFNKPYDVLSQFTDSSIGADRRTLSDFIDVPRVYPAGRLDRDSEGLLLLTDDGRLQARI 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G V D L L+ G+ ++ + Sbjct: 65 SNPRFKTPKTYLVQVEGDVTSDALACLRAGVSLKDGPTLPAEAERIDPPALWPRDPPVRF 124 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + W+++ +REG+NR+++++ RL+R G + L + G+ R+ S Sbjct: 125 RKTVPDCWISLTIREGRNRQVRRMTAAVGHPTLRLVRWRIGDWTLDGVAPGTWRDASP 182 >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 = 86.8 bits (213), Expect = 4e-15, Method: Composition-based stats. Identities = 42/180 (23%), Positives = 79/180 (43%), Gaps = 17/180 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGG 129 R+ L++KP G+++ +D + L GRLD ++EGL++LT+ G Sbjct: 1 MNRVILFNKPFGVLSQFTDKGTEGSPRPTLSAYIDEKGFYPAGRLDRDSEGLMVLTDSGP 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L + P + + Y V+ G D+ L L+ G+ ++ + L Sbjct: 61 LQARISHPKYKLAKTYWVQVEGTPDEQALAALRSGVTLKDGKTAPAKARLMDPPEPLWDR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RLIR G ++L L G+ R Sbjct: 121 DPPVRFRKSVPDAWLEITITEGRNRQVRRMTAHVGLPTLRLIRARVGDWELHKLQPGAWR 180 >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 = 86.8 bits (213), Expect = 4e-15, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 86/187 (45%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 34 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 92 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 151 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+N +++++ RLIR S G + L L G Sbjct: 152 PRTPPIRERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 211 Query: 233 TREVSKK 239 E++++ Sbjct: 212 WCEIAQE 218 >gi|324112364|gb|EGC06342.1| ribosomal large subunit pseudouridine synthase F [Escherichia fergusonii B253] Length = 177 Score = 86.8 bits (213), Expect = 4e-15, Method: Composition-based stats. Identities = 28/177 (15%), Positives = 62/177 (35%), Gaps = 4/177 (2%) Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 G L + + Y V + + + + G++I G +K + Sbjct: 5 QFGDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVLILGTV----TKKCKVKKEA 60 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQL 245 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 61 PFVFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLF 120 Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 121 KLIENSTSEVKPKAKAKPKTAGIKRPVVKMEKTSEKGGRPASNGKRFTSPGRKKKGR 177 >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 = 86.8 bits (213), Expect = 4e-15, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 88/188 (46%), Gaps = 17/188 (9%) Query: 65 VPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 80 KPVQSQTLAPIIVLFNKPFDVLCQFTDEQGRKTLKDYIPIA--DVYAAGRLDRDSEGLLL 137 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y V+ G +D L L++G+ + +V + Sbjct: 138 LTNDGQLQARLTEPKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGITLPAKVKIMDSP 197 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 198 DIWPRNPPVRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLP 257 Query: 230 AGSTREVS 237 +G + + Sbjct: 258 SGEHKCIR 265 >gi|239994883|ref|ZP_04715407.1| ribosomal large subunit pseudouridine synthase E [Alteromonas macleodii ATCC 27126] Length = 180 Score = 86.8 bits (213), Expect = 4e-15, Method: Composition-based stats. Identities = 37/139 (26%), Positives = 65/139 (46%), Gaps = 14/139 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + + Y V+ G +D+ + L+ G+ ++ Sbjct: 39 YAAGRLDRDSEGLLVLTNDGKLQHKLANPKAKTSKTYWVQVEGIMDEKAMQALRDGVELK 98 Query: 169 GICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 +V Q +WV + + EG+NR+++++ + R Sbjct: 99 DGMTRPAKVKAMEAPSVWPRNPPVRFRQSIPTSWVEITITEGRNRQVRRMTANVGYPTLR 158 Query: 215 LIRISYGPFQLGTLLAGST 233 LIR G + + + GS Sbjct: 159 LIRYRVGNWTIDGIDNGSY 177 >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 = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 50/187 (26%), Positives = 84/187 (44%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P R ++ L++KP ++T S G T+ D + + GRLD ++EGLL+L Sbjct: 25 NPKRPRGPQKIILFNKPFNVLTQFSGEPGDKTLADYISIK--DIYPAGRLDKDSEGLLVL 82 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TNDG L L P ++ + Y V+ G D L L+KG+ ++ Sbjct: 83 TNDGILQARLTQPQSKQPKTYWVQVEGAPSDDDLEQLRKGVTLKDGLTLPADIERMEQPV 142 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + W+ + LREG+NR+++++ + RLIR + + L Sbjct: 143 IWDRTPPIRERKNIPTTWLALTLREGRNRQVRRMTAHIGFPTLRLIRYKMADWTVDDLAP 202 Query: 231 GSTREVS 237 G REV+ Sbjct: 203 GEWREVT 209 >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 = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 48/186 (25%), Positives = 91/186 (48%), Gaps = 16/186 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ +++KP ++ +D +GR T+ D + + GRLD ++EGLL+L Sbjct: 41 KPKIAPEERKVIIFNKPFDTLSQFTDGEGRKTLADYISIKGV--YAAGRLDRDSEGLLVL 98 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L PS++ + Y V+ G + L+ L++G+ ++ +V + + Sbjct: 99 TNDGILQARLTQPSSKSPKTYWVQVDGSPGEVDLDKLRQGVELKDGLTLPARVEIIDEPK 158 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+++ + EG+NR+++++ + RLIR S G L +L Sbjct: 159 VWPRNPPVRFRANIPTTWLSITIIEGRNRQVRRMTAHIGYPTLRLIRYSVGDIHLDSLKP 218 Query: 231 GSTREV 236 G +E+ Sbjct: 219 GEWKEI 224 >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 = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 48/184 (26%), Positives = 87/184 (47%), Gaps = 16/184 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTND Sbjct: 39 KEVKDPIIVLFNKPFDVLCQFTDEQGRKTLKDFIPIQ--EVYAAGRLDRDSEGLLLLTND 96 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L + P + + Y V+ G + L L+ G+ ++ +V + Sbjct: 97 GKLQAQITEPKKKTFKTYWVQVEGAPSETDLEKLRTGVELKDGLTLPAKVNIMSNPAVWP 156 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + W+T+ + EG+NR+++++ + RLIR G + L L G Sbjct: 157 RNPPIRERANIPTTWLTIEICEGRNRQVRRMTANIGFPTLRLIRYKIGQWSLDDLPNGQY 216 Query: 234 REVS 237 R++ Sbjct: 217 RKLD 220 >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 = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 49/187 (26%), Positives = 86/187 (45%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 24 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 81 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 82 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 141 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ V L EG+N +++++ RLIR S G + L L G Sbjct: 142 PRTPPIRERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQ 201 Query: 233 TREVSKK 239 E++++ Sbjct: 202 WCEIAQE 208 >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 = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 47/191 (24%), Positives = 80/191 (41%), Gaps = 18/191 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +++ S +ST+ + + V VGRLD ++EGLLLLTND L L Sbjct: 7 YFLIYKPYLMLSQFSKEGDKSTLANLDFDFPTDVYPVGRLDADSEGLLLLTNDKQLNHRL 66 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLD---------- 180 P + R Y V+ G + + L G+ I + + L Sbjct: 67 LNPKFRHNRTYYVQVDGALTDEACQQLSAGVTISVDGKAYDTLPAKAILIEAPNLPERNP 126 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +W+++ L EGKNR+++K+ + RL+R + + G R + Sbjct: 127 PIRFRASIPTSWLSITLHEGKNRQVRKMTAAVGFPTLRLVRWAIESLTAEEMAPGEVRLL 186 Query: 237 SKKILREQLGP 247 S+ + L Sbjct: 187 SRAEVLRGLRL 197 >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 = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 52/187 (27%), Positives = 85/187 (45%), Gaps = 19/187 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP +++ S R T+ D + V GRLD ++EGLLLLT+DG L + Sbjct: 3 LILLNKPFQVMSQFSAHPERQTLADYIDIP--NVYPAGRLDADSEGLLLLTDDGKLQHAI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------------ 182 P + + Y + GQ + L+ L++ + + Q L + Sbjct: 61 AHPRRKLPKTYLAQVEGQPSPEALDKLRQPLDLGDFVTQGSQARLIQEPGWMWPRNPPIR 120 Query: 183 ---KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREVS 237 +W+ + + EGKNR+++++ RL+RI+ GPF L T ++ G REV Sbjct: 121 QRQNQPTSWIALTISEGKNRQVRRMTAAVGLPTLRLVRIAIGPFSLATHPVMPGEWREVD 180 Query: 238 KKILREQ 244 L Q Sbjct: 181 PLELERQ 187 >gi|325136481|gb|EGC59087.1| ribosomal large subunit pseudouridine synthase B [Neisseria meningitidis M0579] Length = 200 Score = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 48/181 (26%), Positives = 89/181 (49%), Gaps = 2/181 (1%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + Y + +V+ S + SR +++GRLDINT GLL+LT G L Sbjct: 9 PRIILYYKQEGEIVSRDDPQGRVSIFDRLPQAASSRWVAIGRLDINTSGLLILTTSGELV 68 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG-IVIQGICYGDMQVTLDTQKGSNAWVT 190 + PS + R Y VR G + +++ +L + ++++ ++ +G+N W Sbjct: 69 QRFAHPSFEVEREYAVRVLGGLTGEQMRVLTEEGVMLEDGLAKVERIREQGGEGANKWYN 128 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHL 249 V ++EG+NRE++++FE V+RL+R+ +GP L L G E++ + + Sbjct: 129 VVIKEGRNREVRRIFESQGLTVSRLVRVGFGPIGLPNRLKRGQFYELNPAEVANIIKWAD 188 Query: 250 L 250 + Sbjct: 189 M 189 >gi|255024632|ref|ZP_05296618.1| RNA pseudouridine synthase family protein [Listeria monocytogenes FSL J1-208] Length = 105 Score = 86.8 bits (213), Expect = 5e-15, Method: Composition-based stats. Identities = 24/103 (23%), Positives = 41/103 (39%), Gaps = 1/103 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D + V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQVTVHGTPVVYQEF 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 L+ + T + + VGRLD Sbjct: 61 VYFMLHKPQNVVSATEDNVSETVIDLLAQEDTLTNPFPVGRLD 103 >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 = 86.4 bits (212), Expect = 5e-15, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 91/185 (49%), Gaps = 17/185 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + ++ +++KP ++ +D GR T+ + +P V + GRLD ++EGLL+LTND Sbjct: 39 KPSTPRKVIIFNKPFDVLPQFTDEQGRETLKNYIPIS--DVYAAGRLDRDSEGLLVLTND 96 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L L P + ++Y + G D+ L ++G+V+ ++ L Sbjct: 97 GKLQARLTQPQKKTGKIYYAQVEGIPDEIALANFRRGLVLNDGPTLPAEIELVEEPDWLW 156 Query: 180 -------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR S G F L L G Sbjct: 157 ERIPPIRERKNIPTSWLKITLFEGRNRQVRRMTANIGFPTLRLIRYSTGEFSLDNLSPGE 216 Query: 233 TREVS 237 +EV+ Sbjct: 217 WKEVT 221 >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 = 86.4 bits (212), Expect = 5e-15, Method: Composition-based stats. Identities = 34/143 (23%), Positives = 64/143 (44%), Gaps = 15/143 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGL+LLT+ G L + P + + Y V+ G D L L +G+ ++ Sbjct: 40 YPAGRLDRDSEGLMLLTDVGRLQARIADPRHKLAKTYWVQVEGVPDAAALRALAEGVELK 99 Query: 169 GICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + ++W+ + +REG+NR+++++ Sbjct: 100 DGLTRPARARAMPEPPGLWPRNPPIRERKSVPDSWIELTIREGRNRQVRRMTAAVGHPTL 159 Query: 214 RLIRISYGPFQLGTLLAGSTREV 236 RLIR G + L L+ G + + Sbjct: 160 RLIRARIGDWTLDGLVPGEWQSL 182 >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 = 86.4 bits (212), Expect = 6e-15, Method: Composition-based stats. Identities = 47/187 (25%), Positives = 93/187 (49%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P + ++ +++KP +++ +D R T+ D + V + GRLD ++EGLL+L Sbjct: 21 KPRPAPKDRKVIIFNKPFDVLSQFTDDQHRQTLADFIS--VKDVYAAGRLDRDSEGLLIL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G +D L+ L++G+ ++ +V + + Sbjct: 79 TNDGVLQARLTQPESKSPKTYWVQVEGAPTEDDLDKLRQGVELKDGMTLPAKVEIIPEPN 138 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+++ + EG+NR+++++ + RLIR S G + + + Sbjct: 139 VWERNPPVRFRAAIPTTWISITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDWTIKDVAH 198 Query: 231 GSTREVS 237 G+ +EVS Sbjct: 199 GTWKEVS 205 >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 = 86.4 bits (212), Expect = 6e-15, Method: Composition-based stats. Identities = 43/180 (23%), Positives = 84/180 (46%), Gaps = 16/180 (8%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTNDG L Sbjct: 84 QNPIIVLFNKPFDVLCQFTDEQGRQTLKDFIPIQ--DVYAAGRLDRDSEGLLLLTNDGQL 141 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------------- 176 + P + + Y V+ G + + L+ G+ ++ + Sbjct: 142 QSRITEPKKKTDKTYWVQVEGIPSDEAIQALRDGVTLKDGPTLPAKVERIAEPDVWPRNP 201 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++ +W+ + + EG+NR+++++ + RLIR G + L + G + + Sbjct: 202 PVRERKQIPTSWLAITICEGRNRQVRRMTAHVGYPTLRLIRYKIGQWSLNGVANGEYKVL 261 >gi|289578538|ref|YP_003477165.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9] gi|289528251|gb|ADD02603.1| pseudouridine synthase, RluA family [Thermoanaerobacter italicus Ab9] Length = 305 Score = 86.4 bits (212), Expect = 6e-15, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 68/247 (27%), Gaps = 37/247 (14%) Query: 3 DKNIVQ--ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 DK ++Q + +R+ +A +R ++++I V VNG ++ + V D + Sbjct: 5 DKIVLQGEKEDEGKRIDVFLAAELDYTRSYIKKLIVDGLVFVNGKTVK-PSYKVKENDEV 63 Query: 61 EVD------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 V+ +PL + + + +V + V L + Sbjct: 64 VVNIPEAEKIDVLPENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKN 123 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G L L G + + L Sbjct: 124 LSGINGILRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEGVIKDE 183 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI+ Y + + N V ++ G+ +I+ Sbjct: 184 EGKIEAPIGRHPVDRKKMAVIEDGRYALTLYKVLERFKENTLVEAVIKTGRTHQIRVHMA 243 Query: 207 FFNWKVN 213 F V Sbjct: 244 FIGHPVV 250 >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 = 86.4 bits (212), Expect = 6e-15, Method: Composition-based stats. Identities = 36/142 (25%), Positives = 66/142 (46%), Gaps = 14/142 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLLLLT+DG L + P + + Y V+ G +++ L++G+ ++ Sbjct: 38 YPAGRLDRDSEGLLLLTDDGRLQARIAHPKFKKPKTYLVQVEGDPSDEQIARLRRGVTLK 97 Query: 169 GICYGDMQVTLDT--------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 QV + +AW+ + + EG+NR+++++ R Sbjct: 98 DGPTRPAQVRRLPPPDLWPRVPPVRFRKSVPDAWLEMTITEGRNRQVRRMTAHVGLPCLR 157 Query: 215 LIRISYGPFQLGTLLAGSTREV 236 L+R S G + + L G R + Sbjct: 158 LVRWSIGDWSVEGLAPGEWRNI 179 >gi|467162|gb|AAA50926.1| u0247g [Mycobacterium leprae] Length = 186 Score = 86.4 bits (212), Expect = 6e-15, Method: Composition-based stats. Identities = 49/177 (27%), Positives = 73/177 (41%), Gaps = 3/177 (1%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV---ISVGRLDINTEGLLLLTNDGGL 130 +KP G+ +T SD GR V D + VGRLD +TEGL+LLTNDG L Sbjct: 7 VYLALNKPRGMYSTMSDDRGRPCVGDLIERRVRGNKKLFHVGRLDADTEGLILLTNDGEL 66 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 A L PS + + Y G V + L G+ + + V Sbjct: 67 AHRLMHPSHEVSKTYLATVKGAVPRGLGKKLSVGLELDDGPAHVDDFAVVDAIPGKTLVR 126 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 + L EG+ R ++++ + V L+R G LG G R + + +R+ Sbjct: 127 LTLHEGRKRIVRRLLTAAGFPVEMLVRTDIGAVSLGDQRPGCLRALLRDEIRQLYKE 183 >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 = 86.4 bits (212), Expect = 6e-15, Method: Composition-based stats. Identities = 43/179 (24%), Positives = 78/179 (43%), Gaps = 17/179 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G+++ + + D + GRLD ++EGLLLLT+DG L + Sbjct: 30 LLRFNKPYGVLSQFTPEGRWRGLQDFIDVPGV--YVAGRLDADSEGLLLLTDDGALQARI 87 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G D+ L L+ G+ + +V Sbjct: 88 SDPRHKMEKTYWVQVEGIPDEAALQALRHGVQLGDGPTLPARVRRLEPPPALWERDPPIR 147 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q + W+ + +REG+NR+++++ RL+R + GP+ L L G + + Sbjct: 148 VRQNIPDCWIELIIREGRNRQVRRMTAAVGHPTLRLVRAAIGPYALDGLEPGCWQPATP 206 >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 = 86.4 bits (212), Expect = 7e-15, Method: Composition-based stats. Identities = 46/175 (26%), Positives = 80/175 (45%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA + Sbjct: 2 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRV 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y V+ G+ +L L+ G+V+ Q Sbjct: 62 TDPRHKQPKTYWVQVEGEPQAGQLQALRDGVVLNDGPTRTAQVRSLDPAPPLWPREPPVR 121 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 122 VRKTVPDAWLELRITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDMLAPGQWR 176 >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 = 86.4 bits (212), Expect = 7e-15, Method: Composition-based stats. Identities = 44/187 (23%), Positives = 76/187 (40%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L AER + L ++ V + GRLD ++EGL++L Sbjct: 48 KSLSLAERKIIIFNKPYDTLSQFTDGEGRKTLADFI---PVKEVYAAGRLDRDSEGLMVL 104 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + +L L+ G+ ++ QV + Sbjct: 105 TNDGILQAKLTQPKSKSPKTYWVQVEGAPTEAQLEPLRSGVELKDGLTLPAQVEIIQDPQ 164 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RL+R S G L L Sbjct: 165 LWERNPPVRFRAAIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGGMTLQDLQP 224 Query: 231 GSTREVS 237 G +E+S Sbjct: 225 GEWKEIS 231 >gi|319426627|gb|ADV54701.1| pseudouridine synthase [Shewanella putrefaciens 200] Length = 270 Score = 86.4 bits (212), Expect = 7e-15, Method: Composition-based stats. Identities = 49/193 (25%), Positives = 89/193 (46%), Gaps = 18/193 (9%) Query: 65 VPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 80 KPVQSQTLAPIIVLFNKPFDVLCQFTDEQGRKTLKDYIPIA--DVYAAGRLDRDSEGLLL 137 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y V+ G +D L L++G+ + +V + Sbjct: 138 LTNDGQLQARLTEPKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGITLPAKVKIMDSP 197 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 198 DVWPRNPPVRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDNLP 257 Query: 230 AGSTREVS-KKIL 241 +G + + + Sbjct: 258 SGEHKCIRLGDEI 270 >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 = 86.4 bits (212), Expect = 7e-15, Method: Composition-based stats. Identities = 50/192 (26%), Positives = 78/192 (40%), Gaps = 20/192 (10%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L HKP G+++ S V + GRLD ++EGLLLLT+DG Sbjct: 10 ARPAPTTLLLHKPYGVLSQFSPEPLSPWSTLAPLVPVPGVYAAGRLDADSEGLLLLTSDG 69 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------------ 176 L + L P R Y V+ G L L++G+++QG Q Sbjct: 70 PLQQRLTDPRWGHWRRYWVQVEGTPSDAALQQLREGVMVQGRRTLSAQAIALADPGLAER 129 Query: 177 --VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTL 228 + +W+ +GLREG+NR+++++ RL+R++ P L L Sbjct: 130 VPPIRQRRSIPTSWLELGLREGRNRQVRRMTAAVGLPTLRLLRVAIDLMDGEPPLSLEGL 189 Query: 229 LAGSTREVSKKI 240 G R V+ Sbjct: 190 APGQWRPVTAAE 201 >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 = 86.4 bits (212), Expect = 7e-15, Method: Composition-based stats. Identities = 38/207 (18%), Positives = 76/207 (36%), Gaps = 20/207 (9%) Query: 44 GILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 G + +V +++ L + D + Sbjct: 20 GNAAKHPSVKN------KINTQQLPPVSDATRKILLFNKPFNVLSQFTDQDNRQTLKDYI 73 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 V + GRLD ++EGLLLLTNDG L + P+ + + Y V+ G+ + L L+ Sbjct: 74 DIPEVYAAGRLDRDSEGLLLLTNDGKLQAKITEPNAKTSKTYWVQVEGRPTEADLQKLRD 133 Query: 164 GIVIQGICYGDM--------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 G+ ++ + W+++ + EG+NR+++++ Sbjct: 134 GVNLKDGLTLPAGIELMEQPAIWARVPPIRERANIPTTWLSITISEGRNRQVRRMTAHIG 193 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREV 236 + RLIR G + + + G + + Sbjct: 194 FPTLRLIRYRIGDWTIDDIDNGQYKLL 220 >gi|254478004|ref|ZP_05091388.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum DSM 12653] gi|214036008|gb|EEB76698.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum DSM 12653] Length = 309 Score = 86.0 bits (211), Expect = 7e-15, Method: Composition-based stats. Identities = 31/240 (12%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP- 66 ++ +R+ +A SR ++++I + V VNG ++ + V D I V+ Sbjct: 12 EKEDEGKRIDVFLASELDYSRSYIKKLIEEGLVLVNGKNVK-PSYKVKEDDEIVVNIKEA 70 Query: 67 -------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 + + + + +V + + V L + G Sbjct: 71 EKIEVVPENIPLDILYEDEDIIVINKPQGMVVHPAAGNYSGTLVNALLYHCKNLSGINGI 130 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 L L G + + L Sbjct: 131 LRPGIVHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKYIAIVEGVIKEEEGKVEAP 190 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K+ V+Q Y + + +N +V ++ G+ +I+ F + V Sbjct: 191 IGRHPVDRKRMAVVQEGRYALTLYKVLERFKNNTFVEATIKTGRTHQIRVHFSYIGHPVV 250 >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 = 86.0 bits (211), Expect = 7e-15, Method: Composition-based stats. Identities = 45/183 (24%), Positives = 86/183 (46%), Gaps = 16/183 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + L++KP ++ +D GR T+ D +P + GRLD ++EGLLLLTND Sbjct: 57 KSVTNPIIVLFNKPFDVLCQFTDEQGRQTLKDFIPIPGV--YAAGRLDRDSEGLLLLTND 114 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L + P + + Y + G ++D L L++G+ ++ ++++ Sbjct: 115 GKLQSQITEPKKKTYKTYWAQVEGAPNEDDLEKLRQGVELKDGMSLPAKISIMNNPDIWP 174 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + W+ + + EG+NR+++++ + RLIR G + L L G Sbjct: 175 RTPPIRERANIPTTWLEIKICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLKNGEY 234 Query: 234 REV 236 R++ Sbjct: 235 RQL 237 >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 = 86.0 bits (211), Expect = 7e-15, Method: Composition-based stats. Identities = 37/142 (26%), Positives = 64/142 (45%), Gaps = 14/142 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLLLLT+DG L + P + + Y V+ G D+L L++G+ + Sbjct: 38 YPAGRLDRDSEGLLLLTDDGALQARIAHPKFRKPKTYLVQVEGDPTDDQLAQLRRGVSLN 97 Query: 169 GICYGDMQVTLDT--------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 V + +AW+ + + EG+NR+++++ R Sbjct: 98 DGPTRPATVRRLPPPDLWPRVPPVRFRKSVPDAWLELTITEGRNRQVRRMTAHVGLPCLR 157 Query: 215 LIRISYGPFQLGTLLAGSTREV 236 L+R S G + + L G R + Sbjct: 158 LVRWSIGDWSVAGLAPGEWRGL 179 >gi|229175257|ref|ZP_04302772.1| RNA pseudouridine synthase [Bacillus cereus MM3] gi|228608089|gb|EEK65396.1| RNA pseudouridine synthase [Bacillus cereus MM3] Length = 84 Score = 86.0 bits (211), Expect = 7e-15, Method: Composition-based stats. Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 4/82 (4%) Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 + G+ I+ +VT + + L +G NR+I+++ F + V +L R+ Sbjct: 1 MSSGVKIKDGMTKPCKVTRV----DQSTFRIVLTQGMNRQIRRMSRAFGFTVTKLKRVRI 56 Query: 221 GPFQLGTLLAGSTREVSKKILR 242 +L L G R V+ + L Sbjct: 57 LNIELDDLEVGKWRSVTFEELD 78 >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 = 86.0 bits (211), Expect = 7e-15, Method: Composition-based stats. Identities = 51/188 (27%), Positives = 84/188 (44%), Gaps = 16/188 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P R ++ L++KP +T S G ST+ D +P V GRLD ++EGLL+ Sbjct: 24 NKPKRSRGPQKIILFNKPFNTLTQFSGEPGDSTLADFIP--VKDVYPAGRLDKDSEGLLV 81 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------- 175 LTNDG L L P ++ +VY V+ G + L L+ G+ ++ Sbjct: 82 LTNDGVLQARLTQPKSKQAKVYWVQVEGAPTETNLQALRDGVELKDGMTLPAGVEVIESP 141 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + L+EG+NR+++++ RLIR + + L Sbjct: 142 IVWDRNPPIRERKNIPTTWLAITLKEGRNRQVRRMTAHIGHPTLRLIRYQMAQWTVSDLA 201 Query: 230 AGSTREVS 237 G REV+ Sbjct: 202 PGEWREVT 209 >gi|326623646|gb|EGE29991.1| RNA pseudouridine synthase family protein [Salmonella enterica subsp. enterica serovar Dublin str. 3246] Length = 172 Score = 86.0 bits (211), Expect = 7e-15, Method: Composition-based stats. Identities = 40/146 (27%), Positives = 66/146 (45%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + ++Y V+ G D L L+ G+ + Sbjct: 24 YAAGRLDRDSEGLLVLTNDGALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLN 83 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ V L EG+NR+++++ Sbjct: 84 DGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSWLKVTLYEGRNRQVRRMTAHVGHPTL 143 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR S G + L L G E++++ Sbjct: 144 RLIRYSMGDYTLNGLDNGQWCEIAQE 169 >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 = 86.0 bits (211), Expect = 8e-15, Method: Composition-based stats. Identities = 37/148 (25%), Positives = 71/148 (47%), Gaps = 15/148 (10%) Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 V + GRLD ++EGLL+LT+DG L + PS + + Y V+ G D+ L+L Sbjct: 32 HFIDVPNVYAAGRLDKDSEGLLVLTDDGKLQHRISDPSNKMEKSYWVQVEGIPDETALDL 91 Query: 161 LKKGIVIQGICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVF 205 L+ G++++ +V L + ++W+ + + EG+NR+++++ Sbjct: 92 LRAGVLLKDGMTKPAKVKLMDQPVDLWVREPPVRYRKSVPDSWIEITISEGRNRQVRRMT 151 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGST 233 + RLIR G + + + +G Sbjct: 152 ACVGFPTLRLIRYRVGNWTIDGIESGDW 179 >gi|144897678|emb|CAM74542.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum gryphiswaldense MSR-1] Length = 195 Score = 86.0 bits (211), Expect = 8e-15, Method: Composition-based stats. Identities = 45/181 (24%), Positives = 78/181 (43%), Gaps = 16/181 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L++KP ++T +D + + V GRLD ++EGLL+L++DG L Sbjct: 1 MPRLILFNKPYDVLTQFTDREAGRATLAD-YVDVPGVYPAGRLDRDSEGLLVLSDDGPLI 59 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------Q 176 + P + + Y + G L L++G++++ Sbjct: 60 ARIAQPRHKLAKTYFAQVEGIPTAAALAQLRQGVMLKDGPTLTAGAELVAEPDWLWPRHP 119 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 AWV + L EG+NR+++++ + RLIR + G + L L G REV Sbjct: 120 PIRWRAAIPTAWVKLTLHEGRNRQVRRMTAAVGFPTLRLIRWAVGDWNLAGLAPGQWREV 179 Query: 237 S 237 + Sbjct: 180 T 180 >gi|254478536|ref|ZP_05091911.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum DSM 12653] gi|214035544|gb|EEB76243.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum DSM 12653] Length = 309 Score = 86.0 bits (211), Expect = 8e-15, Method: Composition-based stats. Identities = 32/240 (13%), Positives = 68/240 (28%), Gaps = 35/240 (14%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 ++ +R+ +A SR ++++I + V VNG ++ + V D + V+ Sbjct: 12 EKEDEGKRIDVFLASELDYSRSYIKKLIEEGLVLVNGKNVK-PSYKVKEDDEVVVNIPEA 70 Query: 64 --------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 +PL + + + +V + V L + G Sbjct: 71 EKIEVVPENIPLDILYEDEDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGINGI 130 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 L L G + + L Sbjct: 131 LRPGIVHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKYVAIVEGVIKEEEGKIEAP 190 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K+ V+Q Y + + +N +V ++ G+ +I+ F + V Sbjct: 191 IGRHPVDRKRMAVVQDGRYALTLYKVLERFKNNTFVEATIKTGRTHQIRVHFSYIGHPVV 250 >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 = 86.0 bits (211), Expect = 8e-15, Method: Composition-based stats. Identities = 39/139 (28%), Positives = 67/139 (48%), Gaps = 14/139 (10%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLL+LT+ G L L P + Y V+ GQ+D+ + L+ G+ ++ Sbjct: 39 GRLDSDSEGLLVLTSYGRLQAYLTAPKHNTWKYYYVQVEGQIDEQAVCRLQAGVQLKDGP 98 Query: 172 YGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 +V + +W+ +GL+EG+NR+I+++ + RL+R Sbjct: 99 TLPARVKVIEPPSLWQRTPPVRYRAHIPTSWLEIGLQEGRNRQIRRMTAHVGYPTLRLVR 158 Query: 218 ISYGPFQLGTLLAGSTREV 236 GPF+L L G + Sbjct: 159 FRSGPFKLADLGPGEYVRI 177 >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 = 86.0 bits (211), Expect = 8e-15, Method: Composition-based stats. Identities = 42/143 (29%), Positives = 66/143 (46%), Gaps = 15/143 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + +VY V+ G D L ++G+ ++ Sbjct: 63 YAAGRLDRDSEGLLVLTNDGKLQAQLTQPGQKTGKVYYVQVEGVPDDAALAQFRQGLELK 122 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + AW+ V L EG+NR+++++ + Sbjct: 123 DGMTLPAGIEIVAEPEWLWPRNPPIRERKSIPTAWIKVILFEGRNRQVRRMTAHIGFPTL 182 Query: 214 RLIRISYGPFQLGTLLAGSTREV 236 RLIR S G + L L G RE+ Sbjct: 183 RLIRYSMGDYTLDNLANGEWREM 205 >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 = 86.0 bits (211), Expect = 9e-15, Method: Composition-based stats. Identities = 42/180 (23%), Positives = 79/180 (43%), Gaps = 17/180 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGG 129 R+ L++KP G+++ +D + L GRLD ++EGL++LT+ G Sbjct: 1 MNRVILFNKPFGVLSQFTDKGTEGSPRPTLSAYIDEKGFYPAGRLDRDSEGLMVLTDSGP 60 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------- 180 L + P + + Y V+ G D+ L L+ G+ ++ + L Sbjct: 61 LQARISHPKYKLAKTYWVQVEGTPDEQALAALRSGVTLKDGKTAPARARLMDPPDPLWDR 120 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RLIR G ++L L G+ R Sbjct: 121 DPPVRFRKSVPDAWLEITITEGRNRQVRRMTAHVGLPTLRLIRARVGDWELHKLQPGAWR 180 >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 = 85.6 bits (210), Expect = 9e-15, Method: Composition-based stats. Identities = 37/186 (19%), Positives = 73/186 (39%), Gaps = 17/186 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ L + + L + ++++GRLD ++EGLLLLT DG Sbjct: 20 EPHRHFKIFKPHGFLSQFVPETRKSKKLLGELALFPTGIMAIGRLDHDSEGLLLLTTDGM 79 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQ----------- 176 ++ + + +V + L I I+G + Sbjct: 80 VSHRVRSKKVEKEYYVQVDGDIDDEAIIRLRLGVEIGIKGEKYLTLPCKVFKLDGEPELP 139 Query: 177 ----VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 D + G +W+++ + EGKNR+I+K+ ++ RL+R+ G L + G Sbjct: 140 SNGRKIRDPRHGPMSWISITISEGKNRQIRKMTAAADFPTMRLVRVRIGNIMLDNMQPGK 199 Query: 233 TREVSK 238 E+++ Sbjct: 200 VIELTE 205 >gi|326389927|ref|ZP_08211490.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus JW 200] gi|325993987|gb|EGD52416.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus JW 200] Length = 305 Score = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 33/247 (13%), Positives = 68/247 (27%), Gaps = 37/247 (14%) Query: 3 DKNIVQ--ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 DK ++Q + +R+ +A +R ++++I V VNG ++ + V D + Sbjct: 5 DKIVLQGEKEDEGKRIDVFLAAELDYTRSYIKKLIVDGLVFVNGKTVK-PSYKVKENDEV 63 Query: 61 EVD------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 V+ +PL + + + +V + V L + Sbjct: 64 VVNIPEAEKIDVLPENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKN 123 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G L L G + + L Sbjct: 124 LSGINGILRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEGVIKHE 183 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI+ Y + + N + ++ G+ +I+ Sbjct: 184 EGKIEALIGRHPVDRKKMAVIEDGRYALTLYKVLERFKENTLIEAVIKTGRTHQIRVHMA 243 Query: 207 FFNWKVN 213 + V Sbjct: 244 YIGHPVV 250 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 49/184 (26%), Positives = 87/184 (47%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R+ L++KP ++ +D GRST+ D +P + GRLD ++EGLL+LTNDG Sbjct: 36 NPPKRVILFNKPYDVLPQFTDEAGRSTLKDFIPVQGV--YAAGRLDRDSEGLLVLTNDGA 93 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------------- 175 L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 94 LQASLTQPGKRTGKIYYVQVEGEPTDETLAALRHGVELNDGPTLPAGVERVSEPEWLWPR 153 Query: 176 -QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + AW+ + L EG+NR+++++ + RLIR + G + L +L G R Sbjct: 154 NPPIRERKSIPTAWLKITLYEGRNRQVRRMTAHVGYPTLRLIRYAMGHYTLDSLANGEWR 213 Query: 235 EVSK 238 + ++ Sbjct: 214 DATE 217 >gi|221134863|ref|ZP_03561166.1| pseudouridine synthase, Rsu [Glaciecola sp. HTCC2999] Length = 196 Score = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 36/184 (19%), Positives = 70/184 (38%), Gaps = 14/184 (7%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 +R + + D + + GRLD ++EGLL+ Sbjct: 10 NKRVRHTNNEKKLVVLFNKPFNVLTQFTDQAGRQTLKDYIDIPNIYAAGRLDRDSEGLLV 69 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------- 176 LTNDG L L P+ + + Y V+ G + + + L G+ ++ + Sbjct: 70 LTNDGKLQHALAHPTQKTTKTYWVQVEGDITDEAIEQLSNGVNLKDGMTAPAKVEKMAAP 129 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + +WV++ + EG+NR+++++ N+ RLIR G + + + Sbjct: 130 AIWPRTPPIRERASIPTSWVSITISEGRNRQVRRMTAHVNYPTLRLIRYRVGQWTIDNIA 189 Query: 230 AGST 233 G Sbjct: 190 NGEF 193 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 49/191 (25%), Positives = 87/191 (45%), Gaps = 17/191 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P R E R+ L++KP +++ +D R+T+ D + + GRLD ++EGLLLL Sbjct: 25 RPDRPREARRIVLFNKPFDVLSQFTDGGNRATLADYIQEPGV--YAAGRLDRDSEGLLLL 82 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TNDG L L P + + Y V+ G+ D+ L L+ G+ + + Sbjct: 83 TNDGALQAKLTQPGKKTSKTYYVQVEGEPDEAALQALRDGVTLNDGPTLPAKVERIDEPH 142 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+++ + EG+NR+++++ + RLIR G + L L Sbjct: 143 WLWPRNPPIRERKAIPTSWLSISIIEGRNRQVRRMTAHIGYPTLRLIRYRIGSWTLDGLA 202 Query: 230 AGSTREVSKKI 240 G R + Sbjct: 203 NGEYRVLHGNE 213 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 46/175 (26%), Positives = 80/175 (45%), Gaps = 15/175 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP G+++ SD + V + GRLD ++EGLLLLT+DG LA + Sbjct: 12 LVLLNKPYGVLSQFSDRSQPPKRTLAEFGLPPDVYAAGRLDHDSEGLLLLTDDGALAHRV 71 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y V+ G+ +L L+ G+V+ Q Sbjct: 72 TDPRHKQPKTYWVQVEGEPQAGQLQALRDGVVLNDGPTRTAQVRSLDPAPPLWPREPPVR 131 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +AW+ + + EG+NR+++++ RL+R++ G ++L L G R Sbjct: 132 VRKTVPDAWLELRITEGRNRQVRRMTAAVGLPTLRLVRVAIGDWRLDMLAPGQWR 186 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 45/183 (24%), Positives = 83/183 (45%), Gaps = 17/183 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGLA 131 R+ L +KP G+++ +D + L + GRLD ++EGLL+LT+ G L Sbjct: 4 RVILLNKPYGVLSQFTDKGTEGSSRPTLSTYIDEKGFYPAGRLDRDSEGLLVLTDHGPLQ 63 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------- 176 + P + + Y V+ G D L L+KG+ ++ + Sbjct: 64 ARIAHPKYKRPKTYLVQVEGTPDAAALEALRKGVDLKDGLTKPAEVDQIDAPETLWPRDP 123 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +AW+ + +REG+NR+++++ + RLIR S G ++L L G+ R Sbjct: 124 PVRFRKTVPDAWLRITIREGRNRQVRRMTAHVDLPTLRLIRASVGDWELAGLQPGAWRWS 183 Query: 237 SKK 239 ++ Sbjct: 184 TEN 186 >gi|291550526|emb|CBL26788.1| pseudouridine synthase family [Ruminococcus torques L2-14] Length = 194 Score = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 44/193 (22%), Positives = 78/193 (40%), Gaps = 26/193 (13%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++++KP G VT D + + + VGRLD T GLLL+T+DG Sbjct: 1 MFHYYMFNKPFGCVTARRDSLYPTVMDYFSELNNDNLNPVGRLDRETTGLLLITDDGVFN 60 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQKGSNAWV 189 + L PS + Y G + +D+ L+KGI+++G ++ + Q + + Sbjct: 61 QKLTHPSYHKEKTYHFTVLGDLTEDRCQQLEKGILLKGSPVLTSPAKLKVFRQDILSNII 120 Query: 190 -----------------------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + + EG+ R+I+++ + + V L RIS L Sbjct: 121 DTLHPEVQNAVCHNLPTHPVTYGEITISEGRKRQIRRMMKAVHCCVIELKRISIEDIILD 180 Query: 227 T-LLAGSTREVSK 238 L G +E+ Sbjct: 181 ETLSPGEWKEIFP 193 >gi|303285788|ref|XP_003062184.1| predicted protein [Micromonas pusilla CCMP1545] gi|226456595|gb|EEH53896.1| predicted protein [Micromonas pusilla CCMP1545] Length = 244 Score = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 50/244 (20%), Positives = 97/244 (39%), Gaps = 33/244 (13%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI------EVDGVPLR 68 R+ K +A+ G+ASRR E +I RV VNG+++ +V+ D + + G Sbjct: 1 RLGKALAQLGVASRRASEDLIFAGRVAVNGVVVTAPQHHVVLADDVVAVDGKVIQGGVEE 60 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRS------------------------TVFDNLPSI 104 E L + P+ + + Sbjct: 61 TREHLYFLLNKPKGYICANAKSPNKPPGKGERGGGASGKLVMDLFDEWKAAWRKKHPKRL 120 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+ +VGRLD+NT G+LL+T DG + + P ++ ++ Y + + + ++ + G Sbjct: 121 PPRLFTVGRLDVNTTGMLLVTTDGQWCQRVAHPKSEVVKSYVLTASARPTKAQIRAMAAG 180 Query: 165 IVIQGICYGDM---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + G + + D G V V + +G+NRE++++ +L R+ G Sbjct: 181 AEVDGAFVKPVNVRSMDNDRDGGPPNRVLVEVVDGRNREVRQLASSAGVDCKKLKRVRVG 240 Query: 222 PFQL 225 ++ Sbjct: 241 GLRM 244 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 49/189 (25%), Positives = 86/189 (45%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 ++ + R+ L++KP ++ +D GRST+ D +P + GRLD ++EGLL+L Sbjct: 31 KRRKENQPKRVVLFNKPYDVLPQFTDEAGRSTLKDYIPVQGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 89 TNDGALQARLTQPGKRTGKIYYVQVEGEPTAEALEALRNGVTLNDGPTLPAGIEVVDEPE 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ V L EG+NR+++++ RLIR + G + L L Sbjct: 149 WLWPRTPPIRERKSIPTRWLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYAMGNYTLDNLA 208 Query: 230 AGSTREVSK 238 G R+ + Sbjct: 209 NGEWRDATD 217 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 44/187 (23%), Positives = 77/187 (41%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L AER + L ++ V + GRLD ++EGL++L Sbjct: 48 KSLSLAERKIIIFNKPYDTLSQFTDGEGRKTLADFI---PVKEVYAAGRLDRDSEGLMVL 104 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G + +L L++G+ ++ QV + Sbjct: 105 TNDGILQAKLTQPKSKSPKTYWVQVEGAPTEAQLEPLRRGVELKDGLTLPAQVEIIQDPQ 164 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RL+R S G L L Sbjct: 165 LWERNPPVRFRAAIPTTWLAITIIEGRNRQVRRMTAHIGFPTLRLVRYSMGGMTLQDLQP 224 Query: 231 GSTREVS 237 G +E+S Sbjct: 225 GEWKEIS 231 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 49/186 (26%), Positives = 87/186 (46%), Gaps = 16/186 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A+ + L++KP ++ +D GR T+ D + V + GRLD ++EGLLLLTND Sbjct: 53 PAAKDPVILLFNKPFDVLCQFTDEQGRKTLKDFIA--VKDVYAAGRLDRDSEGLLLLTND 110 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT--------- 178 G L + P+ + + Y V+ G DQ L L+ G+ ++ ++T Sbjct: 111 GKLQSKITEPNKRTFKTYWVQVEGTPDQADLQALRDGVKLKDGMTLPAKITSISEPKVWD 170 Query: 179 -----LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + + EG+NR+++++ + RLIR G + L + G Sbjct: 171 REPPIRERKNIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDIDIGQY 230 Query: 234 REVSKK 239 R + K Sbjct: 231 RILDMK 236 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 41/187 (21%), Positives = 75/187 (40%), Gaps = 21/187 (11%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 ++ L + + L +++GRLD ++EGLLLLT DG + Sbjct: 1 MHHHFLIHKPYGYLSQFIYELKRPKKLLGELYDFPGNTMAIGRLDEDSEGLLLLTTDGMM 60 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDM----------- 175 + ++ + + Y + G + ++ + LK + I + Sbjct: 61 SEIVRSK--KVEKEYYAQVDGLITEEAIEKLKNRVEIGFNGKKYLTKKCNAFILETIPNL 118 Query: 176 ----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + D + G +WV++ L EGK R+++K+ + RL+R+ G L L AG Sbjct: 119 GERGKKIRDERHGPTSWVSITLTEGKFRQVRKMTSAVGFPTLRLVRVRVGNIHLNDLKAG 178 Query: 232 STREVSK 238 EVS Sbjct: 179 EVLEVSG 185 >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 = 85.6 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 44/206 (21%), Positives = 74/206 (35%), Gaps = 17/206 (8%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T S V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPYQTMSQFSAHPSRATLADCVDVPGVYPAGRLDADSEGLLLLTDDGALQARIADPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---------------KGS 185 ++ Y + G D+ L L+ G+ + + + + Sbjct: 67 LVKTYLAQVEGVPDEAALATLRTGVDLGDFKTLPAKARVVDEPAWLWERHPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKILRE 243 W+ + +REGKNR+++++ RL+RIS G +L L+ G E L Sbjct: 127 TTWIELSIREGKNRQVRRMTAAVGLPTLRLVRISIGNLKLPELGLMPGQWCETDVSRLGL 186 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVR 269 G + A+ + + Sbjct: 187 SSGNPHVSTARPERAPTSGPARRSYK 212 >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 = 85.2 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 50/190 (26%), Positives = 87/190 (45%), Gaps = 17/190 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + RL L++KP ++ +D GR T+ D +P + GRLD ++EGLL+L Sbjct: 31 KRRKPEGPKRLILFNKPYDVLPQFTDEAGRQTLKDFIPVAGV--YAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 89 TNDGALQAKLTQPGKRTGKIYFVQVEGEPTEAALAQLRSGVTLNDGPTLPAGVERVEEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L +L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYTLDSLA 208 Query: 230 AGSTREVSKK 239 G R+V K Sbjct: 209 CGQWRDVPLK 218 >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 = 85.2 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 53/190 (27%), Positives = 88/190 (46%), Gaps = 17/190 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + RL L++KP ++ +D GR T+ D +P + V + GRLD ++EGLL+L Sbjct: 31 KRRKPEGPKRLILFNKPYDVLPQFTDEAGRQTLKDFIP--VADVYAAGRLDRDSEGLLVL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P + +VY V+ G+ + L L+ G+ + Sbjct: 89 TNDGALQAKLTQPGKRTGKVYFVQVEGEPTDEALAQLRTGVTLNDGPTLPAGVERVAEPA 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + +W+ + L EG+NR+++++ + RLIR + G + L L Sbjct: 149 WLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYATGDYTLDALA 208 Query: 230 AGSTREVSKK 239 G REV K Sbjct: 209 CGQWREVPLK 218 >gi|222110563|ref|YP_002552827.1| pseudouridine synthase [Acidovorax ebreus TPSY] gi|221730007|gb|ACM32827.1| pseudouridine synthase [Acidovorax ebreus TPSY] Length = 216 Score = 85.2 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 44/179 (24%), Positives = 79/179 (44%), Gaps = 17/179 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G+++ + + D + GRLD ++EGLLLLT+DG L + Sbjct: 30 LLRFNKPYGVLSQFTPEGRWRGLQDFIDVPGV--YVAGRLDADSEGLLLLTDDGALQARI 87 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ G D+ L L++G+ + +V Sbjct: 88 SDPRHKMEKTYWVQVEGIPDEAALQALRQGVQLGDGPTLPARVRRLEPPPALWERDPPIR 147 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 Q + W+ + +REG+NR+++++ RL+R + GP+ L L G + S Sbjct: 148 VRQNIPDCWIELIIREGRNRQVRRMTAAVGHPTLRLVRAAIGPYALDGLEPGCWQPASP 206 >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 = 85.2 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 45/199 (22%), Positives = 91/199 (45%), Gaps = 20/199 (10%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P + E+ ++ L++KP ++T +D GR T+ + + + GRLD ++EGLLLL Sbjct: 18 KPKLQLEQIKVVLFNKPYDVLTQFTDEQGRKTLKNFIHIP--DIYPCGRLDRDSEGLLLL 75 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TN G + L P+ + + Y V+ G + L L++G++++ Sbjct: 76 TNCGEIQHRLTTPAFKSKKTYWVQVEGVPSEQDLEALRQGVILKDGKTLPALVKFIPPPQ 135 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-- 227 + + +W+ + + EG+NR+++++ + RLIRI+ L Sbjct: 136 NLWQRDPPIRERKTIPTSWLEIAIHEGRNRQVRRMTAHIGYPTLRLIRIATAGLNLFDFP 195 Query: 228 -LLAGSTREVSKKILREQL 245 L G + ++ + + L Sbjct: 196 QLQLGCSYSLNSNEIEQLL 214 >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 = 85.2 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 38/177 (21%), Positives = 65/177 (36%), Gaps = 17/177 (9%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + + + + + GRLD N+EGLLLLT+ G L Sbjct: 1 MPQIVLFNKPYGVVSQFSGEEHEHTLAAFI---DIPNFYAAGRLDKNSEGLLLLTDSGAL 57 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------------Q 176 L P + Y V+ G L++L+ G+V++ I + Sbjct: 58 QHRLTAPKFNKRKYYWVQVEGTPCNQDLDILRNGLVLKDISFLPAGARLIDEPHLWPRNP 117 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + +W+ + L EGKN +I+K+ + RL+R ++L L G Sbjct: 118 PIRFRKNIPTSWLEIILSEGKNHQIRKMTAAIGFPTLRLVRHRISDWRLDNLQPGEY 174 >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 = 85.2 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 42/199 (21%), Positives = 75/199 (37%), Gaps = 18/199 (9%) Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V +V + +T + L + + + V + Sbjct: 19 HRVERFSTQQVTRQRKERQPKTVILFNKPYDVLPQFTDEAGRSTLKDFI---PVAGVYAA 75 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLL+LTNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 76 GRLDRDSEGLLVLTNDGALQAKLTQPGKRTGKIYYVQVEGEPTAEALAALRNGVTLNDGP 135 Query: 172 YGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + W+ + L EG+NR+++++ + RLI Sbjct: 136 TLPAGVEVVEEPAWLWPRNPPIRERKSIPTCWLKITLYEGRNRQVRRMTAHVGFPTLRLI 195 Query: 217 RISYGPFQLGTLLAGSTRE 235 R + G + L L G R Sbjct: 196 RYAMGGYTLDGLANGEWRR 214 >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 = 85.2 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 38/136 (27%), Positives = 65/136 (47%), Gaps = 14/136 (10%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGL LLT+DG L + + P + + Y V+ G Q + L G+V+ Sbjct: 64 GRLDYDSEGLTLLTDDGKLQQQIANPKFKVWKTYWVQVEGAPKQQAIEQLTSGVVLNDGL 123 Query: 172 YGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 +V +AW+ + ++EG+NR+I+++ N RL+R Sbjct: 124 TKPAKVRAIDPPDLWERSPSVRFRAHIPDAWLEISIQEGRNRQIRRMTAAVNLPTLRLVR 183 Query: 218 ISYGPFQLGTLLAGST 233 I+ G +++G L G Sbjct: 184 IAIGDWEIGNLQPGEY 199 >gi|171909920|ref|ZP_02925390.1| Pseudouridine synthase, Rsu [Verrucomicrobium spinosum DSM 4136] Length = 189 Score = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 37/182 (20%), Positives = 77/182 (42%), Gaps = 19/182 (10%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 + L + T+ + + + V +GRLD ++EGLLLL+++ + L P Sbjct: 6 HKPYGVLSQFTKEHPSHRTLAEF--GLPAGVYPIGRLDSDSEGLLLLSDEARWNQQLLHP 63 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTLDTQ 182 + R Y V+ G + + L +G+ + + + + Sbjct: 64 TRGHERTYHVQVEGIPTAEAITRLTRGVQLPDFYTLACKVQLLEPAPLYPARVPPIRERK 123 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKI 240 +W+ + L EGKNR+++++ + RLIR + G +L L G +E+++ Sbjct: 124 SIPTSWLAMKLVEGKNRQVRRMTAAVGYPTLRLIRAAMGRLELARLDLEPGKWQELTEGQ 183 Query: 241 LR 242 ++ Sbjct: 184 IK 185 >gi|326692342|ref|ZP_08229347.1| ribosomal large subunit pseudouridine synthase E [Leuconostoc argentinum KCTC 3773] Length = 177 Score = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 82/178 (46%), Gaps = 17/178 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP ++T +D DGR T+ D + + GRLD+++EGLLLLT+ G L L Sbjct: 2 IVLFNKPYNVLTKFTDADGRPTLADYIDIPRV--YAAGRLDMDSEGLLLLTDSGKLNHAL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y V+ G + +L L+ G+ ++ + Sbjct: 60 TDPENKAYKTYVVQVEGVPTKAQLKQLENGVELKDGWTLPAKAKRIPYPKWLWPRENPIR 119 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + +++ + ++EG+NR+++++ RLIR G + L L G R + Sbjct: 120 VRKNQPTSFIQLKIKEGRNRQVRRMTAAVGLPTLRLIRTHIGDYHLADLKPGEYRVIK 177 >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 = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 51/255 (20%), Positives = 94/255 (36%), Gaps = 41/255 (16%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + P+ + + Y + G V ++ L L+KG+ + Sbjct: 38 GRLDLDSEGLMFLTDHGGLNQYITNPTNKKFKTYLAQVDGDVTEEALEQLRKGVELADGM 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + Q +W+ + + EG+NR+++++ + RLI Sbjct: 98 TLPAKAIKVDQPEWLWDRDPPVRFRANIPTSWIELQICEGRNRQVRRMTAAVGFPTLRLI 157 Query: 217 RISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIIS 276 R G L +R L P +E + L R Sbjct: 158 RTKIGAIDL---------------VRLGLQPGEQKEIEPLLYPDFKDLPEDKPYRSRSYV 202 Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 + P + +K G K P +++ +W S+ +R+ N Sbjct: 203 KKPGGTGGKPMHQKKKEGDKKD-----PNKKKSGTKRIWQ------MDESEKPRRKTNGT 251 Query: 337 RSPSFPSKRSLRRTS 351 P+ + R R S Sbjct: 252 TRPNTKAPRGRSRNS 266 >gi|152978114|ref|YP_001343743.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] gi|150839837|gb|ABR73808.1| pseudouridine synthase [Actinobacillus succinogenes 130Z] Length = 243 Score = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 49/185 (26%), Positives = 92/185 (49%), Gaps = 16/185 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +T++ L++KP ++T +D GR T+ D +P + GRLD ++EGLL+LTN+G L Sbjct: 52 QTQVVLFNKPFDVLTQFTDESGRKTLKDFIPVPGI--YAAGRLDRDSEGLLILTNNGELQ 109 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------V 177 L P + + Y V+ GQ + L L++G+ ++ + Sbjct: 110 HRLANPKFKLPKTYWVQVEGQPTEADLERLRRGVELKDGMTKPAKVRSIAEPDLWQRVPP 169 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + AW+ + L EGKNR+++++ + RL+R + L L +G RE++ Sbjct: 170 IRERKNIPTAWLEIQLGEGKNRQVRRMTAHIGFPTLRLVRAATAGLTLHGLPSGQYRELT 229 Query: 238 KKILR 242 + ++ Sbjct: 230 ESEIK 234 >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 = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 94/188 (50%), Gaps = 16/188 (8%) Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 + P E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGL+ Sbjct: 57 NMKPKVALEDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLM 114 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 +LTNDG L P+++ + Y V+ G ++ L+ L+KG+ ++ Q+ + ++ Sbjct: 115 VLTNDGIFQAKLTQPNSKSPKTYWVQVEGAPSEEDLDKLRKGVELKDGMTLPAQIEVMSE 174 Query: 183 --------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 W+ + + EG+NR+++++ + RLIR S G +G L Sbjct: 175 PVVWERTPPVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGNMNVGQL 234 Query: 229 LAGSTREV 236 G +E+ Sbjct: 235 QPGEWKEI 242 >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 = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 49/190 (25%), Positives = 90/190 (47%), Gaps = 20/190 (10%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G + + L++KP ++ +D GR T+ D +P + GRLD ++EGLLL Sbjct: 46 GKTVEP----VIVLFNKPFDVLCQFTDEQGRQTLKDFIPIPGV--YAAGRLDRDSEGLLL 99 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y + G D+ +L+LL+KG+ ++ ++++ Sbjct: 100 LTNDGKLQSKLTEPKKKTFKTYWAQVEGAPDEAQLDLLRKGVELKDGMTLPAKISIMSQP 159 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 160 TVWERVPPIRERKAIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLS 219 Query: 230 AGSTREVSKK 239 G + + K Sbjct: 220 PGQYQSIDMK 229 >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 = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 40/185 (21%), Positives = 67/185 (36%), Gaps = 17/185 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 +Y L + + L + +++GRLD ++EGLLLLT DG Sbjct: 10 QAHQHFLIYKPYGFLSQFVPETRKSKPLLGQLYDFPDKTMAIGRLDHDSEGLLLLTTDGM 69 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDM------------ 175 + ++ S + +V Q I I G Sbjct: 70 QSHLIRSKSIEKEYYVQVDGLVSQAQLLQLQQGVEIGISGGKYLTLPCQVELLTTEPNLP 129 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + D + G +W++V + EGKNR+++K+ RL+R+ G L + G Sbjct: 130 ARGKKIRDPRHGPTSWLSVTIAEGKNRQVRKMTAAVGLPTLRLVRVRIGHICLKQMQPGE 189 Query: 233 TREVS 237 VS Sbjct: 190 VLPVS 194 >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 = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 47/186 (25%), Positives = 80/186 (43%), Gaps = 19/186 (10%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 R + +KP +V+ PD + D +VGRLD N+EGLLLLT + + R Sbjct: 6 HRYFAINKPYNMVSQFISPDKVRLLGDLDFDFPEGTHAVGRLDNNSEGLLLLTTNKRVTR 65 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-----GICYGDMQVTLDTQKG--- 184 +L R Y V V Q+ + L+ G+ I+ + + + Sbjct: 66 LLFESEQPHKRAYLVMVKNIVTQETIEKLRNGVTIRIKGGVDWVTTPCEAEIVEKPAYIA 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|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 = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 48/187 (25%), Positives = 90/187 (48%), Gaps = 16/187 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ +++KP +++ +D R T+ D + V + GRLD ++EGLL+L Sbjct: 21 KPRPAPEDRKVLIFNKPFDVLSQFTDDQHRQTLADFIS--VKDVYAAGRLDRDSEGLLIL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L L P ++ + Y V+ G +D L L++G+ ++ +V + T+ Sbjct: 79 TNDGVLQARLTQPESKSPKTYWVQVEGAPTEDDLEKLRQGVELKDGMTLPAKVEVMTEPE 138 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ V + EG+NR+++++ + RLIR S G + + + Sbjct: 139 LWERNPPVRFRAAIPTTWIAVTIIEGRNRQVRRMTAHIGFPTLRLIRYSMGDWTIKDVPH 198 Query: 231 GSTREVS 237 +EV+ Sbjct: 199 REWKEVT 205 >gi|332993406|gb|AEF03461.1| ribosomal large subunit pseudouridine synthase E [Alteromonas sp. SN2] Length = 180 Score = 84.8 bits (208), Expect = 2e-14, Method: Composition-based stats. Identities = 34/139 (24%), Positives = 65/139 (46%), Gaps = 14/139 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + + Y V+ G ++ L+ L+ G+ ++ Sbjct: 39 YAAGRLDRDSEGLLVLTNDGKLQHKLAHPEAKTSKTYWVQVEGIPNEAALDALRNGVELK 98 Query: 169 GICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 +V Q +W+++ + EG+NR+++++ + R Sbjct: 99 DGMTKPAKVVAIDPPELWDRIPPVRFRQAIPTSWLSITISEGRNRQVRRMTAHIGFPTLR 158 Query: 215 LIRISYGPFQLGTLLAGST 233 L+R G + + + G Sbjct: 159 LVRYRVGNWTIDGIDNGKY 177 >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 = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 43/178 (24%), Positives = 85/178 (47%), Gaps = 16/178 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ L++KP G+++ + DG+ T+ + + + GRLD ++EGLL+LT+DG L Sbjct: 3 KVVLFNKPCGVLSQFTAQDGQRTLAEFIDQPGV--YAAGRLDKDSEGLLVLTDDGALQHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------------QVTL 179 + P ++ Y + G L+ L++G+ ++ Sbjct: 61 IASPRHASVKRYWAQVEGTPTNAALDALREGVELKDGWTRPAGARRLDAPPLWPRDPPIR 120 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + AW+ + L EG+NR+++++ + RL+R S GP+ L L G R ++ Sbjct: 121 ERKSIPTAWIELSLSEGRNRQVRRMTAAVGFPTLRLVRWSVGPWDLEGLAPGELRVIT 178 >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 = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 45/187 (24%), Positives = 78/187 (41%), Gaps = 18/187 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R ++ +KP +V+ + + +VGRLD +EGLL+LT + + Sbjct: 9 PHRYFIINKPPNMVSQFVSSHDVRLLGELDFDFPEGTHAVGRLDSMSEGLLILTTNKKVT 68 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-----GICYGDMQVTLDTQ---- 182 +L L R Y V V + + LL+ GI I+ +V + + Sbjct: 69 NLLFLGEVPHTRTYWVNVGHIVPPETVQLLRTGIPIRVKGGGYYTTAPCEVEVIERPAIL 128 Query: 183 ---------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 N W+++ L EGK +++K+ N + RL+R S +LG L G Sbjct: 129 PWHQSEGQPGVPNTWLSITLTEGKYHQVRKMVREANHRCKRLVRASIEDLELGDLPPGGV 188 Query: 234 REVSKKI 240 RE+ ++ Sbjct: 189 REIGEEE 195 >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 = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 45/196 (22%), Positives = 79/196 (40%), Gaps = 23/196 (11%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + L +KP G+++ + +G + +V + GRLD ++EGLL+LT++ Sbjct: 11 KTQADLTTLLLNKPYGVLSQFTSEEGSRWRCLSDFVDVPQVYAAGRLDADSEGLLILTSN 70 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--- 184 G L + L P R Y + G + ++L L G+V+QG + + Sbjct: 71 GRLQQRLTDPRFGHWRSYWAQVEGTPNTEQLQQLCDGVVVQGRRTLPAKARWLQGQDLPQ 130 Query: 185 --------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQ 224 W+ + L EG+NR+++++ RL+R P Sbjct: 131 LPERTPQIRFRAAIPTNWLQLSLSEGRNRQVRRMTAAVGLPTLRLVRCCIDLMDNGPPLD 190 Query: 225 LGTLLAGSTREVSKKI 240 L L GS R V+ Sbjct: 191 LTGLQPGSWRTVTAAE 206 >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 = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 25/110 (22%), Positives = 45/110 (40%), Gaps = 15/110 (13%) Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVTLDTQKGSNAW 188 +Y V+ G QD L L+ G+ + + + +W Sbjct: 18 IYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTSW 77 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + + L EG+NR+++++ + RLIR + G + L L G REV+ Sbjct: 78 LKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREVTD 127 >gi|266624513|ref|ZP_06117448.1| ribosomal small subunit pseudouridine synthase A [Clostridium hathewayi DSM 13479] gi|288863635|gb|EFC95933.1| ribosomal small subunit pseudouridine synthase A [Clostridium hathewayi DSM 13479] Length = 108 Score = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 3/88 (3%) Query: 168 QGICYGDMQVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL 225 G + L + G + + + + EGK ++K++FE V L R+S G L Sbjct: 21 DGTETLPADLELVRRGGCGELSEIRLTIHEGKFHQVKRMFETLGCHVVYLKRLSMGTLTL 80 Query: 226 GT-LLAGSTREVSKKILREQLGPHLLEE 252 L G R ++++ L +E Sbjct: 81 DETLKPGEYRPLTREELELLNKTDQEQE 108 >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 = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 34/143 (23%), Positives = 66/143 (46%), Gaps = 14/143 (9%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLLLLT++G + + P T+ + Y V+ G + + L+ G +++ Sbjct: 36 YPAGRLDYDSEGLLLLTDNGTVQHRISHPRTKMPKTYWVQVEGAPTEQDIEPLRVGAILK 95 Query: 169 GICYGDM--------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + W+ + + EG+NR+++++ + R Sbjct: 96 DGPCLPAMVELIPEPNIWKREPPIRARKAIPTTWLQLVITEGRNRQVRRMTASLGFPTLR 155 Query: 215 LIRISYGPFQLGTLLAGSTREVS 237 LIR+ G + + TL G TR+++ Sbjct: 156 LIRVKIGEWSIDTLKPGETRQIT 178 >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 = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 51/210 (24%), Positives = 95/210 (45%), Gaps = 16/210 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L++KP +++ SD +G+ T+ D + + V GRLD ++EGLLLLT+DG L Sbjct: 3 RLILFNKPYQVISQFSDSEGKKTLADFIDTK--NVYPAGRLDFDSEGLLLLTDDGLLQHR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----------- 182 + P + + Y V+ G D + L G+ ++ +V + + Sbjct: 61 ISDPKHKSYKTYWVQVEGIPDNLAIQHLVNGVDLKDGKTLPAKVNIIDEPNLWDRHPPIR 120 Query: 183 ---KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 +W+ + + EGKNR+++++ RL+R+S G + L L G +E+S Sbjct: 121 QRSNDVTSWLEIQIMEGKNRQVRRMTAAVGHPTLRLVRVSIGQWHLEQLKPGEFKELSVH 180 Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVR 269 + + + + + P + R Sbjct: 181 MPKASRDKYPKNQHSDKMRNPKSTRRKSRR 210 >gi|227550852|ref|ZP_03980901.1| possible pseudouridylate synthase [Enterococcus faecium TX1330] gi|227179950|gb|EEI60922.1| possible pseudouridylate synthase [Enterococcus faecium TX1330] Length = 103 Score = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 1/76 (1%) Query: 168 QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 G + + + V + ++EGK ++KK+F KV L R+S GP +L Sbjct: 21 DGYQCQPANLKILKADKHQSTVLLTIQEGKFHQVKKMFLAQGKKVIALKRLSMGPLELDE 80 Query: 228 -LLAGSTREVSKKILR 242 L G R ++ ++ Sbjct: 81 RLAVGEYRSLTLAEMK 96 >gi|213023878|ref|ZP_03338325.1| 23S rRNA pseudouridine synthase F [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 165 Score = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 24/166 (14%), Positives = 55/166 (33%), Gaps = 4/166 (2%) Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + Y V + + + + G+ I G +K + + L + Sbjct: 4 RAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFRITLVQ 59 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQV 255 G NR+I+++ E+F ++V +L R L + G R+++ L + ++ Sbjct: 60 GLNRQIRRMCEYFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEGSSSEA 119 Query: 256 NLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 A ++ I + + + K+K Sbjct: 120 KPKAKAKPKTAGIKRPVVAIEKSNEKARPASSGKRFTSPGRKKKGR 165 >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 = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 47/181 (25%), Positives = 82/181 (45%), Gaps = 16/181 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL L +KP +++ +D +L I GRLD ++EGLLLLT++G L Sbjct: 1 MPRLILLNKPYDVLSQFTDRAEGRATLASLVPIPGV-YVCGRLDRDSEGLLLLTDNGPLQ 59 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--------- 182 + P ++ + YR + G D+ L+ L++G+ ++ + V + Sbjct: 60 HHISHPRSKVPKTYRAQVEGVADKAALDRLRQGVTLRDGPARAVTVEAIDEPAGLWPRDP 119 Query: 183 ------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +W+ + + EG+NR ++++ RLIR S G + L L GS RE Sbjct: 120 PIRWRANIPTSWIELTIDEGRNRMVRRMTAAVGLPTLRLIRWSIGDWTLENLPPGSWREE 179 Query: 237 S 237 + Sbjct: 180 T 180 >gi|47459161|ref|YP_016023.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma mobile 163K] gi|47458490|gb|AAT27812.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma mobile 163K] Length = 298 Score = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 39/248 (15%), Positives = 82/248 (33%), Gaps = 38/248 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ K I+ R+ K +A + SR +++++I + +V VN IL+ +A+ + D I Sbjct: 1 MEIKKIIATEIN--RIDKFLANSTDYSRNDIQQLIDEHQVYVNDILVRKASFKIKENDQI 58 Query: 61 EVDGVPLRKAERTR--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 E+ +++ L + + +V + V L + Sbjct: 59 EIKKQLIKETNAIAQNINLDIVFENEDFLIINKRSGMVVHPAPGNMQDTLVNALLFHFKN 118 Query: 107 R---------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 V R+D +T GLLL+ L + + + D Sbjct: 119 NLSNINGEIRPGIVHRIDKDTSGLLLVAKTNEAHNYFALLLKKHQIERKYQAIIVGKMDH 178 Query: 158 LN-------------LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 LK + ++T +++ + L+ G+ +I+ Sbjct: 179 TITNINLPIGRNTSSRLKMEVTAHNSKEAFTKITSLKASETHSLIQCELKTGRTHQIRVH 238 Query: 205 FEFFNWKV 212 N + Sbjct: 239 LAHINKPI 246 >gi|46203293|ref|ZP_00208890.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Magnetospirillum magnetotacticum MS-1] Length = 187 Score = 84.5 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 45/188 (23%), Positives = 88/188 (46%), Gaps = 16/188 (8%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 TRL +++KP ++T +D +G + ++ + GRLD ++EGLL+LT+ G LA Sbjct: 1 MTRLIVFNKPYDVLTQFTDREGGRATLKDFINVPGV-YAAGRLDRDSEGLLVLTDSGPLA 59 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------Q 176 + P + + Y + G +D L+ L++G+V++ Sbjct: 60 ARISDPKHKLAKTYWAQVEGIPSEDDLDKLRRGVVLKDGPTLPAGVRTMPEPDNLWPRDP 119 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 +W+ + +REG+NR+++++ + RLIR + G + L L G R+ Sbjct: 120 PIRYRAAIPTSWIELTIREGRNRQVRRMTAAMGFPTLRLIRWAVGEWTLAGLAPGEWRDE 179 Query: 237 SKKILREQ 244 + L++ Sbjct: 180 PVRALKKP 187 >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 = 84.5 bits (207), Expect = 3e-14, Method: Composition-based stats. Identities = 44/175 (25%), Positives = 89/175 (50%), Gaps = 16/175 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 ++ L++KP +++ SD +GR T+ D L + R + GRLD ++EGLLLLT++G L + Sbjct: 12 KIILFNKPFRVLSQFSDTEGRRTLADFLSAPEFR--AAGRLDYDSEGLLLLTDNGQLQQQ 69 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------VTL 179 + P + + Y V+ G++D + L + ++ + Sbjct: 70 IANPRHKQWKTYLVQVEGELDDLSIAALCAPLKLKDGLTLPARARRIEPPALWPRHPPVR 129 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + ++W+ + +REG+NR+++++ + RL+R + G + LG + G R Sbjct: 130 ERKSVPDSWLELSIREGRNRQVRRMTAAVGFPTLRLVRQAVGDWSLGDIAPGEYR 184 >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 = 84.5 bits (207), Expect = 3e-14, Method: Composition-based stats. Identities = 50/182 (27%), Positives = 86/182 (47%), Gaps = 22/182 (12%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L++KP G++ DPDG T+ D + V + GRLD ++EGLL+LT+DG L Sbjct: 3 RVILFNKPCGVLCQFRDPDGVPTLGDYID--VPDVYAAGRLDKDSEGLLVLTDDGRLQNR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--------- 184 + P + + Y V+ G+ + L L++G+ ++ V + Sbjct: 61 ITSPENKLPKTYWVQVEGEPSDEALKQLRRGVHLKDGKTRRADVKRMAGEPLSEHGGLWP 120 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 W+++ L+EGKNR+++++ RL+R GP+QL L +G Sbjct: 121 RNPPVRYRKSVPTCWLSITLKEGKNRQVRRMTAAVGHPTLRLVRWRIGPWQLADLASGDW 180 Query: 234 RE 235 E Sbjct: 181 IE 182 >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 = 84.5 bits (207), Expect = 3e-14, Method: Composition-based stats. Identities = 36/144 (25%), Positives = 66/144 (45%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD+++EGLLLLT+ G L L P + + Y V+ G + +L L++G+ ++ Sbjct: 34 YAAGRLDMDSEGLLLLTDQGHLNHALTDPDNKAYKTYVVQVEGIPTKAQLKQLEQGVDLK 93 Query: 169 GICYGDMQVTLDT---------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +V Q +++ + ++EG+NR+++++ Sbjct: 94 DGLTLPAKVKRIPYPKWLWAREKPIRTRQNQPTSFIQLKIKEGRNRQVRRMTAAVGIPTL 153 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR G + L L G R + Sbjct: 154 RLIRTHIGDYHLADLQPGQYRIIK 177 >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 = 84.5 bits (207), Expect = 3e-14, Method: Composition-based stats. Identities = 45/185 (24%), Positives = 83/185 (44%), Gaps = 17/185 (9%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L ++KP+ ++ + G + + V + GRLD ++EGLLLLT+DG Sbjct: 6 PRGHHMLIAFNKPMNTLSQFTSEGGWPALDGF--GLPKGVYAAGRLDRDSEGLLLLTDDG 63 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ------------ 176 GL + P + +VY G D L+ L++G+ ++ + Sbjct: 64 GLQARISSPKYRSPKVYFALVEGVPDDAALDHLRRGVTLKDGQTAPCEAEAVAAPDWIWD 123 Query: 177 ---VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + ++ W+ + L EG+NR+++++ + V RL+R S GP + L G Sbjct: 124 RDPPVRIRKSITDTWLKLTLTEGRNRQVRRMCAGVGFPVIRLVRFSIGPHDIRDLPPGMW 183 Query: 234 REVSK 238 RE++ Sbjct: 184 RELAP 188 >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 = 84.5 bits (207), Expect = 3e-14, Method: Composition-based stats. Identities = 46/186 (24%), Positives = 88/186 (47%), Gaps = 16/186 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 A+ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLLLTND Sbjct: 53 PAAKDPVILLFNKPFDVLCQFTDEQGRKTLKDFIP--VKDVYAAGRLDRDSEGLLLLTND 110 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L + P + + Y V+ G ++ L L+ G+ ++ ++++ Sbjct: 111 GKLQSKITEPKKKTFKTYWVQVEGAPNEAALQTLRNGVKLKDGMTLPAKISILSEPNIWD 170 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + + EG+NR+++++ + RLIR G + L + G Sbjct: 171 REPPIRERKNIPTTWLEIQICEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDIDIGQY 230 Query: 234 REVSKK 239 + + K Sbjct: 231 QILDMK 236 >gi|300906321|ref|ZP_07124020.1| hypothetical protein HMPREF9536_04286 [Escherichia coli MS 84-1] gi|301302690|ref|ZP_07208819.1| hypothetical protein HMPREF9347_01269 [Escherichia coli MS 124-1] gi|300401894|gb|EFJ85432.1| hypothetical protein HMPREF9536_04286 [Escherichia coli MS 84-1] gi|300841910|gb|EFK69670.1| hypothetical protein HMPREF9347_01269 [Escherichia coli MS 124-1] gi|315254683|gb|EFU34651.1| conserved hypothetical protein [Escherichia coli MS 85-1] Length = 168 Score = 84.5 bits (207), Expect = 3e-14, Method: Composition-based stats. Identities = 26/172 (15%), Positives = 59/172 (34%), Gaps = 4/172 (2%) Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 1 MNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 56 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 57 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 116 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 117 SSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 168 >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 = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 37/146 (25%), Positives = 67/146 (45%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + ++Y V+ G D + L+ G+ ++ Sbjct: 62 YAAGRLDRDSEGLMVLTNDGALQATLTQPGKRTGKIYYVQVEGIPDISHIQALRDGVNLK 121 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ + L EG+NR+++++ + Sbjct: 122 DGPTLPAGAELVAEPEWLWPRNPPIRERKAIPTSWLKITLYEGRNRQVRRMTAQIGFPTL 181 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR + G L L G R+V+ + Sbjct: 182 RLIRFAMGTQMLQDLPPGEWRDVTAE 207 >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 = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 42/146 (28%), Positives = 73/146 (50%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + +VY V+ G ++ L L+ G+ ++ Sbjct: 92 YAAGRLDRDSEGLMILTNDGTLQARLTQPGKRTGKVYFVQVEGCPHENDLVPLRAGVDLK 151 Query: 169 GICYGDMQVTL---------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +V + + + +W+ + L EG+NR+++++ + Sbjct: 152 DGPTLPAEVEIVAAPDWLWDRHPPVRERKAIPTSWLKITLYEGRNRQVRRMTAHIGFPTL 211 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR S G QL TL G R++S + Sbjct: 212 RLIRFSMGTLQLQTLAPGEWRDISSE 237 >gi|261821431|ref|YP_003259537.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] gi|261605444|gb|ACX87930.1| pseudouridine synthase [Pectobacterium wasabiae WPP163] Length = 209 Score = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 46/190 (24%), Positives = 84/190 (44%), Gaps = 17/190 (8%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 G R+ L++KP ++ +D GR T+ D +P + GRLD ++EGL++ Sbjct: 21 GKRQPDNAPRRIVLFNKPFDVLPQFTDEAGRRTLKDYIPISGI--YAAGRLDRDSEGLMI 78 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-------- 175 LTNDG L L P+ + ++Y V+ G D+ L + G+ + Sbjct: 79 LTNDGKLQARLTQPTEKTAKIYYVQVEGIPDEAALTHFRTGLELNDGKTLPAGAEIVPEP 138 Query: 176 -------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + + W+ + L EG+NR+++++ + RLIR + L Sbjct: 139 DWLWPRNPPIRERKSIPDCWLKITLYEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENL 198 Query: 229 LAGSTREVSK 238 L G +E++ Sbjct: 199 LPGEWKEITD 208 >gi|187925144|ref|YP_001896786.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187716338|gb|ACD17562.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] Length = 189 Score = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 39/176 (22%), Positives = 66/176 (37%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRASLADWVKVPDVYPAGRLDSDSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G VD L L +G+ + + Sbjct: 67 LVKRYWAQVEGAVDAATLKKLARGVDLGDYVTRPCRAEYVEPTDALWTRTPPIRFRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G + L G + E+S K Sbjct: 127 TTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFSLGLQPGESVELSPK 182 >gi|300906320|ref|ZP_07124019.1| S4 domain protein [Escherichia coli MS 84-1] gi|301302689|ref|ZP_07208818.1| S4 domain protein [Escherichia coli MS 124-1] gi|300401893|gb|EFJ85431.1| S4 domain protein [Escherichia coli MS 84-1] gi|300841909|gb|EFK69669.1| S4 domain protein [Escherichia coli MS 124-1] gi|315254682|gb|EFU34650.1| S4 domain protein [Escherichia coli MS 85-1] Length = 59 Score = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 1/57 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G + Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDIVKVNGQLI 59 >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 = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 48/186 (25%), Positives = 83/186 (44%), Gaps = 21/186 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G++ S + ++ D++ + GRLD ++EGLLLLTNDG L + Sbjct: 7 LIAFNKPCGVICQFSPHETHPSLKDHIDAPGF--YPAGRLDTDSEGLLLLTNDGRLQARI 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + Y + G D+ KL LL++ + + + L Sbjct: 65 AEPRHGKEKTYWAQVEGAPDEHKLALLRRPMDLGDFITQPARTRLLAADETERLWPRQPP 124 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGSTRE 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|119897392|ref|YP_932605.1| pseudouridylate synthase [Azoarcus sp. BH72] gi|119669805|emb|CAL93718.1| pseudouridylate synthase [Azoarcus sp. BH72] Length = 201 Score = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 55/181 (30%), Positives = 89/181 (49%), Gaps = 17/181 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L +KP G++ S GR+T+ D++P V GRLD ++EGLLLLT+DG L Sbjct: 3 RLILLNKPYGVLCQFSGEPGRATLKDHVPIP--EVYPAGRLDTDSEGLLLLTDDGALQAR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVT 178 + P + + Y V+ G+ D L L+ G+ + Sbjct: 61 IADPRHKLPKTYLVQVEGEPDDAALAALRAGVDLGDFRTRPCSARRVVEPDWLWPRDPPV 120 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + +WV + LREGKNR+++++ + RL+R++ GP++L L G+ REV Sbjct: 121 RYRKSVPTSWVEIVLREGKNRQVRRMTAKVGFPTLRLLRVAIGPWRLDGLAPGAWREVEP 180 Query: 239 K 239 + Sbjct: 181 R 181 >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 = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 43/186 (23%), Positives = 75/186 (40%), Gaps = 17/186 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P ER + L ++ + + GRLD ++EGL++LT Sbjct: 44 PRSPDERKVIAFNKPYDTLSQFTDGQGRQTLADFI---TIKDIYAAGRLDRDSEGLMILT 100 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----- 180 NDG L L P + + Y V+ G+ + L L++G+ ++ +V + Sbjct: 101 NDGVLQARLTQPKAKAPKTYWVQVEGEPQEADLEQLRRGVTLKDGPTLPAKVEIIKPPQV 160 Query: 181 ---------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + + EG+NR+++++ + RLIR S G L TL G Sbjct: 161 WERNPPVRFRAAIPTTWLAMTIIEGRNRQVRRMTACIGFPTLRLIRYSIGNTTLETLQPG 220 Query: 232 STREVS 237 RE+ Sbjct: 221 EWREID 226 >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 = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 43/198 (21%), Positives = 74/198 (37%), Gaps = 18/198 (9%) Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V +V +T + L + + + V + Sbjct: 19 HRVERFSTQQVTRQRKEHQPKTVILFNKPYDVLPQFTDEAGRSTLKDFI---PVAGVYAA 75 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLL+LTNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 76 GRLDRDSEGLLVLTNDGALQAKLTQPGKRTGKIYYVQVEGEPTAEALAALRDGVTLNDGP 135 Query: 172 YGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + W+ V L EG+NR+++++ + RLI Sbjct: 136 TLPAGVEVVEEPAWLWPRNPPIRERKSIPTRWLKVTLYEGRNRQVRRMTAHVGFPTLRLI 195 Query: 217 RISYGPFQLGTLLAGSTR 234 R + G + L L G R Sbjct: 196 RYAMGGYTLDGLANGEWR 213 >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 = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 48/188 (25%), Positives = 88/188 (46%), Gaps = 17/188 (9%) Query: 65 VPLRKAE-RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 P++ + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 80 KPVQSQTLAPIIVLFNKPFDVLCQFTDEQGRKTLKDYIPIA--DVYAAGRLDRDSEGLLL 137 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L L P + + Y V+ G +D L L++G+ + +V + Sbjct: 138 LTNDGQLQARLTEPKKKTFKTYWVQVEGVPTEDALTKLRQGVELNDGMTLPAKVKIMDSP 197 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + + L Sbjct: 198 DIWPRNPPVRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSIDNLP 257 Query: 230 AGSTREVS 237 +G + + Sbjct: 258 SGEHKCIR 265 >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 = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 46/180 (25%), Positives = 83/180 (46%), Gaps = 16/180 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 TRL +++KP ++T +D +G + + + GRLD ++EGLL+LT+ G LA Sbjct: 16 TRLIVFNKPYDVLTQFTDREGGRATLKDFIKVPGV-YAAGRLDRDSEGLLVLTDSGPLAA 74 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QV 177 + P + + Y + G + L+ L++GIV++ Sbjct: 75 RISDPKHKLAKTYWAQVEGVPTEADLDRLRRGIVLKDGPTLPAGARAMAEPDNLWPRDPP 134 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + LREG+NR+++++ + RLIR + G + L L G R+V Sbjct: 135 IRYRAAIPTSWIELTLREGRNRQVRRMTAAMGFPTLRLIRWAVGEWNLEGLAPGEWRDVR 194 >gi|312172141|emb|CBX80398.1| ribosomal large subunit pseudouridine synthase [Erwinia amylovora ATCC BAA-2158] Length = 218 Score = 84.1 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 39/153 (25%), Positives = 67/153 (43%), Gaps = 15/153 (9%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + + GRLD ++EGL++LTNDG L L P + +VY V+ G + L L Sbjct: 65 YIPHPGIYAAGRLDRDSEGLMVLTNDGALQAQLTQPGKRTGKVYFVQVEGCPQESDLQPL 124 Query: 162 KKGIVIQGICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + G+ ++ + + W+ + L EG+NR+++++ Sbjct: 125 RDGVNLKDGPTLPAVVERVAAPGWLWDRQPPIRERKAIPTCWLKITLYEGRNRQVRRMTA 184 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + RLIR S G L L G R++S + Sbjct: 185 HIGYPTLRLIRFSMGNLGLRALAPGEWRDISHE 217 >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 = 83.7 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 50/186 (26%), Positives = 93/186 (50%), Gaps = 17/186 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++++ R+ L++KP ++ +D GRST+ D +P + GRLD ++EGLL+LTND Sbjct: 34 QESQPKRVILFNKPYDVLPQFTDEAGRSTLKDYIPVQGV--YAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G+ D++ L L+ G+ + Sbjct: 92 GALQAKLTQPGKRTGKIYFVQVEGEPDEEALAALRNGVTLNDGPTLPAGIERVNEPEWLW 151 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR + G + L +L G Sbjct: 152 PRNPPIRERKSIPTSWLKITLFEGRNRQVRRMTAHVGFPTLRLIRYAMGSYTLDSLANGE 211 Query: 233 TREVSK 238 R+V+ Sbjct: 212 WRDVAP 217 >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 = 83.7 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 42/198 (21%), Positives = 75/198 (37%), Gaps = 18/198 (9%) Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V +V + +T + L + + + V + Sbjct: 19 HRVERFSTQQVTRQRKERQPKTVILFNKPYDVLPQFTDEAGRSTLKDFI---PVAGVYAA 75 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLL+LTNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 76 GRLDRDSEGLLVLTNDGALQAKLTQPGKRTGKIYYVQVEGEPTPEALAALRDGVTLNDGP 135 Query: 172 YGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + W+ + L EG+NR+++++ + RLI Sbjct: 136 TLPAGVEVVEEPAWLWPRNPPIRERKSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLI 195 Query: 217 RISYGPFQLGTLLAGSTR 234 R + G + L L G R Sbjct: 196 RYAMGGYTLDGLANGEWR 213 >gi|303234008|ref|ZP_07320657.1| pseudouridine synthase, RluA family [Finegoldia magna BVS033A4] gi|302494933|gb|EFL54690.1| pseudouridine synthase, RluA family [Finegoldia magna BVS033A4] Length = 307 Score = 83.7 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 85/245 (34%), Gaps = 33/245 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + ++ ++ R+ +A SR E++++I ++V VNG + ++ + D I Sbjct: 1 MIYEFLIDDSNQNARLDVFLANVVELSRSEIQKLIDDKKVLVNGKIQKK-NYKLNLNDKI 59 Query: 61 EVD----GVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 +D ++ E L + +K ++ ++ T+ + L F Sbjct: 60 TLDYEKPDKTIKAQKQDLDIVYEDDYLAIINKDKDVIVHPTETIYSDTLVNYLMYNFKNL 119 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL------RVYRVRFHGQV 153 R V RLD +T GL+++ D L+ + + Sbjct: 120 SDVDGDYRRGIVHRLDKDTTGLIIIAKDNDTHLKLKEIIKNHEIIKTYLCIVHGKIDECG 179 Query: 154 DQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 ++ KK +V Q + V V ++ G+ +I+ + Sbjct: 180 TIEEYMSRNPKDRKKMMVSDEGKLSISQYERLDYNDDYSLVKVQIKTGRTHQIRVHMNYI 239 Query: 209 NWKVN 213 + + Sbjct: 240 HHPIL 244 >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 = 83.7 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 39/153 (25%), Positives = 67/153 (43%), Gaps = 15/153 (9%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + + GRLD ++EGL++LTNDG L L P + +VY V+ G + L L Sbjct: 65 YIPHPGIYAAGRLDRDSEGLMVLTNDGALQAQLTQPGKRTGKVYFVQVEGCPQESDLLPL 124 Query: 162 KKGIVIQGICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + G+ ++ + + W+ + L EG+NR+++++ Sbjct: 125 RDGVNLKDGPTLPAVVERVAAPGWLWDRQPPIRERKAIPTCWLKITLYEGRNRQVRRMTA 184 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + RLIR S G L L G R++S + Sbjct: 185 HIGYPTLRLIRFSMGNLGLRALAPGEWRDISHE 217 >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 = 83.7 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 46/183 (25%), Positives = 86/183 (46%), Gaps = 16/183 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + L++KP ++ +D GR T+ D +P + GRLD ++EGLLLLTND Sbjct: 78 KPQGDPMIVLFNKPFDVLCQFTDEQGRKTLKDYIPIPGV--YAAGRLDRDSEGLLLLTND 135 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L L P + + Y V+ G+ + L L++G+ ++ +V++ Sbjct: 136 GQLQAKLTEPKKKTFKTYWVQVEGKPTEADLAKLRQGVELKDGMTLPAKVSIMATPNVWP 195 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + + EG+NR+++++ + RLIR G + L L G Sbjct: 196 RNPPIRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLATGEH 255 Query: 234 REV 236 + + Sbjct: 256 KCI 258 >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 = 83.7 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 42/198 (21%), Positives = 75/198 (37%), Gaps = 18/198 (9%) Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V +V + +T + L + + + V + Sbjct: 9 HRVERFSTQQVTRQRKERQPKTVILFNKPYDVLPQFTDEAGRSTLKDFI---PVAGVYAA 65 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLL+LTNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 66 GRLDRDSEGLLVLTNDGALQAKLTQPGKRTGKIYYVQVEGEPTPEALTALRDGVTLNDGP 125 Query: 172 YGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + W+ + L EG+NR+++++ + RLI Sbjct: 126 TLPAGVELVEEPVWLWPRNPPIRERKSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLI 185 Query: 217 RISYGPFQLGTLLAGSTR 234 R + G + L L G R Sbjct: 186 RYAMGGYTLDGLANGDWR 203 >gi|301046963|ref|ZP_07194075.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|300301121|gb|EFJ57506.1| conserved hypothetical protein [Escherichia coli MS 185-1] gi|324007835|gb|EGB77054.1| hypothetical protein HMPREF9532_02485 [Escherichia coli MS 57-2] Length = 168 Score = 83.7 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 25/172 (14%), Positives = 58/172 (33%), Gaps = 4/172 (2%) Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + Y V + + + + G+ I G +K + Sbjct: 1 MNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTV----TKKCKVKKEAPFVFR 56 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLL 250 + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 57 ITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIEN 116 Query: 251 EEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++ A ++ + + + R N + ++KK Sbjct: 117 SSSEAKPKAKAKPKTVGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 168 >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 = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 40/145 (27%), Positives = 68/145 (46%), Gaps = 15/145 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + +VY V+ G + L L+ G+ ++ Sbjct: 76 YAAGRLDRDSEGLMVLTNDGALQAALTQPGKRTGKVYYVQVEGDPQEADLQPLRDGVNLK 135 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + W+ V L EG+NR+++++ + Sbjct: 136 DGMTLPAGVEKVAEPAWLWPRQPPIRERKNIPTQWLKVTLYEGRNRQVRRMTAHIGFPTL 195 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 RLIR + G + L L +G RE+S+ Sbjct: 196 RLIRYAMGSYSLDDLASGMWREISE 220 >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 = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 45/183 (24%), Positives = 83/183 (45%), Gaps = 16/183 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + L++KP ++ +D GR T+ D +P + GRLD ++EGLLLLTND Sbjct: 78 KPQGDPMIVLFNKPFDVLCQFTDEQGRKTLKDYIPIPGV--YAAGRLDRDSEGLLLLTND 135 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ----------- 176 G L L P + + Y V+ G+ + L L++G+ ++ + Sbjct: 136 GQLQAKLTEPKKKTFKTYWVQVEGEPTEADLAKLRQGVELKDGMTLPAKVSLMATPNVWP 195 Query: 177 ---VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + + EG+NR+++++ + RLIR G + L L G Sbjct: 196 RNPPIRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLATGEH 255 Query: 234 REV 236 + + Sbjct: 256 KCI 258 >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 = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 51/186 (27%), Positives = 91/186 (48%), Gaps = 16/186 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGLL+L Sbjct: 59 KPKVAPEDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLLVL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L P+++ + Y V+ G + L+ L+KG+ ++ +V + + Sbjct: 117 TNDGIFQAKLTQPNSKSTKTYWVQVEGAPSEKDLDKLRKGVELKDGMTLPAEVEVMQEPQ 176 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RLIR S G +G L Sbjct: 177 VWERTPPVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGNMNVGQLQP 236 Query: 231 GSTREV 236 G +EV Sbjct: 237 GEWKEV 242 >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 = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 46/183 (25%), Positives = 85/183 (46%), Gaps = 16/183 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 + + L++KP ++ +D GR T+ D +P + GRLD ++EGLLLLTND Sbjct: 83 KPQGEPMIVLFNKPFDVLCQFTDEQGRKTLKDYIPIPGV--YAAGRLDRDSEGLLLLTND 140 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G L L P + + Y V+ G+ L L++G+ ++ +V++ Sbjct: 141 GQLQAKLTEPKKKTFKTYWVQVEGEPTDADLAKLRQGVELKDGITLPAKVSIMATPNVWP 200 Query: 180 ------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + + W+ + + EG+NR+++++ + RLIR G + L L G Sbjct: 201 RNPPIRERKNIPTTWLEIQIHEGRNRQVRRMTAHIGFPTLRLIRYKIGQWSLDDLATGEH 260 Query: 234 REV 236 + + Sbjct: 261 KCI 263 >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 = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 49/205 (23%), Positives = 78/205 (38%), Gaps = 23/205 (11%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP G ++ + G RV + GRLD ++EGLL+LT+ G L L Sbjct: 11 LLLNKPYGFLSQFTPEPGSQWRCLADLIPIPRVYAAGRLDADSEGLLVLTSHGRLQHRLT 70 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-----------------QVT 178 P RVY V+ G + +L L G++I+G Sbjct: 71 NPHLSHWRVYWVQVEGSPSESQLQKLASGVIIKGKRTRPALASWLKGNVAPIVREREPPI 130 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 Q +W+ + L+EG+NR+++++ RLIR P + + G Sbjct: 131 RVRQSIPTSWLELKLKEGRNRQVRRMTAAVGLPTLRLIRHRIELMDGEPPLSIEGMDPGQ 190 Query: 233 TREVSKKILREQLGPHLLEEAQVNL 257 R+VS + L A Sbjct: 191 WRQVSSRETNLLLSLLNHPAADPQA 215 >gi|319638581|ref|ZP_07993343.1| pseudouridine synthase [Neisseria mucosa C102] gi|317400330|gb|EFV80989.1| pseudouridine synthase [Neisseria mucosa C102] Length = 186 Score = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 45/182 (24%), Positives = 81/182 (44%), Gaps = 21/182 (11%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G++ S + + D + GRLD ++EGLLLLTN+G L Sbjct: 1 MNDLIILNKPYGVICQFSAHEKHPCLKDFVE--KPGFYPAGRLDTDSEGLLLLTNNGRLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + ++ Y + G D+ KL+LL++G+ + +V + + Sbjct: 59 AQIADPKFKQVKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTRPAEVRVLEEGEADVLWPR 118 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGS 232 + WV + + EGKNR+++++ + RL+R++ G L L G Sbjct: 119 VPPIRVRKSVPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDLNLELGQ 178 Query: 233 TR 234 R Sbjct: 179 WR 180 >gi|167037761|ref|YP_001665339.1| RluA family pseudouridine synthase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|320116174|ref|YP_004186333.1| RluA family pseudouridine synthase [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166856595|gb|ABY95003.1| pseudouridine synthase, RluA family [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|319929265|gb|ADV79950.1| pseudouridine synthase, RluA family [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 305 Score = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 68/247 (27%), Gaps = 37/247 (14%) Query: 3 DKNIVQ--ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 DK ++Q + +R+ +A +R ++++I V VNG ++ + V D + Sbjct: 5 DKIVLQGEKEDEGKRIDVFLAAELDYTRSYIKKLIVDGLVFVNGKTVK-PSYKVKENDEV 63 Query: 61 EVD------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 ++ +PL + + + +V + V L + Sbjct: 64 VLNVPEAEKIDVLPEDIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKN 123 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G L L G + + L Sbjct: 124 LSGINGILRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEGVIKDE 183 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI+ Y + + N V ++ G+ +I+ Sbjct: 184 EGKIEAPIGRHPVDRKKMAVIEDGRYALTLYKVLERFKENTLVEAVIKTGRTHQIRVHMA 243 Query: 207 FFNWKVN 213 + + Sbjct: 244 YIGHPIV 250 >gi|311279960|ref|YP_003942191.1| pseudouridine synthase [Enterobacter cloacae SCF1] gi|308749155|gb|ADO48907.1| pseudouridine synthase [Enterobacter cloacae SCF1] Length = 215 Score = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 48/178 (26%), Positives = 85/178 (47%), Gaps = 17/178 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ L++KP ++ +D GRST+ D +P + GRLD ++EGLL+LTNDG L Sbjct: 38 PKRVILFNKPYDVLPQFTDEAGRSTLKDYIPVQGV--YAAGRLDRDSEGLLVLTNDGPLQ 95 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------Q 176 L P + ++Y V+ G+ ++ L L+ G+ + Sbjct: 96 ARLTQPGKRTGKIYFVQVEGEPGEEALAALRSGVTLNDGPTLPAGAERVAEPTWLWPRNP 155 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + +W+ + L EG+NR+++++ + RLIR + G + L L +G R Sbjct: 156 PIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLASGEWR 213 >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 = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 47/187 (25%), Positives = 83/187 (44%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R+ L++KP ++ +D GRST+ D +P + GRLD ++EGL++L Sbjct: 31 KRQPDNTPRRIVLFNKPFDVLPQFTDEAGRSTLKDYIPISGI--YAAGRLDRDSEGLMIL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + ++Y V+ G D L + G+ + Sbjct: 89 TNDGKLQAQLTQPTKKTAKIYYVQVEGIPDDAILTRFRTGLELNDGKTQPAGAEIVPEPD 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + + W+ + L EG+NR+++++ + RLIR S + LL Sbjct: 149 WLWPRNPPIRERKSIPDCWLKITLYEGRNRQVRRMTANIGYPTLRLIRYSMANQTVENLL 208 Query: 230 AGSTREV 236 G +E+ Sbjct: 209 PGEWKEI 215 >gi|325205754|gb|ADZ01207.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis M04-240196] Length = 186 Score = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 79/178 (44%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIAFNKPYGVICQFSPHEKHKSLKDFINFPGF--YPAGRLDTDSEGLLLLTDDGRLQAQI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D+ +L L+KGI + G + + Sbjct: 62 TDPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPP 121 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 + + W+ + + EGKNR+++++ + RLIR++ G +L L G Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDLDLKPGEW 179 >gi|302380682|ref|ZP_07269147.1| pseudouridine synthase, RluA family [Finegoldia magna ACS-171-V-Col3] gi|302311625|gb|EFK93641.1| pseudouridine synthase, RluA family [Finegoldia magna ACS-171-V-Col3] Length = 307 Score = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 85/245 (34%), Gaps = 33/245 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + ++ ++ R+ +A SR E++++I ++V VNG + ++ + D I Sbjct: 1 MIYEFLIDDSNQNARLDVFLANVVELSRSEIQKLIDDKKVLVNGKIQKK-NYKLNLNDKI 59 Query: 61 EVD----GVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 +D ++ E L + +K ++ ++ T+ + L F Sbjct: 60 TLDYEKPDKTIKAQKQDLDIVYEDDYLAIINKDKDVIVHPTETIYSDTLVNYLMYNFKNL 119 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL------RVYRVRFHGQV 153 R V RLD +T GL+++ D L+ + + Sbjct: 120 SDVDGDYRRGIVHRLDKDTTGLIIIAKDNDTHLKLKEIIKNHEIIKTYLCIVHGKIDECG 179 Query: 154 DQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 ++ KK +V Q + V V ++ G+ +I+ + Sbjct: 180 TIEEYMSRNPKDRKKMMVSDEGKLSISQYERLDYNDDYSLVKVQIKTGRTHQIRVHMNYI 239 Query: 209 NWKVN 213 + + Sbjct: 240 HHPIL 244 >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 = 83.3 bits (204), Expect = 5e-14, Method: Composition-based stats. Identities = 43/178 (24%), Positives = 79/178 (44%), Gaps = 17/178 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L++KP G+++ + + D+L V + GRLD ++EGLL+LT+DG Sbjct: 3 RLILFNKPYGVLSQFTPEGRWQGLRDHLA--LPGVYAAGRLDADSEGLLILTDDGPTQAR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ----------- 182 + P + + Y + G L L++G+ + + + Sbjct: 61 IADPRHKLPKTYWAQVEGAPADADLEPLRRGVDLGDFVTRPAGARIIAEPPSLWPRNPPI 120 Query: 183 ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 AW+ + + EGKNR+++++ + RLIR + G + L L G +E+ Sbjct: 121 RFRANIPTAWIELVIAEGKNRQVRRMTAKVGFPTLRLIRAAVGEWNLNGLQPGQWKEL 178 >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 = 83.3 bits (204), Expect = 6e-14, Method: Composition-based stats. Identities = 42/198 (21%), Positives = 75/198 (37%), Gaps = 18/198 (9%) Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V +V + +T + L + + + V + Sbjct: 19 HRVERFSTQQVTRQRKERQPKTVILFNKPYDVLPQFTDEAGRSTLKDFI---PVAGVYAA 75 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLL+LTNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 76 GRLDRDSEGLLVLTNDGALQAKLTQPGKRTGKIYYVQVEGEPTPEALTALRDGVTLNDGP 135 Query: 172 YGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + W+ + L EG+NR+++++ + RLI Sbjct: 136 TLPAGVELVEEPVWLWPRNPPIRERKSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLI 195 Query: 217 RISYGPFQLGTLLAGSTR 234 R + G + L L G R Sbjct: 196 RYAMGGYTLDGLANGDWR 213 >gi|110834141|ref|YP_693000.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] gi|110647252|emb|CAL16728.1| pseudouridylate synthase [Alcanivorax borkumensis SK2] Length = 206 Score = 82.9 bits (203), Expect = 6e-14, Method: Composition-based stats. Identities = 48/174 (27%), Positives = 84/174 (48%), Gaps = 16/174 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L +KP +++ SD GR T+ + + GRLD ++EGLLLLT+DG L + Sbjct: 4 LILLNKPFRVLSQFSDDQGRRTLREFVCVPGV--YPAGRLDWDSEGLLLLTDDGALQARI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y V+ GQ +L L++GI ++ +V+L Sbjct: 62 SDPRFKLPKTYLVQVEGQPGPQELQKLRQGIRLKDGPTRPAKVSLIDDPCLWPRTPPVRS 121 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + ++W+++ + EG+NR+++++ RLIR G + L L G +R Sbjct: 122 RKTVPDSWLSLTIDEGRNRQVRRMTAAIGHPTLRLIRWQIGDWSLADLAPGESR 175 >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 = 82.9 bits (203), Expect = 6e-14, Method: Composition-based stats. Identities = 45/184 (24%), Positives = 74/184 (40%), Gaps = 17/184 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 +Y L + R + L S S+ +++GRLD ++EGLLLLT DG ++ Sbjct: 18 HQHFKIYKPYGFLSQFLPEARKRKKLLGELFSFPSKTMAIGRLDHDSEGLLLLTTDGMMS 77 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL------------ 179 + + +V L I I G Y + + Sbjct: 78 HQIRSKGIEKEYYVQVDGDITASAITALQLGVEIGINGEKYQTLPCNVFRLTEEPQLPVR 137 Query: 180 -----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 D + G +WV++ L EGKNR+I+K+ + RL+R+ G +G + AG Sbjct: 138 GRKIRDPRHGPTSWVSITLCEGKNRQIRKMTAAVGFATLRLVRVRIGNIFVGGMQAGDVT 197 Query: 235 EVSK 238 +S Sbjct: 198 PLSD 201 >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 = 82.9 bits (203), Expect = 6e-14, Method: Composition-based stats. Identities = 40/179 (22%), Positives = 76/179 (42%), Gaps = 21/179 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G+V + ++ D + + GRLD ++EGLLLLT +G + + Sbjct: 4 LIVFNKPCGVVCQFGAHEKHRSLKDFIDAPGF--YPAGRLDTDSEGLLLLTCNGRMQARI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------- 179 P + + Y + G DKL L++ + + ++ L Sbjct: 62 AHPKFKLEKTYWAQLEGSPQADKLAALQRPMDLGDFVARPAKIRLPDAGETDALWPRVPP 121 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTR 234 + + W+ + + EGKNR+++++ + RL+R+ G L L G R Sbjct: 122 VRLRKTVPDFWLEIKIAEGKNRQVRRMTAKAGYPCLRLVRVGIGRLNLSGCALRPGEWR 180 >gi|255030766|ref|ZP_05302717.1| hypothetical protein LmonL_19661 [Listeria monocytogenes LO28] Length = 69 Score = 82.9 bits (203), Expect = 6e-14, Method: Composition-based stats. Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 1/69 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K+++ G SR+EV+ ++ V VNG + + + V D I V G P+ E Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPDKDQITVHGTPVVYQEF 60 Query: 73 TRLWLYHKP 81 L+ Sbjct: 61 VYFMLHKPQ 69 >gi|218682180|ref|ZP_03529781.1| RNA-binding S4 domain protein [Rhizobium etli CIAT 894] Length = 130 Score = 82.9 bits (203), Expect = 6e-14, Method: Composition-based stats. Identities = 49/79 (62%), Positives = 61/79 (77%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+SKV+ARAG+ASRR++ERMI + RV +NG L+ VNV D IEVDGVP+R Sbjct: 44 DAKAERISKVMARAGVASRRDIERMIMEGRVTLNGRALDTPVVNVTLADRIEVDGVPIRG 103 Query: 70 AERTRLWLYHKPIGLVTTH 88 ERTRLWLYHKP GLVTT+ Sbjct: 104 IERTRLWLYHKPAGLVTTN 122 >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 = 82.9 bits (203), Expect = 7e-14, Method: Composition-based stats. Identities = 40/171 (23%), Positives = 70/171 (40%), Gaps = 1/171 (0%) Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 PS + R Y VR G++D K+ L +G+ ++ V+ +G N W V L Sbjct: 1 MHPSREVEREYAVRVFGEIDDAKIRQLTRGVQLEDGPASFRSVSYRGGEGINQWYNVSLT 60 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILREQLGPHLLEEA 253 EG+NRE+++++E +V+RLIR+ YG L L G E+ + L + Sbjct: 61 EGRNREVRRMWEAVGVQVSRLIRVRYGDIDLPKGLPRGGWVELGLAQINYLRQLVELNDE 120 Query: 254 QVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 V A + ++ + + S K S+++ Sbjct: 121 TVTKVAVEKDQRRIKANQIRRAVKRHTKISTRTSTSPAKRASSRRQSAGNK 171 >gi|145309058|gb|ABP57738.1| 16S rRNA pseudouridine synthase [Chromobacterium violaceum] Length = 150 Score = 82.9 bits (203), Expect = 7e-14, Method: Composition-based stats. Identities = 36/150 (24%), Positives = 67/150 (44%), Gaps = 3/150 (2%) Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDT 181 +T G LA + PS + R Y VR G++ + + + G+ ++ + Sbjct: 1 ITTSGELANRMMHPSFEVEREYSVRVLGELTPEIMKQMVAGVELEDGEARFDRVFQKGGP 60 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKI 240 ++ +N W V ++EG+NRE++++FE F V+RLIR+ +G L L G E++ Sbjct: 61 EEAANQWFNVVIKEGRNREVRRMFEHFGLTVSRLIRVRFGNIGLPPRLKRGQFYELNSAE 120 Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRD 270 + + L AP+ + Sbjct: 121 VAAVMKWSNLTVTGGKKAAPVKKASAKAHR 150 >gi|323527142|ref|YP_004229295.1| pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323384144|gb|ADX56235.1| pseudouridine synthase [Burkholderia sp. CCGE1001] Length = 189 Score = 82.9 bits (203), Expect = 7e-14, Method: Composition-based stats. Identities = 38/176 (21%), Positives = 64/176 (36%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRASLADWVKVPGVYPAGRLDSDSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G VD L L +G+ + + Sbjct: 67 LVKRYWAQVEGTVDAAALKKLARGVDLGDYVTKPCRADYVEPGDTLWTRTPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 +W+ + + EGKNR+++++ + RL+R+ G + L G EV Sbjct: 127 TSWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFSLGLQPGEYVEVPPN 182 >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 = 82.9 bits (203), Expect = 7e-14, Method: Composition-based stats. Identities = 50/186 (26%), Positives = 92/186 (49%), Gaps = 16/186 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGL++L Sbjct: 59 KPKIALEDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLMVL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L P+++ + Y V+ G ++ L+ L+KG+ ++ +V L + Sbjct: 117 TNDGIFQAKLTQPNSKSPKTYWVQVEGAPSEEDLDKLRKGVELKDGMTLPAKVELMAEPE 176 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RLIR S G +G L Sbjct: 177 VWDRNPPVRFRAAIPTTWLVITIIEGRNRQVRRMTANIGFPTLRLIRYSMGDMNVGQLQP 236 Query: 231 GSTREV 236 G +E+ Sbjct: 237 GEWKEI 242 >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 = 82.9 bits (203), Expect = 7e-14, Method: Composition-based stats. Identities = 42/198 (21%), Positives = 75/198 (37%), Gaps = 18/198 (9%) Query: 52 VNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V +V + +T + L + + + V + Sbjct: 19 HRVERFSTQQVTRQRKERQPKTVILFNKPYDVLPQFTDEAGRSTLKDFI---PVAGVYAA 75 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD ++EGLL+LTNDG L L P + ++Y V+ G+ + L L+ G+ + Sbjct: 76 GRLDRDSEGLLVLTNDGALQAKLTQPGKRTGKIYYVQVEGEPTPEALTALRDGVPLNDGP 135 Query: 172 YGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + W+ + L EG+NR+++++ + RLI Sbjct: 136 TLPAGVELVEEPVWLWPRNPPIRERKSIPTRWLKITLYEGRNRQVRRMTAHVGFPTLRLI 195 Query: 217 RISYGPFQLGTLLAGSTR 234 R + G + L L G R Sbjct: 196 RYAMGGYTLDGLANGDWR 213 >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 = 82.9 bits (203), Expect = 7e-14, Method: Composition-based stats. Identities = 39/153 (25%), Positives = 67/153 (43%), Gaps = 15/153 (9%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + + GRLD ++EGL++LTNDG L L P + +VY V+ G + L L Sbjct: 55 YIPHPGIYAAGRLDRDSEGLMVLTNDGALQAQLTQPGKRTGKVYFVQVEGCPQESDLLPL 114 Query: 162 KKGIVIQGICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + G+ ++ + + W+ + L EG+NR+++++ Sbjct: 115 RDGVNLKDGPTLPAVVERVAAPGWLWDRQPPIRERKAIPTCWLKITLYEGRNRQVRRMTA 174 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + RLIR S G L L G R++S + Sbjct: 175 HIGYPTLRLIRFSMGNLGLRALAPGEWRDISHE 207 >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 = 82.9 bits (203), Expect = 7e-14, Method: Composition-based stats. Identities = 43/178 (24%), Positives = 79/178 (44%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIIFNKPYGVICQFSPHEKHKSLKDFID--LPGFYPAGRLDTDSEGLLLLTDDGWLQAKI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D+ +L L+KGI + V + Sbjct: 62 TDPKFKHPKTYWAQLEGVPDETRLERLRKGIDLGDFVTRPATVRILKHGETDPLWERIPP 121 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 + + W+ + + EGKNR+++++ + RL+R++ G +L L G Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDLDLKPGEW 179 >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 = 82.9 bits (203), Expect = 8e-14, Method: Composition-based stats. Identities = 50/189 (26%), Positives = 80/189 (42%), Gaps = 23/189 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 +L +KP +++ S T+ D + + VGRLD ++EGLLLLTND L L Sbjct: 4 YFLIYKPFNMLSQFSREGDHQTLADLGFTFAKDIYPVGRLDADSEGLLLLTNDNFLKTKL 63 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLD---------- 180 P + R Y V+ G+V + L G+ I + ++ Sbjct: 64 LEPRNRHTRTYYVQVEGEVTDEACRQLSAGVSISINGKQYKTLPAEIAKIAEPELPERNP 123 Query: 181 ----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL-----LAG 231 + +W++V LREGKNR+++++ + RL+R S G L G Sbjct: 124 PIRFRKNIPTSWLSVTLREGKNRQVRRMTAAVGFPTLRLVRWSIGKISLADKKINFPNPG 183 Query: 232 STREVSKKI 240 EV+ K Sbjct: 184 DVWEVTPKE 192 >gi|307102233|gb|EFN50580.1| hypothetical protein CHLNCDRAFT_14498 [Chlorella variabilis] Length = 183 Score = 82.5 bits (202), Expect = 8e-14, Method: Composition-based stats. Identities = 45/181 (24%), Positives = 74/181 (40%), Gaps = 25/181 (13%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLR--KAERTRLW 76 IA AG+ASRR + +I +VKVNG ++ V D + V G + +R + Sbjct: 1 IAAAGVASRRGADDLIFGGQVKVNGKVVTEPGTQVDLRKDRVAVSGREISAAAVQRKYYF 60 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------------------ISVGRL 114 +KP G + ++ + S+F +VGRL Sbjct: 61 ALNKPKGYICSNKSEHEDGGEGRLVISLFDDWLARWRQRQARPGGGGGGLPPRLFTVGRL 120 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD 174 D+ + GL+ +TNDG A + PST + Y V + Q++L + G + G Sbjct: 121 DVASIGLIFVTNDGDWAHKVMHPSTGITKEYSVTLDCKPRQEELQAMAAGCDMGGAFVQP 180 Query: 175 M 175 + Sbjct: 181 L 181 >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 = 82.5 bits (202), Expect = 8e-14, Method: Composition-based stats. Identities = 37/256 (14%), Positives = 76/256 (29%), Gaps = 35/256 (13%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM---STDHIEV-------- 62 ++++ + G+ S R + + +K+N ++ NV + D +E+ Sbjct: 287 IKLNQYCSYKGLCSSRFAYNNLKKGILKINDNIVYE---NVDVSINKDRVELTKVGKILL 343 Query: 63 -DGVPLRKAERTRLWLYHKPIG-----------------LVTTHSDPDGRSTVFDNLPSI 104 D + + + + + Sbjct: 344 KDRITIIVNKPKHYLSISPDNKLNNKKLLVRNLIRNENKYIEEEHKCMSYFIYKNINIEK 403 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 + + GRLD N+ GLL+ T D + L + + + + K Sbjct: 404 VNNLYVCGRLDANSSGLLIYTQDSIASSYLLNKYKYQVEKEYIITTFNEINECHLKMLKD 463 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + Q + + L +G ++ I+K+ N K+ L RI G Sbjct: 464 NLFVDGKL---IYKCHIQYVDSFTLIFKLYQGFHKIIRKICLLSNIKIRSLHRIRIGKIH 520 Query: 225 LGTLLAGSTREVSKKI 240 L L G R + Sbjct: 521 LNNLPLGKWRFLMPNE 536 >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 = 82.5 bits (202), Expect = 8e-14, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 84/188 (44%), Gaps = 20/188 (10%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 L ++KP G++ +D + V + GRLD ++EGLLLLT+DG Sbjct: 17 PRNTPMLIAFNKPYGVLCQFTDRSQPPRPTLAGFGLPKDVYAAGRLDHDSEGLLLLTDDG 76 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 GLA L P + + Y V+ G +++L L+ G+V+ +V Sbjct: 77 GLAHRLTDPLHKQPKTYWVQVEGDPREEQLQALRDGVVLNDGPTRPAKVRRLDPVPALWP 136 Query: 181 -------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-----L 228 + ++W+ V + EG+NR+++++ RL+R++ GP +L L Sbjct: 137 RDPPVRFRKTVPDSWLEVVIIEGRNRQVRRMTAAAGLPTLRLVRVAMGPHRLHDRDGTPL 196 Query: 229 LAGSTREV 236 G REV Sbjct: 197 APGEWREV 204 >gi|223940798|ref|ZP_03632631.1| pseudouridine synthase [bacterium Ellin514] gi|223890528|gb|EEF57056.1| pseudouridine synthase [bacterium Ellin514] Length = 192 Score = 82.5 bits (202), Expect = 8e-14, Method: Composition-based stats. Identities = 47/181 (25%), Positives = 78/181 (43%), Gaps = 16/181 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G+++ DG V +GRLD ++EGLLLL+++ L L Sbjct: 2 LIAFNKPYGVLS-QFTRDGSPNRPLAHFGFPKNVYPIGRLDADSEGLLLLSDEAALNERL 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P Q R+Y + + L L+KG+++Q + L Sbjct: 61 LHPRQQHGRIYWAQVEHVPSPEVLTRLEKGVIVQARRTLPCKAWLIDPQPAVPPRVPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + WV + L EGKNR+++++ RL+R+ G FQL L AG + ++ Sbjct: 121 ERKSIPAVWVGLELVEGKNRQVRRMTAAVGHPTLRLMRMQIGKFQLADLPAGKWKVLTPA 180 Query: 240 I 240 Sbjct: 181 E 181 >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 = 82.5 bits (202), Expect = 8e-14, Method: Composition-based stats. Identities = 50/185 (27%), Positives = 84/185 (45%), Gaps = 19/185 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L++KP ++ S GR T+ D+L + GRLD ++EGL+LLT+DG L Sbjct: 2 ALILFNKPYLVLCQFSPQAGRRTLADHLAIP--DIYPAGRLDADSEGLMLLTDDGRLQHD 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VT 178 + P+ + + Y V+ G D LN L+ G+ + + Sbjct: 60 ISDPTHKQPKAYLVQIEGIPDPVALNTLRTGVFLGDFTSKAAKVIEVATPAWLWPRNPPI 119 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTREV 236 W+ + + EGKNR+++++ RL+R++ GP+ L + LL G +R V Sbjct: 120 RQRAVTPTRWLLLTITEGKNRQVRRMTAAVGLPTLRLVRVAIGPYSLESHPLLPGESRVV 179 Query: 237 SKKIL 241 L Sbjct: 180 DAAEL 184 >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 = 82.5 bits (202), Expect = 8e-14, Method: Composition-based stats. Identities = 19/87 (21%), Positives = 38/87 (43%), Gaps = 2/87 (2%) Query: 166 VIQGICYGDMQVTLD--TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 ++ +V L +K + V + + EG+NR+++++FE +V +L R Y Sbjct: 1 RLEDGKTAPAKVKLLSLDKKKQTSIVQITIHEGRNRQVRRMFEAIGHEVLKLKREEYAFL 60 Query: 224 QLGTLLAGSTREVSKKILREQLGPHLL 250 L L G RE++ ++ Sbjct: 61 NLAGLKTGEKRELTPHEVKRLRALAEH 87 >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 = 82.5 bits (202), Expect = 8e-14, Method: Composition-based stats. Identities = 45/232 (19%), Positives = 80/232 (34%), Gaps = 22/232 (9%) Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 GRLD+++EGL+ LT+ GGL + + PS + + Y V+ G + +D L L+KG+ + Sbjct: 38 GRLDLDSEGLMFLTDHGGLNQYITHPSNKKYKTYLVQVDGDITEDALEKLRKGVELADGL 97 Query: 172 YGDMQVTLDTQ---------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 Q T + +WV + + EG+NR+++++ + RLI Sbjct: 98 TLPAQATKVEEPEWLWERNPPVRFRASIPTSWVEISICEGRNRQVRRMTATVGFPTLRLI 157 Query: 217 RISYGPFQLG--TLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI 274 R G L L G +K + L P + + + Sbjct: 158 RTQIGSINLVKLGLQPGE-----QKEIEPLLYPDFKDVPEDKPYRSRSYVKKPGGTGGKP 212 Query: 275 ISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLS 326 I D + + + + RR Sbjct: 213 IHHKNKDGDKKASDKKKSGTKRIWQMDEDEKPRRKTNGTTRPNTKSRGRRAR 264 >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 = 82.5 bits (202), Expect = 9e-14, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 79/178 (44%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIAFNKPYGVICQFSPHEKHKSLKDFIN--LPGFYPAGRLDTDSEGLLLLTDDGRLQAQI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D+ +L L+KGI + G + + Sbjct: 62 TDPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPP 121 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 + + W+ + + EGKNR+++++ + RLIR++ G +L L G Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDLDLKPGEW 179 >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 = 82.5 bits (202), Expect = 9e-14, Method: Composition-based stats. Identities = 52/186 (27%), Positives = 94/186 (50%), Gaps = 17/186 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 +K + TR+ L++KP ++ +D GRST+ D +P + GRLD ++EGLL+LTND Sbjct: 34 KKTQPTRVILFNKPYDVLPQFTDEAGRSTLKDYIPVQGV--YAAGRLDRDSEGLLVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G+ D+D L L+ G+ + Sbjct: 92 GALQATLTQPGKRTGKIYFVQVEGEPDEDALAKLRTGVTLNDGPTLSAGVELVSEPEWLW 151 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + +W+ + L EG+NR+++++ + RLIR + G + L +L G+ Sbjct: 152 PRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGRYTLDSLANGA 211 Query: 233 TREVSK 238 R+++ Sbjct: 212 WRDIAP 217 >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 = 82.5 bits (202), Expect = 9e-14, Method: Composition-based stats. Identities = 36/204 (17%), Positives = 72/204 (35%), Gaps = 22/204 (10%) Query: 51 AVNVMS-------TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 + + D + +DG + + ++ + + Sbjct: 5 GIQIDPEIDEISLGDTLLIDGKSFEITQYKYVLMHKPAGYETSHLPSHNPSVFDLLPKHY 64 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARV----LELPSTQWLRVYRVRFHGQVDQDKLN 159 I + + GRLD++T GLLL ++DG + ++Y V +L Sbjct: 65 IKRGLQAAGRLDVDTTGLLLFSDDGQFIHRLISGKVGTKQEIEKIYEVTGARPFSDLQLQ 124 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAW----VTVGLREGKNREIKKVFEFFNWKVNRL 215 L +G+ + + + + +G+ GK ++K++ V+ L Sbjct: 125 RLLEGVDLDDEP------EIIYASRATLLADGRLELGITTGKYHQVKRMVAAVGNHVDGL 178 Query: 216 IRISYGPFQL-GTLLAGSTREVSK 238 R S GP++L L AGS E+ Sbjct: 179 HRRSVGPYELPADLAAGSYIEIDP 202 >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 = 82.5 bits (202), Expect = 9e-14, Method: Composition-based stats. Identities = 60/231 (25%), Positives = 94/231 (40%), Gaps = 6/231 (2%) Query: 61 EVDGVPLRKAER-----TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 ++G + +R L + LV+ R ++VGRLD Sbjct: 1 MLNGHLVNLEKRLQAFTRVLLYHKPVGELVSRRDPEGRPLIFSRLPRLELGRWVAVGRLD 60 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 +NT+GL+LLTN+G LA L PS R Y VR G V + + L G+ ++ Sbjct: 61 VNTQGLILLTNNGELAHRLMHPSHAVEREYAVRILGTVSEAVIERLLDGVQLEDGPARFE 120 Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTR 234 V +G+N W V +REG+NR +++++E N V+RLIR+ YG L L AG++ Sbjct: 121 SVAEAGGEGANRWFHVVVREGRNRLVRRLWESQNLVVSRLIRVRYGDIVLPPRLRAGASI 180 Query: 235 EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 E+ + L L L + + Sbjct: 181 ELEGEALDGLLRSVGLPPVTPETPQKRRFGGETRGREERRRNRRSALSGKR 231 >gi|313607203|gb|EFR83670.1| ribosomal small subunit pseudouridine synthase A, putative [Listeria monocytogenes FSL F2-208] Length = 99 Score = 82.5 bits (202), Expect = 9e-14, Method: Composition-based stats. Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 4/95 (4%) Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + G V + + GI + + N + V ++EGK ++K++F Sbjct: 2 KIDGDVVAEDVTAFADGITLDDGYT--CKSARLEIINPN-EIKVTIQEGKFHQVKRMFAA 58 Query: 208 FNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKIL 241 V+ L RIS G QL L G R +++ L Sbjct: 59 RGKTVSYLKRISMGNLQLDESLELGEYRPLTETEL 93 >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 = 82.5 bits (202), Expect = 1e-13, Method: Composition-based stats. Identities = 23/127 (18%), Positives = 53/127 (41%), Gaps = 14/127 (11%) Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------VTL 179 + P + + Y V+ G ++ L L+KG+ ++ + Sbjct: 1 MADPKFKTEKTYWVQVEGIPEETDLAQLRKGVELKDGMTKPAKVRLISEPNLWERNPPIR 60 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + +W+ + + EG+NR+++++ + RL+R+S G + L GS R +S Sbjct: 61 ERKNIPTSWLEIKISEGRNRQVRRMTAHIGFPTLRLVRVSMGSLSINGLENGSFRLLSLD 120 Query: 240 ILREQLG 246 ++ Sbjct: 121 EIKALFQ 127 >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 = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 42/178 (23%), Positives = 76/178 (42%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIAFNKPYGVICQFSPHEKHKSLKDFID--LPSFYPAGRLDTDSEGLLLLTDDGWLQAKI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-----------------QV 177 P + + Y + G D+ +L L+KGI + Sbjct: 62 TDPKFKHPKTYWAQLEGLPDESRLESLRKGIDLGDFVTRPALVRVLNPGEAERLWERVPP 121 Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGST 233 + + W+ + + EGKNR+++++ + RL+R++ G +L L G Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDLDLRPGEW 179 >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 = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 51/188 (27%), Positives = 78/188 (41%), Gaps = 23/188 (12%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L HKP G+++ + G +V + GRLD ++EGLLLLT +G L + L Sbjct: 8 LLLHKPYGVLSQFTPEPGSRWRCLADLVPVPQVYAAGRLDADSEGLLLLTTEGRLQQRLT 67 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-----------------VT 178 P R Y V+ G +L L G+++QG Q Sbjct: 68 DPRFGHWRTYWVQVEGTATDKQLQQLCDGVLVQGRQTLPAQAQRLRHDQIQPWPDRVPPI 127 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 + + W+ + LREG+NR+++++ RLIR + P L L GS Sbjct: 128 RERRSIPTDWLELSLREGRNRQVRRMTAAVGLPTLRLIRSAIDLMDGGLPLNLNGLAPGS 187 Query: 233 TREVSKKI 240 R VS + Sbjct: 188 WRPVSTEE 195 >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 = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 44/172 (25%), Positives = 79/172 (45%), Gaps = 15/172 (8%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 60 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDCDSEGLLVLTND 117 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G L + + + D L ++ + + + Sbjct: 118 GVLQALRTGVTLNDGPTLPAGIEIVAEPDWLWP----------RTPPIR---ERKNIPTS 164 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 W+ V L EG+NR+++++ RLIR S G + L L G RE++++ Sbjct: 165 WLKVTLYEGRNRQVRRMTAHVGHPTLRLIRYSMGDYTLNGLDNGQWREIAQE 216 >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 = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 39/146 (26%), Positives = 66/146 (45%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + +VY V+ G + L L+ G+ ++ Sbjct: 72 YAAGRLDRDSEGLMVLTNDGELQAQLTQPGKRTGKVYYVQVEGCPQEGDLQPLRDGVNLK 131 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + W+ + L EG+NR+++++ + Sbjct: 132 DGPTLPAVVEKVAAPDWLWDRQPPIRERKAIPTCWLKITLYEGRNRQVRRMTAHIGFPTL 191 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR S G L L G R++S + Sbjct: 192 RLIRFSMGSLGLRALAPGEWRDISDE 217 >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 = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 39/186 (20%), Positives = 68/186 (36%), Gaps = 17/186 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +Y L + + L + +++GRLD ++EGLLLLT DG Sbjct: 10 PKHQHFLIYKPYGFLSQFVPETRKSKPLLGQLYEFPEKTMAIGRLDHDSEGLLLLTTDGM 69 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLD------- 180 + ++ + + +V Q I I G +V L Sbjct: 70 QSHLIRSKTIEKEYYVQVDGEVSQAQLAKLRQGVEIGISGGKYLTLPCKVELLIHEPNLP 129 Query: 181 --------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + G W++V + EGKNR+++K+ RL+R+ G L + G Sbjct: 130 ARGKKIRDPRHGPTNWLSVTIDEGKNRQVRKMTAAVGLPTLRLVRVRIGAIHLKQMQPGE 189 Query: 233 TREVSK 238 V+ Sbjct: 190 VIPVTG 195 >gi|310767366|gb|ADP12316.1| Ribosomal large subunit pseudouridine synthase E [Erwinia sp. Ejp617] Length = 218 Score = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 39/146 (26%), Positives = 66/146 (45%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + +VY V+ G + L L+ G+ ++ Sbjct: 72 YAAGRLDRDSEGLMVLTNDGELQAQLTQPGKRTGKVYYVQVEGCPQEGDLQPLRDGVNLK 131 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + W+ + L EG+NR+++++ + Sbjct: 132 DGPTLPAVVEKVAAPDWLWDRQPPIRERKAIPTCWLKITLYEGRNRQVRRMTAHIGFPTL 191 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR S G L L G R++S + Sbjct: 192 RLIRFSMGSLGLRALAPGEWRDISNE 217 >gi|307267026|ref|ZP_07548541.1| pseudouridine synthase, RluA family [Thermoanaerobacter wiegelii Rt8.B1] gi|306917951|gb|EFN48210.1| pseudouridine synthase, RluA family [Thermoanaerobacter wiegelii Rt8.B1] Length = 305 Score = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 69/247 (27%), Gaps = 37/247 (14%) Query: 3 DKNIVQ--ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 DK ++Q + +R+ +A +R ++++I + V VNG ++ + V D + Sbjct: 5 DKIVLQGEKEDEGKRIDVFLAAELDYTRSYIKKLIVDELVFVNGKTVK-PSYKVKENDEV 63 Query: 61 EVD------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 V+ +PL + + + +V + V L + Sbjct: 64 VVNIPEAEKIDVLPENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKN 123 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G L L G + + L Sbjct: 124 LSGINGILRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEGVIKHE 183 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI+ Y + + N V ++ G+ +I+ Sbjct: 184 EGKIEALIGRHPVDRKKMAVIEDGRYALTLYKVLERFKENTLVEAVIKTGRTHQIRVHMA 243 Query: 207 FFNWKVN 213 + V Sbjct: 244 YIGHPVV 250 >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 = 82.1 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 51/187 (27%), Positives = 89/187 (47%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R R+ L++KP ++ SD GR T+ D +P + V + GRLD ++EGL++LTND Sbjct: 34 RPKGPLRVILFNKPFDVLPQFSDEAGRRTLKDFVP--VTDVYAAGRLDRDSEGLMVLTND 91 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G+ L+ L+ G+ + Sbjct: 92 GALQARLTQPGKRTGKIYFVQVEGEPQDSDLSRLRSGVTLNDGPTLPAGVERVAAPEWLW 151 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + + W+ + L EG+NR+++++ + RLIR + G +QL L G Sbjct: 152 PRQPPIRERKAIPTCWLKITLYEGRNRQVRRMTAHIGFPTLRLIRYAMGEYQLDHLAPGE 211 Query: 233 TREVSKK 239 R++S + Sbjct: 212 WRDISAE 218 >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 = 81.8 bits (200), Expect = 1e-13, Method: Composition-based stats. Identities = 41/148 (27%), Positives = 66/148 (44%), Gaps = 15/148 (10%) Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 F+ V + GRLD ++EGLL+LTNDG L L P + +VY V+ G D + L Sbjct: 56 FIPFNDVYAAGRLDRDSEGLLVLTNDGKLQAQLTQPGKRTGKVYYVQVEGAPQDDDVAPL 115 Query: 162 KKGIVIQGICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + G+ ++ + + W+ + L EG+NR+++++ Sbjct: 116 RAGVTLKDGPTLPAGVELVDEPTWLWPRHPPIRERKAIPTRWLKITLYEGRNRQVRRMTA 175 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + RLIR S G LG L G + Sbjct: 176 HIGFPTLRLIRYSMGELALGELQPGEWK 203 >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 = 81.8 bits (200), Expect = 1e-13, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 79/178 (44%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIIFNKPYGVICQFSPHEKHKSLKDFIN--LPGFYPAGRLDTDSEGLLLLTDDGRLQAQI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D+ +L L+KGI + V L Sbjct: 62 TDPKFKHPKTYWAQLEGVPDETRLESLRKGIDLGDFVTRPASVRLLEHGEADSLWERIPP 121 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 + + W+ + + EGKNR+++++ + RL+R++ G +L L G Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDLDLKPGEW 179 >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 = 81.8 bits (200), Expect = 1e-13, Method: Composition-based stats. Identities = 43/177 (24%), Positives = 79/177 (44%), Gaps = 17/177 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP G++ S + T+ D + + GRLD ++EGLL+LT+DG L + Sbjct: 2 LILFNKPYGVICQFSPHEKHKTLKDYIAVPGV--YAAGRLDTDSEGLLILTDDGRLQHRI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + + Y V+ G + L L+ G+ + + Sbjct: 60 SHPRHKEFKTYWVQVEGDPSDEALEPLRHGMDLGDFVTQPAKVRRIEEPAGLWPRHPPIR 119 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + AW+ V + EGKNR+++++ + RL+R + G L + G R++ Sbjct: 120 ERKAIPTAWLEVIIAEGKNRQVRRMTAKAGFPTLRLVRYAVGQHTLEGIAPGEWRQL 176 >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 = 81.8 bits (200), Expect = 1e-13, Method: Composition-based stats. Identities = 49/188 (26%), Positives = 78/188 (41%), Gaps = 23/188 (12%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L +KP G+++ + G V + GRLD ++EGLLLLT++G L + L Sbjct: 11 LLLNKPYGVLSQFTREQGSRWGCLADWVSVPEVYAAGRLDADSEGLLLLTSNGRLQQRLT 70 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK------------ 183 P R Y + G+ +L L++G+ IQG + + Sbjct: 71 DPRFGHWRTYWAQVEGEATASQLTQLEQGVPIQGKLTLPARAQPLASQLSDALPPRDPPI 130 Query: 184 -----GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------GPFQLGTLLAGS 232 +W+T+ LREG+NR+++++ RLIR + P L L AG Sbjct: 131 RTRATIPTSWITLSLREGRNRQVRRMTAAVGLPTLRLIRTTIDLMDGEAPLSLEGLSAGE 190 Query: 233 TREVSKKI 240 R S Sbjct: 191 WRPASTAE 198 >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 = 81.8 bits (200), Expect = 2e-13, Method: Composition-based stats. Identities = 48/210 (22%), Positives = 81/210 (38%), Gaps = 23/210 (10%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L HKP G+++ + + V + GRLD ++EGLL+LT++G L + L Sbjct: 4 LLLHKPYGVLSQFTREENSRWASLQDFVDTPDVYAAGRLDADSEGLLVLTSNGRLQQQLT 63 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK------------ 183 P R Y V+ G +L L+ GI +QG + + Sbjct: 64 DPRFGHWRTYWVQVEGTPQPHQLQQLRDGITVQGHRTRPAKAAWLKAEAIPTIGDRVPPI 123 Query: 184 -----GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 W+ + L EG+NR+++++ RL+R + P L L G+ Sbjct: 124 RYRATIPTHWLEISLTEGRNRQVRRMTAAVGLPTLRLVRHTIDLMDGGTPLTLTGLEPGA 183 Query: 233 TREVSKKILREQLGPHLLEEAQVNLDAPIY 262 +R VSK+ + + D Sbjct: 184 SRAVSKEEEARFVQLLKGSNPKNQADRRRG 213 >gi|209517462|ref|ZP_03266303.1| pseudouridine synthase [Burkholderia sp. H160] gi|209502116|gb|EEA02131.1| pseudouridine synthase [Burkholderia sp. H160] Length = 204 Score = 81.8 bits (200), Expect = 2e-13, Method: Composition-based stats. Identities = 39/191 (20%), Positives = 69/191 (36%), Gaps = 17/191 (8%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 + + + L T + V GRLD ++EGL+LLT Sbjct: 7 VIALPYHSCMSLLALNKPFGTICQFSPHETRASLADWVKVPGVYPAGRLDSDSEGLVLLT 66 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-- 183 +DG L + P + ++ Y + G VD L L +G+ + Q T Sbjct: 67 DDGALQARIAEPRHKLVKRYWAQVEGAVDDAALKKLARGVDLGDYVTRPCQATYVEPDSS 126 Query: 184 -------------GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TL 228 W+ + + EGKNR+++++ + RL+R+ G + L Sbjct: 127 LWARTPPIRYRAAIPTTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGVGALDIFSLGL 186 Query: 229 LAGSTREVSKK 239 G + E+ Sbjct: 187 QPGESIELRAN 197 >gi|297521852|ref|ZP_06940238.1| 23S rRNA pseudouridine synthase F [Escherichia coli OP50] Length = 142 Score = 81.8 bits (200), Expect = 2e-13, Method: Composition-based stats. Identities = 20/119 (16%), Positives = 45/119 (37%) Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + + L +G NR+I+++ E F ++V +L R L + G R+++ L + Sbjct: 24 EAPFVFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELID 83 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 ++V A ++ + + + R N + ++KK Sbjct: 84 LFKLIENSSSEVKPKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 142 >gi|332971549|gb|EGK10499.1| ribosomal large subunit pseudouridine synthase E [Kingella kingae ATCC 23330] Length = 203 Score = 81.8 bits (200), Expect = 2e-13, Method: Composition-based stats. Identities = 48/186 (25%), Positives = 80/186 (43%), Gaps = 21/186 (11%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 K + L +KP G++ S + T+ D + V GRLD ++EGLLLLT+DG Sbjct: 15 KKQPAMLIALNKPYGIICQFSPHEKHRTLKDLVN--VPNVYPAGRLDTDSEGLLLLTDDG 72 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 + P + + Y + G D DKL L++ + + Q+ L + Sbjct: 73 KQQARIADPRNKITKTYWAQLEGSPDADKLARLQQPLDLGDFVAQPAQIRLLNENEIAQI 132 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LL 229 + W+ + +REGKNR+++++ + RLIR+ G L L Sbjct: 133 WTRNPPIRERKTVPDFWLQIQIREGKNRQVRRMTAKAGYPCLRLIRVGIGRVNLFDLGLE 192 Query: 230 AGSTRE 235 G +E Sbjct: 193 LGQWQE 198 >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 = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 35/144 (24%), Positives = 66/144 (45%), Gaps = 15/144 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD+++EGLLLLT++G L L P + + Y V+ G + ++ L+ G+ ++ Sbjct: 34 YAAGRLDMDSEGLLLLTDNGQLNHALTDPENKAYKTYIVQVEGVPTKAQIKTLETGVELK 93 Query: 169 GICYGDMQVTLDT---------------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +V Q +++ + ++EG+NR+++++ Sbjct: 94 DGMTLPAKVKRIPYPKWLWEREKPIRVRQNKPTSFLQIKIKEGRNRQVRRMTAAVGVPTL 153 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 RLIR G + + L G R V Sbjct: 154 RLIRTHIGDYHIADLKPGQYRVVK 177 >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 = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 39/173 (22%), Positives = 68/173 (39%), Gaps = 19/173 (10%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 GRLD ++EGLLLLTN+G L + P + Sbjct: 8 NKPYGVICQFSAHEKHQCLKDFVEKPGFYPAGRLDTDSEGLLLLTNNGRLQAQIADPKFK 67 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------- 184 ++ Y + G D+ KL+LL++G+ + +V + + Sbjct: 68 QVKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTRPAEVRVLEEGEADVLWPRVPPIRVRKS 127 Query: 185 -SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGSTR 234 + WV + + EGKNR+++++ + RL+R++ G L L G R Sbjct: 128 VPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDLNLELGQWR 180 >gi|227327062|ref|ZP_03831086.1| putative RNA pseudouridylate synthase [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 208 Score = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 45/189 (23%), Positives = 82/189 (43%), Gaps = 17/189 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R+ L++KP ++ +D GR T+ D +P + GRLD ++EGL++L Sbjct: 21 KRQPDNTPRRIVLFNKPFDVLPQFTDEAGRRTLKDYIPVSGI--YAAGRLDRDSEGLMIL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + ++Y V+ G D L + G+ + Sbjct: 79 TNDGKLQAQLTQPTKKTAKIYYVQVEGIPDDAALTRFRTGLDLNDGKTLPAGAEIVPEPD 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + + W+ + L EG+NR+++++ + RLIR + LL Sbjct: 139 WLWPRNPPIRERKSIPDCWLKITLNEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENLL 198 Query: 230 AGSTREVSK 238 G +E++ Sbjct: 199 PGEWKEITD 207 >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 = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 48/186 (25%), Positives = 75/186 (40%), Gaps = 23/186 (12%) Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 +KP G+++ + G RV + GRLD ++EGLL+LT G L L P Sbjct: 1 MNKPYGVLSQFTPEPGSQWRCLADLIPIPRVYAAGRLDADSEGLLVLTAHGRLQHRLTNP 60 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM-----------------QVTLD 180 RVY V+ G + +L L G++IQG Sbjct: 61 HLSHWRVYWVQVEGSPSESQLQKLASGVIIQGKRTRPALVSWLKGKAAPIVRERDPPIRV 120 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGSTR 234 Q +W+ + L+EG+NR+++++ RLIR P + L G R Sbjct: 121 RQSIPTSWLELKLKEGRNRQVRRMTAAVGLPTLRLIRHRIELMDGEPPLSIEGLDPGQWR 180 Query: 235 EVSKKI 240 +VS + Sbjct: 181 QVSSRE 186 >gi|291519152|emb|CBK74373.1| pseudouridine synthase family [Butyrivibrio fibrisolvens 16/4] Length = 117 Score = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 18/119 (15%), Positives = 47/119 (39%), Gaps = 2/119 (1%) Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + Y V ++ + + + G+ + + + ++ + + L Sbjct: 1 MRAVNAHEKEYIVTVDKEITAEFIKSMSSGVYLDELEVTTRKCQIEKLGSNK--FRIILT 58 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 +G NR+I+++ + ++V L R+ QLG L + R+V+ + L+ + Sbjct: 59 QGLNRQIRRMCQALGYRVRTLKRVRIMNIQLGNLKEDTYRDVTPEELKTLNNMLKESKN 117 >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 = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 40/198 (20%), Positives = 77/198 (38%), Gaps = 17/198 (8%) Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 TD + + ++ L + + ++ L + ++++GRLD Sbjct: 4 TDQTCLTDIVATLQTHQHFKIFKPYGFLSQFVPEKRKKKSLLGELFNFPENIMAIGRLDH 63 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGD 174 ++EGLLLLT DG ++ + + +V L I I G Sbjct: 64 DSEGLLLLTTDGMMSYKIRSKGIEKEYYVQVDGEITAQAMSLLQKGVEIAINGATYLTLP 123 Query: 175 MQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + D + G +WV++ L EGKNR+I+K+ + RL+R+ Sbjct: 124 CKAFKLDVEPKLPTRGRKIRDPRHGPTSWVSITLCEGKNRQIRKMTAAVGFATLRLVRVR 183 Query: 220 YGPFQLGTLLAGSTREVS 237 G + +++AG ++ Sbjct: 184 IGDIHIDSMIAGDVVTLT 201 >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 = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 79/178 (44%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIIFNKPYGVICQFSPHEKHKSLKDFIN--LPGFYPAGRLDTDSEGLLLLTDDGRLQAQI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-------- 186 P + + Y + G D+ +L L+KGI + V + +N Sbjct: 62 TDPKFKHPKTYWAQLEGVPDETRLESLRKGIDLGDFVTRPASVRVLEHGETNPLWERIPP 121 Query: 187 ---------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGST 233 W+ + + EGKNR+++++ + RL+R++ G +L L G Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDLDLRPGEW 179 >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 = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 36/188 (19%), Positives = 67/188 (35%), Gaps = 17/188 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ L + + L + +++GRLD ++EGLLLLT DG Sbjct: 29 QPHHHYKIFKPYGYLSQFVPERRKSKKLLAELALFPAGTMAIGRLDHDSEGLLLLTTDGM 88 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQ----------- 176 ++ + + +V I I+G + Sbjct: 89 VSHQVRSKKVEKEYYVQVDGDIDDAAILKLQTGVEIGIKGEKYLTLPCKVFKLENEPELP 148 Query: 177 ----VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 D + G +WV++ + EGKNR+I+K+ + RL+R+ G L + +G Sbjct: 149 SNGRKPRDPKHGPMSWVSITIGEGKNRQIRKMTAAAGFPTLRLVRVRIGNIHLDRMQSGE 208 Query: 233 TREVSKKI 240 + Sbjct: 209 VILLKNPE 216 >gi|255523816|ref|ZP_05390781.1| pseudouridine synthase [Clostridium carboxidivorans P7] gi|255512519|gb|EET88794.1| pseudouridine synthase [Clostridium carboxidivorans P7] Length = 180 Score = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 39/172 (22%), Positives = 66/172 (38%), Gaps = 26/172 (15%) Query: 97 VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 ++ + V VGRLD +TEGLLLLTNDG L P + Y G +D++ Sbjct: 1 MYFFDDDKMNGVFHVGRLDKDTEGLLLLTNDGEFEHKLMHPQEHIEKTYFFWALGSLDEE 60 Query: 157 KLNLLKKGIVIQGIC--YGDMQ---VTLDTQKGSNAWV--------------------TV 191 L++GI I + K + + Sbjct: 61 NRKQLEQGIYIGKGEILTKPAKIEVHRCGMYKDFKHEMPIDNLNNIDSNQYNQPVVSGYL 120 Query: 192 GLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 + EG+N ++K++ + V L R+S G L + G R +++ ++ Sbjct: 121 TITEGRNHQVKRMLKAAGCYVVYLKRVSIGGLMLDESMEKGRYRLLTEVEIK 172 >gi|309378696|emb|CBX22646.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 186 Score = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 44/178 (24%), Positives = 79/178 (44%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIVFNKPYGVICQFSPHEKHKSLKDFIN--LPGFYPAGRLDTDSEGLLLLTDDGRLQAQI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-------- 186 P + + Y + G D+ +L L+KGI + V + +N Sbjct: 62 TDPKFKHPKTYWAQLEGVPDETRLESLRKGIDLGDFVTRPASVRVLEHGETNPLWERIPP 121 Query: 187 ---------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 W+ + + EGKNR+++++ + RL+R++ G +L L G Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLVRVASGRLKLFDLDLKPGEW 179 >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 = 81.4 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 49/186 (26%), Positives = 91/186 (48%), Gaps = 16/186 (8%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P E ++ L++KP ++ +D +GR T+ D +P V + GRLD ++EGLL+L Sbjct: 59 KPKVAPEDRKVILFNKPFDTLSQFTDGEGRKTLADFIP--VKDVYAAGRLDRDSEGLLVL 116 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-- 182 TNDG L P+++ + Y V+ G + L+ L+KG+ ++ +V + + Sbjct: 117 TNDGIFQAKLTQPNSKSTKTYWVQVEGAPSEKDLDKLRKGVELKDGMTLPAEVEVMQEPQ 176 Query: 183 ------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 W+ + + EG+NR+++++ + RLIR S G +G L Sbjct: 177 VWERTPPVRFRAAIPTTWLAITIIEGRNRQVRRMTANIGFPTLRLIRYSMGNMDVGQLQP 236 Query: 231 GSTREV 236 G +++ Sbjct: 237 GEWKDI 242 >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 = 81.0 bits (198), Expect = 2e-13, Method: Composition-based stats. Identities = 39/171 (22%), Positives = 71/171 (41%), Gaps = 4/171 (2%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + L T + + VG LD +T GLLLLTNDG L L Sbjct: 1 MNKPKDVLSATEDRSQRTVISLLKNTDRYQGISPVGCLDKDTTGLLLLTNDGQLNHELLA 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLD--TQKGSNAWVTVGL 193 P ++YR + G ++++ + G+ + + + +K + + + + Sbjct: 61 PGKHVDKIYRAKIAGPINEETVKTFASGMTLGDDTKLKPATLKILSQDEKEDTSQIEIKI 120 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILRE 243 +EGK +IK++F K L RI+ G +L L G +S + +++ Sbjct: 121 QEGKYHQIKRIFAAVGMKAIELDRIAMGNLRLPPDLKRGEYCTLSPERIQQ 171 >gi|227111561|ref|ZP_03825217.1| putative RNA pseudouridylate synthase [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 208 Score = 81.0 bits (198), Expect = 2e-13, Method: Composition-based stats. Identities = 45/187 (24%), Positives = 81/187 (43%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R+ L++KP ++ +D GR T+ D +P + GRLD ++EGL++L Sbjct: 21 KRQPDNAPRRIVLFNKPFDVLPQFTDEAGRRTLKDYIPISGI--YAAGRLDRDSEGLMIL 78 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + ++Y V+ G D L + G+ + Sbjct: 79 TNDGKLQARLTQPTQKTAKIYYVQVEGIPDAAALTRFRTGLDLNDGKTLPAGAEIVPEPS 138 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + + W+ + L EG+NR+++++ + RLIR + LL Sbjct: 139 WLWPRNPPIRERKSIPDCWLKITLHEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENLL 198 Query: 230 AGSTREV 236 G +E+ Sbjct: 199 PGEWKEI 205 >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 = 81.0 bits (198), Expect = 2e-13, Method: Composition-based stats. Identities = 45/187 (24%), Positives = 81/187 (43%), Gaps = 17/187 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 R+ L++KP ++ +D GR T+ D +P + GRLD ++EGL++L Sbjct: 31 KRQPDNAPRRIVLFNKPFDVLPQFTDEAGRRTLKDYIPVSGI--YAAGRLDRDSEGLMIL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--------- 175 TNDG L L P+ + ++Y V+ G D L + G+ + Sbjct: 89 TNDGKLQARLTQPTQKTAKIYYVQVEGIPDDAALTRFRTGLDLNDGKTLPAGAEIVPEPS 148 Query: 176 ------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + + W+ + L EG+NR+++++ + RLIR + LL Sbjct: 149 WLWPRNPPIRERKSIPDCWLKITLYEGRNRQVRRMTANIGYPTLRLIRYGMANQTVENLL 208 Query: 230 AGSTREV 236 G +E+ Sbjct: 209 PGEWKEI 215 >gi|262037640|ref|ZP_06011085.1| ribosomal small subunit pseudouridine synthase A [Leptotrichia goodfellowii F0264] gi|261748320|gb|EEY35714.1| ribosomal small subunit pseudouridine synthase A [Leptotrichia goodfellowii F0264] Length = 72 Score = 81.0 bits (198), Expect = 2e-13, Method: Composition-based stats. Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 1/65 (1%) Query: 178 TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREV 236 ++ + S V + + EGK ++K++F+ N KV L R+ G +L L G RE+ Sbjct: 2 KVEVIENSEDKVYITITEGKYHQVKRMFKAVNNKVLYLKRVQMGNLKLDDKLKVGKYREL 61 Query: 237 SKKIL 241 ++K + Sbjct: 62 TEKEI 66 >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 = 81.0 bits (198), Expect = 2e-13, Method: Composition-based stats. Identities = 36/161 (22%), Positives = 62/161 (38%), Gaps = 31/161 (19%) Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +GRLD ++EGLLLLT++G L L R Y + G + L L++GI Sbjct: 1 MGRLDQDSEGLLLLTSNGKLQHRLAHREFAHQRTYFAQVEGSPTDEDLEPLRRGITFADY 60 Query: 171 CYGDMQVTLDTQ--------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + T+ +W+++ L EG+NR+++++ + RL+ Sbjct: 61 PTRPAIAKIITEPDFPPRNPPIRYRASIPTSWLSITLTEGRNRQVRRMTAAVGFPTLRLV 120 Query: 217 RISY---GP--------------FQLGTLLAGSTREVSKKI 240 R+ G L L G R ++ Sbjct: 121 RVQIQVTGRSPQQGKGKSAATWCLTLEGLSPGQWRPLTPWE 161 >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 = 81.0 bits (198), Expect = 3e-13, Method: Composition-based stats. Identities = 49/194 (25%), Positives = 78/194 (40%), Gaps = 21/194 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 +Y V T + + + S V VGRLD ++EGLL+LTND L Sbjct: 2 PFKYYIIYKP--FQVLTRFGKEEGKASLADYFDVPSDVYPVGRLDYDSEGLLILTNDKSL 59 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSN 186 L P R Y V+ G V+ + + LK+G+ I + Q + ++ Sbjct: 60 NHRLLDPKFSHEREYWVQVDGAVNAEAIQQLKQGVKIAIDGKPYQTRRCQAAIFEEEPPV 119 Query: 187 A---------------WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+ + L EGKNR+++K+ + RLIR + L G Sbjct: 120 PERNPPIRFRKLIPAPWIRLTLGEGKNRQVRKMTAAVGFPTLRLIRYRIARITVEGLEPG 179 Query: 232 STREVSKKILREQL 245 RE+ +K + + L Sbjct: 180 QMREMDRKEIFDLL 193 >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 = 81.0 bits (198), Expect = 3e-13, Method: Composition-based stats. Identities = 38/263 (14%), Positives = 84/263 (31%), Gaps = 31/263 (11%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 N E ++++ G+ S R +++ ++VN ++ + + D +E+ Sbjct: 207 NKKTEKCREMKITQYCWHEGLCSSRFAFNNLSRGIIQVNDQVVFE-NIIISPGRDKVELT 265 Query: 64 --GVPLRKAERTRLWLYHKPIG------------------------LVTTHSDPDGRSTV 97 G L + + + L + Sbjct: 266 KVGKELLRNKNITIILNKPKYYLSILNDHKTNKKLLARNLIRNENKFIEEEHKCMSYFIN 325 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + +++ GRLD N+ GLL+ T + L L + + + ++ Sbjct: 326 KNVNIEKVNKLYVCGRLDANSTGLLVFTQNTLLCSYLLNKHKHQVEKEYMIKTAEPIEEV 385 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 L + ++ Q + ++ L +G ++ I+K+ N K+ L R Sbjct: 386 HMELLRKNILVDGKL---IYKCRIQYVDSFTLSFTLYQGFHKIIRKLCLLSNIKIKALHR 442 Query: 218 ISYGPFQLGTLLAGSTREVSKKI 240 + G L L G R + Sbjct: 443 VRIGGIHLKGLPLGKWRFLMPNE 465 >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 = 81.0 bits (198), Expect = 3e-13, Method: Composition-based stats. Identities = 41/177 (23%), Positives = 77/177 (43%), Gaps = 14/177 (7%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL L +KP G+++ + V GRLD ++EGLLLLT+DG L Sbjct: 3 RLILLNKPFGVLSQFTGGKEGVEDTLAHLVDVPDVYPAGRLDKDSEGLLLLTDDGKLQSR 62 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + + Y V+ G+ D L L +G+ ++ + Sbjct: 63 IAEPRYKIAKAYLVQVEGEPGDDALEKLSRGVELKDGMTRPARAKRIDPPPVWERDPPVR 122 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + ++W+ + + EG+NR+++++ RLIR G + + + G+ R++ Sbjct: 123 YRKSVPDSWIALEITEGRNRQVRRMTAAVGLPTLRLIRWRIGEWSVDGIAPGTYRKI 179 >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 = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 37/154 (24%), Positives = 61/154 (39%), Gaps = 17/154 (11%) Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 L S + +GRLD +EGLLLLT DG L+ + + V ++ Sbjct: 21 LGSFPQGTMPIGRLDEKSEGLLLLTTDGKLSDYVNSSGIEKEYYALVDGDISQEEISSLK 80 Query: 161 LKKGIVIQGIC--YGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKK 203 I G + D + G +W+++ L EGK R+++K Sbjct: 81 KGVEIGFDGKKYQTKPCKVFKLDNAPLLPERGKKIRDARHGPVSWISITLTEGKFRQVRK 140 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RL+R+ G QLG L +G+ + + Sbjct: 141 MTSAVGCPTLRLVRVRVGNIQLGNLESGAVKPID 174 >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 = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 44/179 (24%), Positives = 81/179 (45%), Gaps = 21/179 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G++ S+ + + D + GRLD ++EGLLLLT++G L + Sbjct: 4 LIAFNKPCGVICQFSEHEKHPCLKDYVDRPGF--YPAGRLDTDSEGLLLLTDNGVLQAQI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D++KL+LL G+ + G +V L Sbjct: 62 ADPKFKREKTYWAQVEGSPDEEKLDLLCNGMDLGGFVTRPAKVRLLEAGEADILWPRNPP 121 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTR 234 + + W+ + + EGKNR+++++ + RL+R++ G + L G R Sbjct: 122 VRMRKTVPDFWLEIRIAEGKNRQVRRMTAKAGYPCLRLVRVAVGRLNVFDLGLGLGEWR 180 >gi|330818088|ref|YP_004361793.1| Pseudouridine synthase [Burkholderia gladioli BSR3] gi|327370481|gb|AEA61837.1| Pseudouridine synthase [Burkholderia gladioli BSR3] Length = 192 Score = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 44/191 (23%), Positives = 77/191 (40%), Gaps = 19/191 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVRTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTL 179 P + ++ Y + G D L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGTPDDAALKALARGVDLGDYVTRPCRADYVEPPETLWPRNPPVR 120 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G L L G T + Sbjct: 121 FRAAIPTTWIELSITEGKNRQVRRMTAAVGYPTLRLVRVGIGALDLFALGLAPGDTLALP 180 Query: 238 KKILREQLGPH 248 + + PH Sbjct: 181 PRAPWDGFAPH 191 >gi|291545734|emb|CBL18842.1| 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Ruminococcus sp. SR1/5] Length = 68 Score = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 1/61 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R++K ++ G+ SRRE +R+ RV VNG L+ + ++ I +DG P++ Sbjct: 2 DEKIRINKYLSDIGVCSRREADRLTEAGRVTVNGELVST-GMKILPDAEICIDGKPVKNR 60 Query: 71 E 71 + Sbjct: 61 K 61 >gi|254974045|ref|ZP_05270517.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-66c26] gi|255313091|ref|ZP_05354674.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-76w55] Length = 70 Score = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 1/66 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ERTRLW 76 E L Sbjct: 63 EYIYLI 68 >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 = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 38/184 (20%), Positives = 69/184 (37%), Gaps = 17/184 (9%) Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 ++ L + + + L + + +++GRLD ++EGLLLLT DG Sbjct: 17 ENHQHFKIFKPYGFLSQFVPESRKKKHLLGELFNFPDKTMAIGRLDHDSEGLLLLTTDGM 76 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQ----------- 176 ++ + S +V D I I + Sbjct: 77 MSYKVRDKSIVKEYYVQVDGEITTDAISQLQNGVEIGINSTKYLTMPCKAFKLDCEPQLP 136 Query: 177 ----VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 D + G +W+++ L EGKNR+I+K+ + RL+R+ G + L+AG Sbjct: 137 ARGRKIRDPKHGPTSWISITLCEGKNRQIRKMTAAVGFATLRLVRVRIGNIGIDNLIAGD 196 Query: 233 TREV 236 + Sbjct: 197 VVAL 200 >gi|167947963|ref|ZP_02535037.1| hypothetical protein Epers_16024 [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 145 Score = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 25/136 (18%), Positives = 54/136 (39%), Gaps = 3/136 (2%) Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD 180 L+T+DG + + P+ + + Y V + + L++GI++ + Sbjct: 3 SPLITDDGAWSHRILAPARKCSKRYLVTLAESLSERDAERLRQGILLCSE-ARPTKPVQL 61 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKK 239 SN+ + + E + ++K++F +V L R G QL L G+ R +++ Sbjct: 62 QLVSSNSC-RLTITEDRYHQVKRMFAALGNRVVVLHRERIGALQLDPDLSPGNYRALTED 120 Query: 240 ILREQLGPHLLEEAQV 255 + L + Sbjct: 121 EISGIFAEPLNRQRWP 136 >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 = 80.6 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 44/188 (23%), Positives = 89/188 (47%), Gaps = 17/188 (9%) Query: 65 VPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 ++ + + L++KP ++ +D GR T+ D +P V + GRLD ++EGLLL Sbjct: 47 KTVKPRAKDPIIVLFNKPFDVLCQFTDEQGRQTLKDYIPIP--DVYAAGRLDRDSEGLLL 104 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL---- 179 LTNDG L + P + + Y + G+ ++ ++ L+ G+ ++ +V + Sbjct: 105 LTNDGKLQSKITEPKKKTFKTYWAQVEGEPNEADVDKLRHGVELKDGMTLPAKVMIMTQP 164 Query: 180 ----------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + + W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 165 DVWPRTPPIRERKGIPTTWLEIQICEGRNRQVRRMTANIGFPTLRLIRYKIGQWSLNDLQ 224 Query: 230 AGSTREVS 237 +G + + Sbjct: 225 SGEYQRID 232 >gi|238028429|ref|YP_002912660.1| Pseudouridine synthase [Burkholderia glumae BGR1] gi|237877623|gb|ACR29956.1| Pseudouridine synthase [Burkholderia glumae BGR1] Length = 192 Score = 80.6 bits (197), Expect = 4e-13, Method: Composition-based stats. Identities = 38/176 (21%), Positives = 64/176 (36%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRPSLGDWVRAPGVYPAGRLDADSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTLDTQKGS 185 ++ Y + G D L L +G+ + + Sbjct: 67 LVKRYWAQVEGAPDAAALKALARGVDLGDYVTRPCRASLVEPPATLWPRTPPVRFRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G L L G T E+ + Sbjct: 127 TTWIELAISEGKNRQVRRMTAAVGFPTLRLVRVGIGALDLFALGLAPGETIELPPR 182 >gi|325204476|gb|ADY99929.1| ribosomal large subunit pseudouridine synthase E [Neisseria meningitidis M01-240355] Length = 185 Score = 80.6 bits (197), Expect = 4e-13, Method: Composition-based stats. Identities = 37/178 (20%), Positives = 70/178 (39%), Gaps = 22/178 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G++ S + ++ D + LLLT+DG L + Sbjct: 4 LIAFNKPYGVICQFSPHEKHKSLKDFINFPG---FYPAGRLDTDSEGLLLTDDGRLQAQI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D+ +L L+KGI + G + + Sbjct: 61 TDPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPP 120 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 + + W+ + + EGKNR+++++ + RLIR++ G +L L G Sbjct: 121 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDLDLKPGEW 178 >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 = 80.6 bits (197), Expect = 4e-13, Method: Composition-based stats. Identities = 46/188 (24%), Positives = 81/188 (43%), Gaps = 17/188 (9%) Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 L ER + L ++ V + GRLD ++EGL++LT Sbjct: 50 RLPIEERKVILFNKPYDTLSQFTDGDGRKTLADYI---PVKDVYAAGRLDRDSEGLMVLT 106 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----- 180 NDG L L P ++ + Y V+ G +D L+ L++G+V++ +V+L Sbjct: 107 NDGILQARLTQPKSKSEKTYWVQVDGAPSEDDLDKLRRGVVLKDGPTLPAKVSLMDTPDV 166 Query: 181 ---------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 W+++ + EG+NR+++++ + RLIR S F++G LL G Sbjct: 167 WERHPPVRFRANIPTTWLSITIIEGRNRQVRRMTANIGFPTLRLIRASMAGFEIGGLLPG 226 Query: 232 STREVSKK 239 E+ Sbjct: 227 DWLEIPTD 234 >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 = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 44/214 (20%), Positives = 70/214 (32%), Gaps = 17/214 (7%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTMSQFSEHPTRPTLASCVSVPGVYPAGRLDADSEGLLLLTDDGVLQARIADPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTLDTQKGS 185 + Y + G D D L L+ G+ + + Sbjct: 67 LEKTYLAQVEGIPDADALARLRAGVDLGDFVTRPAKVRAVEAPDWLWPRHPPVRFRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKILRE 243 +W+ + +REGKNR+++++ RLIR+ G L L G + EV Sbjct: 127 TSWLELKIREGKNRQVRRMTAAVGLPTLRLIRVGIGALDLRSLNLAPGESCEVPLAESGM 186 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 L A + + R Sbjct: 187 ALATSNGRAAPAPRIHVSKTRQANGTKRRLRYKR 220 >gi|25453489|gb|AAL25966.2| probable pseudouridylate synthase [Azotobacter vinelandii] Length = 152 Score = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 38/153 (24%), Positives = 68/153 (44%), Gaps = 7/153 (4%) Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 R+ + + GRLD+ T GLLLLTNDG +R + P + +VY V Sbjct: 2 HRTVLDLLDEPDRQGLHLAGRLDLGTTGLLLLTNDGHWSRRITHPRYKLAKVYYVETAEP 61 Query: 153 VDQDKLNLLKK--GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + ++ + + + + + L + + L EG+ ++K++F +F Sbjct: 62 IGEEYIETFARGLYFAFEDLVTQPAHLELL----GSHSARLTLFEGRYHQVKRMFGYFRN 117 Query: 211 KVNRLIRISYGPFQLG-TLLAGSTREVSKKILR 242 V RL R S GP +L L G R ++ + ++ Sbjct: 118 PVLRLHRESMGPLRLESELPPGHYRPLTSEEIQ 150 >gi|295677452|ref|YP_003605976.1| pseudouridine synthase [Burkholderia sp. CCGE1002] gi|295437295|gb|ADG16465.1| pseudouridine synthase [Burkholderia sp. CCGE1002] Length = 189 Score = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 37/176 (21%), Positives = 64/176 (36%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRASLADWVKVPGVYPAGRLDSDSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK---------------GS 185 ++ Y + G +D L L +G+ + Q Sbjct: 67 LVKRYWAQVEGALDDAALKKLARGVDLGDFVTRPCQANYVEPSSSLWTRTPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G + L G + E+ Sbjct: 127 TTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFSLGLQPGESIELRAN 182 >gi|323969764|gb|EGB65046.1| S4 domain-containing protein [Escherichia coli TA007] Length = 56 Score = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 1/54 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R++K I+ +GI SRRE +R I Q V +NG V D ++V+G Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRAT-IGDQVKPGDVVKVNG 56 >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 = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 35/182 (19%), Positives = 75/182 (41%), Gaps = 21/182 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + + + + GRLD ++EGLLLLT++G + Sbjct: 2 LIALNKPYGYICQFSPHEKHPNLKELVNVPRV--YPAGRLDTDSEGLLLLTDNGQQQARI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G + +++ L++ + + + L Sbjct: 60 ASPKFKLIKTYWAQLEGTPNPEQIAQLEQPMDLGDFIARPAKTRLLTPAETARIWPRNPP 119 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTRE 235 + + W+ + + EGKNR+++++ ++ RL+R G L L G + Sbjct: 120 VRYRKTVPDFWLEIQIAEGKNRQVRRMAAKAHYPCLRLVRTGIGRINLFDLDLPLGQWQP 179 Query: 236 VS 237 ++ Sbjct: 180 LT 181 >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 = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 47/177 (26%), Positives = 79/177 (44%), Gaps = 16/177 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 R+ L +KP G+++ +D T L +V GRLD ++EGLL+LT+DG L Sbjct: 3 RVILLNKPFGVLSQFTDKGLEGTTRPTLSAYVDVPQVYPAGRLDRDSEGLLVLTDDGRLQ 62 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD----------- 180 + P + + Y V +D L L+KGI ++ QV Sbjct: 63 AQIADPKFKKPKTYLVLVERIPSEDALQSLRKGITLKDGMTRPAQVERVEPPELWERDPP 122 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ +REG+NR+++++ RL+R S G + L + +G R Sbjct: 123 VRFRKSVPDCWLKFTIREGRNRQVRRMTAAVGHPTLRLVRWSVGEWTLDGIASGVWR 179 >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 = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 45/188 (23%), Positives = 84/188 (44%), Gaps = 21/188 (11%) Query: 70 AERTRLWLYHKPIGLVT-THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E L+ L + + + L +++GRLD +EGLLLLT DG Sbjct: 2 KEHRHFILHKPYGYLSQFITNQTKRKKKMLGELYDFPEGTMAIGRLDFASEGLLLLTTDG 61 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDT--- 181 +++ + ++ + Y V+ G + Q+ +N LKKG+ I + + ++ Sbjct: 62 KVSQEIRSS--KYEKEYYVQVDGLITQEAINQLKKGVEIGFEGKKYITKPGKASIINNPE 119 Query: 182 -----------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + G +W++V +REGK R+++K+ + RL+RI G + L Sbjct: 120 FPLRSQKIRDDRHGPTSWISVIIREGKFRQVRKMTAAVGYPTLRLVRIRIGTITIDDLKN 179 Query: 231 GSTREVSK 238 G +EV++ Sbjct: 180 GEVKEVNQ 187 >gi|329297161|ref|ZP_08254497.1| 23S rRNA pseudouridine synthase E [Plautia stali symbiont] Length = 222 Score = 80.2 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 39/146 (26%), Positives = 69/146 (47%), Gaps = 15/146 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGL++LTNDG L L P + ++Y V+ G + L+ L++GI + Sbjct: 76 YAAGRLDRDSEGLMILTNDGALQAQLTQPGKRTGKIYYVQVEGVPQESDLSRLRRGIPLN 135 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + W+ + L EG+NR+++++ + Sbjct: 136 DGPTLPAGAEVVPEPAWLWPRTPPIRERKAIPTCWLKITLYEGRNRQVRRMTAHIGFPTL 195 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKK 239 RLIR + G +QL L G R++S + Sbjct: 196 RLIRFAMGDYQLQDLAPGEWRDISDQ 221 >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 = 80.2 bits (196), Expect = 5e-13, Method: Composition-based stats. Identities = 38/171 (22%), Positives = 66/171 (38%), Gaps = 19/171 (11%) Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 GRLD ++EGLLLLTNDG L + P + Sbjct: 11 KPYGVICQFSAHEKYGCLKDYVSLPDFYPAGRLDTDSEGLLLLTNDGRLQARIADPKFKL 70 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-----------------TQKG 184 + Y + G D+ KL++L++G+ + +V + + Sbjct: 71 EKTYWAQVEGSPDEAKLDMLRRGVDLGDFVTRPAKVRVLETGEADVLWQRVPPIRVRKSV 130 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 + WV + + EGKNR+++++ + RL+R++ G L L G Sbjct: 131 PDFWVEIRISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDLGLALGQW 181 >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 = 80.2 bits (196), Expect = 5e-13, Method: Composition-based stats. Identities = 48/198 (24%), Positives = 79/198 (39%), Gaps = 23/198 (11%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L + T L + +++ + G V + GRLD ++EGLLLL Sbjct: 6 EELPASRPTTLLFHKPYG-VLSQFTPEPGSRWRCLADFIAVPGVYAAGRLDADSEGLLLL 64 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQ--VDQDKLNLLKKGIVIQGICYGDM------- 175 T +G L + L P+ R Y V+ G+ + L L++G+VIQG Sbjct: 65 TANGRLQQRLTDPAFGHWRTYWVQVEGEAGQRPEALQQLRQGVVIQGRLTRPALVRCLSD 124 Query: 176 -------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------GP 222 +W+ + L+EG+NR+++++ RLIR++ P Sbjct: 125 PKLPERDPPIRQRATIPVSWLELQLQEGRNRQVRRMTARVGLPTLRLIRVAIDLMDGEAP 184 Query: 223 FQLGTLLAGSTREVSKKI 240 L L G R VS + Sbjct: 185 LSLSGLKPGDWRRVSHRE 202 >gi|229016829|ref|ZP_04173757.1| Pseudouridine synthase [Bacillus cereus AH1273] gi|228744390|gb|EEL94464.1| Pseudouridine synthase [Bacillus cereus AH1273] Length = 96 Score = 79.8 bits (195), Expect = 5e-13, Method: Composition-based stats. Identities = 21/96 (21%), Positives = 51/96 (53%), Gaps = 2/96 (2%) Query: 160 LLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 +L++G++++ ++T ++ A V + + EG+NR+++++FE + KV +L R Sbjct: 1 MLERGVMLEDGKTAPANVKITSWDKRKETAIVQLTIHEGRNRQVRRMFEALDCKVVKLKR 60 Query: 218 ISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEA 253 Y ++G+L G RE++ +++ + Sbjct: 61 ERYAFLEVGSLRPGDARELTPHEVKQLRALASTKPR 96 >gi|114332166|ref|YP_748388.1| pseudouridine synthase, Rsu [Nitrosomonas eutropha C91] gi|114309180|gb|ABI60423.1| Pseudouridine synthase, Rsu [Nitrosomonas eutropha C91] Length = 163 Score = 79.8 bits (195), Expect = 5e-13, Method: Composition-based stats. Identities = 25/128 (19%), Positives = 52/128 (40%), Gaps = 14/128 (10%) Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ- 182 +T+DG L + P + + Y V+ G + + L G++++ C + + Sbjct: 1 MTDDGFLQHRIASPVQKMPKTYWVQVEGNISASAIAALSAGVMLKDRCTRPAKACAMEEP 60 Query: 183 -------------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 +W+ + + EG+NR+++++ + RLIR G + L L Sbjct: 61 ALWPRVPPVRWRDSIPTSWLELIITEGRNRQVRRMTAAVGFPTLRLIRYRIGSWSLEGLE 120 Query: 230 AGSTREVS 237 G R + Sbjct: 121 PGDYRRIR 128 >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 = 79.8 bits (195), Expect = 5e-13, Method: Composition-based stats. Identities = 32/139 (23%), Positives = 62/139 (44%), Gaps = 6/139 (4%) Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + +VGRLD +T G+LL+TNDG + P + ++YR D+ LK Sbjct: 1 MRNIDMQAVGRLDADTTGVLLITNDGQFNHRMTSPKYKAAKLYRAGLKHPADETFCQSLK 60 Query: 163 KGIVI--QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 G+++ + L+ + + + + EGK ++K++ +V L R+ + Sbjct: 61 NGVLLHDDDETVQAAEAVLE----NPHTLLLTITEGKYHQVKRMVAAAGNRVETLHRLKF 116 Query: 221 GPFQLGTLLAGSTREVSKK 239 G + L G + ++ K Sbjct: 117 GEWSAEHLAPGEWQFITIK 135 >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 = 79.8 bits (195), Expect = 5e-13, Method: Composition-based stats. Identities = 39/184 (21%), Positives = 74/184 (40%), Gaps = 14/184 (7%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + A R + L D + V + GRLD ++EGLLLL Sbjct: 29 KTITSATRKIILFNKPFDVLCQFTDDAEQGQRRTLADYIEEKEVYAAGRLDRDSEGLLLL 88 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 TNDG L + P+ + + Y V+ G L+ L++G++++ + Sbjct: 89 TNDGKLQAQITQPNKKTDKTYWVQVEGAPTDADLDKLRQGVILKDGLTLPAKIEFLKDAK 148 Query: 177 ------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + W+++ + EG+NR+++++ + RLIR S G + + + Sbjct: 149 IWPRVPPIRQRENIPTTWLSITICEGRNRQVRRMTANIGFPTLRLIRYSIGQWNIEGIDN 208 Query: 231 GSTR 234 G + Sbjct: 209 GHYK 212 >gi|330864072|emb|CBX74148.1| hypothetical protein YEW_ID35840 [Yersinia enterocolitica W22703] Length = 132 Score = 79.8 bits (195), Expect = 5e-13, Method: Composition-based stats. Identities = 21/136 (15%), Positives = 47/136 (34%), Gaps = 4/136 (2%) Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 + G +V +K + ++ L +G NR+I+++ + F ++V +L R L Sbjct: 1 MLGTVTKKCKV----RKEAPFVFSITLVQGLNRQIRRMCKHFGYEVTKLERTRIMNVNLK 56 Query: 227 TLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 L G R++ L E + + + + S+ + Sbjct: 57 GLPIGEWRDLRDDELIELFKLIENSSSDEKPQKKPKAKPVVAKKPAISRSKPAEKSETNS 116 Query: 287 KNSSQKNGLSKQKKLA 302 + ++KK Sbjct: 117 AGRKRFTQPGRKKKGR 132 >gi|213024491|ref|ZP_03338938.1| putative ribosomal large subunit pseudouridine synthase B [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] Length = 182 Score = 79.8 bits (195), Expect = 6e-13, Method: Composition-based stats. Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 17/178 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 ++ + R+ L++KP ++ +D GR T+ D +P + GRLD ++EGLL+LTND Sbjct: 4 KENQPKRVVLFNKPYDVLPQFTDEAGRRTLKDFIPVQGV--YAAGRLDRDSEGLLVLTND 61 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM------------ 175 G L L P + ++Y V+ G D L L+ G+ + Sbjct: 62 GALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLNDGPTLPAGIEIVAEPDWLW 121 Query: 176 ---QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + + +W+ V L EG+N +++++ RLIR S G + L L+ Sbjct: 122 PRTPPIRERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTLRLIRYSMGDYTLNGLIM 179 >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 = 79.8 bits (195), Expect = 6e-13, Method: Composition-based stats. Identities = 41/182 (22%), Positives = 68/182 (37%), Gaps = 17/182 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L T + V GRLD ++EGLLLLT+DG L + Sbjct: 1 MHLIALNKPFGTICQFSPHETRGSLGDWVKTPGVYPAGRLDADSEGLLLLTDDGALQAKI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G D L L++G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGAPDAGALATLERGVDLGDYVTRPCRARFVTPPDTLWPRNPPVR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVS 237 W+ + + EGKNR+++++ + RLIR+ G L L G TRE+ Sbjct: 121 YRAAIPTTWIELEIAEGKNRQVRRMTAAVGFPTLRLIRVGIGALDLFALGLAPGETRELP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >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 = 79.8 bits (195), Expect = 6e-13, Method: Composition-based stats. Identities = 47/178 (26%), Positives = 85/178 (47%), Gaps = 17/178 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP ++T +DPDGR T+ D + + GRLD+++EGLLLLT+ G L L Sbjct: 2 IILFNKPYNVLTKFTDPDGRPTLADYIDIPRV--YAAGRLDMDSEGLLLLTDSGKLNHDL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y V+ G + +L L++GI ++ +V Sbjct: 60 TDPENKAYKTYVVQVEGIPTKAQLKALEQGIELKDGMTLPAKVKRIPYPKWLWEREKPIR 119 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 Q +++ + ++EG+NR+++++ RLIR + +G L G R + Sbjct: 120 VRQNQPTSFLQIKIKEGRNRQVRRMTAAVGIPTLRLIRTHIDAYHIGDLKPGMYRVIK 177 >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 = 79.8 bits (195), Expect = 6e-13, Method: Composition-based stats. Identities = 47/249 (18%), Positives = 90/249 (36%), Gaps = 29/249 (11%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T+L L++KP G+ + + + ++ GRLD ++EGLLLLT++G L Sbjct: 1 MTKLVLFNKPYGVHSQFKKDHDGMITLADFIDDKTMRVA-GRLDKDSEGLLLLTDNGRLN 59 Query: 132 R---------VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T+ + Y V+ ++ L++G++++ +V + Sbjct: 60 HAITTPPTAKNAKDKYTKCAKTYLVQVENIATNVQIQALEQGVMLKDGKTLPAKVQKLDE 119 Query: 183 KG------------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 W+ + + EGKNR+I+++ RLIR G +Q Sbjct: 120 NELPIRLWQRNPPVRQRVNIPTTWLKITIVEGKNRQIRRMVAHVGLPCLRLIRSQIGIWQ 179 Query: 225 LGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 L L G +R + + L L + + P + + N S + Sbjct: 180 LNGLAVGESRVLQLDQ-QTLLKLGLSAQPTPKQNKPTNLISSNTKGAVNPKSGKIHLLKK 238 Query: 285 MKKNSSQKN 293 Sbjct: 239 PSWRVRPPK 247 >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 = 79.8 bits (195), Expect = 6e-13, Method: Composition-based stats. Identities = 36/174 (20%), Positives = 70/174 (40%), Gaps = 14/174 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L + +V GRLD ++EGLLLLT+DG L + Sbjct: 5 ILFNKPFDVLSQFTDTKSPSPRATLSDYIDVPKVYPAGRLDRDSEGLLLLTDDGRLQARI 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P ++ + Y + G L+ L+KG+ ++ +V L Sbjct: 65 SSPKSRTPKTYLAQVEGAPTDADLDPLRKGVTLKDGLTRPAEVHLIDPPDLWERDPPVRY 124 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + W+ + + EG+NR+++++ + RL+R G + + + G+ R Sbjct: 125 RKSVPDRWIELTITEGRNRQVRRMTAAVGFPTLRLVRWRVGDWSVEGIAPGTWR 178 >gi|326562796|gb|EGE13091.1| ribosomal large subunit pseudouridine synthase E [Moraxella catarrhalis 46P47B1] Length = 250 Score = 79.5 bits (194), Expect = 7e-13, Method: Composition-based stats. Identities = 48/254 (18%), Positives = 95/254 (37%), Gaps = 31/254 (12%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 T+L L++KP G+ + + + ++ GRLD ++EGLLLLT++G L Sbjct: 1 MTKLVLFNKPYGVHSQFKKDHDGMITLADFIDDKTMRVA-GRLDKDSEGLLLLTDNGRLN 59 Query: 132 R---------VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ 182 + T+ + Y V+ ++ L++G++++ +V + Sbjct: 60 HAITTPPTAKNAKDKYTKCAKTYLVQVENIATNVQIQALEQGVMLKDGKTLPAKVQKLDE 119 Query: 183 KG------------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 W+ + + EGKNR+I+++ RLIR G +Q Sbjct: 120 NELPIRLWQRNPPVRQRVNIPTTWLKITIVEGKNRQIRRMVAHVGLPCLRLIRSQIGIWQ 179 Query: 225 LGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR 284 L L G +R + L +Q+ L AQ ++ + + + Sbjct: 180 LNGLAVGESRVL---QLDQQILLKLGLSAQPTPKQNKPTNLISSNTKGAVNPKSGKIHLL 236 Query: 285 MKKNSSQKNGLSKQ 298 K + + + Sbjct: 237 KKPSWRVRPPKFRA 250 >gi|167040454|ref|YP_001663439.1| RluA family pseudouridine synthase [Thermoanaerobacter sp. X514] gi|300914505|ref|ZP_07131821.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X561] gi|307724259|ref|YP_003904010.1| RluA family pseudouridine synthase [Thermoanaerobacter sp. X513] gi|166854694|gb|ABY93103.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X514] gi|300889440|gb|EFK84586.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X561] gi|307581320|gb|ADN54719.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X513] Length = 305 Score = 79.5 bits (194), Expect = 7e-13, Method: Composition-based stats. Identities = 33/247 (13%), Positives = 69/247 (27%), Gaps = 37/247 (14%) Query: 3 DKNIVQ--ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 DK ++Q + +R+ +A +R ++++I + V VNG ++ + V D + Sbjct: 5 DKIVLQGEKEDEGKRIDVFLAAELDYTRSYIKKLIVDELVFVNGKTVK-PSYKVKENDEV 63 Query: 61 EVD------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 V+ +PL + + + +V + V L + Sbjct: 64 VVNIPEAEKIDVLPENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKN 123 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G L L G + + L Sbjct: 124 LSGINGILRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEGVIKDE 183 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI+ Y + + N V ++ G+ +I+ Sbjct: 184 EGKIEAPIGRHPVDRKKMAVIEDGRYALTLYKVLERFKENTLVEAVIKTGRTHQIRVHMA 243 Query: 207 FFNWKVN 213 + + Sbjct: 244 YIGHPIV 250 >gi|297588316|ref|ZP_06946959.1| RluA family pseudouridine synthase [Finegoldia magna ATCC 53516] gi|297573689|gb|EFH92410.1| RluA family pseudouridine synthase [Finegoldia magna ATCC 53516] Length = 307 Score = 79.5 bits (194), Expect = 7e-13, Method: Composition-based stats. Identities = 36/245 (14%), Positives = 84/245 (34%), Gaps = 33/245 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + ++ ++ R+ +A SR E++++I +++V VN ++ + D I Sbjct: 1 MMYEFLIDDSNQNTRLDVFLANEVELSRSEIQKLIDEKKVLVNEKTQKK-NYKLNLNDKI 59 Query: 61 EVD----GVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 + D ++ E L + +K ++ ++ T+ + L S F Sbjct: 60 KFDYEKPDKTIKPQQHDLDIVYEDDYLAIINKDKNVIVHPTETIYSDTLVNYLMSNFENL 119 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL------RVYRVRFHGQV 153 R V RLD +T GL+++ D L+ + + Sbjct: 120 SDVDGDYRRGIVHRLDKDTTGLIIIAKDNNTHLKLKEIIKNHEITKTYLCIVHGKIDECG 179 Query: 154 DQDKLN-----LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 ++ KK ++ + V V ++ G+ +I+ + Sbjct: 180 TIEEYMTRNPKDRKKMMISDEGKLSISNYERLDYNDDYSLVKVQIKTGRTHQIRVHMNYI 239 Query: 209 NWKVN 213 + + Sbjct: 240 HHPIL 244 >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 = 79.5 bits (194), Expect = 8e-13, Method: Composition-based stats. Identities = 43/178 (24%), Positives = 78/178 (43%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L ++KP G++ S + ++ D + GRLD ++EGLLLLT+DG L + Sbjct: 4 LIAFNKPYGVICQFSPHEKHKSLKDFINFPGF--YPAGRLDTDSEGLLLLTDDGRLQAQI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + + Y + G D+ +L L+KGI + G + + Sbjct: 62 TDPKFKHPKTYWAQLEGVPDESRLESLRKGIDLGGFVTRPASIRILKHGEADSLWERIPP 121 Query: 181 ---TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGST 233 + + W+ + + EGKNR+++++ + RLIR++ G +L L Sbjct: 122 IRVRKTVPDFWIEITISEGKNRQVRRMTAKAGYPCLRLIRVASGRLKLFDLDLKPREW 179 >gi|297544813|ref|YP_003677115.1| RluA family pseudouridine synthase [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842588|gb|ADH61104.1| pseudouridine synthase, RluA family [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 305 Score = 79.5 bits (194), Expect = 8e-13, Method: Composition-based stats. Identities = 30/240 (12%), Positives = 63/240 (26%), Gaps = 35/240 (14%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 ++ +R+ +A +R ++++I VNG ++ + V D + V+ Sbjct: 12 EKEDEGKRIDVFLAAELDYTRSYIKKLIVDGLAFVNGKTVK-PSYKVKENDKVVVNIPEA 70 Query: 64 --------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 +PL + + + +V + V L + G Sbjct: 71 EKIDVLPENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGINGI 130 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 L L G + + L Sbjct: 131 LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEGVIKNEEEKIEAP 190 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 KK VI+ Y + + N + ++ G+ +I+ F V Sbjct: 191 IGRHPVDRKKMAVIEDGRYALTLYKVLERFKENTLIEAVIKTGRTHQIRVHMAFIGHPVV 250 >gi|325295189|ref|YP_004281703.1| pseudouridine synthase, RluA family [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065637|gb|ADY73644.1| pseudouridine synthase, RluA family [Desulfurobacterium thermolithotrophum DSM 11699] Length = 313 Score = 79.5 bits (194), Expect = 8e-13, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 62/245 (25%), Gaps = 37/245 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 +V +R+ + IA SR + + +I V +NG ++++ + V + + Sbjct: 5 VVDSEKKGKRLDQFIASIADISRSQAKNLIEDGEVSINGRIVKKPSYKVKEGETVSFEIP 64 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D P + ++ + + +V + V L Sbjct: 65 EPIPLDLQPENIPLDIVYEDKDVIVINKPAGLVVHPAPGHYSGTLVNALLYYCKDFQGIN 124 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIV 166 G L L G L + Q L R IV Sbjct: 125 GTLRPGIVHRLDKDTAGLLVVAKNDLAQQSLIEQFKRRTVGRFYRALVLGIFEKQHDRIV 184 Query: 167 IQGICYGDMQVTLDTQKGS------NAWV------------TVGLREGKNREIKKVFEFF 208 + + S N WV L G+ +I+ Sbjct: 185 VPIGRDKFDRKKFSPNTTSPKEAITNYWVLESFPTHNVSDIKCKLETGRTHQIRVHMSHI 244 Query: 209 NWKVN 213 + Sbjct: 245 GHPLL 249 >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 = 79.5 bits (194), Expect = 8e-13, Method: Composition-based stats. Identities = 58/186 (31%), Positives = 86/186 (46%), Gaps = 11/186 (5%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTN 126 +L HKP G V T SD GR TV+D LP + VGRLD++++GLLL T Sbjct: 5 LKNSPKLLALHKPKGYVVTRSDELGRKTVYDLLPDWAFENGWMPVGRLDMDSKGLLLFTT 64 Query: 127 DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN 186 DG + L P +VY + G V + + KKG+ + + V G+ Sbjct: 65 DGKIGDALTRPG-NCKKVYEIWVRGYVTDEHIAAAKKGVESKQGLLKALSVEKLGTGGAK 123 Query: 187 AWVTVGLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + V + EGKNR I+++F KV L R+ G F L + +G R ++K+ Sbjct: 124 TKLRVVIDEGKNRHIRRLFGALKDPKFSTPLKVLDLKRVRIGTFDL-DIESGQWRFLTKE 182 Query: 240 ILREQL 245 + L Sbjct: 183 EEKRLL 188 >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 = 79.5 bits (194), Expect = 8e-13, Method: Composition-based stats. Identities = 44/190 (23%), Positives = 78/190 (41%), Gaps = 26/190 (13%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 +++KP G VT D + + R+ VGRLD T GLLL+T+DG + L Sbjct: 1 MFNKPFGCVTARRDTLYPTVMDYFSELHNDRLNPVGRLDRETTGLLLITDDGNWNQQLTH 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWV----- 189 P+ + Y G + +D+ L+ GI+++G + ++TL + + Sbjct: 61 PAYHKKKTYLFTVLGDLTEDRRQFLENGILLKGSPVPTSPAKITLFKKDTLANILDTLHP 120 Query: 190 ------------------TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLA 230 + + EG+ R+I+++ + + V L RIS L L Sbjct: 121 EVRNAVRTNLPSHPVTYGEITISEGRKRQIRRMMKAVHCCVIELKRISIDDIHLDESLAP 180 Query: 231 GSTREVSKKI 240 G +E+ Sbjct: 181 GKWKEIFPFE 190 >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 = 79.5 bits (194), Expect = 8e-13, Method: Composition-based stats. Identities = 34/140 (24%), Positives = 64/140 (45%), Gaps = 14/140 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 GRLD ++EGLL+LT+DG L + P + + Y V+ G +D++ L+ G+ + Sbjct: 40 YPAGRLDRDSEGLLVLTDDGRLQARIASPKFKRPKTYLVQVEGTPSEDQIRALRAGVDLN 99 Query: 169 GICYGDMQVTLD--------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + + +AW+++ + EG+NR+++++ R Sbjct: 100 DGPTRRAECVAIDPPDLWPRNPPVRFRKSVPDAWLSLTISEGRNRQVRRMTAHVGLPCLR 159 Query: 215 LIRISYGPFQLGTLLAGSTR 234 L+R S G + + L G R Sbjct: 160 LVRWSVGDWSVEGLAPGEWR 179 >gi|256752464|ref|ZP_05493322.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus CCSD1] gi|256748666|gb|EEU61712.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus CCSD1] Length = 305 Score = 79.1 bits (193), Expect = 9e-13, Method: Composition-based stats. Identities = 30/240 (12%), Positives = 65/240 (27%), Gaps = 35/240 (14%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 ++ +R+ +A +R ++++I + V VNG ++ + V D + V+ Sbjct: 12 EKEDEGKRIDVFLAAELDYTRSYIKKLIVDELVFVNGKTVK-PSYKVKENDEVVVNIPEA 70 Query: 64 --------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 +PL + + + +V + V L + G Sbjct: 71 EKIDVLPENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKNLSGINGI 130 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 L L G + + L Sbjct: 131 LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKYVAIVEGVIKDEEGKIEAP 190 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 KK VI+ Y + + N V ++ G+ +I+ + + Sbjct: 191 IGRHPVDRKKMAVIEDGRYALTLYKVLERFKENTLVEAVIKTGRTHQIRVHMAYIGHPIV 250 >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 = 79.1 bits (193), Expect = 9e-13, Method: Composition-based stats. Identities = 45/180 (25%), Positives = 79/180 (43%), Gaps = 21/180 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G++ S + ++ D +P V GRLD ++EGLLLLT+DG + Sbjct: 2 LIALNKPYGVICQFSPHEKHRSLKDFVP--VPNVYPAGRLDTDSEGLLLLTDDGRQQARI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------- 184 P + + Y + G D ++L LL++ + + ++ L + Sbjct: 60 ANPRFKLTKTYWAQLEGSPDDERLALLQRPLDLGDFVAQPARIRLLDEHETARIWQRDPP 119 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA--GSTRE 235 + W+ + + EGKNR+++++ + RLIR+ G L L G RE Sbjct: 120 IRVRKSVPDFWLQIQICEGKNRQVRRMTAKAGYPCLRLIRVGIGRVNLFDLGIELGQWRE 179 >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 = 79.1 bits (193), Expect = 9e-13, Method: Composition-based stats. Identities = 38/177 (21%), Positives = 65/177 (36%), Gaps = 19/177 (10%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRASLADWVKVPNVYPAGRLDSDSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G VD L L +G+ + + Sbjct: 67 LVKRYWAQVEGAVDAATLKKLARGVDLGDYVTRPCRAEYVEPTDTLWVRTPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G LG L G + ++ Sbjct: 127 TTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFSLG-LQPGESVDLPPD 182 >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 = 79.1 bits (193), Expect = 9e-13, Method: Composition-based stats. Identities = 43/175 (24%), Positives = 83/175 (47%), Gaps = 17/175 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP ++T +D +GR T+ D + + GRLD+++EGLLLLT+ G L L Sbjct: 2 IVLFNKPYNVLTKFTDAEGRPTLADYIDIPRV--YAAGRLDMDSEGLLLLTDSGKLNHEL 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y V+ G + +L L++G+ ++ +V Sbjct: 60 TDPDNKAYKTYVVQVEGVPTKSQLKQLEQGVALKDGLTLPAKVKRIPYPKWLWEREKPIR 119 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +++ + ++EG+NR+++++ RLIR G + + L G R Sbjct: 120 IRKNQPTSFIQLKIKEGRNRQVRRMTAAVGIPTLRLIRTHIGEYHIADLKPGQYR 174 >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 = 79.1 bits (193), Expect = 1e-12, Method: Composition-based stats. Identities = 33/140 (23%), Positives = 60/140 (42%), Gaps = 14/140 (10%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LT+ G + + + P + Y V+ G + L G++++ Sbjct: 47 YAAGRLDYDSEGLLVLTDTGRIQQRIADPRADMAKSYWVQVEGVPTLAAIQQLTCGVLLE 106 Query: 169 GICYGDM--------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + ++ W+ + L E +NR I+++ R Sbjct: 107 DGLTLPAIVEQIKPPSVWLRTPQIRERRQIPTTWLAITLTEDRNRLIRRMTAAVGLPTLR 166 Query: 215 LIRISYGPFQLGTLLAGSTR 234 LIR + GP+QL L G + Sbjct: 167 LIRQAVGPWQLNKLQPGDWK 186 >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 = 79.1 bits (193), Expect = 1e-12, Method: Composition-based stats. Identities = 45/173 (26%), Positives = 80/173 (46%), Gaps = 16/173 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP G+V S + T+ D L + GRLD ++EGLL+LT++G + + Sbjct: 2 IVLFNKPFGVVCQFSKHEIHPTLKDYLNIP--NIYPAGRLDTDSEGLLVLTDNGKIQHEI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P++ + Y V+ G + + + L+ GI ++ +V Sbjct: 60 SSPNSHKYKGYWVQVEGDIKNEAIQKLQNGIKLKDFTSLPARVEKINEPEIWERSTPIRF 119 Query: 182 -QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + +WV + +REGKNR+++K+ + RLIR + L LL G Sbjct: 120 RKNLPTSWVKIQIREGKNRQVRKMTAAVGFPTLRLIRYHVDDYYLNKLLPGDY 172 >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 = 79.1 bits (193), Expect = 1e-12, Method: Composition-based stats. Identities = 38/177 (21%), Positives = 65/177 (36%), Gaps = 19/177 (10%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRASLADWVKVPNVYPAGRLDSDSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G VD L L +G+ + + Sbjct: 67 LVKRYWAQVEGAVDAATLRKLARGVDLGDYVTRPCRAEYVEPTDTLWSRTPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF---QLGTLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G LG L G + ++ Sbjct: 127 TTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFSLG-LQPGESVDLPPD 182 >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 = 79.1 bits (193), Expect = 1e-12, Method: Composition-based stats. Identities = 53/183 (28%), Positives = 78/183 (42%), Gaps = 12/183 (6%) Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLL 124 + L + +KP G + T +D GR TV+D LP + +GRLD+ ++GLLL Sbjct: 3 ITANNSKILLVLNKPKGYLVTRTDDLGRKTVYDLLPDWAFHEGWMPIGRLDLESKGLLLF 62 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 T +G + +L P D+ + K I G +V G Sbjct: 63 TTNGKIGDILTKPGNCIKVYEVWVRGFVTDEHIIQASKGVESIYG--LLKAKVVKVGIGG 120 Query: 185 SNAWVTVGLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + V L EGKNR I+++F KV L RIS G F+L L G R +S Sbjct: 121 AKTKLLVELEEGKNRHIRRLFGALKDPKFGTPLKVLTLNRISIGNFKL-DLEIGKWRYLS 179 Query: 238 KKI 240 + Sbjct: 180 LEE 182 >gi|197301721|ref|ZP_03166791.1| hypothetical protein RUMLAC_00447 [Ruminococcus lactaris ATCC 29176] gi|197299161|gb|EDY33691.1| hypothetical protein RUMLAC_00447 [Ruminococcus lactaris ATCC 29176] Length = 304 Score = 79.1 bits (193), Expect = 1e-12, Method: Composition-based stats. Identities = 34/250 (13%), Positives = 77/250 (30%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ +++ + +R+ K + SR +++++ + VNG ++ A + D Sbjct: 1 MEQMSLISKK-KGERIDKFLGENLDDLSRSYIQKLLKDGLILVNGKKVK-ANYKLNEGDQ 58 Query: 60 IEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V D PL + L + +V + V L Sbjct: 59 IDVEVPDPEPLDIAAENIPLDILYEDEDILIVNKPKGMVVHPSPGHPDHTLVNAILYHCG 118 Query: 106 SR---------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR---------- 146 V R+D+NT G LL+ + ++L + R Sbjct: 119 EHLSGINGVIRPGIVHRIDMNTTGSLLICKNDHAHQILAEQLKEHSITRRYHAIVHGSLK 178 Query: 147 ---VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + + K + + + G+ ++ L G+ +I+ Sbjct: 179 ADTGTVNASIGRHPTDRKKMSTKALNGRHAVTHYRVLERLGNYTYIECELETGRTHQIRV 238 Query: 204 VFEFFNWKVN 213 + Sbjct: 239 HMASIGHPIL 248 >gi|268611607|ref|ZP_06145334.1| RNA pseudouridine synthase family protein [Ruminococcus flavefaciens FD-1] Length = 201 Score = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 51/191 (26%), Positives = 79/191 (41%), Gaps = 23/191 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 ++++KP VT D R+ + + R+ VGRLD +T GLLLLT+DG L + Sbjct: 6 YYMFNKPQNCVTAKRDAVHRTVMDFFPADLSERLHPVGRLDKDTCGLLLLTDDGDLDFRI 65 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------------ 182 P + Y G +D +K+ L+KGI + G L + Sbjct: 66 MQPDRHVSKTYFFYAIGTMDDEKIRSLEKGISMVGFTSRPASFRLIRKYRISQLEEFFPS 125 Query: 183 ----------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAG 231 G + + EGK E+K++ E + K+ L RIS G L L G Sbjct: 126 ERRERYLKNPDGPAFAAELTIHEGKKHEVKRMLEAVHCKIFYLKRISIGGLSLDDSLAEG 185 Query: 232 STREVSKKILR 242 R ++ L+ Sbjct: 186 QYRPLNDYELQ 196 >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 = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 44/181 (24%), Positives = 80/181 (44%), Gaps = 21/181 (11%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G++ S + + D + GRLD ++EGLLLLTN+G L Sbjct: 1 MNDLIILNKPYGVICQFSAHEKHQCLKDFVE--KPGFYPAGRLDTDSEGLLLLTNNGRLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + ++ Y + G D+ KL+LL++G+ + +V + + Sbjct: 59 AQIADPKFKQVKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTHPAEVRVLEEGEADVLWPR 118 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGS 232 + WV + + EGKNR+++++ + RL+R++ G L L G Sbjct: 119 VPPIRVRKSVPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDLNLELGQ 178 Query: 233 T 233 Sbjct: 179 W 179 >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 = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 47/180 (26%), Positives = 80/180 (44%), Gaps = 21/180 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G++ S + T+ D + V GRLD ++EGLLLLT+DG + Sbjct: 2 LIALNKPYGVICQFSPHEKYRTLKDFVN--VPNVYPAGRLDTDSEGLLLLTDDGKQQARI 59 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------- 179 P + ++ Y + G D DKL L++ + + Q+ L Sbjct: 60 TDPRNKIVKTYWAQLEGSPDADKLARLQQPLDLGDFVAQPAQIRLLETNEIAQIWTRHPP 119 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT--LLAGSTRE 235 + + + W+ + +REGKNR+++++ + RLIR+ G L L G +E Sbjct: 120 IRERKTVPDFWLQIQIREGKNRQVRRMTAKAGYPCLRLIRVGIGRVNLFDLGLELGQWQE 179 >gi|332968985|gb|EGK08027.1| ribosomal large subunit pseudouridine synthase E [Psychrobacter sp. 1501(2011)] Length = 201 Score = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 44/182 (24%), Positives = 80/182 (43%), Gaps = 23/182 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP G+ + SD + + GRLD +EGLLLLT+DG + + + Sbjct: 4 VILFNKPYGVQSQFSDDANNKFAPLSQFFTDKSLRVAGRLDATSEGLLLLTSDGRVNKAI 63 Query: 135 ELPS-----TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT----------- 178 P + + Y V+ G+ ++L L +G+V++ +V Sbjct: 64 THPPKANAGRKQGKTYLVQVEGEPTAEQLEQLCQGVVLKDGKTLPAEVKHLTEKELPMPL 123 Query: 179 -------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + ++W+ + + EGKNR+++++ RLIR S F+LG L G Sbjct: 124 WQRDPPIRERKNIPDSWLMMTIYEGKNRQVRRMTAHVGLPCLRLIRWSVAGFELGDLGVG 183 Query: 232 ST 233 Sbjct: 184 EF 185 >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 = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 49/180 (27%), Positives = 81/180 (45%), Gaps = 17/180 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 RL +HKP G+++ + + D + V GRLD ++EGLLLLT+DGGL Sbjct: 6 PPRLLRFHKPYGVLSQFTPEGRWRGLKDFID--LPGVYVAGRLDADSEGLLLLTDDGGLQ 63 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------- 176 + P + + Y V+ G D L L++G+ + + Sbjct: 64 ARIANPRFKMEKTYWVQVEGVPDAAALQALERGVQLNDGPTLPARARRLDAPPPVGEREP 123 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 Q + W+ + +REG+NR+++++ RL+R + GPF L L G+ EV Sbjct: 124 PIRVRQHIPDTWIELVIREGRNRQVRRMTAAVGHPTLRLVRAAIGPFPLDGLAPGTWAEV 183 >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 = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 40/187 (21%), Positives = 73/187 (39%), Gaps = 17/187 (9%) Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 K E ++ L + R + L +++GRLD ++EGLLLLT D Sbjct: 12 NKEEHHHFKIFKPYGFLSQFVPETRKRKKLLAELADFPKGTMAIGRLDHDSEGLLLLTTD 71 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------- 179 G ++ + + ++ D I I+G Y + + Sbjct: 72 GMVSHQVRSKKVEKEYYVQLDGDITADAITQLQNGVEIGIKGDKYLTLPCRVFKLASEPN 131 Query: 180 ---------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 D + G +W+++ + EGKNR+I+K+ + RL+R+ G + + A Sbjct: 132 LPANGRKVRDLRHGPMSWISITISEGKNRQIRKMTAAAGFPTLRLVRVRIGNIDINEMQA 191 Query: 231 GSTREVS 237 G +S Sbjct: 192 GDVLPLS 198 >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 = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 44/181 (24%), Positives = 80/181 (44%), Gaps = 21/181 (11%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L + +KP G++ S + + D + GRLD ++EGLLLLTN+G L Sbjct: 1 MNDLIILNKPYGVICQFSAHEKHQCLKDFVE--KPGFYPAGRLDTDSEGLLLLTNNGRLQ 58 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG------- 184 + P + ++ Y + G D+ KL+LL++G+ + +V + + Sbjct: 59 AQIADPKFKQIKTYWAQVEGSPDEAKLDLLRRGVDLGDFVTHPAEVRVLEEGEADVLWPR 118 Query: 185 ----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGS 232 + WV + + EGKNR+++++ + RL+R++ G L L G Sbjct: 119 VPPIRVRKSVPDFWVEIKISEGKNRQVRRMTAKAGFPCLRLVRVAIGRLNLFDLNLELGQ 178 Query: 233 T 233 Sbjct: 179 W 179 >gi|251773013|gb|EES53569.1| pseudouridine synthase [Leptospirillum ferrodiazotrophum] Length = 237 Score = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 53/169 (31%), Positives = 83/169 (49%), Gaps = 6/169 (3%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI------NTEGLLLLTNDGGL 130 +KP G++ T SDP+GR V D L S GR+ + GLLLLTN Sbjct: 52 CLNKPRGVLVTLSDPEGRPVVGDFLRRTPWSDGSFGRIRPLGRLDAASAGLLLLTNYQEP 111 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 P R YRV+ + + L G +G Y ++V ++ + ++W+ Sbjct: 112 WSHFLSPEGGVRRRYRVKIRPGLRAEDRKLFLSGKAGEGAGYRRVEVEIEREGPKSSWLL 171 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + L EG+NREI+ V + ++V LIR+++GPF LG L G V+++ Sbjct: 172 ISLVEGRNREIRNVLTYHGYEVLHLIRLAFGPFLLGDLKPGEVSSVTEE 220 >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 = 78.7 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 48/188 (25%), Positives = 81/188 (43%), Gaps = 18/188 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + T+ + V VGRLD ++EGLLLL+++ GLA Sbjct: 2 ILAFNKPYGILSQFTKEAPHHRTLAEF--GFPPGVYPVGRLDADSEGLLLLSDEKGLADR 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLK-KGIVIQGICYGDMQVTLDTQKG-------- 184 L PS + R Y + G + L L+ G+ I+G C + L ++ Sbjct: 60 LLNPSGRHPRTYWSQVEGTPSETDLRPLELGGLRIRGHCTLPCRARLMRREPDVPPRIPP 119 Query: 185 -------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 +W+ + L EGKNR+++++ + RL+R G F L L G+ +E+ Sbjct: 120 VRYRASIPTSWLELTLVEGKNRQVRRMTAAIGFPTLRLLRARIGNFSLAGLKPGAWKELD 179 Query: 238 KKILREQL 245 + R+ + Sbjct: 180 SRERRQLM 187 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 50/186 (26%), Positives = 85/186 (45%), Gaps = 17/186 (9%) Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 P+ +A +RL +HKP G+++ + + D + V GRLD ++EGLLLL Sbjct: 19 EPVERAGPSRLLRFHKPYGVLSQFTPEGRWRGLKDFID--LPGVYVAGRLDADSEGLLLL 76 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ-------- 176 T+DGGL + P + + Y V+ G D L L++G+ + + Sbjct: 77 TDDGGLQARIADPRFKMEKTYWVQVEGVPDAAALQALERGVQLNDGPTLPARARRLDVPP 136 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 Q + W+ + +REG+NR+++++ RL+R + GPF L L Sbjct: 137 PVGEREPPIRVRQHIPDTWIELVIREGRNRQVRRMTAAVGHPTLRLVRAAIGPFALDGLA 196 Query: 230 AGSTRE 235 G+ E Sbjct: 197 PGTWAE 202 >gi|170693552|ref|ZP_02884711.1| pseudouridine synthase [Burkholderia graminis C4D1M] gi|170141707|gb|EDT09876.1| pseudouridine synthase [Burkholderia graminis C4D1M] Length = 189 Score = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 37/173 (21%), Positives = 64/173 (36%), Gaps = 17/173 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSAHETRASLADWVKVPGVYPAGRLDSDSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G VD L L +G+ + + Sbjct: 67 LVKRYWAQVEGAVDSAALKKLARGVDLGDYVTKPCRAEYVEPGDTLWTRTPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREV 236 W+ + + EGKNR+++++ + RL+R+ G + L G + E+ Sbjct: 127 TTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGMGALDIFSLGLQPGESVEL 179 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 44/156 (28%), Positives = 69/156 (44%), Gaps = 23/156 (14%) 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 QGICYGDMQ-----------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +G + + + +W+++ LREG+NR+I+++ Sbjct: 61 KGQRTRPARATSLDSSFWFDLPERTPPIRERRTIPTSWLSISLREGRNRQIRRMTAAVGL 120 Query: 211 KVNRLIRISYG------PFQLGTLLAGSTREVSKKI 240 RLIR S P L L G R V+ Sbjct: 121 PTLRLIRRSIDLMDGGPPLSLEGLAPGQWRPVNSAE 156 >gi|255091431|ref|ZP_05320909.1| putative RNA pseudouridine synthase [Clostridium difficile CIP 107932] gi|255515848|ref|ZP_05383524.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-97b34] gi|255648941|ref|ZP_05395843.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-37x79] Length = 65 Score = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 1/62 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 ER 72 E Sbjct: 63 EY 64 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 39/175 (22%), Positives = 81/175 (46%), Gaps = 16/175 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 +L L++KP +++ +D + R T+ + + GRLD ++EGLLLLT+DG L Sbjct: 3 KLLLFNKPFHVLSQFTDSEARKTLSEFIEIKGV--YPAGRLDYDSEGLLLLTDDGQLQAQ 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL-------------- 179 + P + + Y + G + L G+ ++ + L Sbjct: 61 ISNPKFKLNKTYWAQVEGTATETHCLELIAGVSLKDGPAAAVACKLMDPPNLWPRIPPIR 120 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + Q +++W+ + + EG+NR+++++ RL+R + G +++ + G R Sbjct: 121 ERQNVADSWIELTINEGRNRQVRRMTAAVGLPTLRLVRAAIGDWKVTDIAPGEHR 175 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 34/172 (19%), Positives = 62/172 (36%), Gaps = 17/172 (9%) Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 ++ + L ++ VGRLD +EGLLLLT DG L+ + + Sbjct: 18 QFISNDEKEARKKHFLGELYDFPEGIMPVGRLDEKSEGLLLLTTDGKLSDTINQSGIEKE 77 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVT---------------LDTQKGS 185 ++ + I + G +V Sbjct: 78 YYAQLDGEIPHEDILQLERGVLIGLSGKKYITKPCRVKALLDPPLLTDPDKKLRIGTHRP 137 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 N+W+++ + EGK R+++K+ + RLIR+ G L L G+ ++ Sbjct: 138 NSWISITITEGKFRQVRKMTAAVGFPTLRLIRVRIGTQILEDLQPGTVAQID 189 >gi|218674542|ref|ZP_03524211.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli GR56] Length = 110 Score = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 28/109 (25%), Positives = 52/109 (47%) Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 R +D +++ + GI G Q N+W+ V L EG+NR+I+++ Sbjct: 1 MSRSARLLDDEEIAAMTSGIRHDGEVLTATATRRLRQGDRNSWIEVELDEGRNRQIRRML 60 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 E + RL+R++ G +LG L G+ R +++ L+ +E A+ Sbjct: 61 EALGAECLRLVRVAIGGLELGELPKGAVRALTEAELQALRRSAGMERAR 109 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 43/175 (24%), Positives = 83/175 (47%), Gaps = 17/175 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP ++T +D +GR T+ D + + GRLD+++EGLLLLT+ G L L Sbjct: 10 IVLFNKPYNVLTKFTDAEGRPTLADYIDIPRV--YAAGRLDMDSEGLLLLTDSGKLNHGL 67 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT------------- 181 P + + Y V+ G + +L L++G+ ++ +V Sbjct: 68 TDPDNKAYKTYVVQVEGVPTKSQLKQLEQGVALKDGLTLPAKVKRIPYPKWLWEREKPIR 127 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + +++ + ++EG+NR+++++ RLIR G + + L G R Sbjct: 128 IRKNQPTSFIQLKIKEGRNRQVRRMTAAVGIPTLRLIRTHIGEYHIADLKPGQYR 182 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 44/214 (20%), Positives = 74/214 (34%), Gaps = 17/214 (7%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTMSQFSEHPTRPTLAACVSVPGVYPAGRLDADSEGLLLLTDDGALQARIADPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---------------TQKGS 185 + Y + G D L L+ G+ + +V Sbjct: 67 LEKTYLAQVEGIPDAAALARLRAGVDLGDFVTQPARVRAIDAPDWLWPRQPPVRFRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKKILRE 243 AW+ + +REGKNR+++++ + RL+R+ GP L L G+ EV L Sbjct: 127 TAWLELKIREGKNRQVRRMTAAVGFPTLRLVRVGIGPLDLRALGLAPGACCEVLPAQLGL 186 Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE 277 + + + + R + Sbjct: 187 APAAPRMRQEPAPRSHVSKTRQANDTKRRSRYKN 220 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 34/181 (18%), Positives = 68/181 (37%), Gaps = 17/181 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 ++ L + + + L ++++GRLD ++EGLLLLT DG ++ Sbjct: 11 HQHFIIHKPYGYLSQFKYELKRKKKLLGELYDFPEGIMAIGRLDEDSEGLLLLTTDGKMS 70 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQ------- 182 ++ + +V + + I +G + + + Sbjct: 71 EIVRSKKVEKEYYVQVDGLITQEAIEKMKNGVEIGFEGTKYMTKPCKAFIVNEIPNFGER 130 Query: 183 --------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 G +W ++ + EGK R+++K+ + RL+R+ G LG L A Sbjct: 131 GKKIRDERHGPTSWASIVVTEGKFRQVRKMTAAVGFPTLRLVRVRVGNIHLGNLQAREVL 190 Query: 235 E 235 E Sbjct: 191 E 191 >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 = 78.3 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 46/156 (29%), Positives = 70/156 (44%), Gaps = 23/156 (14%) 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 QGICYGDMQVTLD-----------------TQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +G Q T + +W+++ LREG+NR+I+++ Sbjct: 61 KGQSTRPAQATFLDASHWRDLPERTPPIRVRRSIPTSWLSISLREGRNRQIRRMTAAVGL 120 Query: 211 KVNRLIRISYG------PFQLGTLLAGSTREVSKKI 240 RLIR S P L L G R V Sbjct: 121 PTLRLIRRSIDLMDSEPPLSLEGLAPGQWRPVKPAE 156 >gi|229023034|ref|ZP_04179549.1| Pseudouridine synthase [Bacillus cereus AH1272] gi|228738257|gb|EEL88738.1| Pseudouridine synthase [Bacillus cereus AH1272] Length = 90 Score = 77.9 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 19/90 (21%), Positives = 45/90 (50%), Gaps = 2/90 (2%) Query: 166 VIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 +++ ++T ++ A V + + EG+NR+++++FE + KV +L R Y Sbjct: 1 MLEDGKTAPANVKITSWDKRKETAIVQLTIHEGRNRQVRRMFEALDCKVVKLKRERYAFL 60 Query: 224 QLGTLLAGSTREVSKKILREQLGPHLLEEA 253 ++G+L G RE++ +++ + Sbjct: 61 EVGSLRPGDARELTPHEVKQLRALASTKPR 90 >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 = 77.9 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 43/184 (23%), Positives = 82/184 (44%), Gaps = 18/184 (9%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R ++ +KP +V+ D + + + + +VGRLD +EGLL+LT + + R+ Sbjct: 29 RYFIINKPFNMVSQFISSDAVNLLGNLDFTFPEGTHAVGRLDNESEGLLILTTNKKVTRL 88 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-----GICYGDMQVTLD-------- 180 L + + R Y V +V ++ L L+ GI I+ + ++ Sbjct: 89 LFQGTKKHTRTYLVLVKNKVSEETLKQLQTGISIRVKGGGNYISSPCEASIVTDAKAIYS 148 Query: 181 -----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + + W+ + L EGK +++K+ N + RLIR+S L L G+ +E Sbjct: 149 YAADTRENYPHTWLLLTLTEGKFHQVRKMVLAVNHRCLRLIRVSIENMLLHDLQPGAVKE 208 Query: 236 VSKK 239 ++ Sbjct: 209 FEEE 212 >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 = 77.9 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 35/241 (14%), Positives = 75/241 (31%), Gaps = 15/241 (6%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRL 75 + + + + ++ R++ Q RVKVN L++ V ++D + VDG+ + L Sbjct: 3 IERYLTEHHQGTPGQIFRLLRQGRVKVNDRLIDSPRETVDTSDQVTVDGLAVTGRRPQYL 62 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 N + + L GL L+T+D ++ Sbjct: 63 VFNKPVGVQTDLTPVVPHSLGSMLNALDQQQSLQILADLPRTIAGLTLVTDDNTFLTEVQ 122 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + ++ + + +V + W + L+ Sbjct: 123 GQTWPSTLRVQLTGTTPLTLPQNI--------------AAEVVEQRPDQVHQWTMLTLQT 168 Query: 196 GKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKILREQLGPHLLEEAQ 254 + E + + RI +GP +L L G+ R + + + L P + Sbjct: 169 TALDSVTAWLESLSRVSGAINRIGWGPIKLSPDLAVGTYRGLFPQEIDALLTPATTSSLE 228 Query: 255 V 255 Sbjct: 229 K 229 >gi|288553139|ref|YP_003425074.1| large ribosomal pseudouridine synthesis protein [Bacillus pseudofirmus OF4] gi|288544299|gb|ADC48182.1| large ribosomal pseudouridine synthesis protein [Bacillus pseudofirmus OF4] Length = 304 Score = 77.9 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 72/248 (29%), Gaps = 38/248 (15%) Query: 1 MKDKN-IVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M++ + E +R+ K + A+ G SR +V++ I +V+VNG ++ + D Sbjct: 1 MEEIQWTILEENKNERIDKFLTAQNGEWSRSQVQQWIKDGQVQVNGK-ATKSNYKMQVED 59 Query: 59 HIEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + + + +PL + + + +V + V L Sbjct: 60 QVTLSIPEPEELDVIAEDIPLDVVYEDADVIVVNKPRGMVVHPAPGHYTGTLVNALLYHC 119 Query: 105 FSRVISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 G + D E L+ R + + Sbjct: 120 KDLSGINGVIRPGIVHRIDKDTSGLLMVAKNDHAHESLVSQLKAKTTKRHYKAIVHGVIP 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +DK + + T+ +V L G+ +I+ Sbjct: 180 HQHGTIEAPIGRDKKDRQSMTVTEDNSRDAVTHFTVLECFKDFTYVQCELETGRTHQIRV 239 Query: 204 VFEFFNWK 211 ++ + Sbjct: 240 HMKYIGYP 247 >gi|46191229|ref|ZP_00206720.1| COG1187: 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Bifidobacterium longum DJO10A] Length = 329 Score = 77.9 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 1/68 (1%) 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 LRKAERTR 74 +R Sbjct: 72 VRVNPNHV 79 >gi|171920977|ref|ZP_02696366.2| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|185179169|ref|ZP_02555823.2| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188024223|ref|ZP_02570294.2| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188518627|ref|ZP_02556991.2| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|188524489|ref|ZP_02558401.2| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195867617|ref|ZP_03079619.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198273670|ref|ZP_03206205.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|225550414|ref|ZP_03771363.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 2 str. ATCC 27814] gi|225551125|ref|ZP_03772071.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 8 str. ATCC 27618] gi|171903003|gb|EDT49292.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|184208903|gb|EDU05946.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188018878|gb|EDU56918.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188997853|gb|EDU66950.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|195659610|gb|EDX52990.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195660674|gb|EDX53929.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198249698|gb|EDY74479.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|225378940|gb|EEH01305.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 8 str. ATCC 27618] gi|225379568|gb|EEH01930.1| pseudouridine synthase, RluA family [Ureaplasma urealyticum serovar 2 str. ATCC 27814] Length = 299 Score = 77.9 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 73/242 (30%), Gaps = 34/242 (14%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ +P+R+ K + SR +++M+ Q V VN ++ + + + D +E+ Sbjct: 2 KILYSLTSPKRIDKFLVEVTDYSRTSIKKMLEQNLVLVNDNIITKQSYLLQKNDSVEIKN 61 Query: 65 V-----------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + ++ L + LV S + + + + Sbjct: 62 EQCVIDSQKELLPFACPLEIVFEDQDLLVINKPSGMLVHPTSFQEQNTLANALKHYLKTD 121 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-- 165 + L++ A V + + ++ ++ L I Sbjct: 122 DFYITHRLDKNTSGLIVICKNQKALCCLQQQFMQKTVKKSYYAIVHNRFDMHHLHFMINE 181 Query: 166 ----------VIQGICYGDMQV-----TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 ++ + + + Q + A V V + G+ +I+ N Sbjct: 182 PIGHSYQDKLRMKTGDAKNAKEAISIVKVIEQYQNTALVEVSIITGRTHQIRVHMRHINH 241 Query: 211 KV 212 + Sbjct: 242 PI 243 >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 = 77.9 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 43/178 (24%), Positives = 80/178 (44%), Gaps = 21/178 (11%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +++KP G++ S + ++ + + V GRLD ++EGLLLLT +G L + Sbjct: 4 LIVFNKPYGVICQFSPHEKHRSLKEFIG--LPDVYPAGRLDTDSEGLLLLTANGRLQAKI 61 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--------------- 179 P + ++ Y + G D+ KL+LL+ G+ + Q+ L Sbjct: 62 ADPRHKTVKTYWAQLEGSPDEAKLDLLRHGVDLGDFVTRPAQIRLPEKSETDRLWSRVPP 121 Query: 180 --DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGST 233 + + W+ + + EGKNR+++++ + RL+R+ G L L G Sbjct: 122 IRVRKSVPDFWLEIRISEGKNRQVRRMTAKAGYPCLRLVRVGIGRLDLWQLDLAPGQW 179 >gi|86143319|ref|ZP_01061721.1| RNA pseudouridine synthase family protein [Leeuwenhoekiella blandensis MED217] gi|85830224|gb|EAQ48684.1| RNA pseudouridine synthase family protein [Leeuwenhoekiella blandensis MED217] Length = 192 Score = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 40/185 (21%), Positives = 69/185 (37%), Gaps = 24/185 (12%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTND 127 L+ L S+ + L S ++ +GRLD +EGLLL+T D Sbjct: 3 THQHYLLFKPYGYLSQLSSNDLHQKRKKKFLAELYSWPDGIMPIGRLDEKSEGLLLMTTD 62 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDM-------- 175 G L+ + + Y G + +L L +GI I + Sbjct: 63 GKLSDHINRS--GIEKEYYALVDGIPTEAQLEQLSQGIEIGINGKKYRTKPCGVKILETS 120 Query: 176 -------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + D + G W+++ + EGK R+++K+ + RL+RI G +L + Sbjct: 121 PALPDRGKKIRDARHGPTTWLSITIIEGKFRQVRKMTSAIDCPTLRLVRIRIGSLKLKAI 180 Query: 229 LAGST 233 G Sbjct: 181 QPGEV 185 >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 = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 22/87 (25%), Positives = 45/87 (51%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +++ SR V R + +RV ++G +++ A+ + + DG PL++ Sbjct: 1 MRLDKFLSQQLGVSRALVARELRAKRVTIDGEVVKSGAIKLTPEQDVRFDGNPLQQMVGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDN 100 R ++ +KP G V + DPD + ++ Sbjct: 61 RYFMLNKPQGYVCSTEDPDHPTVLYFL 87 >gi|146297843|ref|YP_001192434.1| pseudouridine synthase [Flavobacterium johnsoniae UW101] gi|146152261|gb|ABQ03115.1| pseudouridine synthase [Flavobacterium johnsoniae UW101] Length = 190 Score = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 41/192 (21%), Positives = 77/192 (40%), Gaps = 21/192 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 L+ L + + + L +++GRLD ++EGLLLLT DG + Sbjct: 1 MHRHFILFKPYGYLSQFIYELKRKKKLLGELHDFPEGTMAIGRLDEDSEGLLLLTTDGKV 60 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI----CYGDM----------- 175 + + + + Y V+ G + + + L+KG+ I Sbjct: 61 SEQIRSK--KVDKEYYVQVDGIITPEAIEKLQKGVEIGFEGGKYKTKPCTAFIVTEIPDF 118 Query: 176 ----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + D + G +W ++ + EGK R+++K+ + RL+R+ G L L AG Sbjct: 119 GPRAKKIRDERHGPTSWASITVNEGKFRQVRKMTAAVGFPTLRLVRVRIGNVYLQNLKAG 178 Query: 232 STREVSKKILRE 243 EV+ + + Sbjct: 179 EVLEVNDFQIND 190 >gi|152993336|ref|YP_001359057.1| ribosomal large subunit pseudouridine synthase D [Sulfurovum sp. NBC37-1] gi|151425197|dbj|BAF72700.1| ribosomal large subunit pseudouridine synthase D [Sulfurovum sp. NBC37-1] Length = 317 Score = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 47/247 (19%), Positives = 80/247 (32%), Gaps = 38/247 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + N+ R+ KV+A SR +VE+++ V VN ++ + + V+ D I Sbjct: 1 MNNFNVETAG----RIDKVLAHELDVSRNQVEKLVKDGLVSVNKKMVTKTSFKVVEGDEI 56 Query: 61 EVDGVPLRKAER-------------TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS- 106 + K E L + +KP GLV + T+ D L Sbjct: 57 TYEFKEAEKREPVEIDFDVEILYEDEYLMVVNKPSGLVVHPAPSVKEPTLVDWLVKKGIS 116 Query: 107 --------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------------VYR 146 R V R+D T G L++ D + +L Sbjct: 117 LSTISGEERHGIVHRIDKETTGALVIAKDNKVHEMLSEQLQDKSMGRYYLALIDHFLKED 176 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 V + ++ N LK +V G L T + + L G+ +I+ Sbjct: 177 VVVDKPIGRNPHNRLKMDVVPHGKPAKTAFKKLLTSEYDVELIAAKLFTGRTHQIRVHLN 236 Query: 207 FFNWKVN 213 + Sbjct: 237 TLGRHIL 243 >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 = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 39/178 (21%), Positives = 72/178 (40%), Gaps = 17/178 (9%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++ L + R + L + + ++++GRLD ++EGLLLLT DG + + Sbjct: 1 MIFKPYGYLSQFVGERRKRKPLLGELANFPTGIMAIGRLDHDSEGLLLLTTDGKTSHAVR 60 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--DMQVTLDTQ----------- 182 S + ++ I I+G Y + Q Sbjct: 61 SKSIEKEYYLQLDGEITEQAISSLCEGVEIGIKGEKYRTLPCRARRLDQAPDLPPRGRKI 120 Query: 183 ----KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 G +W+ + + EGKNR+++K+ + RL+R+ G +LGTL G + + Sbjct: 121 RDARHGPTSWLAITITEGKNRQLRKMTAAVGFATLRLVRVRIGDIRLGTLQPGEVKSL 178 >gi|148242785|ref|YP_001227942.1| pseudouridine synthase [Synechococcus sp. RCC307] gi|147851095|emb|CAK28589.1| Pseudouridine synthase [Synechococcus sp. RCC307] Length = 205 Score = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 49/195 (25%), Positives = 75/195 (38%), Gaps = 23/195 (11%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L HKP G+++ + G V + GRLD ++EGLLLLT+DG L L Sbjct: 9 LLLHKPYGVLSQFTPEVGSRWDCLASLVPIKGVYAAGRLDADSEGLLLLTSDGALQHQLT 68 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----------- 184 P R YR + G + L L++GI ++ + L Sbjct: 69 NPRFGHWRQYRAQVEGAPTEADLEPLRRGIQLKDGPSRPARAQLLDPSVAAGIAERNPPI 128 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 W+ + L EG+NR+++++ + RLIR S P L + G Sbjct: 129 RHRLSVPTRWLELELTEGRNRQVRRMTAAIGFPTLRLIRWSLDLMDGQPPLNLDGMEPGQ 188 Query: 233 TREVSKKILREQLGP 247 R VS + Sbjct: 189 WRWVSAAEEKRLKQL 203 >gi|222151016|ref|YP_002560170.1| hypothetical protein MCCL_0767 [Macrococcus caseolyticus JCSC5402] gi|222120139|dbj|BAH17474.1| conserved hypothetical protein [Macrococcus caseolyticus JCSC5402] Length = 301 Score = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 30/250 (12%), Positives = 71/250 (28%), Gaps = 39/250 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ N + E T R+ K +A A SR +++ I + V VNG +++ + D Sbjct: 1 METFNFEINEEETGIRIDKFLADANPDWSRSQIQDWIKNEFVLVNGKVIKS-NYKLRLND 59 Query: 59 HIEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I V P+ ++ +Y +V + V + +I Sbjct: 60 EISVTEKPVEEVDLVAQDLGLEIYYEDKDVAIVYKPKGMVVHPAPGHPDGTLVNGLMHAI 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPS---------------------TQWLR 143 G + + G L + + Sbjct: 120 TDLSGINGEIRPGIVHRIDKDTSGLLMIAKNDIAHRGLVDQLVDKSVTRKYTALVHGVIP 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +++ + ++ ++ + + V L G+ +I+ Sbjct: 180 HEFGTIDAPIGRNQKDR-QEMAIVDNGKHAVTHFNVLETFDKYTLVECVLETGRTHQIRV 238 Query: 204 VFEFFNWKVN 213 + + + Sbjct: 239 HMKHIGFPLV 248 >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 = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 46/194 (23%), Positives = 87/194 (44%), Gaps = 25/194 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + L++KP G+ + SD + + GRLD +EGLLLLT+DG + + + Sbjct: 6 VILFNKPYGVQSQFSDDANNKFAPLSQFFTDKSLRVAGRLDATSEGLLLLTSDGQVNKAI 65 Query: 135 ELPS-----TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----- 184 P + + Y V+ G ++L L++G++++ +V +++ Sbjct: 66 THPPKANAGRKQGKTYLVQVEGIPSNEQLEQLRQGVLLKDGQTLPAEVKHISEEDLPMPL 125 Query: 185 -------------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 ++W+ + + EGKNR+++++ RLIR S F+LG L G Sbjct: 126 WQRDPPIRERKSVPDSWLMMTIYEGKNRQVRRMTAHVGLPCLRLIRWSAAGFELGNLAVG 185 Query: 232 ST--REVSKKILRE 243 ++ K L+E Sbjct: 186 EFVRVHLNDKRLKE 199 >gi|255018863|ref|ZP_05290989.1| hypothetical protein LmonF_16091 [Listeria monocytogenes FSL F2-515] Length = 128 Score = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 30/117 (25%), Positives = 56/117 (47%), Gaps = 2/117 (1%) Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTVG 192 P + + Y R G +++ + L++G+VI G +V + + A V + Sbjct: 6 MHPKNEVSKTYIARIKGIPEREVIRQLERGVVIDGRKTAPAKVKVRSSDKTKDKAIVEIT 65 Query: 193 LREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHL 249 + EG+NR+++K+FE ++V +L R Y L L AG RE+S +++ Sbjct: 66 IHEGRNRQVRKMFEAVGFEVQKLSREEYSFLNLRGLNAGERRELSHHEVKQLKTEAR 122 >gi|291280358|ref|YP_003497193.1| ribosomal large subunit pseudouridine synthase D [Deferribacter desulfuricans SSM1] gi|290755060|dbj|BAI81437.1| ribosomal large subunit pseudouridine synthase D [Deferribacter desulfuricans SSM1] Length = 288 Score = 77.5 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 35/232 (15%), Positives = 71/232 (30%), Gaps = 33/232 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------DGV 65 R+ ++ SR ++I + V VN ++ + NV D I V D Sbjct: 1 MRIDTYLSEVIGKSRSFCSKIIKKGLVLVNNKTVK-PSYNVNLGDEILVKIPQEEKLDLK 59 Query: 66 P------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR------VISVGR 113 P + + L + V + V L V R Sbjct: 60 PANIPLNIIYENQYYLIINKPAGLCVHPAPGNFDNTLVNALLYHFQINDDNDVRPGIVHR 119 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL------------ 161 LD +T GL+L+ + + + + + + +L Sbjct: 120 LDKDTSGLILVAKNRDVREKMSEMFKEREVDKKYLAICYGNPKWDEILVENSIGRHPVDR 179 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 KK V++ Y ++T+ + + V + G+ +I+ + + Sbjct: 180 KKMAVVENGRYAKTKITVLKRYDNIFLADVKIYTGRTHQIRVHCSYLGCPII 231 >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 = 77.1 bits (188), Expect = 3e-12, Method: Composition-based stats. Identities = 32/165 (19%), Positives = 58/165 (35%), Gaps = 17/165 (10%) Query: 86 TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 + L + VGRLD +EGLLL+T DG L+ + + Sbjct: 23 SNEERQIRSKRFLSELHEFPEGTMPVGRLDEKSEGLLLMTTDGKLSDTINRKGIEKEYYA 82 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICY-----------------GDMQVTLDTQKGSNAW 188 ++ ++ I +GI Y + + N+W Sbjct: 83 QLDGDISPKAIEILATGVEIGFEGIRYTTKPCTVQKINFKPSLPAPDKRIRLARHRPNSW 142 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 +++ + EGK R+++K+ + RL+R+ G L L Sbjct: 143 ISIVITEGKFRQVRKMTAAVGFPTLRLVRVRIGALILDDLGPEEV 187 >gi|134296698|ref|YP_001120433.1| pseudouridine synthase [Burkholderia vietnamiensis G4] gi|134139855|gb|ABO55598.1| pseudouridine synthase [Burkholderia vietnamiensis G4] Length = 192 Score = 77.1 bits (188), Expect = 3e-12, Method: Composition-based stats. Identities = 42/182 (23%), Positives = 76/182 (41%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YAAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G D L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPDAADLKALARGVDLGDYVTRPCRAEFIEPPAALWPRTPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T E+ Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGVLDIFALGIAPGETIELP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|47570307|ref|ZP_00240954.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus G9241] gi|47553016|gb|EAL11420.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus G9241] Length = 302 Score = 77.1 bits (188), Expect = 3e-12, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 65/242 (26%), Gaps = 38/242 (15%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A G SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINGEWSRSQVQQWIKDDVVTVNGKSVKV-NYKVKENDEITVTI 66 Query: 63 -DGV-----------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + + L + +V + V + Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRF 149 G + + G L + + L + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 187 DAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIG 245 Query: 210 WK 211 + Sbjct: 246 YP 247 >gi|57866712|ref|YP_188346.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus epidermidis RP62A] gi|242242479|ref|ZP_04796924.1| pseudouridylate synthase RluD [Staphylococcus epidermidis W23144] gi|57637370|gb|AAW54158.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus epidermidis RP62A] gi|242234053|gb|EES36365.1| pseudouridylate synthase RluD [Staphylococcus epidermidis W23144] gi|319401509|gb|EFV89719.1| pseudouridine synthase, RluA family protein [Staphylococcus epidermidis FRI909] Length = 305 Score = 77.1 bits (188), Expect = 4e-12, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 36/246 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + NI++++ QR+ K+++ SR +++ I + VKVNG +++ V D I Sbjct: 5 NFNIIEQSQVGQRIDKLVSDLNKDWSRSQLQDWIKEGLVKVNGKVIKS-NYKVKLNDKIV 63 Query: 62 V--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V D P + + +Y +V + V + I Sbjct: 64 VTEKEVVEADIKPENLNLDIYYEDEDVAIVYKPKGMVVHPSPGHYSGTLVNGLMYQIKDL 123 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 G + + G L + + L + + Sbjct: 124 SGINGEIRPGIVHRIDKDTSGLLMVAKNDVAHRHLVEQLMSKTVKRKYTALVHGNIPHDY 183 Query: 156 --------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 N + V+ + + L G+ +I+ ++ Sbjct: 184 GTIDAPIGRNKNDRQAMAVVDDGKEAVTHFNVLEHFKDYTLIECQLETGRTHQIRVHMKY 243 Query: 208 FNWKVN 213 + + Sbjct: 244 IGYPLV 249 >gi|27467790|ref|NP_764427.1| hypothetical protein SE0872 [Staphylococcus epidermidis ATCC 12228] gi|251810627|ref|ZP_04825100.1| pseudouridylate synthase RluD [Staphylococcus epidermidis BCM-HMP0060] gi|282876372|ref|ZP_06285239.1| pseudouridine synthase, RluA family [Staphylococcus epidermidis SK135] gi|293366838|ref|ZP_06613514.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus epidermidis M23864:W2(grey)] gi|27315334|gb|AAO04469.1|AE016746_259 conserved hypothetical protein [Staphylococcus epidermidis ATCC 12228] gi|251805787|gb|EES58444.1| pseudouridylate synthase RluD [Staphylococcus epidermidis BCM-HMP0060] gi|281295397|gb|EFA87924.1| pseudouridine synthase, RluA family [Staphylococcus epidermidis SK135] gi|291319139|gb|EFE59509.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus epidermidis M23864:W2(grey)] gi|329729961|gb|EGG66352.1| pseudouridine synthase, RluA family [Staphylococcus epidermidis VCU144] gi|329736346|gb|EGG72618.1| pseudouridine synthase, RluA family [Staphylococcus epidermidis VCU028] gi|329736639|gb|EGG72905.1| pseudouridine synthase, RluA family [Staphylococcus epidermidis VCU045] Length = 305 Score = 77.1 bits (188), Expect = 4e-12, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 36/246 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + NI++++ QR+ K+++ SR +++ I + VKVNG +++ V D I Sbjct: 5 NFNIIEQSQVGQRIDKLVSDLNKDWSRSQLQDWIKEGLVKVNGKVIKS-NYKVKLNDKIV 63 Query: 62 V--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V D P + + +Y +V + V + I Sbjct: 64 VTEKEVVEADIKPENLNLDIYYEDEDVAVVYKPKGMVVHPSPGHYSGTLVNGLMYQIKDL 123 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 G + + G L + + L + + Sbjct: 124 SGINGEIRPGIVHRIDKDTSGLLMVAKNDVAHRHLVEQLMSKTVKRKYTALVHGNIPHDY 183 Query: 156 --------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 N + V+ + + L G+ +I+ ++ Sbjct: 184 GTIDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLIECQLETGRTHQIRVHMKY 243 Query: 208 FNWKVN 213 + + Sbjct: 244 IGYPLV 249 >gi|289209534|ref|YP_003461600.1| pseudouridine synthase [Thioalkalivibrio sp. K90mix] gi|288945165|gb|ADC72864.1| pseudouridine synthase [Thioalkalivibrio sp. K90mix] Length = 180 Score = 77.1 bits (188), Expect = 4e-12, Method: Composition-based stats. Identities = 45/180 (25%), Positives = 83/180 (46%), Gaps = 16/180 (8%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 R+ L+HKP G++ +DP+GR T+ D + GRLD ++EGL++LT+DG L Sbjct: 3 RIVLFHKPWGVLPQFTDPEGRPTLADYIDIPGV--YPAGRLDRDSEGLMVLTDDGRLNAR 60 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 L P + + Y V+ G+ D L L+ G+ ++ +V Sbjct: 61 LTQPRHKTSKTYWVQVEGEPDDAALEALRTGVDLKDGRTQPAKVERMTPPDLPERDPPVR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + W+ + L EG+NR+++++ RL+R + L + G+ + ++ Sbjct: 121 FRKSVPTTWLALTLHEGRNRQVRRMTAAVGHPTLRLVRYRVASWTLDGVERGAFSVIERE 180 >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 = 77.1 bits (188), Expect = 4e-12, Method: Composition-based stats. Identities = 54/187 (28%), Positives = 89/187 (47%), Gaps = 11/187 (5%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDG 128 +L++ +KP G + T SD GR TV+D LP + +GRLD++++GLLL T +G Sbjct: 10 TSKKLFVLNKPKGYLVTRSDDLGRKTVYDLLPDWAFNEGWMPIGRLDLDSKGLLLFTTNG 69 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 + +VY + G V + + KG+ ++V G+ Sbjct: 70 -HISNALTTPKKCTKVYEIWVRGHVMDEHIAEALKGVQTSQGLLKALEVKKIGMGGAKTK 128 Query: 189 VTVGLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQLGTLLAGSTREVSKKIL 241 ++V + EGKNR I+++F KV L RIS G F+L + G+ R +S++ Sbjct: 129 LSVVIDEGKNRHIRRLFGALKDPKFGTPLKVLELNRISIGDFKL-DIDIGTWRFLSEEEE 187 Query: 242 REQLGPH 248 + L H Sbjct: 188 KMLLDKH 194 >gi|297537798|ref|YP_003673567.1| pseudouridine synthase [Methylotenera sp. 301] gi|297257145|gb|ADI28990.1| pseudouridine synthase [Methylotenera sp. 301] Length = 183 Score = 76.8 bits (187), Expect = 4e-12, Method: Composition-based stats. Identities = 36/175 (20%), Positives = 67/175 (38%), Gaps = 15/175 (8%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 ++ V + GRLD ++EGLL+LT+DG L L Sbjct: 8 PFNVVCQFSAHDPGNGKTGHPTLKDFIQIPDVYAAGRLDTDSEGLLILTDDGMLQHRLSD 67 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTLDT 181 P + + Y V+ G + L L +GI + Q + Sbjct: 68 PKRKEFKTYWVQVEGTPSTEDLEPLIRGIDLSDFVAKPAQVRLIPEPESLWLRNPPIRER 127 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + +W+ + + EGKNR+++++ + RLIR + G + + + G + + Sbjct: 128 KAIPTSWLEIKISEGKNRQVRRMTAKIGFPTLRLIRYAIGQYTIDGIQNGQHKVI 182 >gi|306519054|ref|ZP_07405401.1| putative RNA pseudouridine synthase [Clostridium difficile QCD-32g58] Length = 63 Score = 76.8 bits (187), Expect = 4e-12, Method: Composition-based stats. Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 1/61 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-STDHIEVDGVPLRKA 70 QR+ K+++ G SR E+++ Q V VNG + V D I +G + Sbjct: 3 KKQRIDKILSNLGYGSRSEIKKYCKQGSVVVNGSEVSNPGTQVDTENDEILFNGEEVIYR 62 Query: 71 E 71 E Sbjct: 63 E 63 >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 = 76.8 bits (187), Expect = 5e-12, Method: Composition-based stats. Identities = 44/182 (24%), Positives = 85/182 (46%), Gaps = 22/182 (12%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP ++ +D GR+T+ D + G LD ++EGL++LT+DG L + Sbjct: 8 LILFNKPFNVLCQFTDKSGRATLADFVDVPRV--YPAGLLDYDSEGLVVLTDDGRLQARI 65 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI------CYGDMQVTLDTQ------ 182 P + ++ Y V+ G D+ L L+ G+ ++ V + + Sbjct: 66 ADPRFKLVKTYWVQVEGVPDEAALVQLRAGVWLKDKGKREAQRTLPAAVRVIAEPPLWPR 125 Query: 183 --------KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 AW+ + +REG+NR+++++ RL+R+ G + L L +G+ + Sbjct: 126 VPPVRFRLSVPTAWLELSIREGRNRQVRRMTAAVGLPTLRLVRVQVGDWSLRGLQSGAWK 185 Query: 235 EV 236 +V Sbjct: 186 KV 187 >gi|320528439|ref|ZP_08029601.1| pseudouridine synthase, RluA family [Solobacterium moorei F0204] gi|320131353|gb|EFW23921.1| pseudouridine synthase, RluA family [Solobacterium moorei F0204] Length = 304 Score = 76.8 bits (187), Expect = 5e-12, Method: Composition-based stats. Identities = 33/247 (13%), Positives = 70/247 (28%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + + T +R+ K ++ SR V+++ + VNG + + + V++ D I Sbjct: 1 MAKQTWIVSEDTKERLDKYLSSNTELSRTRVQQLADDGMIFVNGKVAKS-SSKVVTGDEI 59 Query: 61 EVD---GVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 D P+ + + + +V + V L Sbjct: 60 SCDVPEDRPVDILPENIPLDILYEDHDIIVINKPKGMVVHPAPGNYSNTMVNALLYHCKD 119 Query: 107 RVISVGRLDI---------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 G + T ++ ND + + + Sbjct: 120 LSGINGVIRPGIVHRIDKDTTGCIVACKNDKAHEAIAKQLENKTCHRVYKTIVVGNITHD 179 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV------------GLREGKNREIKKVF 205 L+ I M+VT + + + V L G+ +I+ Sbjct: 180 DGLIDAPIGRDPRDRQRMKVTEENSRDARTHFHVLERFNVATYLECRLETGRTHQIRAHM 239 Query: 206 EFFNWKV 212 ++ N V Sbjct: 240 KYINHPV 246 >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 = 76.8 bits (187), Expect = 5e-12, Method: Composition-based stats. Identities = 37/175 (21%), Positives = 62/175 (35%), Gaps = 17/175 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPYGTICQFSAHETRASLATWVNVPDVYPAGRLDADSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---------------TQKGS 185 ++ Y + G L L++G+ + + Sbjct: 67 LVKRYWAQLDGAAPASALAALERGVDLGDYVSRPCRARFIEPPSGLWQRDPPVRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSK 238 W+ + L EG+NR+++++ + RLIR+ G L L G R + Sbjct: 127 TTWIELALGEGRNRQVRRMTAAVGFPTLRLIRVGIGALDLFALGLAPGQWRALPP 181 >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 = 76.8 bits (187), Expect = 5e-12, Method: Composition-based stats. Identities = 54/177 (30%), Positives = 84/177 (47%), Gaps = 11/177 (6%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--VISVGRLDINTEGLLLLTNDGGL 130 +L + +KP G V T SD GR TV+D LP + +GRLD+ ++GLLL T DG + Sbjct: 5 KKLLVLNKPKGYVVTRSDELGRKTVYDLLPDWAFHDGWMPIGRLDLESKGLLLFTTDGKI 64 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 L P VY + G V + + K+G+ + + V G+ + Sbjct: 65 GDALTRPGNCIK-VYEIWVRGHVTDEHIAEAKRGVESKHGLLKALVVEKLGTGGAKTKLK 123 Query: 191 VGLREGKNREIKKVFEFFN-------WKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + EGKNR I+++F KV L RIS G F+L + +G R ++ + Sbjct: 124 IVIDEGKNRHIRRLFGALKDPKFGTPLKVLELKRISIGSFEL-DIESGKWRYLTVEE 179 >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 = 76.8 bits (187), Expect = 5e-12, Method: Composition-based stats. Identities = 33/186 (17%), Positives = 66/186 (35%), Gaps = 19/186 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDN--LPSIFSRVISVGRLDINTEGLLLLTNDG 128 + +Y L S+ + + + ++ +GRLD +EGLLLLT DG Sbjct: 5 QHIHYKMYKPYGVLSQLASNDNNQVKKKFLSEFYNFPQGIMPIGRLDEKSEGLLLLTTDG 64 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--------------- 173 L+ + + ++ + I + G Y Sbjct: 65 KLSDTINRAGIEKEYYAQLDGIITNEALHKIEKGVVIGLNGTTYTTKTCIVKHIETPKNI 124 Query: 174 --DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + N+W+++ + EGK R+++K+ + RL+R+ L L G Sbjct: 125 PEPSTKIRLGRHRPNSWISICITEGKFRQVRKMTAAVGFPTLRLVRVRIHNITLDNLTLG 184 Query: 232 STREVS 237 + ++ Sbjct: 185 AVTPIN 190 >gi|303257043|ref|ZP_07343057.1| ribosomal large subunit pseudouridine synthase D [Burkholderiales bacterium 1_1_47] gi|302860534|gb|EFL83611.1| ribosomal large subunit pseudouridine synthase D [Burkholderiales bacterium 1_1_47] Length = 394 Score = 76.4 bits (186), Expect = 6e-12, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 76/240 (31%), Gaps = 38/240 (15%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 +R+ KV+A + SR ++ +I VKVNG +++ + D + V+ P Sbjct: 35 DGERLDKVLASSLKDISRSRLKTLIEDGLVKVNGKTVDKPKEKMSFGDEVSVEIKPRLED 94 Query: 67 -----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-----S 110 + + L + +V + + + L Sbjct: 95 MDFIATPMDIDVVYEDDDILVINKPARLVVHPAAGHWDDTLLNGLLAYNPIFRTLPRAGI 154 Query: 111 VGRLDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 V RLD +T GL+++ + + L+ + + R D+ +++ Sbjct: 155 VHRLDRDTTGLMVVAKNEKAMLDLVQQLQARTVKREYWALTRGKAPADKVIEAAIERDPR 214 Query: 167 I-------QGICYGDMQVTLDTQKGSN------AWVTVGLREGKNREIKKVFEFFNWKVN 213 +G + +WV L+ G+ +I+ E + Sbjct: 215 NPLRFTIGKGGRAKPATTHIRCIDQKEVKGKPFSWVACRLKTGRTHQIRVHMESIGLPLI 274 >gi|209554367|ref|YP_002284711.1| RluA [Ureaplasma urealyticum serovar 10 str. ATCC 33699] gi|209541868|gb|ACI60097.1| RluA [Ureaplasma urealyticum serovar 10 str. ATCC 33699] Length = 299 Score = 76.4 bits (186), Expect = 6e-12, Method: Composition-based stats. Identities = 31/242 (12%), Positives = 72/242 (29%), Gaps = 34/242 (14%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ +P+R+ K + SR +++M+ Q V VN ++ + + + D +E+ Sbjct: 2 KILYSLTSPKRIDKFLVEVTDYSRTSIKKMLEQNLVLVNDNIITKQSYLLQKNDSVEIKN 61 Query: 65 V-----------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + ++ L + LV S + + + + Sbjct: 62 EQCVIDSQKELLPFACPLEIVFEDQDLLVINKPSGMLVHPTSFQEQNTLANALKHYLKTD 121 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + L++ A V + + ++ ++ L I Sbjct: 122 DFYITHRLDKNTSGLIVICKNQKALCCLQQQFMQKTVKKSYYAIVHNRFDMHHLHFMINE 181 Query: 168 QGI---------CYGDMQV--------TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 GD + + Q + A V V + G+ +I+ N Sbjct: 182 PIGHSYQDKLRMKTGDAKNVKEAISIVKVIEQYQNTALVEVSIITGRTHQIRVHMRHINH 241 Query: 211 KV 212 + Sbjct: 242 PI 243 >gi|223043754|ref|ZP_03613797.1| ribosomal large subunit pseudouridine synthase, RluA family [Staphylococcus capitis SK14] gi|222442851|gb|EEE48953.1| ribosomal large subunit pseudouridine synthase, RluA family [Staphylococcus capitis SK14] Length = 305 Score = 76.4 bits (186), Expect = 6e-12, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 66/244 (27%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 I E QR+ K ++ + A SR +++ I + VKVN +++ V DHI V Sbjct: 7 KITDETQVGQRIDKFLSESNDAWSRSQLQDWIKEDLVKVNDKVIKS-NYKVKLNDHIIVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADIQPEDLDLDIYYEDDDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------- 155 G + + G L + + L + + Sbjct: 126 INGEIRPGIVHRIDKDTSGLLMVAKNDIAHRGLVEQLMAKSVKRKYTALVHDNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + + L G+ +I+ ++ Sbjct: 186 VDAPIGRNKNDRQAMAVVDDGKEAVTHFNVIEHFKDYTLIECELETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 YPLV 249 >gi|330999930|ref|ZP_08323628.1| ribosomal large subunit pseudouridine synthase D [Parasutterella excrementihominis YIT 11859] gi|329573337|gb|EGG54949.1| ribosomal large subunit pseudouridine synthase D [Parasutterella excrementihominis YIT 11859] Length = 409 Score = 76.4 bits (186), Expect = 7e-12, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 76/240 (31%), Gaps = 38/240 (15%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 +R+ KV+A + SR ++ +I VKVNG +++ + D + V+ P Sbjct: 50 DGERLDKVLASSLKDISRSRLKTLIEDGLVKVNGKTVDKPKEKMSFGDEVSVEIKPRLED 109 Query: 67 -----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-----S 110 + + L + +V + + + L Sbjct: 110 MDFIATPMDIDVVYEDDDILVINKPARLVVHPAAGHWDDTLLNGLLAYNPIFRTLPRAGI 169 Query: 111 VGRLDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 V RLD +T GL+++ + + L+ + + R D+ +++ Sbjct: 170 VHRLDRDTTGLMVVAKNEKAMLDLVQQLQARTVKREYWALTRGKAPADKVIEAAIERDPR 229 Query: 167 I-------QGICYGDMQVTLDTQKGSN------AWVTVGLREGKNREIKKVFEFFNWKVN 213 +G + +WV L+ G+ +I+ E + Sbjct: 230 NPLRFTIGKGGRAKPATTHIRCIDQKEVKGKPFSWVACRLKTGRTHQIRVHMESIGLPLI 289 >gi|319789350|ref|YP_004150983.1| pseudouridine synthase, RluA family [Thermovibrio ammonificans HB-1] gi|317113852|gb|ADU96342.1| pseudouridine synthase, RluA family [Thermovibrio ammonificans HB-1] Length = 314 Score = 76.4 bits (186), Expect = 7e-12, Method: Composition-based stats. Identities = 33/240 (13%), Positives = 66/240 (27%), Gaps = 37/240 (15%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPL 67 QR+ + +A A SR + + +I + VKVNG +++ A V + +E + P+ Sbjct: 6 TQKQRLDQFVAEAAQISRSQAKEIIEKGLVKVNGKTVQKPAYKVKEGERVEFEVPEPEPI 65 Query: 68 R-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISV 111 ++ + + +V + V L + Sbjct: 66 EVKPEAIPLEVIYEDQDVIVINKPAGMVVHPAPGHYSGTLVNALLHHCKDLGGIGGALRP 125 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 G + + L + Q+ RF+ + IV+ Sbjct: 126 GIVHRLDKDTAGLIVVAKNDLAQQSLIEQFKNRSVGRFYRALIYGIPKREHDRIVLPIGR 185 Query: 172 YGDMQVTLDTQKGS------NAWV------------TVGLREGKNREIKKVFEFFNWKVN 213 + S N WV L G+ +I+ + Sbjct: 186 DKFDRKKFSPNTTSPKEAITNYWVIEKFPEHNVAEIKCKLETGRTHQIRVHMSNLGHPLL 245 >gi|255523817|ref|ZP_05390782.1| RNA-binding S4 domain protein [Clostridium carboxidivorans P7] gi|255512520|gb|EET88795.1| RNA-binding S4 domain protein [Clostridium carboxidivorans P7] Length = 87 Score = 76.4 bits (186), Expect = 7e-12, Method: Composition-based stats. Identities = 14/87 (16%), Positives = 32/87 (36%), Gaps = 1/87 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K +A + + R+ V I + ++VNG ++ ++++ D I+ G + + Sbjct: 1 MRLDKFLAESSVGRRKIVRIYIKEGLIEVNGEVITEPSMDINENSDVIKYLGKVVSYTGK 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFD 99 + VF Sbjct: 61 VYYMFNKPAGCITARKDKDHRTVFVFF 87 >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 = 76.4 bits (186), Expect = 7e-12, Method: Composition-based stats. Identities = 36/177 (20%), Positives = 68/177 (38%), Gaps = 14/177 (7%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L + V GRLD ++EGLLLL +DG L + Sbjct: 5 LLFNKPFGVLSQFTDRGSPTVRSTLSDFIAVKGVYPAGRLDRDSEGLLLLCDDGRLQARI 64 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------------VTLD 180 P + + Y V+ G + +L L++G+ ++ Sbjct: 65 ADPRFKMPKTYLVQVEGDPQEPELERLRQGVQLKDGMTLPADVARIDEPDLWLRDPPIRQ 124 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + W+ + +REG+NR+++++ RL+R S G + + + G ++S Sbjct: 125 RKAIPDNWLKLTIREGRNRQVRRMTAAVGLPTLRLVRWSIGDWSVAGIAPGRFEQLS 181 >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 = 76.4 bits (186), Expect = 7e-12, Method: Composition-based stats. Identities = 41/182 (22%), Positives = 72/182 (39%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D V GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGD--WVKTPSVYPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPHHKLVKRYWAQVDGAPGPADLKALTRGVDLGDYVTRPCRAEFIEPPDALWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|229162828|ref|ZP_04290785.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus R309803] gi|228620710|gb|EEK77579.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus R309803] Length = 302 Score = 76.4 bits (186), Expect = 7e-12, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 63/241 (26%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG +++ V + D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKVVK-GNYKVKANDEITVTI 66 Query: 63 ------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D P + + L + +V + V + Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---------- 160 G + + G L + + L V + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 161 ----------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V + + + V L G+ +I+ ++ + Sbjct: 187 DAPIGRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|293363941|ref|ZP_06610677.1| pseudouridine synthase, RluA family [Mycoplasma alligatoris A21JP2] gi|292552431|gb|EFF41205.1| pseudouridine synthase, RluA family [Mycoplasma alligatoris A21JP2] Length = 312 Score = 76.0 bits (185), Expect = 7e-12, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 64/239 (26%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE----VDGVP--- 66 +R+ K I+ SR +++ +I Q+ V VN I++ + +V I +D Sbjct: 10 ERIDKYISNNSEISRNDIKSLIEQKAVLVNDIVVNKPKFSVNEGQVITILKLIDKEIKIE 69 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN-- 117 + + L L +V + V L + + + L Sbjct: 70 AQNIDLDIAYEDEYLLVLKKPSGMVVHPAPGHHENTLVNALLYHFKNNLSNENGLLRPGI 129 Query: 118 ------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV----I 167 LLL + + R K LK + I Sbjct: 130 VHRIDKDTSGLLLIAKNNEVHKILAEGFATKTINRKYVAICDGILKSPKLKLDLPIGRDI 189 Query: 168 QGICYGDMQVT--------------LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + V L G+ +I+ + V Sbjct: 190 KNRQLMAITNANSKSAVTHLELLKSFYYENQPKSLVKATLETGRTHQIRVHCAYIKNPV 248 >gi|213419764|ref|ZP_03352830.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 59 Score = 76.0 bits (185), Expect = 7e-12, Method: Composition-based stats. Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 1/54 (1%) Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 V + + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 2 VRLTISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 55 >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 = 76.0 bits (185), Expect = 7e-12, Method: Composition-based stats. Identities = 22/115 (19%), Positives = 43/115 (37%), Gaps = 4/115 (3%) Query: 169 GICYGDMQVTLDTQKG--SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP-FQL 225 G + + + V++ + EGKNR+I+++F V RL R G L Sbjct: 171 GGTTRPVDELIVKTNPTLKSTLVSLTICEGKNRQIRRMFHALGSGVIRLCRTQIGRSLTL 230 Query: 226 GTL-LAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVP 279 ++ +AG R +++K + L +V+ + + V Sbjct: 231 SSVPMAGQWRILTEKEVETALDWRPRYIGEVSALSRAGKTTKAVTGTSRRRKRSN 285 >gi|330685506|gb|EGG97159.1| pseudouridine synthase, RluA family [Staphylococcus epidermidis VCU121] Length = 305 Score = 76.0 bits (185), Expect = 8e-12, Method: Composition-based stats. Identities = 30/243 (12%), Positives = 65/243 (26%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I N QR+ KV+ SR +++ I + VKVN +++ V D+I V Sbjct: 8 ITDSNHVGQRLDKVLPELNSGWSRSQIQDWIKEDLVKVNDKVVK-PNYKVKQNDNIVVTE 66 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + +Y +V + V + I + Sbjct: 67 QEVVEADITPENLNLDIFYEDDDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKNLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ--- 155 G + + + G L + + + V + D Sbjct: 127 NGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMAKSVKRKYIALVHGNIPHDYGTV 186 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V+ + + L G+ +I+ ++ + Sbjct: 187 DAPIGRNKKDRQAMAVVDDGKEAVTHFNVLEHFKDYTLIECELETGRTHQIRVHMKYIGF 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|257087008|ref|ZP_05581369.1| pseudouridylate synthase [Enterococcus faecalis D6] gi|256995038|gb|EEU82340.1| pseudouridylate synthase [Enterococcus faecalis D6] Length = 301 Score = 76.0 bits (185), Expect = 8e-12, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 70/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + V L Sbjct: 59 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >gi|260583810|ref|ZP_05851558.1| ribosomal large subunit pseudouridine synthase D [Granulicatella elegans ATCC 700633] gi|260158436|gb|EEW93504.1| ribosomal large subunit pseudouridine synthase D [Granulicatella elegans ATCC 700633] Length = 301 Score = 76.0 bits (185), Expect = 8e-12, Method: Composition-based stats. Identities = 36/250 (14%), Positives = 77/250 (30%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENF--TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M++K I +R+ K++ + +R +++ + V VNG +++ A D Sbjct: 1 MENKIIELTLSLEKSERLDKILTKELSHTRSVIQQWLKSGFVSVNGEVVK-ANYKAKDGD 59 Query: 59 HIEVDGV--------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS- 103 H+ + + + L + +V + V L Sbjct: 60 HVTIQIEEEEELTVLAENIPLEIVFEDEHLLVINKPSGMVVHPSKGHSTGTLVNALLYHV 119 Query: 104 -------IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------------- 143 R V R+D +T GLL++ L Sbjct: 120 DQLSKGSESYRPGIVHRIDKDTSGLLVVAKTPQAHVGLSNQLMDHSMTRSYVAIVEGSFE 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +D N LK+ + +G T+ + + + L G+ +I+ Sbjct: 180 HITGTVDAPLARDPHNRLKRCVQKEGKQA-ITHFTVIQALKETSVLRLNLETGRTHQIRA 238 Query: 204 VFEFFNWKVN 213 +F + + Sbjct: 239 HMDFIHHPIL 248 >gi|256964973|ref|ZP_05569144.1| pseudouridylate synthase [Enterococcus faecalis HIP11704] gi|256955469|gb|EEU72101.1| pseudouridylate synthase [Enterococcus faecalis HIP11704] gi|295113102|emb|CBL31739.1| ribosomal large subunit pseudouridine synthase D [Enterococcus sp. 7L76] Length = 301 Score = 76.0 bits (185), Expect = 8e-12, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 59 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >gi|330956144|gb|EGH56404.1| ribosomal large subunit pseudouridine synthase B [Pseudomonas syringae Cit 7] Length = 75 Score = 76.0 bits (185), Expect = 8e-12, Method: Composition-based stats. Identities = 29/71 (40%), Positives = 39/71 (54%), Gaps = 2/71 (2%) 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 EVDGVPLRKAE 71 VDG +++ E Sbjct: 63 SVDGRVIKREE 73 >gi|270308540|ref|YP_003330598.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Dehalococcoides sp. VS] gi|270154432|gb|ACZ62270.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Dehalococcoides sp. VS] Length = 302 Score = 76.0 bits (185), Expect = 9e-12, Method: Composition-based stats. Identities = 36/248 (14%), Positives = 69/248 (27%), Gaps = 39/248 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + ++ E +R+ K IA+ SR ++ +I V+VNG + ++ + + D Sbjct: 3 VKTRRLIAE-SDGERLDKYIAQKETDLSRSFIQALIDSGHVQVNGKTAK-PSLKLKNGDT 60 Query: 60 IEVDGVPLRKAERTR--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I ++ P E L + P V + + L Sbjct: 61 ITIEISPETPPELKAEDIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLINGVLALEP 120 Query: 106 SRVISVGR---------------------LDINTEGLLLLTNDGGLARVLELPSTQWLRV 144 L + + + L Sbjct: 121 KMEDFDDPLRPGIVHRLDKDTSGLLLVAKNRETLANLSAQFKERTVRKYYLTLVKGELHP 180 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + +D N K +V G L +G + + V L G+ +I+ Sbjct: 181 AEGFIEAPLGRDPQNRQKIAVVSNGRHARTGYKVLRYIQG-YSLLEVKLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 F V Sbjct: 240 FAAIGHPV 247 >gi|303231392|ref|ZP_07318126.1| pseudouridine synthase, RluA family [Veillonella atypica ACS-049-V-Sch6] gi|302513988|gb|EFL55996.1| pseudouridine synthase, RluA family [Veillonella atypica ACS-049-V-Sch6] Length = 305 Score = 76.0 bits (185), Expect = 9e-12, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 65/248 (26%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + + E +R+ + SR ++ +I V VNG + +A + + + I Sbjct: 1 MNEYKVSLE-QEGKRLDVFLTDVMEGSRSYIQSLIKSGHVLVNGKV-GKANLRLNADSTI 58 Query: 61 EVD------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 VD +P+ + + + +V + V L Sbjct: 59 SVDIPEPESVEILPEDIPVEYLYEDHDIIIVNKPRGMVVHPAIGNYSGTLVNALLYHCKD 118 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G + L G + + L + Sbjct: 119 LSGINGEIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAEQVKAHSAKRTYLALVQGNIVEE 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + +K +V + + + G + V L G+ +I+ F Sbjct: 179 KGIIKAPIGRHPKDRMKMAVVFENSKEAVTHFKVLERYGYHTLVECVLETGRTHQIRVHF 238 Query: 206 EFFNWKVN 213 V Sbjct: 239 AHIGHPVV 246 >gi|257416242|ref|ZP_05593236.1| pseudouridylate synthase [Enterococcus faecalis AR01/DG] gi|257158070|gb|EEU88030.1| pseudouridylate synthase [Enterococcus faecalis ARO1/DG] Length = 301 Score = 76.0 bits (185), Expect = 9e-12, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 59 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKSDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDTFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >gi|308173508|ref|YP_003920213.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7] gi|307606372|emb|CBI42743.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7] gi|328553560|gb|AEB24052.1| pseudouridylate synthase [Bacillus amyloliquefaciens TA208] gi|328911647|gb|AEB63243.1| pseudouridylate synthase [Bacillus amyloliquefaciens LL3] Length = 304 Score = 76.0 bits (185), Expect = 9e-12, Method: Composition-based stats. Identities = 33/248 (13%), Positives = 71/248 (28%), Gaps = 38/248 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M I VQ +R+ K +A G SR +V++ + + V VNG ++ A + D Sbjct: 1 MNQFEITVQPEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSVK-ANYKMQPGD 59 Query: 59 HI--------EVD------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + E+D + + ++ L + +V + V + Sbjct: 60 QVNVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR--------------------- 143 G + + G L + + L Sbjct: 120 NDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGVIS 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +DK + + +G + + V L G+ +I+ Sbjct: 180 HDDGTIDAPIGRDKKDRQSMTVTREGSKNAVTHFHVLERFQDFTLVECRLETGRTHQIRV 239 Query: 204 VFEFFNWK 211 ++ + Sbjct: 240 HMKYIGFP 247 >gi|317969165|ref|ZP_07970555.1| pseudouridine synthase [Synechococcus sp. CB0205] Length = 178 Score = 76.0 bits (185), Expect = 9e-12, Method: Composition-based stats. Identities = 39/146 (26%), Positives = 60/146 (41%), Gaps = 20/146 (13%) Query: 122 LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ----- 176 +LLT++G L + L PS R Y + G +D LN L+ G+VIQG Q Sbjct: 1 MLLTSNGRLQQRLTDPSWGHWRRYWSQVEGVPSEDALNALRSGLVIQGQRTLPAQAQALQ 60 Query: 177 ---------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------ 221 Q +W+ + LREG+NR+++++ RL+R++ Sbjct: 61 DPGWPERDPPIRVRQSIPTSWLQLELREGRNRQVRRMTAAVGLPTLRLLRVAMDLMDGGP 120 Query: 222 PFQLGTLLAGSTREVSKKILREQLGP 247 P L L G R V+ R Sbjct: 121 PLSLDGLAPGQWRSVNDDEDRRLQSL 146 >gi|228998673|ref|ZP_04158260.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides Rock3-17] gi|228761141|gb|EEM10100.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides Rock3-17] Length = 302 Score = 76.0 bits (185), Expect = 9e-12, Method: Composition-based stats. Identities = 33/243 (13%), Positives = 62/243 (25%), Gaps = 40/243 (16%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A G+ SR +V++ I V VNG ++ V D I V Sbjct: 8 TVTEEQKSERIDKFLA--GVNNEWSRSQVQQWIKDGVVTVNGNAIK-GNYKVKVNDEIAV 64 Query: 63 ---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D L + L + +V + V + Sbjct: 65 AIPDPEELDILPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------ 156 G + + G L + + L V Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIGRDKKDRQSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYI 244 Query: 209 NWK 211 + Sbjct: 245 GYP 247 >gi|120436300|ref|YP_861986.1| pseudouridylate synthase [Gramella forsetii KT0803] gi|117578450|emb|CAL66919.1| pseudouridylate synthase [Gramella forsetii KT0803] Length = 194 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 43/190 (22%), Positives = 73/190 (38%), Gaps = 20/190 (10%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDG 128 R + +KP G ++ L +S+GRLD ++EGLLLLT +G Sbjct: 5 YHRHFKIYKPYGYLSQFITNQKPGGKHKLLGDLYDFPEGTMSIGRLDKDSEGLLLLTTNG 64 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--------------- 173 L+ + + +V + I I G Y Sbjct: 65 KLSTKINRGGIEKEYYAQVDGDITDEAMIKLQNGVEISIFGKAYKSLKCKAEKLKNRPSF 124 Query: 174 --DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + D + G +W+++ L EGK R++KK+ + RL+R+ G + + AG Sbjct: 125 PERAKKIRDERHGPTSWISISLTEGKFRQVKKMTSAVGFPTLRLVRVRIGNETIKNMDAG 184 Query: 232 STREVSKKIL 241 E++K L Sbjct: 185 EVIELNKVDL 194 >gi|303229468|ref|ZP_07316258.1| pseudouridine synthase, RluA family [Veillonella atypica ACS-134-V-Col7a] gi|302516004|gb|EFL57956.1| pseudouridine synthase, RluA family [Veillonella atypica ACS-134-V-Col7a] Length = 305 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 65/248 (26%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + + E +R+ + SR ++ +I V VNG + +A + + + I Sbjct: 1 MNEYKVSLE-QEGKRLDVFLTDVMEGSRSYIQSLIKSGHVLVNGKV-GKANLRLNADSTI 58 Query: 61 EVD------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 VD +P+ + + + +V + V L Sbjct: 59 SVDIPEPESVEILPEDIPVEYLYEDHDIIIVNKPRGMVVHPAIGNYSGTLVNALLYHCKD 118 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G + L G + + L + Sbjct: 119 LSGINGEIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAEQVKAHSAKRTYLALVQGNIVEE 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + +K +V + + + G + V L G+ +I+ F Sbjct: 179 KGIIKAPIGRHPKDRMKMAVVFENSKEAVTHFKVLERYGYHTLVECVLETGRTHQIRVHF 238 Query: 206 EFFNWKVN 213 V Sbjct: 239 AHIGHPVV 246 >gi|260221244|emb|CBA29613.1| Ribosomal large subunit pseudouridine synthase D [Curvibacter putative symbiont of Hydra magnipapillata] Length = 335 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 72/239 (30%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 +R+ + +A SR ++++I V+VNG ++ + + V + + V+ P Sbjct: 33 GERLDRALAFSVQEFSRSYLQQLIESGFVQVNGKVVTKTSGKVKVGEELTVELKPTPQSQ 92 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV----- 111 + + L + +V + + L + Sbjct: 93 AFKPEPMALDVVHEDEHVLVINKPAGLVVHPAPGNWSGTLLNGLLAYSPHAALVPRAGIV 152 Query: 112 GRLDINTEGLLLLTNDGGLA--------------RVLELPSTQWLRVYRVRFHGQVDQDK 157 RLD +T GL+++ + + W + +D Sbjct: 153 HRLDKDTSGLMVVARSRTAMDALVNAIAAREVSRQYFAIAHKTWPWTRLKEVDAPIGRDP 212 Query: 158 LNLLKKGI---VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N L+ + V Q +L + WV L G+ +I+ + Sbjct: 213 RNRLRMAVVDLVHQSGKEARTDFSLISNSQVACWVRCILHTGRTHQIRVHMAHIGHPLV 271 >gi|15606824|ref|NP_214204.1| hypothetical protein aq_1758 [Aquifex aeolicus VF5] gi|3915479|sp|O67638|Y1758_AQUAE RecName: Full=Uncharacterized RNA pseudouridine synthase aq_1758; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2984062|gb|AAC07603.1| hypothetical protein aq_1758 [Aquifex aeolicus VF5] Length = 316 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 32/252 (12%), Positives = 66/252 (26%), Gaps = 39/252 (15%) Query: 1 MKDKNIVQENFTPQ--RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK +++ + R+ K +ARA SR +++++ + V VNG + + + + Sbjct: 1 MKISEVLEFKVEGEEERLDKFLARAYPDFSRSYIKKLVKEGLVYVNGEEVRKPSRKLREG 60 Query: 58 DHIEV---DGVPLRKAERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPS 103 + + + + PL +V + V L Sbjct: 61 ERVILHVPEPEPLDVKPENIPINIIYEDEDIAVVEKPCGLVVHPSPGYTSGTLVNALLYH 120 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 I G L G + + + L + L Sbjct: 121 IKDLSSIGGVERPGIVHRLDKETAGVMVIAKNNTAHRNLVRQFQERKTEKFYKVLVKGLV 180 Query: 164 GIVIQGICYGDMQVTLD----------------------TQKGSNAWVTVGLREGKNREI 201 I + +D +K + V + G+ +I Sbjct: 181 KKDYGAIDTPIARHPVDRKRFWVRKEGKEALTEYWVLKRYEKYEITLLKVKIHTGRTHQI 240 Query: 202 KKVFEFFNWKVN 213 + F V Sbjct: 241 RVHFASIGHPVL 252 >gi|156103349|ref|XP_001617367.1| RNA pseudouridylate synthase [Plasmodium vivax SaI-1] gi|148806241|gb|EDL47640.1| RNA pseudouridylate synthase, putative [Plasmodium vivax] Length = 483 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 39/247 (15%), Positives = 84/247 (34%), Gaps = 33/247 (13%) Query: 22 RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD--GVPLRKAERTRLWLY 78 G+ S R + + ++VNG ++ + V++ D +E+ G L + + + L Sbjct: 238 HEGLCSSRFAFNNLRRGIIQVNGQVVFQ-NVSISPGKDRVELTKAGRELLRNKNVTIILN 296 Query: 79 HKPIG------------------------LVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + + +++ GRL Sbjct: 297 KPKYYLSILNDHKTNKKLLARNLIRNENKFIEEEHKCMSYFINRNLNIEKVNKLYVCGRL 356 Query: 115 DINTEGLLLLTNDGGLARVL-ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 D N+ GLL+ T + + L + Y V +++ + L++ ++ G Sbjct: 357 DANSTGLLVFTQNTLICSYLLNRYKYLVEKEYIVEAADPIEEVHMKRLRENALVDGKLIY 416 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 ++ ++ L +G ++ I+K+ N K+ L R+ G L L G Sbjct: 417 KCRIQYV----DCFTLSFTLYQGFHKIIRKLCLLSNIKIRALHRVRIGGIHLKGLPLGKW 472 Query: 234 REVSKKI 240 R + Sbjct: 473 RFLMPNE 479 >gi|169824338|ref|YP_001691949.1| pseudouridylate synthase [Finegoldia magna ATCC 29328] gi|167831143|dbj|BAG08059.1| pseudouridylate synthase [Finegoldia magna ATCC 29328] Length = 307 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 40/245 (16%), Positives = 81/245 (33%), Gaps = 33/245 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + ++ ++ R+ +A SR E+++ I ++V VN ++ + S D I Sbjct: 1 MIYEFLIDDSNQNTRLDVFLANEVELSRSEIQKFIEDKKVLVNYKPQKK-NYKLNSNDKI 59 Query: 61 EVD----GVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 + D +R E L + +K ++ ++ T+ + L F Sbjct: 60 KFDYEKEDKTIRAQKHDLDVVYEDDYLAIINKDKDVIVHPTETIYSDTLVNYLMYNFKNL 119 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R V RLD +T GL+++ D L+ + D Sbjct: 120 SDVDGDYRRGIVHRLDKDTTGLIIIAKDNDTHLKLKEIIKNHEIIKTYLCIVHGKIDESG 179 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 KK +V Q + V V ++ G+ +I+ + Sbjct: 180 TIKEYMTRNPKDRKKMMVSDEGKLSISQYERLDYNDDYSLVKVQIKTGRTHQIRVHMNYI 239 Query: 209 NWKVN 213 + + Sbjct: 240 HHPIL 244 >gi|284007320|emb|CBA72674.1| ribosomal large subunit pseudouridine synthase E [Arsenophonus nasoniae] Length = 90 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 17/88 (19%), Positives = 34/88 (38%), Gaps = 15/88 (17%) Query: 165 IVIQGICYGDMQ---------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 ++++ + + +W+ + L EG+NR+I+++ Sbjct: 1 MLLKDGMTKPAKAELVAEPDWLWPRHPPIRIRKNIPTSWLKISLSEGRNRQIRRMTANIG 60 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVS 237 + RLI S FQL L G +E+ Sbjct: 61 FPTLRLILYSIANFQLDNLQPGEWKEID 88 >gi|256619215|ref|ZP_05476061.1| pseudouridylate synthase [Enterococcus faecalis ATCC 4200] gi|256853277|ref|ZP_05558647.1| pseudouridylate synthase [Enterococcus faecalis T8] gi|300860210|ref|ZP_07106297.1| pseudouridine synthase, RluA family [Enterococcus faecalis TUSoD Ef11] gi|256598742|gb|EEU17918.1| pseudouridylate synthase [Enterococcus faecalis ATCC 4200] gi|256711736|gb|EEU26774.1| pseudouridylate synthase [Enterococcus faecalis T8] gi|300849249|gb|EFK76999.1| pseudouridine synthase, RluA family [Enterococcus faecalis TUSoD Ef11] Length = 301 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 59 IVVTIPEPEALDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >gi|257082401|ref|ZP_05576762.1| pseudouridylate synthase [Enterococcus faecalis E1Sol] gi|256990431|gb|EEU77733.1| pseudouridylate synthase [Enterococcus faecalis E1Sol] Length = 301 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 59 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINTPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >gi|227553528|ref|ZP_03983577.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|255972642|ref|ZP_05423228.1| pseudouridylate synthase [Enterococcus faecalis T1] gi|255975694|ref|ZP_05426280.1| pseudouridylate synthase [Enterococcus faecalis T2] gi|256762651|ref|ZP_05503231.1| pseudouridylate synthase [Enterococcus faecalis T3] gi|256961775|ref|ZP_05565946.1| pseudouridylate synthase [Enterococcus faecalis Merz96] gi|257079163|ref|ZP_05573524.1| pseudouridylate synthase [Enterococcus faecalis JH1] gi|257085033|ref|ZP_05579394.1| pseudouridylate synthase [Enterococcus faecalis Fly1] gi|257419447|ref|ZP_05596441.1| pseudouridylate synthase [Enterococcus faecalis T11] gi|257422461|ref|ZP_05599451.1| pseudouridylate synthase [Enterococcus faecalis X98] gi|294779380|ref|ZP_06744781.1| pseudouridine synthase, RluA family [Enterococcus faecalis PC1.1] gi|227177333|gb|EEI58305.1| pseudouridylate synthase [Enterococcus faecalis HH22] gi|255963660|gb|EET96136.1| pseudouridylate synthase [Enterococcus faecalis T1] gi|255968566|gb|EET99188.1| pseudouridylate synthase [Enterococcus faecalis T2] gi|256683902|gb|EEU23597.1| pseudouridylate synthase [Enterococcus faecalis T3] gi|256952271|gb|EEU68903.1| pseudouridylate synthase [Enterococcus faecalis Merz96] gi|256987193|gb|EEU74495.1| pseudouridylate synthase [Enterococcus faecalis JH1] gi|256993063|gb|EEU80365.1| pseudouridylate synthase [Enterococcus faecalis Fly1] gi|257161275|gb|EEU91235.1| pseudouridylate synthase [Enterococcus faecalis T11] gi|257164285|gb|EEU94245.1| pseudouridylate synthase [Enterococcus faecalis X98] gi|294453509|gb|EFG21910.1| pseudouridine synthase, RluA family [Enterococcus faecalis PC1.1] gi|323480881|gb|ADX80320.1| pseudouridine synthase, RluA family protein [Enterococcus faecalis 62] Length = 301 Score = 75.6 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 59 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >gi|257090036|ref|ZP_05584397.1| pseudouridylate synthase [Enterococcus faecalis CH188] gi|256998848|gb|EEU85368.1| pseudouridylate synthase [Enterococcus faecalis CH188] Length = 301 Score = 75.2 bits (183), Expect = 1e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 59 IVVTIPEPEVLDMIAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >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 = 75.2 bits (183), Expect = 1e-11, Method: Composition-based stats. Identities = 41/191 (21%), Positives = 76/191 (39%), Gaps = 19/191 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YAAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KKILREQLGPH 248 + + P Sbjct: 181 PRAPWDGFAPA 191 >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 = 75.2 bits (183), Expect = 1e-11, Method: Composition-based stats. Identities = 43/187 (22%), Positives = 75/187 (40%), Gaps = 20/187 (10%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---SIFSRVISVGRLDINTEGLLLLTNDG 128 R + +KP G ++ + L + ++VGRLD ++EGLLLLT +G Sbjct: 1 MHRYFKIYKPYGYLSQFITNEKPRKKKKLLGELGNFPEETMAVGRLDQDSEGLLLLTTNG 60 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG--------------- 173 + + S + +V + L I I G Y Sbjct: 61 KESARITGSSVEKEYYVQVDGEITEEAIALLKNGVEISINGTKYRSLPCKAFKLYTRPVF 120 Query: 174 --DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAG 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|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 = 75.2 bits (183), Expect = 1e-11, Method: Composition-based stats. Identities = 34/154 (22%), Positives = 62/154 (40%), Gaps = 17/154 (11%) Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 L + +S+GRLD +EGLLLLT DG ++ + + + +V Sbjct: 39 LYNFPEGTMSIGRLDEMSEGLLLLTTDGKVSAAVTSSKYEKEYIVQVSGDITEGAINEMR 98 Query: 161 LKKGIVIQGIC--YGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKK 203 I I G + ++ G +W+++ +REGK R+++K Sbjct: 99 NGLTIPINGKQYDTKPCTAFKLNKTPQFPERQKAIRSSRHGETSWLSISIREGKFRQVRK 158 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVS 237 + + RL+RI G + L + G ++ Sbjct: 159 MTAKVGFPTLRLVRIRIGNYHLEDMQPGQVAPIN 192 >gi|157692226|ref|YP_001486688.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] gi|157680984|gb|ABV62128.1| pseudouridylate synthase [Bacillus pumilus SAFR-032] Length = 304 Score = 75.2 bits (183), Expect = 1e-11, Method: Composition-based stats. Identities = 33/248 (13%), Positives = 73/248 (29%), Gaps = 38/248 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M NI V E T +R+ K ++ + SR +V++ + ++VNG ++ A V + D Sbjct: 1 MNQVNIAVSEEQTSERLDKFLSTSEPEWSRTQVQQWVKDGLIEVNGKQVK-ANYKVQAGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I+V+ P + + L + +V + V + Sbjct: 60 QIKVEIPEPEALDVEAEAMDLDIYYEDADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------R 143 G + + G L + + L + Sbjct: 120 TDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRKYTAVVHGIIQ 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +DK + + + + + V L G+ +I+ Sbjct: 180 HDTGTIDAPIGRDKKDRQSMTVTKESSKQAVTHFDVIERFDDFTVVECRLETGRTHQIRV 239 Query: 204 VFEFFNWK 211 ++ + Sbjct: 240 HMKYIGYP 247 >gi|332686651|ref|YP_004456425.1| ribosomal large subunit pseudouridine synthase D [Melissococcus plutonius ATCC 35311] gi|332370660|dbj|BAK21616.1| ribosomal large subunit pseudouridine synthase D [Melissococcus plutonius ATCC 35311] Length = 302 Score = 75.2 bits (183), Expect = 1e-11, Method: Composition-based stats. Identities = 30/247 (12%), Positives = 73/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M++ ++ T R+ KV++ IA SR ++++ + V+VN +++ A V D Sbjct: 1 MENIKLIITEKTIGRIDKVLSEELIAYSRSQIQQWLKDSLVRVNNKVVK-ANYKVQPADE 59 Query: 60 IEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + P + ++ + + +V + + V L I Sbjct: 60 VIIQLPKPKMMVVSPENIPLDIVYEDQDVVVINKPQGMVVHPSAGHFKGTMVHALLYHIK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQV 153 + + G L + + + V Sbjct: 120 DLSSINDVIRPGIVHRIDKDTSGLLIVAKNNQAHEALAKQLKDKTILRKYIALVHGEVPH 179 Query: 154 DQ--------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +Q K +I+ + + + + L G+ +I+ Sbjct: 180 EQGTIDAPIGRSKTNRKMQAIIKDGRSAVTHFKVLEKFTGYTLIELQLETGRTHQIRVHM 239 Query: 206 EFFNWKV 212 ++ V Sbjct: 240 KYIGHPV 246 >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 = 75.2 bits (183), Expect = 1e-11, Method: Composition-based stats. Identities = 41/182 (22%), Positives = 74/182 (40%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDALWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + TL G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFTLGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|258515575|ref|YP_003191797.1| pseudouridine synthase, RluA family [Desulfotomaculum acetoxidans DSM 771] gi|257779280|gb|ACV63174.1| pseudouridine synthase, RluA family [Desulfotomaculum acetoxidans DSM 771] Length = 305 Score = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 33/249 (13%), Positives = 71/249 (28%), Gaps = 37/249 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK N + QR+ ++ SR +++R+IAQ V++NG + A + D+ Sbjct: 1 MKTINHYADPEIGQRLDVYLSNCYPDISRSQLQRLIAQGLVEINGKKVA-AKYKIKPGDY 59 Query: 60 I----------EVDGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V+ + + + + +V + V L Sbjct: 60 INLTIPDPVGVSVEAENIALDIYFEDEDVIVINKPRGMVVHPAEGNYTGTMVNALLYHCR 119 Query: 106 SRVISVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRV 144 G L L + R L+ Sbjct: 120 DLSGINGVLRPGIVHRLDKDTSGLLMVAKNDLAHNNLAAQLEKRLVNRRYLALVHGNLKQ 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + +D + K + + + + G + + L G+ +I+ Sbjct: 180 DAGTVDAPIGRDACSRQKMAVTDRNSRSAVTHFKVLKRFGRYTLLELKLETGRTHQIRVH 239 Query: 205 FEFFNWKVN 213 ++ ++V Sbjct: 240 MKYIGYQVV 248 >gi|307730777|ref|YP_003908001.1| pseudouridine synthase [Burkholderia sp. CCGE1003] gi|307585312|gb|ADN58710.1| pseudouridine synthase [Burkholderia sp. CCGE1003] Length = 189 Score = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 36/173 (20%), Positives = 65/173 (37%), Gaps = 17/173 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSAHETRASLADWVSVPGVYPAGRLDSDSEGLLLLTDDGALQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ---------------VTLDTQKGS 185 ++ Y + G VD L L +G+ + + Sbjct: 67 LVKRYWAQVEGAVDAAALKKLARGVDLGDYVTKPCRADYVDPADRLWPRTPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREV 236 W+ + + EGKNR+++++ + RL+R+ G + L+ G + ++ Sbjct: 127 TTWIELSIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGLMPGESVDL 179 >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 = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 2/114 (1%) Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 +DI+T GL+LLT+DG + + P + Y V V+ ++KGI+++G Sbjct: 1 MDIDTTGLVLLTDDGQWSHRVTSPKHLCDKTYLVTLADPVEDFYQAEIEKGILLRGEKTP 60 Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 TL+ N V + + EG+ ++K++F KV L R G L Sbjct: 61 TKPATLEILDDYN--VNLTISEGRYHQVKRMFAALGNKVVDLHRWKIGVIMLDD 112 >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 = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 40/182 (21%), Positives = 73/182 (40%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDALWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|329769635|ref|ZP_08261039.1| hypothetical protein HMPREF0433_00803 [Gemella sanguinis M325] gi|328838390|gb|EGF87999.1| hypothetical protein HMPREF0433_00803 [Gemella sanguinis M325] Length = 299 Score = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 33/247 (13%), Positives = 74/247 (29%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ K I+ + +R+ K + SR ++ +I++ +KV+G ++ + ++ Sbjct: 1 METKEIIYASPKSERIDKFLQNELSDLSRTNIQNLISEGYIKVDGNTVKT-NYKLKESNV 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I +D + + L + +V + + V L Sbjct: 60 ITIDYKEPEELDVVKQDIPVDIVYEDNDLLIVNKPKGMVVHPSAGHKDGTLVNALLYHCE 119 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R V R+D +T GLL++ + L + Sbjct: 120 LSSINGTIRPGIVHRIDKDTSGLLIVAKNDKAHVKLSEMIANKEVKRKYYALVHGSIKHD 179 Query: 159 N------------LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ VI + + + L G+ +I+ + Sbjct: 180 YGTIDAPIARNPKERKEMAVIDEGKPSITHFKVIDRFEKYTLIECELETGRTHQIRVHMK 239 Query: 207 FFNWKVN 213 + N + Sbjct: 240 YINHPLV 246 >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 = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 46/188 (24%), Positives = 75/188 (39%), Gaps = 23/188 (12%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 L++KP G+++ + V + GRLD ++EGLLLL++ G L + L Sbjct: 12 LLFNKPYGVLSQFTPETASRWRCLAEFINVPGVYAAGRLDADSEGLLLLSDQGRLQQRLT 71 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG----------- 184 P R Y V+ G D +L L++GI IQ + + Sbjct: 72 DPRCGHWRSYWVQVEGHPDDPQLQKLREGIEIQHQRTLPARARWLQGEDIPLLPERDPPI 131 Query: 185 ------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG------PFQLGTLLAGS 232 +W+ + LREG+NR+++++ RL+R L L AG Sbjct: 132 RVRATIPTSWLELSLREGRNRQVRRMTAAVGLPTLRLVRCRIDLMDGGKALDLNDLPAGR 191 Query: 233 TREVSKKI 240 R V+ Sbjct: 192 WRSVTNAE 199 >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 = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 48/210 (22%), Positives = 78/210 (37%), Gaps = 13/210 (6%) Query: 41 KVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 ++G ++ + V + + V G L E L L+ + + Sbjct: 27 TLDGRAMKDPRMPVDVGERVRVRGEELVLREHAHLMLHKPHGVVTARADGRHPTAYALLE 86 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 +F+ + +VGRLD++ GLLL T DG L L P R Y V + + Sbjct: 87 GAPLFAELRAVGRLDLDAVGLLLWTTDGQLVHALTHPRRAVPRTYHVALAAPFEAPPRDD 146 Query: 161 LKKGIVIQGICYGD------------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + L T G+ A TV L +G E+K++F Sbjct: 147 DGAVALELRDGLRPRVVALGALDEAAAHPALLTPPGTEALATVTLLDGAYHEVKRIFAAL 206 Query: 209 NWKVNRLIRISYGPFQL-GTLLAGSTREVS 237 V L R+ +GP +L TL AG+ + + Sbjct: 207 GSHVLCLARVRHGPVELPRTLEAGAWQLLD 236 >gi|256959131|ref|ZP_05563302.1| pseudouridylate synthase [Enterococcus faecalis DS5] gi|256949627|gb|EEU66259.1| pseudouridylate synthase [Enterococcus faecalis DS5] Length = 301 Score = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 1 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 58 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 59 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQDMVVHPSAGHPKGTLVNALLHHAD 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 119 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 178 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 179 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 238 Query: 206 EFFNWK 211 ++ + Sbjct: 239 KYIGYP 244 >gi|299821727|ref|ZP_07053615.1| ribosomal large subunit pseudouridine synthase [Listeria grayi DSM 20601] gi|299817392|gb|EFI84628.1| ribosomal large subunit pseudouridine synthase [Listeria grayi DSM 20601] Length = 302 Score = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 28/239 (11%), Positives = 66/239 (27%), Gaps = 35/239 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 V+E R+ K +A SR V++++ +V V+G +++ D +E++ Sbjct: 8 VKETEKGMRIDKFLAEKASKSRSSVQQLLKDGQVTVDGEVVK-PNYKCQLGDIVEMEERA 66 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + + L + +V + + V L G Sbjct: 67 PEVIEIEAEDIPLDIYYEDEDLLVVNKPEGMVVHPSAGHYTGTLVNALLYHCKDLSGING 126 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------------- 155 ++ + G L + + L + Sbjct: 127 KIRPGIVHRIDKDTSGLLMVAKNDAAHESLASQLKAKTSHREYVALVHGDIAHQKGTIEA 186 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + +K V+ + + G +T L G+ +I+ ++ Sbjct: 187 PIGRAKDDRQKMAVVGDGKEARTHFEVLERFGDFTLITCQLDTGRTHQIRVHLKYIGHP 245 >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 = 74.8 bits (182), Expect = 2e-11, Method: Composition-based stats. Identities = 40/182 (21%), Positives = 73/182 (40%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LLALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|294155914|ref|YP_003560298.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma crocodyli MP145] gi|291600512|gb|ADE20008.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma crocodyli MP145] Length = 312 Score = 74.4 bits (181), Expect = 2e-11, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 73/239 (30%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----DGVP--- 66 +R+ K I+ SR +++ +I Q+ V VN +++ + V I V D Sbjct: 10 ERIDKYISNNSEISRNDIKALIEQKAVFVNDVVVNQPKFIVREGQVISVTKLIDKEIHIE 69 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VIS 110 + + L + +V + V L + Sbjct: 70 AQDIDLDIAYEDEHLLVIKKPSGMVVHPAPGHHENTLVNALLFHFKNNLSNENGLLRPGI 129 Query: 111 VGRLDINTEGLLLLTNDGGLAR-------------VLELPSTQWLRVYRVRFHGQVDQDK 157 V R+D +T GLL++ + + L+ +++ + +D Sbjct: 130 VHRIDKDTSGLLIVAKTNEVHQLLSEGFSNKSINRKYFAICDGVLKSKKMKLDLPIGRDV 189 Query: 158 LNLLKKGIVIQGICYGDMQVTLD----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 N + + + + + V L G+ +I+ + N + Sbjct: 190 KNRQQMSVTNSNSKHAITNLEMLKSFYFDNQPKCLVKATLETGRTHQIRVHCAYINNPI 248 >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 = 74.4 bits (181), Expect = 2e-11, Method: Composition-based stats. Identities = 43/189 (22%), Positives = 75/189 (39%), Gaps = 27/189 (14%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L L++KP G+ + D + + GRLD +EGLL+LT+DG + + + Sbjct: 6 LILFNKPYGVQSQFRDESNNDHTTLSEYFTDKSLRIAGRLDATSEGLLILTSDGRINKAI 65 Query: 135 ELPS---------TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------- 175 P + + Y V+ G V +L L G+V++ Sbjct: 66 TQPPSAKGFAQNKQKQGKTYLVQVEGMVTSVQLKALASGVVLKDGKTLPASAVLVDEVDL 125 Query: 176 --------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + + +W+ + + EGKNR+++++ RLIR S F+LG Sbjct: 126 PITLWEREPPIRERKNIPTSWLMLTIYEGKNRQVRRMTAHVGLPCLRLIRWSVAGFELGE 185 Query: 228 LLAGSTREV 236 L G + Sbjct: 186 LGVGEFVRI 194 >gi|315027878|gb|EFT39810.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2137] Length = 310 Score = 74.4 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 70/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 10 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 67 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + V L Sbjct: 68 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHAD 127 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 128 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 187 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 188 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 247 Query: 206 EFFNWK 211 ++ + Sbjct: 248 KYIGYP 253 >gi|313672276|ref|YP_004050387.1| pseudouridine synthase, rlua family [Calditerrivibrio nitroreducens DSM 19672] gi|312939032|gb|ADR18224.1| pseudouridine synthase, RluA family [Calditerrivibrio nitroreducens DSM 19672] Length = 320 Score = 74.4 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 77/245 (31%), Gaps = 36/245 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-- 60 DK + + +R+ ++ SR + +I + V +NG + + + V++ DHI Sbjct: 17 DKLDITSDSFSERIDIFLSEKLNRSRSYFKNLIDEGLVTLNGKICK-PSSKVVAGDHIIV 75 Query: 61 ------------EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-- 106 E+D + + + +V + V L + Sbjct: 76 LIPDDSIDLTPKEIDFEVI-YDSKWYAVINKPAGLVVHPAPGNTTDTLVNGLLAKFKNID 134 Query: 107 -----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 R + RLD +T GLL++ + + + + + + + Sbjct: 135 DNDNVRPGIIHRLDKDTSGLLIIAKNRDVRQQMSELFQKREVKKVYLAVCMGEPKNDYYM 194 Query: 162 KKGIV-------------IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + G +V + + +V + G+ +I+ + Sbjct: 195 IDNFIGRSLTDRKKMAVLQNGGKRAVSEVKILKRSSGIFLASVAIHTGRTHQIRVHMSYL 254 Query: 209 NWKVN 213 N+ + Sbjct: 255 NYPIL 259 >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 = 74.4 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 52/218 (23%), Positives = 88/218 (40%), Gaps = 41/218 (18%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L +KP +++ +D GR T+ D + V +VGRLD ++EGLLLLT+DG + Sbjct: 1 MPYRYLLLYKPYDVLSQFTDESGRRTLKDLVA--VPNVYAVGRLDRDSEGLLLLTDDGPM 58 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKL----NLLKKGIVIQGICYGDMQVTLDT----- 181 L P R Y V+ + + L+ G+ I+G QV++ Sbjct: 59 QHRLSHPRFGHRRQYWVQVECGPKSQPIEAAIDQLRAGVTIRGYRTRPAQVSVIPDPDLP 118 Query: 182 ---------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY------------ 220 ++ + AW+ + L EGKNR+++++ + RL+R + Sbjct: 119 PRNPPIRYRKQIATAWLEIALTEGKNRQVRRMTAAVGFPTLRLVRSALFLPTPEKRQKQR 178 Query: 221 ---------GPFQLGTLLAGSTREVSKKILREQLGPHL 249 L L G R ++ +R G Sbjct: 179 QTKKRAGAALALTLSGLSPGQWRSLTATEIRSLPGNVH 216 >gi|228992627|ref|ZP_04152553.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus pseudomycoides DSM 12442] gi|229006175|ref|ZP_04163861.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides Rock1-4] gi|228755016|gb|EEM04375.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides Rock1-4] gi|228766959|gb|EEM15596.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus pseudomycoides DSM 12442] Length = 302 Score = 74.4 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 62/243 (25%), Gaps = 40/243 (16%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A G+ SR +V++ I V VNG ++ V D I V Sbjct: 8 TVTEEQKSERIDKFLA--GVNNEWSRSQVQQWIKDGVVTVNGNDIK-GNYKVKVNDEIAV 64 Query: 63 ---DGV-----------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D + + L + +V + V + Sbjct: 65 AIPDPEELDILPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------ 156 G + + G L + + L V Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIGRDKKDRQSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYI 244 Query: 209 NWK 211 + Sbjct: 245 GYP 247 >gi|307273068|ref|ZP_07554314.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0855] gi|306510053|gb|EFM79077.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0855] gi|315147417|gb|EFT91433.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4244] gi|315150758|gb|EFT94774.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0012] Length = 310 Score = 74.4 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 10 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 67 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 68 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHAD 127 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 128 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 187 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 188 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 247 Query: 206 EFFNWK 211 ++ + Sbjct: 248 KYIGYP 253 >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 = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 23/180 (12%), Positives = 56/180 (31%), Gaps = 7/180 (3%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ + + SR + + +I VKV+ ++++ + IEV+G + T+ Sbjct: 29 RLSKILSLSSVVSRNKAQELIRSGNVKVDNQIVKQ-NTVIDVNSKIEVNGCEINVDITTK 87 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW +KP + P +++ G + G + Sbjct: 88 LWGIYKPKHVFCNTDQNYIYEEKKLINPQKKDILLNDGNDKLQISSEHTKKILGENNMMN 147 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 Y + + + + + + + + L Sbjct: 148 NKTLIYKSDFYNNNKMSRNYNNNIID-QNIHFPNYTETKMNKRKIQDNEK-----KITLS 201 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 33/131 (25%), Positives = 60/131 (45%) Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K Sbjct: 226 NKIENYIPEHLIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEK 285 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + LL+KG I I +++ + W+ + E + +F +N + + R Sbjct: 286 IELLRKGCTIGDIIIRPLELKIIKPNFLYKWLKLTYVEKSQTHLNLLFSKYNMTIRKCKR 345 Query: 218 ISYGPFQLGTL 228 S+GP++ L Sbjct: 346 YSFGPYKSSDL 356 >gi|289806402|ref|ZP_06537031.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 100 Score = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 28/100 (28%), Positives = 49/100 (49%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K IA+ SR R I RV V+G +++ AA ++ + DG PL + Sbjct: 1 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGDIIKNAAFKLLPEHAVAYDGNPLAQQHGP 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 R ++ +KP G V + DPD + ++ + ++ + GR Sbjct: 61 RYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVAYKLHAAGR 100 >gi|213616320|ref|ZP_03372146.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 56 Score = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG-TLLAGSTREVSKKIL 241 + + EG+ ++K++F +V L R G L L G R ++++ + Sbjct: 1 MTISEGRYHQVKRMFAAVGNRVVELHRERIGAITLDENLAPGEYRPLTEEEI 52 >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 = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 30/119 (25%), Positives = 51/119 (42%), Gaps = 1/119 (0%) Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSNAWVTVGL 193 P + Y V G V L +++G+ + +G ++V Q + + + L Sbjct: 1 MHPRHHQPKTYDVLVRGIVPASALATMRRGMTLAEGEQLRPVEVESRLQANGHTRLRMVL 60 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEE 252 +G NR+I+++ + RL RIS GP LG L GS R +S + L + Sbjct: 61 HQGVNRQIRRMCRDLGLTILRLKRISLGPIGLGDLPVGSCRFLSAAEITALLQAAEIRR 119 >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 = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 41/189 (21%), Positives = 73/189 (38%), Gaps = 27/189 (14%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR-- 132 L L++KP G+ + D + + GRLD +EGLL+LT+DG + + Sbjct: 6 LILFNKPYGVQSQFRDDSNNDHTTLSEYFTDKSLRIAGRLDATSEGLLILTSDGRINKAI 65 Query: 133 -------VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------- 175 + + Y V+ G V +L L G++++ Sbjct: 66 TQPPSAKNFAQNKQKQGKTYLVQVEGVVTAVQLKELASGVILKDGKTLPASATLLDEADL 125 Query: 176 --------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT 227 + + +W+ + + EGKNR+++++ RLIR S F+LG Sbjct: 126 PITLWQRDPPIRERKNIPTSWLMLTIYEGKNRQVRRMTAHVGLPCLRLIRWSVAGFELGE 185 Query: 228 LLAGSTREV 236 L G + Sbjct: 186 LGVGEFVRI 194 >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 = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 18/79 (22%), Positives = 36/79 (45%) Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL 228 + + + + AW+ V + EG+NR+++++ + RLIR F L L Sbjct: 8 DFLWQRISPIRERKHIPTAWLEVKIDEGRNRQVRRMTAHIGFPTLRLIRYQLAGFNLQNL 67 Query: 229 LAGSTREVSKKILREQLGP 247 + + R +++ LRE Sbjct: 68 MPKTYRTLTQNELRELYQL 86 >gi|56419681|ref|YP_146999.1| hypothetical protein GK1146 [Geobacillus kaustophilus HTA426] gi|261419335|ref|YP_003253017.1| pseudouridine synthase [Geobacillus sp. Y412MC61] gi|297530695|ref|YP_003671970.1| pseudouridine synthase [Geobacillus sp. C56-T3] gi|319766151|ref|YP_004131652.1| pseudouridine synthase [Geobacillus sp. Y412MC52] gi|56379523|dbj|BAD75431.1| hypothetical conserved protein [Geobacillus kaustophilus HTA426] gi|261375792|gb|ACX78535.1| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC61] gi|297253947|gb|ADI27393.1| pseudouridine synthase, RluA family [Geobacillus sp. C56-T3] gi|317111017|gb|ADU93509.1| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC52] Length = 304 Score = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 33/241 (13%), Positives = 69/241 (28%), Gaps = 37/241 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----- 60 +++ + +R+ KVIA SR +V++ I V VNG ++ A + D + Sbjct: 8 IEDEYDGERIDKVIAALNEEWSRSQVQQWIKNGLVTVNGQTVK-ANYKCEAGDSVAVSPP 66 Query: 61 -----EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ P+ + L + +V + V L Sbjct: 67 EPEPLHVEPEPIPLDIYYEDEDVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCRDLSGIN 126 Query: 112 GRLDINTEGLLLLTNDGGLA---------------------RVLELPSTQWLRVYRVRFH 150 G L + G L R + + Sbjct: 127 GVLRPGIVHRIDKDTSGLLMVAKNDAAHRSLVEQLVNKTVTRRYKAIVHGVIPHDYGTID 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +DK + K + + + + +V L G+ +I+ ++ + Sbjct: 187 APIGRDKRDRKKMAVTEENGKEAVTHFRVLERFRHYTYVECQLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >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 = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 40/182 (21%), Positives = 73/182 (40%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPGPADLKALARGVDLGDCVTRPCRAEFIEPPDALWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAIGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >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 = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 40/182 (21%), Positives = 73/182 (40%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKAPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPETLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|194015066|ref|ZP_03053683.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus pumilus ATCC 7061] gi|194014092|gb|EDW23657.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus pumilus ATCC 7061] Length = 304 Score = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 33/248 (13%), Positives = 72/248 (29%), Gaps = 38/248 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M NI V E T +R+ K ++ SR +V++ + ++VNG ++ A V + D Sbjct: 1 MNQVNIAVSEEQTSERLDKFLSTTEPEWSRTQVQQWVKDGLIEVNGKQVK-ANYKVQAGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I+V+ P + + L + +V + V + Sbjct: 60 QIKVEIPEPEVLDVEAEPMDLDIYYEDADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------R 143 G + + G L + + L + Sbjct: 120 TDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRKYTAVVHGIIQ 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +DK + + + + + V L G+ +I+ Sbjct: 180 HDTGTIDAPIGRDKKDRQSMTVTKESAKQAVTHFDVIERFQDFTVVECRLETGRTHQIRV 239 Query: 204 VFEFFNWK 211 ++ + Sbjct: 240 HMKYIGYP 247 >gi|229098363|ref|ZP_04229309.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-29] gi|228685068|gb|EEL39000.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-29] Length = 302 Score = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 64/242 (26%), Gaps = 38/242 (15%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSVKV-NYKVKENDEITVTI 66 Query: 63 -DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D L + L + +V + V + Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRF 149 G + + G L + + L + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 187 DAPIARDKKER-QSMTVDENGKHAVTHFQVLDRFKDFTLVECRLETGRTHQIRVHMKYIG 245 Query: 210 WK 211 + Sbjct: 246 YP 247 >gi|229031524|ref|ZP_04187524.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH1271] gi|228729813|gb|EEL80793.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH1271] Length = 302 Score = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 65/242 (26%), Gaps = 38/242 (15%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I + V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKEDVVTVNGKSVKV-NYKVKENDEITVTI 66 Query: 63 -DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D L + L + +V + V + Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRF 149 G + + G L + + L + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 187 DAPIARDKKER-QSMTVDENGKHAVTHFQVIERFKDFTLVECRLETGRTHQIRVHMKYIG 245 Query: 210 WK 211 + Sbjct: 246 YP 247 >gi|262365460|gb|ACY62017.1| RNA pseudouridylate synthase-family protein [Yersinia pestis D182038] Length = 152 Score = 74.1 bits (180), Expect = 3e-11, Method: Composition-based stats. Identities = 40/119 (33%), Positives = 56/119 (47%), Gaps = 8/119 (6%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKA 70 +++ K++ARAG SRRE+E +I Q RV V+G + + V T I +DG L Sbjct: 28 GEKLQKILARAGHGSRREIEAIIQQGRVSVDGKV-SKLGDRVEVTQSTKIRLDGHLLSIK 86 Query: 71 E-----RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 E L Y L T + + SR ++VGRLD+NT GLLL Sbjct: 87 ESEENVCRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGSRWVAVGRLDVNTSGLLLF 145 >gi|229075650|ref|ZP_04208632.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock4-18] gi|228707426|gb|EEL59617.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock4-18] Length = 302 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 64/242 (26%), Gaps = 38/242 (15%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSVKV-NYKVKENDEITVTI 66 Query: 63 -DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D L + L + +V + V + Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRF 149 G + + G L + + L + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 187 DAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIG 245 Query: 210 WK 211 + Sbjct: 246 YP 247 >gi|229104455|ref|ZP_04235123.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-28] gi|229117388|ref|ZP_04246765.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock1-3] gi|228666088|gb|EEL21553.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock1-3] gi|228678977|gb|EEL33186.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-28] Length = 302 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 32/242 (13%), Positives = 64/242 (26%), Gaps = 38/242 (15%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSVKV-NYKVKENDEITVTI 66 Query: 63 -DGV-----------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + + L + +V + V + Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRF 149 G + + G L + + L + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 187 DAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIG 245 Query: 210 WK 211 + Sbjct: 246 YP 247 >gi|154685962|ref|YP_001421123.1| YlyB [Bacillus amyloliquefaciens FZB42] gi|154351813|gb|ABS73892.1| YlyB [Bacillus amyloliquefaciens FZB42] Length = 304 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 70/248 (28%), Gaps = 38/248 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M I VQ +R+ K +A G SR +V++ + + V VNG ++ A + D Sbjct: 1 MNQFEITVQPEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSVK-ANYKMQPGD 59 Query: 59 HI--------EVD------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + E+D + + ++ L + +V + V + Sbjct: 60 QVNVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR--------------------- 143 G + + G L + + L Sbjct: 120 NDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGVIS 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +DK + + + + + V L G+ +I+ Sbjct: 180 HDDGTIDAPIGRDKKDRQSMTVTRESSKNAVTHFHVLERFQDFTLVECRLETGRTHQIRV 239 Query: 204 VFEFFNWK 211 ++ + Sbjct: 240 HMKYIGFP 247 >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 = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 37/179 (20%), Positives = 74/179 (41%), Gaps = 16/179 (8%) Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 ++ + + + T+ +L +++GRLD+ +EGLLLLT DG ++ + Sbjct: 1 MVHKPWGMISQFVNPAKRKKTLLGDLYGFPEGTMAIGRLDVPSEGLLLLTTDGKVSAEIR 60 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDT------------ 181 + + +V + I +G + L Sbjct: 61 SNAYEKEYYVQVDGIMTAAALENLKTGVEIGFKGTKYVTKPGKAMLLKDPRFPLRSQKIR 120 Query: 182 --QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + G +W+++ ++EGK R+++K+ + RL+R+ G +LG L G+ EV K Sbjct: 121 DERHGPTSWISIIIKEGKFRQVRKMTAAVGFPTLRLVRVRIGTMKLGELAIGAVVEVEK 179 >gi|229545666|ref|ZP_04434391.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|307275817|ref|ZP_07556956.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2134] gi|307291840|ref|ZP_07571711.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0411] gi|229309234|gb|EEN75221.1| pseudouridylate synthase [Enterococcus faecalis TX1322] gi|306497106|gb|EFM66652.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0411] gi|306507509|gb|EFM76640.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2134] gi|315029545|gb|EFT41477.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4000] gi|315032018|gb|EFT43950.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0017] gi|315144961|gb|EFT88977.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2141] gi|315168880|gb|EFU12897.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1341] Length = 310 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 10 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 67 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 68 IVVTIPEPEALDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHAD 127 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 128 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 187 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 188 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 247 Query: 206 EFFNWK 211 ++ + Sbjct: 248 KYIGYP 253 >gi|227518911|ref|ZP_03948960.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|229549858|ref|ZP_04438583.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|293383481|ref|ZP_06629394.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecalis R712] gi|293388864|ref|ZP_06633350.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecalis S613] gi|307269533|ref|ZP_07550872.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4248] gi|307277912|ref|ZP_07558996.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0860] gi|307289260|ref|ZP_07569216.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0109] gi|312901873|ref|ZP_07761138.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0470] gi|312907690|ref|ZP_07766681.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO 512] gi|312910308|ref|ZP_07769155.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO 516] gi|312951652|ref|ZP_07770547.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0102] gi|227073600|gb|EEI11563.1| pseudouridylate synthase [Enterococcus faecalis TX0104] gi|229305127|gb|EEN71123.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200] gi|291079272|gb|EFE16636.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecalis R712] gi|291081789|gb|EFE18752.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecalis S613] gi|306499969|gb|EFM69330.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0109] gi|306505309|gb|EFM74495.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0860] gi|306514153|gb|EFM82729.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4248] gi|310626718|gb|EFQ10001.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO 512] gi|310630369|gb|EFQ13652.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0102] gi|311289581|gb|EFQ68137.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO 516] gi|311291066|gb|EFQ69622.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0470] gi|315152327|gb|EFT96343.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0031] gi|315156128|gb|EFU00145.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0043] gi|315158230|gb|EFU02247.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0312] gi|315162361|gb|EFU06378.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0645] gi|315163874|gb|EFU07891.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1302] gi|315169613|gb|EFU13630.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1342] gi|315172438|gb|EFU16455.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1346] gi|315576067|gb|EFU88258.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309B] gi|315580642|gb|EFU92833.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309A] gi|327535286|gb|AEA94120.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecalis OG1RF] gi|329571882|gb|EGG53560.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1467] Length = 310 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 10 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 67 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 68 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHAD 127 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 128 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 187 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 188 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 247 Query: 206 EFFNWK 211 ++ + Sbjct: 248 KYIGYP 253 >gi|13508031|ref|NP_109980.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma pneumoniae M129] gi|2501680|sp|P75485|Y292_MYCPN RecName: Full=Uncharacterized RNA pseudouridine synthase MG209 homolog; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|1674240|gb|AAB96191.1| ribosomal large subunit pseudouridine synthase D-like protein [Mycoplasma pneumoniae M129] Length = 309 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 38/236 (16%), Positives = 70/236 (29%), Gaps = 34/236 (14%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 T QR+ +A SR +V ++I V VNG + + V D + V+ Sbjct: 8 TTAQRLDTFLATLLNLSRVKVAKLIVDGLVSVNGKKITKNGWLVQPEDRVHVNWSEELFE 67 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISV 111 + + + + + S + S + L + V Sbjct: 68 KVPVEVQPYDFPLDILYEDEQIMVVNKPNGLISHPTSFNESESLLGAALFHCNHQPVFLV 127 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 RLD +T G+++L + L+ Q + D Sbjct: 128 HRLDRDTSGVIMLAKNQSSLLHLQKQLQQRVMKRYYLALVHFPLDSLSGTISAPLERVGN 187 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + K G + T+ Q A + L G+ +I+ +F V Sbjct: 188 NKVMWKVGNSSNKAKNAFTKFTVLNQNEKAALIKCELLTGRTHQIRVHLQFIKHPV 243 >gi|312903470|ref|ZP_07762650.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0635] gi|310633346|gb|EFQ16629.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0635] gi|315577834|gb|EFU90025.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0630] Length = 310 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 10 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 67 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 68 IVVTIPEPEVLDMIAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHAD 127 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 128 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 187 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 188 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 247 Query: 206 EFFNWK 211 ++ + Sbjct: 248 KYIGYP 253 >gi|301633483|gb|ADK87037.1| pseudouridine synthase, RluA family [Mycoplasma pneumoniae FH] Length = 309 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 38/236 (16%), Positives = 70/236 (29%), Gaps = 34/236 (14%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 T QR+ +A SR +V ++I V VNG + + V D + V+ Sbjct: 8 TTAQRLDTFLATLLNLSRVKVAKLIVDGLVSVNGKKITKNGWLVQPEDRVHVNWSEELFE 67 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-ISV 111 + + + + + S + S + L + V Sbjct: 68 KVPVEVQPYDFPLDILYEDEQIMVVNKPNGLISHPTSFNESESLLGAALFHCNHQPVFLV 127 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 RLD +T G+++L + L+ Q + D Sbjct: 128 HRLDRDTSGVIMLAKNQSSLLHLQKQLQQRVMKRYYLALVHFPLDSLSGTISAPLERVGN 187 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + K G + T+ Q A + L G+ +I+ +F V Sbjct: 188 NKVMWKVGNSSNKAKNAFTKFTVLNQNEKAALIKCELLTGRTHQIRVHLQFIKHPV 243 >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 = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 47/234 (20%), Positives = 86/234 (36%), Gaps = 23/234 (9%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L L++KP G+++ D + + + GRLD +EGLLLLT DG + Sbjct: 1 MPTLILFNKPYGVLSQFRSDDNNNFATLSDYFTDKSLRVAGRLDATSEGLLLLTADGQVN 60 Query: 132 RVLELPST-----QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT----- 181 + L P Q + Y ++ G +L L+ G+ ++ +V + Sbjct: 61 KALTHPPKANAGKQQGKTYWIQVEGDASDAQLQQLQTGVPLKDGITLPAEVVRLSEAQIA 120 Query: 182 -----------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 ++ W+ + + EGKNR+++++ RLIR++ F LG L Sbjct: 121 EHIWQASDKIAKRKVTTWLAITIFEGKNRQVRRMAAHVGLPCLRLIRMASSGFSLGNLEV 180 Query: 231 GST--REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDF 282 G++ +S L+ L T + + Sbjct: 181 GASTQIPLSPADLKRLGVQPLSTATTTPQSRKKPRVLTPKSLQSKHPTSRRRQP 234 >gi|256828202|ref|YP_003156930.1| pseudouridine synthase [Desulfomicrobium baculatum DSM 4028] gi|256577378|gb|ACU88514.1| pseudouridine synthase [Desulfomicrobium baculatum DSM 4028] Length = 281 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 35/253 (13%), Positives = 65/253 (25%), Gaps = 23/253 (9%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M D E P R+ +V+A + G RR +I RV V+ + + H Sbjct: 1 MTDSFFYPEGLPPIRLDRVLALQLGFGVRR-CRALIEAGRVLVDDRPCAK-GALIRPGQH 58 Query: 60 IEV-----------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 I V D + + E + V S + + + Sbjct: 59 IRVSLPEDAAPDCHDVRLVDRNESFAALAKPDGLHTVAGQEAACLESCLPGLGLEGWELL 118 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV-- 166 + L D +V + + + + Sbjct: 119 NRLDCLTSGLVLAAAEKRDAAAYKVWQDAGQVSKWYLALARGEVATLECRGRILDDKRSV 178 Query: 167 -----IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 + +V Q N + V + +G+ +I+ + YG Sbjct: 179 VRVTADEDEPLRWTRVRALRQIDGNTLLLVKIFKGRRHQIRAHLAHAGHPLIG--DPVYG 236 Query: 222 PFQLGTLLAGSTR 234 + G L R Sbjct: 237 VCEPGGLYLHHWR 249 >gi|194334247|ref|YP_002016107.1| RluA family pseudouridine synthase [Prosthecochloris aestuarii DSM 271] gi|194312065|gb|ACF46460.1| pseudouridine synthase, RluA family [Prosthecochloris aestuarii DSM 271] Length = 347 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 48/264 (18%), Positives = 87/264 (32%), Gaps = 44/264 (16%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V TP R+ +A+ A+R +V+ IA+ RV VNG ++ + S D IEV Sbjct: 27 VARTQTPMRIDVYLAQQVENATRNKVQEAIAEHRVLVNGKTIKS-NYRIKSLDSIEVTFL 85 Query: 63 ---------DGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFD-----------NL 101 + +P+ E L + +K +V + + T+ + +L Sbjct: 86 RPPAPELAPEDIPIDIIYEDEDLMVVNKASDMVVHPAFGNWTGTLANAILHHIGKEAGDL 145 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 R V RLD NT GL+++ + L + + + L Sbjct: 146 DCSDMRPGIVHRLDKNTSGLIIIAKNSTALHRLARQFANRQVEKKYQAIVWGVPEPATGL 205 Query: 162 KK----------------GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K + + + + V V L G+ +I+ Sbjct: 206 IKTNIGRSVRNRKVMTSYPFEGKDGKTAITEYRVQQSLCYFSLVEVTLHTGRTHQIRVHM 265 Query: 206 EFFNWKVNRLIRISYGPFQLGTLL 229 + + L +YG + L Sbjct: 266 QHLGHPI--LGDETYGGSSIRNLP 287 >gi|75909134|ref|YP_323430.1| ribosomal large subunit pseudouridine synthase D [Anabaena variabilis ATCC 29413] gi|75702859|gb|ABA22535.1| ribosomal large subunit pseudouridine synthase D [Anabaena variabilis ATCC 29413] Length = 312 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 31/251 (12%), Positives = 70/251 (27%), Gaps = 38/251 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++ ++ R+ + +A SR ++++I Q +V+VNG + +N+ D Sbjct: 1 MLNEFYLEVEENSARIDRYLAEELPDLSRSRIQQLIEQGKVQVNGKVCTSKKINLKVGDR 60 Query: 60 IEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + +PL + L L +V + V L Sbjct: 61 ITLEVPEAQPLELQAEDIPLDILYEDDQLLILNKPAGLVVHPAPGHSHGTLVNALLAHCP 120 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G L G +A + + ++ + + Sbjct: 121 HLPGIGGVQRPGIVHRLDKDTTGAIAIAKTDIAYKHIQAQLQTKTARREYLGVVYGAPKT 180 Query: 156 -------------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + V +G + + G+ + L G+ +I+ Sbjct: 181 SSGKVDLPIGRHPQDRKKMAIVPVEEGGRSAITHWQIQERLGNFTLIHFQLETGRTHQIR 240 Query: 203 KVFEFFNWKVN 213 + Sbjct: 241 VHSAKIGHPIV 251 >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 = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 36/170 (21%), Positives = 58/170 (34%), Gaps = 17/170 (10%) Query: 86 TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 + + L +++GRLD +EGLLL+T DG L+ + + Sbjct: 20 SNDERQARKKKFLSELHDFPEGTMAIGRLDEKSEGLLLMTTDGKLSDTINRSGIEKEYYV 79 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGIC--YGDMQVTLDTQK---------------GSNAW 188 +V D I G +V + G W Sbjct: 80 QVDGMITDDAIDQMAAGVEIGFDGKKYQTKPCKVRRLIENPTLPERSKKIRDARHGPTPW 139 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 + V + EGK R+++K+ + RL+RI G L L EV + Sbjct: 140 IAVTITEGKFRQVRKMTSAVGFPTLRLVRIRIGSQTLMGLEPRQVIEVKE 189 >gi|193215325|ref|YP_001996524.1| pseudouridine synthase, RluA family [Chloroherpeton thalassium ATCC 35110] gi|193088802|gb|ACF14077.1| pseudouridine synthase, RluA family [Chloroherpeton thalassium ATCC 35110] Length = 346 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 34/245 (13%), Positives = 70/245 (28%), Gaps = 42/245 (17%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V N +R+ K + R A+R +V+ I + RV VNG ++ V D I V Sbjct: 28 VAPNQARERIDKFLTRQVENATRNKVQEAIEESRVLVNGKPIKS-NYKVCPNDEIFVIFT 86 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D P + + L + +V + L +R+ Sbjct: 87 HPPAPDLEPENIPLDIVFEDEFLLVINKPAGMVVHPAYANWTGTLAGAVLYHTQNRLSET 146 Query: 112 GRL----------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ--------- 152 G+ D +T GL+++ D L + Sbjct: 147 GKEALRPGIVHRLDKDTSGLIVVAKDDATHYALAKQFAERTTEKIYTALVWGCPKPPSGT 206 Query: 153 -----VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVF 205 + + + + ++ + + + + L G+ +I+ Sbjct: 207 IQTNIWRSKRDRKIMANYPFESETGKPAITDYEVKEDFHWFSLLDLQLHTGRTHQIRAHL 266 Query: 206 EFFNW 210 + Sbjct: 267 QHLGH 271 >gi|148972065|ref|ZP_01811403.1| pseudouridine synthase Rsu [Leptolyngbya valderiana BDU 20041] gi|148872769|gb|EDL71127.1| pseudouridine synthase Rsu [Leptolyngbya valderiana BDU 20041] Length = 152 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 25/149 (16%), Positives = 49/149 (32%), Gaps = 15/149 (10%) Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---------- 180 L P R Y V+ D+ L L+ G+ I+ +V Sbjct: 2 QHRLLDPKFGKSRAYWVQVERVPDEASLQRLRDGVTIRQYRTRPARVRRLAIAPDLPPRH 61 Query: 181 -----TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + W+ + L EG+NR+++++ RL+R++ L L G R+ Sbjct: 62 PPIRFRKNVPTCWLEMSLTEGRNRQVRRMTAAVGHPTLRLVRVAVENLTLDALQPGQWRD 121 Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSS 264 ++ + + L + Sbjct: 122 LTLAEVSQLQKRCGLSAVASRSGDRNRAR 150 >gi|11967875|emb|CAC19446.1| putative pseudouridine synthase [Streptococcus mitis] Length = 46 Score = 73.7 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 19/46 (41%), Positives = 27/46 (58%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 R++K IA AG+ASRR+ E +I Q V VN ++ A + S D Sbjct: 1 MRINKYIAHAGVASRRKAEELIKQGLVTVNSQVVRELATTIKSGDT 46 >gi|15828769|ref|NP_326129.1| ribosomal large subunit pseudouridine synthase D (pseudouridylate synthase) (Uracil hydrolyase) [Mycoplasma pulmonis UAB CTIP] gi|14089712|emb|CAC13471.1| RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE D (PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE) [Mycoplasma pulmonis] Length = 296 Score = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 67/239 (28%), Gaps = 39/239 (16%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------DG 64 +R+ K I+ SR +++ +I ++ V VNG ++++ + IEV D Sbjct: 9 SERIDKYISDNSAISRNDIKSLILEKAVFVNGKVIQKPNFILKPDAEIEVIKVIDKTIDL 68 Query: 65 VP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 P + + + + +V ++ V + + G L Sbjct: 69 KPEKMDLDIVYEDEHLIVINKPSGLVVHPAPGHYSQTLVNGLIYHFKNLSNENGLLRPGI 128 Query: 119 EGLLLLTNDGGLARVLELPST-----QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 + G L R + + + + + Sbjct: 129 VHRIDKDTSGLLIIAKTNQVHQLLAKMLKNHEIKRSYIAIVEGFFENKIVHLNLPIGRSQ 188 Query: 174 DMQVTLD--------------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + ++ +K + V L G+ +I+ +F V Sbjct: 189 KDRKKMEITNNNSKNAITHVYLIKQFYYEKQPLSLVECQLETGRTHQIRVHLNYFKHPV 247 >gi|255024455|ref|ZP_05296441.1| RNA pseudouridine synthase family protein [Listeria monocytogenes FSL J1-208] Length = 73 Score = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 17/71 (23%), Positives = 31/71 (43%), Gaps = 5/71 (7%) Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLA 230 ++ + + V ++EGK ++K++F V+ L RIS G L L Sbjct: 1 CKPARLEIINPN----EIKVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLPLDESLEL 56 Query: 231 GSTREVSKKIL 241 G R +++ L Sbjct: 57 GEYRPLTETEL 67 >gi|269798295|ref|YP_003312195.1| pseudouridine synthase [Veillonella parvula DSM 2008] gi|269094924|gb|ACZ24915.1| pseudouridine synthase, RluA family [Veillonella parvula DSM 2008] Length = 305 Score = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 30/243 (12%), Positives = 60/243 (24%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 IV R+ + SR ++ +I V V G + +A + + I V Sbjct: 5 IVSAEQEGMRLDVFLTEQMEGSRSYIQSLIKGGHVTVGGKV-GKANLRLTPDTVIRVEIP 63 Query: 63 ---------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + +PL + + + +V + V L Sbjct: 64 EPESIEVKPEDIPLDYLYEDHDIVIVNKPRGMVVHPAVGNYSGTLVNALLFHCKDLSGIN 123 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 G + L G + + L + Sbjct: 124 GEIRPGIVHRLDKDTSGVMMVAKNDAAHIGLAEQVKAHSARRTYWALVQGNIVEEKGTIK 183 Query: 157 ------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +K +V + + + G V L G+ +I+ F + Sbjct: 184 APIGRHPKDRMKMAVVFENSKDAVTHFKVLARYGHQTLVECNLETGRTHQIRVHFVYIGH 243 Query: 211 KVN 213 V Sbjct: 244 PVV 246 >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 = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 46/193 (23%), Positives = 78/193 (40%), Gaps = 23/193 (11%) Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDG 128 R +L +KP +++ D L ++VGRLD ++EGLLL+T DG Sbjct: 1 MHRHFLIYKPYRMLSQFMTNDRHQKNKRFLGELYDFPENAMAVGRLDEHSEGLLLITTDG 60 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ----GICYGDMQ-------- 176 L+ + + Y G + + + L+ G+ I Q Sbjct: 61 QLSHHINKSGI-VDKEYAALVDGLITEQAIEQLQNGVTISINGSTYDTKPCQVQKPNQIP 119 Query: 177 -------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 D + G +WV V L EGK R+++K+ + RL R+ GP+ + +L Sbjct: 120 DLPETKQKIRDERHGPTSWVNVTLSEGKFRQVRKMTGVVGFPTLRLARVRIGPYNVLSLR 179 Query: 230 AGSTREVSKKILR 242 E+S + +R Sbjct: 180 NQQVIELSDQEIR 192 >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 = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 22/101 (21%), Positives = 38/101 (37%), Gaps = 21/101 (20%) Query: 169 GICYGDMQV--TLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG 226 G + L S V++ + EGKNR+I+++F V +L R+S G L Sbjct: 89 GGHTRPVDRLSVLSHPTRSTTRVSITISEGKNRQIRRMFHAIGSGVMKLHRVSVGDLNLS 148 Query: 227 TLLA-------------------GSTREVSKKILREQLGPH 248 L+ G R + ++ + + LG Sbjct: 149 GLMPLEERIQRETSDVARDELKEGEWRVLHEEEVLKGLGWK 189 >gi|24379309|ref|NP_721264.1| putative pseudouridylate synthase [Streptococcus mutans UA159] gi|24377230|gb|AAN58570.1|AE014926_13 putative pseudouridylate synthase [Streptococcus mutans UA159] Length = 296 Score = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 29/237 (12%), Positives = 54/237 (22%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV---- 65 R+ K +A SR + I V VNG ++A V D I + Sbjct: 6 KEAGVRLDKALADLTDLSRSQASEQIKAGLVLVNGKT-QKAKYAVKEGDIIHYERPQEEV 64 Query: 66 ----------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + + + +V + V L I G + Sbjct: 65 LDCVAQNIPLEIVYEDEDVAVINKPQGMVVHPSVGHPSGTLVNALLFHIKDLSSINGVIR 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------DKLNL 160 + G L + Q L + Sbjct: 125 PGIVHRIDKDTSGLLMIAKNDQAHQALAKELKEKKSLRQYIALVHGNLPNDRGVIEAPIG 184 Query: 161 LKKGIVIQGICY---GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 185 RSEKDRKKQTVTAKGKPAVTHFKVLERFGQYSLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|296331122|ref|ZP_06873596.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674277|ref|YP_003865949.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str. W23] gi|296151766|gb|EFG92641.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305412521|gb|ADM37640.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str. W23] Length = 303 Score = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 29/247 (11%), Positives = 63/247 (25%), Gaps = 37/247 (14%) Query: 1 MKDKNIV-QENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M +I E +R+ K +A SR +V++ + +V VNG ++ + D Sbjct: 1 MNQIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSPVKS-NYKIQPGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + V P + ++ L + +V + V + Sbjct: 60 QVTVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 G + + G L + + L V Sbjct: 120 TDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLIS 179 Query: 156 -----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + V + + + V L G+ +I+ Sbjct: 180 HDDGTIDAPIGRDKKDRQSMTVTRDGKNAVTHFHVLERFQDFTLVECQLETGRTHQIRVH 239 Query: 205 FEFFNWK 211 ++ + Sbjct: 240 MKYIGFP 246 >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 = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 44/247 (17%), Positives = 86/247 (34%), Gaps = 34/247 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLE---------RAA 51 +K+ Q R+ KV+ SR +++ +I Q V VNG + + Sbjct: 8 IKEIIYFQLEDQSGRLDKVLVEESELSRTQIQSLIKQGLVTVNGQVEKANYKLSGQELIE 67 Query: 52 VNVMSTDHIEVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + V + +E++ + E L + +K G+V S R T+ + L F Sbjct: 68 MQVPEEEVLEIEAQAIPLDIIYEDDDLLVINKEAGMVVHPSKGHPRDTLVNALVYHFGNH 127 Query: 109 ISVG----------RLDINTEGLLLLTNDGGLARVLELPSTQWL--RVYRVRFHGQVDQD 156 ++ G R+D +T GLL++ + R L R+Y GQ++ Sbjct: 128 LAAGSDSYRPGLVHRIDKDTSGLLVVAKNNESHRYLSQQLMDHTLGRIYYCLVEGQMEVK 187 Query: 157 K--------LNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + + + S + + L+ G+ +I+ FE Sbjct: 188 QGSIEIPLARDPKNRLKYHADAQGKPAWTDFEVLESYPSASLIQAELKTGRTHQIRAHFE 247 Query: 207 FFNWKVN 213 + Sbjct: 248 HIGHPII 254 >gi|218259522|ref|ZP_03475235.1| hypothetical protein PRABACTJOHN_00893 [Parabacteroides johnsonii DSM 18315] gi|218225053|gb|EEC97703.1| hypothetical protein PRABACTJOHN_00893 [Parabacteroides johnsonii DSM 18315] Length = 201 Score = 73.3 bits (178), Expect = 5e-11, Method: Composition-based stats. Identities = 19/60 (31%), Positives = 35/60 (58%), Gaps = 1/60 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ +G+ SRRE ++ I + RV VNG L + V D + +D + ++ + T Sbjct: 3 VRLNKLISDSGLCSRREADKFIEEGRVTVNGSLPQV-GQKVTEGDIVMLDDIQVKIGKHT 61 >gi|223984556|ref|ZP_03634687.1| hypothetical protein HOLDEFILI_01982 [Holdemania filiformis DSM 12042] gi|223963484|gb|EEF67865.1| hypothetical protein HOLDEFILI_01982 [Holdemania filiformis DSM 12042] Length = 307 Score = 73.3 bits (178), Expect = 6e-11, Method: Composition-based stats. Identities = 31/250 (12%), Positives = 76/250 (30%), Gaps = 38/250 (15%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ + IV+E R+ K ++ A SR +++I ++ V+++ + ++ + V + D Sbjct: 1 METRILIVEEQDQGVRLDKYLSTAMDDCSRSRAQQLIDEEAVRIDDLPVKN-SYKVKAGD 59 Query: 59 HIEV---DGVPLRKAERT-----------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 IEV + L + + + +V + V L Sbjct: 60 EIEVTLPEEEALEAQPQEMALNVVYEDHDVIVINKPKGLVVHPGPGNPDHTLVNGLLWHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------R 143 G L + G + + Q L Sbjct: 120 HDLSGINGVLRPGIVHRIDKDTSGLIVACKNDNAHQSLAKQLAEKTAGRQYYALVHGVIN 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +D+ + K + + + + + V+ L G+ +I+ Sbjct: 180 HEYGTIDAPIGRDEKDRQKMAVTEKNSRPAITHFKVVERFDNYTLVSCRLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 ++ + + Sbjct: 240 HMQYIGFPIV 249 >gi|332522697|ref|ZP_08398949.1| pseudouridine synthase, RluA family [Streptococcus porcinus str. Jelinkova 176] gi|332313961|gb|EGJ26946.1| pseudouridine synthase, RluA family [Streptococcus porcinus str. Jelinkova 176] Length = 299 Score = 73.3 bits (178), Expect = 6e-11, Method: Composition-based stats. Identities = 34/237 (14%), Positives = 59/237 (24%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 T R+ K +A SR + I + V VNG +++ A +V S D I Sbjct: 6 KETGLRLDKALANVTDLSRSQANEQIKKGLVLVNGQVVK-AKYSVKSGDEITYQLPEEEI 64 Query: 63 -DGVPLRKAERTRL------WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 D + +V + + V + I G + Sbjct: 65 LDYKAENLPIDIIYEDSDLAIVNKAQGMVVHPSAGHSSGTLVNALMYHIKDLSSINGVVR 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------------- 155 + G L + Q L Sbjct: 125 PGIVHRIDKDTSGLLMVAKNDKAHQVLAEELKAKKSLRKYLAIVHGNLPNDRGMIEAPIG 184 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK V + T+ + G + + L G+ +I+ + V Sbjct: 185 RSEKDRKKQSVTVKGKDAVTRFTVLERFGDYTLLELSLETGRTHQIRVHMAYIGHPV 241 >gi|239636325|ref|ZP_04677327.1| ribosomal large subunit pseudouridine synthase, RluA family [Staphylococcus warneri L37603] gi|239597680|gb|EEQ80175.1| ribosomal large subunit pseudouridine synthase, RluA family [Staphylococcus warneri L37603] Length = 305 Score = 73.3 bits (178), Expect = 6e-11, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 65/243 (26%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I N QR+ KV+ SR +++ I + VKVN +++ V D+I V Sbjct: 8 ITDSNHVGQRLDKVLPELNSDWSRSQIQDWIKEDLVKVNDKVVK-PNYKVKQNDNIVVTE 66 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + +Y +V + V + I + Sbjct: 67 QEVVDADITPENLNLDIYYEDDDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKNLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ--- 155 G + + + G L + + V V + D Sbjct: 127 NGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMAKSVKRKYVALVHGNIPHDYGTV 186 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V+ + + L G+ +I+ ++ + Sbjct: 187 DAPIGRNKKDRQAMAVVDDGKEAVTHFNVLEHFKDYTLIECELETGRTHQIRVHMKYIGF 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|229174558|ref|ZP_04302089.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus MM3] gi|228608927|gb|EEK66218.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus MM3] Length = 302 Score = 73.3 bits (178), Expect = 6e-11, Method: Composition-based stats. Identities = 31/241 (12%), Positives = 61/241 (25%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSVKV-NYKVKENDEITVTI 66 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 G+ + + L + +V + V + Sbjct: 67 PDPEELDIQAEDMGLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---------- 160 G + + G L + + L V + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 161 ----------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V + + + V L G+ +I+ ++ + Sbjct: 187 DAPIGRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|182625133|ref|ZP_02952909.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Clostridium perfringens D str. JGS1721] gi|177909592|gb|EDT72026.1| ribosomal large subunit pseudouridine synthase F (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) [Clostridium perfringens D str. JGS1721] Length = 85 Score = 73.3 bits (178), Expect = 6e-11, Method: Composition-based stats. Identities = 16/82 (19%), Positives = 39/82 (47%), Gaps = 4/82 (4%) Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 +++G+ I G ++ + ++ L +G NR+I+++ + F + V +L RI Sbjct: 1 MERGVEILGQVTKPCKLKRINEN----TYSIILTQGLNRQIRRMSKVFGFNVVKLERIRI 56 Query: 221 GPFQLGTLLAGSTREVSKKILR 242 L + G R ++++ + Sbjct: 57 LNITLEDIEYGKWRYINREEIE 78 >gi|229086457|ref|ZP_04218629.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-44] gi|228696774|gb|EEL49587.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-44] Length = 302 Score = 73.3 bits (178), Expect = 6e-11, Method: Composition-based stats. Identities = 33/243 (13%), Positives = 64/243 (26%), Gaps = 40/243 (16%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-- 60 V+E +R+ K +A GI SR +V++ I V VNG ++ V D I Sbjct: 8 TVKEEQKSERIDKFLA--GINNEWSRSQVQQWIKDGVVTVNGNDIK-GNYKVKENDEIAV 64 Query: 61 ------EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 E+D + + L + +V + V + Sbjct: 65 AIPEPEELDIRAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMYHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------- 160 G + + G L + + L V + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVEKTVTRRYKAIVHGVIPHDKG 184 Query: 161 ------------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIGRDKKERQSMAVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYI 244 Query: 209 NWK 211 + Sbjct: 245 GYP 247 >gi|282850533|ref|ZP_06259912.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC 17745] gi|282580026|gb|EFB85430.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC 17745] Length = 307 Score = 72.9 bits (177), Expect = 6e-11, Method: Composition-based stats. Identities = 30/243 (12%), Positives = 59/243 (24%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 IV R+ + SR ++ +I V V G + +A + + I V Sbjct: 5 IVSAEQEGMRLDVFLTEQMEGSRSYIQSLIKGGHVTVGGKV-GKANLRLTPDTIIRVEIP 63 Query: 63 ---------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + +PL + + + +V + V L Sbjct: 64 EPESIEVKPEDIPLDYLYEDHDIVIVNKPRGMVVHPAVGNYSGTLVNALLFHCKDLSGIN 123 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 G + L G + + L + Sbjct: 124 GEIRPGIVHRLDKDTSGVMMVAKNDAAHIGLAEQVKTHSARRTYWALVQGNIVEEKGTIK 183 Query: 157 ------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +K +V + + + G V L G+ +I+ F Sbjct: 184 APIGRHPKDRMKMAVVFENSKDAVTHFKVLERYGHQTLVECNLETGRTHQIRVHFAHIGH 243 Query: 211 KVN 213 V Sbjct: 244 PVV 246 >gi|323210422|gb|EFZ95309.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] Length = 127 Score = 72.9 bits (177), Expect = 7e-11, Method: Composition-based stats. Identities = 27/125 (21%), Positives = 47/125 (37%), Gaps = 4/125 (3%) Query: 170 ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTL 228 + +G N W V L EG+NRE+++++E +V+RLIR+ YG L L Sbjct: 1 GPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGL 60 Query: 229 LAGSTREVS---KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 G E+ LR + ++V ++ + R R Sbjct: 61 PRGGWTELDLAQTNYLRGLVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQIAGGRRS 120 Query: 286 KKNSS 290 ++ Sbjct: 121 GGRNN 125 >gi|269114915|ref|YP_003302678.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma hominis] gi|268322540|emb|CAX37275.1| Ribosomal large subunit pseudouridine synthaseD (RNA pseudouridylate synthase, RNA-uridine isomerase ) [Mycoplasma hominis ATCC 23114] Length = 297 Score = 72.9 bits (177), Expect = 7e-11, Method: Composition-based stats. Identities = 32/191 (16%), Positives = 60/191 (31%), Gaps = 9/191 (4%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ K +A SR +++ +I V VN I + + V D I ++ L K + Sbjct: 9 SDRIDKYVANNSEISRNDIKELIENGAVFVNSIKINKPKFVVKEGDEILIE-RLLDKQIK 67 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 H I + + P+ ++ + L +G L Sbjct: 68 VEPQNIHLDIVYECDDYLIINKPSGLVVHPAPGHHDNTLVNALMYHFKNNLSDVNGLLRM 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + + L K I+ Y + K +N + + Sbjct: 128 GVVHRIDKDTSGLLLIAKNNKAHNYFASLLKTHEIKRSYY-----AIVEGKIANEELHIE 182 Query: 193 LREG---KNRE 200 L G KNR+ Sbjct: 183 LPIGRDTKNRQ 193 >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 = 72.9 bits (177), Expect = 7e-11, Method: Composition-based stats. Identities = 22/184 (11%), Positives = 57/184 (30%), Gaps = 10/184 (5%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ + + SR + + +I VKV+ ++++ + IEV+G + T+ Sbjct: 14 RLSKILSLSSVVSRNKAQELIRSGNVKVDNQIVKQ-NTVIDVNSKIEVNGCEINVDITTK 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 LW +KP + +++ G + + Sbjct: 73 LWGIYKPKNVFCNTDQNYIYEEKKLINKKKKHILLNDGNDKLQISSENMRKLIEENKLKG 132 Query: 135 ELPSTQWLRVYRV----RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 E + + D N+ + + + + + Sbjct: 133 ENNMMNNKTLIYKSDFYNTNKINRNDNTNIYRDMHFPNYTETRMNKRKIQDNEKN----- 187 Query: 191 VGLR 194 + + Sbjct: 188 ITIS 191 Score = 47.1 bits (110), Expect = 0.004, Method: Composition-based stats. Identities = 34/131 (25%), Positives = 61/131 (46%) Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K Sbjct: 216 NKIENYIPEHLIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEK 275 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + LL+KG I GI +++ + W+ + E + +F +N + + R Sbjct: 276 IELLRKGCTIGGITIRPLELKIIKPNFLYKWIKLTYVEKSQTHLNLLFSKYNMTIRKCKR 335 Query: 218 ISYGPFQLGTL 228 S+GP++ L Sbjct: 336 YSFGPYKSSDL 346 >gi|170289613|ref|YP_001739851.1| RluA family pseudouridine synthase [Thermotoga sp. RQ2] gi|170177116|gb|ACB10168.1| pseudouridine synthase, RluA family [Thermotoga sp. RQ2] Length = 304 Score = 72.9 bits (177), Expect = 7e-11, Method: Composition-based stats. Identities = 21/227 (9%), Positives = 58/227 (25%), Gaps = 34/227 (14%) Query: 15 RVSKVIAR-------AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 R+ K + + I ++I + +V VNG + ++ D +E+ Sbjct: 13 RLDKFLRNTLKDFPLSTIY------KLIRKGKVYVNGKRVRDPGFDLEEGDTVEIKYVNL 66 Query: 63 -------DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 D L L L + + + L Sbjct: 67 ENLPKRSDKKDLTPVPMKLDIIHENDNYLVLNKPAGIAIHPGKGVHVATLIEGLLYYGQE 126 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 + + + L + + + + + + + K + Sbjct: 127 QGFEPFLVHRLDKDTSGLLIVAKNREAARVLTEMFRGRNMEKEYIALVKGVPENNLKITI 186 Query: 167 IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ + + + V + G+ +I++ + V Sbjct: 187 PLDGQEAVSEIVSVKPLKNVSLLRVKIHTGRKHQIRRHLSQIGFPVV 233 >gi|17228018|ref|NP_484566.1| hypothetical protein alr0522 [Nostoc sp. PCC 7120] gi|9957317|gb|AAG09315.1| hypothetical protein [Nostoc sp. PCC 7120] gi|17129867|dbj|BAB72480.1| alr0522 [Nostoc sp. PCC 7120] Length = 312 Score = 72.9 bits (177), Expect = 7e-11, Method: Composition-based stats. Identities = 30/251 (11%), Positives = 70/251 (27%), Gaps = 38/251 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++ ++ R+ + +A SR ++++I Q +V+VNG + +N+ D Sbjct: 1 MLNEFYLEVEEDSARIDRYLAEELPDLSRSRIQQLIEQGKVQVNGKVCTSKKINLKVGDR 60 Query: 60 IEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + +PL + L L +V + V L Sbjct: 61 ITLEVPEAQPLEIQAEDIPLDILYEDDQLLILNKPAGLVVHPAPGHSHGTLVNALLAHCP 120 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G L G +A + + ++ + + Sbjct: 121 DLPGIGGVQRPGIVHRLDKDTTGAIAIAKTDIAYKHIQAQLQAKTARREYLGVVYGAPKT 180 Query: 156 -------------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + + +G + + G+ + L G+ +I+ Sbjct: 181 ASGKVDLPIGRHPQDRKKMAVVPIEEGGRSAITHWQIQERLGNFTLIHFQLETGRTHQIR 240 Query: 203 KVFEFFNWKVN 213 + Sbjct: 241 VHSAKMGHPIV 251 >gi|315037134|gb|EFT49066.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0027] Length = 310 Score = 72.9 bits (177), Expect = 7e-11, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N+ + R+ KV++ SR ++++ + ++ V VNG + A V + D Sbjct: 10 MEQINVTIQTEKG-RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETVR-ANYKVTAGDE 67 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +P + + + + +V + + V L Sbjct: 68 IVVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQDMVVHPSAGHPKGTLVNALLHHAD 127 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + + G L + + L Sbjct: 128 HLSAINDVVRPGIVHRIDKDTSGLLMVAKNDQAHESLAKQLKEKTSLRKYVALVHGVIPH 187 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K VI+G T+ + + V + L G+ +I+ Sbjct: 188 DKGEINAPIGRSKVDRKMQAVIEGGKEAVTHFTVLERFDAFTLVELQLETGRTHQIRVHM 247 Query: 206 EFFNWK 211 ++ + Sbjct: 248 KYIGYP 253 >gi|116751075|ref|YP_847762.1| RluA family pseudouridine synthase [Syntrophobacter fumaroxidans MPOB] gi|116700139|gb|ABK19327.1| ribosomal large subunit pseudouridine synthase D [Syntrophobacter fumaroxidans MPOB] Length = 344 Score = 72.9 bits (177), Expect = 8e-11, Method: Composition-based stats. Identities = 50/333 (15%), Positives = 93/333 (27%), Gaps = 46/333 (13%) Query: 7 VQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V +R+ + AR+ SR +V+++I + RV VNG+ ++ A+ + S D I V Sbjct: 14 VDVEEKLRRLDVFLSARSPDCSRSQVQKLIREGRVTVNGLPVK-ASYEIRSGDCIAVWLP 72 Query: 63 --------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 D L + + ++ T Sbjct: 73 EAVGEDSLQPRPMPLEILFEDDDVLVLNKAPGVIVHPGAGHEEGTLVHGLLAHCSRLASR 132 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------------VRF 149 R V RLD T G L++ L Sbjct: 133 GAPRRPGIVHRLDRGTSGALMVAKSERAYLELIRQFKHHEVGKEYLALVYGTMAGASGEI 192 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + ++ + ++ +G Q + G + + V ++ G+ +I+ Sbjct: 193 RTGMGRHPVDRKRMAVLEKGGREAVSQWKVAVAWGEVSLLRVVIKTGRTHQIRVHLSHMQ 252 Query: 210 WKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVR 269 V +YG R V +LRE L + A + Sbjct: 253 HPVVG--DETYGG------GKRKARAVKSDVLRELLMEVDRQMLHAVGLAFRHPVSGADL 304 Query: 270 DRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + + S QK G + Sbjct: 305 SFTAPLPPDFAGLLERIRISLQKEGAGRSDPSG 337 >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 = 72.5 bits (176), Expect = 8e-11, Method: Composition-based stats. Identities = 20/118 (16%), Positives = 46/118 (38%), Gaps = 1/118 (0%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ + + SR + + +I VKV+ ++++ + IEV+G + T+ Sbjct: 14 RLSKILSLSSVVSRNKAQELIRSGNVKVDNQIVKQ-NTVIDVNSKIEVNGCEINVDITTK 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 LW +KP + +++ G + + G + Sbjct: 73 LWGIYKPKNVFCNTDQNYIYEEKKLMNKKKNHILLNDGNDRLQICSENMNKLKGENNK 130 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 33/131 (25%), Positives = 60/131 (45%) Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K Sbjct: 206 NKIENYIPEHLIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEK 265 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + LL+KG I I +++ + W+ + E + +F +N + + R Sbjct: 266 VELLRKGCTIDDIHIRPLELKIIKPNLLYKWLKLTYVEKSQTHLNLLFSKYNMTIRKCKR 325 Query: 218 ISYGPFQLGTL 228 S+GP++ L Sbjct: 326 YSFGPYKSSDL 336 >gi|167944991|ref|ZP_02532065.1| ribosomal large subunit pseudouridine synthase B [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 88 Score = 72.5 bits (176), Expect = 9e-11, Method: Composition-based stats. Identities = 28/85 (32%), Positives = 43/85 (50%), Gaps = 6/85 (7%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP- 66 + +R+ KV+A AG+ SRRE+E I++ R++VNG + V+ +D I +DG P Sbjct: 4 NKPQMGERLQKVLANAGVGSRREIEGWISEGRIEVNGETAK-LGQRVVGSDRIRIDGRPF 62 Query: 67 ----LRKAERTRLWLYHKPIGLVTT 87 + ER L LVT Sbjct: 63 SQKRMEAPERRVLVYNKPEGELVTR 87 >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 = 72.5 bits (176), Expect = 9e-11, Method: Composition-based stats. Identities = 45/183 (24%), Positives = 71/183 (38%), Gaps = 19/183 (10%) Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 L V VGRLD ++EGLLL+T+D L L PS R Y + G + L Sbjct: 27 LFDFPKEVYPVGRLDKDSEGLLLITDDKWLNHHLLNPSFGHQRTYWAQVEGIPTPESLKA 86 Query: 161 LKKGIVIQ----GICYGD---------------MQVTLDTQKGSNAWVTVGLREGKNREI 201 L G+ I+ + ++W+ + L EGKNR++ Sbjct: 87 LGNGVKIKVDGKEYLTKPSIAKLLSESPELPDRDPPIRYRKNVPDSWIELTLIEGKNRQV 146 Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPI 261 +K+ + RL R S + G +E+ ++ + QLG +E+ N Sbjct: 147 RKMTAAVGFPTLRLARKSMEKINIIGFKVGEVQELDRETVYHQLGLTGFKESAKNFQKRP 206 Query: 262 YSS 264 S Sbjct: 207 KRS 209 >gi|302670833|ref|YP_003830793.1| pseudouridine synthase RluA family protein [Butyrivibrio proteoclasticus B316] gi|302395306|gb|ADL34211.1| pseudouridine synthase RluA family [Butyrivibrio proteoclasticus B316] Length = 309 Score = 72.5 bits (176), Expect = 9e-11, Method: Composition-based stats. Identities = 26/256 (10%), Positives = 77/256 (30%), Gaps = 44/256 (17%) Query: 1 MKDKN-----IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNV 54 M+ K+ IV + + R+ K+I+ SR ++++I ++V NG +++ A+ +V Sbjct: 1 MESKSEFFEFIVTDEYDGMRIDKLISELIDSLSRTYIKKLIDDKKVSCNGKVVK-ASFHV 59 Query: 55 MSTDHIEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 D I ++ P+ + + + +V + + V Sbjct: 60 SENDEIVMEIPPIEIPQILPQDIPLDIIYEDNDVVVVNKPKDMVVHPAAGHYKDTLVNAI 119 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + + + + + + G + + + +++ H Sbjct: 120 MYHCKDNLSGINGVMRPGIVHRIDKDTTGSVIICKNDNAHQSIAEQLKEHSINRVYHAIC 179 Query: 161 LKKGIVIQGICYGDM--------QVTLDTQKGSNAW---------------VTVGLREGK 197 +G + ++ + + + L+ G+ Sbjct: 180 YGVIKEDEGDVTAPIGRSVNDRKKMAVVPGGKYASTHYRVLKRFPEDGFTYIECKLQTGR 239 Query: 198 NREIKKVFEFFNWKVN 213 +I+ + Sbjct: 240 THQIRVHMSHIGHPLL 255 >gi|314933372|ref|ZP_07840737.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus caprae C87] gi|313653522|gb|EFS17279.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus caprae C87] Length = 305 Score = 72.5 bits (176), Expect = 9e-11, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 66/244 (27%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 I E QR+ K ++ + A SR +++ I + VKVN +++ V DHI V Sbjct: 7 KITDERRVGQRIDKFLSESNDAWSRSQLQDWIKEDLVKVNDKVIKS-NYKVKLNDHIIVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADIQPEDLDLDIYYEDDDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------- 155 G + + G L + + L + + Sbjct: 126 INGEIRPGIVHRIDKDTSGLLMVAKNDIAHRGLVEQLMNKSVKRKYTALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + + L G+ +I+ ++ Sbjct: 186 VDAPIGRNKNDRQAMAVVDDGKEAVTHFNVLEHFKDYTLIECELETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|291484098|dbj|BAI85173.1| hypothetical protein BSNT_02552 [Bacillus subtilis subsp. natto BEST195] Length = 303 Score = 72.5 bits (176), Expect = 9e-11, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 71/249 (28%), Gaps = 41/249 (16%) Query: 1 MKDKNIV-QENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M +I E +R+ K +A + SR +V++ + +V VNG ++ A + D Sbjct: 1 MNQIDITASEEQKSERIDKFLASSENDWSRTQVQQWVKDGQVVVNGSAVK-ANYKIQPGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + V P + ++ L + +V + V + Sbjct: 60 QVTVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 G + + G L + + L + V + ++ Sbjct: 120 TDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESL--VNQLVNKTVTRKYTAVVHGL 177 Query: 165 IVIQGICY-------GDMQVTLDTQKGSNAWVT----------VGLRE-----GKNREIK 202 I + ++ + + VT L E G+ +I+ Sbjct: 178 ISHDDGTIDAPIGRDKKDRQSMTVTRDGKSAVTHFHVLERFQDFTLVECQLETGRTHQIR 237 Query: 203 KVFEFFNWK 211 + + Sbjct: 238 VHMRYIGFP 246 >gi|328957532|ref|YP_004374918.1| pseudouridylate synthase [Carnobacterium sp. 17-4] gi|328673856|gb|AEB29902.1| pseudouridylate synthase [Carnobacterium sp. 17-4] Length = 301 Score = 72.5 bits (176), Expect = 9e-11, Method: Composition-based stats. Identities = 31/237 (13%), Positives = 67/237 (28%), Gaps = 36/237 (15%) Query: 10 NFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 N R+ KV+ +R +++ I + V VNG ++ A V D I + Sbjct: 10 NEESGRLDKVLTDLLPSITRSHIQQWIKEGNVSVNGEKMK-ANYKVQPGDEIAIVEPELV 68 Query: 63 ------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + +P+ + + + +V + + V + I G + Sbjct: 69 SLEVLAEDIPIEIVYQDEDVVVVNKAQGMVVHPSAGHQTGTLVNALMHHITDLSGINGTI 128 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------- 155 + G L + + L + Sbjct: 129 RPGIVHRIDKDTSGLLMVAKNDAAHEKLAAQLKDKTSLREYIALVHGVIPHEKGTIDAPL 188 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK +I G T+ + V++ L G+ +I+ ++ + Sbjct: 189 GRSKQDRKKQDIIDGGRAAVTHFTVLERFKDFTLVSLKLETGRTHQIRVHMKYIGYP 245 >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 = 72.5 bits (176), Expect = 1e-10, Method: Composition-based stats. Identities = 41/191 (21%), Positives = 76/191 (39%), Gaps = 19/191 (9%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YAAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGAPGPTDLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGVGALDIFALGIAPGETIALP 180 Query: 238 KKILREQLGPH 248 + + P Sbjct: 181 PRAPWDGFAPA 191 >gi|138894673|ref|YP_001125126.1| ribosomal large subunit pseudouridine synthase D-like protein [Geobacillus thermodenitrificans NG80-2] gi|196247711|ref|ZP_03146413.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16] gi|134266186|gb|ABO66381.1| ribosomal large subunit pseudouridine synthase D-like protein [Geobacillus thermodenitrificans NG80-2] gi|196212495|gb|EDY07252.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16] Length = 304 Score = 72.5 bits (176), Expect = 1e-10, Method: Composition-based stats. Identities = 34/241 (14%), Positives = 68/241 (28%), Gaps = 37/241 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----- 60 ++E + +R+ KVIA SR +V++ I V VNG ++ A D + Sbjct: 8 IEEEYDGERIDKVIAALNDEWSRSQVQQWIKNGLVTVNGRTVK-ANYKSELGDTVAISPP 66 Query: 61 -----EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ P+ + L + +V + V L Sbjct: 67 EPEPLHVEPEPIPLDIYYEDEDVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCRDLSGIN 126 Query: 112 GRLDINTEGLLLLTNDGGLA---------------------RVLELPSTQWLRVYRVRFH 150 G L + G L R + + Sbjct: 127 GVLRPGIVHRIDKDTSGLLMVAKNDAAHRSLVEQLVNKTVTRRYKAIVHGVIPHDYGTID 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +DK + K + + + + +V L G+ +I+ ++ + Sbjct: 187 APIGRDKRDRKKMAVTDENGKEAVTHFRVLERFRQYTYVECQLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|301308929|ref|ZP_07214874.1| putative S4 domain protein [Bacteroides sp. 20_3] gi|300832955|gb|EFK63580.1| putative S4 domain protein [Bacteroides sp. 20_3] Length = 189 Score = 72.5 bits (176), Expect = 1e-10, Method: Composition-based stats. Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 1/62 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRRE + I +RV VNG V + D + VDG L + Sbjct: 3 IRLNKLISEAGVCSRREADNFIEMERVTVNGKQPHV-GQKVTAEDVVLVDGERLNVEKYI 61 Query: 74 RL 75 RL Sbjct: 62 RL 63 >gi|242373484|ref|ZP_04819058.1| pseudouridylate synthase RluD [Staphylococcus epidermidis M23864:W1] gi|242348847|gb|EES40449.1| pseudouridylate synthase RluD [Staphylococcus epidermidis M23864:W1] Length = 305 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 65/244 (26%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 I E+ QR+ K+++ SR +++ I + VKVN +++ V DHI V Sbjct: 7 KITDESQVGQRIDKLLSEMNDEWSRSQLQDWIKEDLVKVNDKVIKS-NYKVKLNDHIIVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I Sbjct: 66 EKEVVEADIQPEDLNLDIYYEDEDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKDLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------- 155 G + + G L + + L + + Sbjct: 126 INGEIRPGIVHRIDKDTSGLLMVAKNDIAHRGLVEQLMDKTVKRKYTALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + ++ + + L G+ +I+ ++ Sbjct: 186 VDAPIGRNKNDRQAMAIVDDGKDAVTHFNVLEHFKDYTLIECELETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|255280911|ref|ZP_05345466.1| ribosomal large subunit pseudouridine synthase D [Bryantella formatexigens DSM 14469] gi|255268359|gb|EET61564.1| ribosomal large subunit pseudouridine synthase D [Bryantella formatexigens DSM 14469] Length = 325 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 25/243 (10%), Positives = 69/243 (28%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 IV+ + P+R+ K ++ SR +++++ + RV G+ ++ A+ + + D I VD Sbjct: 28 IVEPDAVPERIDKYLSERLSGSRSFLQKLLKENRVSAGGVPVK-ASYRICAGDVIRVDIP 86 Query: 64 ----------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +PL + L + +V + + V + + + Sbjct: 87 AQSEPDILAEDIPLDILYEDDDLLVVNKPKGMVVHPGAGHYSHTLVNALMYHCRDNLSGI 146 Query: 112 G---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 + + + + Sbjct: 147 NGVLRPGIVHRIDQNTTGSLLVCKNDFSHNFIAGQLKEHSITRRYRAIVHGKISSDGTVN 206 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + K + + + Q ++ L G+ +I+ + Sbjct: 207 APIGRHPVERKKMAVNEKNGKPAVTHYRVLEQFEKFTYIECVLETGRTHQIRVHMSSIHH 266 Query: 211 KVN 213 + Sbjct: 267 PIL 269 >gi|224003727|ref|XP_002291535.1| predicted protein [Thalassiosira pseudonana CCMP1335] gi|220973311|gb|EED91642.1| predicted protein [Thalassiosira pseudonana CCMP1335] Length = 441 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 1/77 (1%) Query: 188 WVTVGLREGKNREIKKVFEF-FNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + + L+EGK R+I+++ V L+R S GP QL TL G R + ++ +RE Sbjct: 365 TLRLVLQEGKKRQIRRMCREILGMHVVSLVRKSIGPIQLDTLPEGKWRPLKEQEVREIFA 424 Query: 247 PHLLEEAQVNLDAPIYS 263 ++ + Sbjct: 425 DTPHKKRKKAKRFVGKD 441 Score = 46.7 bits (109), Expect = 0.005, Method: Composition-based stats. Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 14/69 (20%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQR------------VKVNGILLERA-AVNV 54 + T R+SK ++ GI SRRE R++ + + V G + V V Sbjct: 66 DDTTTQIRLSKRMSELGICSRREAARILKEANETTSDLKYLKEIIYVRGEPVTEGTGVKV 125 Query: 55 MSTD-HIEV 62 + IE+ Sbjct: 126 SPNEKRIEI 134 >gi|225024833|ref|ZP_03714025.1| hypothetical protein EIKCOROL_01720 [Eikenella corrodens ATCC 23834] gi|224942436|gb|EEG23645.1| hypothetical protein EIKCOROL_01720 [Eikenella corrodens ATCC 23834] Length = 98 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 11/56 (19%), Positives = 27/56 (48%) Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + + + +GK ++K++ +V L R+ +G ++ LL G R + + Sbjct: 42 ENPHSLLLTITQGKYHQVKRMVAAAGNRVEALHRLRFGDWECEDLLPGQWRFIQPE 97 >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 = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 35/178 (19%), Positives = 69/178 (38%), Gaps = 18/178 (10%) Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTND 127 + +KP G ++ + + L + V++VGRLD +EGLLLLT D Sbjct: 1 MDHHYYKIYKPYGYLSQFINHQNKRRNKKLLSELYTFSDNVMAVGRLDEKSEGLLLLTTD 60 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI--CYGDMQVTLDT---- 181 G + + + V + I ++G + + + Sbjct: 61 GKFSNYITSSKIEKEYHVMVDGVITEEAVLKLQNGVEISVEGKPYKTKNCKAKILRDTSH 120 Query: 182 ---------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLA 230 + G +W+++ L EGK R+++K+ + RL+R+ G ++L + Sbjct: 121 IVERFVRDERHGITSWLSITLAEGKFRQVRKMTAKVGFPTLRLVRVRIGDYKLEEMKP 178 >gi|167835720|ref|ZP_02462603.1| pseudouridine synthase family protein [Burkholderia thailandensis MSMB43] Length = 192 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 39/176 (22%), Positives = 66/176 (37%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRASLGDWVKTPDVYPAGRLDADSEGLLLLTDDGALQAKIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD---------------TQKGS 185 ++ Y + G D L L++G+ + + Sbjct: 67 LVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFVTPPETLWPRNPPVRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RLIR+ G + L G TRE+ + Sbjct: 127 TTWIELEIAEGKNRQVRRMTAAVGFPTLRLIRVGIGALDVFALGLSPGETRELPPR 182 >gi|264679430|ref|YP_003279337.1| pseudouridine synthase [Comamonas testosteroni CNB-2] gi|262209943|gb|ACY34041.1| pseudouridine synthase, RluA family [Comamonas testosteroni CNB-2] Length = 352 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 65/247 (26%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +V QRV KV+A G+ SR +++++A V +NG +L + +V V D + V+ Sbjct: 46 MVGTEHHGQRVDKVLA-LGVSEFSRSYLQQLLADGAVTLNGKVLLKPSVKVAVGDRLRVE 104 Query: 64 GVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---- 104 P + + L + +V + + L Sbjct: 105 MRPTQQSMAFQPETMDLQVVYEDEDLLVINKPAGLVVHPAPGNWTGTLLNGLLARDEKAR 164 Query: 105 -----------------FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 V ++ L + V Sbjct: 165 QVPRAGIVHRLDKDTSGLMVVARNRSTMDALIKMIAAREVSRQYLALAHKQWGSRKHREV 224 Query: 148 RFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 D + + + L +++ V L G+ +I+ Sbjct: 225 DAPIGRDPRNRLRMAVVDLNLHPGKQARTDFDLLDGDAAHSLVRCTLHTGRTHQIRVHMA 284 Query: 207 FFNWKVN 213 + Sbjct: 285 SLGHPLI 291 >gi|154490383|ref|ZP_02030644.1| hypothetical protein PARMER_00616 [Parabacteroides merdae ATCC 43184] gi|154088994|gb|EDN88038.1| hypothetical protein PARMER_00616 [Parabacteroides merdae ATCC 43184] Length = 204 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 19/60 (31%), Positives = 35/60 (58%), Gaps = 1/60 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ +G+ SRRE ++ I + RV VNG L + V D + +D + ++ + T Sbjct: 6 VRLNKLISDSGLCSRREADKFIEEGRVTVNGSLPQV-GQKVTEADIVMLDDIQIKIGKNT 64 >gi|159486376|ref|XP_001701217.1| hypothetical protein CHLREDRAFT_179001 [Chlamydomonas reinhardtii] gi|158271917|gb|EDO97727.1| predicted protein [Chlamydomonas reinhardtii] Length = 235 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 22/49 (44%), Positives = 31/49 (63%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEV 62 R++KV+A G+ASRR E +IA RV+VNG L++ V D +EV Sbjct: 48 RLAKVLAACGVASRRACEGLIADGRVRVNGNLVKEQGTTVDPARDKVEV 96 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 18/118 (15%), Positives = 39/118 (33%), Gaps = 1/118 (0%) Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 G + + + EGK E++++ + + L R+ G F+L L G + ++ L+ Sbjct: 118 GDPRRLRIVVAEGKKHEVRELVKAAGMNLLSLRRVRIGGFRLPRDLGLGGFKALTPADLK 177 Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 E A V+ + + S ++ + K Sbjct: 178 LITDARAQELASVSGATRAAAQQAAQTAATRRASVPRALRDMPEEVLEKFRKARGDKS 235 >gi|186683943|ref|YP_001867139.1| RluA family pseudouridine synthase [Nostoc punctiforme PCC 73102] gi|186466395|gb|ACC82196.1| pseudouridine synthase, RluA family [Nostoc punctiforme PCC 73102] Length = 345 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 29/243 (11%), Positives = 65/243 (26%), Gaps = 38/243 (15%) Query: 9 ENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 + R+ + +++ SR ++++I Q V++N + +NV D I + Sbjct: 44 TDTKGDRIDRFLSQELPDLSRSRIQQLIEQGNVQLNDKVCTSKKINVKLGDRITLEIPEA 103 Query: 63 -------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 + +PL + L L +V + V L + G Sbjct: 104 QPLELLAEDIPLDILYEDDQLLILNKPAGLVVHPAPGHPDGTLVNALLAHCPNLPGIGGV 163 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 L G +A + L+ + + Sbjct: 164 QRPGIVHRLDKDTTGAIAIAKTEVAHHHLQAQLKAKTARREYLGVVYGAPKVESGTIDLP 223 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + QG + + G+ + L G+ +I+ Sbjct: 224 IGRHPQDRKKMAIMPIEQGGRSAVTHWQVLERLGNFTLIRFQLETGRTHQIRVHSAKIGH 283 Query: 211 KVN 213 + Sbjct: 284 PIV 286 >gi|325661581|ref|ZP_08150205.1| hypothetical protein HMPREF0490_00939 [Lachnospiraceae bacterium 4_1_37FAA] gi|325472108|gb|EGC75322.1| hypothetical protein HMPREF0490_00939 [Lachnospiraceae bacterium 4_1_37FAA] Length = 310 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 30/250 (12%), Positives = 72/250 (28%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ E R+ K ++ SR ++++I ++ V VNG ++ A + DH Sbjct: 1 MEERRYTAEKNDLMRIDKFLSEKLPDLSRSYLQKLIKEKEVLVNGQPVK-ANYKLSLEDH 59 Query: 60 IEVD----GVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V P + + L + +V + + V + Sbjct: 60 ISVTIPELKEPDILPEQIPLDILYEDEDILVVNKPKGMVVHPSAGHYSGTLVNALMFHCK 119 Query: 106 SRVISVG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 ++ + + D + L D + R L+ Sbjct: 120 DQLSGINGVMRPGIVHRIDMDTTGSLIVCKNDFAHQSLAEQLKDHTITRKYHAIVHGVLK 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + K + + + + + +V L G+ +I+ Sbjct: 180 EDNGTIDAPIGRHPVERKKMSVNYKNGKHAVTHYRVLKRFEKFTYVECQLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + Sbjct: 240 HMASIRHPLL 249 >gi|330752330|emb|CBL87284.1| RNA pseudouridine synthase family protein [uncultured Flavobacteria bacterium] Length = 195 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 45/189 (23%), Positives = 78/189 (41%), Gaps = 16/189 (8%) Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 +Y L + + ++ + + V VGRLD ++EGLLL++ND + Sbjct: 6 KYYIIYKPKGCL--SQFSKEHGKRALGDVFDLPTDVYPVGRLDEDSEGLLLISNDKSINS 63 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVT---------- 178 L P R Y V+ GQ+ + + L G+ I + +V Sbjct: 64 KLLNPLNGHWRTYWVQVSGQIHKSAIKALVNGVDIVVKGKIHSTLPARVKKGNPPKNILP 123 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 L+ + +WV + L EGK R+++K+ + RL+R +LG L + + K Sbjct: 124 LNVSEKETSWVKISLCEGKYRQVRKMTAKVGFPTLRLVRTHIEELELGELKPSEFKSLDK 183 Query: 239 KILREQLGP 247 K L +L Sbjct: 184 KALFHKLKL 192 >gi|321315311|ref|YP_004207598.1| pseudouridylate synthase [Bacillus subtilis BSn5] gi|320021585|gb|ADV96571.1| pseudouridylate synthase [Bacillus subtilis BSn5] Length = 303 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 30/247 (12%), Positives = 64/247 (25%), Gaps = 37/247 (14%) Query: 1 MKDKNIV-QENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M +I E +R+ K +A SR +V++ + +V VNG ++ A + D Sbjct: 1 MNQIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAVK-ANYKIQPGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + V P + ++ L + +V + V + Sbjct: 60 QVTVTVPEPEALDVLAEPLDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 G + + G L + + L V Sbjct: 120 TDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLIS 179 Query: 156 -----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + V + + + V L G+ +I+ Sbjct: 180 HDDGTIDAPIGRDKKDRQSMTVTRDGKNAVTHFHVLERFQDFTLVECQLETGRTHQIRVH 239 Query: 205 FEFFNWK 211 ++ + Sbjct: 240 MKYIGFP 246 >gi|217961313|ref|YP_002339881.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus AH187] gi|222097338|ref|YP_002531395.1| ribosomal large subunit pseudouridine synthase, rlud subfamily [Bacillus cereus Q1] gi|229140541|ref|ZP_04269096.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-ST26] gi|217063169|gb|ACJ77419.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus AH187] gi|221241396|gb|ACM14106.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Bacillus cereus Q1] gi|228643102|gb|EEK99378.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-ST26] Length = 302 Score = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDNVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >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 = 72.1 bits (175), Expect = 1e-10, Method: Composition-based stats. Identities = 39/182 (21%), Positives = 72/182 (39%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPETLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGSLDIFALGIAPSETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|239623975|ref|ZP_04667006.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239522006|gb|EEQ61872.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 314 Score = 71.7 bits (174), Expect = 1e-10, Method: Composition-based stats. Identities = 28/250 (11%), Positives = 78/250 (31%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + + + R+ + +A SR +++++ +V VNG L++ A+ V + DH Sbjct: 12 LKQEFYPTDLESDVRIDRYLAETCPELSRSYIQKLLKSGQVLVNGRLIK-ASYVVTADDH 70 Query: 60 IEVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IEVD + + ++ + + +V + + V + Sbjct: 71 IEVDVPEAVEPEIEAEPMDLDILYEDQDIILVNKPKGMVVHPAAGHYSHTLVNGLMYHCK 130 Query: 106 SRVISVG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 +++ + + D+ + + + R + ++ Sbjct: 131 NQLSGINGVMRPGIVHRIDMDTTGVLIVCKNDMAHNSIAAQLKEHSITRRYQAIVHGVIK 190 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + K I + + +V L G+ +I+ Sbjct: 191 EDEGTVDAPIGRHQTERKKMCINYNNGRNAVTHYQVLRRFEQYTYVECRLETGRTHQIRV 250 Query: 204 VFEFFNWKVN 213 + + Sbjct: 251 HMASLHHPLL 260 >gi|254415358|ref|ZP_05029119.1| pseudouridine synthase, RluA family [Microcoleus chthonoplastes PCC 7420] gi|196177833|gb|EDX72836.1| pseudouridine synthase, RluA family [Microcoleus chthonoplastes PCC 7420] Length = 330 Score = 71.7 bits (174), Expect = 1e-10, Method: Composition-based stats. Identities = 31/251 (12%), Positives = 68/251 (27%), Gaps = 39/251 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK+ N+ + R+ + +A+ SR ++++I + V++N L + D Sbjct: 1 MKEINLYNQEN-SDRLDRYLAQQLPDLSRSRIQKLIEEGNVQLNHNLCTSKKATIQPGDS 59 Query: 60 IEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + D PL + L + +V + + V L Sbjct: 60 IHLTIPDAKPLDLKPEAIPLDILYEDDQILIVNKPANLVVHPAPGHENGTLVNALLAHCP 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 + G L G +A + L+ + D Sbjct: 120 NLAGIGGVQRPGIVHRLDKDTTGAIAIAKTDHAHHHLQAQLKAKTARRDYLGVVYGSPAT 179 Query: 156 -------------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + + +G + + G+ + L G+ +I+ Sbjct: 180 ETGTINFPIGRHPSDRKKMAVVPLEKGGRSAITHWQIKERLGNYTLIHFQLETGRTHQIR 239 Query: 203 KVFEFFNWKVN 213 + Sbjct: 240 VHTAHIGHPII 250 >gi|167585691|ref|ZP_02378079.1| Pseudouridine synthase, Rsu [Burkholderia ubonensis Bu] Length = 192 Score = 71.7 bits (174), Expect = 1e-10, Method: Composition-based stats. Identities = 40/182 (21%), Positives = 74/182 (40%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YAAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRACRAEFIEPPDALWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAKPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGSLDIFALGIAPGETITLP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|150010511|ref|YP_001305254.1| pseudouridine synthase family 1 protein [Parabacteroides distasonis ATCC 8503] gi|298377632|ref|ZP_06987583.1| RNA pseudouridine synthase family protein [Bacteroides sp. 3_1_19] gi|149938935|gb|ABR45632.1| putative pseudouridine synthase family 1 protein [Parabacteroides distasonis ATCC 8503] gi|298265335|gb|EFI06997.1| RNA pseudouridine synthase family protein [Bacteroides sp. 3_1_19] Length = 189 Score = 71.7 bits (174), Expect = 1e-10, Method: Composition-based stats. Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 1/62 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRRE + I +RV VNG V + D + VDG L + Sbjct: 3 IRLNKLISEAGVCSRREADNFIEMERVTVNGKQPHV-GQKVTAEDVVLVDGERLNVEKYI 61 Query: 74 RL 75 RL Sbjct: 62 RL 63 >gi|221309420|ref|ZP_03591267.1| hypothetical protein Bsubs1_08546 [Bacillus subtilis subsp. subtilis str. 168] gi|221313745|ref|ZP_03595550.1| hypothetical protein BsubsN3_08482 [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221318669|ref|ZP_03599963.1| hypothetical protein BsubsJ_08416 [Bacillus subtilis subsp. subtilis str. JH642] gi|221322942|ref|ZP_03604236.1| hypothetical protein BsubsS_08522 [Bacillus subtilis subsp. subtilis str. SMY] gi|255767360|ref|NP_389429.3| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str. 168] gi|254763395|sp|Q45480|YLYB_BACSU RecName: Full=Uncharacterized RNA pseudouridine synthase ylyB; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|1373157|gb|AAB57767.1| orf-X; hypothetical protein; Method: conceptual translation supplied by author [Bacillus subtilis subsp. subtilis str. 168] gi|225184987|emb|CAB13420.3| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str. 168] Length = 303 Score = 71.7 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 30/247 (12%), Positives = 64/247 (25%), Gaps = 37/247 (14%) Query: 1 MKDKNIV-QENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M +I E +R+ K +A SR +V++ + +V VNG ++ A + D Sbjct: 1 MNQIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAVK-ANYKIQPGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + V P + ++ L + +V + V + Sbjct: 60 QVTVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 G + + G L + + L V Sbjct: 120 TDLSGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLIS 179 Query: 156 -----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + V + + + V L G+ +I+ Sbjct: 180 HDDGTIDAPIGRDKKDRQSMTVTRDGKNAVTHFHVLERFQDFTLVECQLETGRTHQIRVH 239 Query: 205 FEFFNWK 211 ++ + Sbjct: 240 MKYIGFP 246 >gi|255016577|ref|ZP_05288703.1| pseudouridine synthase family 1 protein [Bacteroides sp. 2_1_7] Length = 189 Score = 71.7 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 1/62 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRRE + I +RV VNG V + D + VDG L + Sbjct: 3 IRLNKLISEAGVCSRREADNFIEMERVTVNGKQPHV-GQKVTAEDVVLVDGERLNVEKYI 61 Query: 74 RL 75 RL Sbjct: 62 RL 63 >gi|153814897|ref|ZP_01967565.1| hypothetical protein RUMTOR_01112 [Ruminococcus torques ATCC 27756] gi|317500410|ref|ZP_07958634.1| pseudouridine synthase [Lachnospiraceae bacterium 8_1_57FAA] gi|331089583|ref|ZP_08338482.1| hypothetical protein HMPREF1025_02065 [Lachnospiraceae bacterium 3_1_46FAA] gi|145847928|gb|EDK24846.1| hypothetical protein RUMTOR_01112 [Ruminococcus torques ATCC 27756] gi|316898165|gb|EFV20212.1| pseudouridine synthase [Lachnospiraceae bacterium 8_1_57FAA] gi|330404951|gb|EGG84489.1| hypothetical protein HMPREF1025_02065 [Lachnospiraceae bacterium 3_1_46FAA] Length = 303 Score = 71.7 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 28/250 (11%), Positives = 74/250 (29%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + +R+ + ++ SR +++++ ++ VN ++ + D Sbjct: 1 MEQIKFTADRS-GERIDRFLSENLENLSRSYIQKLLKDGKISVNQSSVK-PNYKISENDK 58 Query: 60 IEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IEV D L + L + +V + V + Sbjct: 59 IEVFIPDPEVLDILPENIPLDILYEDSDILIVNKPKNMVVHPAPGHYEHTLVNAVMYHCK 118 Query: 106 SR---------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-------- 148 V R+D++T G LL+ + +++ + R Sbjct: 119 DNLSGINGILRPGIVHRIDMDTTGSLLICKNDKAHQIIAEQLKEHSITRRYHAIVHGKIK 178 Query: 149 -----FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + ++ K + + T+ + ++ L G+ +I+ Sbjct: 179 EDNGVVNAPIGRHPIDRKKMSTKAKNGKHAVTHYTVLRRFKDYTYIECELETGRTHQIRV 238 Query: 204 VFEFFNWKVN 213 + Sbjct: 239 HMASIGHPIL 248 >gi|206976765|ref|ZP_03237669.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus H3081.97] gi|206745075|gb|EDZ56478.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus H3081.97] Length = 302 Score = 71.7 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDNVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|57233860|ref|YP_182086.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides ethenogenes 195] gi|57224308|gb|AAW39365.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Dehalococcoides ethenogenes 195] Length = 300 Score = 71.7 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 66/247 (26%), Gaps = 37/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK + +V E +R+ K I + SR ++ ++ ++VNG + ++ + + D Sbjct: 1 MKTRKLVAE-SDGERLDKYITQKETDLSRSFIQELVEAGHIQVNGKNAK-PSLKLKNGDT 58 Query: 60 IEVDGVPLRKAERTR--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I ++ P E L + P V + + L Sbjct: 59 ITIEIPPETPPELKAEDIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLINGVLALEP 118 Query: 106 SRVISVGRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRVRFHGQ 152 L L G A+ E ++ Sbjct: 119 EMEDFDDPLRPGIVHRLDKDTSGLLLVAKNREALANLSAQFKERTVRKYYLTLVQGELHP 178 Query: 153 VDQDKLNLLKKGIVIQGICY-----GDMQ--VTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + L + + + + + + V L G+ +I+ F Sbjct: 179 AEGFIEAPLGRDPQNRQKIAVVSNGRPARTGYKVLRYIQGYSLLEVKLETGRTHQIRVHF 238 Query: 206 EFFNWKV 212 V Sbjct: 239 AAIGHPV 245 >gi|15615105|ref|NP_243408.1| hypothetical protein BH2542 [Bacillus halodurans C-125] gi|10175162|dbj|BAB06261.1| BH2542 [Bacillus halodurans C-125] Length = 305 Score = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 32/242 (13%), Positives = 72/242 (29%), Gaps = 37/242 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 + E +R+ K + G SR +V++ I V +NG ++ V + D +E+ Sbjct: 8 TISEQQQGERIDKFLTAQGEEWSRTQVQQWIKDGHVLINGRTIKS-NYKVETGDTLELFV 66 Query: 63 ----------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +P+ + + +V + V + Sbjct: 67 PEPEVLEVVPENIPIEIIYEDEDVAVVNKPRGMVVHPAPGHTTGTLVNALMYHCNDLSSI 126 Query: 111 VG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 G + D E L+ RV + + Sbjct: 127 NGVVRPGIVHRIDKDTSGLLMIAKNDRAHESLVNQLKAKTTERVYQAIVHGNIPHDHGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +DK++ + + T+ + G +V L G+ +I+ F++ Sbjct: 187 DAPIGRDKVDRQSMTVTEENSRDAVTHFTVLERFGDFTFVECQLETGRTHQIRVHFKYIG 246 Query: 210 WK 211 + Sbjct: 247 FP 248 >gi|331084859|ref|ZP_08333947.1| hypothetical protein HMPREF0987_00250 [Lachnospiraceae bacterium 9_1_43BFAA] gi|330410953|gb|EGG90375.1| hypothetical protein HMPREF0987_00250 [Lachnospiraceae bacterium 9_1_43BFAA] Length = 301 Score = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 30/250 (12%), Positives = 72/250 (28%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ E R+ K ++ SR ++++I ++ V VNG ++ A + DH Sbjct: 1 MEERRYTTEKNDLMRIDKFLSEKLPDLSRSYLQKLIKEKEVLVNGQPVK-ANYKLSLEDH 59 Query: 60 IEVD----GVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V P + + L + +V + + V + Sbjct: 60 ISVMIPELKEPDILPEQIPLDILYEDEDILVVNKPKGMVVHPSAGHYSGTLVNALMFHCK 119 Query: 106 SRVISVG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 ++ + + D + L D + R L+ Sbjct: 120 DQLSGINGVMRPGIVHRIDMDTTGSLIVCKNDFAHQSLAEQLKDHTITRKYHAIVHGVLK 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + K + + + + + +V L G+ +I+ Sbjct: 180 EDNGTIDAPIGRHPVERKKMSVNYKNGKHAVTHYRVLKRFEKFTYVECQLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + Sbjct: 240 HMASIRHPLL 249 >gi|169827034|ref|YP_001697192.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus sphaericus C3-41] gi|168991522|gb|ACA39062.1| Hypothetical RNA pseudouridine synthase ylyB [Lysinibacillus sphaericus C3-41] Length = 303 Score = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 69/243 (28%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 ++E +R+ K ++ SR ++ I+ +KVNG ++ A V + D I +D Sbjct: 7 TIEEQQQGERIDKALSSLQSEWSRTQIGNWISDGNIKVNGDAVK-AKYKVKAGDVIAIDV 65 Query: 64 --GVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + L + +V + V + Sbjct: 66 PEAEPLDVIAENLALDIVYEDADVLVVNKPKGMVVHPAPGHMTGTLVNGLMYQCKDLSGI 125 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQ--- 155 G + + G L + + + V H D+ Sbjct: 126 NGIMRPGIVHRIDKDTSGLLMVAKNDVAHESLVDQLVNKTVTRKYIALVHGHIAHDKGTI 185 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +K ++ + + + G V L G+ +I+ + + Sbjct: 186 DAPIGRDQKDRQKQAIVDNGKHAVTHFHVVERFGDYTLVECRLETGRTHQIRVHMNYIGF 245 Query: 211 KVN 213 + Sbjct: 246 PLV 248 >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 = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 41/182 (22%), Positives = 73/182 (40%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVSRPCRAEFIEPPETLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 WV + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWVELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|160914264|ref|ZP_02076485.1| hypothetical protein EUBDOL_00274 [Eubacterium dolichum DSM 3991] gi|158433891|gb|EDP12180.1| hypothetical protein EUBDOL_00274 [Eubacterium dolichum DSM 3991] Length = 303 Score = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 33/250 (13%), Positives = 71/250 (28%), Gaps = 38/250 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M++ +I V E+ QR+ K ++ SR + +I + + VNG ++ A V D Sbjct: 1 MREIDIWVAEDADSQRIDKYLSMVVEDLSRSRIASLIEEGSILVNGEVIR-AKYKVKPAD 59 Query: 59 HIE--VDGVP------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 HI + +R + + + +V + + V L Sbjct: 60 HITAAFEDEMALEAAPEKMELDIRYEDHDVIVINKPKGIVVHPANGNQSGTLVNGLLYHC 119 Query: 105 FSRVISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 G + D L + + R+ + Sbjct: 120 KDLSGINGVLRPGIVHRIDKDTTGLLIVAKNDKAHASLSKQLQNKSVNRLYYALVHGVIE 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +D + K ++ + + V L G+ +I+ Sbjct: 180 HEFGTIDAPIGRDPKDRQKMAVIATNSKPARTHFRVVERFAKYTLVECRLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 ++ V Sbjct: 240 HMQYIGHPVV 249 >gi|290580687|ref|YP_003485079.1| putative pseudouridylate synthase [Streptococcus mutans NN2025] gi|254997586|dbj|BAH88187.1| putative pseudouridylate synthase [Streptococcus mutans NN2025] Length = 296 Score = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 28/237 (11%), Positives = 53/237 (22%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV---- 65 R+ K +A SR + I V VNG ++A V D I + Sbjct: 6 KEAGVRLDKALADLTDLSRSQASEQIKAGLVWVNGKT-QKAKYAVKEGDIIHYERPQEEV 64 Query: 66 ----------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + + + +V + V L I G + Sbjct: 65 LDCVAQNIPLEIVYEDEDVAVINKPQGMVVHPSVGHPSGTLVNALLFHIKDLSSINGVIR 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------DKLNL 160 + G L + Q L + Sbjct: 125 PGIVHRIDKDTSGLLMIAKNDQAHQALAKELKEKKSLRQYIALVHGNLPNDRGVIEAPIG 184 Query: 161 LKKGIVIQGICY---GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + + V + L G+ +I+ + V Sbjct: 185 RSEKDRKKQTVTAKGKPAVTHFKVLERFDQYSLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|291542663|emb|CBL15773.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus bromii L2-63] Length = 306 Score = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 35/248 (14%), Positives = 75/248 (30%), Gaps = 38/248 (15%) Query: 3 DKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ + + R+ K I+ A I SR +I V VN ++ + + D + Sbjct: 2 NEFKLNCETSGVRLDKFISDANIDLSRSAAVNLIENGAVLVNDSVVSK-KYKLSQGDIVV 60 Query: 62 V---DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS- 106 V D P + + L + +V + + V L Sbjct: 61 VNVPDPTPYEAKAENIPLDIVYEDECLLVVNKPKGMVVHPAAGNYDGTLVNALLYHCGDS 120 Query: 107 --------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------ 146 R V R+D +T GLL++ + R L + Sbjct: 121 LSGINGVLRPGIVHRIDKDTSGLLIVAKNDFSHRSLAEQIKEHSFTREYESIVFGNLKND 180 Query: 147 -VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + ++ + K ++ + ++ T+ + L G+ +I+ Sbjct: 181 EGTVDAPIGRNPKDRKKMCVIEKNSKNAVTHYSVITRYKGYTHIKCKLETGRTHQIRVHM 240 Query: 206 EFFNWKVN 213 + V+ Sbjct: 241 AYIGHPVS 248 >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 = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 45/183 (24%), Positives = 79/183 (43%), Gaps = 19/183 (10%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 RL +KP G + S + R+++ D + + GRLD ++EGLLLLT+DG L Sbjct: 2 RLIALNKPFGTICQFSPHEARASLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQAK 59 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD------------- 180 + P + ++ Y + G D L L++G+ + + Sbjct: 60 IAEPRHKLVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFVTPPDTLWPRTPPI 119 Query: 181 --TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREV 236 W+ + + EGKNR+++++ + RLIR+ G + L G TRE+ Sbjct: 120 RYRAAIPTTWIELEIAEGKNRQVRRMTAAIGFPTLRLIRVGIGALDVFALGLAPGETREL 179 Query: 237 SKK 239 + Sbjct: 180 PPR 182 >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 = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 41/176 (23%), Positives = 69/176 (39%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSVHETRASLGDWVKTPGVYPAGRLDADSEGLLLLTDDGALQAKIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G D L L++G+ + + T G Sbjct: 67 LVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFITPPGALWPRNPPIRHRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 AW+ + + EGKNR+++++ + RL+R+ G + L G TRE+ + Sbjct: 127 TAWIELEIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFALGLAPGETRELPPR 182 >gi|332295618|ref|YP_004437541.1| pseudouridine synthase, RluA family [Thermodesulfobium narugense DSM 14796] gi|332178721|gb|AEE14410.1| pseudouridine synthase, RluA family [Thermodesulfobium narugense DSM 14796] Length = 319 Score = 71.4 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 31/261 (11%), Positives = 75/261 (28%), Gaps = 49/261 (18%) Query: 1 MKDKNIVQENF---------TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERA 50 M+D+ + N +R+ + + A SR ++I + V+VN ++E+ Sbjct: 1 MRDEIKMNSNQIELFALPLFNKERLDQFLLNATKEESRSYYSKLIKEGLVRVNDKIVEKP 60 Query: 51 AVNVMSTDHIEVDGVPLRK-------------AERTRLWLYHKPIGLVTTHSDPDGRSTV 97 + V D I + P E + + +K +V + R+T+ Sbjct: 61 SFIVKPYDKITLFLKPKEPLYIEYDKLNITVLYEDDYIIVINKERNMVVHPGPGNFRNTI 120 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + L + ++ + L G L + L + Sbjct: 121 LNALINSINKDEFTDQERPGIVHRLDKETTGVLIIAKSEKIMRKLSEQFKNRQVKKTYLA 180 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSN-------------------------AWVTVG 192 L +G ++ + ++ + + V Sbjct: 181 LVY-GDVNYKEGFISMPIKRSKIHRQKMEVNLSGKVAFTEYSVINKGIFEKQIVSLLKVN 239 Query: 193 LREGKNREIKKVFEFFNWKVN 213 + G+ +I+ + + Sbjct: 240 IFTGRTHQIRVHMSYIGHPIV 260 >gi|152976253|ref|YP_001375770.1| RluA family pseudouridine synthase [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025005|gb|ABS22775.1| pseudouridine synthase, RluA family [Bacillus cytotoxicus NVH 391-98] Length = 302 Score = 71.0 bits (172), Expect = 2e-10, Method: Composition-based stats. Identities = 27/235 (11%), Positives = 58/235 (24%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 +R+ K +A SR +V++ I + VNG ++ V D I V Sbjct: 14 KNERIDKFVASVNHEWSRTQVQQWIKDGVITVNGKTVK-GNYKVKENDEITVTVPEPEEL 72 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + + + L + +V + V + G + Sbjct: 73 DIRAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMYHCTDLSGINGVMRP 132 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------------------- 156 + G L + + L V Sbjct: 133 GIVHRIDKDTSGLLMVAKNDMAHESLVNQLVEKTVTRRYQAIVHGVIPHDKGTIDAPIAR 192 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V + + + + V L G+ +I+ ++ + Sbjct: 193 DKKDRQSMAVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGYP 247 >gi|237805469|ref|ZP_04592173.1| S4 domain-containing protein [Pseudomonas syringae pv. oryzae str. 1_6] gi|331026576|gb|EGI06631.1| S4 domain-containing protein [Pseudomonas syringae pv. oryzae str. 1_6] Length = 114 Score = 71.0 bits (172), Expect = 2e-10, Method: Composition-based stats. Identities = 21/85 (24%), Positives = 31/85 (36%), Gaps = 1/85 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 P R+SK + SRRE E I V V+G+++E V T IE+ + Sbjct: 14 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGVVIEEPHFKVS-TQKIELSPDAKADS 72 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRS 95 + HKP + Sbjct: 73 PEPVTIILHKPASASAESALQMITP 97 >gi|260438385|ref|ZP_05792201.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio crossotus DSM 2876] gi|292808971|gb|EFF68176.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio crossotus DSM 2876] Length = 316 Score = 71.0 bits (172), Expect = 2e-10, Method: Composition-based stats. Identities = 22/248 (8%), Positives = 65/248 (26%), Gaps = 42/248 (16%) Query: 7 VQENFTPQRVSKVIARAGI-----ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + +R+ K ++ SR ++++I V VN + + D I+ Sbjct: 14 IDKTQEGERIDKFLSDMLSSDERTYSRSYIQKLIEAGNVCVNDKN-TKTGYKISYNDLIK 72 Query: 62 V------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V + +P + + + + +V + + V + + Sbjct: 73 VMIPYLEDINIVAENIPLDIVYEDDDIILVNKPKGMVVHPSAGHYTGTLVNALMYHCSNN 132 Query: 108 VISVGRLDIN----------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 + + + L + + R + Sbjct: 133 LSGINGVMRPGIVHRIDKDTTGIIVACKNDAAHISLSEQLKEHNITRYYYAICHNCFKEK 192 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + K I + + + A++ L G+ +I+ Sbjct: 193 EGTVDAPIGRHPVERKKMAINYKNGKKAVTHYEVLENFRNFAYIKCKLETGRTHQIRVHM 252 Query: 206 EFFNWKVN 213 + + Sbjct: 253 ASISHPLL 260 >gi|262384889|ref|ZP_06078021.1| pseudouridine synthase family 1 protein [Bacteroides sp. 2_1_33B] gi|262293605|gb|EEY81541.1| pseudouridine synthase family 1 protein [Bacteroides sp. 2_1_33B] Length = 189 Score = 71.0 bits (172), Expect = 2e-10, Method: Composition-based stats. Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 1/62 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRRE + I +RV VNG V + D + VDG L + Sbjct: 3 IRLNKLISEAGVCSRREADNFIEMERVTVNGKQPHV-GQKVTAEDIVLVDGERLNVEKYI 61 Query: 74 RL 75 RL Sbjct: 62 RL 63 >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 = 71.0 bits (172), Expect = 2e-10, Method: Composition-based stats. Identities = 41/176 (23%), Positives = 69/176 (39%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSAHETRASLGDWVKTPGVYPAGRLDADSEGLLLLTDDGALQAKIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G D L L++G+ + + T G Sbjct: 67 LVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFITPPGALWPRNPPIRHRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 AW+ + + EGKNR+++++ + RL+R+ G + L G TRE+ + Sbjct: 127 TAWIELEIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFALGLAPGETRELPPR 182 >gi|258423760|ref|ZP_05686646.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus A9635] gi|257845992|gb|EEV70020.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus A9635] Length = 305 Score = 71.0 bits (172), Expect = 2e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 63/244 (25%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNSDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKDLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|118586926|ref|ZP_01544359.1| pseudouridylate synthases, 23S RNA-specific [Oenococcus oeni ATCC BAA-1163] gi|118432653|gb|EAV39386.1| pseudouridylate synthases, 23S RNA-specific [Oenococcus oeni ATCC BAA-1163] Length = 308 Score = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 44/248 (17%), Positives = 82/248 (33%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQ--RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK+K I++ Q R+ K++A SR +++++I Q RV VNG + A V Sbjct: 5 MKNKQILESTIVNQSGRLDKILATDFSAFSRNQIKKLIDQDRVIVNGKPV-LAKYLVQDG 63 Query: 58 DHIEVDGVPLRKAE--------------RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 DH+ + P++K E + + +V + + V L Sbjct: 64 DHVVIKVPPVKKTELLPEKIPLDIVYEDDDLIVVNKPQGMVVHPSAGHSEHTLVNALLSH 123 Query: 104 IF-------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 R V R+D +T GLL++ + L L + + Sbjct: 124 APLSTINGEFRPGIVHRIDKDTSGLLMVAKNNFAHEHLSLDLKSHKTGRKYLAIVHGNFS 183 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV------------GLREGKNREIKKV 204 + K + + Q + + + V L G+ +I+ Sbjct: 184 EKRGTIKAPIDRDPKNRQKQAVVANGREAITHFKVLESFSNYSLIEAVLETGRTHQIRVH 243 Query: 205 FEFFNWKV 212 + V Sbjct: 244 MAYIGHPV 251 >gi|150020811|ref|YP_001306165.1| RluA family pseudouridine synthase [Thermosipho melanesiensis BI429] gi|149793332|gb|ABR30780.1| pseudouridine synthase, RluA family [Thermosipho melanesiensis BI429] Length = 293 Score = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 40/239 (16%), Positives = 80/239 (33%), Gaps = 38/239 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERM--------IAQQRVKVNGILLERAAVNVMST 57 IV EN R+ K + R++++ M I + +V VNG ++ + + Sbjct: 2 IVNENNYYSRLDKFL-------RKQLQNMPLSAIYKIIRKGKVLVNGKRVKEPSFRLEIG 54 Query: 58 DHIEV-----------DGVPLRKA-------ERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 D IE+ + + E L + +KP G+ +T+ + Sbjct: 55 DEIEIKEETTKYNREKNNQIIPIKMDFEILYEDENLLIINKPAGIPIHPGKGTHIATLIE 114 Query: 100 NLPS----IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 L V RLD +T G+ ++ + AR L + + Sbjct: 115 GLMYYGKEHNFTPYLVHRLDKHTSGVFVVAKNVNTARELNEIISSRAVEKVYTTLCVGEM 174 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQK-GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K ++K + + + G + + V ++ G+ +I+K V Sbjct: 175 KKSEVIKIPLDGKNAVTIYEKQKQFKSGLGYFSLLRVQIKTGRKHQIRKHLSLIGHPVI 233 >gi|330883599|gb|EGH17748.1| ribosomal large subunit pseudouridine synthase E [Pseudomonas syringae pv. glycinea str. race 4] Length = 75 Score = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 16/64 (25%), Positives = 31/64 (48%) Query: 176 QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 + +W+ + ++EG NR+++++ RL+R+ G + L L G RE Sbjct: 11 PPVRFRKSVPTSWLELVIKEGCNRQVRRMTAAVGLPTLRLVRVRIGDWTLDGLDQGQYRE 70 Query: 236 VSKK 239 V+ K Sbjct: 71 VAAK 74 >gi|229168633|ref|ZP_04296355.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH621] gi|228614789|gb|EEK71892.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH621] Length = 302 Score = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 38/241 (15%), Positives = 70/241 (29%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSVK-GNYKVKGNDEITVTI 66 Query: 63 ------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------ 104 D P + + L + +V + V + Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI 126 Query: 105 --FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 R V R+D +T GLL++ + L + R + + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVEKTVTRRYKAIVHGVIPHDKGII 186 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTV-------GLRE-----GKNREIKKVFEFFNW 210 + + + K + V L E G+ +I+ ++ + Sbjct: 187 DAPIGRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|52141596|ref|YP_085233.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus E33L] gi|228987037|ref|ZP_04147162.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229157471|ref|ZP_04285548.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus ATCC 4342] gi|51975065|gb|AAU16615.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus E33L] gi|228625921|gb|EEK82671.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus ATCC 4342] gi|228772631|gb|EEM21072.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 302 Score = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVKENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|116491102|ref|YP_810646.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni PSU-1] gi|290890605|ref|ZP_06553676.1| hypothetical protein AWRIB429_1066 [Oenococcus oeni AWRIB429] gi|116091827|gb|ABJ56981.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni PSU-1] gi|290479733|gb|EFD88386.1| hypothetical protein AWRIB429_1066 [Oenococcus oeni AWRIB429] Length = 304 Score = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 44/248 (17%), Positives = 82/248 (33%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQ--RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK+K I++ Q R+ K++A SR +++++I Q RV VNG + A V Sbjct: 1 MKNKQILESTIVNQSGRLDKILATDFSAFSRNQIKKLIDQDRVIVNGKPV-LAKYLVQDG 59 Query: 58 DHIEVDGVPLRKAE--------------RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 DH+ + P++K E + + +V + + V L Sbjct: 60 DHVVIKVPPVKKTELLPEKIPLDIVYEDDDLIVVNKPQGMVVHPSAGHSEHTLVNALLSH 119 Query: 104 IF-------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 R V R+D +T GLL++ + L L + + Sbjct: 120 APLSTINGEFRPGIVHRIDKDTSGLLMVAKNNFAHEHLSLDLKSHKTGRKYLAIVHGNFS 179 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV------------GLREGKNREIKKV 204 + K + + Q + + + V L G+ +I+ Sbjct: 180 EKRGTIKAPIDRDPKNRQKQAVVANGREAITHFKVLESFSNYSLIEAVLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 + V Sbjct: 240 MAYIGHPV 247 >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 = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 22/90 (24%), Positives = 48/90 (53%), Gaps = 1/90 (1%) Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYG 221 ++G++++ ++ +G+N W V ++EG+NRE++++FE V+RL+R+ +G Sbjct: 6 EEGVMLEDGLAKVERIYEQGGEGANKWYNVVIKEGRNREVRRIFESQGLTVSRLVRVGFG 65 Query: 222 PFQLGT-LLAGSTREVSKKILREQLGPHLL 250 P L L G E++ + + + Sbjct: 66 PIGLPNRLKRGQFYELNPAEVANIIKWADM 95 >gi|326803607|ref|YP_004321425.1| putative ribosomal large subunit pseudouridine synthase D [Aerococcus urinae ACS-120-V-Col10a] gi|326650706|gb|AEA00889.1| putative ribosomal large subunit pseudouridine synthase D [Aerococcus urinae ACS-120-V-Col10a] Length = 315 Score = 71.0 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 38/254 (14%), Positives = 80/254 (31%), Gaps = 42/254 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K+ R+ + +++ SR E+ + I +VKVN +++ + + D Sbjct: 1 MLKKSYEYHGDQSLRLDRYLSQRLDSYSRSEIAQWIKTGQVKVNKQVVK-PSYRLNPMDK 59 Query: 60 IE----------VDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 I ++G L E L + +K G+V S T+ + L + Sbjct: 60 ISLAIEEEQKLPIEGESLDLDIVYEDKDLLVINKAKGMVVHPSKGHLSGTLVNALLAYAQ 119 Query: 107 RVISV-------------GRLDINTEGLLLLTNDGGLARVLELP-------------STQ 140 + RLD +T GL+++ + L Sbjct: 120 KNHFTLSDLGDYYRPGIVHRLDKDTSGLMVVAKSDPAYQALLEDLANHQLDRKYLALIYG 179 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 L + + + + ++ G Q + A + + L G+ + Sbjct: 180 HLPDKQGTIDIPLRRHPKDRMRYVGDPLGKEA-VTHFKQIAQVENYALLRLSLETGRTHQ 238 Query: 201 IKKVFEFFNWKVNR 214 I+ + + V Sbjct: 239 IRAHLAYLDHPVVD 252 >gi|78044742|ref|YP_360337.1| ribosomal large subunit pseudouridine synthase A [Carboxydothermus hydrogenoformans Z-2901] gi|77996857|gb|ABB15756.1| ribosomal large subunit pseudouridine synthase, RluA family [Carboxydothermus hydrogenoformans Z-2901] Length = 305 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 39/247 (15%), Positives = 69/247 (27%), Gaps = 38/247 (15%) Query: 4 KNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI- 60 K +V ++ R+ K +A SR ++++I + +V VNG L +A+ V + I Sbjct: 6 KVVVNSEYSGLRLDKFLAEQEELELSRSFIKKLIEEGKVTVNG-LHRKASYKVRGGEIIA 64 Query: 61 ---------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V + + + + K +V + V L + Sbjct: 65 VLLPPPRELSVKPEEIPLDIVYEDEDLVVVNKKAGMVVHPAEGNWDGTLVNALLYHCQNL 124 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--LNLLKKGI 165 G L L G L + Q L + LK Sbjct: 125 SGIGGVLRPGIVHRLDKDTSGLLVVAKNDLAHQSLAEQIKEKKAVREYWTIVHGYLKNKE 184 Query: 166 VIQGICY----------------GDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFE 206 I + Q + N T+ L G+ +I+ F Sbjct: 185 GIIDLPIGRHPRDRQKMAVVSNGKTAQTVYKVLEEFNKGFTLIQAKLLTGRTHQIRVHFS 244 Query: 207 FFNWKVN 213 + V Sbjct: 245 YLGHPVL 251 >gi|256842186|ref|ZP_05547690.1| pseudouridine synthase family 1 protein [Parabacteroides sp. D13] gi|256736070|gb|EEU49400.1| pseudouridine synthase family 1 protein [Parabacteroides sp. D13] Length = 189 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 1/62 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+I+ AG+ SRRE + I +RV VNG V + D + VDG L + Sbjct: 3 IRLNKLISEAGVCSRREADNFIEMERVTVNGKQPHV-GQKVTAEDLVLVDGERLNVEKYI 61 Query: 74 RL 75 RL Sbjct: 62 RL 63 >gi|19704707|ref|NP_604269.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|296327673|ref|ZP_06870215.1| RluA family pseudouridine synthase [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|19715021|gb|AAL95568.1| Ribosomal large subunit pseudouridine synthase D [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|296155204|gb|EFG95979.1| RluA family pseudouridine synthase [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 319 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 67/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K ++ A+R +E++I VKVN ++ + + + IEV Sbjct: 17 VNSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNFVKVNSKIINKNGRKLKLGEKIEVLIP 76 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D P + + + +V + V L + Sbjct: 77 EEENIDIEPENIPLNIVYENDDFILINKSYGMVVHPAYGNYTGTLVNALLYYTNNLSSVN 136 Query: 112 GRLDINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + + + + + R Sbjct: 137 GNIRPGIIHRLDKDTSGLILVAKNNYAHAKLASMFIDKTIHKTYLCIVKGNFSEENLSGR 196 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K IV + + Q + V V + G+ +I+ + Sbjct: 197 IENLIGRDSKDRKKMTIVKENGKIAISNYKVVEQVEGYSLVEVAIETGRTHQIRVHMKSI 256 Query: 209 NWKVN 213 N + Sbjct: 257 NHVIL 261 >gi|49483360|ref|YP_040584.1| RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257425250|ref|ZP_05601675.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus 55/2053] gi|257427910|ref|ZP_05604308.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus subsp. aureus 65-1322] gi|257430543|ref|ZP_05606925.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus 68-397] gi|257433304|ref|ZP_05609662.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus E1410] gi|257436146|ref|ZP_05612193.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus M876] gi|282903750|ref|ZP_06311638.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C160] gi|282905514|ref|ZP_06313369.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus Btn1260] gi|282908489|ref|ZP_06316319.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WW2703/97] gi|282910769|ref|ZP_06318572.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WBG10049] gi|282913972|ref|ZP_06321759.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus M899] gi|282918894|ref|ZP_06326629.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C427] gi|282924017|ref|ZP_06331693.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C101] gi|283957938|ref|ZP_06375389.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus A017934/97] gi|293501005|ref|ZP_06666856.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus 58-424] gi|293509964|ref|ZP_06668672.1| RNA pseudouridine synthase ylyB [Staphylococcus aureus subsp. aureus M809] gi|293526552|ref|ZP_06671237.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus M1015] gi|295427682|ref|ZP_06820314.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus EMRSA16] gi|297591359|ref|ZP_06949997.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus MN8] gi|49241489|emb|CAG40175.1| putative RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257271707|gb|EEV03845.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus 55/2053] gi|257274751|gb|EEV06238.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus subsp. aureus 65-1322] gi|257278671|gb|EEV09290.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus 68-397] gi|257281397|gb|EEV11534.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus E1410] gi|257284428|gb|EEV14548.1| pseudouridine synthase [Staphylococcus aureus subsp. aureus M876] gi|282313989|gb|EFB44381.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C101] gi|282316704|gb|EFB47078.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C427] gi|282322040|gb|EFB52364.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus M899] gi|282325374|gb|EFB55683.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WBG10049] gi|282327551|gb|EFB57834.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WW2703/97] gi|282330806|gb|EFB60320.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus Btn1260] gi|282595368|gb|EFC00332.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C160] gi|283790087|gb|EFC28904.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus A017934/97] gi|290920624|gb|EFD97687.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus M1015] gi|291096010|gb|EFE26271.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus 58-424] gi|291466908|gb|EFF09426.1| RNA pseudouridine synthase ylyB [Staphylococcus aureus subsp. aureus M809] gi|295128040|gb|EFG57674.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus EMRSA16] gi|297576245|gb|EFH94961.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus MN8] gi|312438426|gb|ADQ77497.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus TCH60] gi|315194083|gb|EFU24476.1| putative RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS00] Length = 305 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 63/244 (25%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNSDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKDLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|212639635|ref|YP_002316155.1| Pseudouridylate synthase, 23S RNA-specific [Anoxybacillus flavithermus WK1] gi|212561115|gb|ACJ34170.1| Pseudouridylate synthase, 23S RNA-specific [Anoxybacillus flavithermus WK1] Length = 303 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 64/241 (26%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 ++E +R+ KVIA SR +V++ + + V VNG ++ D + Sbjct: 7 TIEEQHDGERIDKVIAELNEQWSRSQVQQWLKEGHVLVNGKAVK-PNYKCHVDDEVVISI 65 Query: 62 -------VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 V P+ + L + +V + V L Sbjct: 66 PSPEPLDVAPEPIPLDIYYEDADVLVVNKPRGMVVHPAPGHMHGTLVNALLAHCQDLSGI 125 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQ--- 155 G L + G L + + V V D Sbjct: 126 NGVLRPGIVHRIDKDTSGLLMVAKNDLAHESLVNQLVNKTVTRKYVAIVHGVIPHDYGTI 185 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V++ + + +V L G+ +I+ ++ + Sbjct: 186 DAPIGRDPRDRQSMAVVENGKEAVTHFRVLERFEHYTFVECQLETGRTHQIRVHMKYIGY 245 Query: 211 K 211 Sbjct: 246 P 246 >gi|148270918|ref|YP_001245378.1| RluA family pseudouridine synthase [Thermotoga petrophila RKU-1] gi|147736462|gb|ABQ47802.1| ribosomal large subunit pseudouridine synthase C [Thermotoga petrophila RKU-1] Length = 304 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 33/260 (12%), Positives = 69/260 (26%), Gaps = 50/260 (19%) Query: 15 RVSKVIARAGIASRREVE--------RMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 R+ K + R +++ ++I + +V VNG ++ + ++ D +E Sbjct: 13 RLDKFL-------RNQLKDVPLSVIYKLIRKGKVYVNGKRVKDPSFDLEEGDVVEFRYVN 65 Query: 63 -----------DGVPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 D P+ E + +KP + +T+ + L Sbjct: 66 LENLPKRSEKKDLTPVPMKLDVLYEGKHYLVLNKPPNIAIHPGKGVHVATLIEGLLHYGQ 125 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 L + R T+ + + I Sbjct: 126 EKGFSPFLVHRLDKDTSGLLVVAKDREAARILTELFKDRNIEKEYVTLVRGTPENNMKIT 185 Query: 167 I-QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI--------- 216 I ++ + + V + G+ +I++ + V Sbjct: 186 IPLDGQEAISEIVSVKSLRDVSLLRVKIHTGRKHQIRRHLSQIGFPVVGDDTYGDRHFNR 245 Query: 217 --RISYGPFQLGTLLAGSTR 234 R YG L L S R Sbjct: 246 EFRKRYG---LKRLFLHSYR 262 >gi|299530513|ref|ZP_07043933.1| pseudouridine synthase, RluA family protein [Comamonas testosteroni S44] gi|298721489|gb|EFI62426.1| pseudouridine synthase, RluA family protein [Comamonas testosteroni S44] Length = 352 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 65/247 (26%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +V QRV KV+A G+ SR +++++A V +NG +L + +V V D + V+ Sbjct: 46 MVGTEHHGQRVDKVLA-LGVSEFSRSYLQQLLADGAVTLNGKVLLKPSVKVAVGDRLRVE 104 Query: 64 GVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---- 104 P + + L + +V + + L Sbjct: 105 MRPTQQSMAFQPETMDLQVVYEDEDLLVINKPAGLVVHPAPGNWTGTLLNGLLARDEKAR 164 Query: 105 -----------------FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 V ++ L + V Sbjct: 165 QVPRAGIVHRLDKDTSGLMVVARNRSTMDALIKMIAAREVSRQYLALAHKQWGSRKRREV 224 Query: 148 RFHGQVDQDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 D + + + L +++ V L G+ +I+ Sbjct: 225 DAPIGRDPRNRLRMAVVDLNLHPGKQARTDFDLLDGDAAHSLVRCTLHTGRTHQIRVHMA 284 Query: 207 FFNWKVN 213 + Sbjct: 285 SLGHPLI 291 >gi|288905537|ref|YP_003430759.1| ribosomal large subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] gi|288732263|emb|CBI13830.1| putative ribosomal large subunit pseudouridine synthase [Streptococcus gallolyticus UCN34] Length = 298 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 30/237 (12%), Positives = 58/237 (24%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K +A SR + I + V VNG ++ A V D + Sbjct: 6 KEAGVRLDKALADLTELSRSQANDEIKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPKEEV 64 Query: 63 -----DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + +PL + + +V + V + I G + Sbjct: 65 LEYTAENIPLDIIYEDDDVAVVNKPQGMVVHPSVGHMSGTLVNALMYHIKDLSSINGVIR 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNLLKK 163 + G L + V V + D+ + Sbjct: 125 PGIVHRIDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNIPNDRGVIEAPIG 184 Query: 164 GIVIQGICY------GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + G+ V + L G+ +I+ + V Sbjct: 185 RSEKDRKKQAVTAKGKPAVTHFKVLERFGNYTLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|297208159|ref|ZP_06924590.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ATCC 51811] gi|283470407|emb|CAQ49618.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ST398] gi|296887402|gb|EFH26304.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ATCC 51811] gi|302332801|gb|ADL22994.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus aureus subsp. aureus JKD6159] gi|323440971|gb|EGA98678.1| putative RNA pseudouridylate synthase [Staphylococcus aureus O11] gi|323442288|gb|EGA99918.1| putative RNA pseudouridylate synthase [Staphylococcus aureus O46] Length = 305 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 64/244 (26%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNSDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|87161600|ref|YP_493787.1| hypothetical protein SAUSA300_1090 [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|161509370|ref|YP_001575029.1| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|294848190|ref|ZP_06788937.1| RNA pseudouridine synthase ylyB [Staphylococcus aureus A9754] gi|87127574|gb|ABD22088.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|160368179|gb|ABX29150.1| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|294824990|gb|EFG41412.1| RNA pseudouridine synthase ylyB [Staphylococcus aureus A9754] gi|315198434|gb|EFU28763.1| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus CGS01] gi|320144297|gb|EFW36063.1| pseudouridine synthase, RluA family [Staphylococcus aureus subsp. aureus MRSA177] Length = 305 Score = 70.6 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 64/244 (26%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNNDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|186475332|ref|YP_001856802.1| pseudouridine synthase [Burkholderia phymatum STM815] gi|184191791|gb|ACC69756.1| pseudouridine synthase [Burkholderia phymatum STM815] Length = 189 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 35/176 (19%), Positives = 64/176 (36%), Gaps = 17/176 (9%) Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ 140 T + V GRLD ++EGLLLLT+DG L + P + Sbjct: 7 NKPFGTICQFSPHETRASLADWVKVPGVYPAGRLDSDSEGLLLLTDDGTLQARIAEPRHK 66 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---------------S 185 ++ Y + G + L L +G+ + + Sbjct: 67 LVKRYWAQVEGAPTEQHLEALARGVDLGDYVTRPCRAGFVEPGQALWDRTPPIRYRAAIP 126 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVSKK 239 W+ + + EGKNR+++++ + RL+R+ G + L G + +S + Sbjct: 127 TTWIELSITEGKNRQVRRMTAAVGFPTLRLVRVGVGALDIFSLGLQPGESIGLSPR 182 >gi|82750802|ref|YP_416543.1| hypothetical protein SAB1061 [Staphylococcus aureus RF122] gi|82656333|emb|CAI80750.1| conserved hypothetical protein [Staphylococcus aureus RF122] Length = 305 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 64/244 (26%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNSDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRELVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|306833765|ref|ZP_07466891.1| ribosomal large subunit pseudouridine synthase D [Streptococcus bovis ATCC 700338] gi|304424102|gb|EFM27242.1| ribosomal large subunit pseudouridine synthase D [Streptococcus bovis ATCC 700338] Length = 298 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 29/237 (12%), Positives = 60/237 (25%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K +A SR + I + V VNG ++ A V D + Sbjct: 6 KEAGIRLDKALADLTELSRSQANDEIKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPKEEV 64 Query: 63 -----DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + +PL + + +V + V + I G + Sbjct: 65 LEYTAENIPLDIIYEDADVAVVNKPQGMVVHPSVGHTSGTLVNALMYHIKDLSSINGVIR 124 Query: 116 INTEGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 ++ ND + + V + +++ I Sbjct: 125 PGIVHRIDKDTSGLLMIAKNDTAHNALAAELKDKKSLRKYVAIVHGTIPNDRGVIEAPIG 184 Query: 167 IQGI---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + G+ V + L G+ +I+ + V Sbjct: 185 RSEKDRKKQAVTAKGKPALTHFKVLERFGNYTLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|282916446|ref|ZP_06324208.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus D139] gi|283770258|ref|ZP_06343150.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus H19] gi|282319886|gb|EFB50234.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus D139] gi|283460405|gb|EFC07495.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus H19] gi|298694490|gb|ADI97712.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus ED133] Length = 305 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 63/244 (25%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNSDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKDLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|288818020|ref|YP_003432367.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] gi|288787419|dbj|BAI69166.1| pseudouridine synthase [Hydrogenobacter thermophilus TK-6] Length = 318 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 69/245 (28%), Gaps = 37/245 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + +R+ + A G SR V+++I V V+ +++ + + + I Sbjct: 7 VVDQEAQGKRLDLFLTEAYGEFSRSYVQKLIEDGFVLVDDKEIKKPSRRLKAGQKITFYI 66 Query: 63 ----------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +P + + L L +V + V L I Sbjct: 67 PQVEPLEVLPEDIPFDVVYEDEDILVLIKPCGLVVHPSPGYSSGTLVNALLFRIKELSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------------- 156 G+ L G + + + L ++ Sbjct: 127 GGKERPGIVHRLDKNTAGLMVVAKSDKAHRSLVEEFMQRRVLKRYHALVSGLLREDSGTV 186 Query: 157 ------KLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTVGLREGKNREIKKVFEFF 208 KK V++ + + +K ++ V + G+ +I+ F Sbjct: 187 EKSIGRHPVDRKKFSVVEDGKPAKTEYEVIKRFEKHRITFLDVRIHTGRTHQIRVHLSFI 246 Query: 209 NWKVN 213 V Sbjct: 247 GHPVL 251 >gi|306831623|ref|ZP_07464781.1| ribosomal large subunit pseudouridine synthase D [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325978527|ref|YP_004288243.1| ribosomal large subunit pseudouridine synthase D [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|304426408|gb|EFM29522.1| ribosomal large subunit pseudouridine synthase D [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325178455|emb|CBZ48499.1| ribosomal large subunit pseudouridine synthase D [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 298 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 30/237 (12%), Positives = 59/237 (24%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K +A SR + I + V VNG ++ A V D + Sbjct: 6 KEAGVRLDKALADLTELSRSQANDEIKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPKEEV 64 Query: 63 -----DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + +PL + + +V + V + I G + Sbjct: 65 LEYTAENIPLDIIYEDDDVAVVNKPQGMVVHPSVGHTSGTLVNALMYHIKDLSSINGVIR 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNLLKK 163 + G L + V V + D+ + Sbjct: 125 PGIVHRIDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNIPNDRGVIEAPIG 184 Query: 164 GIVIQGICY------GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + G+ V + L G+ +I+ + + V Sbjct: 185 RSEKDRKKQAVTAKGKPAVTHFKVLERFGNYTLVELTLETGRTHQIRVHMAYIGYPV 241 >gi|15924187|ref|NP_371721.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus subsp. aureus Mu50] gi|15926780|ref|NP_374313.1| hypothetical protein SA1040 [Staphylococcus aureus subsp. aureus N315] gi|57651766|ref|YP_186072.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus COL] gi|88194903|ref|YP_499703.1| hypothetical protein SAOUHSC_01163 [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148267688|ref|YP_001246631.1| RluA family pseudouridine synthase [Staphylococcus aureus subsp. aureus JH9] gi|150393746|ref|YP_001316421.1| RluA family pseudouridine synthase [Staphylococcus aureus subsp. aureus JH1] gi|151221320|ref|YP_001332142.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus str. Newman] gi|156979518|ref|YP_001441777.1| hypothetical protein SAHV_1187 [Staphylococcus aureus subsp. aureus Mu3] gi|221141987|ref|ZP_03566480.1| hypothetical protein SauraJ_10200 [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253315555|ref|ZP_04838768.1| hypothetical protein SauraC_05302 [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|253731814|ref|ZP_04865979.1| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253733565|ref|ZP_04867730.1| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus TCH130] gi|255005984|ref|ZP_05144585.2| hypothetical protein SauraM_05925 [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257795747|ref|ZP_05644726.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9781] gi|258415971|ref|ZP_05682241.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9763] gi|258419718|ref|ZP_05682685.1| pseudouridylate synthase [Staphylococcus aureus A9719] gi|258438760|ref|ZP_05689913.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9299] gi|258444534|ref|ZP_05692863.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus A8115] gi|258447633|ref|ZP_05695777.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus A6300] gi|258449475|ref|ZP_05697578.1| pseudouridine synthase [Staphylococcus aureus A6224] gi|258452494|ref|ZP_05700500.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A5948] gi|258454854|ref|ZP_05702818.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A5937] gi|262048100|ref|ZP_06020987.1| hypothetical protein SAD30_1876 [Staphylococcus aureus D30] gi|262051832|ref|ZP_06024048.1| hypothetical protein SA930_1382 [Staphylococcus aureus 930918-3] gi|269202811|ref|YP_003282080.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ED98] gi|282892683|ref|ZP_06300918.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A8117] gi|282919979|ref|ZP_06327708.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9765] gi|282927537|ref|ZP_06335153.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A10102] gi|284024121|ref|ZP_06378519.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus 132] gi|295407135|ref|ZP_06816936.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A8819] gi|296275218|ref|ZP_06857725.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus MR1] gi|297245979|ref|ZP_06929838.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A8796] gi|304381241|ref|ZP_07363894.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|13700996|dbj|BAB42292.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus N315] gi|14246967|dbj|BAB57359.1| similar to ribosomal large subunit psudouridine synthase D [Staphylococcus aureus subsp. aureus Mu50] gi|57285952|gb|AAW38046.1| ribosomal large subunit pseudouridine synthases, RluD subfamily [Staphylococcus aureus subsp. aureus COL] gi|87202461|gb|ABD30271.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147740757|gb|ABQ49055.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus JH9] gi|149946198|gb|ABR52134.1| pseudouridine synthase, RluA family [Staphylococcus aureus subsp. aureus JH1] gi|150374120|dbj|BAF67380.1| pseudouridylate synthase [Staphylococcus aureus subsp. aureus str. Newman] gi|156721653|dbj|BAF78070.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus Mu3] gi|253724413|gb|EES93142.1| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253728619|gb|EES97348.1| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus TCH130] gi|257789719|gb|EEV28059.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9781] gi|257839307|gb|EEV63781.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9763] gi|257844303|gb|EEV68685.1| pseudouridylate synthase [Staphylococcus aureus A9719] gi|257848019|gb|EEV72012.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9299] gi|257850027|gb|EEV73980.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus A8115] gi|257853824|gb|EEV76783.1| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus A6300] gi|257857463|gb|EEV80361.1| pseudouridine synthase [Staphylococcus aureus A6224] gi|257859712|gb|EEV82554.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A5948] gi|257863237|gb|EEV86001.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A5937] gi|259160233|gb|EEW45261.1| hypothetical protein SA930_1382 [Staphylococcus aureus 930918-3] gi|259163666|gb|EEW48221.1| hypothetical protein SAD30_1876 [Staphylococcus aureus D30] gi|262075101|gb|ACY11074.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ED98] gi|269940689|emb|CBI49070.1| putative RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus TW20] gi|282590540|gb|EFB95617.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A10102] gi|282594695|gb|EFB99679.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A9765] gi|282764680|gb|EFC04805.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A8117] gi|285816879|gb|ADC37366.1| Ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus 04-02981] gi|294967988|gb|EFG44016.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A8819] gi|297177143|gb|EFH36397.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus A8796] gi|302751019|gb|ADL65196.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304340224|gb|EFM06165.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312829590|emb|CBX34432.1| pseudouridine synthase, RluA family protein [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315130988|gb|EFT86972.1| hypothetical protein CGSSa03_05574 [Staphylococcus aureus subsp. aureus CGS03] gi|320140988|gb|EFW32835.1| pseudouridine synthase, RluA family [Staphylococcus aureus subsp. aureus MRSA131] gi|329313865|gb|AEB88278.1| Pseudouridine synthase [Staphylococcus aureus subsp. aureus T0131] gi|329724740|gb|EGG61245.1| pseudouridine synthase, RluA family [Staphylococcus aureus subsp. aureus 21189] gi|329727173|gb|EGG63629.1| pseudouridine synthase, RluA family [Staphylococcus aureus subsp. aureus 21172] Length = 305 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 64/244 (26%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNNDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|221066026|ref|ZP_03542131.1| pseudouridine synthase, RluA family [Comamonas testosteroni KF-1] gi|220711049|gb|EED66417.1| pseudouridine synthase, RluA family [Comamonas testosteroni KF-1] Length = 358 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 31/240 (12%), Positives = 63/240 (26%), Gaps = 40/240 (16%) Query: 13 PQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 QRV KV+A G+ SR +++++A V +NG +L + +V V D + V+ P Sbjct: 53 GQRVDKVLA-LGVSEFSRSYLQQLLADGAVTLNGKVLLKPSVKVAVGDRLRVEMRPTQQS 111 Query: 67 -----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI----------- 104 + + L + +V + + L Sbjct: 112 MAFQPEAMDLQVVYEDEDLLVINKPAGLVVHPAPGNWTGTLLNGLLARDEKARQVPRAGI 171 Query: 105 ----------FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 V ++ L + V D Sbjct: 172 VHRLDKDTSGLMVVARNRSTMDALIKMIAAREVSRQYLALAHKQWGSRKRREVDAPIGRD 231 Query: 155 QDKLNLL-KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + L +++ V L G+ +I+ + Sbjct: 232 PRNRLRMAVVDLNLHPGKQARTDFDLLDGDAAHSLVRCTLHTGRTHQIRVHMASLGHPLI 291 >gi|42782985|ref|NP_980232.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus ATCC 10987] gi|49186742|ref|YP_029994.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|118479113|ref|YP_896264.1| ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis str. Al Hakam] gi|165872288|ref|ZP_02216925.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0488] gi|167636442|ref|ZP_02394741.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0442] gi|167641146|ref|ZP_02399401.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0193] gi|170688858|ref|ZP_02880061.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0465] gi|170708814|ref|ZP_02899250.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0389] gi|177654900|ref|ZP_02936617.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0174] gi|190565878|ref|ZP_03018797.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis Tsiankovskii-I] gi|196035788|ref|ZP_03103190.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus W] gi|196045901|ref|ZP_03113130.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus 03BB108] gi|218905022|ref|YP_002452856.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus AH820] gi|225865874|ref|YP_002751252.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus 03BB102] gi|228916530|ref|ZP_04080096.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228928941|ref|ZP_04091973.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228935208|ref|ZP_04098034.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228947612|ref|ZP_04109902.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229092938|ref|ZP_04224071.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-42] gi|229123406|ref|ZP_04252610.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus 95/8201] gi|229186133|ref|ZP_04313302.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BGSC 6E1] gi|254683398|ref|ZP_05147258.1| ribosomal large subunit pseudouridine synthase, RluA family protein [Bacillus anthracis str. CNEVA-9066] gi|254735932|ref|ZP_05193638.1| ribosomal large subunit pseudouridine synthase, RluA family protein [Bacillus anthracis str. Western North America USA6153] gi|254739820|ref|ZP_05197513.1| ribosomal large subunit pseudouridine synthase, RluA family protein [Bacillus anthracis str. Kruger B] gi|254751010|ref|ZP_05203049.1| ribosomal large subunit pseudouridine synthase, RluA family protein [Bacillus anthracis str. Vollum] gi|301055383|ref|YP_003793594.1| ribosomal large subunit pseudouridylate synthase D [Bacillus anthracis CI] gi|42738912|gb|AAS42840.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Bacillus cereus ATCC 10987] gi|49180669|gb|AAT56045.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne] gi|118418338|gb|ABK86757.1| ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis str. Al Hakam] gi|164711964|gb|EDR17504.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0488] gi|167510926|gb|EDR86317.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0193] gi|167528184|gb|EDR90971.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0442] gi|170126299|gb|EDS95190.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0389] gi|170667213|gb|EDT17973.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0465] gi|172080411|gb|EDT65498.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0174] gi|190562797|gb|EDV16763.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis Tsiankovskii-I] gi|195991437|gb|EDX55403.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus W] gi|196023341|gb|EDX62019.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus 03BB108] gi|218538740|gb|ACK91138.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus AH820] gi|225786554|gb|ACO26771.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus 03BB102] gi|228597309|gb|EEK54960.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BGSC 6E1] gi|228660182|gb|EEL15818.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus 95/8201] gi|228690442|gb|EEL44226.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock3-42] gi|228812132|gb|EEM58463.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228824373|gb|EEM70179.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228830748|gb|EEM76353.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228843109|gb|EEM88191.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|300377552|gb|ADK06456.1| ribosomal large subunit pseudouridylate synthase D [Bacillus cereus biovar anthracis str. CI] gi|324327791|gb|ADY23051.1| 23S rRNA pseudouridine synthase D [Bacillus thuringiensis serovar finitimus YBT-020] Length = 302 Score = 70.6 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >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 = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 29/57 (50%) Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 G +++ L EG++R+I+++ E +V ++ RI G LG L G R + Sbjct: 226 GKTTRLSIELLEGRHRQIRRMCELVGLRVLKIHRIRIGKVSLGNLPQGRWRLLLPHE 282 >gi|196038675|ref|ZP_03105983.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus NVH0597-99] gi|196030398|gb|EDX68997.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus NVH0597-99] Length = 302 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVIRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|49478436|ref|YP_037954.1| ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis serovar konkukian str. 97-27] gi|49329992|gb|AAT60638.1| ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis serovar konkukian str. 97-27] Length = 302 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVREDDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|323435911|ref|ZP_01048953.2| pseudouridylate synthase [Dokdonia donghaensis MED134] gi|321496226|gb|EAQ40187.2| pseudouridylate synthase [Dokdonia donghaensis MED134] Length = 190 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 35/172 (20%), Positives = 66/172 (38%), Gaps = 21/172 (12%) Query: 86 TTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 T + + ++VGRLD ++EGLL +T DG L+ + ++ + Y Sbjct: 19 TNDARQARKKKFLKEFYDFPEGTMAVGRLDEHSEGLLFMTTDGKLSHTI--NTSGVEKEY 76 Query: 146 RVRFHGQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQK---------------GSN 186 + G + + + L +G+ I + + G Sbjct: 77 YAQVDGAITDEAILALTQGVEISVEGKKYITKPCKARRIDGDPGFPERSKKIRDLRHGPA 136 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSK 238 W+++ + EGK R+++K+ + RL+RI G L L EV + Sbjct: 137 PWISITITEGKFRQVRKMTSAVGFATLRLVRIKIGSQTLKGLEPSQVIEVKE 188 >gi|299535889|ref|ZP_07049209.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis ZC1] gi|298728641|gb|EFI69196.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis ZC1] Length = 303 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 33/243 (13%), Positives = 70/243 (28%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 ++E +R+ K ++ SR ++ I+ +KVNG ++ A V + D I +D Sbjct: 7 TIEEQQQGERIDKALSSLQSEWSRTQIGNWISDGVIKVNGDAVK-AKYKVKAGDIIAIDV 65 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + + L + +V G + V + Sbjct: 66 PEVEELDVVPENLDLDIVYEDADVLVVNKPKGMVVHPAPGHMGGTLVNGLMYHCKDLSGI 125 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQ--- 155 G L + G L + + + V H D+ Sbjct: 126 NGVLRPGIVHRIDKDTSGLLMVAKNDTAHESLVNQLVNKTVTRKYIALVHGHIAHDKGTI 185 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +K V+ + + + G V L G+ +I+ + + Sbjct: 186 DAPIGRDQKDRQKQAVVDNGKHAVTHFQVVERFGDYTLVECRLETGRTHQIRVHMNYIGF 245 Query: 211 KVN 213 + Sbjct: 246 PLV 248 >gi|229061498|ref|ZP_04198842.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH603] gi|228717732|gb|EEL69382.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH603] Length = 302 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 61/241 (25%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSVK-GNYKVKVNDEITVTI 66 Query: 63 ------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D P + + L + +V + V + Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---------- 160 G + + G L + + L V + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 161 ----------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V + + + V L G+ +I+ ++ + Sbjct: 187 DAPIGRDKKERQSMTVDENGKNAVTHFQVLDRFKDFTLVECRLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|163941632|ref|YP_001646516.1| RluA family pseudouridine synthase [Bacillus weihenstephanensis KBAB4] gi|229013077|ref|ZP_04170242.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides DSM 2048] gi|163863829|gb|ABY44888.1| pseudouridine synthase, RluA family [Bacillus weihenstephanensis KBAB4] gi|228748331|gb|EEL98191.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides DSM 2048] Length = 302 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 61/241 (25%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSVK-GNYKVKGNDEITVTI 66 Query: 63 ------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D P + + L + +V + V + Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---------- 160 G + + G L + + L V + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGII 186 Query: 161 ----------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V + + + V L G+ +I+ ++ + Sbjct: 187 DAPIGRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|229134702|ref|ZP_04263511.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-ST196] gi|228648748|gb|EEL04774.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-ST196] Length = 302 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 61/241 (25%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSVK-GNYKVKGNDEITVTI 66 Query: 63 ------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D P + + L + +V + V + Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---------- 160 G + + G L + + L V + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGII 186 Query: 161 ----------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V + + + V L G+ +I+ ++ + Sbjct: 187 DAPIGRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|169350183|ref|ZP_02867121.1| hypothetical protein CLOSPI_00927 [Clostridium spiroforme DSM 1552] gi|169292966|gb|EDS75099.1| hypothetical protein CLOSPI_00927 [Clostridium spiroforme DSM 1552] Length = 306 Score = 70.2 bits (170), Expect = 4e-10, Method: Composition-based stats. Identities = 41/248 (16%), Positives = 85/248 (34%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N++ EN R+ K+IA SR +++ MI + V VNG + E+A+ D Sbjct: 1 MEKINLLVENNNNYRLDKIIALNMEELSRTQIQEMIGRGLVLVNGKV-EKASYKTKLNDQ 59 Query: 60 IEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ + +PL ++ + + +V + V L Sbjct: 60 IEITIEDNSDLEIEAEDIPLNVVYEDKDVIVIDKPTGMIVHPSPGITSGTLVNALLFHCK 119 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRV 144 +R V R+D T GLL++ + R L + Sbjct: 120 DLSGINGVNRPGIVHRIDKETSGLLMVAKNDIAHRFLSEQLKDHSVTRRYVALVHGLIPH 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + + ++ + + T+ + + + + L G+ +I+ Sbjct: 180 VQGKIDAPIGRNPNDRQSMCVTKNNSKNAITNFTVLKRYKNMSLIECRLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 + + V Sbjct: 240 MSYIGYPV 247 >gi|229198004|ref|ZP_04324718.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus m1293] gi|228585483|gb|EEK43587.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus m1293] Length = 302 Score = 70.2 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|329728841|gb|EGG65262.1| pseudouridine synthase, RluA family [Staphylococcus aureus subsp. aureus 21193] Length = 305 Score = 70.2 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 64/244 (26%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNSDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKPKGMVVHPSPGHYTNTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + + V L G+ +I+ + Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKNYTLVECQLETGRTHQIRVHMRYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|229019095|ref|ZP_04175930.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH1273] gi|229025339|ref|ZP_04181757.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH1272] gi|228735924|gb|EEL86501.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH1272] gi|228742195|gb|EEL92360.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH1273] Length = 302 Score = 70.2 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 61/241 (25%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ K +A SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSVKV-NYKVKGNDEITVTI 66 Query: 63 ------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D P + + L + +V + V + Sbjct: 67 PDPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---------- 160 G + + G L + + L V + Sbjct: 127 NGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTI 186 Query: 161 ----------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V + + + V L G+ +I+ ++ + Sbjct: 187 DAPIGRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|306820474|ref|ZP_07454110.1| ribosomal large subunit pseudouridine synthase D [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304551549|gb|EFM39504.1| ribosomal large subunit pseudouridine synthase D [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 300 Score = 70.2 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 28/247 (11%), Positives = 67/247 (27%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M++ +QE+ R+ + SR +++ +I + +NG + A+V + + D + Sbjct: 1 MEEIFTLQEDENLIRLDVYLGDKLELSRSKIQSLIESGNISLNGNKAK-ASVKLKTGDTV 59 Query: 61 EVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 V+ + + L + + + + V L + Sbjct: 60 YVNYQEENKAEIKAQDIALDIVYEDDDVLVVNKPRGMVTHVANGNHEGTLVNALLYYLKD 119 Query: 107 R------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----- 155 + G + + L + Q R + + Sbjct: 120 DISLQNGMYRAGIVHRIDKDTSGLLVVAKNDFSSTELTNQLKDHSMTRVYTLICNGVIDE 179 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K VI+ Y + + L+ G+ +I+ Sbjct: 180 ETVIEQNIGRNPKDRMKYCVIEDGKYAHTTIIPLEIFEKYTYAKAILKTGRTHQIRVHLR 239 Query: 207 FFNWKVN 213 N + Sbjct: 240 HINRPIV 246 >gi|261883893|ref|ZP_06007932.1| pseudouridine synthase, Rsu:RNA-binding S4:pseudouridine synthase [Campylobacter fetus subsp. venerealis str. Azul-94] Length = 163 Score = 70.2 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 3/76 (3%) Query: 174 DMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + T+ + G +TV + EG+NRE+++ +++ +V L R+S+G L L G Sbjct: 65 FLAYTIISLSGGYTRLTVIINEGQNRELRRFLGYYDLEVMDLNRVSFGRVSLDQLGEGKW 124 Query: 234 REVSKKI---LREQLG 246 R + LR+ L Sbjct: 125 RYFTNSEYDDLRDFLK 140 >gi|149194036|ref|ZP_01871134.1| Pseudouridine synthase, RluD [Caminibacter mediatlanticus TB-2] gi|149135989|gb|EDM24467.1| Pseudouridine synthase, RluD [Caminibacter mediatlanticus TB-2] Length = 308 Score = 70.2 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 27/230 (11%), Positives = 66/230 (28%), Gaps = 33/230 (14%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ K +A SR ++E++I + VKVN ++ ++ + + +EV +P++K Sbjct: 7 DKNKRLDKFLANKLNVSRNQIEQLIKKGYVKVNEKVITKSGYKLKENEKVEV--LPIKKE 64 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 E+ L + S + + +G L T G Sbjct: 65 EKETKKANFDIPILYEDEDLLVINKPPGIVVHPAPSYKEATLVDWLKQKGYSLSTIAGEE 124 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-------GIVIQGICYGDMQVTLDTQK 183 + + V + L+ K +++ + + + Sbjct: 125 RFGIVHRIDKETSGALVIAKNNKTHEFLSNQLKDKSMGRYYLMLLNEPLKEAKCVEEKIG 184 Query: 184 G-SNAWVTVGL-----------------------REGKNREIKKVFEFFN 209 + + + G+ +I+ Sbjct: 185 RNPKNRLKMAIVKNGKEAKTLFVPIFDNLTAAKLYTGRTHQIRVHLTKLG 234 >gi|308751621|gb|ADO45104.1| pseudouridine synthase, RluA family [Hydrogenobacter thermophilus TK-6] Length = 326 Score = 70.2 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 69/245 (28%), Gaps = 37/245 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + +R+ + A G SR V+++I V V+ +++ + + + I Sbjct: 15 VVDQEAQGKRLDLFLTEAYGEFSRSYVQKLIEDGFVLVDDKEIKKPSRRLKAGQKITFYI 74 Query: 63 ----------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +P + + L L +V + V L I Sbjct: 75 PQVEPLEVLPEDIPFDVVYEDEDILVLIKPCGLVVHPSPGYSSGTLVNALLFRIKELSGI 134 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------------- 156 G+ L G + + + L ++ Sbjct: 135 GGKERPGIVHRLDKNTAGLMVVAKSDKAHRSLVEEFMQRRVLKRYHALVSGLLREDSGTV 194 Query: 157 ------KLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTVGLREGKNREIKKVFEFF 208 KK V++ + + +K ++ V + G+ +I+ F Sbjct: 195 EKSIGRHPVDRKKFSVVEDGKPAKTEYEVIKRFEKHRITFLDVRIHTGRTHQIRVHLSFI 254 Query: 209 NWKVN 213 V Sbjct: 255 GHPVL 259 >gi|167758164|ref|ZP_02430291.1| hypothetical protein CLOSCI_00502 [Clostridium scindens ATCC 35704] gi|167664061|gb|EDS08191.1| hypothetical protein CLOSCI_00502 [Clostridium scindens ATCC 35704] Length = 304 Score = 69.8 bits (169), Expect = 5e-10, Method: Composition-based stats. Identities = 38/250 (15%), Positives = 81/250 (32%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK+ V EN +R+ + ++ SR ++++I + V VN ++ A + D Sbjct: 1 MKEFFTV-ENQDGERIDRYLSEELADRSRSYIQKLIKENYVTVNQKPVK-ANYRLSLGDR 58 Query: 60 IEVD------------GVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF- 105 +E+D +PL E + + +KP +V + T+ + L Sbjct: 59 VEIDLPEAKEPDIRPEDIPLDILYEDKDIIIVNKPKQMVVHPAPGHYSQTLVNALMYHCG 118 Query: 106 ---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------------- 143 R V R+D++T G L+ + + L + Sbjct: 119 SDLSGINGTMRPGIVHRIDMDTTGSLVACKNDMAHQSLSRQLKEHSIRRIYVAIVHGNIK 178 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + K I + + + G ++ L G+ +I+ Sbjct: 179 EEYGTVNAPIGRHPTERKKMSIHSRNGREAVTHYQVLERFGDYTYIRCELETGRTHQIRV 238 Query: 204 VFEFFNWKVN 213 + Sbjct: 239 HMASLGHPLL 248 >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 = 69.8 bits (169), Expect = 5e-10, Method: Composition-based stats. Identities = 39/182 (21%), Positives = 72/182 (39%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 39 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 96 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 97 AEPRHKLVKRYWAQVEGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPETLWPRNPPIR 156 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L T + Sbjct: 157 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGSLDIFALGIAPSETIALP 216 Query: 238 KK 239 + Sbjct: 217 PR 218 >gi|256028259|ref|ZP_05442093.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. D11] gi|289766191|ref|ZP_06525569.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. D11] gi|289717746|gb|EFD81758.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. D11] Length = 328 Score = 69.8 bits (169), Expect = 5e-10, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 67/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K ++ A+R +E++I VK+N ++ + + + IEV Sbjct: 12 VNSKYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKIEVLIP 71 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D P + + + +V + V L + Sbjct: 72 EEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNNLSSIN 131 Query: 112 GRLDINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + + + + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKSNYAHAKLASMFIDKTIHKTYLCIVKGNFSEENLSGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K +V + + Q + V V + G+ +I+ + Sbjct: 192 IENLIGRDSKDRKKMAVVKENGKIAISNYKVVEQVEGYSLVEVAIETGRTHQIRVHMKSI 251 Query: 209 NWKVN 213 N + Sbjct: 252 NHVIL 256 >gi|52080148|ref|YP_078939.1| pseudouridine synthase [Bacillus licheniformis ATCC 14580] gi|52785525|ref|YP_091354.1| YlyB [Bacillus licheniformis ATCC 14580] gi|319646073|ref|ZP_08000303.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] gi|52003359|gb|AAU23301.1| Pseudouridine synthase [Bacillus licheniformis ATCC 14580] gi|52348027|gb|AAU40661.1| YlyB [Bacillus licheniformis ATCC 14580] gi|317391823|gb|EFV72620.1| pseudouridine synthase [Bacillus sp. BT1B_CT2] Length = 304 Score = 69.8 bits (169), Expect = 5e-10, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 68/245 (27%), Gaps = 43/245 (17%) Query: 6 IVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 V E +R+ K + A SR +V++ I + RV VNG ++ A V D + Sbjct: 7 TVHEEHKGERIDKYLTAVEADW---SRTQVQQWIKEDRVLVNGNAVK-ANYKVQEGDAVS 62 Query: 62 V---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V + PL ++ L + +V + V + Sbjct: 63 VQVPEPEPLDVTAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCDDL 122 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYR 146 G + + G L + + L Sbjct: 123 SGINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKYTALVHGVIPHDH 182 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + +DK + + + + + + V L G+ +I+ + Sbjct: 183 GTIDAPIGRDKKDRQSMTVTRENGKHAVTHFEVIERFDDFTVVECQLETGRTHQIRVHMK 242 Query: 207 FFNWK 211 + + Sbjct: 243 YIGFP 247 >gi|254757932|ref|ZP_05209959.1| ribosomal large subunit pseudouridine synthase, RluA family protein [Bacillus anthracis str. Australia 94] Length = 249 Score = 69.8 bits (169), Expect = 6e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|126649705|ref|ZP_01721941.1| YlyB [Bacillus sp. B14905] gi|126593424|gb|EAZ87369.1| YlyB [Bacillus sp. B14905] Length = 303 Score = 69.8 bits (169), Expect = 6e-10, Method: Composition-based stats. Identities = 29/243 (11%), Positives = 68/243 (27%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 ++E +R+ K ++ SR ++ ++ +KVNG ++ V + D I +D Sbjct: 7 TIEEQQQGERIDKALSSLQSEWSRTQIGNWVSDGNIKVNGDAVK-PKYKVKAGDVIAIDV 65 Query: 64 --GVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + L + +V + V + Sbjct: 66 PEAEPLDVIAENLALDIVYEDADVLVVNKPKGMVVHPAPGHLTGTLVNGLMYQCKDLSGI 125 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQ--- 155 G + + G L + + + V H D+ Sbjct: 126 NGIMRPGIVHRIDKDTSGLLMVAKNDVAHESLVDQLVNKTVTRKYIALVHGHIAHDKGTI 185 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +K ++ + + + G V L G+ +I+ + + Sbjct: 186 DAPIGRDQKDRQKQAIVDNGKHAVTHFHVVERFGDYTLVECRLETGRTHQIRVHMNYIGF 245 Query: 211 KVN 213 + Sbjct: 246 PLV 248 >gi|331269364|ref|YP_004395856.1| RluA family pseudouridine synthase [Clostridium botulinum BKT015925] gi|329125914|gb|AEB75859.1| pseudouridine synthase, RluA family [Clostridium botulinum BKT015925] Length = 304 Score = 69.8 bits (169), Expect = 6e-10, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 68/246 (27%), Gaps = 36/246 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + I+ EN R+ I+ + SR ++++I + VKVNG +++ + D + Sbjct: 4 KEFIIHENLVNCRLDLFISNSLEGKSRSYIQKLIQEGHVKVNGKD-KKSNYKLKLHDSVV 62 Query: 62 VDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V+ + + + + + +V + + V L + Sbjct: 63 VNNIEKEDKKINPENIEMDILYEDNDIIVINKSQGMVVHPATSNYSGTLVNALLYHCDTL 122 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 + G L + + L + + Sbjct: 123 STLNDDTRPGIVHRIDKDTSGVLVVAKNNKAHEILAEQLKEHSMKREYIAVVEGIVKEEN 182 Query: 156 --------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 K V++G + + N V L G+ +I+ + Sbjct: 183 GLVDEPLGRNPKDRIKMAVVEGGKNAVTHYEVLKRFKKNTLVKCILETGRTHQIRVHMSY 242 Query: 208 FNWKVN 213 + Sbjct: 243 IGHPLV 248 >gi|260495646|ref|ZP_05815770.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 3_1_33] gi|260196829|gb|EEW94352.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 3_1_33] Length = 328 Score = 69.8 bits (169), Expect = 6e-10, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 67/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K ++ A+R +E++I VK+N ++ + + + IEV Sbjct: 12 VNSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKIEVSIP 71 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D P + + + +V + V L + Sbjct: 72 EEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNNLSSIN 131 Query: 112 GRLDINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + + + + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKSNYAHAKLASMFIDKTIHKTYLCIVKGNFSEENLSGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K +V + + Q + V V + G+ +I+ + Sbjct: 192 IENLIGRDSKDRKKMAVVKENGKIAISNYKVVEQVEGYSLVEVAIETGRTHQIRVHMKSI 251 Query: 209 NWKVN 213 N + Sbjct: 252 NHVIL 256 >gi|237740892|ref|ZP_04571373.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 4_1_13] gi|229431189|gb|EEO41401.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 4_1_13] Length = 314 Score = 69.8 bits (169), Expect = 6e-10, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 66/245 (26%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K +++ A+R +E++I VK+N ++ + + + IEV Sbjct: 12 VSSEYEGMRLDKYLSKQIEEATRSYLEKLIDNNYVKINSKVINKNGRKLKLGEKIEVSIP 71 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D + + + +V + V L + Sbjct: 72 KEENIDIEAENISLDIVYENDDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTNNLSSIN 131 Query: 112 GRLDINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + + + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKNNYAHAKLASMFTDKTIHKTYLCIVKGNFSEENLNGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K +V + + Q + V + + G+ +I+ + Sbjct: 192 IENLIGRDSKDRKKMAVVKENGKTAISNYKVIEQVDGYSLVEIAIETGRTHQIRVHMKSI 251 Query: 209 NWKVN 213 N + Sbjct: 252 NHVIL 256 >gi|313893115|ref|ZP_07826692.1| pseudouridine synthase, RluA family [Veillonella sp. oral taxon 158 str. F0412] gi|313442468|gb|EFR60883.1| pseudouridine synthase, RluA family [Veillonella sp. oral taxon 158 str. F0412] Length = 307 Score = 69.8 bits (169), Expect = 6e-10, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 67/242 (27%), Gaps = 34/242 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGIL--------------LERA- 50 IV R+ + SR ++ +I V V G + +E Sbjct: 5 IVSAEQEGMRLDVFLTEQMEGSRSYIQSLIKGGHVIVGGKVGKANLRLTPNMVIQVEIPE 64 Query: 51 --AVNVMSTDH---IEVDGVPLRKAERTRLWLYHKPIGLVTTH--------------SDP 91 +V V D + + + + R + H +G + + Sbjct: 65 PESVEVKPEDIPLDVLYEDHDIIIVNKARGMVVHPAVGNYSGTLVNALLFHCKDLSGING 124 Query: 92 DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + R + L S V+ + D GL + R + + Sbjct: 125 EIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAEQVKEHSAKRTYWALVQGNIVEEKGTIKA 184 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + +K +V + + + G V L G+ +I+ F Sbjct: 185 PIGRHPKDRMKMAVVFENSKDAVTHFRVLERYGHQTLVECNLETGRTHQIRVHFAHIGHP 244 Query: 212 VN 213 V Sbjct: 245 VV 246 >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 = 69.8 bits (169), Expect = 7e-10, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 29/57 (50%) Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 G +++ L EG++R+I+++ E +V ++ RI G LG L G R + Sbjct: 227 GKTTRLSIELLEGRHRQIRRMCELVGLRVLKIHRIRIGKVSLGNLPQGRWRLLLPHE 283 >gi|293376242|ref|ZP_06622485.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909] gi|325845167|ref|ZP_08168476.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1] gi|292645134|gb|EFF63201.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909] gi|325488832|gb|EGC91232.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1] Length = 302 Score = 69.8 bits (169), Expect = 7e-10, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 71/247 (28%), Gaps = 37/247 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ +N IV E R+ KV+ + SR ++++I + RV +NG + + A D Sbjct: 1 MEQENMIVTEELVGVRLDKVLNESFEDYSRSYLQQLIKEGRVLINGQVAK-ANYKCRLND 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 IE++ P + + + + +V + V + + Sbjct: 60 QIEINIPEPEVLDVIPEEMDLDIVYQDDYVIVVNKPENMVVHPAPGSMSGTLVNGLMAQV 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 G L + G L + + L V Sbjct: 120 TDLSGINGVLRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQLVEKTVTRRYVALVHGVIP 179 Query: 156 -----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 KK V++ + + + + L G+ +I+ Sbjct: 180 HDNGTIDAPIGRDPKDRKKMAVVESGKHAVTHFKVLQRFKEFTLIECRLETGRTHQIRVH 239 Query: 205 FEFFNWK 211 + + Sbjct: 240 MRYIGYP 246 >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 = 69.8 bits (169), Expect = 7e-10, Method: Composition-based stats. Identities = 23/98 (23%), Positives = 45/98 (45%), Gaps = 1/98 (1%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + T R+SK+++ + + SR + + +I +VKVN ++ + V V IE++G P+ Sbjct: 8 KRSTLLRLSKILSLSAVTSRGKAQELIKNGKVKVNNQVVRQ-NVAVDINSAIELEGKPIL 66 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 T+LW +KP + + + L Sbjct: 67 VDVTTKLWGIYKPKHVFCSSERNYEYEEKREALKGRPH 104 Score = 39.0 bits (89), Expect = 1.0, Method: Composition-based stats. Identities = 32/134 (23%), Positives = 62/134 (46%), Gaps = 1/134 (0%) Query: 96 TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 T + I +I V L ++EGL+LLTNDG AR L+ + Y ++ ++ Sbjct: 211 TKNNFSNDIPEHLIVVNSLSASSEGLVLLTNDGDFARNLKDAHNNIITTYIIKVKEELTN 270 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQK-GSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 +K+ L+++G + + + V + S W+ E + + +F +N + + Sbjct: 271 EKIKLIERGCHVGDLHIRPLTVHVIKPNCASPKWIKFTYVEKSHTHLDLLFSKYNLTIRK 330 Query: 215 LIRISYGPFQLGTL 228 R S+GP++ L Sbjct: 331 CKRFSFGPYKASDL 344 >gi|319649641|ref|ZP_08003797.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] gi|317398803|gb|EFV79485.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2] Length = 300 Score = 69.4 bits (168), Expect = 7e-10, Method: Composition-based stats. Identities = 36/243 (14%), Positives = 75/243 (30%), Gaps = 36/243 (14%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++I+ + +R+ KV++ SR +V++ I V VNG + + D IE+ Sbjct: 2 EHIIPDEQAGERIDKVLSTLNADWSRTQVQQWIKDGNVLVNGQKPKT-NYKCTANDKIEI 60 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---- 104 D VP + ++ L + +V + + V + Sbjct: 61 SIPEPEELDVVPEKMDLDIYYEDKDVLVVNKPKGMVVHPAAGHGTGTLVNGLMAHCTDLS 120 Query: 105 ----FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN- 159 R V R+D +T GLL++ + L + R Sbjct: 121 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLMNKTVTRKYRAVVHGVIPHDYG 180 Query: 160 -----------LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V+ + + + V L G+ +I+ ++ Sbjct: 181 TIDAPIARDPKDRQSMTVVDNGKHAVTHFQVLERFRDFTLVECQLETGRTHQIRVHMKYI 240 Query: 209 NWK 211 + Sbjct: 241 GYP 243 >gi|224476300|ref|YP_002633906.1| putative ribosomal large subunit pseudouridine synthase D [Staphylococcus carnosus subsp. carnosus TM300] gi|222420907|emb|CAL27721.1| putative ribosomal large subunit pseudouridine synthase D [Staphylococcus carnosus subsp. carnosus TM300] Length = 305 Score = 69.4 bits (168), Expect = 7e-10, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 63/246 (25%), Gaps = 36/246 (14%) Query: 3 DKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + I + QR+ K++ SR +++ I + V VNG ++ A V D IE Sbjct: 5 NYEITEAEQAGQRIDKLLPEFNSDWSRSQIQDWIKEDLVTVNGKKVK-ANHKVKLNDKIE 63 Query: 62 V--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V D P + + +Y +V + V + I Sbjct: 64 VTEKETVEADIKPENLNLDIYYEDSDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKDL 123 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 G + + G L + + L + Sbjct: 124 SGINGEIRPGIVHRIDKDTSGLLMVAKNDIAHRNLVEQLMAKTVTRKYTALVHGNIPHDY 183 Query: 156 --------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + V+ + V L G+ +I+ ++ Sbjct: 184 GTIDAPIGRDKKDRQSMAVVDDGKDAVTHFNVLEHFKDYTLVECELETGRTHQIRVHMKY 243 Query: 208 FNWKVN 213 + Sbjct: 244 IGHPLV 249 >gi|312875944|ref|ZP_07735934.1| pseudouridine synthase, RluA family [Caldicellulosiruptor lactoaceticus 6A] gi|311797425|gb|EFR13764.1| pseudouridine synthase, RluA family [Caldicellulosiruptor lactoaceticus 6A] Length = 300 Score = 69.4 bits (168), Expect = 7e-10, Method: Composition-based stats. Identities = 34/236 (14%), Positives = 74/236 (31%), Gaps = 39/236 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K ++ A +R V+++I + V VN + + A V S D I+V Sbjct: 9 RLDKYLSEALSKTRSFVQKIIEEGNVWVNQTQVLKPAYKVKSGDIIKVVIPEPKQLSLVA 68 Query: 63 ---DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG------- 112 D + + E + +V + + V L R+ S+ Sbjct: 69 QDIDIEVVYEDEHLAVI-NKPCGMVVHPGTGNFENTLVNALLHKFSGRLSSINGVIRPGI 127 Query: 113 ---------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + D L + R+ L+ + + + Sbjct: 128 VHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEGVLKEDSGVINAPIGRHP 187 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +N LK +V G + + ++ + L+ G+ +I+ + + + Sbjct: 188 VNRLKMAVVPNGKEA-VTYFEVLERFDKYTFIKLRLKTGRTHQIRVHMSYIGYPLL 242 >gi|77406381|ref|ZP_00783442.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae H36B] gi|77175005|gb|EAO77813.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae H36B] Length = 296 Score = 69.4 bits (168), Expect = 7e-10, Method: Composition-based stats. Identities = 30/236 (12%), Positives = 62/236 (26%), Gaps = 35/236 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------ 63 R+ K +A SR + I + V VNG + ++A V D I D Sbjct: 6 KVAGVRLDKALADNSELSRSQANEEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKKEV 64 Query: 64 ------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 +PL + + +V + + V + I G + Sbjct: 65 LDYQAENIPLDIIYQDDDVAVVNKPQGMVVHPSAGHSSGTLVNALMYHIKDLSSINGVVR 124 Query: 116 INTEGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 ++ ND + E + + + +++ I Sbjct: 125 PGIVHRIDKDTSGLLMVAKNDRAHQVLAEELKDKKSLRKYLAIVHGNLPNDQGVIEAPIG 184 Query: 167 IQGI---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + G V + L G+ +I+ + Sbjct: 185 RSDKDRKKQAVTAKGKPAVTRFHVLERFGDYTLVELSLETGRTHQIRVHMAYIGHP 240 >gi|315636965|ref|ZP_07892189.1| RluA family ribosomal large subunit pseudouridine synthase [Arcobacter butzleri JV22] gi|315478795|gb|EFU69504.1| RluA family ribosomal large subunit pseudouridine synthase [Arcobacter butzleri JV22] Length = 328 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 44/256 (17%), Positives = 79/256 (30%), Gaps = 46/256 (17%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M IV E R+ K +A+ ASR ++E++I ++ VKV+G + + + + ++ Sbjct: 1 MNKNFIVLETN---RLDKFLAQNIDASRNQIEQLIKKEFVKVDGKITNKTGLKLKENQNV 57 Query: 61 EV---------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 EV D E + + +KP L + +T+ D Sbjct: 58 EVFFPEAQLNKRKDEEFLKNSLEDKEVEIIYEDDYILVLNKPYNLTVHDAPSVKDATLVD 117 Query: 100 NLPSIFS---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------- 143 L R V RLD T G++++ L Sbjct: 118 WLKLKNISLSTISGEERHGIVHRLDKGTSGVMVIAKTNEAHLNLSKQLEDKSMGRYYLAI 177 Query: 144 -----VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-VGLREGK 197 V + ++ N LK I G + + L G+ Sbjct: 178 LDLALKENVIIEKPIGRNPNNRLKMSIEENGRYAKSAFSKIALSDNEKFELIACKLYTGR 237 Query: 198 NREIKKVFEFFNWKVN 213 +I+ N + Sbjct: 238 THQIRVHLSSINRHIL 253 >gi|241764488|ref|ZP_04762509.1| pseudouridine synthase, RluA family [Acidovorax delafieldii 2AN] gi|241366072|gb|EER60669.1| pseudouridine synthase, RluA family [Acidovorax delafieldii 2AN] Length = 353 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 36/245 (14%), Positives = 72/245 (29%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V R+ + + SR ++++++Q V +NG +AA V + D + V+ Sbjct: 51 VNAAQHGSRLDRALVDLVPEFSRSYLQQLLSQGLVALNGQQATKAAARVKAGDTLTVEMR 110 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + L + +V G + + L + Sbjct: 111 PTLQSQAFRPEALPIDVVYEDAHLLVVNKPAGLVVHPAPGNWGGTLLNGLLARDAKAQLV 170 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ D L + Sbjct: 171 PRAGIVHRLDKDTSGLMVVARDRTTMDALVRMIAARTVHRQYLAIAHRPWTGVPNRAVQA 230 Query: 156 ----DKLNLLKKGIVIQGICY-GDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFF 208 D N L+ +V + + G++ WV L G+ +I+ Sbjct: 231 PIGRDPRNRLRMAVVNLDTHAGKPARTDIRWLAGNDLGCWVECTLHTGRTHQIRVHMASL 290 Query: 209 NWKVN 213 + Sbjct: 291 GHPLV 295 >gi|283769500|ref|ZP_06342396.1| pseudouridine synthase, RluA family [Bulleidia extructa W1219] gi|283103768|gb|EFC05154.1| pseudouridine synthase, RluA family [Bulleidia extructa W1219] Length = 303 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 37/248 (14%), Positives = 76/248 (30%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ + +V E R+ K ++ SR ++ +I +Q+V VNG ++ + V D I Sbjct: 1 MEKRRLVVEKS-GLRLDKYVSDHCELSRSFLQDLIKEQQVLVNGKAVKS-SYKVNLEDII 58 Query: 61 EV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-- 104 E D + + + + + +V + V L Sbjct: 59 EFAVPDLEEIEVIPQDIPLNVLYEDEDVIVVNKEKGMVVHPSLGHQDGTLVNALLFHCQD 118 Query: 105 ------FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R V R+D +T G L++ + L R + Sbjct: 119 LSGINGKIRPGIVHRIDKDTSGCLVIAKNDVAHIALSKQIETKEAYREYRLIVHGNIQHE 178 Query: 159 NLLKKGIVIQGICY-----------GDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVF 205 + L + + + K G +++ L G+ +I+ Sbjct: 179 DGLIDAPIGRDPKDRQRMAVVAENSRPAKTHFHVLKRFGQYTYLSCLLETGRTHQIRVHM 238 Query: 206 EFFNWKVN 213 ++ V Sbjct: 239 KYIQHPVL 246 >gi|163790406|ref|ZP_02184837.1| Pseudouridylate synthase, 23S rRNA-specific [Carnobacterium sp. AT7] gi|159874310|gb|EDP68383.1| Pseudouridylate synthase, 23S rRNA-specific [Carnobacterium sp. AT7] Length = 301 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 70/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++ R+ KV+ +R +++ I + V VNG L+ A V +D Sbjct: 1 MPQEHNFIIKEETGRLDKVLTELLPSITRSHIQQWIKEGNVTVNGENLK-ANYKVQPSDE 59 Query: 60 IEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + +P+ + + + +V + + V + I Sbjct: 60 IVIIEPELVSLEVLAEDIPIEIVYQDEDVVVVNKAQGMVVHPSAGHQTGTLVNALMYHIK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G + + G L + + L + Sbjct: 120 DLSGINGTIRPGIVHRIDKDTSGLLMVAKNDSAHEKLAAQLKDKTSLREYIALVHGVIPH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK +I G T+ + V++ L G+ +I+ Sbjct: 180 EKGTIDAPLGRSKVDRKKQDIIDGGREAVTHFTVLERFKDFTLVSLKLETGRTHQIRVHM 239 Query: 206 EFFNWK 211 ++ + Sbjct: 240 KYIGYP 245 >gi|241896496|ref|ZP_04783792.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313] gi|241870218|gb|EER73969.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313] Length = 304 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 38/246 (15%), Positives = 72/246 (29%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++++ + R+ KV+A A +R ++ + I + VNG ++A V + D Sbjct: 1 MTEESLTITDQEG-RLDKVVAEAFTDYTRTQMSKWIDDGILTVNGET-KKAKYKVHAGDV 58 Query: 60 IEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI- 104 I D P + + L + +V + + V + Sbjct: 59 ISFVVPEPVVLDIKPENLPLDIVYEDDDLLVVNKPQGMVVHPAAGHPNGTLVNALMYHTE 118 Query: 105 ------FSRVISVGRLDINTEGLLLLTNDGGLAR------------VLELPSTQWLRVYR 146 R V R+D +T GLL++ + Sbjct: 119 LSSINGVIRPGIVHRIDKDTSGLLMVAKNDQAHEALSADLKDKKNLRQYYALVHGEFSEN 178 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI G + + + V L G+ +I+ Sbjct: 179 KGTIKAPLGRSKTDRKKQAVIAGGRDAVTHFEVVKRYVGYTLLRVTLETGRTHQIRVHMA 238 Query: 207 FFNWKV 212 + V Sbjct: 239 YIGHPV 244 >gi|328463102|gb|EGF34868.1| 16S pseudouridylate synthase [Lactobacillus helveticus MTCC 5463] Length = 170 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 42/170 (24%), Positives = 72/170 (42%), Gaps = 4/170 (2%) Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + L TT + + + ++ VGRLD +T LLLLTNDG L L Sbjct: 1 MNKPKGVLSTTENRSQRTVISLLDPQDRYQGIVPVGRLDKDTTDLLLLTNDGQLNHELLA 60 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-QGICYGDMQVTLDTQKGSN--AWVTVGL 193 P+ ++Y + G D + + G+ + G + + Q N + + + + Sbjct: 61 PNKHVAKIYHAKIAGVADSNTVKTFATGMTLGDGTKLKTVTFNVLKQDVENGSSEIEIEI 120 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQL-GTLLAGSTREVSKKILR 242 EGK +IK++F +V L R+S G +L L G E+ ++ Sbjct: 121 SEGKYHQIKRMFSVVGMEVVELERVSMGKLRLPDDLKRGEYVEIDVDEIK 170 >gi|226313367|ref|YP_002773261.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] gi|226096315|dbj|BAH44757.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599] Length = 309 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 65/242 (26%), Gaps = 37/242 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V +R+ K I SR +V+ + + RV VNG ++ + + D + + Sbjct: 13 TVDPADKNERIDKFITLQNEDWSRSQVQAWVKEGRVTVNGEPIKN-NYKLQAEDEVTLRV 71 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + + + +V + V L Sbjct: 72 PPPKEMAIQPEEMSLDIVYEDSDVVVVNKPRGLVVHPAPGHYSGTLVNGLLAHCKDLSGI 131 Query: 111 VG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 G + D GL + R + Sbjct: 132 NGVLRPGIVHRIDKDTSGLLMVAKNDKAHMGLAEQLKAHTVNRKYVALVHGVIPHEMGTI 191 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D N + +V + + + V + L G+ +I+ ++ + Sbjct: 192 EAPIGRDPKNRQQMAVVFENSKPAVTHFIVLERFKEYTMVELKLETGRTHQIRVHMKYID 251 Query: 210 WK 211 + Sbjct: 252 YP 253 >gi|315646052|ref|ZP_07899173.1| pseudouridine synthase, RluA family protein [Paenibacillus vortex V453] gi|315278813|gb|EFU42127.1| pseudouridine synthase, RluA family protein [Paenibacillus vortex V453] Length = 323 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 69/245 (28%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 V + + R+ K I + SR +V+ I VKVN ++ V DHI + Sbjct: 26 TVDADSSKTRLDKYITESLGEEVSRSQVQLWITDGHVKVNEEPVKS-NYKVSQGDHIVLS 84 Query: 63 -----------DGVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +PL +R + + +V + V + Sbjct: 85 VPQPSVVEIIPEDIPLEIAFEDRDVIVVNKPRGMVVHPAPGHSSGTLVNALMFHCKDLSG 144 Query: 110 SVGR---------------------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G D L D + R + + Sbjct: 145 INGELRPGIVHRIDKDTTGLIMAAKNDKAHASLAAQLKDHSVNRRYLALVHGNISHDQGT 204 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + + + + T+ + G + + + L G+ +I+ ++ Sbjct: 205 IDAPIGRDAQDRKLYTVTDRNSKHAVTHFTVVERFGDYSLLELKLETGRTHQIRVHMKYI 264 Query: 209 NWKVN 213 + Sbjct: 265 GHPLV 269 >gi|254518704|ref|ZP_05130760.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] gi|226912453|gb|EEH97654.1| pseudouridine synthase [Clostridium sp. 7_2_43FAA] Length = 305 Score = 69.4 bits (168), Expect = 8e-10, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 64/245 (26%), Gaps = 37/245 (15%) Query: 5 NIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--- 60 I +E R+ K ++ SR ++ +I + VN ++ + + D I Sbjct: 7 KITEEENIGIRIDKYLSNIIEGKSRSFIQGLIDSGAILVNNKEVKS-NYKLRNHDEIIVS 65 Query: 61 -----EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 E+D P + + + L +V + V L Sbjct: 66 MPEPIELDVEPEDIDLNIVYEDEDVIVLNKPQGVVVHPAPGNYSGTLVNGLLYHCKDLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV---------------------R 148 G + + G L + L Sbjct: 126 INGVIRPGIVHRIDKDTSGILVIAKNDDAHNHLAKQFKNHSIKREYYALVEGKFSKIEGT 185 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + ++K + LK I+ G L+ A V L G+ +I+ Sbjct: 186 VDKPIGRNKKDRLKMAIMEDGKRAVTHYNVLEQYNNGTALVKCTLETGRTHQIRVHMASI 245 Query: 209 NWKVN 213 + Sbjct: 246 GHPLV 250 >gi|304316700|ref|YP_003851845.1| pseudouridine synthase [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302778202|gb|ADL68761.1| pseudouridine synthase, RluA family [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 306 Score = 69.4 bits (168), Expect = 9e-10, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 73/244 (29%), Gaps = 36/244 (14%) Query: 5 NIVQENFT-PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI+ E +R+ +A +R ++++I VKVNG+L++ + D ++V+ Sbjct: 8 NIIAEKDDVDKRIDSFLASELDYTRSYLKKLILDGLVKVNGLLIK-PNYKLKEGDSVDVN 66 Query: 64 ------------GVPL--RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 +PL + + + +V + V L + Sbjct: 67 IPEAEEIDLSPENIPLDIIYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHCKNLSG 126 Query: 110 SVGRLDI-------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH------------ 150 G L +++ A + + + + Sbjct: 127 INGELRPGIVHRLDKDTSGVMVVAKNDKAHLDLSNQIKERTILKKYIAIVEGVIKDDEGS 186 Query: 151 -GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 KK V + Y + + +N+ + ++ G+ +I+ + Sbjct: 187 IEAPIGRDHVERKKMAVTEDGRYALTLYKVLERYKNNSLIEATIKTGRTHQIRVHMSYIG 246 Query: 210 WKVN 213 + Sbjct: 247 HPIV 250 >gi|256846833|ref|ZP_05552288.1| pseudouridylate synthase [Fusobacterium sp. 3_1_36A2] gi|256717799|gb|EEU31357.1| pseudouridylate synthase [Fusobacterium sp. 3_1_36A2] Length = 316 Score = 69.4 bits (168), Expect = 9e-10, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 66/245 (26%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K +++ A+R +E++I VK+N ++ + + + IEV Sbjct: 12 VSSEYEGMRLDKYLSKQIEEATRSYLEKLIDNNYVKINSKVINKNGRKLKLGEKIEVSIP 71 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D + + + +V + V L + Sbjct: 72 KEENIDIEAENISLDIVYENDDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTNNLSSIN 131 Query: 112 GRLDINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + + + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKNNYAHAKLASMFTDKTIHKTYLCIVKGNFSEENLNGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K +V + + Q + V + + G+ +I+ + Sbjct: 192 IENLIGRDSKDRKKMAVVKENGKTAISNYKVIEQVDGYSLVEIAIETGRTHQIRVHMKSI 251 Query: 209 NWKVN 213 N + Sbjct: 252 NHVIL 256 >gi|291336627|gb|ADD96173.1| hypothetical protein [uncultured organism MedDCM-OCT-S05-C185] Length = 59 Score = 69.4 bits (168), Expect = 9e-10, Method: Composition-based stats. Identities = 23/55 (41%), Positives = 34/55 (61%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 +K K + T +R+SK +ARAG+ SRRE ER I RV ++ ++ AA+NV Sbjct: 2 VKFKTLFNNIDTEERISKRLARAGLCSRREAERWINAGRVSIDNEVINTAAINVS 56 >gi|116627406|ref|YP_820025.1| ribosomal large subunit pseudouridine synthase D [Streptococcus thermophilus LMD-9] gi|116100683|gb|ABJ65829.1| ribosomal large subunit pseudouridine synthase D [Streptococcus thermophilus LMD-9] Length = 296 Score = 69.4 bits (168), Expect = 9e-10, Method: Composition-based stats. Identities = 31/232 (13%), Positives = 62/232 (26%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K +A SR + I V VNG L + A V D I Sbjct: 11 RLDKSLADLTELSRSQANEAIKAGTVLVNGKLAK-AKYVVKEGDVITYVLPEEEVLEYKA 69 Query: 63 DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +PL + + +V + + V + + G + Sbjct: 70 EDIPLDIIYEDADVAVVNKPQGIVVHPSAGHTSGTLVNALMYHVKDLSSINGVVRPGIVH 129 Query: 121 L---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI- 170 ++ ND + + V + +++ I Sbjct: 130 RIDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNLPNDRGVIEAPIGRSDKD 189 Query: 171 --------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + T+ + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFTVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|270290265|ref|ZP_06196490.1| ribosomal large subunit pseudouridine synthase D [Pediococcus acidilactici 7_4] gi|304384921|ref|ZP_07367267.1| ribosomal large subunit pseudouridine synthase D [Pediococcus acidilactici DSM 20284] gi|270281046|gb|EFA26879.1| ribosomal large subunit pseudouridine synthase D [Pediococcus acidilactici 7_4] gi|304329115|gb|EFL96335.1| ribosomal large subunit pseudouridine synthase D [Pediococcus acidilactici DSM 20284] Length = 302 Score = 69.1 bits (167), Expect = 9e-10, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 71/246 (28%), Gaps = 35/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK+ N E R+ KVIA +R +V+ +I + ++ VN + V D Sbjct: 1 MKEINFTIEESAKGRLDKVIAENVADLTRSQVQSLIKKGQILVND-VPTTNRYQVKPNDQ 59 Query: 60 IEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + D P + + + + +V D + V L Sbjct: 60 VIIKLPDPVAIDVQPEKMDLDIVYEDDDVIVVNKPQGMVVHPAPGHDHGTLVNGLLAHTP 119 Query: 106 SRVISVGRLDINTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I+ + ++ ND L + + + + ++ Sbjct: 120 LATINGELRPGIVHRIDKDTSGLLMVAKNDQALVSLSKQLKDKTNQRKYWAIVHGNIKED 179 Query: 158 LNLLK-----------KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + K + + + + G + L G+ +I+ + Sbjct: 180 TGTINAPIGRSKKDRKKMAINEEGRPAVTHFKVLERFGEYTLIECQLETGRTHQIRVHLK 239 Query: 207 FFNWKV 212 + V Sbjct: 240 YIGHPV 245 >gi|326692704|ref|ZP_08229709.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc argentinum KCTC 3773] Length = 308 Score = 69.1 bits (167), Expect = 9e-10, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 73/247 (29%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M DK + R+ ++A + SR + + V VNG ++R + V + D Sbjct: 1 MTDKITINITDQTGRIDAILANQNLPYSRTVLANWVQSGEVLVNGQRVKR-SYKVAAGDV 59 Query: 60 IEVDGVPLRKAERTR--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + ++ E L + +V + + V L Sbjct: 60 ISIQPPAVQPTEIVAEAMPLDIVYEDADLLVVNKPQGMVVHPAAGHTSGTLVNGLLHHAP 119 Query: 106 SRVISVGRLDINTEG---------LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 I+ ++ + A +L + + R+Y G+ +++ Sbjct: 120 LSTINGEFRPGIVHRIDRDTSGLLMVAKNDQAHQALSAQLKAHKNDRIYYALVRGEFEEN 179 Query: 157 ----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK V +G + + + V L G+ +I+ Sbjct: 180 TGTINAPIARHAIDRKKQAVQEGGREAVTHFEVIARYVGYTLLKVRLETGRTHQIRVHLT 239 Query: 207 FFNWKVN 213 + + Sbjct: 240 YIGHPIV 246 >gi|313890534|ref|ZP_07824162.1| pseudouridine synthase, RluA family [Streptococcus pseudoporcinus SPIN 20026] gi|313121051|gb|EFR44162.1| pseudouridine synthase, RluA family [Streptococcus pseudoporcinus SPIN 20026] Length = 299 Score = 69.1 bits (167), Expect = 9e-10, Method: Composition-based stats. Identities = 41/237 (17%), Positives = 77/237 (32%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVP 66 R+ K +A SR + I + V VNG ++ A NV S D+I + Sbjct: 6 KEAGLRLDKALAETTDLSRSQANEQIKKGLVLVNGQAVK-AKYNVKSGDNITYQLPEEEV 64 Query: 67 LRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV----- 111 L E + L + +K G+V S T+ + L + S+ Sbjct: 65 LDYQAENLPIDIIYEDSDLAIINKAQGMVVHPSAGHSSGTLVNALMYHIKDLSSINGVVR 124 Query: 112 ----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 R+D +T GLL++ + +VL + + + + + Sbjct: 125 PGIVHRIDKDTSGLLMVAKNDKAHQVLAEELKAKKSLRNYLAIVHGNLPNDRGMIEAPIG 184 Query: 168 QGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + Q T+ + G + + L G+ +I+ + V Sbjct: 185 RSEKDRKKQSVTVKGKDAVTRFTVLERFGDYTLLELSLETGRTHQIRVHMAYIGHPV 241 >gi|65321221|ref|ZP_00394180.1| COG0564: Pseudouridylate synthases, 23S RNA-specific [Bacillus anthracis str. A2012] gi|229600532|ref|YP_002868128.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0248] gi|270000606|ref|YP_003329045.1| ribosomal large subunit pseudouridine synthase [Bacillus anthracis str. Ames] gi|291612221|ref|YP_003541035.1| ribosomal large subunit pseudouridine synthase [Bacillus anthracis str. 'Ames Ancestor'] gi|224552855|gb|ACN55066.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. 'Ames Ancestor'] gi|229264940|gb|ACQ46577.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. A0248] gi|269850243|gb|ACZ49983.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. Ames] Length = 302 Score = 69.1 bits (167), Expect = 9e-10, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 67/244 (27%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRSMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKHAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|229552260|ref|ZP_04440985.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|258539670|ref|YP_003174169.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus rhamnosus Lc 705] gi|229314396|gb|EEN80369.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1] gi|257151346|emb|CAR90318.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus rhamnosus Lc 705] Length = 306 Score = 69.1 bits (167), Expect = 9e-10, Method: Composition-based stats. Identities = 37/246 (15%), Positives = 73/246 (29%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M D + R+ K+I A +R +V++ + V VNG ++ A V + D Sbjct: 1 MSDTFTI--TTESGRIDKIITAHETTHTRSQVQKWLQDGLVTVNGNPVK-ANFKVTAGDV 57 Query: 60 IEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + V + PL+ + + + +V + V L Sbjct: 58 VTVTIPEVKPLKAVAEPIPLEIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTK 117 Query: 106 SRVIS-------VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-- 156 I+ V R+D +T GLL++ L + Sbjct: 118 LPGINGVIRPGIVHRIDKDTSGLLMVAKTEAAQLSLSAQLKAKTSIREYLALVHGTFKED 177 Query: 157 ----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ V+ + + + + V L G+ +I+ Sbjct: 178 EGTIDAPLGRDPRDRKRQAVVADGRHAVTHFQVLERFTNYTLVKCILDTGRTHQIRVHMA 237 Query: 207 FFNWKV 212 + + V Sbjct: 238 YIHHPV 243 >gi|30021981|ref|NP_833612.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus ATCC 14579] gi|229129170|ref|ZP_04258143.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-Cer4] gi|296504387|ref|YP_003666087.1| ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis BMB171] gi|29897537|gb|AAP10813.1| Ribosomal large subunit pseudouridine synthase D [Bacillus cereus ATCC 14579] gi|228654407|gb|EEL10272.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-Cer4] gi|296325439|gb|ADH08367.1| ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis BMB171] Length = 302 Score = 69.1 bits (167), Expect = 9e-10, Method: Composition-based stats. Identities = 34/244 (13%), Positives = 65/244 (26%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAAEQKNERIDKFVA--GINNEWSRTQVQQWIKDNVVTVNGKAVK-GNYKVKEEDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|296272938|ref|YP_003655569.1| pseudouridine synthase [Arcobacter nitrofigilis DSM 7299] gi|296097112|gb|ADG93062.1| pseudouridine synthase, RluA family [Arcobacter nitrofigilis DSM 7299] Length = 320 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 43/248 (17%), Positives = 79/248 (31%), Gaps = 38/248 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M IV E R+ K ++ SR ++E++I ++ VKV+ ++ + + I Sbjct: 1 MYKNFIVLEES---RLDKFLSEKLGESRNQIEQLIKKEYVKVDDKIIAKTGYKLKENQEI 57 Query: 61 E-------------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS- 106 VD E + + +KP LV + T+ D L + Sbjct: 58 LVELPEVEESISFDVDFDVEIIYEDEHILVINKPYNLVVHPAASVKEPTLVDWLKTKDIS 117 Query: 107 --------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------ 146 R V RLD T G++++ L Sbjct: 118 LSTISGEERHGIVHRLDKGTSGVMVVAKTNEAHVALSKQLEDKTMGRYYLAIIDLPLKDN 177 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG-LREGKNREIKKVF 205 + + ++ N LK GIV +G + + + L G+ +I+ Sbjct: 178 IIIDKPIARNPNNRLKMGIVEKGKNAKTAFAKIALSEDEKYELICCKLFTGRTHQIRVHL 237 Query: 206 EFFNWKVN 213 N + Sbjct: 238 NSINRHIL 245 >gi|228478264|ref|ZP_04062872.1| ribosomal large subunit pseudouridine synthase D [Streptococcus salivarius SK126] gi|228249943|gb|EEK09213.1| ribosomal large subunit pseudouridine synthase D [Streptococcus salivarius SK126] Length = 296 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 30/232 (12%), Positives = 61/232 (26%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K +A SR + I V VNG + A V D I Sbjct: 11 RLDKALADLTELSRSQANEAIKAGTVLVNGKSAK-AKYAVKEGDVITYELPEEEVLEYKA 69 Query: 63 DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +PL + + +V + + V + + G + Sbjct: 70 EDIPLDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHVKDLSSINGVVRPGIVH 129 Query: 121 L---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI- 170 ++ ND + + V + +++ I Sbjct: 130 RIDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNLPNDRGVIEAPIGRSDKD 189 Query: 171 --------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + T+ + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFTVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|119513315|ref|ZP_01632353.1| Pseudouridine synthase, RluD [Nodularia spumigena CCY9414] gi|119462022|gb|EAW43021.1| Pseudouridine synthase, RluD [Nodularia spumigena CCY9414] Length = 309 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 66/245 (26%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 +Q T +R+ + ++ SR ++++I Q V +N + + V + D I ++ Sbjct: 6 LQVEETGERLDRYLSENLPNLSRSRIQQLIEQGNVHLNEQICTTKKITVKAGDRITLEIP 65 Query: 64 ----------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV--- 108 +PL + L L +V + V L + Sbjct: 66 EVQPLQVQAQDIPLDILYEDDHLLILNKPAGLVVHPAPGHPDGTLVNALLAHCPNLPGIG 125 Query: 109 ------------------ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 I++ + DI L R + + Sbjct: 126 GVQRPGIVHRLDKDTTGAIAIAKTDIAYHSLQAQLQAKTARREYLGVVYGAPKTENGKID 185 Query: 151 GQ--VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + +G + + G+ V L G+ +I+ Sbjct: 186 EPIGRHPQDRKKMAVVPIEKGGRNAVTHWQILERLGNQTLVLFQLETGRTHQIRVHSAKI 245 Query: 209 NWKVN 213 + Sbjct: 246 GHPIV 250 >gi|255022986|ref|ZP_05294972.1| hypothetical protein LmonocyFSL_05005 [Listeria monocytogenes FSL J1-208] Length = 302 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLIKCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|228475048|ref|ZP_04059776.1| ribosomal large subunit pseudouridine synthase, RluA family [Staphylococcus hominis SK119] gi|314936640|ref|ZP_07843987.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus hominis subsp. hominis C80] gi|228271033|gb|EEK12421.1| ribosomal large subunit pseudouridine synthase, RluA family [Staphylococcus hominis SK119] gi|313655259|gb|EFS19004.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus hominis subsp. hominis C80] Length = 305 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 63/244 (25%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 I E QR+ K+++ SR +++ I V VNG +++ V D I+V Sbjct: 7 KIEDEALVGQRIDKLLSDFNSEWSRSQLQDWIKNDLVTVNGKIIKS-NYKVKLNDEIQVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + ++ +Y +V + V + I Sbjct: 66 EKEVVEADILPENLNLDIYYEDKDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKDLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + G L + + V + D Sbjct: 126 INGEIRPGIVHRIDKDTSGLLMVAKNDVAHRGLVEQLMDKTVKRKYTALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + V+ + + L G+ +I+ ++ Sbjct: 186 IDAPIGRNKKDRQSMDVVDDGKEAVTHFNVLEHFNDYTLIECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|312864274|ref|ZP_07724508.1| pseudouridine synthase, RluA family [Streptococcus vestibularis F0396] gi|322517241|ref|ZP_08070120.1| ribosomal large subunit pseudouridine synthase D [Streptococcus vestibularis ATCC 49124] gi|311100275|gb|EFQ58484.1| pseudouridine synthase, RluA family [Streptococcus vestibularis F0396] gi|322124147|gb|EFX95681.1| ribosomal large subunit pseudouridine synthase D [Streptococcus vestibularis ATCC 49124] Length = 296 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 30/232 (12%), Positives = 61/232 (26%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K +A SR + I V VNG + A V D I Sbjct: 11 RLDKALADLTELSRSQANEAIKAGTVLVNGKSAK-AKYAVKEGDVITYVLPEEEVLEYKA 69 Query: 63 DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +PL + + +V + + V + + G + Sbjct: 70 EDIPLDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHVKDLSSINGVVRPGIVH 129 Query: 121 L---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI- 170 ++ ND + + V + +++ I Sbjct: 130 RIDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNLPNDRGVIEAPIGRSDKD 189 Query: 171 --------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + T+ + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFTVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|167750498|ref|ZP_02422625.1| hypothetical protein EUBSIR_01474 [Eubacterium siraeum DSM 15702] gi|167656424|gb|EDS00554.1| hypothetical protein EUBSIR_01474 [Eubacterium siraeum DSM 15702] Length = 303 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 34/238 (14%), Positives = 70/238 (29%), Gaps = 39/238 (16%) Query: 13 PQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 +R K +A GI +R +I Q VNG + + + + D + +D Sbjct: 11 GERTDKFLALQDTGI-TRSAAAALIEQGCCLVNGKIAAK-NQKLKTGDTVTLDVPEAQPA 68 Query: 64 -----GVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------R 107 +P + + L + +V + V + R Sbjct: 69 DILPENIPLDIVYEDSDLLVVNKPKGMVVHPAPGHYSGTLVNALMYHCGDSLSGINGVIR 128 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY------------RVRFHGQVDQ 155 V R+D +T GLL++ + +L + + Sbjct: 129 PGIVHRIDRDTSGLLIVAKNDTAHNILAEQIKVHSFTREYMAVVQGVIKEDGTVDAPIGR 188 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K + K + + ++ +N V + L G+ +I+ + V Sbjct: 189 HKTDRKKMCVTTENSREAVTHYFVEQTYRNNTLVRLRLETGRTHQIRVHMAYIGHPVT 246 >gi|45644651|gb|AAS73039.1| predicted pseudouridine synthase D, 23S rRNA-specific [uncultured marine gamma proteobacterium EBAC20E09] Length = 311 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 76/247 (30%), Gaps = 38/247 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA----SRREVERMIAQQRVKVNGILLERAAVNVMS 56 M++K V + + R+ KV + I SR ++++ I + RV +N + V Sbjct: 1 MENKKTVSKEHSKMRLDKV---STIIFEDFSRTQIKKWILEGRVFLNDDIA-SPRDLVHE 56 Query: 57 TDHIEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 D I++D + + L + +P ++ + + L Sbjct: 57 GDSIQIDPIAEEKISWVPEEIDIDVIYENDDYLIINKQPNLIMHPGAGCSSGTLANALLH 116 Query: 103 SIFS-----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 R V RLD +T G++L+ + + Sbjct: 117 HYPELKNIARAGIVHRLDKDTSGVILVARNDKFRNYFVDLLQKREVTKLYSAIVVGTIIG 176 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQK-----------GSNAWVTVGLREGKNREIKKVFE 206 + I M + D ++ G+ + + + + G+ +I+ Sbjct: 177 SFKVTDPIGRDKKNRVKMSIRSDGKESETFVKLKESLGNYSLLDISIMTGRTHQIRVHLS 236 Query: 207 FFNWKVN 213 + Sbjct: 237 SKKLPII 243 >gi|288871714|ref|ZP_06118719.2| ribosomal small subunit pseudouridine synthase A [Clostridium hathewayi DSM 13479] gi|288862314|gb|EFC94612.1| ribosomal small subunit pseudouridine synthase A [Clostridium hathewayi DSM 13479] Length = 74 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 14/66 (21%), Positives = 30/66 (45%), Gaps = 1/66 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKA 70 R+ K + G +R +++ M + R+ VN + +++ + +D + VDG + A Sbjct: 8 ELMRLDKYLTEMGQGTRSQIKEMARKGRITVNSVTEKKSDRKISPSSDAVAVDGRIVAYA 67 Query: 71 ERTRLW 76 E Sbjct: 68 EYEYYM 73 >gi|237745359|ref|ZP_04575840.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 7_1] gi|229432588|gb|EEO42800.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 7_1] Length = 314 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 67/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K ++ A+R +E++I VK+N ++ + + + IEV Sbjct: 12 VNSEYKGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKIEVSIP 71 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D P + + + +V + V L + Sbjct: 72 EEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNNLSSIN 131 Query: 112 GRLDINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + + + + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKSNYAHAKLASMFIDKTIHKTYLCIVKGNFSEENISGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K +V + + Q + V V + G+ +I+ + Sbjct: 192 IENLIGRDSKDRKKMAVVKENGKIAISNYKVVEQVEGYSLVEVAIETGRTHQIRVHMKSI 251 Query: 209 NWKVN 213 N + Sbjct: 252 NHVIL 256 >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 = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 23/99 (23%), Positives = 43/99 (43%), Gaps = 6/99 (6%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVDG 64 + ++ +++ K++AR+G SRRE+E + + R+ ++G + ++V ST I +DG Sbjct: 1 MSDKSQRTEKLQKILARSGHGSRREIEGYLQEGRISIDGTKAKLGDRIDVTSTAKIRLDG 60 Query: 65 VPLRKAE-----RTRLWLYHKPIGLVTTHSDPDGRSTVF 98 L E L Y L T + Sbjct: 61 RILNIREAQKDVCRVLAYYKPEGELCTRSDPQGRPTVFP 99 >gi|157737249|ref|YP_001489932.1| ribosomal large subunit pseudouridine synthase D [Arcobacter butzleri RM4018] gi|157699103|gb|ABV67263.1| ribosomal large subunit pseudouridine synthase D [Arcobacter butzleri RM4018] Length = 328 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 44/256 (17%), Positives = 79/256 (30%), Gaps = 46/256 (17%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M IV E R+ K +A+ ASR ++E++I ++ VKV+G + + + + ++ Sbjct: 1 MNKNFIVLETN---RLDKFLAQNIDASRNQIEQLIKKEFVKVDGKITNKTGLKLKENQNV 57 Query: 61 EV---------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 EV D E + + +KP L + +T+ D Sbjct: 58 EVFFPETQLNKRKDEEFLKNSLEDKEVEIIYEDDYILVLNKPYNLTVHDAPSVKDATLVD 117 Query: 100 NLPSIFS---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------- 143 L R V RLD T G++++ L Sbjct: 118 WLKLKNISLSTISGEERHGIVHRLDKGTSGVMVIAKTNEAHLNLSKQLEDKSMGRYYLAI 177 Query: 144 -----VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT-VGLREGK 197 V + ++ N LK I G + + L G+ Sbjct: 178 LDLALKENVIIEKPIRRNPNNRLKMSIEENGRYAKSAFSKIALSDNEKFELIACKLYTGR 237 Query: 198 NREIKKVFEFFNWKVN 213 +I+ N + Sbjct: 238 THQIRVHLSSINRHIL 253 >gi|21282809|ref|NP_645897.1| hypothetical protein MW1080 [Staphylococcus aureus subsp. aureus MW2] gi|49486036|ref|YP_043257.1| putative RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus MSSA476] gi|300912239|ref|ZP_07129682.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus TCH70] gi|21204247|dbj|BAB94945.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus MW2] gi|49244479|emb|CAG42908.1| putative RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus MSSA476] gi|300886485|gb|EFK81687.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus TCH70] Length = 305 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 64/244 (26%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI + T RV K++ SR +++ I V N +++ V DHI V Sbjct: 7 NITDKEQTGMRVDKLLPELNSDWSRNQIQDWIKAGLVVANDKVVKS-NYKVKLNDHIVVT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADILPENLNLDIYYEDDDVAVVYKTKGMVVHPSPGHYTNTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + + G L + + + V + D Sbjct: 126 INGEIRPGIVHRIDMDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYIALVHGNIPHDYGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVLEHFKDYTLVECQLETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 FPLV 249 >gi|76787790|ref|YP_330006.1| ribosomal large subunit pseudouridine synthase A [Streptococcus agalactiae A909] gi|77408235|ref|ZP_00784979.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae COH1] gi|77412105|ref|ZP_00788430.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae CJB111] gi|76562847|gb|ABA45431.1| ribosomal large subunit pseudouridine synthase, RluA family [Streptococcus agalactiae A909] gi|77161861|gb|EAO72847.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae CJB111] gi|77173176|gb|EAO76301.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae COH1] Length = 296 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 30/233 (12%), Positives = 62/233 (26%), Gaps = 35/233 (15%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 R+ K +A SR + I + V VNG + ++A V D I D Sbjct: 9 GVRLDKALADNSELSRSQANEEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDY 67 Query: 64 ---GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +PL + + +V + + V + I G + Sbjct: 68 QAENIPLDIIYQDDDVAVVNKPQGMVVHPSAGHSSGTLVNALMYHIKDLSSINGVVRPGI 127 Query: 119 EGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++ ND + E + + + +++ I Sbjct: 128 VHRIDKDTSGLLMVAKNDRAHQVLAEELKDKKSLRKYLAIVHGNLPNDRGVIEAPIGRSD 187 Query: 170 I---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + G V + L G+ +I+ + Sbjct: 188 KDRKKQAVTAKGKPAITRFHVLERFGDYTLVELSLETGRTHQIRVHMAYIGHP 240 >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 = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 43/188 (22%), Positives = 72/188 (38%), Gaps = 17/188 (9%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 E + L T + V GRLD ++EGLLLLT+DG Sbjct: 38 PREPCPMRLIALNKPFGTICQFSAHETRASLGDWVKTPGVYPAGRLDADSEGLLLLTDDG 97 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG---- 184 L + P + ++ Y + G D L L++G+ + + T G Sbjct: 98 ALQAKIAEPRHKLVKRYWAQVEGAPDAAALAALERGVDLGDYVSRPCRARFITPPGALWP 157 Query: 185 -----------SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAG 231 AW+ + + EGKNR+++++ + RL+R+ G + L G Sbjct: 158 RNPPIRHRAAIPTAWIELEIAEGKNRQVRRMTAAVGFPTLRLVRVGIGALDVFALGLAPG 217 Query: 232 STREVSKK 239 TRE+ + Sbjct: 218 ETRELPPR 225 >gi|229146464|ref|ZP_04274835.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-ST24] gi|228637097|gb|EEK93556.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus BDRD-ST24] Length = 302 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 33/240 (13%), Positives = 64/240 (26%), Gaps = 42/240 (17%) Query: 10 NFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 12 EQKNERIDKFVA--GINNEWSRTQVQQWIKDNVVTVNGKAVK-GNYKVKEEDEITVTIPE 68 Query: 63 ----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D P + + L + +V + V + G Sbjct: 69 PEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGING 128 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRFHG 151 + + G L + + L + Sbjct: 129 VMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDA 188 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + +DK + V + + + V L G+ +I+ ++ + Sbjct: 189 PIARDKKER-QSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGYP 247 >gi|193216796|ref|YP_002000038.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma arthritidis 158L3-1] gi|193002119|gb|ACF07334.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma arthritidis 158L3-1] Length = 298 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 30/241 (12%), Positives = 63/241 (26%), Gaps = 42/241 (17%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K IA +R +++ +I Q V VN + + V D IE+ L K + Sbjct: 9 SERIDKYIANNSEITRNDIQALIVQGAVFVNSTKINKNKYIVHENDEIEII-KLLDKQQN 67 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 I + + P+ ++ + L +G L Sbjct: 68 IEAQNLPLEIVYECDDYLVINKPSGLVVHPAPGHSSGTLVNSLMYHFKNNLSDVNGLLRM 127 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ---------- 182 + + + + L K I+ Y + ++ + Sbjct: 128 GIVHRIDKDTSGLLLVAKNNETHNYFAKLLKNHEIKRTYYAIVDGHIENRLINLDLPIGR 187 Query: 183 -------------------------------KGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V L+ G+ +I+ + Sbjct: 188 DPNNRQKFAVTEQNSKEAFTALEVIKYLNLAGQNKTLVKCNLKTGRTHQIRVHLAYIKHP 247 Query: 212 V 212 V Sbjct: 248 V 248 >gi|325526198|gb|EGD03833.1| pseudouridine synthase [Burkholderia sp. TJI49] Length = 192 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 40/182 (21%), Positives = 72/182 (39%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + GRLD ++EGLLLLT+DG L + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YPAGRLDADSEGLLLLTDDGALQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPGAADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+ +++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQGRRMTAAVGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|295706351|ref|YP_003599426.1| pseudouridine synthase [Bacillus megaterium DSM 319] gi|294804010|gb|ADF41076.1| pseudouridine synthase [Bacillus megaterium DSM 319] Length = 304 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 69/243 (28%), Gaps = 39/243 (16%) Query: 6 IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ E +R+ KV++ A SR +V++ I + KVN ++ + D I ++ Sbjct: 7 VINEEQAGERIDKVLSTVNA-EWSRSQVQQWIKEGHAKVNDKTVK-GNYKCKTGDAIIIE 64 Query: 64 --------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + ++ L + +V + V + Sbjct: 65 VPELEELDVVAEEMDLDIYYEDQDVLVVNKPRGMVVHPAPGHHSGTLVNGLMAHCKDLSG 124 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR---------------------VYRVR 148 G + + G L + + L Sbjct: 125 INGVMRPGIVHRIDKDTSGLLMVAKNDLAHESLVSQLVAKTVTRRYKAIVHGIIAHDHGT 184 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +DK + + + T+ + + V L G+ +I+ ++ Sbjct: 185 IDAPIGRDKQDRQSMTVTDENSRDAVTHFTVLQRFKDFSLVECKLETGRTHQIRVHMKYI 244 Query: 209 NWK 211 + Sbjct: 245 GFP 247 >gi|294501002|ref|YP_003564702.1| pseudouridine synthase [Bacillus megaterium QM B1551] gi|294350939|gb|ADE71268.1| pseudouridine synthase [Bacillus megaterium QM B1551] Length = 304 Score = 69.1 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 69/243 (28%), Gaps = 39/243 (16%) Query: 6 IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ E +R+ KV++ A SR +V++ I + KVN ++ + D I ++ Sbjct: 7 VINEEQAGERIDKVLSTVNA-EWSRSQVQQWIKEGHAKVNDKTVK-GNYKCKTGDAIIIE 64 Query: 64 --------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + ++ L + +V + V + Sbjct: 65 VPELEELDVVAEEMDLDIYYEDQDVLVVNKPRGMVVHPAPGHHSGTLVNGLMAHCKDLSG 124 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR---------------------VYRVR 148 G + + G L + + L Sbjct: 125 INGVMRPGIVHRIDKDTSGLLMVAKNDLAHESLVSQLVAKTVTRRYKAIVHGVIAHDHGT 184 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +DK + + + T+ + + V L G+ +I+ ++ Sbjct: 185 IDAPIGRDKQDRQSMTVTDENSRDAVTHFTVLQRFKDFSLVECKLETGRTHQIRVHMKYI 244 Query: 209 NWK 211 + Sbjct: 245 GFP 247 >gi|291530266|emb|CBK95851.1| ribosomal large subunit pseudouridine synthase D [Eubacterium siraeum 70/3] Length = 304 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 34/238 (14%), Positives = 70/238 (29%), Gaps = 39/238 (16%) Query: 13 PQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 +R K +A GI +R +I Q VNG + + + + D + +D Sbjct: 12 GERTDKFLALQDTGI-TRSAAAALIEQGCCLVNGKIAAK-NQKLKTGDTVTLDVPEAQPA 69 Query: 64 -----GVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------R 107 +P + + L + +V + V + R Sbjct: 70 DILPENIPLDIVYEDSDLLVVNKPKGMVVHPAPGHYSGTLVNALMYHCGDSLSGINGVIR 129 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY------------RVRFHGQVDQ 155 V R+D +T GLL++ + +L + + Sbjct: 130 PGIVHRIDRDTSGLLIVAKNDTAHNILAEQIKVHSFTREYMAVVQGVIKEDGTVDAPIGR 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K + K + + ++ +N V + L G+ +I+ + V Sbjct: 190 HKTDRKKMCVTTENSREAITHYFVEQTYRNNTLVRLRLETGRTHQIRVHMAYIGHPVT 247 >gi|157363528|ref|YP_001470295.1| RluA family pseudouridine synthase [Thermotoga lettingae TMO] gi|157314132|gb|ABV33231.1| pseudouridine synthase, RluA family [Thermotoga lettingae TMO] Length = 294 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 26/236 (11%), Positives = 63/236 (26%), Gaps = 25/236 (10%) Query: 1 MKDKNI---VQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERA---- 50 M++K + + E + +R+ K + A S E+ +++ V+VNG + + Sbjct: 1 MENKIVELSINEENSYRRLDKFLRNELKAVPLS--EIYKLLRTGCVQVNGKTVRKPYTEL 58 Query: 51 --AVNVMSTDHIEVDGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTV 97 V + V + + L L K + + + Sbjct: 59 YVGDKVTIKADLAVYRQKKDLPSIPLKLDILYEDDNLLILNKKAGITIHPSEKTRSTTLI 118 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + + + + S + + + + K Sbjct: 119 QGLHFYGAKKGFKPHLVHRLDRDTSGVLVIAKNVKTARTLSHMFRNRLVKKEYITLVSGK 178 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + + V L G+ +I+K F V Sbjct: 179 IFGDGFIDKPLDGSEALTEYKVLENFRDTSLLRVILHTGRTHQIRKHFALIGNPVV 234 >gi|171778236|ref|ZP_02919442.1| hypothetical protein STRINF_00281 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171282936|gb|EDT48360.1| hypothetical protein STRINF_00281 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 298 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 30/232 (12%), Positives = 60/232 (25%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K +A SR + I + V VNG ++ A V D + Sbjct: 11 RLDKALADLTDLSRSQANDEIKKGTVLVNGKAVK-AKYAVKVGDVVTYEVPEEEVLEYKA 69 Query: 63 DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +P + + +Y +V + + V + I G + Sbjct: 70 ENIPLDIVYEDEDVAVVYKPQGMVVHPSAGHTSGTLVNALMYHIKDLSSINGVIRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + V V + D+ + Sbjct: 130 RIDKDTSGLLMIAKNDTAHNALAAELKDKKSLRKYVAIVHGNIPNDRGVIEAPIGRSEKD 189 Query: 169 GICY------GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTHFKVLERFGNYTLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|322831462|ref|YP_004211489.1| pseudouridine synthase, RluA family [Rahnella sp. Y9602] gi|321166663|gb|ADW72362.1| pseudouridine synthase, RluA family [Rahnella sp. Y9602] Length = 325 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV VNG + + V+ + I +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKDWILEDRVTVNGKKVTKPKEKVLGGEAIAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 QIEEEARWLPQDIALDIVYEDTDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPAIIDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRCGIVHRLDKDTTGLMVVAKSVPAQTHLVTALQAREITREYEAVAIGTMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHSTKRTHMAVHPTGKPATTHYRIMEHFRAHTRLRLRLESGRTHQIRVHMAHINHPLL 248 >gi|222152892|ref|YP_002562069.1| RNA pseudouridylate synthase [Streptococcus uberis 0140J] gi|222113705|emb|CAR41656.1| putative RNA pseudouridylate synthase [Streptococcus uberis 0140J] Length = 296 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 39/232 (16%), Positives = 73/232 (31%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K +A SR + I + V VNG ++ A V D I Sbjct: 11 RLDKALADLTDLSRSQANDEIKKGTVLVNGEPVK-AKYTVKEGDIISYQLPEEEILDYEA 69 Query: 63 DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RVISVG 112 + +P+ E L + +K G+V S T+ + L R V Sbjct: 70 EDIPIEIVYEDEYLAIINKAQGMVVHPSAGHSSGTLVNALLYHIKDLSTINGVVRPGIVH 129 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 R+D +T GLL++ + +L + + + + + + + Sbjct: 130 RIDKDTSGLLMIAKNDKAHHILADELKAKKSLRKYLAIVHGNLPNDRGMIEAPIGRSEKD 189 Query: 173 GDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 Q + + G V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKDAITRFQVVERFGDFTLVELSLETGRTHQIRVHMAYIGHPV 241 >gi|154504404|ref|ZP_02041142.1| hypothetical protein RUMGNA_01908 [Ruminococcus gnavus ATCC 29149] gi|153795333|gb|EDN77753.1| hypothetical protein RUMGNA_01908 [Ruminococcus gnavus ATCC 29149] Length = 309 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 43/270 (15%), Positives = 92/270 (34%), Gaps = 52/270 (19%) Query: 1 MKDKNIV--QENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M+++ +E T +R+ K + A+ SR ++++I V+VNG ++ + S Sbjct: 1 MREERFFTAEETVTNERIDKFLSAQMPDRSRSYIQKLIKDGLVEVNGKQVKT-NYKLGSE 59 Query: 58 DHIEVD----------GVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 D +++ + E T L + +KP G+V + T+ + L Sbjct: 60 DEVKLQIPELEVPDILPEEIPLDILYEDTDLLVVNKPKGMVVHPAPGHYTGTLVNALMYH 119 Query: 105 FSRVIS----------VGRLDINTEGLLLLTNDGGLARVLELP-------------STQW 141 +S V R+D++T G LL+ + ++L Sbjct: 120 CRENLSGINGVMRPGIVHRIDMDTTGSLLVCKNDRAHQILAEQLKDHSITRRYEAIVHGN 179 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 L+ + + + + K + + + G+ + L G+ +I Sbjct: 180 LKEDSGTVNAPIGRHPTDRKKMSVHAPHGREAVTHYRVLERFGNYTHIECELETGRTHQI 239 Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGTLLAG 231 + + LG L+ G Sbjct: 240 RVHMASIGHPI------------LGDLVYG 257 >gi|309805623|ref|ZP_07699665.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 09V1-c] gi|308165061|gb|EFO67302.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 09V1-c] Length = 311 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 32/242 (13%), Positives = 68/242 (28%), Gaps = 36/242 (14%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 +V+ + R+ K IA SR V+ +I Q+ + NG L + + V + D I Sbjct: 10 VVKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEI 68 Query: 61 ------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 +D L + + + +V + + V + + Sbjct: 69 PSPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTKNLAKC 128 Query: 111 VGRLDINTEGLLLLTNDGGLA------------RVLELPSTQWLRVYRVRFHGQVDQ--- 155 L + G L + L + + V + + Sbjct: 129 DEILRPGIVHRIDKDTSGLLMIAKNATARISLEKQLANKINKREYIAIVHANFKHSSGVI 188 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 ++ V+ T+ Q + V L G+ +I+ + Sbjct: 189 DAPIGRNPYQRQQMAVVASGKKAITHFTVLEQFPGYSLVKCVLETGRTHQIRVHMSYIGH 248 Query: 211 KV 212 + Sbjct: 249 PI 250 >gi|319745315|gb|EFV97632.1| ribosomal large subunit pseudouridine synthase D [Streptococcus agalactiae ATCC 13813] Length = 296 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 30/233 (12%), Positives = 63/233 (27%), Gaps = 35/233 (15%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 R+ K +A SR + I + V VNG + ++A V D I D Sbjct: 9 GVRLDKALADNSELSRSQANEEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDY 67 Query: 64 ---GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +PL + + +V + + + V + I G + Sbjct: 68 QAENIPLDIIYQDDDVAVVNKPQGMVVHSSAGHSSGTLVNALMYHIKDLSSINGVVRPGI 127 Query: 119 EGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++ ND + E + + + +++ I Sbjct: 128 VHRIDKDTSGLLMVAKNDRAHQVLAEELKDKKSLRKYLAIVHGNLPNDRGVIEAPIGRSD 187 Query: 170 I---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + G V + L G+ +I+ + Sbjct: 188 KDRKKQAVTAKGKPAITRFHVLERFGDYTLVELSLETGRTHQIRVHMAYIGHP 240 >gi|322372447|ref|ZP_08046983.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. C150] gi|321277489|gb|EFX54558.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. C150] Length = 297 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 30/237 (12%), Positives = 61/237 (25%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K +A SR + I V VNG + A V D I Sbjct: 6 KEAGNRLDKALADLTELSRSQANEAIKAGTVLVNGKSAK-AKYAVKEGDVITYELPEEEV 64 Query: 63 -----DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + +PL + + +V + + V + + G + Sbjct: 65 LEYKAEDIPLDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHVKDLSSINGVVR 124 Query: 116 INTEGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 ++ ND + + V + +++ I Sbjct: 125 PGIVHRIDKDTSGLLMVAKNDKAHNALAAELKDKKSLRKYVAIVHGNLPNDRGVIEAPIG 184 Query: 167 IQGI---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + T+ + G+ V + L G+ +I+ + V Sbjct: 185 RSDKDRKKQAVTAKGKPAVTRFTVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|22537512|ref|NP_688363.1| ribosomal large subunit pseudouridine synthase D [Streptococcus agalactiae 2603V/R] gi|76797703|ref|ZP_00779971.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae 18RS21] gi|77414617|ref|ZP_00790757.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae 515] gi|22534392|gb|AAN00236.1|AE014254_16 ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae 2603V/R] gi|76586927|gb|EAO63417.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae 18RS21] gi|77159330|gb|EAO70501.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Streptococcus agalactiae 515] Length = 296 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 30/233 (12%), Positives = 62/233 (26%), Gaps = 35/233 (15%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 R+ K +A SR + I + V VNG + ++A V D I D Sbjct: 9 GVRLDKALADNSELSRSQANEEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDY 67 Query: 64 ---GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +PL + + +V + + V + I G + Sbjct: 68 QAENIPLDIIYQDDDVAVVNKPQGMVVHPSAGHSSGTLVNALMYHIKDLSSINGVVRPGI 127 Query: 119 EGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++ ND + E + + + +++ I Sbjct: 128 VHRIDKDTSGLLMVAKNDRAHQVLAEELKDKKSLRKYLAIVHGNLPNDRGVIEAPIGRSD 187 Query: 170 I---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + G V + L G+ +I+ + Sbjct: 188 KDRKKQAVTAKGKPAITRFHVLERFGDYTLVELSLETGRTHQIRVHMAYIGHP 240 >gi|294617890|ref|ZP_06697499.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1679] gi|291595835|gb|EFF27119.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1679] Length = 303 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 30/235 (12%), Positives = 65/235 (27%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV+ SR +++ + V VNG ++ A V D I V Sbjct: 11 ESGRIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPVK-ANYKVKQGDEITVLIPEPETL 69 Query: 63 ----DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +P + + + +V + + V + I G + Sbjct: 70 DVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALIYHIKDLSTINGVIRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNL---- 160 + G L + + V V ++ +N Sbjct: 130 GIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGR 189 Query: 161 ----LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K + + T+ + V + L G+ +I+ ++ + Sbjct: 190 SKENRKMQAIREDGKPAVTHFTVLERFEGFTLVELKLETGRTHQIRVHMKYIGYP 244 >gi|257878226|ref|ZP_05657879.1| pseudouridylate synthase [Enterococcus faecium 1,230,933] gi|257880994|ref|ZP_05660647.1| pseudouridylate synthase [Enterococcus faecium 1,231,502] gi|257889576|ref|ZP_05669229.1| pseudouridylate synthase [Enterococcus faecium 1,231,410] gi|257892484|ref|ZP_05672137.1| pseudouridylate synthase [Enterococcus faecium 1,231,408] gi|258616265|ref|ZP_05714035.1| hypothetical protein EfaeD_11195 [Enterococcus faecium DO] gi|260559776|ref|ZP_05831955.1| pseudouridylate synthase [Enterococcus faecium C68] gi|293559348|ref|ZP_06675890.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1162] gi|293569846|ref|ZP_06680933.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1071] gi|294621730|ref|ZP_06700894.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium U0317] gi|314939741|ref|ZP_07846963.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133a04] gi|314941758|ref|ZP_07848635.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133C] gi|314948303|ref|ZP_07851695.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0082] gi|314952391|ref|ZP_07855398.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133A] gi|314991990|ref|ZP_07857443.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133B] gi|314995712|ref|ZP_07860802.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133a01] gi|257812454|gb|EEV41212.1| pseudouridylate synthase [Enterococcus faecium 1,230,933] gi|257816652|gb|EEV43980.1| pseudouridylate synthase [Enterococcus faecium 1,231,502] gi|257825936|gb|EEV52562.1| pseudouridylate synthase [Enterococcus faecium 1,231,410] gi|257828863|gb|EEV55470.1| pseudouridylate synthase [Enterococcus faecium 1,231,408] gi|260074000|gb|EEW62323.1| pseudouridylate synthase [Enterococcus faecium C68] gi|291587594|gb|EFF19471.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1071] gi|291598739|gb|EFF29792.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium U0317] gi|291606712|gb|EFF36104.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1162] gi|313590103|gb|EFR68948.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133a01] gi|313593425|gb|EFR72270.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133B] gi|313595508|gb|EFR74353.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133A] gi|313599436|gb|EFR78279.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133C] gi|313640970|gb|EFS05550.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133a04] gi|313645284|gb|EFS09864.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0082] Length = 303 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 30/235 (12%), Positives = 65/235 (27%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV+ SR +++ + V VNG ++ A V D I V Sbjct: 11 ESGRIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPVK-ANYKVKQGDEITVLIPEPETL 69 Query: 63 ----DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +P + + + +V + + V + I G + Sbjct: 70 DVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHIKDLSTINGVIRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNL---- 160 + G L + + V V ++ +N Sbjct: 130 GIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGR 189 Query: 161 ----LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K + + T+ + V + L G+ +I+ ++ + Sbjct: 190 SKENRKMQAIREDGKSAVTHFTVLERFEGFTLVELKLETGRTHQIRVHMKYIGYP 244 >gi|25011477|ref|NP_735872.1| hypothetical protein gbs1435 [Streptococcus agalactiae NEM316] gi|24413015|emb|CAD47094.1| unknown [Streptococcus agalactiae NEM316] Length = 296 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 28/233 (12%), Positives = 60/233 (25%), Gaps = 35/233 (15%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 R+ K +A SR + I + V VNG + ++A V D I D Sbjct: 9 GVRLDKALADNSELSRSQANEEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIPKEEVLDY 67 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G + Sbjct: 68 QAENISLDIIYQDDDVAVVNKPQGMVVHPSAGHSSGTLVNALMYHIKDLSSINGVVRPGI 127 Query: 119 EGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++ ND + E + + + +++ I Sbjct: 128 VHRIDKDTSGLLMVAKNDRAHQVLAEELKDKKSLRKYLAIVHGNLPNDRGVIEAPIGRSD 187 Query: 170 I---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + G V + L G+ +I+ + Sbjct: 188 KDRKKQAVTAKGKPAITRFHVLERFGDYTLVELSLETGRTHQIRVHMAYIGHP 240 >gi|319956600|ref|YP_004167863.1| ribosomal large subunit pseudouridine synthase d [Nitratifractor salsuginis DSM 16511] gi|319419004|gb|ADV46114.1| ribosomal large subunit pseudouridine synthase D [Nitratifractor salsuginis DSM 16511] Length = 327 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 46/237 (19%), Positives = 78/237 (32%), Gaps = 34/237 (14%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV++ A ASR +V R+I V V GI E+A+ V + I Sbjct: 13 SEGGRLDKVLSAALGASRNQVARLIEAGAVSVEGIPAEKASRKVEPGERIAYRILEAPRR 72 Query: 63 DGVPLR-----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RV 108 D +P+ E L + +KP G+V + T+ L R Sbjct: 73 DSLPVEFDVEVLYEDEYLMILNKPAGVVVHPAPSVREPTLVHWLVQRGISLSTLAGEERH 132 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------------VYRVRFHGQVDQD 156 V RLD T G L++ + + L + + ++ Sbjct: 133 GIVHRLDKETSGALVIAKTNAVHQALSEELKSREMGRYYLALIDHPLKEDLTVDAPIARN 192 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK +V G + L + + + L G+ +I+ + Sbjct: 193 PANRLKMAVVEGGREARTDFLKLAEGEEGSELIAARLHTGRTHQIRVHLAKIGRHIL 249 >gi|323342856|ref|ZP_08083088.1| ribosomal large subunit pseudouridine synthase D [Erysipelothrix rhusiopathiae ATCC 19414] gi|322463968|gb|EFY09162.1| ribosomal large subunit pseudouridine synthase D [Erysipelothrix rhusiopathiae ATCC 19414] Length = 308 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 79/247 (31%), Gaps = 37/247 (14%) Query: 3 DKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +K IV+E F R+ + +A A SR ++ I + VNG +++ + + D +E Sbjct: 8 NKLIVEEMFDGMRIDQYMALAVTDYSRSVLQTWIKNGNITVNGNVVK-PNLRLKEDDVVE 66 Query: 62 VD-------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR- 107 + + + + L + +V + T+ L + ++ Sbjct: 67 YEITEEQISIVPVPMDLDIVYEDDAILVVNKPKGLIVHPSPSTLNQPTLVHGLLAHTTQL 126 Query: 108 --------VISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYR 146 V R+D +T GLL++ +L + Sbjct: 127 SDLNGELRPGIVHRIDKDTTGLLVVAKTNEAHEILVEDLKQRLISREYVAIVHHQFKHQS 186 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + +D N + + Q L + + + L G+ +I+ + Sbjct: 187 ATVDAPIGRDPKNRQRMAVTDQNSKQAVTHFYLAERFNDFSVLRCKLDTGRTHQIRVHAQ 246 Query: 207 FFNWKVN 213 + + Sbjct: 247 YIKHPIV 253 >gi|331266599|ref|YP_004326229.1| 23S rluA family pseudouridine synthase [Streptococcus oralis Uo5] gi|326683271|emb|CBZ00889.1| 23S rluA family pseudouridine synthase [Streptococcus oralis Uo5] Length = 299 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 33/234 (14%), Positives = 65/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 QR+ K ++ SR I +V VNG ++A V D + Sbjct: 9 GQRLDKALSELTELSRSLANEQIKAGQVLVNGQ-AKKAKYTVQEGDIVTYHVPEPEVLEY 67 Query: 63 --DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + +PL + + +V + + V + I G L Sbjct: 68 VAEDIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFQVLERFGDYSLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|254423656|ref|ZP_05037374.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335] gi|196191145|gb|EDX86109.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335] Length = 309 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 33/240 (13%), Positives = 65/240 (27%), Gaps = 39/240 (16%) Query: 13 PQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------- 62 P+R+ + +A A SR V+++I Q V VNG + +R V + D+I + Sbjct: 12 PERLDRWLADNVEAFSRNRVQQLIEQGAVSVNGEVCDRKKELVTAGDYIILSVPEAQPYE 71 Query: 63 ---DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + +PL + L + +V + V L ++ VG + Sbjct: 72 LTPEDIPLDILYEDDQLLIVNKPAGMVVHPAPGHATGTLVHALLFYCGEQLTGVGGVQRP 131 Query: 118 ----------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ--V 153 L R + + Sbjct: 132 GIVHRLDKNTTGAMVVAKTETALCNLQQQIQAKTAKREYLGIVNGAPKAEQGTIDQPIGR 191 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + V G + G+ + L G+ +I+ + + Sbjct: 192 HPKHRKKMSILPVESGGRTAITHWKTVERLGNYTLIHFQLETGRTHQIRVHSAYLGLPII 251 >gi|328946167|gb|EGG40312.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK1087] Length = 298 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 66/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASVAGQRLDKAVAELTYLSRSLANEQIKDGRILVNGQ-AKKAKYAVKEGDIIYYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVINKPQGMVVHPSAGHTSGTLVNALMYHIQDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTSFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|300767399|ref|ZP_07077311.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|300495218|gb|EFK30374.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ATCC 14917] Length = 320 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 71/245 (28%), Gaps = 36/245 (14%) Query: 3 DKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ + + T R+ KV+A + +R +V+++I +V VNG L +V D I Sbjct: 20 EQQFMITDQTG-RLDKVLAALQSVWTRSQVDKLIKTDQVTVNGQLEAS-KYHVKPGDEIV 77 Query: 62 VDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V ++ + L + +V + V L Sbjct: 78 VAAQTVQQTTIEPENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALLYHSPLS 137 Query: 108 VISVGRLDINTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 I+ + ++ ND + + V V ++ Sbjct: 138 TINGEFRPGIVHRIDKDTSGLLMVAKNDRAHQSLAAQLKAKTNLREYVALVHGVIKEDTG 197 Query: 160 LLK-----------KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + K +I+ + + ++ L G+ +I+ + Sbjct: 198 TINAPLGRSPKDRKKQAIIKTGRPAVTHFKVLKRYQHYTLISCRLETGRTHQIRVHLQSI 257 Query: 209 NWKVN 213 + Sbjct: 258 GHPLV 262 >gi|167464425|ref|ZP_02329514.1| YlyB [Paenibacillus larvae subsp. larvae BRL-230010] gi|322384100|ref|ZP_08057818.1| pseudouridylate synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321151180|gb|EFX44489.1| pseudouridylate synthase-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 311 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 25/244 (10%), Positives = 65/244 (26%), Gaps = 37/244 (15%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 I E +R+ K ++ SR ++++ I + + VN ++ + D I+ Sbjct: 15 IAGEEHAGERIDKFVSECLDGVSRTQIQQWIKEGHISVNEKQVK-PNYKLAEGDRIKLNI 73 Query: 62 -----VDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 VD P + ++ + + +V + V + Sbjct: 74 PDPEQVDIRPEPIPLDIYYEDKDVIVVNKPRGMVVHPAPGHSSGTLVNALMYHCKDLSGI 133 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST---------------------QWLRVYRVRF 149 G + + G + + L + Sbjct: 134 NGEMRPGIVHRIDKDTSGLIMAAKHDKAHASLADQLKEHSVTRKYLALVQGNLAHEQGTV 193 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D + + + + + G + L G+ +I+ +F Sbjct: 194 EAPIGRDPKDRKLYTVTEKNSKEAVTHFVVMERFGDYTLTELKLETGRTHQIRVHMKFIG 253 Query: 210 WKVN 213 + Sbjct: 254 HPLV 257 >gi|254304341|ref|ZP_04971699.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] gi|148324533|gb|EDK89783.1| pseudouridylate synthase [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] Length = 316 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 67/242 (27%), Gaps = 38/242 (15%) Query: 10 NFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 + R+ K ++ A+R +E++I VKVN ++++ + S + IEV Sbjct: 15 EYEGMRLDKYLSEQIEEATRSYLEKLIDNNFVKVNSKIIKKNGRKLKSGEKIEVLIPEEE 74 Query: 63 --DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 D + + + +V + V L + G + Sbjct: 75 NIDIEAENIPLDVVYENDDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNNLSSVNGNI 134 Query: 115 DINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + + + + R Sbjct: 135 RPGIIHRLDKDTSGLILIAKNNFAHAKLASMFIDKTIHKTYLCIVKGNFSEENLSGRIEN 194 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + +D + K +V + + Q + V V + G+ +I+ + N Sbjct: 195 LIGRDIKDRKKMAVVKENGKIAISNYRVIEQVEGYSLVEVAIETGRTHQIRVHMKSINHV 254 Query: 212 VN 213 + Sbjct: 255 IL 256 >gi|330896110|gb|EGH28331.1| RNA-binding S4 [Pseudomonas syringae pv. japonica str. M301072PT] Length = 74 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 1/52 (1%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 P R+SK + SRRE E I V V+G ++E V T IE+ Sbjct: 2 TDPIRLSKRLIELVGCSRREAELFIEGGWVTVDGEVIEEPHFKVS-TQKIEL 52 >gi|16801023|ref|NP_471291.1| hypothetical protein lin1957 [Listeria innocua Clip11262] gi|16414458|emb|CAC97187.1| lin1957 [Listeria innocua Clip11262] gi|313618258|gb|EFR90322.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua FSL S4-378] Length = 302 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMEKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IRYEAREPEELEILAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVIERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|309778048|ref|ZP_07672988.1| ribosomal large subunit pseudouridine synthase D [Erysipelotrichaceae bacterium 3_1_53] gi|308914185|gb|EFP59985.1| ribosomal large subunit pseudouridine synthase D [Erysipelotrichaceae bacterium 3_1_53] Length = 304 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 31/249 (12%), Positives = 67/249 (26%), Gaps = 37/249 (14%) Query: 1 MKDKNIVQENFT-PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M++ +I+ R+ K I+ SR V+ ++ + + VN + A V + DH Sbjct: 1 MREIDIIAAAEEAGVRIDKYISEQEELSRSRVQSLLQEGLILVNEKPAK-ANYKVKAQDH 59 Query: 60 IE--VDGVP------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I D +R + + + +V + + V L Sbjct: 60 ITACFDDEMELEARPEAMELDVRYEDEDVIVINKPKNIVVHPAAGNQTGTLVNGLLYHCK 119 Query: 106 SRVISVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRV 144 G L L + R+ ++ Sbjct: 120 DLSGINGTLRPGIIHRIDKDTTGLLIVAKNDLAHASLSKQLQSKTVNRLYYALVHGVIQH 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + +D + K + + + + V L G+ +I+ Sbjct: 180 DFGTIDAPIGRDVKDRQKMAVTSTNSKDARTHFQVIERFENYTLVECRLETGRTHQIRVH 239 Query: 205 FEFFNWKVN 213 ++ V Sbjct: 240 MQYIGHPVV 248 >gi|289435186|ref|YP_003465058.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289171430|emb|CBH27974.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|313632720|gb|EFR99690.1| ribosomal large subunit pseudouridine synthase D [Listeria seeligeri FSL N1-067] gi|313637301|gb|EFS02795.1| ribosomal large subunit pseudouridine synthase D [Listeria seeligeri FSL S4-171] Length = 303 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 28/244 (11%), Positives = 67/244 (27%), Gaps = 35/244 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +K I++E+ +R+ K +A SR ++ M+ + VNG + + V D I Sbjct: 3 NEKLIIEESHARERIDKAVAELTGKSRSAIQIMLKSGDITVNGEIAK-PNYKVQVGDEIY 61 Query: 62 VDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 ++ + ++ L + +V + + V L Sbjct: 62 LEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDL 121 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 G++ + G L + + L + Sbjct: 122 SGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQK 181 Query: 156 --------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 +K V++ + + + L G+ +I+ ++ Sbjct: 182 GTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVIERLPGYTLINCKLDTGRTHQIRVHLKY 241 Query: 208 FNWK 211 Sbjct: 242 IGHP 245 >gi|304404034|ref|ZP_07385696.1| pseudouridine synthase, RluA family [Paenibacillus curdlanolyticus YK9] gi|304347012|gb|EFM12844.1| pseudouridine synthase, RluA family [Paenibacillus curdlanolyticus YK9] Length = 324 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 69/245 (28%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +V+ + +R+ K + A + + SR +++ I V VNG + A + + D I Sbjct: 26 VVEVDEAGERLDKYVTESFADSAV-SRTQIQEWIKSGAVLVNGTEAK-AKHRLEAGDVIT 83 Query: 62 VD---GVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V+ P + + + + + +V + V + Sbjct: 84 VEVPEPEPAEIIAEPIPLNIVYEDEDVIVINKQRGLVVHPAPGHHSGTVVNALMYHCQDL 143 Query: 108 VISVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRVYR 146 G + L + + R L R Sbjct: 144 SGINGSIRPGIVHRIDKDTSGLLMAAKNDAAHASLSAQLKEHTVTRKYIALVHGNLPHDR 203 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + +D + + + + ++ + + + L G+ +I+ + Sbjct: 204 GTVDAPIGRDSRDRKMFAVTDKNSKHAVTHFSVIERLDDYTVLELQLETGRTHQIRVHMK 263 Query: 207 FFNWK 211 + Sbjct: 264 YIGHP 268 >gi|257884651|ref|ZP_05664304.1| pseudouridylate synthase [Enterococcus faecium 1,231,501] gi|261207803|ref|ZP_05922488.1| pseudouridylate synthase [Enterococcus faecium TC 6] gi|289566255|ref|ZP_06446687.1| RNA pseudouridine synthase ylyB [Enterococcus faecium D344SRF] gi|294616594|ref|ZP_06696370.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1636] gi|257820489|gb|EEV47637.1| pseudouridylate synthase [Enterococcus faecium 1,231,501] gi|260078186|gb|EEW65892.1| pseudouridylate synthase [Enterococcus faecium TC 6] gi|289161962|gb|EFD09830.1| RNA pseudouridine synthase ylyB [Enterococcus faecium D344SRF] gi|291590544|gb|EFF22277.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1636] Length = 303 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 30/235 (12%), Positives = 65/235 (27%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV+ SR +++ + V VNG ++ A V D I V Sbjct: 11 ESGRIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPVK-ANYKVKQGDEITVLIPEPETL 69 Query: 63 ----DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +P + + + +V + + V + I G + Sbjct: 70 DVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHIKDLSTINGVIRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNL---- 160 + G L + + V V ++ +N Sbjct: 130 GIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGR 189 Query: 161 ----LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K + + T+ + V + L G+ +I+ ++ + Sbjct: 190 SKENRKMQAIREDGKPAVTHFTVLERFEGFTLVELKLETGRTHQIRVHMKYIGYP 244 >gi|311113288|ref|YP_003984510.1| ribosomal RNA large subunit methyltransferase J [Rothia dentocariosa ATCC 17931] gi|310944782|gb|ADP41076.1| ribosomal RNA large subunit methyltransferase J [Rothia dentocariosa ATCC 17931] Length = 244 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 1/55 (1%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ K +A G +ASR ++I V VNG ++ +A+ V D + V PL Sbjct: 1 MRLDKFLAEHGLVASRTLAAKLIDAGCVSVNGKIVYKASQPVHRDDDVLVQESPL 55 >gi|160900458|ref|YP_001566040.1| RluA family pseudouridine synthase [Delftia acidovorans SPH-1] gi|160366042|gb|ABX37655.1| pseudouridine synthase, RluA family [Delftia acidovorans SPH-1] Length = 356 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 27/237 (11%), Positives = 59/237 (24%), Gaps = 38/237 (16%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R KV+A SR +++++AQ V +NG +L + A V + D + ++ P Sbjct: 59 RADKVLAECVAEFSRSYLQQLLAQGAVTLNGRVLVKPATKVAAGDRMVLEMRPTQQSMAF 118 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL---- 114 + + L + +V + + L Sbjct: 119 QPEDMALDVVYEDEHLLVVNKPAGLVVHPAPGNWTGTLLNGLLGRDPKAREVPRAGIVHR 178 Query: 115 -----------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ + L + + V D Sbjct: 179 LDKDTSGLMVVARSRAAMDALVAMIAARDVSRQYLALAHKAWGPRKHREVDAPIGRDPRN 238 Query: 158 LNLL-KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + L + V L G+ +I+ + Sbjct: 239 RLRMAVVDLAQHAGKTARTDIDLLAGNEEVSLVRCTLHTGRTHQIRVHMASLGHPLV 295 >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 = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 39/143 (27%), Positives = 64/143 (44%), Gaps = 23/143 (16%) Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL- 179 +LLLT++G L + L P R Y V+ G ++ +LN L++G+ IQG + + Sbjct: 1 MLLLTDNGRLQQRLTDPRFGHWRQYWVQVEGCANEVQLNQLQRGVTIQGRLTRPAKARIL 60 Query: 180 ----------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY--- 220 + + W+ + LREG+NR+++++ RLIR S Sbjct: 61 SDDERQTISDRKPPIRERRSIPTCWLCLELREGRNRQVRRMTAAVGLPTLRLIRHSIDLM 120 Query: 221 -GPFQL--GTLLAGSTREVSKKI 240 G L L AG REV++ Sbjct: 121 DGEIVLSIKDLSAGMWREVTRTE 143 >gi|300812431|ref|ZP_07092861.1| pseudouridine synthase, RluA family [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496598|gb|EFK31690.1| pseudouridine synthase, RluA family [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 304 Score = 68.7 bits (166), Expect = 1e-09, Method: Composition-based stats. Identities = 35/246 (14%), Positives = 71/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + + + QR+ K +A SR ++ ++ V VNG + + V D Sbjct: 1 MNREYELTAEESGQRLDKYLAGEMTNLSRSRIKELVQAGEVLVNGKK-SKVSYKVQKGDL 59 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V + +P + + + + +V + + V L Sbjct: 60 IQVTVLPLEPLKLEAENIPLDIVYEDEDVIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR 119 Query: 106 --------SRVISVGRLDINTEGLLLLTND------------GGLARVLELPSTQWLRVY 145 R V R+D +T GLL++ + + L Sbjct: 120 DLADSPEGFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQYLAIVHGNFAE 179 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K+ V++ + Q + V L G+ +I+ Sbjct: 180 EEGTIDAPIGRNPKDRKQMAVVEKGKSAVTHFKVLEQYQGYSLVECQLETGRTHQIRVHM 239 Query: 206 EFFNWK 211 + Sbjct: 240 AYIGHP 245 >gi|300814696|ref|ZP_07094946.1| pseudouridine synthase, RluA family [Peptoniphilus sp. oral taxon 836 str. F0141] gi|300511169|gb|EFK38419.1| pseudouridine synthase, RluA family [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 295 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 74/245 (30%), Gaps = 34/245 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + +ENF QR+ +A+ SR +++ +I ++V VN ++ A + D I Sbjct: 1 MDTFKVDKENF-GQRLDVYLAKLVDLSRSQIKNLIDNEKVLVNNKNVK-AGYKLSEDDVI 58 Query: 61 EV----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + D P + + + +V + + V L +++ Sbjct: 59 SLEYPKDSKPFAEKIDFNVIYEDDYIAVISKPQDLVVHIGAGNSSGTLVNGLLYKFKNQL 118 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPST--------------------QWLRVYRVR 148 ++ L L G + + Sbjct: 119 SNLDPLRPGIVHRLDKNTSGLMIIAKNNQAHINLVDQFKNSQIKKYYLAIVHGKTPESGI 178 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + ++ + K +V + + + + + + L G+ +I+ + Sbjct: 179 IEEPIGRNPNDRKKMAVVYKNSKQAITKYKKLKEFQEYSLLNINLLTGRTHQIRVHMAYI 238 Query: 209 NWKVN 213 + V Sbjct: 239 GYPVL 243 >gi|295425512|ref|ZP_06818204.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus amylolyticus DSM 11664] gi|295064803|gb|EFG55719.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus amylolyticus DSM 11664] Length = 302 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 42/247 (17%), Positives = 76/247 (30%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K + R+ K +A SR V+ +I + VN +E+A+ V D Sbjct: 1 MTKKYELTVENEKGRLDKYLADKIDDLSRTRVKELIDDGLILVN-QKVEKASYKVKDGDA 59 Query: 60 IEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IEV + +PL + + + +V + + V L Sbjct: 60 IEVTVPAVKPLDVIPENIPLDIIYEDNDVIVVNKPQGMVVHPAAGHPDHTLVNALLYHTK 119 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + + LE + Sbjct: 120 DLASSPEGFRPGIVHRIDKDTSGLLMIAKNSQVRESLEDQLAHKTNKRLYLAIVHGNFAE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + KK V+ G + + Q + + L G+ +I+ Sbjct: 180 EEGTIDAPIARNPHDRKKMGVVAGGKHAVTHFKVIEQFKGYSLIQCKLETGRTHQIRVHL 239 Query: 206 EFFNWKV 212 + V Sbjct: 240 SYIGHPV 246 >gi|309800529|ref|ZP_07694680.1| ribosomal large subunit pseudouridine synthase D [Streptococcus infantis SK1302] gi|308115840|gb|EFO53365.1| ribosomal large subunit pseudouridine synthase D [Streptococcus infantis SK1302] Length = 297 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 32/234 (13%), Positives = 64/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ K ++ SR I +V VNG + ++A V D + Sbjct: 9 GIRLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYQVPEPEVLEY 67 Query: 63 --DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + +PL + + +V + + V + I G L Sbjct: 68 VAEDIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + L G+ +I+ + V Sbjct: 188 KDRKKQAVTVKGKPAVTRFQVLERFGDYTLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|325116556|emb|CBZ52110.1| putative 16S pseudouridylate synthase [Neospora caninum Liverpool] Length = 255 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 29/57 (50%) Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 G +++ L EG++R+I+++ E +V ++ R+ G LG L G R + Sbjct: 196 GRTTRLSIELLEGRHRQIRRMCELVGLRVLKIHRVRIGKISLGALPQGRWRLLLPHE 252 >gi|260889966|ref|ZP_05901229.1| ribosomal large subunit pseudouridine synthase D [Leptotrichia hofstadii F0254] gi|260860572|gb|EEX75072.1| ribosomal large subunit pseudouridine synthase D [Leptotrichia hofstadii F0254] Length = 326 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 29/250 (11%), Positives = 69/250 (27%), Gaps = 39/250 (15%) Query: 2 KDKNIVQENFTPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++NIV + R+ K ++ +R ++++I + + VN + A + D I Sbjct: 22 NEENIVVLKEEAESRIDKFLSERLELTRTRIQQLIKDENILVNEKK-TKPAYKIEENDTI 80 Query: 61 EV--------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 +V + + + + K +V + + V L I Sbjct: 81 KVVIPELETVEIKPENIDIEIIYEDNDLAVINKKAGIVVHPANGHYSGTLVNAILYYIKD 140 Query: 107 RVISVGRLDI-------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVR----------- 148 G + LL+ A + V + Sbjct: 141 LSGINGEIRPGIVHRLDKDTSGLLIIAKNDKAHLKLSQMFHDKTVKKTYLAILKGKLSQK 200 Query: 149 -----FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 D++ + + + +Q V V + G+ +I+ Sbjct: 201 SGRIVTQIGRDKNDRKKMTVTNDLNSGKTAITNYEVISQTEKFTLVKVHIETGRTHQIRV 260 Query: 204 VFEFFNWKVN 213 + + + Sbjct: 261 HMKHLGYPIL 270 >gi|253681471|ref|ZP_04862268.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum D str. 1873] gi|253561183|gb|EES90635.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum D str. 1873] Length = 304 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 68/246 (27%), Gaps = 36/246 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + I+ EN R+ I+ + SR ++++I + VKVNG +++ + D + Sbjct: 4 KEFIIHENLVNCRLDVFISNSLEGKSRSYIQKLIQEGHVKVNGKD-KKSNYKLKLHDSVI 62 Query: 62 VDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V+ + + ++ + + +V + + V L + Sbjct: 63 VNNIENEFQKINPENIDLDILYEDKDIIVINKPQGMVVHPATSNYSGTLVNGLLYHCDTL 122 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 + G L + + L + + Sbjct: 123 STLNDDTRPGIVHRIDKDTSGVLVVAKNNKAHEVLAEQLKEHSMKREYIALVEGILKKDN 182 Query: 156 --------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 K V+Q + + N V L G+ +I+ + Sbjct: 183 GFIDKPLGRNPKDRIKMAVVQEGKNAITHYEVLKRFKKNTLVKCILETGRTHQIRVHMSY 242 Query: 208 FNWKVN 213 + Sbjct: 243 IGHPLV 248 >gi|68075409|ref|XP_679622.1| RNA pseudouridylate synthase [Plasmodium berghei strain ANKA] gi|56500415|emb|CAI04773.1| RNA pseudouridylate synthase, putative [Plasmodium berghei] Length = 180 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 28/177 (15%), Positives = 50/177 (28%), Gaps = 3/177 (1%) Query: 64 GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 L + L + + + + GRLD N+ GLL+ Sbjct: 4 DNKLNNKKLLVRNLIRNENKYIEEEHKCMSYFIYKNINIEKVNNLYVCGRLDANSTGLLI 63 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK 183 T D + L + + + + K + Q Sbjct: 64 YTQDSMASSYLLNKYKYEVEKEYIITTFNEINECHLKMLKDNLFVDGKL---IYKCHIQY 120 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + + L +G ++ I+K+ N K+ L R G L L G R + Sbjct: 121 VDSFTLIFKLYQGFHKIIRKICLLSNIKIRSLHRTRIGKIHLNNLPLGKWRFLMPNE 177 >gi|332360722|gb|EGJ38531.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK49] Length = 298 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 30/234 (12%), Positives = 62/234 (26%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 QR+ K +A SR I R+ VNG + ++A V D I + P Sbjct: 11 GQRLDKAVAELTFLSRSLANEQIKDGRILVNGQV-KKAKYVVKEGDVISYELPEPEVVEY 69 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 70 VPEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 129 Query: 119 EGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++ ND + + + + +++ I Sbjct: 130 VHRIDKDTSGLLMIAKNDQAHVALADELKNKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 189 Query: 170 I---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 KDRKKQAVTAKGKPALTRFQVLERFGDFSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|312872998|ref|ZP_07733058.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 2062A-h1] gi|325912701|ref|ZP_08175084.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII 60-B] gi|311091520|gb|EFQ49904.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 2062A-h1] gi|325478122|gb|EGC81251.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII 60-B] Length = 311 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 71/242 (29%), Gaps = 36/242 (14%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 +V+ + R+ K IA SR V+ +I Q+ + NG L + + V + D I Sbjct: 10 VVKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEI 68 Query: 61 ------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 +D L + + + +V + + V + + Sbjct: 69 PSPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTKNLAKC 128 Query: 107 -RVISVGRLDINTEGLLLL-------TNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--- 155 + G + + L T L + L + + V + + Sbjct: 129 DEIFRPGIVHRIDKDTSGLLMIAKNATARISLEKQLANKINKREYIAIVHANFKHSSGVI 188 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 ++ V+ T+ Q + V L G+ +I+ + Sbjct: 189 DAPIGRNPYQRQQMAVVASGKKAITHFTVLEQFPGYSLVKCVLETGRTHQIRVHMSYIGH 248 Query: 211 KV 212 + Sbjct: 249 PI 250 >gi|309808015|ref|ZP_07701936.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 01V1-a] gi|308168744|gb|EFO70841.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 01V1-a] Length = 311 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 71/242 (29%), Gaps = 36/242 (14%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 +V+ + R+ K IA SR V+ +I Q+ + NG L + + V + D I Sbjct: 10 VVKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEI 68 Query: 61 ------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 +D L + + + +V + + V + + Sbjct: 69 PSPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTKNLAEC 128 Query: 107 -RVISVGRLDINTEGLLLL-------TNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--- 155 + G + + L T L + L + + V + + Sbjct: 129 DEIFRPGIVHRIDKDTSGLLMIAKNATARISLEKQLANKINKREYIAIVHANFKHSSGVI 188 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 ++ V+ T+ Q + V L G+ +I+ + Sbjct: 189 DAPIGRNPYQRQQMAVVASGKKAITHFTVLEQFPGYSLVKCVLETGRTHQIRVHMSYIGH 248 Query: 211 KV 212 + Sbjct: 249 PI 250 >gi|253577879|ref|ZP_04855151.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251850197|gb|EES78155.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 304 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 34/244 (13%), Positives = 76/244 (31%), Gaps = 38/244 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + + R+ + ++ SR +++++ +Q++ VNG ++ A V D I V Sbjct: 8 VSDGQSGIRIDRYLSEMNEELSRSYIQKLLKEQKITVNGSAVK-ANYKVQEGDEISVAVP 66 Query: 63 DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---- 107 D + + L + +V + + V + Sbjct: 67 DIKEPDILPEDIPLDILYEDDDVLIVNKPKGMVVHPSAGHTSGTLVNAIMFHCKDNLSGI 126 Query: 108 -----VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-------------F 149 V R+D +T G LL+ + R L + R R Sbjct: 127 NGVLRPGIVHRIDKDTTGALLVCKNDNAHRNLAEQLKEHSIRRRYRAIVAGVLKEDEGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 G + + ++ K + + + + + +V L G+ +I+ Sbjct: 187 EGPIGRHPIDRKKMAVNYKNGKDAVTHYKVLERFKNATYVECRLETGRTHQIRVHMTSIG 246 Query: 210 WKVN 213 + Sbjct: 247 HPLL 250 >gi|116873278|ref|YP_850059.1| ribosomal large subunit pseudouridine synthase [Listeria welshimeri serovar 6b str. SLCC5334] gi|116742156|emb|CAK21280.1| Ribosomal large subunit pseudouridine synthase [Listeria welshimeri serovar 6b str. SLCC5334] Length = 302 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEIREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >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 = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 17/79 (21%), Positives = 30/79 (37%), Gaps = 2/79 (2%) Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI--LREQ 244 + V + + EGK+R ++++ V L R G L L AG R ++ + E Sbjct: 72 STVRLTVSEGKHRMVRRILANCGHPVVSLHRDRLGAVALNDLPAGEYRPLTTEESPWAET 131 Query: 245 LGPHLLEEAQVNLDAPIYS 263 L P + + Sbjct: 132 LVPLEKKHIKPKPKTSRKQ 150 >gi|238018931|ref|ZP_04599357.1| hypothetical protein VEIDISOL_00791 [Veillonella dispar ATCC 17748] gi|237864415|gb|EEP65705.1| hypothetical protein VEIDISOL_00791 [Veillonella dispar ATCC 17748] Length = 307 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 60/243 (24%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 IV R+ + SR ++ +I + V G + +A + + + V Sbjct: 5 IVNAEQDGMRLDVFLTEHMEGSRSYIQSLIKGGHITV-GAKVGKANLRLTPNAVVRVEIP 63 Query: 63 ---------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + +PL + + + + +V + V L Sbjct: 64 EPESVEVKPEDIPLDVLYEDHDIIIVNKQRGMVVHPAVGNYSGTLVNALLYHCKDLSGIN 123 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------- 155 G + L G + + L + Sbjct: 124 GEIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAEQVKEHSAKRTYLALVQGNIVEEKGTIK 183 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +K +V + + + G V L G+ +I+ F Sbjct: 184 APIGRHPKDRMKMAVVFENSKDAVTHFNVVERFGHQTLVECNLETGRTHQIRVHFAHIGH 243 Query: 211 KVN 213 V Sbjct: 244 PVV 246 >gi|322387558|ref|ZP_08061167.1| ribosomal large subunit pseudouridine synthase D [Streptococcus infantis ATCC 700779] gi|321141425|gb|EFX36921.1| ribosomal large subunit pseudouridine synthase D [Streptococcus infantis ATCC 700779] Length = 297 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 28/234 (11%), Positives = 61/234 (26%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ K ++ SR I +V VNG + ++A V D I Sbjct: 9 GIRLDKALSDLTELSRSLANEQIKSGQVLVNGHV-KKAKYTVQEGDVITYQIPEPEVLEY 67 Query: 63 --DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + +PL + + +V + + V + I G L Sbjct: 68 VAEDIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 ++ ND + + + + +++ I Sbjct: 128 VHRIDKDTSGLLMIAKNDEAHMALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 170 I---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFQVLERFGDYTLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|322376434|ref|ZP_08050927.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. M334] gi|321282241|gb|EFX59248.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. M334] Length = 296 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 26/232 (11%), Positives = 60/232 (25%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 ENLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST--------------QWLRVYRV-RFHGQVDQDKLNLLKKGI 165 + G L + ++ + + + + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 166 VIQGICY---GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQGVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >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 = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 30/148 (20%), Positives = 61/148 (41%), Gaps = 16/148 (10%) Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 L + ++++GRLD +EGL+LLT +G + + + + +V + K+ Sbjct: 16 LADFPNGIMAIGRLDETSEGLILLTTNGAYSYHVNNSNIEKEYYAQVDGIITEKEIKILQ 75 Query: 161 LKKGIVIQG--ICYGDMQVTLDT--------------QKGSNAWVTVGLREGKNREIKKV 204 I I G + + G +WV++ + EGK R+++K+ Sbjct: 76 KGLPISINGSIYHTKPCKAKRIDTPLLPPTRQRIRDDRHGPTSWVSITVTEGKFRQVRKM 135 Query: 205 FEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + RL R+ G +++ + G Sbjct: 136 TAAVGFPTLRLARVRIGEYKIEQMQPGD 163 >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 = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|270292963|ref|ZP_06199174.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. M143] gi|270278942|gb|EFA24788.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. M143] Length = 299 Score = 68.3 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 33/234 (14%), Positives = 64/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 QR+ K ++ SR I +V VNG + ++A V D + P Sbjct: 9 GQRLDKALSDLTELSRSLANEQIKAGQVLVNGQV-KKAKYTVQEGDIVTYHVPEPEVLEY 67 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 68 VAEDIPLDIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|313123676|ref|YP_004033935.1| pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312280239|gb|ADQ60958.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 304 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 35/246 (14%), Positives = 71/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + + + QR+ K +A SR ++ ++ V VNG + + V D Sbjct: 1 MNREYELTAEESGQRLDKYLAGEMTDLSRSRIKELVQAGEVLVNGKK-SKVSYKVQKGDL 59 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V + +P + + + + +V + + V L Sbjct: 60 IQVTVLPLEPLKLEAENIPLDIVYEDEDIIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR 119 Query: 106 --------SRVISVGRLDINTEGLLLLTND------------GGLARVLELPSTQWLRVY 145 R V R+D +T GLL++ + + L Sbjct: 120 DLADSPEGFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQYLAIVHGNFAE 179 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K+ V++ + Q + V L G+ +I+ Sbjct: 180 EEGTIDAPIGRNPKDRKQMAVVEKGKSAVTHFKVLEQYQGYSLVECQLETGRTHQIRVHM 239 Query: 206 EFFNWK 211 + Sbjct: 240 AYIGHP 245 >gi|259500628|ref|ZP_05743530.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus iners DSM 13335] gi|302191317|ref|ZP_07267571.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus iners AB-1] gi|259168012|gb|EEW52507.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus iners DSM 13335] Length = 311 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 71/242 (29%), Gaps = 36/242 (14%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 +V+ + R+ K IA SR V+ +I Q+ + NG L + + V + D I Sbjct: 10 VVKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEI 68 Query: 61 ------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 +D L + + + +V + + V + + Sbjct: 69 PSPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTKNLAEC 128 Query: 107 -RVISVGRLDINTEGLLLL-------TNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--- 155 + G + + L T L + L + + V + + Sbjct: 129 DEIFRPGIVHRIDKDTSGLLMIAKNATARISLEKQLANKINKREYIAIVHANFKHSSGVI 188 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 ++ V+ T+ Q + V L G+ +I+ + Sbjct: 189 DAPIGRNPYQRQQMAVVASGKKAITHFTVLEQFPGYSLVKCILETGRTHQIRVHMSYIGH 248 Query: 211 KV 212 + Sbjct: 249 PI 250 >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 = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKSGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|322374526|ref|ZP_08049040.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. C300] gi|321280026|gb|EFX57065.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. C300] Length = 299 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 33/234 (14%), Positives = 63/234 (26%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 QR+ K ++ SR I +V VNG ++A V D + P Sbjct: 9 GQRLDKALSDLTELSRSLANEQIKAGQVLVNGQ-AKKAKYTVQEGDIVTYHVPEPEVLEY 67 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 68 VAENLPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNSLMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|294781868|ref|ZP_06747200.1| ribosomal large subunit pseudouridine synthase, RluA family [Fusobacterium sp. 1_1_41FAA] gi|294481679|gb|EFG29448.1| ribosomal large subunit pseudouridine synthase, RluA family [Fusobacterium sp. 1_1_41FAA] Length = 318 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 37/279 (13%), Positives = 81/279 (29%), Gaps = 48/279 (17%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---- 61 V + R+ K +A A+R +E++I VK+N ++ + + S + IE Sbjct: 12 VSPEYEGMRLDKYLAEQIEEATRSYLEKLIDNSYVKINSKVINKNGRKLKSGEKIEISIP 71 Query: 62 ----VDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +D + + + K +V + V L + Sbjct: 72 EEENIDIEAENIPLDIVFENDDFILVNKKYNMVVHPAYGNYNGTLVNALLYYTNNLSSVN 131 Query: 112 GRLDI----------------------NTEGLLLLTNDGGLARVLELPSTQWLRVY-RVR 148 G + + + + T+ L + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKNNFAHAKLASMFTDKTIHKTYLCIVKGNFSDENLEGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K +V + + Q + V V + G+ +I+ + Sbjct: 192 IENLIGRDTKDRKKMAVVKENGKLAISNYRVVEQVKDYSLVEVLIETGRTHQIRVHMKSI 251 Query: 209 NWKVN----------RLIRISYGPFQLGTLLAGSTREVS 237 N + + R F+L L +E + Sbjct: 252 NHPILGDVIYGSEDKNIKRQMLHAFKLEFLNPLDNKEYT 290 >gi|255522642|ref|ZP_05389879.1| hypothetical protein LmonocFSL_15771 [Listeria monocytogenes FSL J1-175] Length = 279 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|254994200|ref|ZP_05276390.1| hypothetical protein LmonocytoFSL_15395 [Listeria monocytogenes FSL J2-064] Length = 296 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|313623251|gb|EFR93499.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua FSL J1-023] Length = 297 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 31/240 (12%), Positives = 65/240 (27%), Gaps = 35/240 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 I++E+ +RV KVIA SR ++ M+ + VNG L + V D I + Sbjct: 2 IIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDEIRYEAR 60 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + ++ L + +V + + V L Sbjct: 61 EPEELEILAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCDDLSGIN 120 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------- 155 G++ + G L + + L + Sbjct: 121 GKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVHQKGTIE 180 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +K V++ + + + L G+ +I+ ++ Sbjct: 181 APIGRAKEDRQKMAVVRDGKEARTHFEVIERLPGYTLINCKLDTGRTHQIRVHLKYIGHP 240 >gi|300741214|ref|ZP_07071235.1| ribosomal RNA large subunit methyltransferase J [Rothia dentocariosa M567] gi|300380399|gb|EFJ76961.1| ribosomal RNA large subunit methyltransferase J [Rothia dentocariosa M567] Length = 244 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 1/55 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ K +A G+A SR ++I V VNG ++ +A+ V D + V PL Sbjct: 1 MRLDKFLAEHGLAASRTLAAKLIDAGCVSVNGKIVYKASQPVHRDDDVLVQESPL 55 >gi|16331032|ref|NP_441760.1| hypothetical protein slr1629 [Synechocystis sp. PCC 6803] gi|3915482|sp|P74346|Y1629_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr1629; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|1653527|dbj|BAA18440.1| slr1629 [Synechocystis sp. PCC 6803] Length = 327 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 66/245 (26%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-G 64 V E R+ K +A SR +++I +V+ NG++ + + + + D + V+ Sbjct: 25 VAEGTLGVRLDKWLAEQLPELSRSRCQKLIESGQVQRNGLVCQDKNLILKTGDRLVVNIP 84 Query: 65 VPLR-------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + +V + V L Sbjct: 85 ELIPLDVVAQNIPLDILYEDEQLIIINKPAGLVVHPGPGHPDGTVVNALLAHCPDLAGIG 144 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 G L G + + L+V + Sbjct: 145 GVQRPGIVHRLDKDTTGAMVVAKTELALHNLQVQLKEKTARRLYWGIVYGSPKEIQGTVN 204 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V +G L + G+++W+ L G+ +I+ + Sbjct: 205 LPVGRHPGDRQKMGIVPVEKGGREAVTHWRLLERIGNHSWLEFQLETGRTHQIRVHSKQM 264 Query: 209 NWKVN 213 + Sbjct: 265 GHPLV 269 >gi|217077277|ref|YP_002334995.1| ribosomal large subunit pseudouridine synthase C [Thermosipho africanus TCF52B] gi|217037132|gb|ACJ75654.1| ribosomal large subunit pseudouridine synthase C [Thermosipho africanus TCF52B] Length = 293 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 25/242 (10%), Positives = 70/242 (28%), Gaps = 44/242 (18%) Query: 6 IVQENFTPQRVSKVIARAGIASRRE--------VERMIAQQRVKVNGILLERAAVNVMST 57 IV E R+ K + R++ + ++I ++KVNG ++ + + Sbjct: 2 IVTEENYYSRLDKFL-------RKKLLNLPLSAIYKLIRTGKIKVNGKKVKNPSYKIEIG 54 Query: 58 DHI-----------EVDGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 D I E++ + + L + + + + Sbjct: 55 DEITIEEDISKYNREINNKVVPIKMDLDIVYEDNDILIINKPAGIPIHPGKGTHIATLIE 114 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLL-------TNDGGLARVLELPSTQWLRVYRVRFHG 151 + + + + + + + L ++ S + + + Sbjct: 115 GLIYYGQEKNFTPHLVHRLDKHTSGILIIAKNTQSARELGDIIAGRSIKKEYIALCKGKL 174 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + L+ + + T G + + V ++ G+ +I+K N Sbjct: 175 SKEGKIDIPLENKQALTTFITQKVYKTHL---GEFSLLNVNIKTGRKHQIRKHLSLINHP 231 Query: 212 VN 213 + Sbjct: 232 II 233 >gi|301301197|ref|ZP_07207353.1| pseudouridine synthase, RluA family [Lactobacillus salivarius ACS-116-V-Col5a] gi|300851196|gb|EFK78924.1| pseudouridine synthase, RluA family [Lactobacillus salivarius ACS-116-V-Col5a] Length = 298 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 30/247 (12%), Positives = 72/247 (29%), Gaps = 37/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M D ++ + R+ KV+ +R ++++MI +KVNG + ++A V D Sbjct: 1 MSDYKVLADKTG--RLDKVVTNIFTDYTRSQLKKMIDDGNIKVNGDV-KKANYKVNLGDE 57 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I D ++ + + + +V + V L Sbjct: 58 ITFDKPEVKKLSLEPENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHFEHTLVNALLYHSP 117 Query: 106 SRVISVGRLDINTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I+ + ++ ND + + + + ++ Sbjct: 118 LSTINGTYRPGIVHRIDKDTSGLLMVAKNDMAHQSLAKQLKDKTNTREYIALVHGNIKED 177 Query: 158 LNLLK-----------KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + K V++ + + G V L G+ +I+ + Sbjct: 178 SGTIDAPLGRSKVDRKKQAVVKDGRNAVTHFEVLKRYGDYTLVKCVLETGRTHQIRVHMK 237 Query: 207 FFNWKVN 213 + + Sbjct: 238 YIGHPLV 244 >gi|13357873|ref|NP_078147.1| pseudouridine synthase (uracil hydrolase) [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|11279832|pir||H82907 pseudouridine synthase (uracil hydrolase) UU313 [imported] - Ureaplasma urealyticum gi|6899289|gb|AAF30722.1|AE002128_10 pseudouridine synthase (uracil hydrolase) [Ureaplasma parvum serovar 3 str. ATCC 700970] Length = 299 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 73/242 (30%), Gaps = 34/242 (14%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ + QR+ K + SR +++M+ Q + VN + +A+ + D+I+++ Sbjct: 2 KILYSLMSSQRIDKFLVENTNYSRTLIKKMLDQNLILVNDNFISKASYLLKKNDYIQINN 61 Query: 65 VP-----------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + ++ L + LV S + + + + Sbjct: 62 ELPIVQEQKKLLPFVYSLEIIFEDQDLLIVNKPSGMLVHPTSFHEQNTLANALKYYLKTD 121 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI-- 165 + L++ +A + + + ++ + L I Sbjct: 122 NFYITHRLDKNTSGLIIICKNQIALNSLQQQFMQKTIRKSYYAIVHNRFDMQHLHFMINE 181 Query: 166 -------------VIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V + Q + A V V + G+ +I+ + N Sbjct: 182 PIGHSYQDKLRMKTGNSKNTKEAISIVKVLEQYKNTALVEVSIITGRTHQIRVHMRYINH 241 Query: 211 KV 212 V Sbjct: 242 PV 243 >gi|199598373|ref|ZP_03211792.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus rhamnosus HN001] gi|258508458|ref|YP_003171209.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus rhamnosus GG] gi|199590692|gb|EDY98779.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus rhamnosus HN001] gi|257148385|emb|CAR87358.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus rhamnosus GG] gi|259649771|dbj|BAI41933.1| pseudouridylate synthase [Lactobacillus rhamnosus GG] Length = 306 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 37/246 (15%), Positives = 73/246 (29%), Gaps = 37/246 (15%) Query: 1 MKDKNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M D + R+ K+I A +R +V++ + V VNG ++ A V + D Sbjct: 1 MSDTFTI--TTESGRIDKIITAHETTHTRSQVQKWLQDGLVTVNGNPVK-ANFKVTAGDV 57 Query: 60 IEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + V + PL+ + + + +V + V L Sbjct: 58 VTVTIPEVKPLKAVAEPIPLEIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTK 117 Query: 106 SRVIS-------VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-- 156 I+ V R+D +T GLL++ L + Sbjct: 118 LPGINGVIRPGIVHRIDKDTSGLLMVAKTEAAQLSLSAQLKAKTSIREYLALVHGTFKED 177 Query: 157 ----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ V+ + + + + V L G+ +I+ Sbjct: 178 EGTIDAPLGRDPRDRKRQAVVADGRHAVTHFQVLERFTNYTLVKCILDTGRTHQIRVHMA 237 Query: 207 FFNWKV 212 + + V Sbjct: 238 YTHHPV 243 >gi|90961803|ref|YP_535719.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus salivarius UCC118] gi|90820997|gb|ABD99636.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus salivarius UCC118] gi|300214544|gb|ADJ78960.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713] Length = 298 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 31/247 (12%), Positives = 72/247 (29%), Gaps = 37/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M D ++ + R+ KV+ +R ++++MI +KVNG + ++A V D Sbjct: 1 MSDYKVLADKTG--RLDKVVTNIFTDYTRSQLKKMIDDGNIKVNGDV-KKANYKVNLGDE 57 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I D ++ + + + +V + V L Sbjct: 58 ITFDKPEVKKLSLEPENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHFEHTLVNALLYHSP 117 Query: 106 SRVISVGRLDINTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I+ + ++ ND + + + V ++ Sbjct: 118 LSTINGTYRPGIVHRIDKDTSGLLMVAKNDMAHQSLAKQLKDKTNTREYVALVHGNIKED 177 Query: 158 LNLLK-----------KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + K V++ + + G V L G+ +I+ + Sbjct: 178 SGTIDAPLGRSKVDRKKQAVVKDGRNAVTHFEVLKRYGDYTLVKCVLETGRTHQIRVHMK 237 Query: 207 FFNWKVN 213 + + Sbjct: 238 YIGHPLV 244 >gi|323704148|ref|ZP_08115727.1| pseudouridine synthase, RluA family [Thermoanaerobacterium xylanolyticum LX-11] gi|323536214|gb|EGB25986.1| pseudouridine synthase, RluA family [Thermoanaerobacterium xylanolyticum LX-11] Length = 306 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 33/244 (13%), Positives = 69/244 (28%), Gaps = 36/244 (14%) Query: 5 NIVQENFT-PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--- 60 NI+ E +R+ +A +R ++++I + VKVNG ++ V D I Sbjct: 8 NIIAEKDDVDKRIDSFLASEVDYTRSYLKKLILDELVKVNGKSVK-PNYKVREGDVINLN 66 Query: 61 -----EVDGVPLRKA------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 E+D P + + + +V + V L + Sbjct: 67 IPEAEEIDLKPENIPLDIIYEDDDIIVVNKPQGMVVHPAPGNLSGTLVNALLYHCTNLSG 126 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST--------------------QWLRVYRVRF 149 G L L G + + + + Sbjct: 127 INGELRPGIVHRLDKDTSGVMVVAKNDKAHLELSNQIKNRTILKKYLAIVEGVIKNDEGA 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 KK V++ Y + + +N+ V ++ G+ +I+ + Sbjct: 187 VEAPIGRDHIERKKMAVVKDGRYALTLYRVLERYKNNSLVEAIIKTGRTHQIRVHMAYIG 246 Query: 210 WKVN 213 + Sbjct: 247 HPIV 250 >gi|300718035|ref|YP_003742838.1| ribosomal large subunit pseudouridine synthase D [Erwinia billingiae Eb661] gi|299063871|emb|CAX60991.1| Ribosomal large subunit pseudouridine synthase D [Erwinia billingiae Eb661] Length = 325 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +RV VNG+++++ V+ ++ I +D Sbjct: 10 TVSESQLGQRLDQALAELFPDYSRSRIKEWILDRRVTVNGVIIDKPKEKVLGSEQIAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARWEAQDIPLDIVYEDEDILVINKPRGLVVHPGAGNPDGTVLNALLHHFPAIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V R D Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVESLQLREITREYEAVAIGRMTAGGTVDEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPTGKPATTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|146296933|ref|YP_001180704.1| RluA family pseudouridine synthase [Caldicellulosiruptor saccharolyticus DSM 8903] gi|145410509|gb|ABP67513.1| ribosomal large subunit pseudouridine synthase D [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 300 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 34/236 (14%), Positives = 74/236 (31%), Gaps = 39/236 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K ++ A +R V+++I + V VN + + A V S D I+V Sbjct: 9 RLDKYLSEALSKTRSFVQKIIEEGNVWVNQSQVLKPAYKVKSGDIIKVVIPEPKQLSLVA 68 Query: 63 ---DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG------- 112 D + + E + +V + + V L R+ S+ Sbjct: 69 QDIDIEVVYEDEHLAVI-NKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSINGVIRPGI 127 Query: 113 ---------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + D L + R+ L+ + + + Sbjct: 128 VHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEGVLKEDSGVINAPIGRHP 187 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +N LK +V G + + ++ + L+ G+ +I+ + + + Sbjct: 188 VNRLKMAVVPNGKEA-VTYFEVLERFDKYTFIKLRLKTGRTHQIRVHMSYIGYPLL 242 >gi|294786018|ref|ZP_06751305.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 3_1_27] gi|294486355|gb|EFG33718.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 3_1_27] Length = 316 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 25/245 (10%), Positives = 64/245 (26%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K ++ A+R +E++I VK+N ++ + + + IE+ Sbjct: 12 VSSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKIEISIP 71 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D + + + +V + V L + Sbjct: 72 EEENIDIEAENISLDIVYENDDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTNNLSSIN 131 Query: 112 GRLDINTE-----------------------GLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + + + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKNNYAHAKLASMFTDKTIHKTYLCIVKGNFSEENLNGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + K +V + + Q + V + + G+ +I+ + Sbjct: 192 IENLIGRGSKDRKKMAVVKENGKTAISNYKVIEQVDGYSLVEIAIETGRTHQIRVHMKSI 251 Query: 209 NWKVN 213 N + Sbjct: 252 NHVIL 256 >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 = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|257126163|ref|YP_003164277.1| pseudouridine synthase [Leptotrichia buccalis C-1013-b] gi|257050102|gb|ACV39286.1| pseudouridine synthase, RluA family [Leptotrichia buccalis C-1013-b] Length = 326 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 27/249 (10%), Positives = 69/249 (27%), Gaps = 38/249 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ +V + R+ K ++ +R ++++I + + VN + A + D I+ Sbjct: 23 EENIVVLKEEAGSRIDKFLSERLELTRTRIQQLIKDENILVNEKK-TKPAYKIEENDTIK 81 Query: 62 V--------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V + + + + K +V + + V L I Sbjct: 82 VVIPELETVEIKPENIDIEIIYEDNDLAVINKKAGIVVHPANGHYSGTLVNAILYHIKDL 141 Query: 108 VISVGRLDI-------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVR------------ 148 G + LL+ A + V ++ Sbjct: 142 SGINGEIRPGIVHRLDKDTSGLLIIAKNDKAHLKLSQMFHDKTVKKIYLAILKGKLNQKS 201 Query: 149 ----FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 D++ + + + +Q V V + G+ +I+ Sbjct: 202 GRIVTQIGRDKNDRKKMTVINDLNSGKTAITNYEVISQTEKFTLVKVHIETGRTHQIRVH 261 Query: 205 FEFFNWKVN 213 + + + Sbjct: 262 MKHLGYPIL 270 >gi|282882144|ref|ZP_06290785.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus lacrimalis 315-B] gi|281298174|gb|EFA90629.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus lacrimalis 315-B] Length = 295 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 74/245 (30%), Gaps = 34/245 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M + + +ENF QR+ +A+ SR +++ +I ++V VN ++ A + D I Sbjct: 1 MDNFKVDKENF-GQRLDVYLAKLVDLSRSQIKNLIDNEKVLVNKKNVK-AGYKLSEDDVI 58 Query: 61 EV----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + D P + + + +V + + V L +++ Sbjct: 59 SLEYPKDNKPFAEKIDFNVIYEDEYIAVISKPQDLVVHIGAGNSSGTLVNGLLYKFKNQL 118 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPST--------------------QWLRVYRVR 148 + L L G + + Sbjct: 119 SDLDPLRPGIVHRLDKNTSGLMIIAKNNQAHINLVDQFKNSQIKKYYLAIVHGKTPESGI 178 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + ++ + K +V + + + + + + L G+ +I+ + Sbjct: 179 IAEPIGRNPNDRKKMAVVYKNSKQAITKYKKLKEFQEYSLLNINLLTGRTHQIRVHMAYI 238 Query: 209 NWKVN 213 + V Sbjct: 239 GYPVL 243 >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 = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 41/182 (22%), Positives = 75/182 (41%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + + GRLD ++EGLLLLT+DGGL + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YAAGRLDADSEGLLLLTDDGGLQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL--AGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T + Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGIAPGETIALP 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|89098727|ref|ZP_01171609.1| ribosomal large subunit pseudouridine synthase D [Bacillus sp. NRRL B-14911] gi|89086689|gb|EAR65808.1| ribosomal large subunit pseudouridine synthase D [Bacillus sp. NRRL B-14911] Length = 301 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 34/241 (14%), Positives = 71/241 (29%), Gaps = 36/241 (14%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 I+ E +R+ K ++ SR + ++MI + VNG + D IE+ Sbjct: 7 IINEEVAGERLDKAVSLLNEELSRSQAQQMIKDGHILVNGQG-TKTNYKCSIDDKIEISF 65 Query: 63 --------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 DG L + + ++ P T + + Sbjct: 66 PEPEELDVLPEEMDLDIYYEDGDVLVVNKPKGMVVHPAPGHASGTLVNGLMAHCKDLSGI 125 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN--- 159 + R V R+D +T GLL++ + L + + + Sbjct: 126 NGVLRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVEKTVTRKYQAIVHGTIPHDYGTV 185 Query: 160 ---------LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V+ G + + + V L G+ +I+ ++ + Sbjct: 186 DAPLGRDPKDRQSMTVVDGGKHAVTHFHVIHRYKDFTHVECQLETGRTHQIRVHMKYIGY 245 Query: 211 K 211 Sbjct: 246 P 246 >gi|312793558|ref|YP_004026481.1| pseudouridine synthase, rlua family [Caldicellulosiruptor kristjanssonii 177R1B] gi|312180698|gb|ADQ40868.1| pseudouridine synthase, RluA family [Caldicellulosiruptor kristjanssonii 177R1B] Length = 300 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 34/236 (14%), Positives = 74/236 (31%), Gaps = 39/236 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K ++ A +R V+++I + V VN + + A V S D I+V Sbjct: 9 RLDKYLSEALSKTRSFVQKIIEEGNVWVNQTQVLKPAYKVKSGDIIKVVIPEPKQLSLVA 68 Query: 63 ---DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG------- 112 D + + E + +V + + V L R+ S+ Sbjct: 69 QDIDIEVVYEDEHLAVI-NKPRGMVVHPGAGNFENTLVNALLHKFRGRLSSINGVIRPGI 127 Query: 113 ---------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + D L + R+ L+ + + + Sbjct: 128 VHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEGVLKEDSGVINAPIGRHP 187 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +N LK +V G + + ++ + L+ G+ +I+ + + + Sbjct: 188 VNRLKMAVVPNGKEA-VTYFEVLERFDKYTFIKLRLKTGRTHQIRVHMSYIGYPLL 242 >gi|293553487|ref|ZP_06674115.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1039] gi|291602364|gb|EFF32588.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E1039] Length = 303 Score = 67.9 bits (164), Expect = 2e-09, Method: Composition-based stats. Identities = 30/235 (12%), Positives = 65/235 (27%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV+ SR +++ + V VNG ++ A V D I V Sbjct: 11 ESGRIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPVK-ANYKVKQGDDITVLIPEPETL 69 Query: 63 ----DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +P + + + +V + + V + I G + Sbjct: 70 DVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHIKDLSTINGVIRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNL---- 160 + G L + + V V ++ +N Sbjct: 130 GIVHRIDKDTSGLLMVAKNDQAHESLAQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGR 189 Query: 161 ----LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K + + T+ + V + L G+ +I+ ++ + Sbjct: 190 SKENRKMQAIREDGKPAVTHFTVLERFEGFTLVELKLETGRTHQIRVHMKYIGYP 244 >gi|237738860|ref|ZP_04569341.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 2_1_31] gi|229423963|gb|EEO39010.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 2_1_31] Length = 315 Score = 67.9 bits (164), Expect = 3e-09, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 72/245 (29%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---- 61 V + R+ K +A A+R +E++I VK+N ++ + + S + IE Sbjct: 12 VSPEYEGMRLDKYLAEQIEEATRSYLEKLIDNSYVKINSKVINKNGRKLKSGEKIEISIP 71 Query: 62 ----VDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +D + + + K +V + V L + Sbjct: 72 EEENIDIEAENIPLDIVFENDDFILVNKKYNMVVHPAYGNYTGTLVNALLYYTNNLSSVN 131 Query: 112 GRLDI----------------------NTEGLLLLTNDGGLARVLELPSTQWLRVY-RVR 148 G + + + + T+ L + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKNNFAHAKLASMFTDKTIHKTYLCIVKGNFSDENLEGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K +V + + Q + V V + G+ +I+ + Sbjct: 192 IENLIGRDTKDRKKMAVVKENGKLAISNYRVVEQVKDYSLVEVLIETGRTHQIRVHMKSI 251 Query: 209 NWKVN 213 N + Sbjct: 252 NHPIL 256 >gi|262067278|ref|ZP_06026890.1| pseudouridine synthase, RluA family [Fusobacterium periodonticum ATCC 33693] gi|291379004|gb|EFE86522.1| pseudouridine synthase, RluA family [Fusobacterium periodonticum ATCC 33693] Length = 315 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 38/284 (13%), Positives = 81/284 (28%), Gaps = 53/284 (18%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---- 61 V + R+ K +A A+R +E++I VK+N ++ + + S + +E Sbjct: 12 VNPEYEGMRLDKYLAEQIEEATRSYLEKLIDNSYVKINSKIINKNGRKLKSGEKVEISIP 71 Query: 62 ----VDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +D + + + K +V + V L + Sbjct: 72 EEENIDIEAENIPLDIVFENDDFILVNKKYNMVVHPAYGNYTGTLVNALLYYTNNLSSVN 131 Query: 112 GRLDI----------------------NTEGLLLLTNDGGLARVLELPSTQWLRVY-RVR 148 G + + + + T+ L + + R Sbjct: 132 GNIRPGIIHRLDKDTSGLILVAKNNFAHAKLASMFTDKTIHKTYLCIVKGNFSDENLEGR 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K IV + + Q + V V + G+ +I+ + Sbjct: 192 IENLIGRDTKDRKKMAIVKENGKLAISNYRVVEQVKDYSLVEVLIETGRTHQIRVHMKSI 251 Query: 209 NWKVN----------RLIRISYGPFQLGTLLAGSTREVSKKILR 242 N + + R F+L L + K R Sbjct: 252 NHPILGDVIYGSEDKNVKRQMLHAFKLEFLNP-----LDNKEYR 290 >gi|210622438|ref|ZP_03293170.1| hypothetical protein CLOHIR_01118 [Clostridium hiranonis DSM 13275] gi|210154254|gb|EEA85260.1| hypothetical protein CLOHIR_01118 [Clostridium hiranonis DSM 13275] Length = 309 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 35/248 (14%), Positives = 75/248 (30%), Gaps = 39/248 (15%) Query: 3 DKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + +V+E+ R+ +A + SR ++++I ++V VNG + E+A V D I Sbjct: 10 REFLVEEDEDGDRLDVYLADQFVDMSRSYIQKIIKDKKVTVNGKV-EKAKYLVKEEDKIV 68 Query: 62 VD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 ++ + + + + + +V + V L Sbjct: 69 IEIPKPKVLEVVPQDIPIEIVYEDDDIIIVNKPQGMVVHPAPGNYEGTLVNAILYHCKGN 128 Query: 108 VISVG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 + S+ + + L D + R E + Sbjct: 129 LSSINGVIRPGIVHRIDKDTSGILMIAKNNNAHNCLAEQLKDHSITREYEFICHSVFKED 188 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 V + ++ + LK IV G + + V L G+ +I+ Sbjct: 189 NVTVDRPIGRNPKDRLKMAIVPNGKRA-VTHFEVIERFNGYTHVRARLETGRTHQIRVHA 247 Query: 206 EFFNWKVN 213 N + Sbjct: 248 MSINHPLV 255 >gi|325696405|gb|EGD38295.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK160] Length = 298 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 36/241 (14%), Positives = 68/241 (28%), Gaps = 35/241 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-G 64 I++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 4 IIEASVVGQRLDKAVAELTDLSRSLANEQIKDGRILVNGQ-AKKAKYAVKEGDIIYYELP 62 Query: 65 VP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 P + + + +V + + V + I Sbjct: 63 EPEVVEYVPEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGIN 122 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLL 161 G L + G L + + LR Y HG + D+ + Sbjct: 123 GVLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIE 182 Query: 162 KKGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + + G + V + L G+ +I+ + Sbjct: 183 APIGRSEKDRKKQAVTAKGKSALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHP 242 Query: 212 V 212 V Sbjct: 243 V 243 >gi|315282847|ref|ZP_07871166.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii FSL S4-120] gi|313613517|gb|EFR87342.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii FSL S4-120] Length = 302 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEAREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGFTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|210612741|ref|ZP_03289456.1| hypothetical protein CLONEX_01658 [Clostridium nexile DSM 1787] gi|210151434|gb|EEA82442.1| hypothetical protein CLONEX_01658 [Clostridium nexile DSM 1787] Length = 305 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 24/245 (9%), Positives = 72/245 (29%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V++ F+ RV K ++ SR ++++I V NG +++ A + + D + +D Sbjct: 6 TVEKEFSGNRVDKFLSEQFPDLSRSYIQKLIKDGHVTANGKIVK-ANYKLNALDTLALDK 64 Query: 65 VPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 L+ + L + +V + + V + ++ Sbjct: 65 PELQEPDIVPENIPIDILYEDEDILIVNKPKGMVVHPSAGHYSGTLVNALMYHCKDQLSG 124 Query: 111 VGRLDIN----------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + + L + + R+ ++ Sbjct: 125 INGIMRPGIVHRIDMDTTGSLLVCKNDFVHQDLAEQLKEHSIQRIYHAIVHGVIKEDEGT 184 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + K + + + + + + ++ L G+ +I+ Sbjct: 185 IDAPIGRHPIERKKMSVNYKNGKHAVTHYKVIERFKNYTYIKCRLETGRTHQIRVHMAHI 244 Query: 209 NWKVN 213 + Sbjct: 245 RHPLL 249 >gi|167625160|ref|YP_001675454.1| RluA family pseudouridine synthase [Shewanella halifaxensis HAW-EB4] gi|167355182|gb|ABZ77795.1| pseudouridine synthase, RluA family [Shewanella halifaxensis HAW-EB4] Length = 324 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 30/240 (12%), Positives = 68/240 (28%), Gaps = 35/240 (14%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T QR+ + +A SR ++ I V ++G + ++ V+ + V Sbjct: 8 KSEITATQTGQRLDQTLADLFPDYSRTRIKEWILAGSVFIDGEVSDKPRFKVLEGQVVTV 67 Query: 63 DGVPLR---------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 G L + L + + +V + + + L Sbjct: 68 -GATLEEETKAQAEAIDLDIIYEDDHILIINKQAGLVVHPGAGNQDGTLMNALLHHCPGI 126 Query: 108 VISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFH 150 + RLD +T GL+++ L Sbjct: 127 ELVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREITREYEAIVTGTIISGGTID 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +D+ +V G + + ++ + + L G+ +I+ Sbjct: 187 EPIDRHPTKRTHMAVVHNGKPAMT-HYRVAEKFRAHTRLRLRLESGRTHQIRVHMAHIGH 245 >gi|220931776|ref|YP_002508684.1| ribosomal large subunit pseudouridine synthase D [Halothermothrix orenii H 168] gi|219993086|gb|ACL69689.1| ribosomal large subunit pseudouridine synthase D [Halothermothrix orenii H 168] Length = 308 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 37/243 (15%), Positives = 77/243 (31%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V +R+ K +++ SR ++++I +V VNG ++R + V DHI + Sbjct: 10 VSSEEEGKRIDKYLSKLNKDLSRSYIQKLIDNDKVLVNGESVKR-SFKVNRGDHIRLIIP 68 Query: 63 -------------------DGVPLRKAERTRLWLYHKPIGLVTT-------------HSD 90 D L + L ++ P T Sbjct: 69 PPEDSGIKPVEMDLDIIYEDKDILVLNKNAGLVVHPAPGNHENTLVNALIAYCDNLSTIS 128 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 R + L S V+ + + DI+ L+ + L + Sbjct: 129 GVNRPGIVHRLDKDTSGVMVIAKNDISHRKLVEQFKQRKTKKYYRTLLKGELPYKEGKID 188 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +D + K + + + +++V V L+ G+ +I+ F + + Sbjct: 189 APIGRDPHDRKKMAVTRKNSKKAVTYFKVLEFFRDHSYVEVELKTGRTHQIRVHFSYMGF 248 Query: 211 KVN 213 V Sbjct: 249 PVV 251 >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 = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 2/50 (4%) Query: 4 KNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA 51 + ENF PQR+SKV+A +G+ASRR E +I Q +V VNG + Sbjct: 139 RRFYNENFREPPQRLSKVLAASGVASRRNSEELIFQGKVTVNGSVCNTPQ 188 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 19/82 (23%), Positives = 40/82 (48%), Gaps = 2/82 (2%) Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS--NAWVTVGLREGKNREIKK 203 + G V++ L + G +IQG+ V L +K + + + EG+N E+++ Sbjct: 202 YQKIDGAVNKRHLIAISGGTIIQGVHCTPDSVELLPRKPDLLRPRLRIVVHEGRNHEVRE 261 Query: 204 VFEFFNWKVNRLIRISYGPFQL 225 + + +V+ L R+ G ++L Sbjct: 262 LVKNAGLEVHSLKRVRIGGYRL 283 >gi|242279048|ref|YP_002991177.1| pseudouridine synthase, RluA family [Desulfovibrio salexigens DSM 2638] gi|242121942|gb|ACS79638.1| pseudouridine synthase, RluA family [Desulfovibrio salexigens DSM 2638] Length = 549 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 24/238 (10%), Positives = 61/238 (25%), Gaps = 40/238 (16%) Query: 15 RVSKV----IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 R+ K + GI SR +V+ I ++NG + ++ +M + + + G Sbjct: 28 RLDKFWGTALEEEGI-SRGKVKDWIKAGFAEINGKICKKPNQKLMGNEELTLKGEAELTS 86 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + + + + V + Sbjct: 87 LVPEELPLEIIYNDGKIAVINKPAGLTTHPAPSCPTGTLVHRMIHHFPEIRDMDEWRPGI 146 Query: 118 TEGLLLLTN--------------------DGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 L T+ D + + + + + Sbjct: 147 VHRLDKFTSGLITVALNEHDRLAMSTAFADREVNKAYLAIVHGVPKREFGEIDQPMGRHP 206 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ K +V++G + + G + V V + G+ +I+ + Sbjct: 207 VHKTKMAVVLKGGRDARSEYEVLWSDPAGRASLVKVKIYTGRTHQIRVHMAHIGHPLV 264 >gi|329116866|ref|ZP_08245583.1| pseudouridine synthase, RluA family [Streptococcus parauberis NCFD 2020] gi|326907271|gb|EGE54185.1| pseudouridine synthase, RluA family [Streptococcus parauberis NCFD 2020] Length = 295 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 33/237 (13%), Positives = 57/237 (24%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--- 66 R+ K IA SR + I V VNG + A +V + D I + Sbjct: 6 KEAGSRLDKAIADLTELSRGQANDAIKAGIVLVNGQAAK-AKYSVKAGDIITYEIQEEEV 64 Query: 67 -----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + + + +V + + V L I G + Sbjct: 65 LDYQAEDIPLDVVYEDEDLAIINKPQGMVVHPSAGHSSGTMVNALLYQIKDLSGINGVVR 124 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------------- 155 + G L + + L Sbjct: 125 PGIVHRIDKDTSGLLMVAKNDAAHRALADELKAKKSLRKYLAIVHGNLPNDRGIIEAPIG 184 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK VI + + + G V + L G+ +I+ + V Sbjct: 185 RSEKDRKKQAVIARGKEAVTRFQVIERFGDYTLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|255029306|ref|ZP_05301257.1| hypothetical protein LmonL_09598 [Listeria monocytogenes LO28] Length = 245 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 69/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+++ I++E+ +RV KVIA SR ++ M+ + VNG L + V D Sbjct: 1 MQNETLIIEESHARERVDKVIAEMMGKSRSAIQLMLKNGDITVNGELAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + ++ L + +V + + V L Sbjct: 60 IHYEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHCD 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVLERLPGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|239826543|ref|YP_002949167.1| pseudouridine synthase [Geobacillus sp. WCH70] gi|239806836|gb|ACS23901.1| pseudouridine synthase, RluA family [Geobacillus sp. WCH70] Length = 304 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 34/241 (14%), Positives = 66/241 (27%), Gaps = 37/241 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + + +R+ KVIA SR +V++ I V VN ++ A + D + V Sbjct: 8 IDAEYDNERIDKVIAALNEEWSRSKVQQWIKDGLVTVNDQHVK-ANYKSSAGDVVVVRLP 66 Query: 63 DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + PL + L + +V + V L Sbjct: 67 EPEPLHVVPENIPLDIYYEDADVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCTDLSGIN 126 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRFH 150 G L + G L + Q L Sbjct: 127 GVLRPGIVHRIDKDTSGLLMVAKNDMAHQSLVDQLVKKTVTRKYKAIVHGVIPHDYGTID 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +DK + K + + + + +V L G+ +I+ ++ + Sbjct: 187 APIGRDKRDRKKMTVTEENGKEAVTHFRVLERFRHYTFVECQLETGRTHQIRVHMKYIGY 246 Query: 211 K 211 Sbjct: 247 P 247 >gi|228922645|ref|ZP_04085945.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228837074|gb|EEM82415.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 302 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 34/244 (13%), Positives = 65/244 (26%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAAEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVKEEDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGIMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|55820603|ref|YP_139045.1| ribosomal large subunit pseudouridine synthase D [Streptococcus thermophilus LMG 18311] gi|55736588|gb|AAV60230.1| ribosomal large subunit pseudouridine synthase D [Streptococcus thermophilus LMG 18311] gi|312277926|gb|ADQ62583.1| Pseudouridine synthase [Streptococcus thermophilus ND03] Length = 296 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 30/237 (12%), Positives = 61/237 (25%), Gaps = 35/237 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K +A SR + I V VNG + A V D I Sbjct: 6 KEAGNRLDKSLADLTELSRSQANEAIKAGTVLVNGKSAK-AKYVVKEGDVITYVLPEEEV 64 Query: 63 -----DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + +PL + + +V + + V + + G + Sbjct: 65 LEYKAEDIPLDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHVKDLSSINGVVR 124 Query: 116 INTEGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 ++ ND + + V + +++ I Sbjct: 125 PGIVHRIDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNLPNDRGVIEAPIG 184 Query: 167 IQGI---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + T+ + G+ V + L G+ +I+ + V Sbjct: 185 RSDKDRKKQAVTAKGKPAVTRFTVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|228960110|ref|ZP_04121774.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar pakistani str. T13001] gi|229047577|ref|ZP_04193167.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH676] gi|229111362|ref|ZP_04240915.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock1-15] gi|228672138|gb|EEL27429.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock1-15] gi|228723824|gb|EEL75179.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus AH676] gi|228799626|gb|EEM46579.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar pakistani str. T13001] Length = 302 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 34/244 (13%), Positives = 65/244 (26%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAAEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVKEEDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|206971264|ref|ZP_03232215.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus AH1134] gi|228954169|ref|ZP_04116197.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|229071392|ref|ZP_04204614.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus F65185] gi|229081145|ref|ZP_04213655.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock4-2] gi|229180168|ref|ZP_04307512.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus 172560W] gi|229192062|ref|ZP_04319031.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus ATCC 10876] gi|206734036|gb|EDZ51207.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus AH1134] gi|228591388|gb|EEK49238.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus ATCC 10876] gi|228603377|gb|EEK60854.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus 172560W] gi|228702189|gb|EEL54665.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus Rock4-2] gi|228711683|gb|EEL63636.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus F65185] gi|228805489|gb|EEM52080.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar kurstaki str. T03a001] Length = 302 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 34/244 (13%), Positives = 65/244 (26%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAAEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVKEEDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|227890823|ref|ZP_04008628.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus salivarius ATCC 11741] gi|227867232|gb|EEJ74653.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus salivarius ATCC 11741] Length = 301 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 31/247 (12%), Positives = 72/247 (29%), Gaps = 37/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M D ++ + R+ KV+ +R ++++MI +KVNG + ++A V D Sbjct: 4 MSDYKVLADKTG--RLDKVVTNIFTDYTRSQLKKMIDDGNIKVNGDV-KKANYKVNLGDE 60 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I D ++ + + + +V + V L Sbjct: 61 ITFDKPEVKKLSLEPENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHFEHTLVNALLYHSP 120 Query: 106 SRVISVGRLDINTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I+ + ++ ND + + + V ++ Sbjct: 121 LSTINGTYRPGIVHRIDKDTSGLLMVAKNDMAHQSLAKQLKDKTNTREYVALVHGNIKED 180 Query: 158 LNLLK-----------KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + K V++ + + G V L G+ +I+ + Sbjct: 181 SGTIDAPLGRSKVDRKKQAVVKDGRNAVTHFEVLKRYGDYTLVKCVLETGRTHQIRVHMK 240 Query: 207 FFNWKVN 213 + + Sbjct: 241 YIGHPLV 247 >gi|309803986|ref|ZP_07698068.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 11V1-d] gi|309807269|ref|ZP_07701239.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 03V1-b] gi|309809874|ref|ZP_07703724.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN 2503V10-D] gi|312871741|ref|ZP_07731829.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 3008A-a] gi|312874168|ref|ZP_07734202.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 2052A-d] gi|312875676|ref|ZP_07735677.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 2053A-b] gi|315653539|ref|ZP_07906459.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus iners ATCC 55195] gi|325912067|ref|ZP_08174465.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII 143-D] gi|329920256|ref|ZP_08277040.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN 1401G] gi|308163905|gb|EFO66170.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 11V1-d] gi|308166329|gb|EFO68538.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV 03V1-b] gi|308169826|gb|EFO71869.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN 2503V10-D] gi|311088930|gb|EFQ47373.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 2053A-b] gi|311090238|gb|EFQ48648.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 2052A-d] gi|311092683|gb|EFQ51039.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF 3008A-a] gi|315488901|gb|EFU78543.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus iners ATCC 55195] gi|325476017|gb|EGC79185.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII 143-D] gi|328936301|gb|EGG32749.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN 1401G] Length = 311 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 71/242 (29%), Gaps = 36/242 (14%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 +V+ + R+ K IA SR V+ +I Q+ + NG L + + V + D I Sbjct: 10 VVKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEI 68 Query: 61 ------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 +D L + + + +V + + V + + Sbjct: 69 PYPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTKNLAKC 128 Query: 107 -RVISVGRLDINTEGLLLL-------TNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--- 155 + G + + L T L + L + + V + + Sbjct: 129 DEIFRPGIVHRIDKDTSGLLMIAKNATARISLEKQLANKINKREYIAIVHDNFKHSSGVI 188 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 ++ V+ T+ Q + V L G+ +I+ + Sbjct: 189 DAPIGRNPYQRQQMAVVASGKKAITHFTVLEQFPGYSLVKCVLETGRTHQIRVHMSYIGH 248 Query: 211 KV 212 + Sbjct: 249 PI 250 >gi|167971859|ref|ZP_02554136.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 6 str. ATCC 27818] gi|168282520|ref|ZP_02690187.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|168308674|ref|ZP_02691349.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|170762382|ref|YP_001752395.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|168827959|gb|ACA33221.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|171902645|gb|EDT48934.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|182675832|gb|EDT87737.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|186700803|gb|EDU19085.1| pseudouridylate synthase, 23S RNA-specific [Ureaplasma parvum serovar 6 str. ATCC 27818] Length = 292 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 29/235 (12%), Positives = 71/235 (30%), Gaps = 34/235 (14%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 + QR+ K + SR +++M+ Q + VN + +A+ + D+I+++ Sbjct: 2 SSQRIDKFLVENTNYSRTLIKKMLDQNLILVNDNFISKASYLLKKNDYIQINNELPIVQE 61 Query: 67 ------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + ++ L + LV S + + + + + Sbjct: 62 QKKLLPFVYSLEIIFEDQDLLIVNKPSGMLVHPTSFHEQNTLANALKYYLKTDNFYITHR 121 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--------- 165 L++ +A + + + ++ + L I Sbjct: 122 LDKNTSGLIIICKNQIALNSLQQQFMQKTIRKSYYAIVHNRFDMQHLHFMINEPIGHSYQ 181 Query: 166 ------VIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + V + Q + A V V + G+ +I+ + N V Sbjct: 182 DKLRMKTGNSKNTKEAISIVKVLEQYKNTALVEVSIITGRTHQIRVHMRYINHPV 236 >gi|307704906|ref|ZP_07641797.1| pseudouridine synthase, RluA family protein [Streptococcus mitis SK597] gi|307621520|gb|EFO00566.1| pseudouridine synthase, RluA family protein [Streptococcus mitis SK597] Length = 295 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 34/232 (14%), Positives = 65/232 (28%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K ++ SR I +V VNG + ++A V D I Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVITYHVPEPEVLEYVA 69 Query: 63 DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +PL + + +V + + V + I G L Sbjct: 70 EDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|260587704|ref|ZP_05853617.1| ribosomal large subunit pseudouridine synthase D [Blautia hansenii DSM 20583] gi|331084005|ref|ZP_08333112.1| hypothetical protein HMPREF0992_02036 [Lachnospiraceae bacterium 6_1_63FAA] gi|260541969|gb|EEX22538.1| ribosomal large subunit pseudouridine synthase D [Blautia hansenii DSM 20583] gi|330402367|gb|EGG81937.1| hypothetical protein HMPREF0992_02036 [Lachnospiraceae bacterium 6_1_63FAA] Length = 305 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 77/247 (31%), Gaps = 40/247 (16%) Query: 13 PQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----DGVP- 66 +R+ K +A SR +++ + V VN + A++ V D + + + P Sbjct: 14 GERIDKYLAEVMNDYSRSFLQKQLKDGNVSVNEKTAK-ASLKVAEDDEVRIFIPENKEPD 72 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------V 108 + ++ L + +V + ++ V + + Sbjct: 73 IVPEDIPLDILYEDQQLLVVNKPKGMVVHPSAGHYSQTLVNALMFHCKDQLSGINGVLRP 132 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHGQVDQ 155 V R+D++T G L++ + L L+ G + + Sbjct: 133 GIVHRIDMDTTGALVVCKTDLAHQSLAEQLKVHSITRLYRAIVHGRLKEDFGTIEGTIGR 192 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + K I ++ + + +V L G+ +I+ + L Sbjct: 193 HPTDRKKMAINVRNGKPATTHYKVLERFDRFTYVECELETGRTHQIRVHMSSIGHPL--L 250 Query: 216 IRISYGP 222 I YGP Sbjct: 251 GDIVYGP 257 >gi|308048517|ref|YP_003912083.1| ribosomal large subunit pseudouridine synthase D [Ferrimonas balearica DSM 9799] gi|307630707|gb|ADN75009.1| ribosomal large subunit pseudouridine synthase D [Ferrimonas balearica DSM 9799] Length = 323 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 35/322 (10%), Positives = 88/322 (27%), Gaps = 44/322 (13%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 ++ ++ QR+ + +A SR ++ I +RV +NG + + VM + + Sbjct: 10 VISDSQLGQRLDQALAECFPDYSRSRIKEWILAERVSLNGKTVAKPREKVMGGEAVLIQA 69 Query: 61 ----EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 EV P + + L + +V + + + L Sbjct: 70 EFEEEVAAKPQDIALDIVYEDDDILVINKPADLVVHPGAGNHDGTVLNALLHHCPSIANV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + ++ + D Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTIPAQTHLVAQLQAREITREYEAIALGVMTAGGHVDEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 V + + + ++ + + L G+ +I+ + Sbjct: 190 GRHPQRRTHMAVTELGKPAVTHYRIREKFRAHTRLRLRLETGRTHQIRVHMAHLGHPLVG 249 Query: 215 LIRISYGPFQLGTLLAGSTREVSK--KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 L +G R V + LRE L + + + + Sbjct: 250 -----------DPLYSGRPRPVKGWSEELREFLRRFNRQALHAAMLRLEHPITGEMMQWT 298 Query: 273 NIISEVPDDFTRMKKNSSQKNG 294 I + T + + ++++G Sbjct: 299 APIPDDMVRLTELLRRDTEEHG 320 >gi|228909719|ref|ZP_04073542.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis IBL 200] gi|228850008|gb|EEM94839.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis IBL 200] Length = 302 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 32/237 (13%), Positives = 61/237 (25%), Gaps = 40/237 (16%) Query: 12 TPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 14 KNERIDKFVA--GINNEWSRSQVQQWIKDDVVTVNGKTVKV-NYKVKEEDEITVTIPEPE 70 Query: 63 --DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 D P + + L + +V + V + G + Sbjct: 71 ALDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGINGVM 130 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------------- 160 + G L + + L V + Sbjct: 131 RPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPI 190 Query: 161 ------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V + + + V L G+ +I+ ++ + Sbjct: 191 GRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGYP 247 >gi|227878615|ref|ZP_03996537.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256843219|ref|ZP_05548707.1| pseudouridine synthase [Lactobacillus crispatus 125-2-CHN] gi|256850423|ref|ZP_05555851.1| pseudouridine synthase [Lactobacillus crispatus MV-1A-US] gi|293380626|ref|ZP_06626679.1| pseudouridine synthase, RluA family [Lactobacillus crispatus 214-1] gi|295692991|ref|YP_003601601.1| pseudouridine synthase [Lactobacillus crispatus ST1] gi|312977447|ref|ZP_07789195.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus crispatus CTV-05] gi|227861792|gb|EEJ69389.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01] gi|256614639|gb|EEU19840.1| pseudouridine synthase [Lactobacillus crispatus 125-2-CHN] gi|256712820|gb|EEU27813.1| pseudouridine synthase [Lactobacillus crispatus MV-1A-US] gi|290922813|gb|EFD99762.1| pseudouridine synthase, RluA family [Lactobacillus crispatus 214-1] gi|295031097|emb|CBL50576.1| Pseudouridine synthase [Lactobacillus crispatus ST1] gi|310895878|gb|EFQ44944.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus crispatus CTV-05] Length = 303 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 73/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + ++ R+ K ++ SR V+ ++ Q + VNG + + + + + D Sbjct: 1 MTKEYSLEVKNEKGRLDKFVSEQIPDLSRTRVKELVKDQNILVNGKVEKV-SYKIQAGDK 59 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IEV+ ++ + + + +V + V L Sbjct: 60 IEVNIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTK 119 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ LE + Sbjct: 120 ALAQSPEGFRPGIVHRIDKDTSGLLMIAKTAKARESLEDQLAHKTNKRLYWAIVHGNFAE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 180 ENGVIDAPIGRNPYDRKKMAVVETGKKAITHFKVLEQFKDYSLIECQLETGRTHQIRVHL 239 Query: 206 EFFNWKV 212 ++ V Sbjct: 240 DYIGHPV 246 >gi|218281133|ref|ZP_03487668.1| hypothetical protein EUBIFOR_00229 [Eubacterium biforme DSM 3989] gi|218217647|gb|EEC91185.1| hypothetical protein EUBIFOR_00229 [Eubacterium biforme DSM 3989] Length = 304 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 33/248 (13%), Positives = 72/248 (29%), Gaps = 37/248 (14%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + + + E+ R+ KV+A SR+ ++ ++ + V VN + +A+ V D Sbjct: 1 METRILKIDEDTKLDRLDKVLAEKLDFSRKRIKDLLDEGNVLVN-QKVMKASYKVCVNDE 59 Query: 60 IEVD----------GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IEV P+ + + + +V + V L Sbjct: 60 IEVSIPELDSTQVLPEPIDLDIVYEDHDIIVINKPKGMVVHPAPGHYSGTLVNALLYHCK 119 Query: 106 SRVISVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRV 144 G + E L D R + Sbjct: 120 DLSGINGVMRPGIVHRIDKDTSGLLVVAKNDKAHEALSQQLQDKTCHREYVAIVHKPFTH 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 H + +D+ + K + ++ A++ L G+ +I+ Sbjct: 180 EYGTIHAPIGRDEKDRQKMAVTANNSKDAITHFSVLENFSKFAYIKCQLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 ++ + Sbjct: 240 MQYIEHPI 247 >gi|71894605|ref|YP_278713.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma synoviae 53] gi|71851393|gb|AAZ44002.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma synoviae 53] Length = 303 Score = 67.5 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 63/238 (26%), Gaps = 40/238 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----DGVP---- 66 R+ K IA SR +++ +I + V VN L+ + + V I++ D P Sbjct: 11 RIDKYIASNSSLSRADIQELIKSKAVFVNNGLVCKPSYIVHPPQEIKIIRLLDKTPKIEA 70 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN--- 117 + + + + +V + L + + L Sbjct: 71 QNIKLDIIYEDDHLVIIDKPSGLIVHPSPTHYENTLANGLLYHFKNNLSDTNGLLRPGIV 130 Query: 118 -----TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 LL+ + + + R + L+ + I Sbjct: 131 HRIDKDTSGLLIVTKTNAVHIKLAEMFKNHSIKRSYIAICDNFLTDKKLRINLPIGLDPK 190 Query: 173 GDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + +K + V L G+ +I+ N + Sbjct: 191 NPQKRKVTNIKAKEAITNVELIKTFYHEKQPKSLVKCNLETGRTHQIRVHLAHINNPI 248 >gi|332361351|gb|EGJ39155.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK1056] Length = 298 Score = 67.1 bits (162), Expect = 3e-09, Method: Composition-based stats. Identities = 36/240 (15%), Positives = 69/240 (28%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 ++ + QR+ K +A SR I R+ VNG + ++A V D I Sbjct: 5 IESSVAGQRLDKAVAELTDLSRSLANEQIKDGRILVNGQV-KKAKYAVKEGDVISYELPE 63 Query: 63 --------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + +PL + + +V + + V + I G Sbjct: 64 PEVVEYVPEDIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|308190331|ref|YP_003923262.1| pseudouridylate synthase [Mycoplasma fermentans JER] gi|307625073|gb|ADN69378.1| pseudouridylate synthase [Mycoplasma fermentans JER] Length = 307 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 73/239 (30%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL-LERAAVNVMSTDHIEV----DGVP-- 66 +R+ K I + SR +++ +I Q V +N + + + V I + D Sbjct: 10 ERIDKYIGQNSELSRNDIKELIEQGAVYINDNVQVHKCNYIVREGQEITIVKLLDKEIKI 69 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VI 109 ++ + + + +V + V L + Sbjct: 70 EPVNIPLDIKYEDDDLVIINKPSNLVVHPSPGHYNDTLVNGLLYHFKNNLSNENGLLRPG 129 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------------VRFHGQVDQD 156 V R+D +T GLL++ + + L + + + + ++ Sbjct: 130 IVHRIDKDTSGLLIIAKNNKMHNSLTDMLKRHEIERSYLAIVRGLIENPLTKINLPIARN 189 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDT---QKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 ++ + +G L K + V L+ G+ +I+ + V Sbjct: 190 TVDRKMMSVHKEGKEAITFVHLLKHFYLDKEPMSLVRCELKTGRTHQIRVHLSYIKHPV 248 >gi|262046428|ref|ZP_06019390.1| pseudouridine synthase [Lactobacillus crispatus MV-3A-US] gi|260573299|gb|EEX29857.1| pseudouridine synthase [Lactobacillus crispatus MV-3A-US] Length = 303 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 73/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + ++ R+ K ++ SR V+ ++ Q + VNG + + + + + D Sbjct: 1 MTKEYSLEVKNEKGRLDKFVSEQIPDLSRTRVKELVKDQNILVNGKVEKV-SYKIQAGDK 59 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IEV+ ++ + + + +V + V L Sbjct: 60 IEVNIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSK 119 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ LE + Sbjct: 120 ALAQSPEGFRPGIVHRIDKDTSGLLMIAKTAKARESLEDQLAHKTNKRLYWAIVHGNFAE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 180 ENGVIDAPIGRNPYDRKKMAVVETGKKAITHFKVLEQFKDYSLIECQLETGRTHQIRVHL 239 Query: 206 EFFNWKV 212 ++ V Sbjct: 240 DYIGHPV 246 >gi|170728051|ref|YP_001762077.1| RluA family pseudouridine synthase [Shewanella woodyi ATCC 51908] gi|169813398|gb|ACA87982.1| pseudouridine synthase, RluA family [Shewanella woodyi ATCC 51908] Length = 323 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 27/242 (11%), Positives = 70/242 (28%), Gaps = 33/242 (13%) Query: 4 KNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T QR+ + +A SR ++ I V ++G++ + V+ I + Sbjct: 8 KSEITATQTGQRLDQTLAELYPDYSRTRIKEWIQAGWVYIDGVVSTKPREKVLEGQEIAI 67 Query: 63 D--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + + + + + +V + + + L Sbjct: 68 EATLKEETAAKAQAIDLDIVYEDDHIIVINKQAGLVVHPGAGNQDGTLMNALLHHCPGIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHG 151 + RLD +T GL+++ L Sbjct: 128 LVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVSALQAREITREYEAVVLGTLISGGTVDE 187 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +D+ +V G + + ++ + + L G+ +I+ Sbjct: 188 PIDRHPTKRTHMAVVHNGKPAMT-HYRVAEKFRAHTRLRLRLESGRTHQIRVHMSHIGHT 246 Query: 212 VN 213 + Sbjct: 247 LV 248 >gi|259046729|ref|ZP_05737130.1| ribosomal large subunit pseudouridine synthase D [Granulicatella adiacens ATCC 49175] gi|259036625|gb|EEW37880.1| ribosomal large subunit pseudouridine synthase D [Granulicatella adiacens ATCC 49175] Length = 308 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 75/245 (30%), Gaps = 35/245 (14%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER-----AAVNVM--- 55 K + E QR+ KV+ SR ++ + + VNG +++ + V Sbjct: 6 KKLKLELEKTQRLDKVLTGELGLSRTTIQSWLKAGLISVNGEVVKSNYKAQSGDEVTILQ 65 Query: 56 -STDHIEVDGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 D I + + + + + + +V + V L Sbjct: 66 KEEDVITIQPENIPLDIVFEDDSLIVVNKPSGMVVHPSKGHYSGTLVNALLYHSNSLSDS 125 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELP--STQWLRVYRVRFHGQVDQD-- 156 R V R+D +T GLL++ + + + L + R Y G + Sbjct: 126 TSEEIYRPGLVHRIDKDTSGLLVIAKNNDVHQKLAEQIAENKMNREYIAIVDGHFAHETG 185 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 K +V +G + + V+ L G+ +I+ EF Sbjct: 186 VVDAPLSRHQTNRLKRVVEKGGKNAITHFEVLDSFSDYSLVSCRLETGRTHQIRAHMEFI 245 Query: 209 NWKVN 213 + Sbjct: 246 KHPIV 250 >gi|315640856|ref|ZP_07895955.1| ribosomal large subunit pseudouridine synthase D [Enterococcus italicus DSM 15952] gi|315483395|gb|EFU73892.1| ribosomal large subunit pseudouridine synthase D [Enterococcus italicus DSM 15952] Length = 302 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 34/262 (12%), Positives = 74/262 (28%), Gaps = 41/262 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++ + R+ KV+A SR +++ + + VK++G++++ A V D Sbjct: 1 MTEELKISITEEKGRIDKVLAEKLANYSRSQIQLWLKEACVKIDGVVVK-ANYKVQKGDR 59 Query: 60 IEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + P + + + +V + + V + + Sbjct: 60 ITIQIPEPETLDLIAENLPLEIVYEDADVAVINKPQGMVVHPSAGHPNGTLVNALIYHLN 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQV 153 S G + + G L + + V V Sbjct: 120 SLSSINGVIRPGIVHRIDKDTSGLLMVAKNDQAHEDLAKQLKDKTSLRKYVALVHGVIPH 179 Query: 154 DQ--------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 D+ K V+ + + V + L G+ +I+ Sbjct: 180 DKGVIRAPIGRSTVDRKMQAVVDNGKDAVTHFQVLERYEDYTLVELQLETGRTHQIRVHM 239 Query: 206 EFFNW-----KVNRLIRISYGP 222 ++ + V L R G Sbjct: 240 QYIGYPLVGDPVYGLKRTIKGN 261 >gi|268610335|ref|ZP_06144062.1| pseudouridine synthase rRNA-specific [Ruminococcus flavefaciens FD-1] Length = 108 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 17/104 (16%), Positives = 37/104 (35%), Gaps = 1/104 (0%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K I+ +R +++ + A+ V VNG ++R+ + + D + V G + Sbjct: 4 IRLDKFISERTEYTRSQIKSLCAKGSVTVNGSPVKRSDTKIDTGADDVTVCGNAISSERF 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + L + +T S + G + Sbjct: 64 RYILLNKPKGYVSSTDDKDGETVISLCVKKREASGMKRAGGRAM 107 >gi|104774018|ref|YP_618998.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|103423099|emb|CAI97824.1| Pseudouridylate synthase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] Length = 303 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 65/245 (26%), Gaps = 35/245 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + + + QR+ K +A SR ++ ++ + VNG + + V D Sbjct: 1 MNREYELTAEESGQRLDKYLAGEMTDLSRSRIKELVQAGEILVNGKK-SKVSYKVQKDDL 59 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V + +P + ++ + + +V + + V L Sbjct: 60 IQVIVLPLEPLKLEAENIPLDIVYEDKDVIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 S + G L + + L + Sbjct: 120 DLADSPEGFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQYLAIVHGNFAE 179 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ V++ + Q + V L G+ +I+ Sbjct: 180 EGTIDAPIGRNPKDRKQMAVVEKGKSAVTHFKVLEQYQGYSLVECQLETGRTHQIRVHMA 239 Query: 207 FFNWK 211 + Sbjct: 240 YIGHP 244 >gi|307706435|ref|ZP_07643244.1| pseudouridine synthase, RluA family protein [Streptococcus mitis SK321] gi|307618145|gb|EFN97303.1| pseudouridine synthase, RluA family protein [Streptococcus mitis SK321] Length = 295 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHLPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 ENLPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|296876327|ref|ZP_06900379.1| ribosomal large subunit pseudouridine synthase D [Streptococcus parasanguinis ATCC 15912] gi|296432617|gb|EFH18412.1| ribosomal large subunit pseudouridine synthase D [Streptococcus parasanguinis ATCC 15912] Length = 296 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 36/232 (15%), Positives = 71/232 (30%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------EVDGVP 66 R+ K +A SR I + +V VNG +++A V D I EV Sbjct: 11 RLDKALADLTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEVEEVSYEA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVG 112 + ++ + + +V + + V L I R V Sbjct: 70 EDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHIKDLSGINGELRPGIVH 129 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 R+D +T GLL++ + L + + + + + + + Sbjct: 130 RIDKDTSGLLMVAKNDQAHVALAEELKDKKSLRKYWAIVHGNLPNDRGMIEAPIGRSEKD 189 Query: 173 GDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 Q + + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFQVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|281413199|ref|YP_003347278.1| pseudouridine synthase, RluA family [Thermotoga naphthophila RKU-10] gi|281374302|gb|ADA67864.1| pseudouridine synthase, RluA family [Thermotoga naphthophila RKU-10] Length = 304 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 22/228 (9%), Positives = 63/228 (27%), Gaps = 36/228 (15%) Query: 15 RVSKVIARAGIASRREVE--------RMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 R+ K + R +++ ++I + +V VN ++ + + D +E+ Sbjct: 13 RLDKFL-------RNQLKDVPLSVIYKLIRKGKVYVNKKRVKDPSFELEEGDVVELRYVN 65 Query: 63 -----------DGVPLR------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 D P+ + L L P + + + L Sbjct: 66 LENLPKRSEKKDLTPVPMKLDVLYEDDHYLVLNKPPNIAIHPGKGVHVATLIEGLLHYGQ 125 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + S + + L + + + + + + + K Sbjct: 126 EKGFSPFLVHRLDKDTSGLLVVAKNREAARILTELFKGRNIEKEYVTLVRGVPENNMKLT 185 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + ++ + + V + G+ +I++ + V Sbjct: 186 IPLDGQEAVSEIVSVKPLKDVSLLRVKIHTGRKHQIRRHLSQIGFPVV 233 >gi|293365185|ref|ZP_06611902.1| ribosomal large subunit pseudouridine synthase D [Streptococcus oralis ATCC 35037] gi|307703723|ref|ZP_07640664.1| pseudouridine synthase, RluA family protein [Streptococcus oralis ATCC 35037] gi|291316635|gb|EFE57071.1| ribosomal large subunit pseudouridine synthase D [Streptococcus oralis ATCC 35037] gi|307622558|gb|EFO01554.1| pseudouridine synthase, RluA family protein [Streptococcus oralis ATCC 35037] Length = 299 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 32/234 (13%), Positives = 63/234 (26%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 QR+ K ++ SR I +V VNG ++A V D + P Sbjct: 9 GQRLDKALSDLTELSRSLANEQIKAGQVLVNGQ-AKKAKYTVQDGDIVTYHVPEPEVLEY 67 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 68 VAENLPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFQVLERFGDYSLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|326575838|gb|EGE25761.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis CO72] Length = 355 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 28/242 (11%), Positives = 70/242 (28%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V R+ K+ A G SR +++ I + ++ VNG +++ V D + ++ Sbjct: 48 VSTEQIGIRLDKLCADIFGGFSRANLKKFIDEGQLTVNGKVVK-PKYAVKVGDILTLEAV 106 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + + V L + Sbjct: 107 HESHSEDLPENIDIDIIYEDEAVIIINKPAGMVVHPGAGNRTGTLVNALLYHFPKQAHLP 166 Query: 112 -----GRLDINTEGLLLLT---------------NDGGLARVLELPSTQWLRVYRVRFHG 151 R+D +T GLL++ + + Sbjct: 167 RAGLVHRIDKDTTGLLVIARTKSAQLSLIDQLKDKSVYRHYQCIALGAVHEVLRHAQIDA 226 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + K + G V + + + L+ G+ +I+ + Sbjct: 227 PIGRHSTHRTKMAVKQTGKPALTHIVNAKYLHERYSLLDIHLKTGRTHQIRVHLSYVGHP 286 Query: 212 VN 213 + Sbjct: 287 LV 288 >gi|326560261|gb|EGE10649.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis 7169] gi|326570229|gb|EGE20274.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis BC8] gi|326570966|gb|EGE20990.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis BC7] Length = 355 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 28/242 (11%), Positives = 70/242 (28%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V R+ K+ A G SR +++ I + ++ VNG +++ V D + ++ Sbjct: 48 VSTEQIGIRLDKLCADIFGGFSRANLKKFIDEGQLTVNGKVVK-PKYAVKVGDILTLEAV 106 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + + V L + Sbjct: 107 HESHSEDLPENIDIDIIYEDEAVIIINKPAGMVVHPGAGNRTGTLVNALLYHFPKQAHLP 166 Query: 112 -----GRLDINTEGLLLLT---------------NDGGLARVLELPSTQWLRVYRVRFHG 151 R+D +T GLL++ + + Sbjct: 167 RAGLVHRIDKDTTGLLVIARTKSAQLSLIDQLKDKSVYRHYQCIALGAVHEVLRHAQIDA 226 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + K + G V + + + L+ G+ +I+ + Sbjct: 227 PIGRHSTHRTKMAVKQTGKPALTHIVNAKYLHERYSLLDIHLKTGRTHQIRVHLSYVGHP 286 Query: 212 VN 213 + Sbjct: 287 LV 288 >gi|296113272|ref|YP_003627210.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis RH4] gi|295920966|gb|ADG61317.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis RH4] gi|326566421|gb|EGE16571.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis BC1] Length = 355 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 28/242 (11%), Positives = 70/242 (28%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V R+ K+ A G SR +++ I + ++ VNG +++ V D + ++ Sbjct: 48 VSTEQIGIRLDKLCADIFGGFSRANLKKFIDEGQLTVNGKVVK-PKYAVKVGDILTLEAV 106 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + + V L + Sbjct: 107 HESHSEDLPENIDIDIIYEDEAVIIINKPAGMVVHPGAGNRTGTLVNALLYHFPKQAHLP 166 Query: 112 -----GRLDINTEGLLLLT---------------NDGGLARVLELPSTQWLRVYRVRFHG 151 R+D +T GLL++ + + Sbjct: 167 RAGLVHRIDKDTTGLLVIARTKSAQLSLINQLKDKSVYRHYQCIALGAVHEVLRHAQIDA 226 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + K + G V + + + L+ G+ +I+ + Sbjct: 227 PIGRHSTHRTKMAVKQTGKPALTHIVNAKYLHERYSLLDIHLKTGRTHQIRVHLSYVGHP 286 Query: 212 VN 213 + Sbjct: 287 LV 288 >gi|161507611|ref|YP_001577565.1| pseudouridine synthase [Lactobacillus helveticus DPC 4571] gi|160348600|gb|ABX27274.1| pseudouridine synthase [Lactobacillus helveticus DPC 4571] Length = 303 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 36/247 (14%), Positives = 74/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K +Q R+ K I+ SR V+ ++ ++ + VN + + + + + D Sbjct: 1 MPKKYELQVENEYGRLDKFISEQIPDLSRTRVKELVKEKEILVNHKVEKV-SYKIQAGDK 59 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE++ ++ + + + +V + V L Sbjct: 60 IEINVPAVKPLDVVPENIPLDIVYEDEVVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTQ 119 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + LE D Sbjct: 120 DLAQSPEGFRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIYWAIVHGDFGE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 180 ENGVIDAPIGRNPYDRKKMAVVENGKKAVTHFKVLKQFKGYSLIECQLETGRTHQIRVHL 239 Query: 206 EFFNWKV 212 ++ V Sbjct: 240 DYIGHAV 246 >gi|322389731|ref|ZP_08063278.1| ribosomal large subunit pseudouridine synthase D [Streptococcus parasanguinis ATCC 903] gi|321143570|gb|EFX39001.1| ribosomal large subunit pseudouridine synthase D [Streptococcus parasanguinis ATCC 903] Length = 296 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 35/232 (15%), Positives = 71/232 (30%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------EVDGVP 66 R+ K +A SR I + +V VNG +++A V D I EV Sbjct: 11 RLDKALADLTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEVEEVSYEA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVG 112 + ++ + + +V + + V L + R V Sbjct: 70 EDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHVKDLSGINGELRPGIVH 129 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 R+D +T GLL++ + L + + + + + + + Sbjct: 130 RIDKDTSGLLMIAKNDQAHVALAEELKDKKSLRKYWAIVHGNLPNDRGMIEAPIGRSEKD 189 Query: 173 GDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 Q + + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFQVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|289167775|ref|YP_003446044.1| 23S_rRNA pseudouridine synthase [Streptococcus mitis B6] gi|288907342|emb|CBJ22179.1| 23S rRNA pseudouridine synthase [Streptococcus mitis B6] Length = 295 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 33/232 (14%), Positives = 65/232 (28%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K ++ SR I +V VNG + ++A V D + Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 63 DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +PL + + +V + + V + I G L Sbjct: 70 ENIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQDLKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|326576921|gb|EGE26827.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis O35E] Length = 355 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 28/242 (11%), Positives = 70/242 (28%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V R+ K+ A G SR +++ I + ++ VNG +++ V D + ++ Sbjct: 48 VSTEQIGIRLDKLCADIFGGFSRANLKKFIDEGQLTVNGKVVK-PKYAVKVGDILTLEAV 106 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + + V L + Sbjct: 107 HESHSEDLPENIDIDIIYEDEAVIIINKPAGMVVHPGAGNRTGTLVNALLYHFPKQAHLP 166 Query: 112 -----GRLDINTEGLLLLT---------------NDGGLARVLELPSTQWLRVYRVRFHG 151 R+D +T GLL++ + + Sbjct: 167 RAGLVHRIDKDTTGLLVIARTKSAQLSLIDQLKDKSVYRHYQCVALGAVHEVLRHAQIDA 226 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + K + G V + + + L+ G+ +I+ + Sbjct: 227 PIGRHSTHRTKMAVKQTGKPALTHIVNAKYLHERYSLLDIHLKTGRTHQIRVHLSYVGHP 286 Query: 212 VN 213 + Sbjct: 287 LV 288 >gi|237734795|ref|ZP_04565276.1| ribosomal large subunit pseudouridine synthase D [Mollicutes bacterium D7] gi|229382123|gb|EEO32214.1| ribosomal large subunit pseudouridine synthase D [Coprobacillus sp. D7] Length = 316 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 34/248 (13%), Positives = 71/248 (28%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N++ E R+ KVIA + SR +++ MI Q V VN E+A+ D Sbjct: 11 MEKINLIIEEDNNLRLDKVIAMQLQELSRTQIQDMINQGLVLVNQKK-EKASYKTKLNDE 69 Query: 60 IEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ D P + + + + +V + + V L Sbjct: 70 IEITILDNVDLDIEPEDISLKIVYEDEDVIVVDKPTGMIVHPSAGIMHGTLVNALLFHCK 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPST---------------------QWLRV 144 G + G L + + Sbjct: 130 DLSGINGVNRPGIVHRIDKETSGLLMVAKNDNAHRLLSKQLKDHTVVRRYVALVHGLIPH 189 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + ++ + + T+ + + + + L G+ +I+ Sbjct: 190 EHGKVDAPIGRNPKDRQSMAVTRTNSKEAVTNFTVLKRYNAMSLIECRLETGRTHQIRVH 249 Query: 205 FEFFNWKV 212 + + V Sbjct: 250 MSYIGYPV 257 >gi|256822306|ref|YP_003146269.1| RluA family pseudouridine synthase [Kangiella koreensis DSM 16069] gi|256795845|gb|ACV26501.1| pseudouridine synthase, RluA family [Kangiella koreensis DSM 16069] Length = 324 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 40/315 (12%), Positives = 84/315 (26%), Gaps = 49/315 (15%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN------VMS 56 ++I E +R+ +++ SR ++ I VKVN ++ + Sbjct: 9 RHIFDEKVYGKRLDAALSQQFSEYSRSRIQEWIQNGFVKVNDEVITSNKYKMAGFEDIEI 68 Query: 57 TDHIEVDGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 IEV G + + L + +V + + V L Sbjct: 69 NAEIEVAGEWKPEAIDLDIVYEDDALLVINKPAGLVVHPGAGNQDGTMVNALLHHCPDLA 128 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 R + R+D T GLL++ L Sbjct: 129 NLPRAGIIHRIDKETTGLLVVAKTIAAHTSLVEQLQNRAFTREYDAVVNRVMVSGGTIDK 188 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 V+ + + + + + L G+ +I+ + + + Sbjct: 189 PIGRHPTKRTSMAVVADGKRAITHYRVVEKFLDHTHLKLRLETGRTHQIRVHMAYLKFPL 248 Query: 213 NRLIRISYGPFQLGTLLAGSTR---EVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVR 269 G L +G R ++ LR + + +L + Sbjct: 249 -------IG----DPLYSGRYRVPTRITP-ELRNTVDNFKRQALHASL---LGLQHPETD 293 Query: 270 DRPNIISEVPDDFTR 284 + + +P D R Sbjct: 294 EYIEWRAPMPQDMAR 308 >gi|312866736|ref|ZP_07726950.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis F0405] gi|311097817|gb|EFQ56047.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis F0405] Length = 296 Score = 67.1 bits (162), Expect = 4e-09, Method: Composition-based stats. Identities = 35/232 (15%), Positives = 71/232 (30%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------EVDGVP 66 R+ K +A SR I + +V VNG +++A V D I EV Sbjct: 11 RLDKALADLTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEVEEVSYEA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------RVISVG 112 + ++ + + +V + + V L + R V Sbjct: 70 EDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHVKDLSGINGELRPGIVH 129 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 R+D +T GLL++ + L + + + + + + + Sbjct: 130 RIDKDTSGLLMVAKNDQAHVALAEELKDKKSLRKYWAIVHGNLPNDRGMIEAPIGRSEKD 189 Query: 173 GDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 Q + + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFQVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|291618565|ref|YP_003521307.1| RluD [Pantoea ananatis LMG 20103] gi|291153595|gb|ADD78179.1| RluD [Pantoea ananatis LMG 20103] gi|327394946|dbj|BAK12368.1| ribosomal large subunit pseudouridine synthase D RluD [Pantoea ananatis AJ13355] Length = 326 Score = 66.7 bits (161), Expect = 4e-09, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I QRV VNG + ++ V+ + + +D Sbjct: 10 TVSESQLGQRLDQTLAELFPDYSRSRIKEWILNQRVSVNGTVTDKPKEKVLGGERVTIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEQRWEPQNIPLDIVYEDEDIIVINKPRDFVVHPGAGNPDGTVLNALLHHYPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVDALQRREITREYEAVAIGTMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMSVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|145219868|ref|YP_001130577.1| ribosomal large subunit pseudouridine synthase D [Prosthecochloris vibrioformis DSM 265] gi|145206032|gb|ABP37075.1| ribosomal large subunit pseudouridine synthase D [Chlorobium phaeovibrioides DSM 265] Length = 349 Score = 66.7 bits (161), Expect = 4e-09, Method: Composition-based stats. Identities = 34/243 (13%), Positives = 75/243 (30%), Gaps = 42/243 (17%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 P R+ + ++R A+R +V+ I RV VN +++ + S D IE+ Sbjct: 33 PMRIDQYLSRQVENATRNKVQEAIEDGRVLVNDKVVKS-NYRIKSCDLIEMTFLRPPAPE 91 Query: 64 ------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS------- 110 + + + + + +P +V + L I S Sbjct: 92 LAPEDIPIAIVYEDSELMVINKEPGMVVHPAFGNWTGTLANAILHHIGENAGSLDESELR 151 Query: 111 ---VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 V RLD +T GL+++ + L V + Sbjct: 152 PGIVHRLDKDTSGLIIIAKNPTALHRLAKQFADRKVVKTYKALVWGVPATPEGTIRTNIG 211 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFNWK 211 K + +G ++ + + +++ L G+ +I+ + + Sbjct: 212 RSRKDRKVMANFPYEGEEGKTAITDYRLEEDLHWFSLLSLTLHTGRTHQIRAHMQHLGHQ 271 Query: 212 VNR 214 + Sbjct: 272 ILS 274 >gi|160938833|ref|ZP_02086184.1| hypothetical protein CLOBOL_03727 [Clostridium bolteae ATCC BAA-613] gi|158437796|gb|EDP15556.1| hypothetical protein CLOBOL_03727 [Clostridium bolteae ATCC BAA-613] Length = 294 Score = 66.7 bits (161), Expect = 4e-09, Method: Composition-based stats. Identities = 28/237 (11%), Positives = 69/237 (29%), Gaps = 38/237 (16%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----------EV 62 R+ K +A A SR +++++ +V VNG ++ A+ V+ D I E+ Sbjct: 5 VRIDKYLAEACPDLSRSYIQKLLKSGQVLVNGQGIK-ASYIVVEDDRIELEVPEAVEPEI 63 Query: 63 DGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG------ 112 D P + ++ + + +V + + V + ++ + Sbjct: 64 DAEPMDLDILYEDQDLILINKPKGMVVHPAAGHYSHTLVNGLMYHCKDQLSGINGVMRPG 123 Query: 113 ----------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + D+ + + + R + + + + Sbjct: 124 IVHRIDMDTTGVIIACKNDMAHSSIAAQLKEHSITRRYQAIVHGVIAEDEGTVDAPIGRH 183 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K I Q + + V L G+ +I+ + Sbjct: 184 PVERKKMSINYQNGKNAVTHYRVLNRFRQYTHVECRLETGRTHQIRVHMASIRHPLL 240 >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 = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 50/158 (31%), Positives = 66/158 (41%), Gaps = 6/158 (3%) Query: 34 MIAQQRVKVNGILLERAA-VNVMSTDHIEVDGVPLRKAE-----RTRLWLYHKPIGLVTT 87 MIA RV V G + ++V S + +DG + + L Y L T Sbjct: 1 MIAAGRVSVEGKIATLGDRIDVHSGVKVRIDGQIINLSHAQKEICRVLMYYKPEGELCTR 60 Query: 88 HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 + SR I+VGRLDINT GLLL T DG LA L PS + R Y V Sbjct: 61 SDPEGRATVFDRLPRLTGSRWIAVGRLDINTSGLLLFTTDGELANRLMHPSREVEREYSV 120 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 R GQVD L L+KG+ ++ ++ Sbjct: 121 RVFGQVDDAMLARLRKGVQLEDGPANFKEIKFQLSNED 158 >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 = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 41/182 (22%), Positives = 76/182 (41%), Gaps = 19/182 (10%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G + S + R ++ D + + + GRLD ++EGLLLLT+DGGL + Sbjct: 3 LIALNKPFGTICQFSAHETRPSLGDWVKTPGV--YAAGRLDADSEGLLLLTDDGGLQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------------- 180 P + ++ Y + G L L +G+ + + Sbjct: 61 AEPRHKLVKRYWAQVDGAPGPADLKALARGVDLGDYVTRPCRAEFIEPPDTLWPRNPPIR 120 Query: 181 -TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTL--LAGSTREVS 237 W+ + + EGKNR+++++ + RL+R+ G + L G T ++ Sbjct: 121 YRAAIPTTWIELAITEGKNRQVRRMTAAVGFPTLRLVRVGIGALDIFALGIAPGETIALA 180 Query: 238 KK 239 + Sbjct: 181 PR 182 >gi|310642966|ref|YP_003947724.1| RNA pseudouridine synthase ylyb [Paenibacillus polymyxa SC2] gi|309247916|gb|ADO57483.1| Uncharacterized RNA pseudouridine synthase ylyB [Paenibacillus polymyxa SC2] Length = 323 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 33/235 (14%), Positives = 66/235 (28%), Gaps = 37/235 (15%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--------VDGV 65 R+ K IA SR +++ I RV VNG ++ A + DHI VD + Sbjct: 36 RIDKYIAEEMKEVSRSQIQLWIGNGRVLVNGTAVK-ANYKLAEGDHIVLSVPEPESVDIM 94 Query: 66 P------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR------ 113 P + + + + + +V + V + G Sbjct: 95 PENIPLDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHCHDLSGINGELRPGIV 154 Query: 114 ---------------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 D L D + R L + + +D Sbjct: 155 HRIDKDTSGLLMAAKNDQAHASLAAQLKDHSVTRKYIALVHGHLSHDQGTVDAPIGRDSG 214 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + + + G + + L G+ +I+ +F + Sbjct: 215 DRKMFTVTERNSKHAVTHFLVIERLGDYTLLELQLETGRTHQIRVHMKFIGHPLV 269 >gi|256851102|ref|ZP_05556491.1| pseudouridylate synthase [Lactobacillus jensenii 27-2-CHN] gi|260660526|ref|ZP_05861441.1| pseudouridylate synthase [Lactobacillus jensenii 115-3-CHN] gi|282933759|ref|ZP_06339114.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 208-1] gi|297205967|ref|ZP_06923362.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii JV-V16] gi|256616164|gb|EEU21352.1| pseudouridylate synthase [Lactobacillus jensenii 27-2-CHN] gi|260548248|gb|EEX24223.1| pseudouridylate synthase [Lactobacillus jensenii 115-3-CHN] gi|281302138|gb|EFA94385.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 208-1] gi|297149093|gb|EFH29391.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii JV-V16] Length = 301 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 36/231 (15%), Positives = 70/231 (30%), Gaps = 35/231 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------DGVP 66 R+ K I+ SR V+ ++ + VNG E+ + V + D I V + P Sbjct: 14 RLDKYISEHSDLSRSRVQELLGSGDILVNGKQ-EKPSYKVANNDQITVHVPKLVPLNVEP 72 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISVG 112 + + + + +V + + V + R V Sbjct: 73 EDIPLDIVYEDEDVIVVNKPQGMVVHPSAGHPNHTLVNALMNHTKFLAASPEGFRPGIVH 132 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------KLNL 160 R+D +T GLL++ + LE + Sbjct: 133 RIDKDTSGLLMIAKNANARTSLESQLAHKTNKRVYLAIVHGNFKEATGTIDAPIARNPKD 192 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK +++G + Q A V+ L G+ +I+ ++ Sbjct: 193 RKKMAIVEGGKEAVTHFHVLEQYPGYALVSCQLETGRTHQIRVHMKYIGHP 243 >gi|160947739|ref|ZP_02094906.1| hypothetical protein PEPMIC_01674 [Parvimonas micra ATCC 33270] gi|158446873|gb|EDP23868.1| hypothetical protein PEPMIC_01674 [Parvimonas micra ATCC 33270] Length = 310 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 35/238 (14%), Positives = 68/238 (28%), Gaps = 35/238 (14%) Query: 10 NFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGV 65 + R ++ SR ++++I + V VNG ++ V + D I V D Sbjct: 8 SDKKIRCDVFLSEKISNLSRTSIQKLIKGKLVFVNGKNIK-PNVILEIGDEITVSIPDKK 66 Query: 66 PLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--- 111 + + + + +V + + V L +I+ Sbjct: 67 EITLVAEDIDLDIVYEDDYIIIINKPRNMVVHPAVGNEKHTLVNALLNHCKLSMINSERP 126 Query: 112 ---GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 RLD +T GL++ D L + K N L + + Sbjct: 127 GIVHRLDKDTTGLIICAKDDETHLKLVEMFANREINKKYLAICNGSFSKENGLIDKPIGR 186 Query: 169 GICYGDM-------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + V V L G+ +I+ F N + Sbjct: 187 DEKDRKKMSVKSKSGKAAITEYNVLISNLKYSLVDVTLHTGRTHQIRVHFSSLNHPII 244 >gi|163750158|ref|ZP_02157401.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Shewanella benthica KT99] gi|161330215|gb|EDQ01197.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Shewanella benthica KT99] Length = 324 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 69/242 (28%), Gaps = 33/242 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T QR+ + +A SR ++ I V ++G + + V+ IEV Sbjct: 8 KSEITATQTGQRLDQTLAELFPDYSRTRIKEWILDGSVTIDGNVSNKPREKVLEGQEIEV 67 Query: 63 DGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + L + + +V + + + L Sbjct: 68 GATLVEETTAKAQAIDLNIVYEDDHILVINKQAGLVVHPGAGNSDGTLLNALLHHCPGIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHG 151 + RLD +T GL+++ L Sbjct: 128 LVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVSALQAREITREYEAIVMGSLISGGTVDE 187 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +D+ +V+ G + + ++ + + L G+ +I+ Sbjct: 188 PIDRHPTKRTHMAVVLSGKPAMT-HFRVAEKFRAHTRLRLRLESGRTHQIRVHMAHLGHT 246 Query: 212 VN 213 + Sbjct: 247 LV 248 >gi|116514036|ref|YP_812942.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|116093351|gb|ABJ58504.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|325125726|gb|ADY85056.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 304 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 34/246 (13%), Positives = 72/246 (29%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + + + QR+ K +A SR ++ ++ + VNG + + V D Sbjct: 1 MNREYELTAEESGQRLDKYLAGEMTDLSRSRIKELVQAGEILVNGKK-SKVSYKVQKDDL 59 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V + +P + ++ + + +V + + V L Sbjct: 60 IQVIVLPLEPLKLEAENIPLDIVYEDKDVIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR 119 Query: 106 --------SRVISVGRLDINTEGLLLLTND------------GGLARVLELPSTQWLRVY 145 R V R+D +T GLL++ + + L Sbjct: 120 DLADSPEGFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQYLAIVHGNFAE 179 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K+ V++ + Q + V L G+ +I+ Sbjct: 180 EEGTIDAPIGRNPKDRKQMAVVEKGKSAVTHFKVLEQYQGYSLVECQLETGRTHQIRVHM 239 Query: 206 EFFNWK 211 + Sbjct: 240 AYIGHP 245 >gi|167755826|ref|ZP_02427953.1| hypothetical protein CLORAM_01342 [Clostridium ramosum DSM 1402] gi|167704765|gb|EDS19344.1| hypothetical protein CLORAM_01342 [Clostridium ramosum DSM 1402] Length = 306 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 34/248 (13%), Positives = 71/248 (28%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ N++ E R+ KVIA + SR +++ MI Q V VN E+A+ D Sbjct: 1 MEKINLIIEEDNNLRLDKVIAMQLQELSRTQIQDMINQGLVLVNQKK-EKASYKTKLNDE 59 Query: 60 IEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ D P + + + + +V + + V L Sbjct: 60 IEITILDNVDLDIEPEDISLKIVYEDEDVIVVDKPTGMIVHPSAGIMHGTLVNALLFHCK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPST---------------------QWLRV 144 G + G L + + Sbjct: 120 DLSGINGVNRPGIVHRIDKETSGLLMVAKNDNAHRLLSKQLKDHTVVRRYVALVHGLIPH 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + ++ + + T+ + + + + L G+ +I+ Sbjct: 180 EHGKVDAPIGRNPKDRQSMAVTRTNSKEAVTNFTVLKRYNAMSLIECRLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 + + V Sbjct: 240 MSYIGYPV 247 >gi|49475182|ref|YP_033223.1| ribosomal large subunit pseudouridine synthase D [Bartonella henselae str. Houston-1] gi|49237987|emb|CAF27192.1| Ribosomal large subunit pseudouridine synthase D [Bartonella henselae str. Houston-1] Length = 334 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 29/265 (10%), Positives = 71/265 (26%), Gaps = 52/265 (19%) Query: 1 MKDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M + I EN QR+ + +A+ + SR ++ +I + +KV+G L++ + S Sbjct: 1 MVTQRITDENALGQRLDQWLAKQYHNVLSRSRLQALIREGYLKVDGQLIKEPKTKLKSNQ 60 Query: 59 HIEVD----------GVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 IE+ G + + + + +V + + V + Sbjct: 61 IIELTMPALRDAEPSGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIHHC 120 Query: 105 FSRVISVGRL-------------------------------DINTEGLLLLTNDGGLARV 133 + +G + G + A + Sbjct: 121 GKSLSGIGGVKRPGIVHRLDKNTSGVMVVAKNDLAHKSLSAQFFDHGRTSALDRRYHALI 180 Query: 134 LELPSTQWLRVYRVRFHGQVDQD-----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 P+ + ++ L + + T + + Sbjct: 181 WGSPNRNVWTIDAPVGRSPHNRTKQAVVYNQCLHARHAVTHFSLLEQYGTCADKTPFASL 240 Query: 189 VTVGLREGKNREIKKVFEFFNWKVN 213 + L G+ +I+ + Sbjct: 241 LECRLETGRTHQIRVHMAHIGHPLV 265 >gi|28378455|ref|NP_785347.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|308180606|ref|YP_003924734.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] gi|28271291|emb|CAD64195.1| pseudouridylate synthase [Lactobacillus plantarum WCFS1] gi|308046097|gb|ADN98640.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum ST-III] Length = 307 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 29/233 (12%), Positives = 66/233 (28%), Gaps = 35/233 (15%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 R+ KV+A + +R +V+++I +V VNG L +V D I V ++ Sbjct: 18 RLDKVLAALQSVWTRSQVDKLIKTDQVTVNGQLEAS-KYHVKPGDEIVVAAQTVQQTTIE 76 Query: 69 ---------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + L + +V + V L I+ Sbjct: 77 PENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALLYHSPLSTINGEFRPGIVH 136 Query: 120 GL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK--------- 162 + ++ ND + + V V ++ + Sbjct: 137 RIDKDTSGLLMVAKNDRAHQSLAAQLKAKTNLREYVALVHGVIKEDTGTINAPLGRSPKD 196 Query: 163 --KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K +++ + + ++ L G+ +I+ + + Sbjct: 197 RKKQAIVKTGRPAVTHFKVLKRYQHYTLISCRLETGRTHQIRVHLQSIGHPLV 249 >gi|325687371|gb|EGD29392.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK72] Length = 298 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 35/234 (14%), Positives = 65/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 QR+ K +A SR I R+ VNG + ++A V D I + P Sbjct: 11 GQRLDKAVAELTDLSRSLAHEQIKDGRILVNGQV-KKAKYAVKEGDVISYELPEPEVVEY 69 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 70 VAEDIPLEIVYQDEDVAVINKPQGMVVHPSAGHTSGTLVNALMYHIQDLSGINGVLRPGI 129 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 130 VHRIDKDTSGLLMVAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 189 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 KDRKKQAVTAKGKPALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|319937281|ref|ZP_08011688.1| pseudouridine synthase [Coprobacillus sp. 29_1] gi|319807647|gb|EFW04240.1| pseudouridine synthase [Coprobacillus sp. 29_1] Length = 305 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 33/249 (13%), Positives = 73/249 (29%), Gaps = 38/249 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST- 57 M+D I + E QR+ K++A SR +++ +I V ++ ++ A+ V + Sbjct: 1 MEDIKIRIVEEQKGQRIDKILAKELADFSRTQIQSLIQNGYVVIDEKPIK-ASYKVETGE 59 Query: 58 DHIEVDGVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 D I P + ++ + + +V + V L Sbjct: 60 DVIVYIPKPESTDILPEDIPLDVVYEDQDVIVINKPTGMIVHPSIGIYSGTLVNALLYHC 119 Query: 105 FSRVISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 G + D + L + + R + Sbjct: 120 HDLSGINGVTRPGIVHRIDKETSGLLMVAKNDKAHQSLSKQLQEHTVTRRYLALVHGLIP 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 R + +DK + K + + + + V L G+ +I+ Sbjct: 180 HEFGRIEAPIGRDKNDRQKMTCTDKNAKDAITNFKVIERFRDMSLVECRLETGRTHQIRV 239 Query: 204 VFEFFNWKV 212 ++ + V Sbjct: 240 HMQYIGYPV 248 >gi|319892189|ref|YP_004149064.1| Ribosomal large subunit pseudouridine synthase D [Staphylococcus pseudintermedius HKU10-03] gi|317161885|gb|ADV05428.1| Ribosomal large subunit pseudouridine synthase D [Staphylococcus pseudintermedius HKU10-03] Length = 305 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 66/244 (27%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI QR+ K++ SR +++ I + ++VNG ++ + D IE+ Sbjct: 7 NIEDATHHLQRIDKILPEFNSEWSRSQLQEWIKEGLIEVNGKAVKS-NYKLKLGDRIEIT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +Y +V + V + I + Sbjct: 66 EKEVVEADIQAENLNLDIYYEDDDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKNLSG 125 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ-- 155 G + + G L + + + V H + Sbjct: 126 INGEIRPGIVHRIDKDTSGLLMVAKNDVAHRSLVEQLMAKTVKRKYIALVHGHIPHEFGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVIETFKNYTLVECELETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 YPLV 249 >gi|157376631|ref|YP_001475231.1| lysozyme [Shewanella sediminis HAW-EB3] gi|157319005|gb|ABV38103.1| Lysozyme [Shewanella sediminis HAW-EB3] Length = 323 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 70/242 (28%), Gaps = 33/242 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T QR+ + +A SR ++ I V ++G + + V+ I+V Sbjct: 8 KSEITATQTGQRLDQTLADLFPDYSRTRIKEWIQAGWVYIDGTVSIKPREKVLEGQVIQV 67 Query: 63 DGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + L + + +V + + + L + Sbjct: 68 EATLVEETKAKAQAIDLDIVYEDDHILVINKQAGLVVHPGAGNSDGTLMNALLHHCPNIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHG 151 + RLD +T GL+++ L Sbjct: 128 LVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREITREYEAIVQGSLISGGTVDE 187 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +D+ +V G + + ++ + + L G+ +I+ Sbjct: 188 PIDRHPTKRTHMAVVHNGKPAMT-HYRVAEKFRAHTRLRLRLESGRTHQIRVHMSHIGHT 246 Query: 212 VN 213 + Sbjct: 247 LV 248 >gi|222529363|ref|YP_002573245.1| RluA family pseudouridine synthase [Caldicellulosiruptor bescii DSM 6725] gi|222456210|gb|ACM60472.1| pseudouridine synthase, RluA family [Caldicellulosiruptor bescii DSM 6725] Length = 300 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 34/235 (14%), Positives = 73/235 (31%), Gaps = 37/235 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ + ++ A +R V+++I + V VN + + A V S D I+V Sbjct: 9 RLDRYLSEALSKTRSFVQKIIEEGNVWVNQRQVLKPAYKVKSGDIIKVVIPEPKQLSLVA 68 Query: 63 -D-GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-------- 112 D + + + + +V + + V L R+ S+ Sbjct: 69 QDIDIEVVYEDEHLSVINKPRGMVVHPGAGNFENTLVNALLHKFKGRLSSINGVIRPGIV 128 Query: 113 --------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 + D L + R+ L+ + + + Sbjct: 129 HRLDKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIYYAICEGVLKEDSGVVDAPIGRHPV 188 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK IV G + + +V + L+ G+ +I+ + + + Sbjct: 189 NRLKMAIVPNGKEA-VTYFEVLERFDKYTFVKLRLKTGRTHQIRVHMSYIGYPLL 242 >gi|148996979|ref|ZP_01824633.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP11-BS70] gi|168491017|ref|ZP_02715160.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae CDC0288-04] gi|168575592|ref|ZP_02721528.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae MLV-016] gi|237651118|ref|ZP_04525370.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae CCRI 1974] gi|237821884|ref|ZP_04597729.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae CCRI 1974M2] gi|307067586|ref|YP_003876552.1| 23S RNA-specific pseudouridylate synthase [Streptococcus pneumoniae AP200] gi|147756679|gb|EDK63719.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP11-BS70] gi|183574680|gb|EDT95208.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae CDC0288-04] gi|183578513|gb|EDT99041.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae MLV-016] gi|306409123|gb|ADM84550.1| Pseudouridylate synthase, 23S RNA-specific [Streptococcus pneumoniae AP200] Length = 295 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|218899046|ref|YP_002447457.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus G9842] gi|228902397|ref|ZP_04066552.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis IBL 4222] gi|228966845|ref|ZP_04127889.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar sotto str. T04001] gi|218543499|gb|ACK95893.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus G9842] gi|228792944|gb|EEM40502.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar sotto str. T04001] gi|228857254|gb|EEN01759.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis IBL 4222] Length = 302 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 32/237 (13%), Positives = 59/237 (24%), Gaps = 40/237 (16%) Query: 12 TPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGV 65 +R+ K +A GI SR +V++ I V VNG ++ V D I V D Sbjct: 14 KNERIDKFVA--GINNEWSRSQVQQWIKDDVVTVNGKAVKV-NYKVKEEDEITVTIPDPE 70 Query: 66 PLRKAER-----------TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 L L + +V + V + G + Sbjct: 71 ALDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGINGVM 130 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------------- 160 + G L + + L V + Sbjct: 131 RPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKGTIDAPI 190 Query: 161 ------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V + + + V L G+ +I+ ++ + Sbjct: 191 GRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYIGYP 247 >gi|332366655|gb|EGJ44398.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK1059] Length = 298 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 68/240 (28%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG + ++A V D I + Sbjct: 5 IEASVVGQRLDKAVAELTDLSRSLAHEQIKDGRILVNGQV-KKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVINKPQGMVVHPSAGHTSGTLVNALMYHIQDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKAKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|119357434|ref|YP_912078.1| ribosomal large subunit pseudouridine synthase D [Chlorobium phaeobacteroides DSM 266] gi|119354783|gb|ABL65654.1| ribosomal large subunit pseudouridine synthase D [Chlorobium phaeobacteroides DSM 266] Length = 350 Score = 66.7 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 37/242 (15%), Positives = 76/242 (31%), Gaps = 42/242 (17%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------- 62 P R+ K + + A+R +V+ I + RV VNG ++ + S D I++ Sbjct: 33 PMRIDKYLTQQVENATRNKVQEAITEGRVLVNGKPVKS-NYKIKSCDLIQITFLRPPAPE 91 Query: 63 ---DGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRST-----------VFDNLPSIFSR 107 + +P+ E L + +K G+V + + T L R Sbjct: 92 MAPENIPIDIIYEDADLMVVNKEAGMVVHPAFGNWTGTLANAILHHIGNDTGELDCSLQR 151 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK---------- 157 V RLD +T GL+++ + + L Q + Sbjct: 152 PGIVHRLDKDTSGLIIIAKNPLALQRLARQFAQRQVEKIYHALVWGVPEPASGTIKTNIG 211 Query: 158 ----LNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + + + V++ L G+ +I+ + Sbjct: 212 RSKKNRKVMTTYPFEGIDGKHAITDYAVIEDLRYFSLVSIKLHTGRTHQIRVHLQHLGHP 271 Query: 212 VN 213 + Sbjct: 272 IL 273 >gi|308069860|ref|YP_003871465.1| RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus polymyxa E681] gi|305859139|gb|ADM70927.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus polymyxa E681] Length = 334 Score = 66.7 bits (161), Expect = 6e-09, Method: Composition-based stats. Identities = 33/236 (13%), Positives = 65/236 (27%), Gaps = 37/236 (15%) Query: 14 QRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--------VDG 64 R+ K IA SR +++ I RV VNG ++ A + D I VD Sbjct: 46 IRIDKYIAEEMKEVSRSQIQMWIGNGRVLVNGTAIK-ANYKLAEGDRIVLSVPEPESVDI 104 Query: 65 VP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR----- 113 VP + + + + + +V + V + G Sbjct: 105 VPENIPLDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHCHDLSGINGELRPGI 164 Query: 114 ----------------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 D L D + R L + + +D Sbjct: 165 VHRIDKDTSGLLMAAKNDQAHASLAAQLKDHSVTRKYIALVHGHLSHDQGTVDAPIGRDS 224 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + + + G + + L G+ +I+ +F + Sbjct: 225 GDRKLFTVTERNSKHAVTHFLVIERLGDYTLLELQLETGRTHQIRVHMKFIGHPLV 280 >gi|238810211|dbj|BAH70001.1| hypothetical protein [Mycoplasma fermentans PG18] Length = 315 Score = 66.7 bits (161), Expect = 6e-09, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 73/239 (30%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL-LERAAVNVMSTDHIEV----DGVP-- 66 +R+ K I + SR +++ +I Q V +N + + + V I + + Sbjct: 18 ERIDKYIGQNSELSRNDIKELIEQGAVYINDNVQVHKCNYIVREGQEITIVKLLNKEIKI 77 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VI 109 ++ + + + +V + V L + Sbjct: 78 EPVNIPLDIKYEDDDLVIINKPSNLVVHPSPGHYNDTLVNGLLYHFKNNLSNENGLLRPG 137 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------------VRFHGQVDQD 156 V R+D +T GLL++ + + L + + + + ++ Sbjct: 138 IVHRIDKDTSGLLIIAKNNKMHNSLTDMLKRHEIERSYLAIVRGLIENPLTKINLPIARN 197 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDT---QKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 ++ + +G L K + V L+ G+ +I+ + V Sbjct: 198 TVDRKMMSVHKEGKEAITFVHLLKHFYLDKEPMSLVRCELKTGRTHQIRVHLSYIKHPV 256 >gi|225858727|ref|YP_002740237.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae 70585] gi|225722071|gb|ACO17925.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae 70585] Length = 295 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLSELSRSFANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|324991250|gb|EGC23184.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK353] Length = 298 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 66/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I + VNG ++A V D I + Sbjct: 5 IEASVAGQRLDKAVAELTDLSRSLANEQIKDGWILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIQDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKSALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|146318440|ref|YP_001198152.1| YlyB [Streptococcus suis 05ZYH33] gi|145689246|gb|ABP89752.1| YlyB [Streptococcus suis 05ZYH33] Length = 309 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 33/234 (14%), Positives = 64/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ K ++ SR I +V VNG ++A +V D + Sbjct: 9 GIRLDKALSDLTDLSRSVANEQIKAGQVLVNGQP-KKAKYSVQVGDVLTYQIPEVEEIDY 67 Query: 63 --DGVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + +PL + + +V + + V L + G L Sbjct: 68 VAEDIPLEIVFQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALLYHVKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDDAHTKLAAELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G V + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKEAVTRFQVLERFGDYTLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|55822493|ref|YP_140934.1| ribosomal large subunit pseudouridine synthase D [Streptococcus thermophilus CNRZ1066] gi|55738478|gb|AAV62119.1| ribosomal large subunit pseudouridine synthase D [Streptococcus thermophilus CNRZ1066] Length = 292 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 30/232 (12%), Positives = 61/232 (26%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K +A SR + I V VNG + A V D I Sbjct: 11 RLDKSLADLTELSRSQANEAIKAGTVLVNGKSAK-AKYVVKEGDVITYVLPEEEVLEYKA 69 Query: 63 DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +PL + + +V + + V + + G + Sbjct: 70 EDIPLDIIYEDADVAVVNKPQGMVVHPSAGHTSGTLVNALMYHVKDLSSINGVVRPGIVH 129 Query: 121 L---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI- 170 ++ ND + + V + +++ I Sbjct: 130 RIDKDTSGLLMIAKNDKAHNALAAELKDKKSLRKYVAIVHGNLPNDRGVIEAPIGRSDKD 189 Query: 171 --------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + T+ + G+ V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFTVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|125717901|ref|YP_001035034.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK36] gi|125497818|gb|ABN44484.1| Ribosomal large subunit pseudouridine synthase D, putative [Streptococcus sanguinis SK36] gi|327474176|gb|EGF19586.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK408] Length = 298 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASVAGQRLDKAVAELTDLSRSLANEQIKDGRILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVINKPQGMVVHPSAGHTSGTLVNALMYHIQDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|315612946|ref|ZP_07887857.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis ATCC 49296] gi|315315056|gb|EFU63097.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis ATCC 49296] Length = 299 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 32/234 (13%), Positives = 64/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 QR+ K ++ SR I +V VNG + ++A V D + P Sbjct: 9 GQRLDKALSDLTELSRSLANEQIKAGQVLVNGQV-KKAKYIVQEGDIVAYHVPEPEVLEY 67 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 68 VAENLPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFQVLERFGDYSLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|311068067|ref|YP_003972990.1| pseudouridylate synthase [Bacillus atrophaeus 1942] gi|310868584|gb|ADP32059.1| pseudouridylate synthase [Bacillus atrophaeus 1942] Length = 303 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 32/238 (13%), Positives = 70/238 (29%), Gaps = 36/238 (15%) Query: 9 ENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP 66 +R+ K +A A SR +V++ + ++VNG ++ A + D ++V P Sbjct: 10 PEQKSERIDKFLASAEKDWSRTQVQQWVKDGHIEVNGSPVK-ANYKMQPGDQVKVTVPEP 68 Query: 67 -------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-------- 105 + ++ L + +V + V + Sbjct: 69 EALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCKDLSGINGV 128 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 R V R+D +T GLL++ + L + + Sbjct: 129 MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVHKTVTRKYMAVVHGIISHDDGTIDAP 188 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTV-------GLRE-----GKNREIKKVFEFFNWK 211 + + + K + V L E G+ +I+ ++ + Sbjct: 189 IGRDKKDRQSMTVVREGKNAVTHFHVLERFQDFTLVECQLETGRTHQIRVHMKYIGFP 246 >gi|284030831|ref|YP_003380762.1| pseudouridine synthase, RluA family [Kribbella flavida DSM 17836] gi|283810124|gb|ADB31963.1| pseudouridine synthase, RluA family [Kribbella flavida DSM 17836] Length = 309 Score = 66.4 bits (160), Expect = 6e-09, Method: Composition-based stats. Identities = 31/250 (12%), Positives = 67/250 (26%), Gaps = 39/250 (15%) Query: 1 MKDKN--IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN----- 53 M D +V + +R+ ++R SR + +I V+V+G ++A Sbjct: 1 MSDSRTLMVPDGLAGERLDAALSRLFGVSRTKAAELIEAGLVQVDGAPAAKSARVSAGVL 60 Query: 54 ------------------------VMSTDHIEVDGVPL-------RKAERTRLWLYHKPI 82 V D I V P+ + + Sbjct: 61 LDVELPAPPGEVTVVPETVENLRIVHDDDEIVVVDKPVGVAAHPSPGWTGPTVIGHLAGA 120 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 G + S R + L S ++ V + + + L + + ++ Sbjct: 121 GFSISTSGAAERKGIVHRLDVGTSGLMVVAKTEYSYTVLKRAFKERTVKKIYHALVQGHP 180 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + +D+ + K V+ G + + L G+ +I+ Sbjct: 181 DPFTGTVDAPIDRHPNHD-YKFGVVAGGKPSITHYETLEAFRYATLLEITLETGRTHQIR 239 Query: 203 KVFEFFNWKV 212 Sbjct: 240 VHMSAIGHPC 249 >gi|307708571|ref|ZP_07645035.1| ribosomal large subunit pseudouridine synthase D [Streptococcus mitis NCTC 12261] gi|307615320|gb|EFN94529.1| ribosomal large subunit pseudouridine synthase D [Streptococcus mitis NCTC 12261] Length = 295 Score = 66.4 bits (160), Expect = 7e-09, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDIVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 ENLPLDIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|42561113|ref|NP_975564.1| ribosomal large subunit pseudouridylate synthase D [Mycoplasma mycoides subsp. mycoides SC str. PG1] gi|42492610|emb|CAE77206.1| ribosomal large subunit pseudouridylate synthase D [Mycoplasma mycoides subsp. mycoides SC str. PG1] gi|301320622|gb|ADK69265.1| pseudouridine synthase, RluA family [Mycoplasma mycoides subsp. mycoides SC str. Gladysdale] Length = 310 Score = 66.4 bits (160), Expect = 7e-09, Method: Composition-based stats. Identities = 34/251 (13%), Positives = 67/251 (26%), Gaps = 40/251 (15%) Query: 3 DKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + T R+ K++ SR ++++I ++ + VN ++ V Sbjct: 2 NKITLNSLNTTLRLDKLLVELLTSYDYSRSYIQKLIKEECISVNNQIITNNNFLVKPNSQ 61 Query: 60 IEV-------------DGVP---LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 I + + + + L + + V + + V L S Sbjct: 62 ITITIKDPILDPNLVKNDEIDLDIIYQDDDLLVINKQNNITVHPSLNNTNNTIVNALLAS 121 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------D 156 G L + G L + + L + Sbjct: 122 DVELSSINGELRPGIVHRIDKQTTGLLIVAKNDKTHKLLSEMFKNHQIYKEYLAIVTGVI 181 Query: 157 KLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTVG------------LREGKNREIK 202 K N I M VT K + V ++ G+ +I+ Sbjct: 182 KPNKGLIDAPIGRSQTDRKKMSVTAKNSKQAITTFEVVERFFKNTLVKCQIQTGRTHQIR 241 Query: 203 KVFEFFNWKVN 213 F + N V Sbjct: 242 VHFNYINHPVL 252 >gi|306825452|ref|ZP_07458792.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|304432390|gb|EFM35366.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sp. oral taxon 071 str. 73H25AP] Length = 299 Score = 66.4 bits (160), Expect = 7e-09, Method: Composition-based stats. Identities = 31/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLTELSRSLANEQIKAGQVLVNGQV-KKAKYTVQEGDIVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDIPLDIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFQVLERFGDYSLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|312127570|ref|YP_003992444.1| pseudouridine synthase, rlua family [Caldicellulosiruptor hydrothermalis 108] gi|311777589|gb|ADQ07075.1| pseudouridine synthase, RluA family [Caldicellulosiruptor hydrothermalis 108] Length = 299 Score = 66.4 bits (160), Expect = 7e-09, Method: Composition-based stats. Identities = 38/235 (16%), Positives = 78/235 (33%), Gaps = 37/235 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ + ++ A +R V+++I + V VN + + A V S D I+V Sbjct: 9 RLDRYLSEALSKTRSFVQKIIEEGNVLVNQTQVLKPAYKVKSGDIIKVVIPEPKQLSIVA 68 Query: 63 -DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---------- 111 D E L + +KP G+V + +T+ + L F +S Sbjct: 69 QDINIEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFRGRLSSINGVIRPGIV 128 Query: 112 -------------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 + D L + R+ L+ + + + + Sbjct: 129 HRLDKDTSGLLVVAKTDEAHVKLSEALKSHQIKRIYYAICEGVLKEDSGVINAPIGRHPV 188 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK +V G + + +V + L+ G+ +I+ + + + Sbjct: 189 NRLKMAVVPNGKEA-VTYFEVLERFDKYTFVKLRLKTGRTHQIRVHMSYIGYPLL 242 >gi|78186656|ref|YP_374699.1| pseudouridine synthase, RluD [Chlorobium luteolum DSM 273] gi|78166558|gb|ABB23656.1| ribosomal large subunit pseudouridine synthase D [Chlorobium luteolum DSM 273] Length = 354 Score = 66.4 bits (160), Expect = 7e-09, Method: Composition-based stats. Identities = 43/260 (16%), Positives = 78/260 (30%), Gaps = 50/260 (19%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---------- 61 P R+ + + R A+R +V+ I RV VNG ++ V S D IE Sbjct: 37 PMRIDQYLTRQVENATRNKVQEAIEDGRVLVNGKSVKS-NYRVKSCDSIEMTFLRPPAPE 95 Query: 62 -------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-------- 106 +D + + + + P +V + L + Sbjct: 96 LAPEDIPID---IVYEDSDLMVVNKAPGMVVHPAFGNWTGTLANAILHHFGTDAEELETD 152 Query: 107 --RVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHG 151 R V RLD +T GL+++ + L H Sbjct: 153 ELRPGIVHRLDKDTSGLIIVARNPTALHRLARQFADRKVSKLYTAILWGVPEPQEGTIHT 212 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV---TVGLREGKNREIKKVFEFF 208 + + + + G +T + W + L G+ +I+ + Sbjct: 213 NIGRSRRDRKVMANFPYEGLEGKTAITDYRVTENLHWFSLAELTLHTGRTHQIRAHMQHL 272 Query: 209 NWKVNRLIRISYGPFQLGTL 228 ++ L +YG L TL Sbjct: 273 GHQI--LGDTTYGGASLRTL 290 >gi|254556664|ref|YP_003063081.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] gi|254045591|gb|ACT62384.1| pseudouridylate synthase [Lactobacillus plantarum JDM1] Length = 307 Score = 66.4 bits (160), Expect = 7e-09, Method: Composition-based stats. Identities = 29/233 (12%), Positives = 66/233 (28%), Gaps = 35/233 (15%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 R+ KV+A + +R +V+++I +V VNG L +V D I V ++ Sbjct: 18 RLDKVLAALQSVWTRSQVDKLIKTDQVTVNGQLEAS-KYHVKPGDEIVVAAQTVQQTTIE 76 Query: 69 ---------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + L + +V + V L I+ Sbjct: 77 PENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALLYHSPLSTINGEFRPGIVH 136 Query: 120 GL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK--------- 162 + ++ ND + + V V ++ + Sbjct: 137 RIDKDTSGLLMVAKNDRAHQSLAAQLKAKTNLREYVALVHGVIKEDTGTINAPLGRSPKD 196 Query: 163 --KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K +++ + + ++ L G+ +I+ + + Sbjct: 197 RKKQAIVKTGRPAITHFKVLKRYQHYTLISCRLETGRTHQIRVHLQSIGHPLV 249 >gi|323351668|ref|ZP_08087322.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis VMC66] gi|322122154|gb|EFX93880.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis VMC66] Length = 298 Score = 66.0 bits (159), Expect = 7e-09, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 68/240 (28%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASVASQRLDKAVAELTDLSRSLAHEQIKDGRILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVINKPQGMVVHPSAGHTSGTLVNALMYHIQDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G+ + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGNYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|262038336|ref|ZP_06011717.1| ribosomal large subunit pseudouridine synthase D [Leptotrichia goodfellowii F0264] gi|261747640|gb|EEY35098.1| ribosomal large subunit pseudouridine synthase D [Leptotrichia goodfellowii F0264] Length = 346 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 62/245 (25%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V T +RV ++ +R ++++I V VN ++ + V D IE+ Sbjct: 43 TVSTEKTNKRVDSFLSEKTDLTRSRIQQLIKDGNVSVNNKSVKS-SYKVEENDRIEIIIP 101 Query: 63 -----------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + ++ + K +V R+ V L I Sbjct: 102 EAEKVEIIAENIDINIIYEDKDIAVINKKAGMVVHPAHGNYSRTLVNAILYHIKDLSGIN 161 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------- 155 G + L G + + L + + Sbjct: 162 GEIRPGIVHRLDKDTSGLIVVAKNDKAHIKLAEMFQKKEVKKTYLAILKGKLNRESGRLE 221 Query: 156 -------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 D + + V V + G+ +I+ ++ Sbjct: 222 TQIGRDADDRKKMSVLKENDKGKKAITNYNVILSNELFTLVKVYIETGRTHQIRVHMKYL 281 Query: 209 NWKVN 213 + + Sbjct: 282 GYPIL 286 >gi|45440505|ref|NP_992044.1| 23S rRNA pseudouridine synthase D [Yersinia pestis biovar Microtus str. 91001] gi|51595196|ref|YP_069387.1| 23S rRNA pseudouridine synthase D [Yersinia pseudotuberculosis IP 32953] gi|145600172|ref|YP_001164248.1| 23S rRNA pseudouridine synthase D [Yersinia pestis Pestoides F] gi|162420770|ref|YP_001607807.1| 23S rRNA pseudouridine synthase D [Yersinia pestis Angola] gi|170025566|ref|YP_001722071.1| 23S rRNA pseudouridine synthase D [Yersinia pseudotuberculosis YPIII] gi|186894214|ref|YP_001871326.1| 23S rRNA pseudouridine synthase D [Yersinia pseudotuberculosis PB1/+] gi|229896561|ref|ZP_04511728.1| 23S rRNA pseudouridine synthase [Yersinia pestis Pestoides A] gi|45435362|gb|AAS60921.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Microtus str. 91001] gi|51588478|emb|CAH20086.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Yersinia pseudotuberculosis IP 32953] gi|145211868|gb|ABP41275.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis Pestoides F] gi|162353585|gb|ABX87533.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis Angola] gi|169752100|gb|ACA69618.1| pseudouridine synthase, RluA family [Yersinia pseudotuberculosis YPIII] gi|186697240|gb|ACC87869.1| pseudouridine synthase, RluA family [Yersinia pseudotuberculosis PB1/+] gi|229700339|gb|EEO88371.1| 23S rRNA pseudouridine synthase [Yersinia pestis Pestoides A] Length = 325 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV VNG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDSRVTVNGKKINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|327489656|gb|EGF21448.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK1058] Length = 298 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 66/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASAAGQRLDKAVAELTDLSRSLANEQIKDGRILVNGQ-AKKAKYAVKEGDVISYEQPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVPEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYTLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|312111747|ref|YP_003990063.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1] gi|311216848|gb|ADP75452.1| pseudouridine synthase, RluA family [Geobacillus sp. Y4.1MC1] Length = 304 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 32/244 (13%), Positives = 68/244 (27%), Gaps = 37/244 (15%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + E + +R+ KVIA SR +V++ I Q V VN ++ A + D + V Sbjct: 5 RFHIDEEYDNERIDKVIAALNEDWSRSKVQQWIKNQLVTVNDQHVK-ANYKCSAGDIVVV 63 Query: 63 ---DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + P + + L + +V + V L Sbjct: 64 RLPEPEPLYVEPENIPLDIYYEDADVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCHDLS 123 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPS---------------------TQWLRVYRV 147 G L + G L + + Sbjct: 124 GINGVLRPGIVHRIDKDTSGLLMVAKNDMAHQALVDQLVKKTVTRKYKAIVHGVIPHDYG 183 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + K + + + + ++ L G+ +I+ ++ Sbjct: 184 TIDAPIGRDKRDRKKMAVTEENGKEAVTHFRVLERFRQYTFIECQLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|324993007|gb|EGC24927.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK405] gi|327462303|gb|EGF08630.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK1] Length = 298 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 66/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASVASQRLDKAVAELTDLSRSLAHEQIKDGRILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHINDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYTLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|238785831|ref|ZP_04629800.1| Ribosomal large subunit pseudouridine synthase D [Yersinia bercovieri ATCC 43970] gi|238713244|gb|EEQ05287.1| Ribosomal large subunit pseudouridine synthase D [Yersinia bercovieri ATCC 43970] Length = 325 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV V+G + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILEDRVTVDGKTINKPKEKVLGGELVTIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 QIEEDARWAPQEIPLDIVYEDSDILVINKPRGLVVHPGAGNPDGTVLNALLYYYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|260101276|ref|ZP_05751513.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus helveticus DSM 20075] gi|260084917|gb|EEW69037.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus helveticus DSM 20075] Length = 306 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 36/247 (14%), Positives = 75/247 (30%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K +Q R+ K I+ SR V+ ++ ++ + VN + + + + + D Sbjct: 4 MPKKYELQVENEYGRLDKFISEQIPDLSRTRVKELVKEKEILVNHKVEKV-SYKIQAGDK 62 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE++ ++ + + + +V + V L Sbjct: 63 IEINVPAVKPLDVVPENIPLDIVYEDEVVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTQ 122 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + LE + Sbjct: 123 DLAQSPEGFRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIYWAIVHGNFGE 182 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 L KK V++ + Q + + L G+ +I+ Sbjct: 183 ENGVIDAPIGRNLYDRKKMAVVENGKKAVTHFKVLKQFKGYSLIECQLETGRTHQIRVHL 242 Query: 206 EFFNWKV 212 ++ V Sbjct: 243 DYIGHAV 249 >gi|9971939|gb|AAG10501.1|AF279106_63 predicted ribosomal large subunit pseudouridine synthase D [uncultured marine gamma proteobacterium EBAC31A08] Length = 310 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 34/244 (13%), Positives = 73/244 (29%), Gaps = 33/244 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M KN+ + R+ K A SR ++++ I + RV +NG + + V D Sbjct: 1 MIVKNVPNDLS-SMRLDKATAEMFTDYSRTQIKKWIEEGRVLINGEV-SQPRDKVYENDQ 58 Query: 60 IEVDGV--------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ + + + ++ S + + Sbjct: 59 IELSPKEEQKVSWEAQDIDFEIHFENEDFIIINKPAGLIMHPGSGCYDGTLANGLIYKFP 118 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 R V RLD +T G+LL+ + + V + Sbjct: 119 ELINIPRSGIVHRLDKDTSGILLVARNESFRNFFINEMQERRVVKKYTSIVIGSTLGSFS 178 Query: 161 LKKGI-----------VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 +++ I + + V L G+ + + + + G+ +I+ Sbjct: 179 IEEPIGRDKNNRTKMAIREDGKDALTFVKLKENIGNYSVLDIRIETGRTHQIRVHLSSKK 238 Query: 210 WKVN 213 + Sbjct: 239 LPII 242 >gi|313888344|ref|ZP_07822015.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus harei ACS-146-V-Sch2b] gi|312845747|gb|EFR33137.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus harei ACS-146-V-Sch2b] Length = 297 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 70/244 (28%), Gaps = 33/244 (13%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K+ V + R+ K + +R ++++ I + +N ++ A N+ D I Sbjct: 3 KNTFNVDKESVGLRLDKFLEEILEINRSQIKKNIVDGNILLNNNKVK-AGYNLKLDDEIT 61 Query: 62 V--------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 V D ++ L ++ T + + Sbjct: 62 VEYEDDFSLSPEKIDFDVLYEDDYLAVISKPQELVVHPGAGNKSGTLVNGLLYKFKELSN 121 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP------------STQWLRVYRVRF 149 P R V RLD +T GL+L+ L Sbjct: 122 PIDNDRPGIVHRLDKDTSGLMLIAKKDEAYYKLVEMFKNRQIDKHYLAICHGNIYEDFDV 181 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D N +K ++ + + + V L G+ +I+ + N Sbjct: 182 KAPIGRDPNNRIKMRVIDENSKEAYTSFKVLKNFDKYTLLDVHLHTGRTHQIRVHLAYVN 241 Query: 210 WKVN 213 V Sbjct: 242 HPVV 245 >gi|300871600|ref|YP_003786473.1| ribosomal large subunit pseudouridine synthase C [Brachyspira pilosicoli 95/1000] gi|300689301|gb|ADK31972.1| ribosomal large subunit pseudouridine synthase C [Brachyspira pilosicoli 95/1000] Length = 330 Score = 66.0 bits (159), Expect = 8e-09, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 63/242 (26%), Gaps = 35/242 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K ++E+ R+ K + SR + + +I + V VNG ++ + D I Sbjct: 22 RKCRIEEDIESMRLDKYMGNRFSYYSRNKWQDLIGEGLVLVNGEKIK-YTRTISKGDEIS 80 Query: 62 V-------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 DG + + L + T Sbjct: 81 YYFKDMKEPEVNKDIEIIYDDGDLIIVNKPANLPVIPSGKYYYNTLHTIMQERLGCHLNM 140 Query: 103 SIFSRVISVGRL--------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + G + +L N+ + + + Sbjct: 141 INRIDRETSGCVILSRGSLVASKFCAMLANKNNNNIKKTYIAIVENAKDIEDSFTVEGYM 200 Query: 155 QDKLNLLKKGIVI------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 Q+ + L + I + Y + + G A + + L G+ +I+ Sbjct: 201 QEVGDKLYRRYQILHKENVEDSKYSKTKFKTVKKIGDYAILKIRLYTGRMHQIRVHLHSK 260 Query: 209 NW 210 N Sbjct: 261 NL 262 >gi|281420977|ref|ZP_06251976.1| ribosomal large subunit pseudouridine synthase D [Prevotella copri DSM 18205] gi|281404895|gb|EFB35575.1| ribosomal large subunit pseudouridine synthase D [Prevotella copri DSM 18205] Length = 387 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 37/249 (14%), Positives = 72/249 (28%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE- 61 K V N P R+ K +A + SR +++ + VNG ++ V D + Sbjct: 55 KVQVDANQDPVRIDKYLADKMAYQSRNRIQQAADAGFIHVNGKPVKS-NYKVRPNDLVTL 113 Query: 62 ----------VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + E +L + +K G+V + T+ + + Sbjct: 114 MLDRPRHETSIKPEEIAINVVYEDDQLMVVNKEAGMVVHPGAGNFHGTLIQAVAWHLRDM 173 Query: 109 ISV----------GRLDINTEGLLLLTNDG-------------GLARVLELPSTQWLRVY 145 R+D +T GLL++ R + Sbjct: 174 PEFDANDPEVGLVHRIDKDTSGLLVVAKTPTAKNALGKQFFNKTTHRSYNALVWGNIVED 233 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 R G + +D N L+ + + + G V L G+ +I+ Sbjct: 234 EGRIEGNIGRDPKNRLRMKVFDPDSGIGKTAVTHYKVLERFGYTTLVQCVLETGRTHQIR 293 Query: 203 KVFEFFNWK 211 + Sbjct: 294 AHMKHIGHP 302 >gi|158335489|ref|YP_001516661.1| RluA family pseudouridine synthase [Acaryochloris marina MBIC11017] gi|158305730|gb|ABW27347.1| pseudouridine synthase, RluA family [Acaryochloris marina MBIC11017] Length = 328 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 35/266 (13%), Positives = 73/266 (27%), Gaps = 46/266 (17%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ + +A SR ++++I Q V++N + + D +EV Sbjct: 14 RIDRWLANQVDSLSRSHIQKLIEQGHVQINHKICTSKKYALQIGDQVEVHIPAPQPLALE 73 Query: 64 ----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 + + + L + +V + V L S Sbjct: 74 PEPMDLEILFEDDHLLIVNKPAGLVVHPAPGHATGTLVHGLLAHCQDGQGSTLSGIGGVE 133 Query: 112 -----GRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRVRFHGQV 153 RLD +T G +++ + R + Sbjct: 134 RPGIVHRLDKDTTGAIMVAKTNQAHQHLQAQIAAKTALREYVGLVYGRPSALTGRMEFPI 193 Query: 154 DQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + +K +V + G + G+ A V L G+ +I+ W Sbjct: 194 GRHRSDRIKMAVVPEEQGGKVAVTHWQILQPLGNYALVKFRLETGRTHQIRVHCAQMGWP 253 Query: 212 VNR---LIRISYGPFQLGTLLAGSTR 234 + R L + + R Sbjct: 254 IVGDPLYSRGRSLKVNLSGQVLHAWR 279 >gi|332525786|ref|ZP_08401930.1| ribosomal large subunit pseudouridine synthase D [Rubrivivax benzoatilyticus JA2] gi|332109340|gb|EGJ10263.1| ribosomal large subunit pseudouridine synthase D [Rubrivivax benzoatilyticus JA2] Length = 317 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 33/240 (13%), Positives = 67/240 (27%), Gaps = 33/240 (13%) Query: 3 DKNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++V +R+ +V+ + AG SR ++ +I V+V+G A+ V + +E Sbjct: 17 RSDVVDTARHGERLDRVLVSIAGEFSRSHLQHLIELGHVRVDGQPASTASRRVKAGQRVE 76 Query: 62 V-----------------------DGVPLRKAERTRLWLYHKPIGL--------VTTHSD 90 V D L + L ++ P + H+ Sbjct: 77 VELVPTDESRAFRPQPMALAILYEDEHLLVLDKPAGLVVHPAPGNWSGTLLNGLLAHHAA 136 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 + L+ + + V R Sbjct: 137 AATLPRAGIVHRLDKDTSGVMMVGKSLPAVTALVRDIAARDVHRRYLALAHGAVATQRID 196 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V +D ++ ++ +V G V Q + V L G+ +I+ Sbjct: 197 APVGRDPVSRVRMAVVASGKPART-DVECLAQHDGVSAVRCTLHTGRTHQIRVHLASRGH 255 >gi|50365205|ref|YP_053630.1| 23S rRNA/tRNA pseudouridine synthase [Mesoplasma florum L1] gi|50363761|gb|AAT75746.1| 23S rRNA/tRNA pseudouridine synthase [Mesoplasma florum L1] Length = 311 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 30/247 (12%), Positives = 71/247 (28%), Gaps = 40/247 (16%) Query: 7 VQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVN--------- 53 ++ N R+ K + A + SR ++ +I V VNG + + N Sbjct: 3 IKANVEKVRLDKYLVDALAESTEYSRSYIQTLIKDGNVIVNGNVETKQNFNLIGDIEIEI 62 Query: 54 -------------------VMSTDHIEVDGVP----LRK----AERTRLWLYHKPIGLVT 86 V D I V P + E T + Sbjct: 63 NIPEVKTSTINPEKIDLDIVYEDDDILVVNKPNNMVVHPGAGNTEGTMVNALLGRDAEFL 122 Query: 87 THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 + R + + + ++ V + D + + L + + + + ++ + Sbjct: 123 STIGGVERPGIVHRIDKQTTGLLIVAKNDKSHQVLTEMLKNHEIYKEYVALVWGEIKEDK 182 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + + + K + + Y + + V + G+ +I+ F Sbjct: 183 GIIDAPIGRHQNDRKKMMVTSKNSKYAVTNFEVIKRLDKTTLVKCAIETGRTHQIRVHFN 242 Query: 207 FFNWKVN 213 F + Sbjct: 243 FIKHPIV 249 >gi|228940981|ref|ZP_04103539.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228973912|ref|ZP_04134487.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228980501|ref|ZP_04140811.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis Bt407] gi|228779321|gb|EEM27578.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis Bt407] gi|228785778|gb|EEM33782.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228818660|gb|EEM64727.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus thuringiensis serovar berliner ATCC 10792] gi|326941662|gb|AEA17558.1| ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis serovar chinensis CT-43] Length = 302 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 61/243 (25%), Gaps = 40/243 (16%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V +R+ K + GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAAEQKNERIDKFV--TGINNEWSRSQVQQWIKDDVVTVNGKAVKV-NYKVKEEDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEALDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------- 160 G + + G L + + L V + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 161 ------------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIGRDKKERQSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKYI 244 Query: 209 NWK 211 + Sbjct: 245 GYP 247 >gi|134299530|ref|YP_001113026.1| RluA family pseudouridine synthase [Desulfotomaculum reducens MI-1] gi|134052230|gb|ABO50201.1| ribosomal large subunit pseudouridine synthase D [Desulfotomaculum reducens MI-1] Length = 306 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 26/243 (10%), Positives = 63/243 (25%), Gaps = 35/243 (14%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLE---------RAAVNVM 55 IV R+ +A SR ++++I V V+G + + Sbjct: 7 IVDGENAKCRLDVFLANQCQDISRSYIQKLIEDGLVTVDGKPARANHKLRVEETIHMQIP 66 Query: 56 STDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + ++V+ + + + + +V + V L Sbjct: 67 PAEELKVEPENIPLDIYYEDSHVIVVNKPRGMVVHPAEGNIAGTLVNALLYHCHDLSGIN 126 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY---------------------RVRFH 150 G + L G + + Q L + Sbjct: 127 GIMRPGIVHRLDKDTSGLIMAAKHDQAHQSLARQLKDRTVTRRYQALVHHNIKGDFGTIN 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +D + K +V + + + G + L G+ +I+ + + Sbjct: 187 APIGRDPRDRQKMAVVERNSKNAVTHFQVLERFGDYTLIECRLETGRTHQIRVHMAYIGF 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|225856592|ref|YP_002738103.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae P1031] gi|225724891|gb|ACO20743.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae P1031] Length = 295 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 36/232 (15%), Positives = 66/232 (28%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDK----------LNL 160 + G L + + LR Y HG + D+ Sbjct: 130 RIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK VI + + + G + V + L G+ +I+ + + V Sbjct: 190 RKKQAVIAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIDHPV 241 >gi|295399734|ref|ZP_06809715.1| pseudouridine synthase, RluA family [Geobacillus thermoglucosidasius C56-YS93] gi|294978137|gb|EFG53734.1| pseudouridine synthase, RluA family [Geobacillus thermoglucosidasius C56-YS93] Length = 304 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 32/244 (13%), Positives = 69/244 (28%), Gaps = 37/244 (15%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + E + +R+ KVIA SR +V++ I +Q V VN ++ A + D + V Sbjct: 5 RFHIDEEYDNERIDKVIAALNEDWSRSKVQQWIKKQLVTVNDQHVK-ANYKCSAGDIVVV 63 Query: 63 ---DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + P + + L + +V + V L Sbjct: 64 RLPEPEPLYVEPENIPLDIYYEDADVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCHDLS 123 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPS---------------------TQWLRVYRV 147 G L + G L + + Sbjct: 124 GINGVLRPGIVHRIDKDTSGLLMVAKNDMAHQALVDQLVKKTVTRKYKAIVHGVIPHDYG 183 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + K + + + + ++ L G+ +I+ ++ Sbjct: 184 TIDAPIGRDKRDRKKMAVTEENGKEAVTHFRVLERFRQYTFIECQLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|269121652|ref|YP_003309829.1| pseudouridine synthase [Sebaldella termitidis ATCC 33386] gi|268615530|gb|ACZ09898.1| pseudouridine synthase, RluA family [Sebaldella termitidis ATCC 33386] Length = 305 Score = 66.0 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 68/246 (27%), Gaps = 36/246 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +K I + + +R+ IA +R ++++I + VN + + V D IE+ Sbjct: 2 EKIIFEISEEGKRLDLYIAERTELTRTRIQQLIKDGNINVNNKK-SKPSYKVEKNDFIEM 60 Query: 63 ---DGVPLRKAERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D + + +V + + V + I Sbjct: 61 IIPDEKEIDLVPENINIKILYEDSDIAVIDKEAGIVVHPSHGHESGTLVNAVMYHIKDLS 120 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPST---------------------QWLRVYRV 147 G + L G L + + Sbjct: 121 GINGEIRPGIVHRLDKDTSGLLIIAKNDTAHLRLSEMFGSSGIRKTYIAILKGKINKESG 180 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + +D + K +V + + + V V ++ G+ +I+ ++ Sbjct: 181 KLETLIGRDPKDRKKMAVVKTNGKTAITYFQVLDKNEKFSLVKVNIQTGRTHQIRVHMKY 240 Query: 208 FNWKVN 213 + V Sbjct: 241 LGYPVL 246 >gi|332707717|ref|ZP_08427744.1| ribosomal large subunit pseudouridine synthase D [Lyngbya majuscula 3L] gi|332353420|gb|EGJ32933.1| ribosomal large subunit pseudouridine synthase D [Lyngbya majuscula 3L] Length = 320 Score = 66.0 bits (159), Expect = 1e-08, Method: Composition-based stats. Identities = 29/237 (12%), Positives = 61/237 (25%), Gaps = 38/237 (16%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLRKA 70 R+ IA+ SR ++++I Q V+VN + V D I + D PL Sbjct: 26 RLDSYIAQQTPDLSRSRIQKLIEQGNVQVNDHVCISKKAKVQLGDRISLTIPDPKPLELQ 85 Query: 71 ERTR-----------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV----------- 108 + + +V + + V L Sbjct: 86 PEVIPLDILYEDDVLIIINKPAGLVVHPAPGHESGTLVNALLAHCPKLTGIGGVQRPGIV 145 Query: 109 ----------ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 I++ + D L R + + + + Sbjct: 146 HRLDKDTTGAIAIAKTDQAHGHLQAQLQAKTAQRQYLGVVYGAPSAESGTINQPIGRHPV 205 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K +V ++ G+ + L G+ +I+ + + Sbjct: 206 DRKKMAVVPVEKGGRPAITHWQVRERLGNYTLMHFQLETGRTHQIRVHSSYIGHPIV 262 >gi|241890118|ref|ZP_04777416.1| ribosomal large subunit pseudouridine synthase D [Gemella haemolysans ATCC 10379] gi|241863740|gb|EER68124.1| ribosomal large subunit pseudouridine synthase D [Gemella haemolysans ATCC 10379] Length = 299 Score = 66.0 bits (159), Expect = 1e-08, Method: Composition-based stats. Identities = 31/247 (12%), Positives = 76/247 (30%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + I+ + +R+ K + + SR ++ +I++ +KV+G ++ + + Sbjct: 1 MDTQKIIYTSPKSERIDKFLQQELTDVSRTNIQNLISEGYIKVDGNNIKT-NYKLKEGNV 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I +D + + + + +V + V L Sbjct: 60 ITIDYKEPEELDVVKQDIPVDIVYEDNDLIIVNKAKGMVVHPSVGHKDGTLVNALLFHSE 119 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRFHGQVD 154 R V R+D +T GLL++ + ++ + V + D Sbjct: 120 LSSINGTIRPGIVHRIDKDTSGLLIVAKNDKAHVKLSEMIANKDVKRKYYALVHGSIKHD 179 Query: 155 Q--------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ +I + + + L G+ +I+ + Sbjct: 180 YGTIDAPIARNPKERKEMAIIDEGKPSITHFKVIDRFEKYTLIECELETGRTHQIRVHMK 239 Query: 207 FFNWKVN 213 + N + Sbjct: 240 YINHPLV 246 >gi|256384025|gb|ACU78595.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma mycoides subsp. capri str. GM12] gi|256384857|gb|ACU79426.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma mycoides subsp. capri str. GM12] gi|296455719|gb|ADH21954.1| ribosomal large subunit pseudouridine synthase D [synthetic Mycoplasma mycoides JCVI-syn1.0] Length = 310 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 34/251 (13%), Positives = 67/251 (26%), Gaps = 40/251 (15%) Query: 3 DKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + T R+ K++ SR ++++I ++ + VN ++ V Sbjct: 2 NKITLNSLNTTLRLDKLLVELLTSYDYSRSYIQKLIKEECISVNNQIITNNNFVVKPNSQ 61 Query: 60 IEV-------------DGVP---LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 I + + + + L + + V + V L S Sbjct: 62 ITITIKDPILDPNLVKNDEIDLDIIYQDDDLLVINKQNNITVHPSLSNTNNTIVNALLAS 121 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 G L + G L + + L + Sbjct: 122 DVELSSINGELRPGIVHRIDKQTTGLLIVAKNDKTHKLLSEMFKNHQIYKEYLAIVSGVI 181 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIK 202 L+ I I M VT K + V ++ G+ +I+ Sbjct: 182 KPNKGLIDAPIGRSQIDRKKMSVTAKNSKQAITTFEVVERFLKNTLVKCQIQTGRTHQIR 241 Query: 203 KVFEFFNWKVN 213 F + N V Sbjct: 242 VHFNYINHPVL 252 >gi|156401575|ref|XP_001639366.1| predicted protein [Nematostella vectensis] gi|156226494|gb|EDO47303.1| predicted protein [Nematostella vectensis] Length = 418 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 51/348 (14%), Positives = 101/348 (29%), Gaps = 41/348 (11%) Query: 32 ERMIAQQRVKVNGILLERAAVNVMSTDHIE---------VDGVPLRKAERTR-LWLYHKP 81 E+ I ++ VNG + + D + V PL T + + +KP Sbjct: 45 EKAIESGKITVNGEKV-LPTTVLRGNDVLRNRVHRHEPPVTDQPLEIICNTDDIVVLNKP 103 Query: 82 IGLVTTHSDPDGRSTVFDNL--PSIFSRVISVGRLDINTEGLLLL----TNDGGLARVLE 135 + +TV L + ++ R+D T G+L+ T L + Sbjct: 104 SSIPVHPCGRYRHNTVVFLLGKEHNLRNLYTIHRIDRLTSGILMFAKTLTRARMLEAQVR 163 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------VTLDTQKGSNA 187 + + RV+ + + + T G ++ Sbjct: 164 DRQVEKEYLCRVQGEFPSEPVDCEQPIIVVSHKVGICRVSPDGKSCRTVFTKLHSNGKSS 223 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGP 247 V G+ +I+ ++ + + P A T+ + +Q Sbjct: 224 VVKCIPYTGRMHQIRVHLQWLGYPIID------DPIY--NHPAWGTKRGRGGVTDDQALE 275 Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTR------MKKNSSQKNGLSKQKKL 301 + AQ RDR +P ++ + +GL+ ++ Sbjct: 276 VIKALAQSTTIIEGDDVGYTPRDREAETRPIPTHNSKNINTGMSLAQAHAPSGLTAEQSA 335 Query: 302 AT--PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSL 347 PV + N M G +S G+ E + S +R Sbjct: 336 HGLTPVPNKCRDDNANMETGAQHDEMSPQGEGERDADCSECRIWRRDP 383 >gi|227529323|ref|ZP_03959372.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus vaginalis ATCC 49540] gi|227350751|gb|EEJ41042.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus vaginalis ATCC 49540] Length = 305 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 28/232 (12%), Positives = 63/232 (27%), Gaps = 37/232 (15%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ K +A SR ++++ I V VNG ++ ++ D + V Sbjct: 16 RIDKELAHHLTDISRSQLQKWIEDGNVTVNGEKVK-PKYKLVVGDRVVVQPKKPQKIDLE 74 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI---------- 109 + + + + +V + V L I Sbjct: 75 PENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPNHTLVNALLYHSPLSTINGEFRPGIVH 134 Query: 110 ----------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + + D+ L R ++ R + + K + Sbjct: 135 RIDKDTSGLLMIAKNDLAHRSLAAQLKAKTNEREYVALVHGVIKEERGTIDAPLGRSKKD 194 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK V++ + + V+ L G+ +I+ ++ Sbjct: 195 R-KKQAVVEDGRHAVTHFKVLELFQHYTLVSCRLETGRTHQIRVHMKYIGHP 245 >gi|319777728|ref|YP_004137379.1| pseudouridine synthase [Mycoplasma fermentans M64] gi|318038803|gb|ADV35002.1| Pseudouridine synthase [Mycoplasma fermentans M64] Length = 307 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 73/239 (30%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL-LERAAVNVMSTDHIEV----DGVP-- 66 +R+ K I + SR +++ +I Q V +N + + + V I + + Sbjct: 10 ERIDKYIGQNSELSRNDIKELIEQGAVYINDNVQVHKCNYIVREGQEITIVKLLNKEIKI 69 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------VI 109 ++ + + + +V + V L + Sbjct: 70 EPVNIPLDIKYEDDDLVIINKPSNLVVHPSPGHYNDTLVNGLLYHFKNNLSNENGLLRPG 129 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------------VRFHGQVDQD 156 V R+D +T GLL++ + + L + + + + ++ Sbjct: 130 IVHRIDKDTSGLLIIAKNNKMHNSLTDMLKRHEIERSYLAIVRGLIENPLTKINLPIARN 189 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDT---QKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 ++ + +G L K + V L+ G+ +I+ + V Sbjct: 190 TVDRKMMSVHKEGKEAITFVHLLKHFYLDKEPMSLVRCELKTGRTHQIRVHLSYIKHPV 248 >gi|319790681|ref|YP_004152314.1| hemolysin A [Thermovibrio ammonificans HB-1] gi|317115183|gb|ADU97673.1| hemolysin A [Thermovibrio ammonificans HB-1] Length = 263 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K++ GI SR + +I +V VNG ++++A V + +EV G + Sbjct: 2 KKERLDKLLVERGIVKSRERAKALIMAGKVLVNGQVVDKAGTAVPADARVEVKGEDIPY 60 >gi|325689795|gb|EGD31799.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK115] Length = 298 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASVVGQRLDKAVAELTDLSRSLANEQIKDGRILVNGQ-AKKAKYAVKEGDIIYYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVPEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKSALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >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 = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ AGI SRREVE+ I RV +NG E + V D + +DG L + R Sbjct: 4 RINKLLSDAGIGSRREVEKYIVAGRVMLNGERAELTDIVV-EDDIVTLDGEELPVNDILR 62 Query: 75 L 75 Sbjct: 63 E 63 >gi|294101951|ref|YP_003553809.1| pseudouridine synthase, RluA family [Aminobacterium colombiense DSM 12261] gi|293616931|gb|ADE57085.1| pseudouridine synthase, RluA family [Aminobacterium colombiense DSM 12261] Length = 326 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 26/242 (10%), Positives = 67/242 (27%), Gaps = 37/242 (15%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNG-ILLERAAVNVM----------S 56 Q + +R+ +A +R V+++I V+++G + A+ V Sbjct: 26 QGDEEGKRIDAFLAEELGLTRSYVQKLIRLGNVEISGIRRALKPALKVTAEMAIHIVVPP 85 Query: 57 TDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + +E++ P++ + + + +V + V L Sbjct: 86 AETLEIEPEPVKFGIIYEDPYIIVVNKPAGLVVHPAPGNWHGTLVHGLLYKYRDMRKFDE 145 Query: 113 RLDINTEGLLLLTNDG---------------------GLARVLELPSTQWLRVYRVRFHG 151 + L G + + S LR Sbjct: 146 EVRPGIVHRLDSGTSGLLVVARTPKILQNLQNQFRSRSVEKKYLALSCGKLRKAAGFIEE 205 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + N L + G + + +++ L G+ +I+ + Sbjct: 206 PIGRSQRNRLMMTVTDTGRPALT-EYRILWTHQKYSFIECTLHTGRTHQIRVHLKHRGCP 264 Query: 212 VN 213 + Sbjct: 265 IV 266 >gi|220909998|ref|YP_002485309.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 7425] gi|219866609|gb|ACL46948.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7425] Length = 313 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 31/237 (13%), Positives = 62/237 (26%), Gaps = 37/237 (15%) Query: 14 QRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE------VDGVP 66 +R+ + +A + SR ++++I Q +V VNG L + V D I+ V P Sbjct: 10 ERLDRYLAAQLPDLSRSRIQQLIEQGQVYVNGQLCQAKKQIVQVGDRIQLELPPPVAAEP 69 Query: 67 LR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 L + L + +V G + V L G Sbjct: 70 LPEHIPLDILYEDDQLLIVNKPAGLVVHPAPGHSGGTLVNALLAHCGDLPGIGGVQRPGI 129 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD----------------------QD 156 L G +A + + L+ + + Sbjct: 130 VHRLDKDTSGAIAIAKTELAHRHLQAQIKAKTARREYLGVVYGVPKTSSGRIDLPIGRHP 189 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + G+ + L G+ +I+ + Sbjct: 190 VDRKKMAVVASDKGRSAVTHWQIQERLGNFTLLQFQLETGRTHQIRVHIAQLGHPIV 246 >gi|323464710|gb|ADX76863.1| ribosomal large subunit pseudouridine synthase, RluA family [Staphylococcus pseudintermedius ED99] Length = 305 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 36/244 (14%), Positives = 75/244 (30%), Gaps = 36/244 (14%) Query: 5 NIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 NI QR+ K++ SR +++ I + ++VNG ++ + D IE+ Sbjct: 7 NIEDATHHLQRIDKILPEFNSEWSRSQLQEWIKEGLIEVNGKAVKS-NYKLKLGDRIEIT 65 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--- 106 + + +Y +V + V + I + Sbjct: 66 EKEVVEADIQAENLNLDIYYEDDDVAIVYKPKGMVVHPSPGHYTGTLVNGLMYQIKNLSG 125 Query: 107 -----RVISVGRLDINTEGLLLLTNDGGLARVLELPST----QWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + R L + + V H + Sbjct: 126 INSEIRPGIVHRIDKDTSGLLMVAKNDVAHRSLVEQLMAKTVKRKYIALVHGHIPHEFGT 185 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 N + V+ + + V L G+ +I+ ++ Sbjct: 186 IDAPIGRNKNDRQSMAVVDDGKEAVTHFNVIETFKNYTLVECELETGRTHQIRVHMKYIG 245 Query: 210 WKVN 213 + + Sbjct: 246 YPLV 249 >gi|303254977|ref|ZP_07341056.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS455] gi|302598057|gb|EFL65124.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS455] Length = 295 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|15900809|ref|NP_345413.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae TIGR4] gi|111658131|ref|ZP_01408829.1| hypothetical protein SpneT_02000697 [Streptococcus pneumoniae TIGR4] gi|148992939|ref|ZP_01822558.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP9-BS68] gi|149010429|ref|ZP_01831800.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP19-BS75] gi|168485879|ref|ZP_02710387.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae CDC1087-00] gi|168490255|ref|ZP_02714454.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP195] gi|169834331|ref|YP_001694382.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae Hungary19A-6] gi|182683874|ref|YP_001835621.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae CGSP14] gi|194398681|ref|YP_002037566.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae G54] gi|303259840|ref|ZP_07345815.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP-BS293] gi|303262254|ref|ZP_07348198.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP14-BS292] gi|303264676|ref|ZP_07350594.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS397] gi|303267177|ref|ZP_07353044.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS457] gi|303269425|ref|ZP_07355194.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS458] gi|14972404|gb|AAK75053.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae TIGR4] gi|147764910|gb|EDK71839.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP19-BS75] gi|147928391|gb|EDK79407.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP9-BS68] gi|168996833|gb|ACA37445.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae Hungary19A-6] gi|182629208|gb|ACB90156.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae CGSP14] gi|183571050|gb|EDT91578.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae CDC1087-00] gi|183571388|gb|EDT91916.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP195] gi|194358348|gb|ACF56796.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae G54] gi|301801775|emb|CBW34486.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae INV200] gi|302636577|gb|EFL67068.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP14-BS292] gi|302639045|gb|EFL69505.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP-BS293] gi|302641044|gb|EFL71422.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS458] gi|302643292|gb|EFL73572.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS457] gi|302645763|gb|EFL75992.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae BS397] gi|332073261|gb|EGI83740.1| pseudouridine synthase, RluA family protein [Streptococcus pneumoniae GA17570] gi|332076208|gb|EGI86674.1| pseudouridine synthase, RluA family protein [Streptococcus pneumoniae GA41301] gi|332204930|gb|EGJ18995.1| pseudouridine synthase, RluA family protein [Streptococcus pneumoniae GA47901] Length = 295 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|15902874|ref|NP_358424.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae R6] gi|116515398|ref|YP_816303.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae D39] gi|148988365|ref|ZP_01819812.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP6-BS73] gi|168482999|ref|ZP_02707951.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae CDC1873-00] gi|15458431|gb|AAK99634.1| 23S rRNA pseudouridine synthase (supresses ftsH(ts) mutants) [Streptococcus pneumoniae R6] gi|116075974|gb|ABJ53694.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae D39] gi|147926046|gb|EDK77120.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP6-BS73] gi|172043419|gb|EDT51465.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae CDC1873-00] gi|301794072|emb|CBW36476.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae INV104] gi|332201394|gb|EGJ15464.1| pseudouridine synthase, RluA family protein [Streptococcus pneumoniae GA47368] Length = 295 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLVLAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|22124820|ref|NP_668243.1| 23S rRNA pseudouridine synthase D [Yersinia pestis KIM 10] gi|108808759|ref|YP_652675.1| 23S rRNA pseudouridine synthase D [Yersinia pestis Antiqua] gi|108810984|ref|YP_646751.1| 23S rRNA pseudouridine synthase D [Yersinia pestis Nepal516] gi|153997673|ref|ZP_02022773.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis CA88-4125] gi|165926534|ref|ZP_02222366.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Orientalis str. F1991016] gi|165936735|ref|ZP_02225302.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Orientalis str. IP275] gi|166010204|ref|ZP_02231102.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Antiqua str. E1979001] gi|166213045|ref|ZP_02239080.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Antiqua str. B42003004] gi|167398582|ref|ZP_02304106.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167421637|ref|ZP_02313390.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167423313|ref|ZP_02315066.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Mediaevalis str. K1973002] gi|167470273|ref|ZP_02334977.1| 23S rRNA pseudouridine synthase D [Yersinia pestis FV-1] gi|218930302|ref|YP_002348177.1| 23S rRNA pseudouridine synthase D [Yersinia pestis CO92] gi|229838893|ref|ZP_04459052.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|229899460|ref|ZP_04514603.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229901200|ref|ZP_04516323.1| 23S rRNA pseudouridine synthase [Yersinia pestis Nepal516] gi|270489385|ref|ZP_06206459.1| pseudouridine synthase, RluA family [Yersinia pestis KIM D27] gi|294504991|ref|YP_003569053.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis Z176003] gi|34395805|sp|Q8ZBV7|RLUD_YERPE RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|21957646|gb|AAM84494.1|AE013693_10 suppressor of ftsH mutation [Yersinia pestis KIM 10] gi|108774632|gb|ABG17151.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis Nepal516] gi|108780672|gb|ABG14730.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis Antiqua] gi|115348913|emb|CAL21870.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis CO92] gi|149289310|gb|EDM39390.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis CA88-4125] gi|165915384|gb|EDR33994.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Orientalis str. IP275] gi|165921462|gb|EDR38659.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Orientalis str. F1991016] gi|165991111|gb|EDR43412.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Antiqua str. E1979001] gi|166205832|gb|EDR50312.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Antiqua str. B42003004] gi|166960556|gb|EDR56577.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167051086|gb|EDR62494.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167057483|gb|EDR67229.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis biovar Mediaevalis str. K1973002] gi|229681925|gb|EEO78018.1| 23S rRNA pseudouridine synthase [Yersinia pestis Nepal516] gi|229687862|gb|EEO79935.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. India 195] gi|229695259|gb|EEO85306.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Orientalis str. PEXU2] gi|262363056|gb|ACY59777.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis D106004] gi|262366980|gb|ACY63537.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis D182038] gi|270337889|gb|EFA48666.1| pseudouridine synthase, RluA family [Yersinia pestis KIM D27] gi|294355450|gb|ADE65791.1| ribosomal large subunit pseudouridine synthase D [Yersinia pestis Z176003] gi|320016469|gb|ADW00041.1| 23S rRNA pseudouridine synthase [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 325 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV VNG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDSRVTVNGKKINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|332974183|gb|EGK11117.1| ribosomal large subunit pseudouridine synthase D [Psychrobacter sp. 1501(2011)] Length = 456 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 66/244 (27%), Gaps = 38/244 (15%) Query: 6 IVQENFTPQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V ++ QR+ K +A A SR +++ + + VNG + E+ V D + + Sbjct: 149 TVTDDKAGQRIDK-LAAELFADHSRSQLQEWLKSGNLTVNGEV-EKPKYRVRVGDKLLLQ 206 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + L + +V + + V L ++ Sbjct: 207 AKLEQHGTDEPEDIALDIMYEDDSVLVINKPVGMVVHPGAGNWTGTLVNGLLYHYPNQAH 266 Query: 110 SV--GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 G + + L G Q R + + + LK+ I Sbjct: 267 LPRAGLVHRIDKNTSGLLVIGKTKAAQMELQDQLRDKTVYRHYQCIVAGDVASLKRQRTI 326 Query: 168 Q---------------GICYGDMQVTLDTQ---KGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + V L G+ +I+ Sbjct: 327 DAPIGRHRTQRTKMTVSSVGKPAVTHIMNITALNDNYSLLDVQLETGRTHQIRVHLSHIG 386 Query: 210 WKVN 213 + Sbjct: 387 HPII 390 >gi|304399171|ref|ZP_07381038.1| pseudouridine synthase, RluA family [Pantoea sp. aB] gi|304353225|gb|EFM17605.1| pseudouridine synthase, RluA family [Pantoea sp. aB] Length = 325 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 70/239 (29%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +RV VNG++++ V+ + + +D Sbjct: 10 TVSESQLGQRLDQTLAELFPDYSRSRIKEWILDRRVTVNGVMVDTPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + + + +V + + + L + + Sbjct: 70 EIEEAQRWEPQDLPLDIVYEDEDIIVINKPRDFVVHPGAGNPDGTVLNALLHHYPAIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVDSLQRREITREYEAVAIGNMTAGGTVEQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >gi|325686216|gb|EGD28262.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 304 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 35/246 (14%), Positives = 70/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + + + QR+ K +A SR ++ ++ V VNG + + V D Sbjct: 1 MNREYELTAEESGQRLDKYLAGEMIDLSRSRIKELVQAGEVLVNGKK-SKVSYKVQKGDL 59 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V + +P + + + + +V + V L Sbjct: 60 IQVTVLPLEPLKLEAENIPLDIVYEDEDIIVVNKPQGMVVHPAVGHPSHTLVNALLYHTR 119 Query: 106 --------SRVISVGRLDINTEGLLLLTND------------GGLARVLELPSTQWLRVY 145 R V R+D +T GLL++ + + L Sbjct: 120 DLADSPEGFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQYLAIVHGNFAE 179 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K+ V++ + Q + V L G+ +I+ Sbjct: 180 EEGTIDAPIGRNPKDRKQMAVVEKGKSAVTHFKVLEQYQGYSLVECQLETGRTHQIRVHM 239 Query: 206 EFFNWK 211 + Sbjct: 240 AYIGHP 245 >gi|308187865|ref|YP_003931996.1| ribosomal large subunit pseudouridine synthase D [Pantoea vagans C9-1] gi|308058375|gb|ADO10547.1| ribosomal large subunit pseudouridine synthase D [Pantoea vagans C9-1] Length = 325 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 70/239 (29%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +RV VNG++++ V+ + + +D Sbjct: 10 TVSESQLGQRLDQTLAELFPDYSRSRIKEWILDRRVTVNGVMVDTPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + + + +V + + + L + + Sbjct: 70 EIEEAQRWEPQNLPLDIVYEDEDIIVINKPRDFVVHPGAGNPDGTVLNALLHHYPAIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVDSLQRREITREYEAVAIGNMTAGGTVEQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >gi|306520956|ref|ZP_07407303.1| putative pseudouridylate synthase [Clostridium difficile QCD-32g58] Length = 453 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 35/235 (14%), Positives = 72/235 (30%), Gaps = 37/235 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ +A G SR ++++I +VKVN + E+A V D+I ++ Sbjct: 167 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKAKYLVKEEDNIVIEIPEPKVLEVL 225 Query: 64 --GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 +P+ + L + +V + V L ++ S+ Sbjct: 226 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSINGVIRPGI 285 Query: 112 -GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 R+D +T GLL++ + L + F + + + + Sbjct: 286 VHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREYEFICYGVVKEDKITVDKPIGRNP 345 Query: 171 CYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIKKVFEFFNWKVN 213 + K + V L G+ +I+ N + Sbjct: 346 KDRLKMAVVKDGKNAITHFEVVERFDKFTHMRARLETGRTHQIRVHALSINHPLL 400 >gi|255528132|ref|ZP_05394960.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans P7] gi|296186658|ref|ZP_06855060.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans P7] gi|255508173|gb|EET84585.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans P7] gi|296048695|gb|EFG88127.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans P7] Length = 305 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 36/249 (14%), Positives = 68/249 (27%), Gaps = 37/249 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ + I+ EN R+ ++ SR ++ +I + +VKVNG +L+++ + D Sbjct: 1 METREFIIDENSVNTRLDLFLSERMEDKSRSYIQGLIEKSQVKVNG-ILKKSNYKLKIKD 59 Query: 59 HIEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I + D P + + + + +V S + V L Sbjct: 60 KILITIPDPVGLDIEPEDIPLDIVYEDSDVIVVNKPQGMVVHPASGVYTGTLVNALLNHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 G + G L S L Sbjct: 120 SDLSGINGVTRPGIVHRIDKDTSGILVVAKNDKSHNKLAEQLKDHSMTRAYTALVEGILK 179 Query: 156 -----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 K VI+ + + SN V L G+ +I+ Sbjct: 180 EDEGTIDKPLGRHPVERIKISVIKDGKRAVTHYRVLERFKSNTLVECVLETGRTHQIRVH 239 Query: 205 FEFFNWKVN 213 + + Sbjct: 240 MAYIGHPLV 248 >gi|15643702|ref|NP_228748.1| ribosomal large subunit pseudouridine synthase C [Thermotoga maritima MSB8] gi|222100610|ref|YP_002535178.1| Pseudouridine synthase [Thermotoga neapolitana DSM 4359] gi|4981478|gb|AAD36021.1|AE001757_14 ribosomal large subunit pseudouridine synthase C [Thermotoga maritima MSB8] gi|221573000|gb|ACM23812.1| Pseudouridine synthase [Thermotoga neapolitana DSM 4359] Length = 304 Score = 65.6 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 22/228 (9%), Positives = 64/228 (28%), Gaps = 36/228 (15%) Query: 15 RVSKVIARAGIASRREVE--------RMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 R+ K + R +++ ++I + +V VN ++ + ++ D +E+ Sbjct: 13 RLDKFL-------RNQLKDVPLSVIYKLIRKGKVYVNRKRVKDPSFDLEEGDVVELRYVN 65 Query: 63 -----------DGVPLR------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 D P+ + L L P + + + L Sbjct: 66 LENLPKRSEKKDLTPVPMKLDVLYEDDHYLVLNKPPNIAIHPGKGVHVATLIEGLLYYGQ 125 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 + S + + L + + + + + + + K Sbjct: 126 EKGFSPFLVHRLDKETSGLLVVAKNREAARILTELFKGRNIEKEYVTLVRGVPENNMKIT 185 Query: 166 VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + ++ + + V + G+ +I++ + V Sbjct: 186 IPLDGQEAVSEIVSVKPLKDVSLLRVKIHTGRKHQIRRHLSQIGFPVV 233 >gi|218233909|ref|YP_002368692.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus B4264] gi|229152090|ref|ZP_04280285.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus m1550] gi|218161866|gb|ACK61858.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus cereus B4264] gi|228631439|gb|EEK88073.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus m1550] Length = 302 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 33/244 (13%), Positives = 65/244 (26%), Gaps = 42/244 (17%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V +R+ K + GI SR +V++ I + V VNG ++ V D I V Sbjct: 8 TVAAEQKNERIDKFV--TGINNEWSRTQVQQWIKDEVVTVNGKAVK-GNYKVKEEDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRV 147 G + + G L + + L + Sbjct: 125 GINGVMRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRYKAIVHGVIPHDKG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +DK + V + + + V L G+ +I+ ++ Sbjct: 185 TIDAPIARDKKER-QSMTVDENGKNAVTHFQVLERFKDFTLVECRLETGRTHQIRVHMKY 243 Query: 208 FNWK 211 + Sbjct: 244 IGYP 247 >gi|332981610|ref|YP_004463051.1| ribosomal large subunit pseudouridine synthase D [Mahella australiensis 50-1 BON] gi|332699288|gb|AEE96229.1| ribosomal large subunit pseudouridine synthase D [Mahella australiensis 50-1 BON] Length = 304 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 61/242 (25%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + QR+ +A + +R ++ +I + VNG ++ + D I+V Sbjct: 8 VTSDKADQRLDTFLAESFEQWTRSHIQNLIKNGNITVNGQHIKS-GYKLKDGDIIKVEVP 66 Query: 63 -----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D P + + + + +V + + V L Sbjct: 67 ELRPIDIQPEDIPLNILYEDEDIIVINKPQGMVVHPAAGNYSATLVNALLAHCKDLSGIN 126 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------- 155 G + + G L + L Sbjct: 127 GEIRPGIVHRIDKDTSGVLVVAKNDMAHVALAQQIKEKTAIRKYVALLEGDIKEDTGVIN 186 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK V+ G + + G + L G+ +I+ + Sbjct: 187 APIARHPTDRKKMAVVSGGRSAVTHFKVLERFGRYTLIEARLETGRTHQIRVHMAYIGHP 246 Query: 212 VN 213 V Sbjct: 247 VV 248 >gi|322391774|ref|ZP_08065239.1| ribosomal large subunit pseudouridine synthase D [Streptococcus peroris ATCC 700780] gi|321145254|gb|EFX40650.1| ribosomal large subunit pseudouridine synthase D [Streptococcus peroris ATCC 700780] Length = 297 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 34/234 (14%), Positives = 65/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ K ++ SR I +V VNG L ++A +V D I Sbjct: 9 GVRLDKALSDLTELSRSLANEQIKSGQVLVNGQL-KKAKYSVQEGDVITYQVPEPEVLEY 67 Query: 63 --DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + +PL + + +V + + V + I G L Sbjct: 68 VAEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNIPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFRVLERFGDYTLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|322411546|gb|EFY02454.1| ribosomal large subunit pseudouridine synthase D [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 297 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 42/240 (17%), Positives = 79/240 (32%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---D 63 + + QR+ K +A SR + I Q V VNG ++A V + D I+ + Sbjct: 3 INVLTSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVIQFELPE 61 Query: 64 GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 L E L + +KP G+V S T+ + L + S+ Sbjct: 62 EEVLEYQAQVIPLDIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSING 121 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+D +T GLL++ + L + + + + + Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDEAHQALAAELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 165 IVIQGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + Q T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|324995685|gb|EGC27597.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK678] Length = 298 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I ++ VNG ++A V D I + Sbjct: 5 IESSVAGQRLDKAVAELTDLSRSLANEQIKDGQILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVPEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIQDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHLALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|15893233|ref|NP_360947.1| pseudouridylate synthase [Rickettsia conorii str. Malish 7] gi|15620450|gb|AAL03848.1| sfhB protein homolog [Rickettsia conorii str. Malish 7] Length = 313 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 66/239 (27%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ K ++ ASR ++++ I +V VN +++ V V D I Sbjct: 12 GIRLDKALSSLLENASRNQIQKAIKDSQVLVNDVIISDPDVLVKENDIILFSFKEPEELK 71 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVG 112 + + + + V + + V L + G Sbjct: 72 IAAANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPG 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + L + L + Q + +R + + +N L+ I Sbjct: 132 IVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKVLVWGVINPLEGVIKNNIGRS 191 Query: 173 GDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + KGS + V L G+ +I+ V Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKILELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVV 250 >gi|238765380|ref|ZP_04626304.1| Ribosomal large subunit pseudouridine synthase D [Yersinia kristensenii ATCC 33638] gi|238696422|gb|EEP89215.1| Ribosomal large subunit pseudouridine synthase D [Yersinia kristensenii ATCC 33638] Length = 325 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV V+G + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILEDRVTVDGKTINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLYYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|119775737|ref|YP_928477.1| pseudouridylate synthase [Shewanella amazonensis SB2B] gi|119768237|gb|ABM00808.1| ribosomal large subunit pseudouridine synthase D [Shewanella amazonensis SB2B] Length = 324 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 68/238 (28%), Gaps = 31/238 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T R+ + IA SR ++ I V V+G+++ + V+ + IE+ Sbjct: 8 KSEISATQTGLRLDQAIAELFPDYSRTRLKEWILGGNVYVDGVVVTKPREKVLESQVIEI 67 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + L + + +V + + + L Sbjct: 68 EATLEEEVAAEAQEIDLDIVYEDDHILVINKQAGLVVHPGAGNADGTLMNALLHHCPEIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARV------LELPSTQWLRVYRVRFHGQVDQD- 156 RLD +T GL+++ + ++ + D Sbjct: 128 HVPRAGIIHRLDKDTTGLMVVAKTVEAQTHLVAALQARDITREYEAIVLGTMTAGGTVDA 187 Query: 157 ----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + + ++ + + L G+ +I+ Sbjct: 188 PIGRHPTKRTHMAVHHSGRPSVTHYRVAEKFRAHTRLRLRLETGRTHQIRVHMAHIGH 245 >gi|139473995|ref|YP_001128711.1| RNA pseudouridylate synthase [Streptococcus pyogenes str. Manfredo] gi|134272242|emb|CAM30494.1| putative RNA pseudouridylate synthase [Streptococcus pyogenes str. Manfredo] Length = 296 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 43/240 (17%), Positives = 79/240 (32%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VNG ++A V + D I + Sbjct: 3 INVITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFELPK 61 Query: 64 GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 L E L + +KP G+V S T+ + L + S+ Sbjct: 62 EEVLEYQAQNIPLDIIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSING 121 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+D +T GLL++ +VL + + + + + Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDAAHQVLTEELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 165 IVIQGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + Q T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|261405686|ref|YP_003241927.1| RluA family pseudouridine synthase [Paenibacillus sp. Y412MC10] gi|261282149|gb|ACX64120.1| pseudouridine synthase, RluA family [Paenibacillus sp. Y412MC10] Length = 324 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 65/245 (26%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 V + R+ K + SR +V+ IA V VN ++ V D I + Sbjct: 27 TVDADAAKTRIDKYLTENLGEDVSRSQVQLWIADGHVSVNDGPIKS-NYKVSQGDRIVLK 85 Query: 63 -----------DGVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +PL + + + +V + V + Sbjct: 86 VPEPSAVEIIPEDIPLEIAFEDGDVIVVNKPRGMVVHPAPGHSSGTLVNALMFHCKDLSG 145 Query: 110 SVGR---------------------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G D L + + R + + Sbjct: 146 INGELRPGIVHRIDKDTTGLIMAAKNDKAHASLAAQLKEHSVNRRYLALVHGNISHDQGT 205 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + + + + T+ + G + + + L G+ +I+ ++ Sbjct: 206 IDAPIGRDAQDRKLYTVTDRNSKHAVTHFTVVERFGDYSLLELKLETGRTHQIRVHMKYI 265 Query: 209 NWKVN 213 + Sbjct: 266 GHPLV 270 >gi|323702053|ref|ZP_08113721.1| pseudouridine synthase, RluA family [Desulfotomaculum nigrificans DSM 574] gi|323532935|gb|EGB22806.1| pseudouridine synthase, RluA family [Desulfotomaculum nigrificans DSM 574] Length = 307 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 34/246 (13%), Positives = 68/246 (27%), Gaps = 42/246 (17%) Query: 6 IVQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + QEN R+ ++ G SR ++R+I + +V VN L +A + D + V Sbjct: 8 VDQENAKS-RLDVFLS--GQCHDLSRSYIQRLIEEGQVTVND-LPTKANYKLRVGDRVAV 63 Query: 63 D----------GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + P+ + + + +V + V L Sbjct: 64 EVPPAEELQVVPEPIPLDIYYEDNDVIVVNKPRGMVVHPAEGNTSGTLVNALLYHCRDLS 123 Query: 109 ISVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 G L L D + R +R Sbjct: 124 GINGVLRPGIVHRLDKDTSGLIMVAKNDLAHNSLAQQLKDRTVTRRYRALVHNNIREEVG 183 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + +D + + +V + + + G V L G+ +I+ + Sbjct: 184 TVNAPIGRDPRDRQRMAVVERNSKPAVTHYRVLERFGQYTLVECRLETGRTHQIRVHMAY 243 Query: 208 FNWKVN 213 V Sbjct: 244 IGHPVV 249 >gi|302389579|ref|YP_003825400.1| ribosomal large subunit pseudouridine synthase D [Thermosediminibacter oceani DSM 16646] gi|302200207|gb|ADL07777.1| ribosomal large subunit pseudouridine synthase D [Thermosediminibacter oceani DSM 16646] Length = 307 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 69/248 (27%), Gaps = 41/248 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K +VQE+ +R+ ++ G+ SR +++ I + VKVN +++ + D I Sbjct: 6 KILVQEDDAKKRLDVFLS--GVINDLSRSYIQKGIEEGWVKVNERIVK-PHYKLKKGDVI 62 Query: 61 EVD---GVPLRKAERTR-----------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 D PL + + +V + V L Sbjct: 63 VADIPSPKPLSLEPENIPLDIIHEDRDIIVVNKPRGMVVYPAPGNYSGTLVNALLYHTKD 122 Query: 107 RVISVGRLDI-------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 G + +++ +A + V + + Sbjct: 123 LSGINGVMRPGIVHRLDKDTSGVIVVAKNDMAHRELAMQFKNKLVKKTYLAVVWGNIPED 182 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSN--------------AWVTVGLREGKNREIKKVF 205 I +++ + + G ++ V + G+ +I+ Sbjct: 183 RATIEAPIGRHPAKRVEMAVTAKNGKEAITHFKVLERFEDFTFIEVNIETGRTHQIRVHM 242 Query: 206 EFFNWKVN 213 F V Sbjct: 243 SFIGHPVV 250 >gi|311748762|ref|ZP_07722547.1| ribosomal large subunit pseudouridine synthase D [Algoriphagus sp. PR1] gi|126577297|gb|EAZ81545.1| ribosomal large subunit pseudouridine synthase D [Algoriphagus sp. PR1] Length = 344 Score = 65.2 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 65/245 (26%), Gaps = 41/245 (16%) Query: 7 VQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R+ K ++ A+R +V++ I V VNG +A + D I+V Sbjct: 24 IDKGQKNIRIDKFLSEKLANATRNKVQQAIDAGSVLVNGKP-TKANYKIKPMDDIKVMME 82 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + ++ L + +V + + Sbjct: 83 KPPRDTEVYPEKIELDIIYEDKYLLIVNKPAGMVVHPAHGNWSGTLANALVYHFQDLPEM 142 Query: 111 ---------VGRLDINTEGLLLLTNDGGLARVLELPSTQW---------------LRVYR 146 V R+D +T GLL++ L Sbjct: 143 KGNEGRPGLVHRIDKDTSGLLVIAKQEEAMTHLASQFFHHTIDRTYIALVWGEPKEDEGT 202 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + ++ + + + + + + L G+ +I+ + Sbjct: 203 IEGNVGRSAKNRKVMDVFPDGEQGKHAITHWKVLKRLRYVSLIQCNLETGRTHQIRAHMK 262 Query: 207 FFNWK 211 + Sbjct: 263 YIGHP 267 >gi|34581099|ref|ZP_00142579.1| sfhB protein homolog [Rickettsia sibirica 246] gi|28262484|gb|EAA25988.1| sfhB protein homolog [Rickettsia sibirica 246] Length = 313 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 66/239 (27%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ KV++ SR ++++ I +V VN +++ V V D I Sbjct: 12 GIRLDKVLSSLLENVSRNQIQKAIKDSQVLVNDVIISDPDVLVKENDIILFSFKEPEELK 71 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVG 112 + + + + V + + V L + G Sbjct: 72 IAAANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPG 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + L + L + Q + +R + + +N L+ I Sbjct: 132 IVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKVLVWGVINPLEGIIKNNIGRS 191 Query: 173 GDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + KGS + V L G+ +I+ V Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVV 250 >gi|326562905|gb|EGE13192.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis 46P47B1] gi|326563654|gb|EGE13906.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis 103P14B1] gi|326573262|gb|EGE23230.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis 101P30B1] Length = 355 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 28/242 (11%), Positives = 69/242 (28%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V R+ K+ A G SR ++ I + ++ VNG +++ V D + ++ Sbjct: 48 VSTEQIGIRLDKLCADIFGGFSRANLKNFIDEGQLTVNGKVVK-PKYAVKVGDILTLEAV 106 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + + V L + Sbjct: 107 HESHSEDLPENIDIDIIYEDEAVIIINKPAGMVVHPGAGNRTGTLVNALLYHFPKQAHLP 166 Query: 112 -----GRLDINTEGLLLLT---------------NDGGLARVLELPSTQWLRVYRVRFHG 151 R+D +T GLL++ + + Sbjct: 167 RAGLVHRIDKDTTGLLVIARTKSAQLSLIDQLKDKSVYRHYQCIALGAVHEVLRHAQIDA 226 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + K + G V + + + L+ G+ +I+ + Sbjct: 227 PIGRHSTHRTKMAVKQTGKPALTHIVNAKYLHERYSLLDIHLKTGRTHQIRVHLSYVGHP 286 Query: 212 VN 213 + Sbjct: 287 LV 288 >gi|123441245|ref|YP_001005232.1| 23S rRNA pseudouridine synthase D [Yersinia enterocolitica subsp. enterocolitica 8081] gi|332160281|ref|YP_004296858.1| 23S rRNA pseudouridine synthase D [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|122088206|emb|CAL10994.1| ribosomal large subunit pseudouridine synthase D [Yersinia enterocolitica subsp. enterocolitica 8081] gi|318604491|emb|CBY25989.1| ribosomal large subunit pseudouridine synthase D [Yersinia enterocolitica subsp. palearctica Y11] gi|325664511|gb|ADZ41155.1| 23S rRNA pseudouridine synthase D [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330863600|emb|CBX73710.1| ribosomal large subunit pseudouridine synthase D [Yersinia enterocolitica W22703] Length = 325 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + +V VNG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILEDKVTVNGKTINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLYYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|303238885|ref|ZP_07325416.1| pseudouridine synthase, RluA family [Acetivibrio cellulolyticus CD2] gi|302593518|gb|EFL63235.1| pseudouridine synthase, RluA family [Acetivibrio cellulolyticus CD2] Length = 308 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 35/250 (14%), Positives = 77/250 (30%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M++ +V E R+ I+ R SR +++++ V VNG L++ + S+D Sbjct: 5 MEEIKLVSEES-GVRIDAWISSRLKEYSRSYIQKLLNDGHVLVNGSLVKS-NYKIKSSDE 62 Query: 60 IEVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V +P+ + L + +V + + V + Sbjct: 63 ITVQIPEPEVLDIVPENIEIPVLYEDEHVLVVNKPKGMVVHPAAGNYSGTLVNALMDYCG 122 Query: 106 SRVISVG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 + S+ + + E L L D + RV +R Sbjct: 123 DSLSSINGVIRPGIVHRIDKDTSGVLVVAKSNEAHEKLSLKLKDHDINRVYVALVHGIIR 182 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + ++ K + + + V V L G+ +I+ Sbjct: 183 EESGKIDAPIGRHPVDRKKMAVNTNNGRRAVTYFKVLERFKDATLVEVKLETGRTHQIRV 242 Query: 204 VFEFFNWKVN 213 + + + Sbjct: 243 HMSYIGYPII 252 >gi|238791395|ref|ZP_04635034.1| Ribosomal large subunit pseudouridine synthase D [Yersinia intermedia ATCC 29909] gi|238729528|gb|EEQ21043.1| Ribosomal large subunit pseudouridine synthase D [Yersinia intermedia ATCC 29909] Length = 325 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV V+G + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILEDRVTVDGKTINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQDIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTILNALLYYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|157369129|ref|YP_001477118.1| 23S rRNA pseudouridine synthase D [Serratia proteamaculans 568] gi|157320893|gb|ABV39990.1| pseudouridine synthase, RluA family [Serratia proteamaculans 568] Length = 325 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 26/239 (10%), Positives = 62/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV+VNG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKDWILDNRVQVNGKTINKPKEKVLGGETVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 QIEEDARWEPQDIALNIVYEDSDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPEIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + A + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQARDITREYEAVAIGTMTAGGTVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|307709119|ref|ZP_07645578.1| pseudouridine synthase, RluA family protein [Streptococcus mitis SK564] gi|307620065|gb|EFN99182.1| pseudouridine synthase, RluA family protein [Streptococcus mitis SK564] Length = 295 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 64/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ K ++ SR I +V VN + ++A V D + Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNDQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 63 DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + +PL + + +V + + V + I G L Sbjct: 70 EDIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|223934286|ref|ZP_03626210.1| pseudouridine synthase, RluA family [Streptococcus suis 89/1591] gi|253751575|ref|YP_003024716.1| RNA pseudouridylate synthase [Streptococcus suis SC84] gi|253753476|ref|YP_003026617.1| RNA pseudouridylate synthase [Streptococcus suis P1/7] gi|253755698|ref|YP_003028838.1| RNA pseudouridylate synthase [Streptococcus suis BM407] gi|330832720|ref|YP_004401545.1| RluA family pseudouridine synthase [Streptococcus suis ST3] gi|31364860|gb|AAP49462.1| YlyB [Streptococcus suis] gi|223897042|gb|EEF63479.1| pseudouridine synthase, RluA family [Streptococcus suis 89/1591] gi|251815864|emb|CAZ51475.1| putative RNA pseudouridylate synthase [Streptococcus suis SC84] gi|251818162|emb|CAZ55959.1| putative RNA pseudouridylate synthase [Streptococcus suis BM407] gi|251819722|emb|CAR45564.1| putative RNA pseudouridylate synthase [Streptococcus suis P1/7] gi|292558226|gb|ADE31227.1| YlyB [Streptococcus suis GZ1] gi|319758010|gb|ADV69952.1| pseudouridine synthase, RluA family [Streptococcus suis JS14] gi|329306943|gb|AEB81359.1| pseudouridine synthase, RluA family [Streptococcus suis ST3] Length = 297 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 33/234 (14%), Positives = 64/234 (27%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ K ++ SR I +V VNG ++A +V D + Sbjct: 9 GIRLDKALSDLTDLSRSVANEQIKAGQVLVNGQP-KKAKYSVQVGDVLTYQIPEVEEIDY 67 Query: 63 --DGVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + +PL + + +V + + V L + G L Sbjct: 68 VAEDIPLEIVFQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALLYHVKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G L + + LR Y HG + D+ + + Sbjct: 128 VHRIDKDTSGLLMIAKNDDAHTKLAAELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 169 GICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G V + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKEAVTRFQVLERFGDYTLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|116511823|ref|YP_809039.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. cremoris SK11] gi|116107477|gb|ABJ72617.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. cremoris SK11] Length = 301 Score = 65.2 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 33/246 (13%), Positives = 63/246 (25%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M I +EN R+ K +A SR + +I +V VN ++A V + D I Sbjct: 1 MPIIKITEENKDL-RLDKALANQTEYSRSLLTELIKNDKVFVNNE-AKKAKYKVKTGDRI 58 Query: 61 EVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 E + + + + + +V + + V + I Sbjct: 59 EFEIPQAEVLDVAAEDLPLEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHIKD 118 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPST--------------------QWLRVYR 146 G + + G L + Sbjct: 119 LSSINGVIRPGIVHRIDKDTSGLLMIAKNDKAHESLAAQLKDKTSKRRYLAIVHGELAND 178 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 L KK V+ G + + + + L G+ +I+ Sbjct: 179 KGTIEAPIGRNLKDRKKQAVVSGGKPAVTHFEVLERFVGYTLIALRLETGRTHQIRVHMH 238 Query: 207 FFNWKV 212 + V Sbjct: 239 YIGHPV 244 >gi|251782204|ref|YP_002996506.1| ribosomal large subunit pseudouridine synthase D [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242390833|dbj|BAH81292.1| ribosomal large subunit pseudouridine synthase D [Streptococcus dysgalactiae subsp. equisimilis GGS_124] Length = 297 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 42/240 (17%), Positives = 79/240 (32%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VNG ++A V + D I+ + Sbjct: 3 INVLTSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVIQFELPK 61 Query: 64 GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 L E L + +KP G+V S T+ + L + S+ Sbjct: 62 EEVLEYQAQDIPLNIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSING 121 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+D +T GLL++ + L + + + + + Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDEAHQALAAELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 165 IVIQGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + Q T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|89891672|ref|ZP_01203175.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria bacterium BBFL7] gi|89516007|gb|EAS18671.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria bacterium BBFL7] Length = 349 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 32/244 (13%), Positives = 69/244 (28%), Gaps = 41/244 (16%) Query: 8 QENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + P RV K + A+R ++++ I V+VN +++ V + DHI V Sbjct: 27 SDGQEPLRVDKYLMNFIENATRSKIQQSIKDGAVRVNDEVVKS-NYKVKAGDHIRVLFKH 85 Query: 67 ---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------ 105 + + T + + +V + + + Sbjct: 86 PPHENLLVPEDIPLDIVYEDDTLVVVNKPAGMVVHPGHGNYSGTLINALIHHFDNLPNNS 145 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRVRFHG 151 +R V R+D +T GLL++ G Sbjct: 146 SNRPGLVHRIDKDTSGLLVVAKTEHAMSYLSAQFAAKTSEREYVAIVWGNFDEQSGTVEG 205 Query: 152 QVDQDKLNLLKKGIVIQGI--CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + N L+ + ++ G ++ L G+ +I+ + Sbjct: 206 NIGRHPKNRLQNYVWSGEEAFKGKPAVTHWSVIEGLGYVTMISCKLETGRTHQIRVHMKH 265 Query: 208 FNWK 211 Sbjct: 266 IGHT 269 >gi|323127056|gb|ADX24353.1| ribosomal large subunit pseudouridine synthase D [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 297 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 42/240 (17%), Positives = 79/240 (32%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VNG ++A V + D I+ + Sbjct: 3 INVLTSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVIQFELPK 61 Query: 64 GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 L E L + +KP G+V S T+ + L + S+ Sbjct: 62 EEVLEYQAQDIPLNIIYEDEALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSING 121 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+D +T GLL++ + L + + + + + Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDEAHQALAAELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 165 IVIQGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + Q T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|284044971|ref|YP_003395311.1| pseudouridine synthase [Conexibacter woesei DSM 14684] gi|283949192|gb|ADB51936.1| pseudouridine synthase, RluA family [Conexibacter woesei DSM 14684] Length = 299 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 35/233 (15%), Positives = 68/233 (29%), Gaps = 35/233 (15%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV-NVMSTDHIEVDGVPLR--- 68 +R+ +A+ + SR +R+I V V+G R V + + +EV P+ Sbjct: 15 GERLDLFLAQ-PLGSRARAQRLIDAGLVTVDG--AARPKRHKVSAGERVEVTPEPVVDVE 71 Query: 69 ---------KAERTRLWLYHKPIGLVTTHSDPDGRST-------------------VFDN 100 E L + KP G+V + + T + Sbjct: 72 PSGDAPFAVAWEDEHLLIVDKPAGVVVHPAPGNRTGTLSQALAGRAAGGEDPSRAGIVHR 131 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 L S ++ V + + L + + R + +D+ Sbjct: 132 LDRDTSGLLIVAKTEEAHRELKRMIEARDVTREYVALVEGTPPARSGTIDAPIGRDRRVR 191 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + L+ +A + V L G+ +I+ E V Sbjct: 192 TRMSTETDDPRDARTHFRLERALPDSALLRVTLETGRTHQIRVHLEAIGHPVV 244 >gi|238760705|ref|ZP_04621826.1| Ribosomal large subunit pseudouridine synthase D [Yersinia aldovae ATCC 35236] gi|238701078|gb|EEP93674.1| Ribosomal large subunit pseudouridine synthase D [Yersinia aldovae ATCC 35236] Length = 325 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + +V VNG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILEDKVTVNGKTINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQEIPLDIVYEDSDILVINKPRGLVVHPGAGNPDGTVLNALLYYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|15674865|ref|NP_269039.1| hypothetical protein SPy_0827 [Streptococcus pyogenes M1 GAS] gi|50914002|ref|YP_059974.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS10394] gi|71910451|ref|YP_282001.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS5005] gi|94988324|ref|YP_596425.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS9429] gi|306827571|ref|ZP_07460852.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes ATCC 10782] gi|13622001|gb|AAK33760.1| conserved hypothetical protein [Streptococcus pyogenes M1 GAS] gi|50903076|gb|AAT86791.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS10394] gi|71853233|gb|AAZ51256.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS5005] gi|94541832|gb|ABF31881.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS9429] gi|304430223|gb|EFM33251.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes ATCC 10782] Length = 296 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 42/240 (17%), Positives = 78/240 (32%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VNG ++A V + D I + Sbjct: 3 INVITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFELPK 61 Query: 64 GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 L E L + +KP G+V S T+ + L + S+ Sbjct: 62 EEVLEYQAQNIPLDIIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSING 121 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+D +T GLL++ + L + + + + + Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDAAHQALAEELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 165 IVIQGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + Q T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|19745906|ref|NP_607042.1| hypothetical protein spyM18_0889 [Streptococcus pyogenes MGAS8232] gi|19748060|gb|AAL97541.1| conserved hypothetical protein [Streptococcus pyogenes MGAS8232] Length = 296 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 61/240 (25%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VNG ++A V + D I + Sbjct: 3 INVITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFELPK 61 Query: 64 GVPLRKAERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 L + +V + + V + I G Sbjct: 62 EEVLEYQAQNIPLDIIYEDDALAIINKPQGMVVHPSAGHPSETMVNALMYHIKDLSSING 121 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------------- 155 + + G L + Q L Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDAAHQALTEELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK V + T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|289547904|ref|YP_003472892.1| pseudouridine synthase [Thermocrinis albus DSM 14484] gi|289181521|gb|ADC88765.1| pseudouridine synthase, RluA family [Thermocrinis albus DSM 14484] Length = 324 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 35/250 (14%), Positives = 76/250 (30%), Gaps = 40/250 (16%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V+E+ +R+ + +A A SR ++ ++ V V+G ++ + + V + + + Sbjct: 14 VEEHQAGKRLDQFLAEAYPDFSRSYIKELVEGGYVLVDGQVVYKPSRKVKGGEVVVLCVP 73 Query: 63 ---------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------- 104 + +PL + + +V + V L Sbjct: 74 KVEPLSLPAEDIPLEILYEDDDLAVVVKPCGLVVHPSPGYTSGTLVNALLFRWRDLPTVG 133 Query: 105 -FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR--------------- 148 + R V RLD NT G++++ R L + + R Sbjct: 134 EWYRPGIVHRLDRNTMGVMVVAKRELAHRRLAEQFEKRKVLKVYRALVKGLVERDEGTLS 193 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 D + +V + S + + + + G+ +I+ Sbjct: 194 MPLARDPRHRKRFTVSEKGRDAITHY-KVLKRYRSLSVSLLEIRIYTGRTHQIRVHMAGI 252 Query: 209 NWKVNRLIRI 218 V RI Sbjct: 253 GHPVLG-DRI 261 >gi|222110296|ref|YP_002552560.1| RluA family pseudouridine synthase [Acidovorax ebreus TPSY] gi|221729740|gb|ACM32560.1| pseudouridine synthase, RluA family [Acidovorax ebreus TPSY] Length = 334 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 34/246 (13%), Positives = 66/246 (26%), Gaps = 38/246 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V QR+ K +A SR +++++ Q V++NG +++ A V + D I V+ Sbjct: 31 VVGAEQHAQRLDKALAELVPEFSRSYLQQLLLQGCVRLNGREVQKPASRVKAGDRIAVEM 90 Query: 65 VP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 P + + L ++ +V + + L + Sbjct: 91 RPTQQSQAFRPEQWPLDVVYEDEHILVIHKPAGLVVHPAPGNWSGTLLNALLGRDAQAMQ 150 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + G Sbjct: 151 VPRAGIVHRLDKDTSGLMVVARSRSAMDALVRMIAAREVSRQYVALGWGGWTGAAHRSVH 210 Query: 165 IVI-----------------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 I L V L G+ +I+ Sbjct: 211 APIGRDPRNRLRMAVVDLAQHPGKEARTDFDLIDANEEVCLVRCTLHTGRTHQIRVHMAS 270 Query: 208 FNWKVN 213 + Sbjct: 271 IRHPLV 276 >gi|163782801|ref|ZP_02177797.1| hypothetical protein HG1285_15736 [Hydrogenivirga sp. 128-5-R1-1] gi|159881922|gb|EDP75430.1| hypothetical protein HG1285_15736 [Hydrogenivirga sp. 128-5-R1-1] Length = 322 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 33/246 (13%), Positives = 74/246 (30%), Gaps = 39/246 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E +R+ +A+A SR ++R+I + V G + + + V D + + Sbjct: 11 TVSEEQAGERLDTFLAKAYPELSRSYIKRLIEEGFALVEGKV-RKPSYRVKEGDRVTLSV 69 Query: 63 ----------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 + +P+ +R + + +V + V L I Sbjct: 70 PEPEPLEVKPEDIPIEVVYEDRDVVVIVKPCGLVVHPSPGYTSGTLVNALLYHIKDLSSI 129 Query: 107 ----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 R V RLD T GL+++ + R L R + + + + Sbjct: 130 GGVERPGIVHRLDKETAGLMVVAKNDTSHRNLVEQFASRRTEKLYRALVKGTVKEEHGIL 189 Query: 163 KGIVIQGICY-----------GDMQVTLDTQKGSN----AWVTVGLREGKNREIKKVFEF 207 + + + + + + + V + G+ +I+ Sbjct: 190 ELPIGRHPFHRKKFSTSSPRSKPAKSEFWVLERFPGLELTLLKVKIYTGRTHQIRVHLSS 249 Query: 208 FNWKVN 213 + Sbjct: 250 IGHPIV 255 >gi|224541418|ref|ZP_03681957.1| hypothetical protein CATMIT_00580 [Catenibacterium mitsuokai DSM 15897] gi|224525664|gb|EEF94769.1| hypothetical protein CATMIT_00580 [Catenibacterium mitsuokai DSM 15897] Length = 306 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 34/249 (13%), Positives = 70/249 (28%), Gaps = 38/249 (15%) Query: 1 MKDKNIVQE-NFTPQRVSKV-IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ ++I E R+ KV + SR E+++ I +V VN + E+A V D Sbjct: 1 MEIQSITPELEEKGLRLDKVILNHMPDRSRTEIQKWIKAGQVIVNDNV-EKANYKVEEED 59 Query: 59 HIEV---DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I+V D + + + + +V + + V L Sbjct: 60 VIQVTLPDPQSTEIRPEDIPLDIIYEDEDVIVVNKPTGMIVHPSAGIYSGTLVNALLYHC 119 Query: 105 FSRVISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 G + D L + + R + Sbjct: 120 HDLSAINGITRPGIVHRIDKETSGLLMVAKNDNAHRSLSKQLEEHSVVRRYVALVHGVIN 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 R + +D + K + + + + + L G+ +I+ Sbjct: 180 HNVGRIEAPIGRDSKDRKKMAVTSKNAKDAITNFKVLERYDDMTLIECRLETGRTHQIRV 239 Query: 204 VFEFFNWKV 212 ++ V Sbjct: 240 HMQYIGHPV 248 >gi|83592447|ref|YP_426199.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum rubrum ATCC 11170] gi|83575361|gb|ABC21912.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum rubrum ATCC 11170] Length = 343 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 28/248 (11%), Positives = 66/248 (26%), Gaps = 38/248 (15%) Query: 4 KNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + V QR+ K +A SR ++++I ++RV VNG + + V + V Sbjct: 26 ERAVDAEAAGQRLDKWLATVIPTLSRARLQQLIGEKRVSVNGQTIGEGSRRVKPGQTVRV 85 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + P + + + + +V + V L + Sbjct: 86 EEPPPIAATPQPEAIALTVVYEDDDLIVIDKAAGMVVHPGPGNPDHTLVNALLAHCGPSL 145 Query: 109 ISVGRLDIN--------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 +G L++ LA + R + + Sbjct: 146 SGIGGERRPGIVHRLDKDTSGLMIAAKTDLAHHGLAEQFACHSLTREYLCLVWGRPRPAA 205 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSN---------------AWVTVGLREGKNREIKKVF 205 + ++ + ++ G + V L G+ +++ Sbjct: 206 GSIDAPLGRHPTQRKKMAVVSRGGKRALTHYRVVGDVEGIASIVKCTLSTGRTHQVRVHM 265 Query: 206 EFFNWKVN 213 + Sbjct: 266 AHIGHPLL 273 >gi|312622398|ref|YP_004024011.1| pseudouridine synthase, rlua family [Caldicellulosiruptor kronotskyensis 2002] gi|312202865|gb|ADQ46192.1| pseudouridine synthase, RluA family [Caldicellulosiruptor kronotskyensis 2002] Length = 299 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 35/236 (14%), Positives = 75/236 (31%), Gaps = 39/236 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ + ++ A +R V+++I + V VN I + + A V S D I+V Sbjct: 9 RLDRYLSEALSKTRSFVQKIIEEGNVWVNQIQVLKPAYKVKSGDIIKVVIPEPKQLSLVA 68 Query: 63 ---DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG------- 112 D L + E + +V + + V L R+ S+ Sbjct: 69 QEIDIEVLYEDEHLAVI-NKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSINGVIRPGI 127 Query: 113 ---------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + D L + R+ L+ + + + Sbjct: 128 VHRLDKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIYYAICEGVLKEDSGVINAPIGRHP 187 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +N LK +V G + + ++ + L+ G+ +I+ + + + Sbjct: 188 VNRLKMAVVPNGKEA-VTYFEVLERFDKYTFIKLRLKTGRTHQIRVHISYIGYPLL 242 >gi|160880488|ref|YP_001559456.1| RluA family pseudouridine synthase [Clostridium phytofermentans ISDg] gi|160429154|gb|ABX42717.1| pseudouridine synthase, RluA family [Clostridium phytofermentans ISDg] Length = 313 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 30/260 (11%), Positives = 82/260 (31%), Gaps = 49/260 (18%) Query: 1 MKDKNI--VQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 M++ + + +R+ +A GI SR ++++I VK+NG +++ A + Sbjct: 1 MENIKTCCIDSEYEDERIDSFLAEFEEGI-SRSYIQKLIKDSLVKINGNVIK-ANYRLKE 58 Query: 57 TDHIEVD-GVPLR-------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 D + + P+ + + + +V + + V L Sbjct: 59 GDILTYEVPQPVSLEIAAENIPLDILYEDEDIIVINKPKGLVVHPAAGHYSGTLVNALLY 118 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 R+ + + + N G+ V + + +++ H + + + Sbjct: 119 HCKDRLSGINGVMRPGIVHRIDMNTTGVLVVCKNDKSHQSIAEQLKVHSITRKYEALVYN 178 Query: 163 KGIVIQGICYGDM--------QVTLDTQKGSNAW---------------------VTVGL 193 +G + ++ ++ + G NA + L Sbjct: 179 SFKQTEGTVDAPIGRHPVDRKKMAINHKNGKNAVTNYRVLENFNLGYVHNQGYAHIECTL 238 Query: 194 REGKNREIKKVFEFFNWKVN 213 + G+ +I+ + + Sbjct: 239 KTGRTHQIRVHMASLHHPLL 258 >gi|328907882|gb|EGG27645.1| ribosomal RNA large subunit methyltransferase J [Propionibacterium sp. P08] Length = 245 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 1/64 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ + + AG+A SR R++ + RV VNGI++ + A+ V ++D++ D Sbjct: 1 MRLDQALVEAGLARSRTLATRLVREGRVTVNGIVVTKPAMKVSASDNLVADEEVWVSRAA 60 Query: 73 TRLW 76 +L Sbjct: 61 YKLL 64 >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 = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 47/249 (18%), Positives = 87/249 (34%), Gaps = 43/249 (17%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + I N +R+ K +A+ R ++E++I Q V++NG + ++A + S D +EV Sbjct: 2 EKITFTNREKERLDKALAKKLQKPRNQIEQLIKQGYVRINGKIEKKAGSKLKSGDLVEVT 61 Query: 63 --------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-- 106 D + E + + +KP GLV + T+ D L + Sbjct: 62 IPEPKVSQPKDVHFDVERI--YEDEDILVLNKPAGLVVHPAPSVKEPTLVDWLKANDISL 119 Query: 107 -------RVISVGRLDINTEGLLLLTNDGGLAR------------VLELPSTQWLRVYRV 147 R V RLD T GL+++ + + L + + Sbjct: 120 STLSGEERHGIVHRLDKETSGLIVIAKNNETHQALSKQLQDKSMGRYYLAIVEPPLKEDL 179 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKV 204 + ++ N LK G+V G + N + L G+ +I+ Sbjct: 180 IIEKPIARNPKNRLKMGVVEGGRYAKSA--FVKLTTSKNNKYELIGAKLFTGRTHQIRVH 237 Query: 205 FEFFNWKVN 213 N + Sbjct: 238 LASINRHIL 246 >gi|293377440|ref|ZP_06623642.1| pseudouridine synthase, RluA family [Enterococcus faecium PC4.1] gi|292643958|gb|EFF62066.1| pseudouridine synthase, RluA family [Enterococcus faecium PC4.1] Length = 305 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 29/235 (12%), Positives = 67/235 (28%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV+ SR +++ + ++ V VNG ++ A V D I V Sbjct: 11 ESGRIDKVLTNLFSNYSRSQIQLWLKERAVSVNGEPVK-ANYKVKQGDEITVLIPEPETL 69 Query: 63 ----DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +P + + + +V + + V + + G + Sbjct: 70 DVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHVKDLSTINGVIRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNL---- 160 + G L + + V V ++ +N Sbjct: 130 GIVHRIDKDTSGLLMVAKNDQAHESLAKQLKDKTSLRKYVALVHGEIPHEKGTINAPIGR 189 Query: 161 ----LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K + + T+ + V + L G+ +I+ ++ + Sbjct: 190 SKENRKMQAIREDGKPAVTHFTVLERFEGFTLVELKLETGRTHQIRVHMKYIGYP 244 >gi|196228386|ref|ZP_03127253.1| pseudouridine synthase, RluA family [Chthoniobacter flavus Ellin428] gi|196227789|gb|EDY22292.1| pseudouridine synthase, RluA family [Chthoniobacter flavus Ellin428] Length = 302 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 32/251 (12%), Positives = 71/251 (28%), Gaps = 39/251 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 MK V R+ + +A A SR ++ +I + V +NG + + A+ + + D Sbjct: 1 MKTSEFRVDAAAAGPRLDQFLASAAAGLSRARIQDLIKEGHVTLNGGVAK-ASARLRAGD 59 Query: 59 HIEVDGVPLRKAERTRL--------------WLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + + P E + +V + + V L Sbjct: 60 AVTLHEPPPVPTETVAEEIALDVLFEDDDLIVINKPAGLVVHPAAGNWSGTVVNALLHHC 119 Query: 105 F--------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 R V RLD +T G L++ + + L Sbjct: 120 QTLSGIGGEQRPGIVHRLDKDTSGCLVVAKNDAAHQSLAKQFAGREVTKIYLALAAGKWA 179 Query: 157 KLNLL------KKGIVIQGICYGDMQVTLDTQKGSNAWVTV--------GLREGKNREIK 202 + + + + + + + + G + + L G+ +I+ Sbjct: 180 RKSGVIEAPIGRHPVQRKKMTVLPADKGRAAKTGYRVLLELPVGTLVECTLHTGRTHQIR 239 Query: 203 KVFEFFNWKVN 213 + + Sbjct: 240 VHLKHLGHPIL 250 >gi|21910093|ref|NP_664361.1| putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes MGAS315] gi|28896209|ref|NP_802559.1| hypothetical protein SPs1297 [Streptococcus pyogenes SSI-1] gi|71903284|ref|YP_280087.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS6180] gi|94994123|ref|YP_602221.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS10750] gi|21904284|gb|AAM79164.1| putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes MGAS315] gi|28811460|dbj|BAC64392.1| conserved hypothetical protein [Streptococcus pyogenes SSI-1] gi|71802379|gb|AAX71732.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS6180] gi|94547631|gb|ABF37677.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS10750] Length = 296 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 42/240 (17%), Positives = 78/240 (32%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VNG ++A V + D I + Sbjct: 3 INVITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFELPK 61 Query: 64 GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 L E L + +KP G+V S T+ + L + S+ Sbjct: 62 EEVLEYQAQNIPLDIIYEDDTLAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSING 121 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+D +T GLL++ + L + + + + + Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDAAHQALAEELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 165 IVIQGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + Q T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|206900390|ref|YP_002251511.1| pseudouridylate synthase, 23S RNA-specific [Dictyoglomus thermophilum H-6-12] gi|206739493|gb|ACI18551.1| pseudouridylate synthase, 23S RNA-specific [Dictyoglomus thermophilum H-6-12] Length = 303 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 27/235 (11%), Positives = 63/235 (26%), Gaps = 35/235 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 +R+ K +++ SR +++ +I + +KVN ++ + V D IEV Sbjct: 14 GERIDKYLSQKISLSRSQIQDLIDKGLIKVNEKEVKS-SYKVKVGDKIEVIVPPPEETEI 72 Query: 63 --DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +P+ + + + +V + V L I G + Sbjct: 73 KPQDIPIEIVYEDDDIVIINKPKGMVVHPAHGHYNDTLVNALLYRIKDLSGIGGEIRPGI 132 Query: 119 EGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQDKLNLLKKGIV 166 L G L S + ++ ++ Sbjct: 133 VHRLDKDTTGLLIIAKNDVSHQRLSEQLKNRILKRTYWAICEGEIPWEEKRVEAPLGRHP 192 Query: 167 IQ--------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + ++ L G+ +I+ + + Sbjct: 193 IDRKRMAIVPYGKLAITNFKVLERFKGYTLISADLETGRTHQIRVHISHLGFPIL 247 >gi|307127518|ref|YP_003879549.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae 670-6B] gi|306484580|gb|ADM91449.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae 670-6B] Length = 295 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEASIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHSV 241 >gi|145297342|ref|YP_001140183.1| ribosomal large subunit pseudouridine synthase D [Aeromonas salmonicida subsp. salmonicida A449] gi|142850114|gb|ABO88435.1| ribosomal large subunit pseudouridine synthase D [Aeromonas salmonicida subsp. salmonicida A449] Length = 326 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 24/237 (10%), Positives = 61/237 (25%), Gaps = 31/237 (13%) Query: 8 QENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 Q++ QR+ + +A SR ++ I Q RV ++G + V++ + VD Sbjct: 12 QDHQFGQRLDQALAELFPDYSRTRIKEWILQDRVTLDGQVANTPREKVLAGQQVHVDVEL 71 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + + L + +V + + + L Sbjct: 72 EDDTRWDAQDIALNIVYEDEHILVIDKPAGLVVHPGAGTPDGTILNALLHRYPDIAEVPR 131 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD----- 156 R+ + + A + ++ + D Sbjct: 132 AGIVHRLDKDTTGLMVVAKTVPAQTHLVEALQARQITREYEAIAIGHMTAGGTVDAPIGR 191 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V+ + + + + + L G+ +I+ + Sbjct: 192 HPTQRTHMAVVPNGRPSVTHYRVHEKFRGHTRLRLRLETGRTHQIRVHMSHIKHPLV 248 >gi|73749059|ref|YP_308298.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides sp. CBDB1] gi|73660775|emb|CAI83382.1| ribosomal large subunit pseudouridine synthase,RluD subfamily [Dehalococcoides sp. CBDB1] Length = 300 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 34/248 (13%), Positives = 67/248 (27%), Gaps = 39/248 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 MK +V E +R+ K I + +G+ SR ++ +++ + VN + ++ + + D Sbjct: 1 MKTFKLVAETA-GERLDKYITQKESGL-SRSFIQELVSSGHILVNNQSAK-PSLRLKTGD 57 Query: 59 HIEVDGVPLRKAERTR--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I ++ P +E L + P V + V L Sbjct: 58 TITIEIPPETPSELKAEDIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLVNGVLALE 117 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 L L G L + L + Sbjct: 118 PEMEDFDDPLRPGIVHRLDKDTSGLLLVAKNRQALANLSAQFKERTIRKYYLALVKGELR 177 Query: 156 -----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 +K V+ + + + + V L G+ +I+ Sbjct: 178 PAEGFIEAPLGRDPQNRQKIAVVSDGRHARTGYKVLRYIQGYSLLEVKLETGRTHQIRVH 237 Query: 205 FEFFNWKV 212 F V Sbjct: 238 FAAIGHPV 245 >gi|329297086|ref|ZP_08254422.1| RluA family pseudouridine synthase [Plautia stali symbiont] Length = 326 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V + QR+ + +A SR ++ I ++RV VNG ++++ V+ + + +D Sbjct: 10 TVSKAQLGQRLDQTLAELFPDYSRSRIKEWILERRVSVNGTIIDKPKEKVLGGERVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEQRWEAQNIPLDIVYEDDHILVINKPRDLVVHPGAGNPDGTVLNVLLYHYPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVETLQLREITREYEAVAIGTMTAGGTVNEPM 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + Sbjct: 190 ARHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHIKHPLV 248 >gi|218667498|ref|YP_002424927.1| ribosomal large subunit pseudouridine synthase D [Acidithiobacillus ferrooxidans ATCC 23270] gi|218519711|gb|ACK80297.1| ribosomal large subunit pseudouridine synthase D [Acidithiobacillus ferrooxidans ATCC 23270] Length = 319 Score = 64.8 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 75/240 (31%), Gaps = 34/240 (14%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ E +R+ V+++ SR ++ ++ R+ V+G E+ + V + + VD Sbjct: 11 ILPEEQAGERLDTVLSQLLPETSRSRIQALLRDGRILVDG-TPEKPSARVRGGEQVMVDW 69 Query: 65 VPLRK--------------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI- 109 + + L L+ L + + V L + Sbjct: 70 PQIEPSNWLAEGLPLHILHEDADILVLHKPAGQLTHPGAGHADGTLVNGVLAHVPENAYL 129 Query: 110 ----SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQV 153 V RLD +T GLL++ + L R + Sbjct: 130 PRGGIVHRLDKDTTGLLVVAKTEMARQSLIDQLGDHTMHREYLALVTGAMTGGGRVDAPI 189 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + L+ + G L + ++++ + L G+ +I+ + Sbjct: 190 GRHAQDRLRMTVRDDGRPAQT-DYRLVERFPRHSYLRLRLATGRTHQIRVHMTHIGHPLV 248 >gi|291519437|emb|CBK74658.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio fibrisolvens 16/4] Length = 305 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 66/245 (26%), Gaps = 39/245 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + + R+ K +A A SR ++ I V VNG ++ D I V Sbjct: 8 IEEPSDEGIRIDKYLAAALPEKSRSYYQKAIDNGFVLVNGKQIKS-KYQTKLGDEIIVSI 66 Query: 65 VPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P++ + + + +V + V + + Sbjct: 67 EPVKEIDILPEDIPIDILYEDSDVIVVNKPKGMVVHPAPGHYSGTLVNALMYHCKDSLSG 126 Query: 111 VG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + D + + R+ + + Sbjct: 127 INGEIRPGIVHRIDMNTTGSLLVCKNDKAHNDIAAQIKVHSVNRIYKGIVVGNFKEEEGT 186 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + ++ + KK V+ T+ Q ++V L G+ +I+ Sbjct: 187 INANIGRNPKDR-KKMAVVSDGREAITHYTVLEQYKGFSYVQFKLETGRTHQIRVHMAHI 245 Query: 209 NWKVN 213 + Sbjct: 246 GHPLL 250 >gi|238798952|ref|ZP_04642415.1| Ribosomal large subunit pseudouridine synthase D [Yersinia mollaretii ATCC 43969] gi|238717181|gb|EEQ09034.1| Ribosomal large subunit pseudouridine synthase D [Yersinia mollaretii ATCC 43969] Length = 325 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV V+G + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILEDRVTVDGKTINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 QIEEDARWAPQEIPLDIVYEDSDILVINKPRGLVVHPGAGNPDGTVLNALLYYYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|269926072|ref|YP_003322695.1| hemolysin A [Thermobaculum terrenum ATCC BAA-798] gi|269789732|gb|ACZ41873.1| hemolysin A [Thermobaculum terrenum ATCC BAA-798] Length = 277 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 1/55 (1%) Query: 9 ENFTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 N R+ K++ G+AS RE + +I+ V VNG + V + V Sbjct: 5 SNQDSIRLDKLMVELGLASSREKAQALISSGLVTVNGEKARSSDQRVRRGTKVIV 59 >gi|91794214|ref|YP_563865.1| pseudouridine synthase, RluD [Shewanella denitrificans OS217] gi|91716216|gb|ABE56142.1| ribosomal large subunit pseudouridine synthase D [Shewanella denitrificans OS217] Length = 324 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 72/238 (30%), Gaps = 31/238 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T R+ + +A SR ++ I V V+G+ +++ V+ + IE+ Sbjct: 8 KSEITATQTGLRLDQALAELFPDYSRTRIKEWILSGAVYVDGVKVDKPREKVLESQQIEI 67 Query: 63 D--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + + + + + +V + + + L + Sbjct: 68 EATFEEEVKAKAQAIDLNIVYEDDHIIIVNKQAGLVVHPGAGNADGTLMNALLHHCPAIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 + RLD +T GL+++ L V Sbjct: 128 MVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREIVREYEAIVLGTMTAGGTVDE 187 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V G + + ++ + + L G+ +I+ ++ Sbjct: 188 PIERHPTKRTQMSVQHGGRPSVTHYRVSEKFRAHTRLRLRLESGRTHQIRVHMDYIGH 245 >gi|70726718|ref|YP_253632.1| hypothetical protein SH1717 [Staphylococcus haemolyticus JCSC1435] gi|68447442|dbj|BAE05026.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435] Length = 305 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 29/250 (11%), Positives = 63/250 (25%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFT--PQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK EN QR+ K++ SR +++ +I + V VN +++ V Sbjct: 1 MKTHEFKIENQELVGQRIDKLLPEFNNEWSRSQIQDLIKEDLVTVNEKVIKS-NYKVKLN 59 Query: 58 DHIEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 D I V + + +Y +V + V + Sbjct: 60 DLIIVTEKEVVEADIQPENLNLDIYYEDEDVAIVYKPKGMVVHPSPGHYSGTLVNGLMYQ 119 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 I G + + G L + + L + + Sbjct: 120 IKDLSGINGEIRPGIVHRIDKDTSGLLMVAKNDIAHRGLVEQLMDKSVKRKYTALVHGNI 179 Query: 156 ------------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + V+ + + L G+ +I+ Sbjct: 180 PHDYGTIDAPIGRNEKDRQSMDVVDNGKEAVTHFNVLEHFNDYTLIECQLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 ++ + + Sbjct: 240 HMKYIGFPLV 249 >gi|331703570|ref|YP_004400257.1| ribosomal large subunit pseudouridylatesynthase D [Mycoplasma mycoides subsp. capri LC str. 95010] gi|328802125|emb|CBW54279.1| Ribosomal large subunit pseudouridylatesynthase D [Mycoplasma mycoides subsp. capri LC str. 95010] Length = 310 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 35/251 (13%), Positives = 68/251 (27%), Gaps = 40/251 (15%) Query: 3 DKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + T R+ K++ SR ++++I ++ + VN ++ V Sbjct: 2 NKITLNSLNTILRLDKLLVELLTSYDYSRSYIQKLIKEECISVNNQIITNNNFLVKPNSQ 61 Query: 60 IEV-------DGVPLR---------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 I + D ++ + L + + V + + V L S Sbjct: 62 ITITIKDPILDPNLVKNEDIDLDIVYQDDDLLVINKQNNITVHPSLNNTNNTIVNALLAS 121 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------D 156 G L + G L + + L + Sbjct: 122 DVELSSINGELRPGIVHRIDKQTTGLLIVAKNDKTHKLLSEMFKNHQIYKEYLAIVTGVI 181 Query: 157 KLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTVG------------LREGKNREIK 202 K N I M VT K + V ++ G+ +I+ Sbjct: 182 KPNKGLIDAPIGRSQTDRKKMSVTAKNSKQAITTFEVVERFLKNTLVKCQIQTGRTHQIR 241 Query: 203 KVFEFFNWKVN 213 F + N V Sbjct: 242 VHFNYINHPVL 252 >gi|124267192|ref|YP_001021196.1| ribosomal large subunit pseudouridine synthase D [Methylibium petroleiphilum PM1] gi|124259967|gb|ABM94961.1| ribosomal large subunit pseudouridine synthase D [Methylibium petroleiphilum PM1] Length = 334 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 39/232 (16%), Positives = 75/232 (32%), Gaps = 35/232 (15%) Query: 13 PQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------- 62 +R+ + +A AG SR ++ +I +V+++G + A V + IE+ Sbjct: 32 GERLDRWLATLAGEFSRNHLQTLIEGGQVRIDGQTVTARARRVSAGQQIEITLLPTPESQ 91 Query: 63 --DGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRST-------------------VF 98 P+ E L + KP GLV + + T + Sbjct: 92 AFRPEPVALPVVFEDAHLLVIDKPAGLVVHPAPGNWSGTVLNGLLAHHAGAAALPRAGIV 151 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 L S ++ V + L+ + R LR + +D + Sbjct: 152 HRLDKDTSGLMVVAKTLPAMTSLVRAIAAREVHREYLALVHGVLRQAVFSVDAPIGRDPV 211 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + K V+ G V L + + + V L G+ +I+ Sbjct: 212 SRI-KMAVLAGGRTARTDVELIAARDAVSAVRCTLHTGRTHQIRVHMASRGH 262 >gi|116515184|ref|YP_802813.1| RluD [Buchnera aphidicola str. Cc (Cinara cedri)] gi|116257038|gb|ABJ90720.1| ribosomal large subunit pseudouridine synthase D [Buchnera aphidicola str. Cc (Cinara cedri)] Length = 321 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 29/236 (12%), Positives = 69/236 (29%), Gaps = 32/236 (13%) Query: 10 NFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVP 66 R+ K++ SR +++ I +KVN I + ++ D I ++ Sbjct: 15 KEKSIRLDKILVKHLNSFSRSSIKKWILSGFIKVNNITANKPKKKILFKDRISLIINKKS 74 Query: 67 -------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 + + L + +V + + + ++ Sbjct: 75 NFIKIKKENIFLNIIFEDSEILIINKPTNFVVHLGYGNTSGTLLNALIFHYPDNLLIPRA 134 Query: 112 ---GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 RLD NT G+L++ L + + + ++K I Sbjct: 135 GIVHRLDRNTTGILVVAKTISTYYFLINLFKKRKIIKEYDVIVIGRIEVDGKIEKPIKRD 194 Query: 169 -----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 G ++ T ++ ++ + L+ G+ +I+ V Sbjct: 195 IYNRTKMTVGIGGKQAITYYSVITIFKNHTYLRIQLKTGRMHQIRVHLSSIFHPVL 250 >gi|218547883|ref|YP_002381674.1| 23S rRNA pseudouridine synthase D [Escherichia fergusonii ATCC 35469] gi|218355424|emb|CAQ88032.1| 23S rRNA pseudouridine synthase [Escherichia fergusonii ATCC 35469] gi|324111235|gb|EGC05217.1| RluA family protein pseudouridine synthase [Escherichia fergusonii B253] Length = 326 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 MVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|154483515|ref|ZP_02025963.1| hypothetical protein EUBVEN_01219 [Eubacterium ventriosum ATCC 27560] gi|149735425|gb|EDM51311.1| hypothetical protein EUBVEN_01219 [Eubacterium ventriosum ATCC 27560] Length = 301 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 27/250 (10%), Positives = 74/250 (29%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + IV E R+ + ++ SR +++++ + +N ++ A V +D Sbjct: 1 MNNLFIVDEELFDIRIDRYLSELLPDVSRSFIQKLLKDNEILLNDKPVK-ANYKVQPSDK 59 Query: 60 IEVD-GVPLR-------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I ++ P+ + L + +V + V + Sbjct: 60 ININIPKPVEANIVAENIPLDIIYEDDDFLIVNKPKDMVVHPAPGHYTGTLVNGLMYHCK 119 Query: 106 SRVISVGRL----------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRV-------- 147 + + ++ + T L++ ND + E + V Sbjct: 120 NHLSNINGVLRPGIVHRIDKDTTGALIICKNDYSHNFIAEQLKVHSITRKYVGIVQGVVK 179 Query: 148 ----RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + +N + I + + + ++ L G+ +I+ Sbjct: 180 DESGTINAPIGRHPVNRKEMAINHKNGKEAVTHYKVLKRFDKYTFMEFQLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + + Sbjct: 240 HMASIHHPLL 249 >gi|315303759|ref|ZP_07874262.1| ribosomal large subunit pseudouridine synthase D [Listeria ivanovii FSL F6-596] gi|313627868|gb|EFR96498.1| ribosomal large subunit pseudouridine synthase D [Listeria ivanovii FSL F6-596] Length = 302 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 28/246 (11%), Positives = 67/246 (27%), Gaps = 36/246 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK + I++E +R+ K +A SR ++ M+ + V+G + + V D Sbjct: 1 MKSETLIIEEKNARERIDKAVAELTGKSRSAIQIMLKNGDITVSGEIAK-PNYKVQVGDE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I ++ + ++ L + +V + + V L Sbjct: 60 IHLEVREPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASSTLVNALLFHCK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G++ + G L + + L + Sbjct: 120 DLSGINGKIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREYIALVHGDIVH 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +K V++ + + + L G+ +I+ Sbjct: 180 QKGTIEAPIGRAKEDRQKMAVVRDGKEARTHFEVIERLEGYTLINCKLDTGRTHQIRVHL 239 Query: 206 EFFNWK 211 ++ Sbjct: 240 KYIGHP 245 >gi|288560866|ref|YP_003424352.1| rRNA methylase [Methanobrevibacter ruminantium M1] gi|288543576|gb|ADC47460.1| rRNA methylase [Methanobrevibacter ruminantium M1] Length = 264 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRK 69 +R+ K + IASR + + MI + VKVN ++ +A+ V D +E ++ LR Sbjct: 3 ERLDKYLVNNNLIASRTKSKEMIKSKNVKVNDKIITKASYTVRDGDKVEIINDESLRY 60 >gi|209559192|ref|YP_002285664.1| Putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes NZ131] gi|209540393|gb|ACI60969.1| Putative ribosomal large subunit pseudouridine synthase [Streptococcus pyogenes NZ131] Length = 296 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 60/240 (25%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VNG ++A V + D I + Sbjct: 3 INVITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFELPK 61 Query: 64 GVPLRKAERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 L + +V + V + I G Sbjct: 62 EEVLEYQAQNIPLDIIYEDDTLAIITKPQGMVVHPSGGHPSGTMVNALMYHIKDLSSING 121 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------------- 155 + + G L + Q L Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDAAHQALAEELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK V + T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|254230257|ref|ZP_04923648.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25] gi|262395163|ref|YP_003287017.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25] gi|269966583|ref|ZP_06180664.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio alginolyticus 40B] gi|151937237|gb|EDN56104.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25] gi|262338757|gb|ACY52552.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. Ex25] gi|269828768|gb|EEZ83021.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio alginolyticus 40B] Length = 325 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 33/249 (13%), Positives = 73/249 (29%), Gaps = 33/249 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVQVNGEVVTKPRTKVMGGEEITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVFEDDDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + + + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDQP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPMGKPAVTHYRVAERFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGP 222 L I+YG Sbjct: 248 -LGDIAYGG 255 >gi|325295697|ref|YP_004282211.1| hemolysin A [Desulfurobacterium thermolithotrophum DSM 11699] gi|325066145|gb|ADY74152.1| hemolysin A [Desulfurobacterium thermolithotrophum DSM 11699] Length = 265 Score = 64.4 bits (155), Expect = 2e-08, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 1/60 (1%) Query: 11 FTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K++ G + SR + +I +V VNG ++++A +V+ IE+ G + Sbjct: 2 SKKERLDKLLVEKGLVKSRERAKALIMAGKVLVNGQVVDKAGASVLPDAVIEIKGDDIPY 61 >gi|325496332|gb|EGC94191.1| 23S rRNA pseudouridine synthase D [Escherichia fergusonii ECD227] Length = 326 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 MVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLYYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|304383942|ref|ZP_07366399.1| ribosomal large subunit pseudouridine synthase D [Prevotella marshii DSM 16973] gi|304335020|gb|EFM01293.1| ribosomal large subunit pseudouridine synthase D [Prevotella marshii DSM 16973] Length = 357 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 68/249 (27%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +V P R+ K + +SR ++ + VNG ++ V +D + + Sbjct: 27 RTVVDSGQMPVRIDKYLFEKMQHSSRNRIQNAADAGFIHVNGKPVKS-NYKVRPSDVVTL 85 Query: 63 ------DGVPLRKAERTRLWLY---------HKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + E +Y +V + + V + Sbjct: 86 MLDRPQHDTTIEPEEMPLEVVYEDNDLMVINKPAGLVVHPGAGNFHGTLVNALAWYLKDL 145 Query: 108 VISV---------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVY 145 R+D +T GLLL+ R Sbjct: 146 DTYDPNDPEVGLVHRIDKDTSGLLLIAKTPEAKSKLGVQFLNKTTHRSYVALVWGNFTDE 205 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQG-ICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIK 202 R G + +D + L+ ++ + + G W+ L G+ +I+ Sbjct: 206 EGRIEGNIARDPKDRLRMTVLPSDSEMGKPAVTHYKVLERFGYTTWIECVLETGRTHQIR 265 Query: 203 KVFEFFNWK 211 ++ Sbjct: 266 AHMKYIGHP 274 >gi|320546984|ref|ZP_08041285.1| ribosomal large subunit pseudouridine synthase D [Streptococcus equinus ATCC 9812] gi|320448386|gb|EFW89128.1| ribosomal large subunit pseudouridine synthase D [Streptococcus equinus ATCC 9812] Length = 298 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 30/232 (12%), Positives = 61/232 (26%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD----------- 63 R+ K +A SR + I ++ V VNG ++ A V D + + Sbjct: 11 RLDKALADLTELSRSQANDEIKKETVLVNGKAVK-AKYAVKVGDVVTYEVPEEEVLEYTA 69 Query: 64 -GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 +PL + + +V + V + I G + Sbjct: 70 ENIPLDIIYEDEDVAVVNKPQGMVVHPSVGHTSGTLVNALMYHIKDLSSINGVIRPGIVH 129 Query: 121 L---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI- 170 ++ ND + + V + +++ I Sbjct: 130 RIDKDTSGLLMIAKNDAAHNALAAELKDKKSLRKYVAIVHGNIPNDRGVIEAPIGRSDKD 189 Query: 171 --------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + GS V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTHFKVLERFGSYTLVELTLETGRTHQIRVHMAYIGHPV 241 >gi|212636674|ref|YP_002313199.1| pseudouridine synthase RluD [Shewanella piezotolerans WP3] gi|212558158|gb|ACJ30612.1| Pseudouridine synthase, RluD [Shewanella piezotolerans WP3] Length = 328 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 71/242 (29%), Gaps = 33/242 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K K+ + T QR+ + +A SR ++ I V ++G + ++ V+ Sbjct: 10 IKLKSEITSIQTGQRLDQTLADLFPDYSRTRIKEWILSGAVSIDGNVSDKPRTKVLEGQE 69 Query: 60 IEV--------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + + + L + + +V + + + L Sbjct: 70 IIVLATLEEETSAKAEAIDLDIVYEDDHILVINKQAGLVVHPGAGNQDGTLMNALLHHCP 129 Query: 106 SRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VR 148 + RLD +T GL+++ L Sbjct: 130 GIELVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVTALQAREITREYEAIVQGGIIAGGT 189 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 +D+ +V G + + ++ + + L G+ +I+ + Sbjct: 190 VDEPIDRHPTKRTHMAVVHNGKPAMT-HYRVAEKFRAHTRLRLRLESGRTHQIRVHMAYI 248 Query: 209 NW 210 Sbjct: 249 GH 250 >gi|238790742|ref|ZP_04634503.1| Ribosomal large subunit pseudouridine synthase D [Yersinia frederiksenii ATCC 33641] gi|238721183|gb|EEQ12862.1| Ribosomal large subunit pseudouridine synthase D [Yersinia frederiksenii ATCC 33641] Length = 325 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV V+G + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDDRVTVDGKKINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQDIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPKIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|51892979|ref|YP_075670.1| putative rRNA methylase [Symbiobacterium thermophilum IAM 14863] gi|51856668|dbj|BAD40826.1| putative rRNA methylase [Symbiobacterium thermophilum IAM 14863] Length = 257 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 1/58 (1%) Query: 13 PQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ + G SR + IA V+VNG ++ + A V D IEV G P+ Sbjct: 3 GERLDVALVSRGHFPSRERAQEAIAAGMVRVNGRVITKPARKVDPGDAIEVTGDPIGY 60 >gi|317122003|ref|YP_004102006.1| hemolysin A [Thermaerobacter marianensis DSM 12885] gi|315591983|gb|ADU51279.1| hemolysin A [Thermaerobacter marianensis DSM 12885] Length = 301 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ ++ G SR I RV+V+G ++++A V IEV G P+ Sbjct: 4 KGTRLDVLLVERGWFDSRSRARAAILAGRVRVDGRVVDKAGATVDPGAQIEVAGDPIPY 62 >gi|117618510|ref|YP_858498.1| ribosomal large subunit pseudouridine synthase D [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|117559917|gb|ABK36865.1| ribosomal large subunit pseudouridine synthase D [Aeromonas hydrophila subsp. hydrophila ATCC 7966] Length = 326 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 24/237 (10%), Positives = 61/237 (25%), Gaps = 31/237 (13%) Query: 8 QENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 Q++ QR+ + +A SR ++ I Q RV ++G + V++ + VD Sbjct: 12 QDHQFGQRLDQALAELFPDYSRTRIKEWILQDRVTLDGQVANTPREKVLAGQKVHVDVEL 71 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + + L + +V + + + L Sbjct: 72 ADDTRWDAQNIELNIVYEDEHILVIDKPAGLVVHPGAGTPDGTILNALLHRYPAIAEVPR 131 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD----- 156 R+ + + A + ++ + D Sbjct: 132 AGIVHRLDKDTTGLMVVAKTIPAQTHLVEALQARQITREYEAIAIGHMTAGGTVDAPIGR 191 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V+ + + + + + L G+ +I+ + Sbjct: 192 HPTQRTHMAVVPNGRESVTHYRVHEKFRGHTRLRLRLETGRTHQIRVHMAHIKHPLV 248 >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 = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+++ AGI SRREVE+ I RV +NG E + V D + +DG L + R Sbjct: 4 RINKLLSDAGIGSRREVEKYIVAGRVMLNGERAELTDIVV-EDDIVTLDGEELPVNDILR 62 Query: 75 L 75 Sbjct: 63 E 63 >gi|282881100|ref|ZP_06289787.1| pseudouridine synthase, RluA family [Prevotella timonensis CRIS 5C-B1] gi|281304904|gb|EFA96977.1| pseudouridine synthase, RluA family [Prevotella timonensis CRIS 5C-B1] Length = 355 Score = 64.4 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 31/247 (12%), Positives = 66/247 (26%), Gaps = 42/247 (17%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V +N P R+ K + R +SR +++ V VN ++ V D I + Sbjct: 26 VVDKNQEPLRIDKYMFERLKHSSRNRIQKAADAGFVHVNDQPVKS-NYKVRPLDVITLML 84 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + E + + +V + + + + Sbjct: 85 DAPQHDSTIEAEEIPLNIVYEDTEVMVVNKPAGMVVHPGAGNFHGTLINAVAWHLKDLPT 144 Query: 110 SV---------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRV 147 R+D +T GLL++ R Sbjct: 145 FDANDPAVGLVHRIDKDTSGLLVIAKTPDAKTKLGLQFFNKTTHRSYHALVWGNFNEEEG 204 Query: 148 RFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 R G + +D + L+ + + + G + L G+ +I+ Sbjct: 205 RIEGNIARDPKDRLRMCVFPPDSAVGKTAITHYRVLERFGYVTLIECILETGRTHQIRAH 264 Query: 205 FEFFNWK 211 + Sbjct: 265 MKHIGHP 271 >gi|327470139|gb|EGF15603.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK330] Length = 298 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 ++ + QR+ K +A SR I + VNG ++A V D I Sbjct: 5 IESSVAGQRLDKAVAELTDLSRSLANEQIKDGLILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 63 --------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + +PL + + +V + + V + I G Sbjct: 64 SEVVEYVAEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDFSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|300948988|ref|ZP_07163044.1| pseudouridine synthase, RluA family [Escherichia coli MS 116-1] gi|300957377|ref|ZP_07169594.1| pseudouridine synthase, RluA family [Escherichia coli MS 175-1] gi|300315880|gb|EFJ65664.1| pseudouridine synthase, RluA family [Escherichia coli MS 175-1] gi|300451545|gb|EFK15165.1| pseudouridine synthase, RluA family [Escherichia coli MS 116-1] Length = 326 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 25/239 (10%), Positives = 61/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + + ++ V D Sbjct: 130 PRAGIVHRLDKDTTGLMAVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|268607871|ref|ZP_06141602.1| pseudouridine synthase [Ruminococcus flavefaciens FD-1] Length = 315 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 31/258 (12%), Positives = 72/258 (27%), Gaps = 49/258 (18%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K ++ +N + QRV K I++A + + R+I ++ +KVNG + +M+ D + V Sbjct: 3 KFVINDNDSGQRVDKFISKALPDLPKSMMYRLIRKKDIKVNGKRC-EISTKLMTDDVVTV 61 Query: 63 ---------------------------------------------DGVPLRKAERTRLWL 77 +G R+ L Sbjct: 62 YVKQELSGTKQHDMSFLKADTALDTVYEDENVIIVNKPLGLDSHSNGEHNDDTLINRIKL 121 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP 137 Y + + L S +++ + + DG + ++ Sbjct: 122 YLYNKNEYQPDEESSFAPALCSRLDRNTSGLVTAVKNAAALREINSAIRDGMVHKIYLCI 181 Query: 138 STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTVGLRE 195 + ++ + + Y ++ + + V V L Sbjct: 182 TIAQPPKSADIITAYHKKEDSRNIVRISDHPLDGYKPIKTGYEVLKSHKGLSLVKVTLFT 241 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 242 GRTHQIRAHLSHVGAPLL 259 >gi|224418218|ref|ZP_03656224.1| ribosomal large subunit pseudouridine synthase A [Helicobacter canadensis MIT 98-5491] Length = 340 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 32/258 (12%), Positives = 78/258 (30%), Gaps = 45/258 (17%) Query: 1 MKDKN--------IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAV 52 M++K VQ+ T R+ K + + SR ++ ++I ++++ +NG+ +++ Sbjct: 1 MQEKQRENHSLTFYVQQEETKMRLDKFLTQKLGLSRNQISKIIQEKQITLNGVFIQKNGT 60 Query: 53 NVMSTDHIEVD-------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 ++ D I + +P+ + L L +V D + T+ D Sbjct: 61 SLNFNDQIILTLPNKQEKSKPNHLNIPILYEDEDLLILNKPINLIVHQTHQDDSQYTLQD 120 Query: 100 NLPSIFSRVISVGRL---------------------DINTEGLLLLTNDGGLARVLELPS 138 L + ++G + +L + Sbjct: 121 WLQENNFSLSNLGDSYRQGIIHRLDKTTSGAIVIAKNNYAHEILSQQLKSKEMGRYYVCV 180 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LRE 195 + + + N LK + T + +N + + L Sbjct: 181 IDSPLKQNILIDAPLIRHPKNRLKYIPTTKDTPLSKEAKTAFFKIINNDKIELIGAKLFS 240 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 241 GRTHQIRAHLSKIQRHIL 258 >gi|168494358|ref|ZP_02718501.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae CDC3059-06] gi|221231700|ref|YP_002510852.1| RNA pseudouridylate synthase [Streptococcus pneumoniae ATCC 700669] gi|225854435|ref|YP_002735947.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae JJA] gi|183575636|gb|EDT96164.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae CDC3059-06] gi|220674160|emb|CAR68683.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae ATCC 700669] gi|225722558|gb|ACO18411.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae JJA] Length = 295 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLVLAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHSV 241 >gi|148984670|ref|ZP_01817938.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP3-BS71] gi|149006397|ref|ZP_01830109.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP18-BS74] gi|225861177|ref|YP_002742686.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae Taiwan19F-14] gi|298231008|ref|ZP_06964689.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254573|ref|ZP_06978159.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae str. Canada MDR_19A] gi|298503058|ref|YP_003724998.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|147762174|gb|EDK69136.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP18-BS74] gi|147923061|gb|EDK74176.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP3-BS71] gi|225727922|gb|ACO23773.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Streptococcus pneumoniae Taiwan19F-14] gi|298238653|gb|ADI69784.1| pseudouridylate synthase [Streptococcus pneumoniae TCH8431/19A] gi|301799912|emb|CBW32491.1| putative RNA pseudouridylate synthase [Streptococcus pneumoniae OXC141] gi|327389210|gb|EGE87555.1| pseudouridine synthase, RluA family protein [Streptococcus pneumoniae GA04375] gi|332075542|gb|EGI86010.1| pseudouridine synthase, RluA family protein [Streptococcus pneumoniae GA17545] gi|332202784|gb|EGJ16853.1| pseudouridine synthase, RluA family protein [Streptococcus pneumoniae GA41317] Length = 295 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG + ++A V D + P Sbjct: 11 RLDKALSDLSELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDDAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHSV 241 >gi|127513878|ref|YP_001095075.1| RluA family pseudouridine synthase [Shewanella loihica PV-4] gi|126639173|gb|ABO24816.1| ribosomal large subunit pseudouridine synthase D [Shewanella loihica PV-4] Length = 323 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 65/238 (27%), Gaps = 31/238 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T QR+ + +A SR ++ I V V+G++ + V+ IE+ Sbjct: 8 KSEITATQTGQRLDQTLAELFPDYSRTRIKEWIQAGAVYVDGMVQTKPREKVLEGQEIEI 67 Query: 63 D--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + + + + + +V + + + L Sbjct: 68 EATLKEEIKAEAQAIDLDIVYEDDHIIVINKQAGLVVHPGAGNSDGTLMNALLHHCPEIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 + RLD +T GL+++ L Sbjct: 128 LVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREITREYEAIVSGTMTAGGVVDE 187 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + + ++ + + L G+ +I+ Sbjct: 188 PIARHPTKRTHMAVHHSGRPSVTHYRVAEKFRAHTRLRLRLETGRTHQIRVHMAHIGH 245 >gi|332999362|gb|EGK18947.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri VA-6] Length = 326 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINS 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|332360785|gb|EGJ38592.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK355] Length = 298 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 ++ + QR+ K +A SR I ++ VNG ++A V D + Sbjct: 5 IEASIAGQRLDKAVAELTDLSRSLANEQIKDGQILVNGQ-AKKAKYAVKEGDVVSYELSE 63 Query: 63 --------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + +PL + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHAALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYTLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|325860234|ref|ZP_08173359.1| pseudouridine synthase, RluA family [Prevotella denticola CRIS 18C-A] gi|325482321|gb|EGC85329.1| pseudouridine synthase, RluA family [Prevotella denticola CRIS 18C-A] Length = 361 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 36/246 (14%), Positives = 72/246 (29%), Gaps = 42/246 (17%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + P R+ K + R +SR +++ + VNG ++ + V D I + Sbjct: 35 VDKGQEPVRIDKFLYERMQHSSRNRIQKAADAGFIHVNGAAVKS-SYKVRPEDVITLMLD 93 Query: 63 ---DGVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + E L + +KP GLV + T+ + + + + Sbjct: 94 RPKHDNTIEAEDIPLDIVYEDDVLMVINKPAGLVVHPGAGNFHGTLINAVAWHLKDMPAF 153 Query: 112 GRLDI----------NTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRVR 148 D +T GLL++ R R Sbjct: 154 DPNDPEVGLVHRIDKDTSGLLVVAKTPDAKTDLGRQFFNKTTHRSYNALVWGNFTEEEGR 213 Query: 149 FHGQVDQDKLNLLKKGIVIQGICY-GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G + +D + L+ + G + + G + L G+ +I+ Sbjct: 214 IEGNIARDPRDRLRMAVFPPGSETGKPAVTHYRVIERFGYTTLIECVLETGRTHQIRAHM 273 Query: 206 EFFNWK 211 + Sbjct: 274 KHIGHP 279 >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 = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 47/235 (20%), Positives = 92/235 (39%), Gaps = 38/235 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 + +++ I+ +G SR + E I V V+G ++ V V + P+ Sbjct: 22 EWLARRISLSGQMSRSQAEVAIRNGEVVVDGQVVRH-NVQVSDHCDVICRDQPVEPPGDP 80 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------------------SRVISVGRLD 115 ++WL +KP G+V + + G +T+ D I + + Sbjct: 81 KVWLINKPRGVVCSATRIRGLTTLPDLFEIWHKRRANELSHNINNVDLIPPHFIVINPIP 140 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 + GL++LTNDG A + P ++ L V+ VR G++ +D+ ++ +G+ G++ Sbjct: 141 VMCSGLVILTNDGEFAHNMAHPRSKVLSVFLVRVKGRLPEDRFKSWRRR---EGVKVGNV 197 Query: 176 QVTLDTQKGSN------AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 W+ V L V V ++ S+GP++ Sbjct: 198 DYGQVFVGIDKRPSEDVTWLRVRL----------VMTNEKNLVTKINSSSFGPYR 242 >gi|298492053|ref|YP_003722230.1| pseudouridine synthase, RluA family ['Nostoc azollae' 0708] gi|298233971|gb|ADI65107.1| pseudouridine synthase, RluA family ['Nostoc azollae' 0708] Length = 329 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 32/242 (13%), Positives = 62/242 (25%), Gaps = 38/242 (15%) Query: 10 NFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 + QR+ ++ SR ++++I Q V +N + VNV D I V Sbjct: 29 SQNTQRLDLYLSSELQNLSRSRLQQLIEQGHVLLNDQVCTSKKVNVKVGDRICVEIPSLQ 88 Query: 63 ------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + +PL + L L +V + V L + G Sbjct: 89 PLKLVAEDIPLDILYEDEQLLILNKPAGLVVHPAPGHLDGTLVNALLAHCANLPGIGGVQ 148 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------- 155 L G +A + Q L+ + + Sbjct: 149 RPGIVHRLDKDTTGAIAIAKTDIAYQHLQAQLQAKTARREYLGVVYGVPKTESGIINLPI 208 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + QG + + + + L G+ +I+ Sbjct: 209 SRHPQDRKKMAIVPTEQGGRTAITHWQIRERLSNYTLIHFQLETGRTHQIRVHSAKIGHP 268 Query: 212 VN 213 + Sbjct: 269 IV 270 >gi|291514728|emb|CBK63938.1| ribosomal large subunit pseudouridine synthase D [Alistipes shahii WAL 8301] Length = 361 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 43/267 (16%), Positives = 74/267 (27%), Gaps = 42/267 (15%) Query: 8 QENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 + TP R+ K + R SR ++ + VNG + + V D I++ Sbjct: 36 DKGQTPMRLDKFLTVRMEHCSRNRIQAAADSGNILVNGKAAKS-SYKVKPLDRIQIVMPY 94 Query: 63 ---------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV- 111 + +PL E L L KP GLV + T+ + L ++ Sbjct: 95 PRREVELVAEDIPLDIPYEDQWLLLVDKPAGLVVHPGVGNYSGTLVNALMHHLNKQGIPA 154 Query: 112 ---------GRLDINTEGLLLLTNDGGLARVLELPSTQW---------------LRVYRV 147 R+D NT GLL++ D L + Sbjct: 155 EEQNRAGLVHRIDKNTSGLLVIAKDEQTHARLAKQFFDHTIQRRYVALVWGNFDEDEGTI 214 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + + + + G V L G+ +I+ + Sbjct: 215 TGNIGRSPKDRQKMFVFADGSDGKHAVTHWKVLKRYGYVTLVECRLETGRTHQIRVHMAW 274 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTR 234 + R G L R Sbjct: 275 IGHPLFNDERYG-GDRILKGTTFAKYR 300 >gi|198282733|ref|YP_002219054.1| RluA family pseudouridine synthase [Acidithiobacillus ferrooxidans ATCC 53993] gi|198247254|gb|ACH82847.1| pseudouridine synthase, RluA family [Acidithiobacillus ferrooxidans ATCC 53993] Length = 310 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 75/240 (31%), Gaps = 34/240 (14%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ E +R+ V+++ SR ++ ++ R+ V+G E+ + V + + VD Sbjct: 2 ILPEEQAGERLDTVLSQLLPETSRSRIQALLRDGRILVDG-TPEKPSARVRGGEQVMVDW 60 Query: 65 VPLRK--------------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI- 109 + + L L+ L + + V L + Sbjct: 61 PQIEPSNWLAEGLPLHILHEDADILVLHKPAGQLTHPGAGHADGTLVNGVLAHVPENAYL 120 Query: 110 ----SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQV 153 V RLD +T GLL++ + L R + Sbjct: 121 PRGGIVHRLDKDTTGLLVVAKTEMARQSLIDQLGDHTMHREYLALVTGAMTGGGRVDAPI 180 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + L+ + G L + ++++ + L G+ +I+ + Sbjct: 181 GRHAQDRLRMTVRDDGRPAQT-DYRLVERFPRHSYLRLRLATGRTHQIRVHMTHIGHPLV 239 >gi|239996651|ref|ZP_04717175.1| ribosomal large subunit pseudouridine synthase D [Alteromonas macleodii ATCC 27126] Length = 327 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 26/230 (11%), Positives = 59/230 (25%), Gaps = 31/230 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN--------VMSTDHIEVDGV 65 R+ +V+A SR +++ I V VNG ++ V + ++V Sbjct: 22 RLDQVLADLFPEYSRSKLKTWIQDGNVAVNGEVITVPRHKMQMDELVTVQAEMDVQVTSE 81 Query: 66 P------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 + + L + +V + + + L RL Sbjct: 82 AQDIALNIVYEDEHILVINKPADLVVHPGAGNPSGTVLNALLNHCPEIDKVPRAGIVHRL 141 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKK 163 D +T GL+++ L + Sbjct: 142 DKDTTGLMVVAKTIPAQTHLVDQLQRREMSREYEAVALGTMVAGGIVDAPIGRHATKRTH 201 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + + L G+ +I+ + Sbjct: 202 MAVREMGKPAVTHFRVIEKFRAYTHLRLKLETGRTHQIRVHMAHIKHPLL 251 >gi|16130515|ref|NP_417085.1| 23S rRNA pseudouridine synthase; specific to U1911, U1915, and U1917 [Escherichia coli str. K-12 substr. MG1655] gi|89109396|ref|AP_003176.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. W3110] gi|157162070|ref|YP_001459388.1| 23S rRNA pseudouridine synthase D [Escherichia coli HS] gi|170019127|ref|YP_001724081.1| 23S rRNA pseudouridine synthase D [Escherichia coli ATCC 8739] gi|170082199|ref|YP_001731519.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|188493998|ref|ZP_03001268.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 53638] gi|194439337|ref|ZP_03071415.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 101-1] gi|238901755|ref|YP_002927551.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|253772510|ref|YP_003035341.1| 23S rRNA pseudouridine synthase D [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254037671|ref|ZP_04871729.1| 23S rRNA pseudouridine synthase D [Escherichia sp. 1_1_43] gi|254162565|ref|YP_003045673.1| 23S rRNA pseudouridine synthase D [Escherichia coli B str. REL606] gi|256024877|ref|ZP_05438742.1| 23S rRNA pseudouridine synthase D [Escherichia sp. 4_1_40B] gi|297516262|ref|ZP_06934648.1| 23S rRNA pseudouridine synthase D [Escherichia coli OP50] gi|300905086|ref|ZP_07122893.1| pseudouridine synthase, RluA family [Escherichia coli MS 84-1] gi|300930681|ref|ZP_07146065.1| pseudouridine synthase, RluA family [Escherichia coli MS 187-1] gi|301305760|ref|ZP_07211847.1| pseudouridine synthase, RluA family [Escherichia coli MS 124-1] gi|301644036|ref|ZP_07244054.1| pseudouridine synthase, RluA family [Escherichia coli MS 146-1] gi|307139315|ref|ZP_07498671.1| 23S rRNA pseudouridine synthase D [Escherichia coli H736] gi|331643311|ref|ZP_08344442.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli H736] gi|2507541|sp|P33643|RLUD_ECOLI RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|1236631|gb|AAA92957.1| SfhB [Escherichia coli] gi|1788946|gb|AAC75643.1| 23S rRNA pseudouridine synthase; specific to U1911, U1915, and U1917 [Escherichia coli str. K-12 substr. MG1655] gi|85675474|dbj|BAA16479.2| 23S rRNA pseudouridine synthase [Escherichia coli str. K12 substr. W3110] gi|157067750|gb|ABV07005.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli HS] gi|169754055|gb|ACA76754.1| pseudouridine synthase, RluA family [Escherichia coli ATCC 8739] gi|169890034|gb|ACB03741.1| 23S rRNA pseudouridine synthase [Escherichia coli str. K-12 substr. DH10B] gi|188489197|gb|EDU64300.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 53638] gi|194421699|gb|EDX37708.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 101-1] gi|226839295|gb|EEH71316.1| 23S rRNA pseudouridine synthase D [Escherichia sp. 1_1_43] gi|238859758|gb|ACR61756.1| 23S rRNA pseudouridine synthase [Escherichia coli BW2952] gi|242378190|emb|CAQ32965.1| 23S rRNA pseudouridine synthase [Escherichia coli BL21(DE3)] gi|253323554|gb|ACT28156.1| pseudouridine synthase, RluA family [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253974466|gb|ACT40137.1| 23S rRNA pseudouridine synthase [Escherichia coli B str. REL606] gi|253978633|gb|ACT44303.1| 23S rRNA pseudouridine synthase [Escherichia coli BL21(DE3)] gi|260448330|gb|ACX38752.1| pseudouridine synthase, RluA family [Escherichia coli DH1] gi|300403013|gb|EFJ86551.1| pseudouridine synthase, RluA family [Escherichia coli MS 84-1] gi|300461455|gb|EFK24948.1| pseudouridine synthase, RluA family [Escherichia coli MS 187-1] gi|300839014|gb|EFK66774.1| pseudouridine synthase, RluA family [Escherichia coli MS 124-1] gi|301077610|gb|EFK92416.1| pseudouridine synthase, RluA family [Escherichia coli MS 146-1] gi|309702976|emb|CBJ02307.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli ETEC H10407] gi|315137214|dbj|BAJ44373.1| 23S rRNA pseudouridine synthase D [Escherichia coli DH1] gi|315253122|gb|EFU33090.1| pseudouridine synthase, RluA family [Escherichia coli MS 85-1] gi|323935610|gb|EGB31930.1| RluA family protein pseudouridine synthase [Escherichia coli E1520] gi|323941386|gb|EGB37570.1| RluA family protein pseudouridine synthase [Escherichia coli E482] gi|323960546|gb|EGB56175.1| RluA family protein pseudouridine synthase [Escherichia coli H489] gi|323971461|gb|EGB66697.1| RluA family protein pseudouridine synthase [Escherichia coli TA007] gi|331036782|gb|EGI09006.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli H736] gi|332344465|gb|AEE57799.1| ribosomal large subunit pseudouridine synthase [Escherichia coli UMNK88] Length = 326 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|302871828|ref|YP_003840464.1| pseudouridine synthase, RluA family [Caldicellulosiruptor obsidiansis OB47] gi|302574687|gb|ADL42478.1| pseudouridine synthase, RluA family [Caldicellulosiruptor obsidiansis OB47] Length = 303 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 30/236 (12%), Positives = 71/236 (30%), Gaps = 39/236 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ + ++ +R V+++I + V VN + + A V S D I + Sbjct: 9 RLDRYLSEVLSKTRSFVQKIIEEGNVWVNQTQVLKPAYKVRSGDIIRIVIPEPKQLSLVA 68 Query: 63 ---DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG------- 112 D + + E + +V + + V L ++ S+ Sbjct: 69 QDIDIEVVYEDEHLAVI-NKPRGMVVHPGAGNFENTLVNALLHKFSGKLSSINGVIRPGI 127 Query: 113 ---------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 + D L + R+ L+ + + Sbjct: 128 VHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIYYAICEGVLKEDSGVVDAPIGRHP 187 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +N LK ++ G + + +V + L+ G+ +I+ + + + Sbjct: 188 VNRLKMAVIPNGKQA-VTYFEVLERYDKYTFVKLRLKTGRTHQIRVHMSYIGYPLL 242 >gi|327312694|ref|YP_004328131.1| RluA family pseudouridine synthase [Prevotella denticola F0289] gi|326946223|gb|AEA22108.1| pseudouridine synthase, RluA family [Prevotella denticola F0289] Length = 361 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 36/246 (14%), Positives = 72/246 (29%), Gaps = 42/246 (17%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + P R+ K + R +SR +++ + VNG ++ + V D I + Sbjct: 35 VDKGQEPVRIDKFLYERMQHSSRNRIQKAADAGFIHVNGTAVKS-SYKVRPEDVITLMLD 93 Query: 63 ---DGVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + E L + +KP GLV + T+ + + + + Sbjct: 94 RPKHDNTIEAEDIPLDIVYEDDVLMVINKPAGLVVHPGAGNFHGTLINAVAWHLKDMPAF 153 Query: 112 GRLDI----------NTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRVR 148 D +T GLL++ R R Sbjct: 154 DPNDPEVGLVHRIDKDTSGLLVVAKTPDAKTDLGRQFFNKTTHRSYNALVWGNFTEEEGR 213 Query: 149 FHGQVDQDKLNLLKKGIVIQGICY-GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G + +D + L+ + G + + G + L G+ +I+ Sbjct: 214 IEGNIARDPRDRLRMAVFPPGSETGKPAVTHYRVIERFGYTTLIECILETGRTHQIRAHM 273 Query: 206 EFFNWK 211 + Sbjct: 274 KHIGHP 279 >gi|289807462|ref|ZP_06538091.1| 23S rRNA pseudouridylate synthase B [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 74 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. 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|49259508|pdb|1V9F|A Chain A, Crystal Structure Of Catalytic Domain Of Pseudouridine Synthase Rlud From Escherichia Coli gi|118138510|pdb|2IST|A Chain A, Crystal Structure Of Rlud From E. Coli Length = 325 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 9 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 68 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 69 EIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 128 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 129 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 188 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 189 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 247 >gi|150016471|ref|YP_001308725.1| RluA family pseudouridine synthase [Clostridium beijerinckii NCIMB 8052] gi|149902936|gb|ABR33769.1| pseudouridine synthase, RluA family [Clostridium beijerinckii NCIMB 8052] Length = 305 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 31/247 (12%), Positives = 67/247 (27%), Gaps = 36/247 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K+ IV E +R+ K +A + SR ++ +I + +KVN + + + D I Sbjct: 3 KNVFIVDEKDRGERIDKYLAEIFVDKSRSFIQGLIEKDDIKVNNKTPKS-NYKLRALDEI 61 Query: 61 EV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 EV + LR ++ + + +V + V L Sbjct: 62 EVTFSEPEVLRVEAEEIPINILYEDKDVVVVNKPQGMVVHPAPGNYNGTLVNALLYHCKD 121 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G + + G L + L + + Sbjct: 122 LSSINGIIRPGIVHRIDKDTSGVLVVAKNDEAHNKLSDQLKDHSMKREYYALVEGRLKND 181 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K +++G + + + L G+ +I+ Sbjct: 182 KGIIDKPLARNKRDRLKIGIVEGGKRAVTHYEVLERFNGYTLIKCILETGRTHQIRVHMA 241 Query: 207 FFNWKVN 213 + + Sbjct: 242 SIGFPLV 248 >gi|323489511|ref|ZP_08094738.1| putative RNA pseudouridine synthase ylyB [Planococcus donghaensis MPA1U2] gi|323396642|gb|EGA89461.1| putative RNA pseudouridine synthase ylyB [Planococcus donghaensis MPA1U2] Length = 303 Score = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 29/249 (11%), Positives = 66/249 (26%), Gaps = 37/249 (14%) Query: 1 MKDKNI-VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+D I + + +RV K ++ G SR ++ + + VKVNG ++ V D Sbjct: 1 MEDLTIEITKEMAGERVDKAVSSIDGDWSRSQISNWVKEGAVKVNGETVK-PNYKVRLQD 59 Query: 59 HIEVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I V + + + L + +V + V + Sbjct: 60 IIIVTPPELEELDVVPEDLNLEIVYEDEDVLVVNKPKGMVVHPAPGHAKGTLVNGLMHHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPST--------------------QWLRV 144 G + + G L + Sbjct: 120 TDLSGINGVVRPGIVHRIDKDTSGLLMVAKNDAAHTSLVDQLVKKTVTRKYVALVHGHIP 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + ++ + + + G+ V L G+ +I+ Sbjct: 180 HDKGTIQAPIARDPKERQNMAIVDKGKHAVTHFRVLERFGNFTLVECRLETGRTHQIRVH 239 Query: 205 FEFFNWKVN 213 ++ + + Sbjct: 240 MKYIGFPLV 248 >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 = 64.0 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 30/144 (20%), Positives = 55/144 (38%), Gaps = 4/144 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--VDGVPLR--K 69 ++ K + GI SR++ + +I V +NG ++ ++ S+ +DG + Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIRGGYVSINGTCMDDTDADIDSSSVETLDIDGKAVTVIP 60 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + L + + +VGRLD +T G+LL+TNDG Sbjct: 61 EPYFYILLNKPTDYETSHKPKHYRSIFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGH 120 Query: 130 LARVLELPSTQWLRVYRVRFHGQV 153 L L P+ + + R Sbjct: 121 LNHKLTSPNHKNPQTVRSYTQASC 144 >gi|297617022|ref|YP_003702181.1| pseudouridine synthase [Syntrophothermus lipocalidus DSM 12680] gi|297144859|gb|ADI01616.1| pseudouridine synthase, RluA family [Syntrophothermus lipocalidus DSM 12680] Length = 305 Score = 64.0 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 35/251 (13%), Positives = 73/251 (29%), Gaps = 41/251 (16%) Query: 1 MKDKNIVQENF-TPQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST 57 M+ +++V E +R+ + +A + SR +V+ +I + V V G ++ + Sbjct: 1 METRDVVIEGSHEGERLDRFLAE-TLCDVSRSQVKNLIDEGLVLVGGRP-QKPGYRIRKG 58 Query: 58 DHIEV----------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRS 95 D I+V D + + L ++ T + Sbjct: 59 DIIQVRIPAARETGLVAQEMPLNIVYEDRDLVVIDKPQGLVVHPAHGHWEGTLVNALLYR 118 Query: 96 TVF-------------DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 L S ++ V + D L + R + Sbjct: 119 VKDLSGINGELRPGIVHRLDKDTSGLMVVAKNDQAHRDLADQIKARKIRREYVAVVHGVI 178 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 R + + + K +V +G T+ + V L G+ +I+ Sbjct: 179 RENSGTIDAPIGRSPSDRKKMAVVREGRPA-VTHYTVLRRYRDYTLVRARLETGRTHQIR 237 Query: 203 KVFEFFNWKVN 213 F + V Sbjct: 238 VHFAYIRHPVV 248 >gi|121593575|ref|YP_985471.1| ribosomal large subunit pseudouridine synthase D [Acidovorax sp. JS42] gi|120605655|gb|ABM41395.1| ribosomal large subunit pseudouridine synthase D [Acidovorax sp. JS42] Length = 334 Score = 64.0 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 38/246 (15%), Positives = 72/246 (29%), Gaps = 38/246 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V QR+ K +A SR +++++ Q V++NG +++ A V D I V+ Sbjct: 31 VVGAEQHAQRLDKALAELVPEFSRSYLQQLLLQGCVRLNGREVQKPASRVKVGDRIAVEM 90 Query: 65 VP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 P + + L ++ +V + + L + Sbjct: 91 RPTQQSQAFRPEQWPLDVVYEDEHILVIHKPAGLVVHPAPGNWSGTLLNALLGRDAQAMQ 150 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPST--------------QWLRVYRVRFH 150 RLD +T GL+++ L W H Sbjct: 151 VPRAGIVHRLDKDTSGLMVVARSRSAMDALVRMIAAREVSRQYVALGWGGWTGAAHRSVH 210 Query: 151 GQVDQDKLNLLKKGIV---IQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + +D N L+ +V L V L G+ +I+ Sbjct: 211 APIGRDPRNRLRMAVVDLAQHPGKEARTDFDLIDANEEVCLVRCTLHTGRTHQIRVHMAS 270 Query: 208 FNWKVN 213 + Sbjct: 271 IRHPLV 276 >gi|329922661|ref|ZP_08278213.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF5] gi|328942003|gb|EGG38286.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF5] Length = 322 Score = 64.0 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 66/245 (26%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 V+ + R+ K I SR +V+ IA V VN ++ V D I + Sbjct: 25 TVEADAAKTRIDKYITENLGEDVSRSQVQLWIADGHVSVNDGPIKS-NYKVSQGDRIVLK 83 Query: 63 -----------DGVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +PL + + + +V + V + Sbjct: 84 VPEPSAVEIIPEDIPLEIAFEDGDVIVVNKPRGMVVHPAPGHSSGTLVNALMFHCKDLSG 143 Query: 110 SVGR---------------------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G D L + + R + + Sbjct: 144 INGELRPGIVHRIDKDTTGLIMAAKNDKAHASLAAQLKEHSVNRRYLALVHGNISHDQGT 203 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + + + + T+ + G + + + L G+ +I+ ++ Sbjct: 204 IDAPIGRDAQDRKLYTVTDRNSKHAVTHFTVVERFGDYSLLELKLETGRTHQIRVHMKYI 263 Query: 209 NWKVN 213 + Sbjct: 264 GHPLV 268 >gi|269962553|ref|ZP_06176901.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio harveyi 1DA3] gi|269832748|gb|EEZ86859.1| Pseudouridylate synthase, 23S RNA-specific [Vibrio harveyi 1DA3] Length = 325 Score = 64.0 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 35/265 (13%), Positives = 81/265 (30%), Gaps = 35/265 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLAGKVQVNGEVVTKPRTKVMGGEEITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDEDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + + K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPMGKHAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 L +YG + G+++E+++ Sbjct: 248 -LGDTAYGGRA--RIPTGASQELTE 269 >gi|291546177|emb|CBL19285.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus sp. SR1/5] Length = 304 Score = 64.0 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 27/246 (10%), Positives = 70/246 (28%), Gaps = 40/246 (16%) Query: 6 IVQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V++ + R+ + +A +G+ SR +++++ + ++ V G ++ V D I ++ Sbjct: 7 TVEKEESGIRIDRYLAEKDSGL-SRSFLQKLLKEGQITV-GEKAAKSNYKVRENDRIHLE 64 Query: 64 ------------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 +PL + L + +V + + V + + Sbjct: 65 IPDSSEPDIVPEDIPLDILYEDEDVLIVNKPKGMVVHPAAGHYQGTLVNAVMAHCGDSLS 124 Query: 110 SVGRLDIN----------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRV 147 + + L + R L+ Sbjct: 125 GINGVMRPGIVHRIDKDTTGALLVCKNDIAHRDLAEQLKCHSIRRRYRAVVQGNLKEDEG 184 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G + + + K I + + + G +V L G+ +I+ Sbjct: 185 TIEGPIGRHPTDRKKMAINHKNGKDAITHYKVLERFGEATYVECRLETGRTHQIRVHMAS 244 Query: 208 FNWKVN 213 + Sbjct: 245 IGHPLL 250 >gi|194336853|ref|YP_002018647.1| pseudouridine synthase, RluA family [Pelodictyon phaeoclathratiforme BU-1] gi|194309330|gb|ACF44030.1| pseudouridine synthase, RluA family [Pelodictyon phaeoclathratiforme BU-1] Length = 349 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 40/258 (15%), Positives = 83/258 (32%), Gaps = 44/258 (17%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------- 62 P R+ + + + A+R +V+ I + RV VN ++ + S D IE+ Sbjct: 33 PMRIDQYLTQQVENATRNKVQEAIEEGRVLVNENRVKS-NYRIKSCDVIEMTFLRPPAPE 91 Query: 63 ---DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----------R 107 + +P+ + + + K +V + L I R Sbjct: 92 LTAENIPIEIIYEDCDLMVVNKKAGMVVHPAFGNWTGTLANAILHHIGMDAEELDQAELR 151 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK---------- 157 V RLD NT GL+++ + L + + + D Sbjct: 152 PGIVHRLDKNTSGLIIVAKNPIALHRLARQFAERKVIKVYKAIVWGVPDPAAGTITTNIG 211 Query: 158 ----LNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + +G ++ + +++ L G+ +I+ + + Sbjct: 212 RSKKDRKVMANFPFEGEYGKTAITDYSVMENLQWFSLLSLRLHTGRTHQIRAHLQHLGHQ 271 Query: 212 VNRLIRISYGPFQLGTLL 229 + L ++YG L TL Sbjct: 272 I--LGDVTYGGTILRTLP 287 >gi|282892065|ref|ZP_06300542.1| hypothetical protein pah_c205o103 [Parachlamydia acanthamoebae str. Hall's coccus] gi|281498107|gb|EFB40449.1| hypothetical protein pah_c205o103 [Parachlamydia acanthamoebae str. Hall's coccus] Length = 319 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 64/245 (26%), Gaps = 39/245 (15%) Query: 6 IVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-- 61 I+QE R+ KV+A SR + +I + V +NG +++ D +E Sbjct: 13 IIQEMEAGIRLDKVLADRYKSNGSRTYFQMLIEKGLVLLNGEPVKK-RFKPNVGDDVELF 71 Query: 62 ------VDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--- 106 +D +P + + L + +V + V L Sbjct: 72 FAAAPEIDLIPEQIPLNILYEDEHLLIINKPVGMVVHPAPGNWTGTFVNALLYHCGYSLS 131 Query: 107 ------------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------VR 148 + + L + + Sbjct: 132 DASVDSIRPGIVHRLDKETSGVLVAAKTLSVQQKLMELFAARQVYKEYWAICLGNPGNCE 191 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + ++ + + G TL+ + L G+ +I+ + Sbjct: 192 LNWPIGRHPIHRKQMTVREDGKEALTFCETLEVGNEI-CLAKLILSTGRTHQIRVHLKHK 250 Query: 209 NWKVN 213 + Sbjct: 251 GHPIL 255 >gi|170683711|ref|YP_001744779.1| 23S rRNA pseudouridine synthase D [Escherichia coli SMS-3-5] gi|218701106|ref|YP_002408735.1| 23S rRNA pseudouridine synthase D [Escherichia coli IAI39] gi|170521429|gb|ACB19607.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli SMS-3-5] gi|218371092|emb|CAR18921.1| 23S rRNA pseudouridine synthase [Escherichia coli IAI39] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDDDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|145518940|ref|XP_001445342.1| hypothetical protein [Paramecium tetraurelia strain d4-2] gi|31746352|emb|CAD97486.1| pseudouridine synthase [Paramecium tetraurelia] gi|124412786|emb|CAK77945.1| unnamed protein product [Paramecium tetraurelia] Length = 350 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 68/246 (27%), Gaps = 54/246 (21%) Query: 12 TPQRVSKVI-ARAGIASRR--EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-- 66 + R+ K + A +R EV+++I + VN ++ + D + Sbjct: 23 SGTRIDKFLIADL---NRSWNEVQKLIRNGEINVNNKKIKDHQFLLKEGDVVTYWDKLKK 79 Query: 67 ---------------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + L K ++P+ + + L F Sbjct: 80 QADTQLRPVPNTQAYEELKKMILYENDQIIILNKKHGYASQGGANPNY--NIPEILNLYF 137 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-----------------VR 148 + RLD T GLL++ + +A + + + + R Sbjct: 138 KNFYIIHRLDQLTSGLLIIAKNKDIATEISTIIQEKAFITKKYIAVVQGQIKVQKGLIDR 197 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQV------TLDTQKGSNAWVTVGLREGKNREIK 202 ++ + Y + Q + + + + EG+ +I+ Sbjct: 198 PLLFNTNNQKQTCYNEEQLLEGKYLPARTSYEVIEEYQYQDEMYSILDLQIFEGRKHQIR 257 Query: 203 KVFEFF 208 Sbjct: 258 AHLSQV 263 >gi|3915406|sp|O50310|Y723_CHLP8 RecName: Full=Uncharacterized RNA pseudouridine synthase Cpar_0723; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|2661852|emb|CAB06297.1| hypothetical protein [Prosthecochloris vibrioformis] Length = 327 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 40/248 (16%), Positives = 78/248 (31%), Gaps = 42/248 (16%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + TP R+ + + + +R +V+ I + RV VNG ++ V S DHI + Sbjct: 5 VSKVQTPMRIDRYLTQQVENMTRNKVQAAIEEGRVLVNGKPVKS-NYRVKSCDHIHLTFL 63 Query: 63 ---------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + +P+ E L + K G+V + + T+ + + Sbjct: 64 RPPAPELAPEDIPITILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLGKDADEL 123 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------ 155 R V RLD +T GL+++ + L + Sbjct: 124 DKTEMRPGIVHRLDKDTSGLIIIAKNPTALHKLARQFANRQVEKVYKAIVWGVPKAESGT 183 Query: 156 --------DKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K + +G + G + + V L G+ +I+ Sbjct: 184 IKTNIGRSHKNRKVMANFPYEGAEGKHAITDYQVVEDLGYFSLMDVTLHTGRTHQIRVHL 243 Query: 206 EFFNWKVN 213 + + Sbjct: 244 QHLGHSIL 251 >gi|331674037|ref|ZP_08374799.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA280] gi|331068776|gb|EGI40169.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA280] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|312171425|emb|CBX79684.1| ribosomal large subunit pseudouridine synthase D [Erwinia amylovora ATCC BAA-2158] Length = 325 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +R+ VNG +++ V+ + I +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILNRRITVNGTTIDKPKEKVLGGEQISIDA 69 Query: 65 V--------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARWEAQDIPLAIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHHFPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPSQTHLVDALQRREITREYEAVAIGRMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >gi|330895553|gb|EGH27863.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. japonica str. M301072PT] Length = 190 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 42/165 (25%), Positives = 79/165 (47%), Gaps = 16/165 (9%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ + ++L L+ G+ + + Sbjct: 85 QLQARIADPKHKLAKTYGVQVEGEPNDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 + +W+ + ++EG+NR+++++ RL+R+S Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVGLPTLRLVRLS 189 >gi|183597510|ref|ZP_02959003.1| hypothetical protein PROSTU_00783 [Providencia stuartii ATCC 25827] gi|188023155|gb|EDU61195.1| hypothetical protein PROSTU_00783 [Providencia stuartii ATCC 25827] Length = 325 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V E+ QR+ + +A SR ++ I RV+VNG ++ + V+ + I VD Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDDRVQVNGKVINKPKEKVLGGEQILVDA 69 Query: 64 ----GVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + L + +V + + + L Sbjct: 70 LIEEDNRWEPQDIPLDVVYEDEDILVINKPRGLVVHPGAGNPDGTILNALLHRYPEIVDV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V R + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAVGRMTAGGMVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHPTKRTHMAVHPMGKPAITHYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLI 248 >gi|125624328|ref|YP_001032811.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. cremoris MG1363] gi|124493136|emb|CAL98100.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. cremoris MG1363] gi|300071111|gb|ADJ60511.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. cremoris NZ9000] Length = 301 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 62/246 (25%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M I +EN R+ K +A SR + +I +V VN ++A V + D I Sbjct: 1 MPIIKITEENKDL-RLDKALANQTEYSRSLLTELIKNDKVFVNNE-AKKAKYKVKTGDRI 58 Query: 61 EVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 + + + + + + +V + + V + I Sbjct: 59 QFEIPQAEVLDVVAEDLPLEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHIKD 118 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPST--------------------QWLRVYR 146 G + + G L + Sbjct: 119 LSSINGVIRPGIVHRIDKDTSGLLMIAKNDKAHESLAAQLKDKTSKRRYLAIVHGELAND 178 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 L KK V+ G + + + L G+ +I+ Sbjct: 179 KGTIEAPIGRNLKDRKKQAVVSGGKPAVTHFEVLEGFVGYTLIALRLETGRTHQIRVHMH 238 Query: 207 FFNWKV 212 + V Sbjct: 239 YIGHPV 244 >gi|227551404|ref|ZP_03981453.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257887487|ref|ZP_05667140.1| pseudouridylate synthase [Enterococcus faecium 1,141,733] gi|257895982|ref|ZP_05675635.1| pseudouridylate synthase [Enterococcus faecium Com12] gi|293570492|ref|ZP_06681547.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E980] gi|227179523|gb|EEI60495.1| pseudouridylate synthase [Enterococcus faecium TX1330] gi|257823541|gb|EEV50473.1| pseudouridylate synthase [Enterococcus faecium 1,141,733] gi|257832547|gb|EEV58968.1| pseudouridylate synthase [Enterococcus faecium Com12] gi|291609438|gb|EFF38705.1| ribosomal large subunit pseudouridine synthase D [Enterococcus faecium E980] Length = 303 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 29/235 (12%), Positives = 67/235 (28%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV+ SR +++ + ++ V VNG ++ A V D I V Sbjct: 11 ESGRIDKVLTNLFSNYSRSQIQLWLKERAVSVNGEPVK-ANYKVKQGDEITVLIPEPETL 69 Query: 63 ----DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +P + + + +V + + V + + G + Sbjct: 70 DVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHVKDLSTINGVIRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNL---- 160 + G L + + V V ++ +N Sbjct: 130 GIVHRIDKDTSGLLMVAKNDQAHESLAKQLKDKTSLRKYVALVHGEIPHEKGTINAPIGR 189 Query: 161 ----LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K + + T+ + V + L G+ +I+ ++ + Sbjct: 190 SKENRKMQAIREDGKPAVTHFTVLERFEGFTLVELKLETGRTHQIRVHMKYIGYP 244 >gi|91204218|emb|CAJ71871.1| similar to pseudouridine synthase C [Candidatus Kuenenia stuttgartiensis] Length = 274 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 30/201 (14%), Positives = 68/201 (33%), Gaps = 8/201 (3%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERTRLWL 77 IA S ++ ++++ + V VN + A+ + D IEV G + ++T L Sbjct: 18 FIANKLSLSNKKAKQLLDDRLVFVNRKRVWIASYQLKPGDSIEVLSGKTHQPEKKTYDIL 77 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNL-----PSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ ++ + + R+ +V RLD +T G L+ + Sbjct: 78 FNDDCYVIVSKPPGIVTNGQNSIERDLRTQFNRDRIQAVHRLDKDTSGALIFAKNENAFE 137 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 ++ + + + V G +TL + + +++ V Sbjct: 138 EMKKVFKKHD--IQKIYRVIVTGKICEPAFTINSPVGGQTAVTHITLLKKGKNTSYLEVA 195 Query: 193 LREGKNREIKKVFEFFNWKVN 213 G+ +I+ V Sbjct: 196 TETGRRHQIRIHLASIGHPVI 216 >gi|332753864|gb|EGJ84241.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri 4343-70] gi|332997822|gb|EGK17432.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri K-218] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRSGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|319947181|ref|ZP_08021415.1| ribosomal large subunit pseudouridine synthase D [Streptococcus australis ATCC 700641] gi|319747229|gb|EFV99488.1| ribosomal large subunit pseudouridine synthase D [Streptococcus australis ATCC 700641] Length = 296 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 28/232 (12%), Positives = 63/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------EVDGVP 66 R+ K ++ SR I + ++ VNG + ++A V D I EV Sbjct: 11 RLDKAVSELTELSRGLANEQIKEGKILVNGQV-KKAKYTVKEGDVISYEVPQMEEVTYEA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + +V + + V + I G L Sbjct: 70 EDIPLEIVYQDADVVVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGELRPGIVH 129 Query: 121 L---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI- 170 ++ ND + + + + +++ I Sbjct: 130 RIDKDTSGLLMVAKNDAAHVALADELKAKKSLRKYWAIVHGNLPNDRGVIEAPIGRSDKD 189 Query: 171 --------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPALTRFHVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|3402691|gb|AAC28994.1| unknown protein [Arabidopsis thaliana] Length = 86 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 18/81 (22%), Positives = 40/81 (49%), Gaps = 3/81 (3%) Query: 166 VIQGICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPF 223 +++G+ V L ++ A + + + EG+N E++++ + +V+ L R+ G F Sbjct: 1 MVEGVHCVPDSVELMPKQHDIPRARLRIVVHEGRNHEVRELVKNAGLEVHSLKRVRIGGF 60 Query: 224 QL-GTLLAGSTREVSKKILRE 243 +L L G E+ + L+ Sbjct: 61 RLPSDLGLGKHVELKQSELKA 81 >gi|172057958|ref|YP_001814418.1| RluA family pseudouridine synthase [Exiguobacterium sibiricum 255-15] gi|171990479|gb|ACB61401.1| pseudouridine synthase, RluA family [Exiguobacterium sibiricum 255-15] Length = 307 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 70/248 (28%), Gaps = 38/248 (15%) Query: 1 MKDKN--IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M ++N V+ N R+ K +A SR +V+ + V+V+G +++ + T+ Sbjct: 1 MNEQNEWAVKANGATGRIDKWLAEQQDWSRSQVQDWLKAGHVEVDGRIVK-PNYKMSGTE 59 Query: 59 HIEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I V + +PL + + + +V + + V L Sbjct: 60 EILVRIPEAVELEVLPEDIPLDVVYEDSDVIVINKPKGMVVHPAAGHVSGTLVNALLHHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------R 143 G + G L + + L Sbjct: 120 QDLSGINGVKRPGIVHRIDKDTSGLLMVAKNDLAHESLAQQLKDKTTERLYIALVHGEIP 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 V +DK + + + + + + V L G+ +I+ Sbjct: 180 HELGTIEAPVGRDKNDRQRMTVTDKNSKAAVTHFRVLERYEGFTVVECKLETGRTHQIRV 239 Query: 204 VFEFFNWK 211 + + Sbjct: 240 HMRYIGFP 247 >gi|24113932|ref|NP_708442.1| 23S rRNA pseudouridine synthase D [Shigella flexneri 2a str. 301] gi|26248957|ref|NP_754997.1| 23S rRNA pseudouridine synthase D [Escherichia coli CFT073] gi|30063991|ref|NP_838162.1| 23S rRNA pseudouridine synthase D [Shigella flexneri 2a str. 2457T] gi|74313153|ref|YP_311572.1| 23S rRNA pseudouridine synthase D [Shigella sonnei Ss046] gi|110642757|ref|YP_670487.1| 23S rRNA pseudouridine synthase D [Escherichia coli 536] gi|110806535|ref|YP_690055.1| 23S rRNA pseudouridine synthase D [Shigella flexneri 5 str. 8401] gi|191174579|ref|ZP_03036074.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli F11] gi|218555174|ref|YP_002388087.1| 23S rRNA pseudouridine synthase D [Escherichia coli IAI1] gi|218696219|ref|YP_002403886.1| 23S rRNA pseudouridine synthase D [Escherichia coli 55989] gi|293411985|ref|ZP_06654708.1| rluD [Escherichia coli B354] gi|300940369|ref|ZP_07154957.1| pseudouridine synthase, RluA family [Escherichia coli MS 21-1] gi|300976568|ref|ZP_07173520.1| pseudouridine synthase, RluA family [Escherichia coli MS 200-1] gi|300986849|ref|ZP_07177832.1| pseudouridine synthase, RluA family [Escherichia coli MS 45-1] gi|301026354|ref|ZP_07189802.1| pseudouridine synthase, RluA family [Escherichia coli MS 69-1] gi|301050463|ref|ZP_07197345.1| pseudouridine synthase, RluA family [Escherichia coli MS 185-1] gi|306812486|ref|ZP_07446684.1| 23S rRNA pseudouridine synthase D [Escherichia coli NC101] gi|331648338|ref|ZP_08349426.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli M605] gi|331658744|ref|ZP_08359686.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA206] gi|331664161|ref|ZP_08365070.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA143] gi|54039250|sp|P65835|RLUD_SHIFL RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|54041741|sp|P65834|RLUD_ECOL6 RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|26109363|gb|AAN81565.1|AE016764_247 Ribosomal large subunit pseudouridine synthase D [Escherichia coli CFT073] gi|24053038|gb|AAN44149.1| ftsH mutation suppressor [Shigella flexneri 2a str. 301] gi|30042247|gb|AAP17972.1| ftsH mutation suppressor [Shigella flexneri 2a str. 2457T] gi|73856630|gb|AAZ89337.1| suppressor of ftsH mutation [Shigella sonnei Ss046] gi|110344349|gb|ABG70586.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 536] gi|110616083|gb|ABF04750.1| suppressor of ftsH mutation [Shigella flexneri 5 str. 8401] gi|190905152|gb|EDV64796.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli F11] gi|218352951|emb|CAU98750.1| 23S rRNA pseudouridine synthase [Escherichia coli 55989] gi|218361942|emb|CAQ99544.1| 23S rRNA pseudouridine synthase [Escherichia coli IAI1] gi|281602002|gb|ADA74986.1| Ribosomal large subunit pseudouridine synthase D [Shigella flexneri 2002017] gi|284922542|emb|CBG35629.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 042] gi|291468756|gb|EFF11247.1| rluD [Escherichia coli B354] gi|300297834|gb|EFJ54219.1| pseudouridine synthase, RluA family [Escherichia coli MS 185-1] gi|300308510|gb|EFJ63030.1| pseudouridine synthase, RluA family [Escherichia coli MS 200-1] gi|300395569|gb|EFJ79107.1| pseudouridine synthase, RluA family [Escherichia coli MS 69-1] gi|300407859|gb|EFJ91397.1| pseudouridine synthase, RluA family [Escherichia coli MS 45-1] gi|300454823|gb|EFK18316.1| pseudouridine synthase, RluA family [Escherichia coli MS 21-1] gi|305854524|gb|EFM54962.1| 23S rRNA pseudouridine synthase D [Escherichia coli NC101] gi|313648270|gb|EFS12714.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri 2a str. 2457T] gi|315290937|gb|EFU50302.1| pseudouridine synthase, RluA family [Escherichia coli MS 153-1] gi|315298638|gb|EFU57893.1| pseudouridine synthase, RluA family [Escherichia coli MS 16-3] gi|323184529|gb|EFZ69903.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 1357] gi|323963904|gb|EGB59397.1| RluA family protein pseudouridine synthase [Escherichia coli M863] gi|323978453|gb|EGB73537.1| RluA family protein pseudouridine synthase [Escherichia coli TW10509] gi|324012460|gb|EGB81679.1| pseudouridine synthase, RluA family [Escherichia coli MS 60-1] gi|327252300|gb|EGE63972.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli STEC_7v] gi|330912359|gb|EGH40869.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli AA86] gi|331042085|gb|EGI14227.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli M605] gi|331053326|gb|EGI25355.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA206] gi|331058618|gb|EGI30596.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA143] gi|332754015|gb|EGJ84387.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri K-671] gi|332755617|gb|EGJ85980.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri 2747-71] gi|332765571|gb|EGJ95784.1| 23S rRNA pseudouridine synthase [Shigella flexneri 2930-71] gi|333015902|gb|EGK35238.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri K-304] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|331654054|ref|ZP_08355054.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli M718] gi|331047436|gb|EGI19513.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli M718] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|317049249|ref|YP_004116897.1| RluA family pseudouridine synthase [Pantoea sp. At-9b] gi|316950866|gb|ADU70341.1| pseudouridine synthase, RluA family [Pantoea sp. At-9b] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E QR+ + +A SR ++ I ++RV VNG ++++ V+ + + + Sbjct: 10 TVSEAQLGQRLDQTLAELFPDYSRSRIKEWILERRVSVNGTVIDKPKEKVLGGEQVSISA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + + + +V + + + L V Sbjct: 70 EIEEEQRWEAQNIPLNIVYEDDDIIVINKPRDLVVHPGAGNPDGTVLNALLYHYPPIVDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVETLQLREITREYEAVAIGTMTAGGTVNEPM 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|162447675|ref|YP_001620807.1| ribosomal large subunit pseudouridine synthase, RluA-like protein [Acholeplasma laidlawii PG-8A] gi|161985782|gb|ABX81431.1| ribosomal large subunit pseudouridine synthase, RluA-like protein [Acholeplasma laidlawii PG-8A] Length = 297 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 35/249 (14%), Positives = 69/249 (27%), Gaps = 40/249 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK K Q + R+ + + +R ++ +I V VNG L +A + ++D I Sbjct: 1 MKFKITEQTDS---RLDHFLVASTELNRSQITTLIKDGLVMVNG-LTTKAGYKLKNSDEI 56 Query: 61 EVDGVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-- 103 ++ + + + + +V + V L Sbjct: 57 TLNLEAKEETNPLKPKNIDLNIVYEDDDIMVINKPKGLVVHPSETFSETTLVSGLLHHTD 116 Query: 104 ----IFSRVISVGRLDINTEGLLLL-----TNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + G L + L TN+ +L S R Y G +D Sbjct: 117 TLSTHNDDPLRPGILHRIDKDTSGLILVAKTNEAHKILAQDLKSHDIKREYIALVEGVLD 176 Query: 155 QDKLNLLKKGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKV 204 +K + I + + + L G+ +I+ Sbjct: 177 HNKGVIDAPIARHPKIRTKMAVVATGKPAITHFEVMRTFRDHTLLHCKLETGRTHQIRVH 236 Query: 205 FEFFNWKVN 213 + V Sbjct: 237 LAYIKHPVT 245 >gi|323339837|ref|ZP_08080106.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus ruminis ATCC 25644] gi|323092710|gb|EFZ35313.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus ruminis ATCC 25644] Length = 301 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 73/248 (29%), Gaps = 40/248 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK+ + +N R+ KV + SR ++++++ + VNG E+A V S D Sbjct: 1 MKETVVEMQNG---RLDKVCSEIFSDYSRSQIKQLLDGGNITVNGKT-EKAKYKVKSGDV 56 Query: 60 IEVDGVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I ++ P + + + + +V D + V L Sbjct: 57 IRLE-EPETKTLELRPENIPLDIVYEDDDVIVINKPQGMVVHPAPGHDEHTLVNALLYHC 115 Query: 105 FSRVISVGRLDINTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 I+ + ++ ND + + + V + Sbjct: 116 PLSTINGTFRPGIVHRIDKDTSGLLMVAKNDKAHRSLAKQLKDKTNIREYVALVHGRIAE 175 Query: 157 KLNLLKKGI-----------VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + I V++ + + +V L G+ +I+ Sbjct: 176 DEGTINAPIGRSLKDRKKQAVVKDGRNAVTHFEVLKKYRDYTFVKCILETGRTHQIRVHM 235 Query: 206 EFFNWKVN 213 ++ + Sbjct: 236 KYIGHPLV 243 >gi|218706096|ref|YP_002413615.1| 23S rRNA pseudouridine synthase D [Escherichia coli UMN026] gi|293406104|ref|ZP_06650030.1| rluD [Escherichia coli FVEC1412] gi|298381836|ref|ZP_06991433.1| rluD [Escherichia coli FVEC1302] gi|300900220|ref|ZP_07118406.1| pseudouridine synthase, RluA family [Escherichia coli MS 198-1] gi|218433193|emb|CAR14092.1| 23S rRNA pseudouridine synthase [Escherichia coli UMN026] gi|291426110|gb|EFE99142.1| rluD [Escherichia coli FVEC1412] gi|298276976|gb|EFI18492.1| rluD [Escherichia coli FVEC1302] gi|300356255|gb|EFJ72125.1| pseudouridine synthase, RluA family [Escherichia coli MS 198-1] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|292487319|ref|YP_003530191.1| ribosomal large subunit pseudouridine synthase D [Erwinia amylovora CFBP1430] gi|292900315|ref|YP_003539684.1| ribosomal large subunit pseudouridine synthase D [Erwinia amylovora ATCC 49946] gi|291200163|emb|CBJ47289.1| ribosomal large subunit pseudouridine synthase D [Erwinia amylovora ATCC 49946] gi|291552738|emb|CBA19783.1| ribosomal large subunit pseudouridine synthase D [Erwinia amylovora CFBP1430] Length = 325 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +R+ VNG +++ V+ + I +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILNRRITVNGTTIDKPKEKVLGGEQISIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARWEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHHFPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPSQTHLVDALQRREITREYEAVAIGRMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >gi|331684250|ref|ZP_08384842.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli H299] gi|222034298|emb|CAP77039.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli LF82] gi|312947168|gb|ADR27995.1| 23S rRNA pseudouridine synthase D [Escherichia coli O83:H1 str. NRG 857C] gi|331077865|gb|EGI49071.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli H299] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|91211928|ref|YP_541914.1| 23S rRNA pseudouridine synthase D [Escherichia coli UTI89] gi|91073502|gb|ABE08383.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli UTI89] gi|294490521|gb|ADE89277.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli IHE3034] gi|307625854|gb|ADN70158.1| 23S rRNA pseudouridine synthase D [Escherichia coli UM146] Length = 326 Score = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >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 = 63.7 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 1/61 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R++K+++ G+ SRREVE +I + RV +NG + V D +E+DG L + Sbjct: 3 VRINKLLSDTGLGSRREVEALIEEGRVWINGDRA-ELSDVVSEDDVVELDGEELPVRDLL 61 Query: 74 R 74 R Sbjct: 62 R 62 >gi|157156608|ref|YP_001463915.1| 23S rRNA pseudouridine synthase D [Escherichia coli E24377A] gi|191169060|ref|ZP_03030823.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli B7A] gi|193064062|ref|ZP_03045147.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli E22] gi|193071695|ref|ZP_03052596.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli E110019] gi|194430158|ref|ZP_03062659.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli B171] gi|209920071|ref|YP_002294155.1| 23S rRNA pseudouridine synthase D [Escherichia coli SE11] gi|256019585|ref|ZP_05433450.1| 23S rRNA pseudouridine synthase D [Shigella sp. D9] gi|260845276|ref|YP_003223054.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|260869276|ref|YP_003235678.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|293448946|ref|ZP_06663367.1| rluD [Escherichia coli B088] gi|300819932|ref|ZP_07100115.1| pseudouridine synthase, RluA family [Escherichia coli MS 107-1] gi|300825129|ref|ZP_07105222.1| pseudouridine synthase, RluA family [Escherichia coli MS 119-7] gi|300922522|ref|ZP_07138631.1| pseudouridine synthase, RluA family [Escherichia coli MS 182-1] gi|301326710|ref|ZP_07220028.1| pseudouridine synthase, RluA family [Escherichia coli MS 78-1] gi|307315092|ref|ZP_07594676.1| pseudouridine synthase, RluA family [Escherichia coli W] gi|309794107|ref|ZP_07688531.1| pseudouridine synthase, RluA family [Escherichia coli MS 145-7] gi|331669346|ref|ZP_08370192.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA271] gi|331678588|ref|ZP_08379262.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli H591] gi|332280710|ref|ZP_08393123.1| ribosomal large subunit pseudouridine synthase D [Shigella sp. D9] gi|157078638|gb|ABV18346.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli E24377A] gi|190900901|gb|EDV60687.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli B7A] gi|192929297|gb|EDV82906.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli E22] gi|192954990|gb|EDV85492.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli E110019] gi|194411783|gb|EDX28104.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli B171] gi|209913330|dbj|BAG78404.1| putative pseudouridine synthase [Escherichia coli SE11] gi|257760423|dbj|BAI31920.1| 23S rRNA pseudouridine synthase [Escherichia coli O103:H2 str. 12009] gi|257765632|dbj|BAI37127.1| 23S rRNA pseudouridine synthase [Escherichia coli O111:H- str. 11128] gi|291322036|gb|EFE61465.1| rluD [Escherichia coli B088] gi|300421134|gb|EFK04445.1| pseudouridine synthase, RluA family [Escherichia coli MS 182-1] gi|300522401|gb|EFK43470.1| pseudouridine synthase, RluA family [Escherichia coli MS 119-7] gi|300527520|gb|EFK48582.1| pseudouridine synthase, RluA family [Escherichia coli MS 107-1] gi|300846633|gb|EFK74393.1| pseudouridine synthase, RluA family [Escherichia coli MS 78-1] gi|306905521|gb|EFN36055.1| pseudouridine synthase, RluA family [Escherichia coli W] gi|308122012|gb|EFO59274.1| pseudouridine synthase, RluA family [Escherichia coli MS 145-7] gi|315061909|gb|ADT76236.1| 23S rRNA pseudouridine synthase [Escherichia coli W] gi|323377510|gb|ADX49778.1| pseudouridine synthase, RluA family [Escherichia coli KO11] gi|323946277|gb|EGB42310.1| RluA family protein pseudouridine synthase [Escherichia coli H120] gi|324016579|gb|EGB85798.1| pseudouridine synthase, RluA family [Escherichia coli MS 117-3] gi|324120053|gb|EGC13929.1| RluA family protein pseudouridine synthase [Escherichia coli E1167] gi|331063014|gb|EGI34927.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli TA271] gi|331073418|gb|EGI44739.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Escherichia coli H591] gi|332103062|gb|EGJ06408.1| ribosomal large subunit pseudouridine synthase D [Shigella sp. D9] Length = 326 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|291320661|ref|YP_003515926.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma agalactiae] gi|290752997|emb|CBH40973.1| Ribosomal large subunit pseudouridine synthaseD [Mycoplasma agalactiae] Length = 305 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 36/239 (15%), Positives = 69/239 (28%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL-LERAAVNVMSTDHIEV--------DG 64 +R+ K I+ +R + + +I Q+ V V+ + + V I V + Sbjct: 10 ERIDKYISDNSEITRNDAKALIEQEAVYVDDKKFVRKPNYMVREGMVITVLRLLEKESNI 69 Query: 65 VPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL----- 114 + E L + +KP GLV + T+ + L F +S Sbjct: 70 EAVDMPLDIRYEDEYLLILNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDTNGLLRLG 129 Query: 115 ------------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + L + + + R L + + + +D Sbjct: 130 IVHRIDKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYLAICEGILPNKVTKINLPIQRD 189 Query: 157 KLNLLKKGIVIQGI---CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 N I G Y M + + V L G+ +I+ + V Sbjct: 190 TKNRKLMSIHKDGKSSVTYVHMLKSFYIDNKPYSLVKCELETGRTHQIRVHLTYIKHPV 248 >gi|116740184|gb|ABK20858.1| 23S rRNA pseudouridine synthase [Escherichia coli] Length = 38 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 15/35 (42%), Positives = 22/35 (62%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGI 45 + R++K I+ +GI SRRE +R I Q V +NG Sbjct: 4 DSSVRLNKYISESGICSRREADRYIEQGNVFLNGK 38 >gi|312143925|ref|YP_003995371.1| pseudouridine synthase, RluA family [Halanaerobium sp. 'sapolanicus'] gi|311904576|gb|ADQ15017.1| pseudouridine synthase, RluA family [Halanaerobium sp. 'sapolanicus'] Length = 304 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 32/250 (12%), Positives = 80/250 (32%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFT-PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 MK+ N+ + +RV K +A SR ++++I ++KVN ++ + + D Sbjct: 1 MKEYNLKVDKSEAGKRVDKFLASQFDDFSRNYIQKLIEDSKIKVNSNPVQN-SYLIKEAD 59 Query: 59 HIEV-------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V D E + + +K +V + T+ + L + Sbjct: 60 EIKVIIDKAKKSSIKAVDIELDIIYEDQDIIIINKDADMVVHPAPGHYDDTIVNALLAYT 119 Query: 106 SRVISVG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 + + ++ + D + + L + + L Sbjct: 120 NDLSAINGVKRPGIVHRLDKDTSGLLLVAKNDKSHKELSRQFKKREVDKYYLALLKGILP 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + K + + + + ++ V V + G+ +I+ Sbjct: 180 YKTGKIDAPIGRHPNQRKKMAVRKRKSKKAVSRFKILESFKNHTLVEVKIETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 F + + V Sbjct: 240 HFAYLGYPVV 249 >gi|215487933|ref|YP_002330364.1| 23S rRNA pseudouridine synthase D [Escherichia coli O127:H6 str. E2348/69] gi|218690713|ref|YP_002398925.1| 23S rRNA pseudouridine synthase D [Escherichia coli ED1a] gi|312965509|ref|ZP_07779741.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 2362-75] gi|215266005|emb|CAS10416.1| 23S rRNA pseudouridine synthase [Escherichia coli O127:H6 str. E2348/69] gi|218428277|emb|CAR09055.1| 23S rRNA pseudouridine synthase [Escherichia coli ED1a] gi|281179642|dbj|BAI55972.1| putative pseudouridine synthase [Escherichia coli SE15] gi|312289929|gb|EFR17817.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 2362-75] Length = 326 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|147678153|ref|YP_001212368.1| pseudouridylate synthase [Pelotomaculum thermopropionicum SI] gi|146274250|dbj|BAF59999.1| pseudouridylate synthase [Pelotomaculum thermopropionicum SI] Length = 312 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 34/257 (13%), Positives = 72/257 (28%), Gaps = 41/257 (15%) Query: 3 DKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI- 60 + V E +R+ +A +R V+++IA+ VNG RA+ V D + Sbjct: 5 NSFQVGEEDAGKRLDLFLAGEMEGLTRTYVQKLIAEGMASVNGQR-GRASYRVKPGDVVV 63 Query: 61 ---------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 E+ P+ + + + +V + V L Sbjct: 64 LQVPEPEGLEIKKEPIPLEVYYEDADVIVINKPRGMVVHPADGNYSGTLVNALLYHCSDL 123 Query: 108 VISVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRVYR 146 G + L + + R L+ Sbjct: 124 SGINGVMRPGIVHRLDKDTSGLIMVAKNDTAHLSLARQLKERQITRRYLALVHGLLKEQS 183 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + +D + K ++ + + + + ++ + L G+ +I+ Sbjct: 184 GMVDAPIGRDPRDRKKMAVLQKNAKQAVTRYRVLERFKGYTYIELMLETGRTHQIRVHMS 243 Query: 207 FFNWKVN-RLIRISYGP 222 + V L YGP Sbjct: 244 YIGHPVVGDLK---YGP 257 >gi|58337436|ref|YP_194021.1| pseudouridine synthase [Lactobacillus acidophilus NCFM] gi|58254753|gb|AAV42990.1| pseudouridine synthase [Lactobacillus acidophilus NCFM] Length = 302 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 38/247 (15%), Positives = 74/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K ++ R+ K I+ SR V+ +I Q + VN +E+ + + D Sbjct: 1 MPKKYSLEVTNQRGRLDKFISEQLSDLSRTRVKELIQDQNILVN-EKVEKVSYKIQDGDK 59 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ + +P + + + + +V + V L Sbjct: 60 IEITVPAVKPLDIVAENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTQ 119 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + LE + Sbjct: 120 DLAQSPEGFRPGIVHRIDKDTSGLLMIAKNATARESLEQQLANKTNKRIYWAIVHGNFSE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 180 EQGSIDAPIGRNPYDRKKMAVVENGKKAITHFKVLKQFKGYSLIECQLETGRTHQIRVHL 239 Query: 206 EFFNWKV 212 ++ V Sbjct: 240 DYIGHAV 246 >gi|313665289|ref|YP_004047160.1| pseudouridine synthase, RluA family [Mycoplasma leachii PG50] gi|312949430|gb|ADR24026.1| pseudouridine synthase, RluA family [Mycoplasma leachii PG50] Length = 310 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 34/251 (13%), Positives = 66/251 (26%), Gaps = 40/251 (15%) Query: 3 DKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + T R+ K++ SR ++++I ++ + VN ++ V Sbjct: 2 NKITLNSLNTTLRLDKLLVELLTSYDYSRSYIQKLIKEKCISVNDQIIINNNFLVKPNSE 61 Query: 60 IE------------VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 I V + + L + + V + + V L S Sbjct: 62 IVITIKDPILDTNLVKNKDIDLDIIYQDDDLLVINKQNNITVHPSLNNTNNTIVNALLAS 121 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------D 156 G L + G L + + L + Sbjct: 122 DVELSSINGELRPGIVHRIDKQTTGLLIIAKNDKTHKLLSEMFKSHRIYKEYLAIVTGVI 181 Query: 157 KLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTVG------------LREGKNREIK 202 K N I M VT K + + ++ G+ +I+ Sbjct: 182 KPNKGLIDAPIGRSQTDRKKMSVTAKNSKQAITTFELVERFLKNTLVKCQIQTGRTHQIR 241 Query: 203 KVFEFFNWKVN 213 F + N V Sbjct: 242 VHFNYINHPVL 252 >gi|312135180|ref|YP_004002518.1| pseudouridine synthase, rlua family [Caldicellulosiruptor owensensis OL] gi|311775231|gb|ADQ04718.1| pseudouridine synthase, RluA family [Caldicellulosiruptor owensensis OL] Length = 300 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 33/235 (14%), Positives = 73/235 (31%), Gaps = 37/235 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ + ++ A +R ++++I + V VN + + A V + D I+V Sbjct: 9 RLDRYLSEALSKTRSFIQKIIEEGNVWVNQTQVFKPAYKVRNGDIIKVVIPEPKQLSLVA 68 Query: 63 ---------DGVPLRKAERTRLWLYHKPIGLVTTH---------------SDPDGRSTVF 98 + L + R + H G + R + Sbjct: 69 QDIDIDVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRLSSINGVIRPGIV 128 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 L S ++ V + D L + R+ L+ + + + Sbjct: 129 HRLDKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIYYAICEGVLKEDSGVVDAPIGRHPV 188 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK +V G + + +V + L+ G+ +I+ + + + Sbjct: 189 NRLKMAVVPNGKEA-VTYFEVLERFDKYTFVKLRLKTGRTHQIRVHMSYIGYPLL 242 >gi|314927283|gb|EFS91114.1| ribosomal RNA large subunit methyltransferase J [Propionibacterium acnes HL044PA1] Length = 257 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 1/64 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ + + AG+A SR R++ + RV VNGI++ + A+ V ++D++ D Sbjct: 13 VRLDQALVEAGLARSRTLATRLVREGRVTVNGIVVTKPAMKVSASDNLVADEEVWVSRAA 72 Query: 73 TRLW 76 +L Sbjct: 73 YKLL 76 >gi|325104837|ref|YP_004274491.1| ribosomal large subunit pseudouridine synthase D [Pedobacter saltans DSM 12145] gi|324973685|gb|ADY52669.1| ribosomal large subunit pseudouridine synthase D [Pedobacter saltans DSM 12145] Length = 342 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 34/245 (13%), Positives = 74/245 (30%), Gaps = 40/245 (16%) Query: 6 IVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + R+ K + R ASR +++ I Q V VNG ++ + + D I + Sbjct: 22 VVDKGQSSIRIDKFLMVRLENASRNKIQNAIEQGNVLVNGKAIK-PSYKIKPLDDISIVL 80 Query: 63 -----------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +P+ + + + +V + V Sbjct: 81 PHPPRDTEVYPEDIPIDIIYEDNDVVLVNKVAGMVVHPGYGNWSGTLVNALTHHFSQLPQ 140 Query: 110 SVGR---------LDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRFHGQVDQD 156 G +D +T GLL+++ + + S + + V D Sbjct: 141 LPGNDGRPGLVHRIDKDTSGLLVISKNEKSMASLAKQFFDHSIKRKYLALVWGDLPEDGI 200 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV-----TVGLRE-----GKNREIKKVFE 206 + + I + + ++ V V L E G+ +I+ + Sbjct: 201 ISGYIGRSIKDRKVMDLYDDPEKGKWSVTHYKVVKRLNYVTLIECQLETGRTHQIRAHMK 260 Query: 207 FFNWK 211 Sbjct: 261 AIGHP 265 >gi|229817935|ref|ZP_04448217.1| hypothetical protein BIFANG_03222 [Bifidobacterium angulatum DSM 20098] gi|229784539|gb|EEP20653.1| hypothetical protein BIFANG_03222 [Bifidobacterium angulatum DSM 20098] Length = 271 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 3/54 (5%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMS--TDHIEVD 63 P R+ ++ AG+ +R + +++I +V VNG + + A V + I VD Sbjct: 23 PDRLDLLLVEAGVVGTRTKAQKLIKAGKVTVNGETVTKPAYAVGALGHARIRVD 76 >gi|300921138|ref|ZP_07137519.1| pseudouridine synthase, RluA family [Escherichia coli MS 115-1] gi|300411911|gb|EFJ95221.1| pseudouridine synthase, RluA family [Escherichia coli MS 115-1] Length = 326 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + V + + + + L G+ +I+ + Sbjct: 190 SRHPSKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|147677532|ref|YP_001211747.1| rRNA methylase [Pelotomaculum thermopropionicum SI] gi|146273629|dbj|BAF59378.1| predicted rRNA methylase [Pelotomaculum thermopropionicum SI] Length = 266 Score = 63.7 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 1/61 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R+ +AR G SR + + I V V+G + + V + IEV G PL Sbjct: 2 SQKKLRLDVRLARDGYCPSREKAQAAIMAGLVFVDGERACKPGMMVDPSSVIEVRGCPLP 61 Query: 69 K 69 Sbjct: 62 Y 62 >gi|85711025|ref|ZP_01042085.1| Pseudouridylate synthase [Idiomarina baltica OS145] gi|85694938|gb|EAQ32876.1| Pseudouridylate synthase [Idiomarina baltica OS145] Length = 322 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 26/239 (10%), Positives = 68/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 IV E+ +R+ +++A SR +++ I + +V V+ ++E+ + + +D Sbjct: 10 IVPESLAGKRLDQILAELFPDYSRSRMKKWITEGKVSVDAQVIEKPREKLEFGALVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + + + L Sbjct: 70 ELEREERYQAQPIELDIVYEDEDILIINKPAGLVVHPGAGAPDGTLLNGLLHYDPDIDHV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ + L + Sbjct: 130 PRAGIIHRLDKDTTGLMVVARNIPAQTQLVDMMQKREITREYEAVCNGVMTAGGMVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V+ + + ++ + + L G+ +I+ + Sbjct: 190 GRHPTKRTHMAVVSSGKPAVTHYRVVERFRAHTLLRLRLESGRTHQIRVHMAHIRHPLV 248 >gi|323691964|ref|ZP_08106213.1| pseudouridine synthase [Clostridium symbiosum WAL-14673] gi|323503973|gb|EGB19786.1| pseudouridine synthase [Clostridium symbiosum WAL-14673] Length = 305 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 30/252 (11%), Positives = 75/252 (29%), Gaps = 42/252 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK + IV E + R+ K + I +R +++++ + V+VNG ++ + + Sbjct: 1 MKQEYIVPEKSSGLRIDKFLTE--ICPDYTRSFLQKLLKSELVEVNGKPVKS-SYKTAAG 57 Query: 58 DHIEVD-GVPLR-------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 D + + + + + + +V + + V + Sbjct: 58 DTVTFEVPEAVEAEITAQEMPLDILYEDEDVILINKPKGMVVHPAAGHYEGTLVNGLMHH 117 Query: 104 IF---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------- 146 R V R+D++T G+L++ + + + Sbjct: 118 CREQLSGINGVMRPGIVHRIDMDTTGVLIVCKNDLAHNSIAEQLKVHSITRKYYAVVFGS 177 Query: 147 -----VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 H + + + K I + + + V L G+ +I Sbjct: 178 LKDDEGTIHAPIGRHPNDRKKMSINSKNGKDAVTHYKVLERFHGYTLVECRLETGRTHQI 237 Query: 202 KKVFEFFNWKVN 213 + + Sbjct: 238 RVHMASIGHPLL 249 >gi|289551021|ref|YP_003471925.1| Ribosomal large subunit pseudouridine synthase D [Staphylococcus lugdunensis HKU09-01] gi|289180553|gb|ADC87798.1| Ribosomal large subunit pseudouridine synthase D [Staphylococcus lugdunensis HKU09-01] Length = 305 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 63/243 (25%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + T QR+ K+++ SR +++ I + V VNG ++ A V D I + Sbjct: 8 VTDTRHTGQRIDKLLSDYNHDWSRSQIQDWIKHELVIVNGKAIK-ANYKVKLHDSIVITE 66 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + ++ +Y +V + V + I Sbjct: 67 KEVVDADIQPENLNLDIYYEDKDVAIVYKPKGMVVHPSPGHYSGTLVNGLMYQIKDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ--- 155 G + + G L + + V + D Sbjct: 127 NGEIRPGIVHRIDKDTSGLLMVAKNDIAHRSLVDQLVAKSVKRKYTALVHGNIPHDYGTV 186 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V+ + + L G+ +I+ ++ + Sbjct: 187 DAPIGRNKKDRQSMDVVDDGKDAVTHFNVLEHFKDYTLIECQLETGRTHQIRVHMKYIGY 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|242240266|ref|YP_002988447.1| pseudouridine synthase [Dickeya dadantii Ech703] gi|242132323|gb|ACS86625.1| pseudouridine synthase, RluA family [Dickeya dadantii Ech703] Length = 325 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 72/239 (30%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E+ QR+ + +A SR ++ I +QRV++NG ++++ V+ + + + Sbjct: 10 TVDESQLGQRLDQALAELFPDYSRSRIKTWILEQRVQINGNVIDKPKEKVLGGESVSITA 69 Query: 63 --------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 D P++ + L + +V + + + L Sbjct: 70 IIEEDVRWDAQPIQLDIVYEDEDILVINKPRDLVVHPGAGNPDGTVLNALLHHYPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ + L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKNVPAQTRLVESLQAREITREYEAVANGTMTAGGSVAEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHPTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >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 = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 23/57 (40%), Positives = 34/57 (59%), Gaps = 1/57 (1%) Query: 13 PQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R+ + G+A SRRE +R++ RV+VNG L+ + V D IEVDGV +R Sbjct: 4 GRRLDAFLRDVGLAESRREAKRLVESGRVRVNGKLVRKPWWLVSPGDEIEVDGVTVR 60 >gi|159029548|emb|CAO87700.1| rluD [Microcystis aeruginosa PCC 7806] Length = 308 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 29/240 (12%), Positives = 68/240 (28%), Gaps = 38/240 (15%) Query: 12 TPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPL 67 +R+ + ++ SR ++++I Q +++NG + V D +++ D PL Sbjct: 11 KKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIPDSQPL 70 Query: 68 R----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD-- 115 + E L + +KP LV + T+ + L + +G + Sbjct: 71 QLSAEAIDLDILYEDEYLIIINKPADLVVHPAPGHESGTLVNALLHHCPNLAGIGGIQRP 130 Query: 116 ----------------------INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 L T + + + Sbjct: 131 GIVHRLDKDTTGAIVIAKTDQAHQHLQAQLKTKTARREYMALVHGVPKSETGTIDLPISR 190 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + V +G + + G+ + L G+ +I+ + Sbjct: 191 HRSDRQKMAIIAVEKGGRNAVTHWQVKERLGNYTLMEFRLETGRTHQIRVHSSHIGHPIL 250 >gi|324005834|gb|EGB75053.1| pseudouridine synthase, RluA family [Escherichia coli MS 57-2] Length = 326 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-----F 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYSPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|326565266|gb|EGE15451.1| ribosomal large subunit pseudouridine synthase D [Moraxella catarrhalis 12P80B1] Length = 355 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 28/242 (11%), Positives = 69/242 (28%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V R+ K+ A G SR ++ I + ++ VNG +++ V D + ++ Sbjct: 48 VSTEQIGIRLDKLCADIFGGFSRANLKNFIDEGQLMVNGKVVK-PKYAVKVGDILTLEAV 106 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + + V L + Sbjct: 107 HESHSEDLPENIDIDIIYEDEAVIIINKPAGMVVHPGAGNRTGTLVNALLYHFPKQAHLP 166 Query: 112 -----GRLDINTEGLLLLT---------------NDGGLARVLELPSTQWLRVYRVRFHG 151 R+D +T GLL++ + + Sbjct: 167 RAGLVHRIDKDTTGLLVIARTKSAQLSLIDQLKDKSVYRHYQCIALGAVHEVLRHAQIDA 226 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + K + G V + + + L+ G+ +I+ + Sbjct: 227 PIGRHSTHRTKMAVKQTGKPALTHIVNAKYLHERYSLLDIHLKTGRTHQIRVHLSYVGHP 286 Query: 212 VN 213 + Sbjct: 287 LV 288 >gi|16761516|ref|NP_457133.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16765978|ref|NP_461593.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|29142987|ref|NP_806329.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62181235|ref|YP_217652.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|167553892|ref|ZP_02347635.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|167992440|ref|ZP_02573538.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|168234182|ref|ZP_02659240.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|168239430|ref|ZP_02664488.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|168244683|ref|ZP_02669615.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|168262167|ref|ZP_02684140.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168464166|ref|ZP_02698083.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168822474|ref|ZP_02834474.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|194446496|ref|YP_002041926.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194447791|ref|YP_002046668.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194471474|ref|ZP_03077458.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194737121|ref|YP_002115673.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|197247406|ref|YP_002147565.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197262464|ref|ZP_03162538.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197363556|ref|YP_002143193.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198242257|ref|YP_002216673.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200389193|ref|ZP_03215805.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204929503|ref|ZP_03220577.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|207858012|ref|YP_002244663.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|213051815|ref|ZP_03344693.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213424875|ref|ZP_03357625.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213585773|ref|ZP_03367599.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] gi|213619387|ref|ZP_03373213.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] gi|213646598|ref|ZP_03376651.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213850144|ref|ZP_03381042.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|224584515|ref|YP_002638313.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|238909508|ref|ZP_04653345.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|289824162|ref|ZP_06543757.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|54039251|sp|P65837|RLUD_SALTI RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|54041742|sp|P65836|RLUD_SALTY RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|25322403|pir||AC0832 pseudouridylate synthase (EC 4.2.1.70) - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|16421209|gb|AAL21552.1| pseudouridine synthase [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16503817|emb|CAD05842.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Typhi] gi|29138619|gb|AAO70189.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|62128868|gb|AAX66571.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|194405159|gb|ACF65381.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194406095|gb|ACF66314.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194457838|gb|EDX46677.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194712623|gb|ACF91844.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195633435|gb|EDX51849.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197095033|emb|CAR60579.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197211109|gb|ACH48506.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197240719|gb|EDY23339.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197287851|gb|EDY27239.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Schwarzengrund str. SL480] gi|197936773|gb|ACH74106.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199606291|gb|EDZ04836.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204321222|gb|EDZ06422.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205321769|gb|EDZ09608.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA29] gi|205329256|gb|EDZ16020.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- str. CVM23701] gi|205331842|gb|EDZ18606.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Kentucky str. CDC 191] gi|205336483|gb|EDZ23247.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Heidelberg str. SL486] gi|205341144|gb|EDZ27908.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Weltevreden str. HI_N05-537] gi|205349079|gb|EDZ35710.1| ribosomal large subunit pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206709815|emb|CAR34167.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|224469042|gb|ACN46872.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|261247856|emb|CBG25685.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267994803|gb|ACY89688.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|301159209|emb|CBW18724.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|312913652|dbj|BAJ37626.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|320087095|emb|CBY96863.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|322614488|gb|EFY11419.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322621447|gb|EFY18300.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322624308|gb|EFY21141.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322629393|gb|EFY26171.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322633633|gb|EFY30375.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322638324|gb|EFY35022.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322639762|gb|EFY36445.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322647376|gb|EFY43872.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322650454|gb|EFY46864.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322656053|gb|EFY52353.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322661447|gb|EFY57672.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] gi|322662647|gb|EFY58855.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322667020|gb|EFY63195.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322671389|gb|EFY67512.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322677604|gb|EFY73667.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322681570|gb|EFY77600.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322683970|gb|EFY79980.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|322715721|gb|EFZ07292.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] gi|323130996|gb|ADX18426.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323195539|gb|EFZ80717.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323197912|gb|EFZ83035.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323203090|gb|EFZ88122.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323205331|gb|EFZ90306.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323210519|gb|EFZ95403.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323218200|gb|EGA02912.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323221534|gb|EGA05947.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323223754|gb|EGA08059.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323230963|gb|EGA15081.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323234685|gb|EGA18771.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323238724|gb|EGA22774.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323241423|gb|EGA25454.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323246879|gb|EGA30846.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323253278|gb|EGA37108.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323257074|gb|EGA40783.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323260453|gb|EGA44064.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323264490|gb|EGA47996.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323269625|gb|EGA53078.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|326624429|gb|EGE30774.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|332989587|gb|AEF08570.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhimurium str. UK-1] Length = 326 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + +D Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILNQRVLVNGQLCDKPKEKVLGGERVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|165933873|ref|YP_001650662.1| ribosomal large subunit pseudouridine synthase D [Rickettsia rickettsii str. Iowa] gi|165908960|gb|ABY73256.1| ribosomal large subunit pseudouridine synthase D [Rickettsia rickettsii str. Iowa] Length = 313 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ K ++ SR ++++ I +V VN +++ V V D I Sbjct: 12 GIRLDKALSSLLENVSRNQIQKAIKDSQVLVNDVIISDPDVLVKENDIILFSFKEPEELK 71 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVG 112 + + + + V + + V L + G Sbjct: 72 IAAANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPG 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + L + L + Q + +R + + +N L+ I Sbjct: 132 IVHRLDKDTTGLMVVAKNNKAHMLLANQIEQKQVIRKYKVLVWGVINPLEGVIKNNIGRS 191 Query: 173 GDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + KGS + V L G+ +I+ V Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVV 250 >gi|28897333|ref|NP_796938.1| 23S rRNA pseudouridine synthase D [Vibrio parahaemolyticus RIMD 2210633] gi|153839761|ref|ZP_01992428.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus AQ3810] gi|260876296|ref|ZP_05888651.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus AN-5034] gi|260895103|ref|ZP_05903599.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus Peru-466] gi|260903277|ref|ZP_05911672.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus AQ4037] gi|34395767|sp|Q87S65|RLUD_VIBPA RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|28805542|dbj|BAC58822.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus RIMD 2210633] gi|149746714|gb|EDM57702.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus AQ3810] gi|308088909|gb|EFO38604.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus Peru-466] gi|308092904|gb|EFO42599.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus AN-5034] gi|308107949|gb|EFO45489.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus AQ4037] gi|328472095|gb|EGF42972.1| 23S rRNA pseudouridine synthase D [Vibrio parahaemolyticus 10329] Length = 325 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 71/249 (28%), Gaps = 33/249 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVQVNGEVVTKPRTKVMGGEEITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + + + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDQP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPLGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGP 222 L +YG Sbjct: 248 -LGDTAYGG 255 >gi|227904070|ref|ZP_04021875.1| pseudouridine synthase [Lactobacillus acidophilus ATCC 4796] gi|227868089|gb|EEJ75510.1| pseudouridine synthase [Lactobacillus acidophilus ATCC 4796] Length = 305 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 38/247 (15%), Positives = 74/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K ++ R+ K I+ SR V+ +I Q + VN +E+ + + D Sbjct: 4 MPKKYSLEVTNQRGRLDKFISEQLSDLSRTRVKELIQDQNILVN-EKVEKVSYKIQDGDK 62 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ + +P + + + + +V + V L Sbjct: 63 IEITVPAVKPLDIVAENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTQ 122 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + LE + Sbjct: 123 DLAQSPEGFRPGIVHRIDKDTSGLLMIAKNATARESLEQQLANKTNKRIYWAIVHGNFSE 182 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 183 EQGSIDAPIGRNPYDRKKMAVVENGKKAITHFKVLKQFKGYSLIECQLETGRTHQIRVHL 242 Query: 206 EFFNWKV 212 ++ V Sbjct: 243 DYIGHAV 249 >gi|110597884|ref|ZP_01386166.1| Pseudouridine synthase, RluD [Chlorobium ferrooxidans DSM 13031] gi|110340461|gb|EAT58947.1| Pseudouridine synthase, RluD [Chlorobium ferrooxidans DSM 13031] Length = 349 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 52/322 (16%), Positives = 104/322 (32%), Gaps = 48/322 (14%) Query: 11 FTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 TP R+ + + R A+R +V+ I + RV VN ++ + S D I++ Sbjct: 31 QTPMRIDQYLTRQVENATRNKVQEAIEEGRVLVNEKRVKS-NYRIKSCDTIQITFLRPPA 89 Query: 63 -----DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--------- 106 + +P+ + + + KP +V + L I Sbjct: 90 PELAPEDIPIDIIYEDEDLMVINKKPGMVVHPAFGNWTGTLANAILHHIGIGAEELDKSS 149 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------- 152 R V RLD NT GL+++ + L V + Sbjct: 150 LRPGIVHRLDKNTSGLIIVAKNPVALHRLARQFADRQVVKIYKAIVWGVPAEQSGTITTN 209 Query: 153 ---VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 +D+ + + ++ + +++ L G+ +I+ + Sbjct: 210 IGRSKKDRKVMANFPYEGKDGKTAITDYSVTENLHWFSLLSLTLHTGRTHQIRAHMQHLG 269 Query: 210 WKVNRLIRISYGPFQLGTLL----AGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSE 265 ++ L +YG L TL G R + + + R+ L L Q P+ + Sbjct: 270 HQI--LGDETYGGAVLRTLPFSRSEGFVRNLLELLPRQALHAATLSFHQPTTREPLSFTA 327 Query: 266 TLVRDRPNIISEVPDDFTRMKK 287 L D + I ++ + Sbjct: 328 PLPEDMQSAIEKIRAVVEANSR 349 >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 = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 50/216 (23%), Positives = 88/216 (40%), Gaps = 19/216 (8%) Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 L +KP G ++ S+ R T+ + + + GRLD ++EGLLLLT+DGGL + Sbjct: 3 LIALNKPFGTMSQFSEHPSRPTLAEWIATPGV--YPAGRLDADSEGLLLLTDDGGLQARI 60 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ------------ 182 P + + Y + G D+ L L++GI + +V + Sbjct: 61 ADPRHKLAKTYFAQVEGIPDEAALARLRQGIDLGDFHTLPAKVRAVEEPSWLWPRNPPVR 120 Query: 183 ---KGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLG--TLLAGSTREVS 237 +W+ + +REGKNR+++++ + RL+R + G L L G + V Sbjct: 121 FRAAIPTSWLELQIREGKNRQVRRMTAAVGFPTLRLLRATIGRLDLRELGLQPGQSCIVE 180 Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 L E + + T ++ R Sbjct: 181 PDRLGLPPARTPRPEPRTLGSGNAGTRGTGIKGRVR 216 >gi|82545047|ref|YP_408994.1| 23S rRNA pseudouridine synthase D [Shigella boydii Sb227] gi|187732689|ref|YP_001881382.1| 23S rRNA pseudouridine synthase D [Shigella boydii CDC 3083-94] gi|81246458|gb|ABB67166.1| suppressor of ftsH mutation [Shigella boydii Sb227] gi|187429681|gb|ACD08955.1| ribosomal large subunit pseudouridine synthase D [Shigella boydii CDC 3083-94] gi|320177087|gb|EFW52104.1| Ribosomal large subunit pseudouridine synthase D [Shigella dysenteriae CDC 74-1112] Length = 326 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNLDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|312898193|ref|ZP_07757584.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis F0359] gi|310620690|gb|EFQ04259.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis F0359] Length = 306 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 69/244 (28%), Gaps = 37/244 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +V + T RV +ARA SR +I +V + +L+ A V D I ++ Sbjct: 7 VVTDKDTGIRVDIYVARALDISRSYAGNLIKNGKVSMRNRILK-ANYRVAEGDEIVIEKD 65 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + ++ + + +V + + V L + + Sbjct: 66 EAEDLTVEAENIPLDIVYEDKDIIIVNKARGMVVHPAAGNPNGTLVNALLWHCGGELSGI 125 Query: 112 G----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + D + L R + + R Sbjct: 126 NGVIRPGIVHRLDKDTSGLMVAAKTDAAHKSLAEQIKSHTARRTYVALVHGNIVEAKGRI 185 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + +K + ++ T+ + G+ V L G+ +I+ + Sbjct: 186 DAPLGRHPKDRVKMAVNMKDGKDAITHFTVLERFGNYTLVQCRLETGRTHQIRVHMAYIG 245 Query: 210 WKVN 213 V Sbjct: 246 HPVV 249 >gi|224372561|ref|YP_002606933.1| ribosomal large subunit pseudouridine synthase D [Nautilia profundicola AmH] gi|223588812|gb|ACM92548.1| ribosomal large subunit pseudouridine synthase D [Nautilia profundicola AmH] Length = 311 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 29/236 (12%), Positives = 70/236 (29%), Gaps = 32/236 (13%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K + + +RV K +++ SR ++E++I V VN +++ V + + D ++V+ Sbjct: 3 KRFISDKN--ERVDKFLSQKLNVSRNQIEQLIKNSLVSVNSKTIKKGGVKLQAGDTVDVE 60 Query: 64 ---------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 +P+ + L + P +V + V + Sbjct: 61 IKEAESSKEDYEVNFDIPVLYEDEDVLVINKPPGIVVHPAPSVKEATLVDWLKTKNYRLS 120 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL--RVYRVRFHGQVDQDKLNLLKKGIV 166 G + G L + ++L ++ LK+ + Sbjct: 121 TIAGEERFGIVHRIDKETSGALIIAKNNKAHEFLSAQLKDKTMGRYYIMLLNEPLKEAVC 180 Query: 167 IQGICYG----DMQVTLDTQKGSNAWVTV---------GLREGKNREIKKVFEFFN 209 + +++ + V L G+ +I+ Sbjct: 181 VDKPIARNPKNRLKMAYVKNGREAKTLFVPVYENVAAAKLFTGRTHQIRVHLSTIG 236 >gi|218506712|ref|ZP_03504590.1| RNA-pseudouridine synthase protein, ribosomal large subunit B [Rhizobium etli Brasil 5] Length = 102 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 23/102 (22%), Positives = 43/102 (42%), Gaps = 12/102 (11%) Query: 1 MKDKNIVQENFTPQRVS-----------KVIARAGIASRREVERMIAQQRVKVNGILLER 49 M+D+ Q+ +++ + +++ G SR + ER+IA+ RV ++G + Sbjct: 1 MRDRRPRQKTRERPKLTADAAGKRVTLPRALSKLGYCSRTQAERLIAESRVSIDGRTVND 60 Query: 50 AAVNVMS-TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSD 90 + V T I VDG + + L L + T H Sbjct: 61 PSAWVDLVTAKIRVDGHVIAAEAKIYLILNKPRGLVTTRHDP 102 >gi|205353701|ref|YP_002227502.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205273482|emb|CAR38459.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|326628807|gb|EGE35150.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] Length = 326 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + +D Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILNQRVLVNGQLCDKPKEKVLGGERVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 GRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|312880188|ref|ZP_07739988.1| hemolysin A [Aminomonas paucivorans DSM 12260] gi|310783479|gb|EFQ23877.1| hemolysin A [Aminomonas paucivorans DSM 12260] Length = 270 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ +++A G+A SR E +R I + RV+V+G ++ + A V I+VD Sbjct: 7 RLDQLLAERGLATSRTEAQRWIEEGRVRVDGFVIVKPASLVDPDQGIQVD 56 >gi|188534767|ref|YP_001908564.1| 23S rRNA pseudouridine synthase D [Erwinia tasmaniensis Et1/99] gi|188029809|emb|CAO97690.1| Ribosomal large subunit pseudouridine synthase D [Erwinia tasmaniensis Et1/99] Length = 325 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +R+ VN ++++ V+ + I +D Sbjct: 10 TVSESQLGQRLDQALAELFPDYSRSRIKEWILDRRITVNDTIIDKPKEKVLGGEQISIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARWEAQDIPLNIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLYHFPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVDALQRREITREYEAVAIGRMTAGGTVDQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >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 = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 38/186 (20%), Positives = 68/186 (36%), Gaps = 21/186 (11%) Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNL---PSIFSRVISVGRLDINTEGLLLLTNDGGL 130 + KP G+++ R L ++SVGRLD ++EGLL LT DG Sbjct: 2 AYYKIFKPYGMLSQFVYNQKRRKNKRLLGELSDFPEGIMSVGRLDQDSEGLLFLTTDGKF 61 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----------- 179 + + + +V + + + I I G Y + + Sbjct: 62 SHHITSSGMEKEYWVQVDGIAKKEHVEKLSKGLKISIYGKPYQTLACQVKLMEPPQDLPK 121 Query: 180 -------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGS 232 + G +W+++ L EGK R+++K+ RL+R G + + A Sbjct: 122 RAKDIRNENDHGVTSWLSITLTEGKFRQVRKMTAKIGLPTLRLVRYRIGEQTIEQMQAEE 181 Query: 233 TREVSK 238 E+ Sbjct: 182 VIEMHP 187 >gi|157829144|ref|YP_001495386.1| hypothetical protein A1G_07185 [Rickettsia rickettsii str. 'Sheila Smith'] gi|157801625|gb|ABV76878.1| hypothetical protein A1G_07185 [Rickettsia rickettsii str. 'Sheila Smith'] Length = 313 Score = 63.3 bits (152), Expect = 5e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ K ++ SR ++++ I +V VN +++ V V D I Sbjct: 12 GIRLDKALSSLLENVSRNQIQKAIKDSQVLVNDVIISDPDVLVKENDIILFSFKEPEELK 71 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVG 112 + + + + V + + V L + G Sbjct: 72 IAAANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPG 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + L + L + Q + +R + + +N L+ I Sbjct: 132 IVHRLDKDTTGLMVVAKNNKAHMLLANQIEQKQVIRKYKVLVWGVINPLEGVIKNNIGRS 191 Query: 173 GDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + KGS + V L G+ +I+ V Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTIELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVV 250 >gi|217968192|ref|YP_002353698.1| pseudouridine synthase, RluA family [Dictyoglomus turgidum DSM 6724] gi|217337291|gb|ACK43084.1| pseudouridine synthase, RluA family [Dictyoglomus turgidum DSM 6724] Length = 303 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 75/246 (30%), Gaps = 35/246 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K + + +R+ K +++ SR +++ +I ++ +KVN ++ + V D IE Sbjct: 3 KQRYEIYVEGESERIDKYLSKKVPLSRSQIQDLIEKELIKVNEKPIKN-SYKVKLGDRIE 61 Query: 62 V------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS- 106 V +P+ + + + +V + V L + Sbjct: 62 VIIPPPVETEVKPQDIPIEIVYEDEDMVIINKPKGMVVHPAHGHYNDTLVNALLYRVKDL 121 Query: 107 -------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 R + RLD +T GLL++ + + L + + Sbjct: 122 SGIGGELRPGIIHRLDKDTTGLLIIAKNDLSHQKLSEQLKNRTLRRTYWALCEGEIPWEE 181 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV------------GLREGKNREIKKVFEF 207 + + + + K + V L G+ +I+ Sbjct: 182 KRIEAPIGRHPINRKKMAIVPYGKIAITNFKVLERFKGYTLISADLETGRTHQIRVHISH 241 Query: 208 FNWKVN 213 + + Sbjct: 242 LGFPIV 247 >gi|157148106|ref|YP_001455425.1| 23S rRNA pseudouridine synthase D [Citrobacter koseri ATCC BAA-895] gi|157085311|gb|ABV14989.1| hypothetical protein CKO_03916 [Citrobacter koseri ATCC BAA-895] Length = 326 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 28/239 (11%), Positives = 62/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKLCDKPKEKVLGGEQVSINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEIRFEPQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V D Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVDEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|146312715|ref|YP_001177789.1| 23S rRNA pseudouridine synthase D [Enterobacter sp. 638] gi|145319591|gb|ABP61738.1| ribosomal large subunit pseudouridine synthase D [Enterobacter sp. 638] Length = 326 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 26/239 (10%), Positives = 61/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + + V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVMVNGKVWDTPKEKVLGGEVVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEVRFEAQDIPLTIVYEDDDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPPITDV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTSGGTVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRIHTRLRLRLETGRTHQIRVHMSHITHPLV 248 >gi|320530727|ref|ZP_08031771.1| pseudouridine synthase, RluA family [Selenomonas artemidis F0399] gi|320137014|gb|EFW28952.1| pseudouridine synthase, RluA family [Selenomonas artemidis F0399] Length = 301 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 29/240 (12%), Positives = 65/240 (27%), Gaps = 37/240 (15%) Query: 10 NFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVN----------VMSTD 58 + T +R+ +AR SR V+R+I V+V+G ++ V + Sbjct: 7 DSTGERLDVFLARQMENCSRSYVQRLITDGNVRVDGARVK-PNYKLRSGEEICCTVPPAE 65 Query: 59 HIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + + + + + + + +V + + V L G L Sbjct: 66 EVVIAAEDIPLDVLYEDEDIIVINKERGMVVHPAAGNLTGTLVNALLFRCRDLSGINGEL 125 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------- 155 L G + + +L + + Sbjct: 126 RPGIVHRLDKDTSGVMVAAKNDMAHHFLAQQIRSKAARREYRALVHGNIAERAGVITGDI 185 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + IV G + + G +V+ L G+ +I+ + Sbjct: 186 GRHPTDRKRMAIVRSGGKSATTHFEVLERFGDYTFVSCVLETGRTHQIRVHMTSIGHPLV 245 >gi|313114069|ref|ZP_07799621.1| S4 domain protein [Faecalibacterium cf. prausnitzii KLE1255] gi|310623478|gb|EFQ06881.1| S4 domain protein [Faecalibacterium cf. prausnitzii KLE1255] Length = 272 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 13/63 (20%), Positives = 26/63 (41%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ + + R+ V+A SR + +I RV++N + ++ V D V Sbjct: 186 EREMHSATVSSLRLDAVLAAMLHCSRGQASELIEAGRVEINHLPADKPHAQVYEGDVFTV 245 Query: 63 DGV 65 G Sbjct: 246 RGK 248 >gi|119492077|ref|ZP_01623530.1| Pseudouridine synthase, RluD [Lyngbya sp. PCC 8106] gi|119453287|gb|EAW34452.1| Pseudouridine synthase, RluD [Lyngbya sp. PCC 8106] Length = 319 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 37/246 (15%), Positives = 72/246 (29%), Gaps = 40/246 (16%) Query: 8 QENFTPQ--RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 Q PQ R+ + ++ + SR ++ +I+Q V VN + + + DHIEV Sbjct: 16 QTTLEPQNYRLDRWLSESLETLSRSRIQTLISQGHVTVNQKVCVSKKLTLKRGDHIEVKI 75 Query: 64 --GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGR----------------- 94 PL E L + +K GLV S Sbjct: 76 PPNEPLELEAVDIPLDILYEDEHLIIINKQAGLVVHPSAGHVNDTLVNALLAHCDTLAGI 135 Query: 95 -----STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + L + I V + D + + L + R + Sbjct: 136 GGVERPGIVHRLDKDTTGAIVVAKTDFSLQSLQQQIKNKTAQRQYLGVVYGSHKADFGTI 195 Query: 150 HGQVDQD--KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + + + +G + + G+ + + L G+ +I+ F Sbjct: 196 EQPIGRHLADRKKMAVVTIERGGRNAITHWQIQERLGNYSLILFTLETGRTHQIRVHSNF 255 Query: 208 FNWKVN 213 + Sbjct: 256 IGHPIV 261 >gi|73662884|ref|YP_301665.1| pseudouridylate synthase [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|72495399|dbj|BAE18720.1| putative pseudouridylate synthase [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 305 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 30/243 (12%), Positives = 65/243 (26%), Gaps = 34/243 (13%) Query: 5 NIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLER-AAVN------VMS 56 I T QR+ K++ SR +++ I VKVN +++ V Sbjct: 7 KIENPEDTGQRIDKLLPEYHSEWSRTQIQDWIKASLVKVNDQVIKSNYKTKMNDHIVVTE 66 Query: 57 TDHIEVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +E D P + + +Y +V + + V + + + Sbjct: 67 KETVEADIQPENLNLDIYYEDDDVAIVYKPKGMVVHPSAGHYTGTLVNGLMYQMKNLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQ--- 155 G + + G L + + V V D Sbjct: 127 NGEIRPGIVHRIDKDTSGLLMVAKNDVAHRSLVDQLVNKTVTRKYVALVHGKIPHDYGTV 186 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 N + V+ + + L G+ +I+ ++ + Sbjct: 187 DAPIGRNKNDRQSMDVVDDGKEAVTHFNVLEHFNKYTLIECQLETGRTHQIRVHMKYIGY 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|323486916|ref|ZP_08092232.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] gi|323399779|gb|EGA92161.1| pseudouridine synthase [Clostridium symbiosum WAL-14163] Length = 305 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 29/250 (11%), Positives = 74/250 (29%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK + IV E + R+ K + +R +++++ + V+VNG ++ + + D Sbjct: 1 MKQEYIVPEKSSGLRIDKFLTESCPDYTRSFLQKLLKSELVEVNGKPVKS-SYKTAAGDT 59 Query: 60 IEVD-GVPLR-------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + + + + + +V + + V + Sbjct: 60 VTFEVPEAVEAEITAQEMPLDILYEDEDVILINKPKGMVVHPAAGHYEGTLVNGLMHHCR 119 Query: 106 ---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR---------- 146 R V R+D++T G+L++ + + + Sbjct: 120 EQLSGINGVMRPGIVHRIDMDTTGVLIVCKNDLAHNSIAEQLKVHSITRKYYAVVFGSLK 179 Query: 147 ---VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 H + + + K I + + + V L G+ +I+ Sbjct: 180 DDEGTIHAPIGRHPNDRKKMSINSKNGKDAVTHYKVLERFHGYTLVECRLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + Sbjct: 240 HMASIGHPLL 249 >gi|298251897|ref|ZP_06975700.1| pseudouridine synthase, RluA family [Ktedonobacter racemifer DSM 44963] gi|297546489|gb|EFH80357.1| pseudouridine synthase, RluA family [Ktedonobacter racemifer DSM 44963] Length = 317 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 39/244 (15%), Positives = 79/244 (32%), Gaps = 39/244 (15%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---- 61 V+ QR+ + + SR V+++IA V VNG + + + D + Sbjct: 17 VESEQVGQRLDRFLVSVLDGVSRSGVQQLIADALVLVNGKV-SKPGYVLRLKDRVTALRA 75 Query: 62 --------VDGVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 V L E L + +K G+V + + T+ + L + + Sbjct: 76 TPASQMKQVTPQNLPLEVVFEDDDLLIVNKAAGMVVHPAPGNYEGTLVNALVAHYPELQQ 135 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY-------------RVR 148 R + RLD +T GLL++ + L Q + + Sbjct: 136 DEGDMRPGIIHRLDKDTSGLLMVAKNAQSQAALIEQMKQHKIIKRYLALVEGNVELDQGS 195 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + + + + + + V V + G+ +I+ F+ Sbjct: 196 IDAPIGRDTRHRQMMAVTLTEGRDAVTHFRVLQRFRKHTLVLVQIVTGRTHQIRVHFQAI 255 Query: 209 NWKV 212 V Sbjct: 256 KHPV 259 >gi|153810897|ref|ZP_01963565.1| hypothetical protein RUMOBE_01281 [Ruminococcus obeum ATCC 29174] gi|149833293|gb|EDM88375.1| hypothetical protein RUMOBE_01281 [Ruminococcus obeum ATCC 29174] Length = 304 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 39/244 (15%), Positives = 80/244 (32%), Gaps = 38/244 (15%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + + R+ K +A SR +++++ V VN +++ A DH+ ++ Sbjct: 8 IDSSEKNVRIDKYLAECCPDLSRSYLQKLLKDGAVSVNTRIVK-ANYKTQPGDHVILNIP 66 Query: 64 ----------GVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 +PL E L + +KP +V S T+ + + + Sbjct: 67 DLQTPDIKPENIPLDILYEDQWLMVVNKPKDMVVHPSAGHMEGTLVNAVMAHCGDNLSGI 126 Query: 106 ---SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-------------F 149 R V R+D +T G LL+ D + R L + R R Sbjct: 127 NGVMRPGIVHRIDKDTTGALLICKDDMVHRNLAEQLKEHSIKRRYRAIVQGNIKEDEGTV 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + ++ K I + + + G ++ L G+ +I+ Sbjct: 187 DAPIGRHPIDRKKMAINHKNGKEAVTHYKVLERFGQTTYIECRLETGRTHQIRVHMASLG 246 Query: 210 WKVN 213 + Sbjct: 247 HPLL 250 >gi|225572138|ref|ZP_03781002.1| hypothetical protein RUMHYD_00432 [Blautia hydrogenotrophica DSM 10507] gi|225040404|gb|EEG50650.1| hypothetical protein RUMHYD_00432 [Blautia hydrogenotrophica DSM 10507] Length = 307 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 37/243 (15%), Positives = 75/243 (30%), Gaps = 38/243 (15%) Query: 8 QENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 +E QR+ K +AR SR ++++ V ++G + + A+ + D I Sbjct: 12 EEQDENQRIDKYLARVMPEISRSYFQKLLKDGGVFIDGKVAK-ASDRLQCGDEIYFQMPK 70 Query: 63 ----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----- 107 D P + + L + +V + V L + Sbjct: 71 SREPDIEPEDLSLDILYEDPYLLVINKPKGMVVHPCPGHYSGTLVNGVLFHCKGQLSGIN 130 Query: 108 ----VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-------------FH 150 V R+D +T G L++ D R L + + R R Sbjct: 131 GVLRPGIVHRIDKDTTGALVVCKDDQTHRNLAVQLAEHTITRRYRAIVTGNLSADEGTVE 190 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 G + + ++ K I + + + G ++ L G+ +I+ Sbjct: 191 GPIGRHPVDRKKMSINFKNGKDAVTHYRVLERFGKATYIECRLETGRTHQIRVHLSSIGH 250 Query: 211 KVN 213 + Sbjct: 251 PLL 253 >gi|309389006|gb|ADO76886.1| ribosomal large subunit pseudouridine synthase D [Halanaerobium praevalens DSM 2228] Length = 303 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 30/249 (12%), Positives = 83/249 (33%), Gaps = 37/249 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 MK+ + V++ QR+ K +A+ SR ++++I ++ +KVN ++++ + +++ D Sbjct: 1 MKEYSLTVKKKDQGQRIDKYLAKYFKDLSRSFIQKLIKEKEIKVNNRVIDK-SYKIINND 59 Query: 59 HIEVDGVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ + ++ + + +V + V L + Sbjct: 60 FIELKLKEQESKVKAVAMKLDIVYEDQDIIVINKDADRVVHPAPGHYNDTIVNGLLACVD 119 Query: 106 SRVISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRV 144 + G + D + + L + + L Sbjct: 120 NLSAINGIKRPGIVHRLDKDTSGLLIVAKNDKSHKSLAKQFKARTVDKYYFALIEGNLAY 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + + +D + K + + + + + V V + G+ +I+ Sbjct: 180 KKGKIEAPIGRDPNHRKKMAVRKRHSKNAISRFKIIEEFNHYTLVEVKIETGRTHQIRVH 239 Query: 205 FEFFNWKVN 213 F + + Sbjct: 240 FSYLGHPIV 248 >gi|312869892|ref|ZP_07730031.1| pseudouridine synthase, RluA family [Lactobacillus oris PB013-T2-3] gi|311094477|gb|EFQ52782.1| pseudouridine synthase, RluA family [Lactobacillus oris PB013-T2-3] Length = 304 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 24/231 (10%), Positives = 56/231 (24%), Gaps = 35/231 (15%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ KV+A SR +++ I V+VNG ++ + D + ++ Sbjct: 16 RIDKVLAHQFNQFSRSHLQKWIVDGNVRVNGQPVK-PKYKLAVGDQVVIEPEAPQKVDLT 74 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + + + + +V + V L I+ Sbjct: 75 PEKIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPLSTINGEFRPGIVH 134 Query: 120 GL-------------------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + L + + + Sbjct: 135 RIDKDTSGLLMVAKNDLAHRSLAAQLKAKTNQREYVALVHGVIKQDAGTIDAPIGRSKKD 194 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK V+ + + + V+ L G+ +I+ + Sbjct: 195 RKKQAVVSDGRHAVTHFKVLRRFRHYTLVSCRLETGRTHQIRVHMKSIGHP 245 >gi|229829077|ref|ZP_04455146.1| hypothetical protein GCWU000342_01162 [Shuttleworthia satelles DSM 14600] gi|229792240|gb|EEP28354.1| hypothetical protein GCWU000342_01162 [Shuttleworthia satelles DSM 14600] Length = 306 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 67/242 (27%), Gaps = 39/242 (16%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 + R+ + +A SR ++++I + V VNG A+ + D I V Sbjct: 11 EESGLRIDRYLADHLDGQSRNSIQKLIEEGLVLVNGNACR-ASYKLQEKDQIFVSVPDAV 69 Query: 63 ----------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGR------------ 94 D L + + ++ P T + Sbjct: 70 LTELRPERIPLDILYEDDQLLIVNKPKEMVVHPAPGHNTGTLVNAIMYHCGKELSGINGE 129 Query: 95 --STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 + + + + V + D + + + RV L Sbjct: 130 IRPGIVHRIDMNTTGSLIVCKTDAAHRFIASQIKEHSVHRVYRAIVYGHLNPTEGTIRTS 189 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFFNWK 211 + +D + K + ++ + +N ++V L G+ +I+ Sbjct: 190 IGRDPRDRKKMSVGVKNGRQAITHYRELARLRNNFSYVEFELETGRTHQIRVHMASIGHP 249 Query: 212 VN 213 + Sbjct: 250 IL 251 >gi|323466424|gb|ADX70111.1| Pseudouridine synthase [Lactobacillus helveticus H10] Length = 310 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 74/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K +Q R+ K ++ SR V+ ++ ++ + VN + + + + + D Sbjct: 8 MPKKYELQVENEYGRLDKFVSEQIPDLSRTRVKELVKEKEILVNHKVEKV-SYKIQAGDK 66 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE++ ++ + + + +V + V L Sbjct: 67 IEINVPAVKPLDVVPENIPLDIVYEDEDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTQ 126 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + LE + Sbjct: 127 DLAQSPEGFRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIYWAIVHGNFGE 186 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 187 ENGVIDAPIGRNPYDRKKMAVVENGKKAVTHFKVLRQFKGYSLIECQLETGRTHQIRVHL 246 Query: 206 EFFNWKV 212 ++ V Sbjct: 247 DYIGHAV 253 >gi|56414629|ref|YP_151704.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|56128886|gb|AAV78392.1| ftsH suppressor protein SfhB [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] Length = 326 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + +D Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILNQRVLVNGQLCDKPKEKVLGGERVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHLGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|317056645|ref|YP_004105112.1| RluA family pseudouridine synthase [Ruminococcus albus 7] gi|315448914|gb|ADU22478.1| pseudouridine synthase, RluA family [Ruminococcus albus 7] Length = 304 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 35/245 (14%), Positives = 73/245 (29%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V E R+ KV+++ SR +++++ V VNG ++ + + ++D I V+ Sbjct: 8 TVSEENIGDRIDKVLSKQLPEMSRSSLQKLVNDGCVLVNGNIVSK-NYKIKNSDTISVEI 66 Query: 64 -----------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 +P+ + + L + +V + + V L R+ S Sbjct: 67 PEAEELKAEPQDIPIDIVYEDDSLLVVNKPQGMVVHPAAGNPDGTLVNALLFHCKGRLSS 126 Query: 111 VG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + D L D R + Sbjct: 127 INGVIRPGIVHRIDKFTSGLLMVAKTDKAHNFLAQQIKDHNFTREYNAICIGRFKEPTGT 186 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + K + K + Q + G + V L G+ +I+ F Sbjct: 187 VNEPIGRSKFDRKKMCVTYQNCKEAVTHYEVLEDLGQYSLVKFRLETGRTHQIRVHSAFI 246 Query: 209 NWKVN 213 V Sbjct: 247 GHPVL 251 >gi|303272139|ref|XP_003055431.1| predicted protein [Micromonas pusilla CCMP1545] gi|226463405|gb|EEH60683.1| predicted protein [Micromonas pusilla CCMP1545] Length = 126 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 2/72 (2%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--VMSTDH 59 KD+ P+R KV+A G R E + I RV G +++ V D Sbjct: 38 KDRKSGPIVEEPERADKVLASHGYCKRSEAKAWIRHGRVTFEGDVVKTCDAKVVVRLYDG 97 Query: 60 IEVDGVPLRKAE 71 + VDG P+ + Sbjct: 98 VCVDGKPVPLTK 109 >gi|193212389|ref|YP_001998342.1| pseudouridine synthase, RluA family [Chlorobaculum parvum NCIB 8327] gi|193085866|gb|ACF11142.1| pseudouridine synthase, RluA family [Chlorobaculum parvum NCIB 8327] Length = 349 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 40/248 (16%), Positives = 78/248 (31%), Gaps = 42/248 (16%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + TP R+ + + + +R +V+ I + RV VNG ++ V S DHI + Sbjct: 27 VSKVQTPMRIDRYLTQQVENMTRNKVQAAIEEGRVLVNGKPVKS-NYRVKSCDHIHLTFL 85 Query: 63 ---------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + +P+ E L + K G+V + + T+ + + Sbjct: 86 RPPAPELAPEDIPITILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLGKDADEL 145 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------ 155 R V RLD +T GL+++ + L + Sbjct: 146 DKTEMRPGIVHRLDKDTSGLIIIAKNPTALHKLARQFANRQVEKVYKAIVWGVPKAESGT 205 Query: 156 --------DKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K + +G + G + + V L G+ +I+ Sbjct: 206 IKTNIGRSHKNRKVMANFPYEGAEGKHAITDYQVVEDLGYFSLMDVTLHTGRTHQIRVHL 265 Query: 206 EFFNWKVN 213 + + Sbjct: 266 QHLGHSIL 273 >gi|329766891|ref|ZP_08258419.1| hypothetical protein HMPREF0428_00116 [Gemella haemolysans M341] gi|328837616|gb|EGF87241.1| hypothetical protein HMPREF0428_00116 [Gemella haemolysans M341] Length = 299 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 31/247 (12%), Positives = 76/247 (30%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + I+ + +R+ K + + SR ++ +I++ +KV+G ++ + + Sbjct: 1 MDTQKIIYTSPKSERIDKFLQQELTDVSRTNIQNLISEGYIKVDGNNIKT-NYKLKDGNV 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I ++ + + + + +V + V L Sbjct: 60 ITIEYKEPEELDVVKQDIPIDIVYEDDDLIIVNKAKGMVVHPSVGHKDGTLVNALLFHSE 119 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRFHGQVD 154 R V R+D +T GLL++ + ++ + V + D Sbjct: 120 LSSINGTIRPGIVHRIDKDTSGLLIVAKNDKAHVKLSEMIANKDVKRKYYALVHGSIKHD 179 Query: 155 Q--------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ VI + + + L G+ +I+ + Sbjct: 180 YGTIDAPIARNPKERKEMAVIDEGKLSITHFKVVDRFEKYTLIECELETGRTHQIRVHMK 239 Query: 207 FFNWKVN 213 + N + Sbjct: 240 YINHPLV 246 >gi|253576153|ref|ZP_04853485.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] gi|251844496|gb|EES72512.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14] Length = 315 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 26/238 (10%), Positives = 65/238 (27%), Gaps = 40/238 (16%) Query: 14 QRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 +R+ K A+ + SR +++ I + VNG ++ A + D I + Sbjct: 26 ERIDKY-AKTQLGEEFSRSQIQLWIEAGNLVVNGAPVK-ANYKLAEGDRIVLVIPEAEPT 83 Query: 63 ----DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR--- 113 + +PL + + + +V + V + G Sbjct: 84 EIVPEDIPLEIYYEDSDVIVVNKPRGMVVHPAPGHTSGTLVNALMFHCKDLSGINGELRP 143 Query: 114 ------------------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 D L + R + + + + Sbjct: 144 GIVHRIDKDTSGLIMAAKNDKAHASLAAQLKAHTVTRKYYALVHGNVSHDQGTVDAPIGR 203 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 D + ++ + + + + G + + L G+ +I+ +F + Sbjct: 204 DPHDRKMYTVIERNSKHAVTHFQVVERFGDYTLLELKLETGRTHQIRVHMKFIGHPLV 261 >gi|238651091|ref|YP_002916949.1| ribosomal large subunit pseudouridine synthase D [Rickettsia peacockii str. Rustic] gi|238625189|gb|ACR47895.1| ribosomal large subunit pseudouridine synthase D [Rickettsia peacockii str. Rustic] Length = 313 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ K ++ SR ++++ I +V VN +++ V V D I Sbjct: 12 GIRLDKALSSLLENVSRNQIQKAIKDSQVLVNDVIISDPDVLVKENDIILFSFKEPEELK 71 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVG 112 + + + + V + + V L + G Sbjct: 72 IAAANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPG 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + L + L + Q + +R + + +N L+ I Sbjct: 132 IVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKVLVWGVINPLEGVIKNNIGRS 191 Query: 173 GDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + KGS + V L G+ +I+ V Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVV 250 >gi|116333479|ref|YP_795006.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus brevis ATCC 367] gi|116098826|gb|ABJ63975.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus brevis ATCC 367] Length = 307 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 31/237 (13%), Positives = 67/237 (28%), Gaps = 37/237 (15%) Query: 11 FTPQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGV 65 T +R+ K++A A +A SR + + I ++ V+G ++ I V D Sbjct: 9 TTTERLDKLVADA-VATVSRSQAKLAIEAGQITVDGATVK-PKDKPKVGATIRVSLPDPE 66 Query: 66 P-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 P + + L + +V + V L I+ Sbjct: 67 PLDLTPEDIPLEIVYEDADVLVVNKPQGMVVHPAPGHPNHTLVNALLYHSPLSQINGTLR 126 Query: 115 DINTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--------- 157 + ++ ND + + V +++ Sbjct: 127 PGIVHRIDKDTSGLLMVAKNDHAHQSLSAQLQAKTNLREYVAIVHGNIKEEDGVIRAPLG 186 Query: 158 --LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK ++ + + G+ + L G+ +I+ + N V Sbjct: 187 RSPKDRKKQAIVADGRPAVTHFRVLERYGTYTLIACRLETGRTHQIRVHMAYINHPV 243 >gi|294142197|ref|YP_003558175.1| ribosomal large subunit pseudouridine synthase D [Shewanella violacea DSS12] gi|293328666|dbj|BAJ03397.1| ribosomal large subunit pseudouridine synthase D [Shewanella violacea DSS12] Length = 324 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 28/242 (11%), Positives = 67/242 (27%), Gaps = 33/242 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T QR+ + +A SR ++ I V ++G + + V+ + V Sbjct: 8 KSEITATQTGQRLDQTLADLFPDYSRTRIKEWILDGSVTIDGDVSNKPREKVLEGQIVVV 67 Query: 63 DGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + L + + +V + + + L Sbjct: 68 GATLVEETTAKAQAIDLNIVYEDDHILVINKQAGLVVHPGAGNSDGTLLNALLHHCPGIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHG 151 + RLD +T GL+++ L Sbjct: 128 LVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVSALQAREITREYEAIVLGSLISGGTVDE 187 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +D+ +V G + + ++ + + L G+ +I+ Sbjct: 188 PIDRHPTKRTHMAVVYSGKPAMT-HFRVAEKFRAHTRLRLRLESGRTHQIRVHMAHLGHT 246 Query: 212 VN 213 + Sbjct: 247 LV 248 >gi|291279336|ref|YP_003496171.1| hemolysin A [Deferribacter desulfuricans SSM1] gi|290754038|dbj|BAI80415.1| hemolysin A [Deferribacter desulfuricans SSM1] Length = 268 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K++ + G+A SR + +R+I V VN +++ + HI++ Sbjct: 5 RLDKILFQRGLAESREKAQRLIMAGLVIVNNEKIDKPGTKIDENAHIKL 53 >gi|46579437|ref|YP_010245.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA kinase [Desulfovibrio vulgaris str. Hildenborough] gi|46448851|gb|AAS95504.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA kinase [Desulfovibrio vulgaris str. Hildenborough] gi|311233254|gb|ADP86108.1| pseudouridine synthase, RluA family [Desulfovibrio vulgaris RCH1] Length = 541 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 28/234 (11%), Positives = 63/234 (26%), Gaps = 36/234 (15%) Query: 14 QRVSKVIARA---GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 +R+ + + A SR +++R I + V+G + + + S +E+ Sbjct: 26 ERLDRFLGEALSHTDLSREKIKRAIRDGQCTVDGTVCTTPSTRLRSGQRVELAIAPAATA 85 Query: 63 ----DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G L + KP GL T+ L F + + Sbjct: 86 VEPEEGDLTIIHRDEHLLVIDKPAGLTVHPCPSCPEGTLVHRLVHHFDALRAQEGFRPGI 145 Query: 119 EGLLLLTNDG------------GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 + G L+ + + + V + + + Sbjct: 146 VHRIDKDTSGLLLVALSEGVRLKLSEAFAERTVEKEYLALVHGVPPATGEVDAPIGRHPT 205 Query: 167 IQGICY-----GDMQVTL----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + +G A V V + G+ +I+ + Sbjct: 206 HKVRMAVVKGGKPARSEWRVLHAAPEGHYALVAVRIHSGRTHQIRVHMAHAGFP 259 >gi|121601705|ref|YP_988611.1| RluA family pseudouridine synthase [Bartonella bacilliformis KC583] gi|120613882|gb|ABM44483.1| pseudouridine synthase, RluA family [Bartonella bacilliformis KC583] Length = 336 Score = 63.3 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 28/269 (10%), Positives = 70/269 (26%), Gaps = 64/269 (23%) Query: 3 DKNIVQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + I E+ QR+ + +A+ SR ++ +I + +K++G L+ + S I Sbjct: 2 TQQITDEDALGQRIDQWLAKHYQNELSRSRLQTLIREGYLKIDGKLVTEPKTKIKSNQTI 61 Query: 61 EV----------DGVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-- 104 E+ +G + + + + +V + V + Sbjct: 62 ELTIPTLNNAYPEGEAIPLHILFEDDHIIVVNKPAGLVVHPGHGNWTGTLVNALIYHCGD 121 Query: 105 ----------------------------------------FSRVISVGRLDINTEGLLLL 124 FS G LD L+ Sbjct: 122 SLSGIGGVRRPGIVHRLDKNTSGVIVVAKNDLAHKGLSAQFSDHGRTGVLDRRYHALIWG 181 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 + + + + + + + + VI+ ++ Sbjct: 182 SPNRNIGVITASLGRARYDRTKQAVIHSHNIYARHAVTHFSVIEKYQTCADKIPFA---- 237 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + L G+ +I+ + Sbjct: 238 --SLLECRLETGRTHQIRVHMAHIGHPLV 264 >gi|302391670|ref|YP_003827490.1| ribosomal large subunit pseudouridine synthase D [Acetohalobium arabaticum DSM 5501] gi|302203747|gb|ADL12425.1| ribosomal large subunit pseudouridine synthase D [Acetohalobium arabaticum DSM 5501] Length = 308 Score = 62.9 bits (151), Expect = 6e-08, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 75/244 (30%), Gaps = 37/244 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 I+ +N QR+ K +A SR ++++I V VN ++ + + D + Sbjct: 8 IIDDNDVDQRLDKFLAYQNEELSRSYIQKLIDNGEVTVN-KEEKKNSYRLQVGDEVKLII 66 Query: 61 ----EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 EV+ P + + + + + +V + V L + Sbjct: 67 PQPEEVEIKPESIPLEVIAEDEDIVVINKQADLVVHPAPGHKQGTLVNALLYHCDNLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST---------------------QWLRVYRVRF 149 G + L G + + ++ + + Sbjct: 127 NGEIRPGIVHRLDKDTSGAIVAAKNDQAHRNLVKQFKERRTEKIYLALVEGNIKHNKAKI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D N + + + + + + G+ WV + L G+ +I+ + + Sbjct: 187 DAAIGRDPYNRKRMAVTKRNSKQAVTRFEVLERFGNYTWVKLKLETGRTHQIRVHMSYID 246 Query: 210 WKVN 213 V Sbjct: 247 NPVV 250 >gi|268593137|ref|ZP_06127358.1| ribosomal large subunit pseudouridine synthase D [Providencia rettgeri DSM 1131] gi|291311410|gb|EFE51863.1| ribosomal large subunit pseudouridine synthase D [Providencia rettgeri DSM 1131] Length = 325 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 27/239 (11%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 + E+ QR+ + +A SR ++ I RV+VNG ++ + V ++ I +D Sbjct: 10 TIAESQLGQRLDQALAELFPDYSRSRIKEWILADRVQVNGKVINKPKEKVFGSEQILIDA 69 Query: 64 ----GVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + L + +V + + + L Sbjct: 70 LIEEDNRWEPQDIPLNVIYEDEDILIINKPRDLVVHPGAGNPDGTILNALLYRYPEIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + A + ++ V R + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVEALQRREITREYEAVAVGRMTAGGMVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLI 248 >gi|325694604|gb|EGD36513.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK150] Length = 298 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASVAGQRLDKAVAELTDLSRSLANEQIKDGRILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLSNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIEHPV 243 >gi|157962983|ref|YP_001503017.1| RluA family pseudouridine synthase [Shewanella pealeana ATCC 700345] gi|157847983|gb|ABV88482.1| pseudouridine synthase, RluA family [Shewanella pealeana ATCC 700345] Length = 323 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 28/240 (11%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T QR+ + +A SR ++ I V ++G ++ V+ + + Sbjct: 8 KSEITATQTGQRLDQTLADLFPDYSRTRIKEWILSGSVFIDGETSDKPRFKVLEGQVVTI 67 Query: 63 DGVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 G + + L + + +V + + + L Sbjct: 68 -GATLEEETKAEAEAIDLDIIYEDDHILVINKQAGLVVHPGAGNQSGTLMNALLHHCPGI 126 Query: 108 VISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFH 150 + RLD +T GL+++ L Sbjct: 127 ELVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVTALQAREITREYEAIVTGTIIAGGTVD 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +D+ +V G + + ++ + + L G+ +I+ Sbjct: 187 EPIDRHPTKRTHMAVVHNGKPAMT-HYRVAEKFRAHTRLRLRLESGRTHQIRVHMAHIGH 245 >gi|257898611|ref|ZP_05678264.1| pseudouridylate synthase [Enterococcus faecium Com15] gi|257836523|gb|EEV61597.1| pseudouridylate synthase [Enterococcus faecium Com15] Length = 303 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 30/235 (12%), Positives = 67/235 (28%), Gaps = 36/235 (15%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ KV+ SR +++ + ++ V VNG ++ A V D I V Sbjct: 11 ESGRIDKVLTNLFSDYSRSQIQLWLKERAVSVNGQPVK-ANYKVKQGDEITVLIPEPETL 69 Query: 63 ----DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +P + + + +V + + V + I G + Sbjct: 70 DVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHIKDLSTINGVIRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQ------------WLRVYRVRFHGQVDQDKLNL---- 160 + G L + + V V ++ +N Sbjct: 130 GIVHRIDKDTSGLLMVAKNDQAHESLAKQLKDKTSLRKYVALVHGEIPHEKGTINAPIGR 189 Query: 161 ----LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K + + T+ + V + L G+ +I+ ++ + Sbjct: 190 SKENRKMQAIREDGKPAVTHFTVLERFEGFTLVELKLETGRTHQIRVHMKYIGYP 244 >gi|126173261|ref|YP_001049410.1| RluA family pseudouridine synthase [Shewanella baltica OS155] gi|152999620|ref|YP_001365301.1| RluA family pseudouridine synthase [Shewanella baltica OS185] gi|160874239|ref|YP_001553555.1| RluA family pseudouridine synthase [Shewanella baltica OS195] gi|217974428|ref|YP_002359179.1| RluA family pseudouridine synthase [Shewanella baltica OS223] gi|304410382|ref|ZP_07392000.1| pseudouridine synthase, RluA family [Shewanella baltica OS183] gi|307304474|ref|ZP_07584224.1| pseudouridine synthase, RluA family [Shewanella baltica BA175] gi|125996466|gb|ABN60541.1| ribosomal large subunit pseudouridine synthase D [Shewanella baltica OS155] gi|151364238|gb|ABS07238.1| pseudouridine synthase, RluA family [Shewanella baltica OS185] gi|160859761|gb|ABX48295.1| pseudouridine synthase, RluA family [Shewanella baltica OS195] gi|217499563|gb|ACK47756.1| pseudouridine synthase, RluA family [Shewanella baltica OS223] gi|304350866|gb|EFM15266.1| pseudouridine synthase, RluA family [Shewanella baltica OS183] gi|306911876|gb|EFN42300.1| pseudouridine synthase, RluA family [Shewanella baltica BA175] gi|315266473|gb|ADT93326.1| pseudouridine synthase, RluA family [Shewanella baltica OS678] Length = 324 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 66/238 (27%), Gaps = 31/238 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T R+ + +A SR ++ I V V+G+++ + V I + Sbjct: 8 KSEISATQTGLRLDQALAELFPDYSRTRIKEWILSDAVHVDGVVVNKPREKVYELQQILI 67 Query: 63 D--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D + + + + + + +V + + + L Sbjct: 68 DATLEEEVHAAAQAIDLDIVYEDDDIIVINKQAGLVVHPGAGNADGTLMNALLHHCPDIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 RLD +T GL+++ L Sbjct: 128 HVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREITREYEAIVMGTMTGGGTVDE 187 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 L V+ + + ++ + + L G+ +I+ E+ Sbjct: 188 PIGRHLTKRTHMAVLHSGKPAVTHYRVAEKFRNHTRLRLRLESGRTHQIRVHMEYIGH 245 >gi|315453361|ref|YP_004073631.1| putative ribosomal pseudouridine synthase [Helicobacter felis ATCC 49179] gi|315132413|emb|CBY83041.1| putative ribosomal pseudouridine synthase [Helicobacter felis ATCC 49179] Length = 247 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 23/201 (11%), Positives = 58/201 (28%), Gaps = 5/201 (2%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRKAERTRL 75 K+++ S ++ +++I RV + G L A EV + E L Sbjct: 6 KLLSAQMGISHKQAQKLIDLGRVCLGGRKLTLARQLCPLQSKFEVQNSKAQILYQETDWL 65 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL- 134 +L + L + V+++ + + +GL + Sbjct: 66 FLNKPAGVNSYALEKQHPPYKLLHRLDLPTTGVLALAQNHAHAQGLEAFKKRAVYKEYIA 125 Query: 135 --ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + + + + K ++ ++T Q + + V Sbjct: 126 LVQGVIKKPQTLRMPLRVQKSHIEDAKGFVKTLLDPAGRPACTKITPLKQYKNKTLLKVV 185 Query: 193 LREGKNREIKKVFEFFNWKVN 213 + G +I+ + Sbjct: 186 ITTGITHQIRAHLSALGCPIV 206 >gi|313678868|ref|YP_004056608.1| ribosomal large subunit pseudouridine synthase, RluA family [Mycoplasma bovis PG45] gi|312950295|gb|ADR24890.1| ribosomal large subunit pseudouridine synthase, RluA family [Mycoplasma bovis PG45] Length = 284 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 37/267 (13%), Positives = 83/267 (31%), Gaps = 44/267 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K + +N +++ K I+ SR + +++ Q+ VK+NG + + + D + Sbjct: 3 KFVAHKNDGGRKLIKYISSLFKDLPESR--IYKLLRQKCVKINGKRITDSNHIINEGDEV 60 Query: 61 EVDGV-----------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 + G+ + + L + K +V + Sbjct: 61 VIYGIKEQATIYIYDVGLQLDSKIIYEDDNILIINKKAGKVVHGELLCLDNQVLSYLKFK 120 Query: 104 IFSRVISV--GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 S GRLD T GL++ + R L + ++Y ++ + ++ Sbjct: 121 QNSSFKPSHVGRLDKWTSGLIVYAKNYKALRELNDKIGFFDKIYTLKSDYNGGDNVVSAY 180 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTV-------GLREGKNREIKKVFEFFNWKVNR 214 + + V L G+ +I+ E+ + + Sbjct: 181 IHHDEKMQKMIVTKNPAGLNNQIVKTKIYVDSNKLYAQLLTGRKHQIRATMEYLGYPI-- 238 Query: 215 LIRISYGPFQLGTLLAGSTREVSKKIL 241 YG + G R+ + K + Sbjct: 239 -----YGDIKYG------WRKKTNKRI 254 >gi|150024746|ref|YP_001295572.1| 23S rRNA pseudouridine synthase [Flavobacterium psychrophilum JIP02/86] gi|149771287|emb|CAL42756.1| Probable 23S rRNA pseudouridine synthase [Flavobacterium psychrophilum JIP02/86] Length = 347 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 32/269 (11%), Positives = 78/269 (28%), Gaps = 40/269 (14%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE- 61 K + + + R+ K + A+R ++++ + VN I ++ V D + Sbjct: 20 KFVATKGQSILRIDKYLMHLLENATRNKIQQAATSGNIFVNNIPVKS-NYKVKPFDVVTI 78 Query: 62 ----------VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 VD + + L + +V + V + Sbjct: 79 MLSHPPFENRVDPEDIPLDIVYEDDALLLINKPAGLVVHPGHGNYTGTLVNALAFHFQNL 138 Query: 108 VISV-------GRLDINTEGLLLLTNDGGLARV----LELPSTQWLRVYRVRFHGQVD-- 154 ++ R+D +T GLL++ E +++ + V + Q D Sbjct: 139 PLNSSERPGLVHRIDKDTTGLLVIAKTEQAMTHLAKQFENKTSEREYIAIVWGNVQKDEG 198 Query: 155 -------QDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + ++ + + + G ++ L G+ +I+ Sbjct: 199 TIEGNLARHLKDRMQMAVFADPEIGKPAITHYKVLERFGYITVISCKLETGRTHQIRAHL 258 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + R G L + Sbjct: 259 KHIGHPLFNDERYG-GHLILKGTTFTKYK 286 >gi|91227645|ref|ZP_01261922.1| ribosomal large subunit pseudouridine synthase D [Vibrio alginolyticus 12G01] gi|91188424|gb|EAS74718.1| ribosomal large subunit pseudouridine synthase D [Vibrio alginolyticus 12G01] Length = 325 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 73/249 (29%), Gaps = 33/249 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+V+G ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVQVDGEVVTKPRTKVMGGEEITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDEDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + + + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDQP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPMGKPAVTHYRVAERFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGP 222 L I+YG Sbjct: 248 -LGDIAYGG 255 >gi|238756473|ref|ZP_04617780.1| Ribosomal large subunit pseudouridine synthase D [Yersinia ruckeri ATCC 29473] gi|238705322|gb|EEP97732.1| Ribosomal large subunit pseudouridine synthase D [Yersinia ruckeri ATCC 29473] Length = 325 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +V V+G + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDDKVSVDGKTINKPKEKVLGGEIVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 QIEEAARWEPQEIPLDIVYEDSDILVINKPRGLVVHPGAGNPDGTVLNALLYYYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGKMTAGGLVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|331701446|ref|YP_004398405.1| RluA family pseudouridine synthase [Lactobacillus buchneri NRRL B-30929] gi|329128789|gb|AEB73342.1| pseudouridine synthase, RluA family [Lactobacillus buchneri NRRL B-30929] Length = 302 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 40/247 (16%), Positives = 72/247 (29%), Gaps = 38/247 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK+ I + R+ KVI+ SR + +I Q +K+NG ++ V S D Sbjct: 1 MKEYIITNQTG---RLDKVISELDSSISRSRAKNLIDDQHLKINGEPVK-PKYQVKSGDK 56 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+VD V + + + + +V + V L Sbjct: 57 IQVDSVQPTPISLEPENMPLDIVYEDDDVIVVNKPQGMVVHPSPGHPDHTLVNALLYHSP 116 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYR 146 R V R+D +T GLL++ + + L Sbjct: 117 LSTINGEFRPGIVHRIDKDTSGLLMVAKNDKAHQFLSQQLQAQKNLRKYVALVHGRIKED 176 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK V+ + + V L G+ +I+ + Sbjct: 177 SGVVNAPIGRSPKDRKKQAVVSDGRSAVTHFEVLERFADYTLVACRLETGRTHQIRVHMK 236 Query: 207 FFNWKVN 213 + + Sbjct: 237 YIGHPIV 243 >gi|320449902|ref|YP_004201998.1| ribosomal RNA large subunit methyltransferase J [Thermus scotoductus SA-01] gi|320150071|gb|ADW21449.1| ribosomal RNA large subunit methyltransferase J [Thermus scotoductus SA-01] Length = 244 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G+A SR + +R+I +VKV G ++ + A V +EV Sbjct: 1 MRLDRYLVERGLAESREKAQRLIQSGQVKVAGQVVTKPAHRVPEGAQVEV 50 >gi|120603012|ref|YP_967412.1| RluA family pseudouridine synthase [Desulfovibrio vulgaris DP4] gi|120563241|gb|ABM28985.1| dephospho-CoA kinase / ribosomal large subunit pseudouridine synthase D [Desulfovibrio vulgaris DP4] Length = 541 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 28/234 (11%), Positives = 63/234 (26%), Gaps = 36/234 (15%) Query: 14 QRVSKVIARA---GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 +R+ + + A SR +++R I + V+G + + + S +E+ Sbjct: 26 ERLDRFLGEALSHTDLSREKIKRAIRDGQCTVDGTVCTTPSTRLRSGQRVELAIAPAATA 85 Query: 63 ----DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G L + KP GL T+ L F + + Sbjct: 86 VEPEEGDLTIIHRDEHLLVIDKPAGLTVHPCPSCPEGTLVHRLVHHFDALRAQEGFRPGI 145 Query: 119 EGLLLLTNDG------------GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 + G L+ + + + V + + + Sbjct: 146 VHRIDKDTSGLLLVALSEGVRLKLSEAFAERTVEKEYLALVHGVPPATGEVDAPIGRHPT 205 Query: 167 IQGICY-----GDMQVTL----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + +G A V V + G+ +I+ + Sbjct: 206 HKVRMAVVKGGKPARSEWRVLHAAPEGHYALVAVRIHSGRTHQIRVHMAHAGFP 259 >gi|229824765|ref|ZP_04450834.1| hypothetical protein GCWU000182_00113 [Abiotrophia defectiva ATCC 49176] gi|229791094|gb|EEP27208.1| hypothetical protein GCWU000182_00113 [Abiotrophia defectiva ATCC 49176] Length = 326 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 37/267 (13%), Positives = 89/267 (33%), Gaps = 49/267 (18%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V E+ +R+ K ++ + SR ++ +I + +V+V G ++ + V +I + Sbjct: 27 VVSEDS-GERIDKYLSGKLTEYSRSYLKGLIDEGKVRVEGKPVKS-SFKVTEGINISISI 84 Query: 65 VPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--- 107 P++ + + + +V + + V + Sbjct: 85 PPVKEAEIIPENIPLDILYEDEDVILINKPKGMVVHPAAGHYTGTLVNALMYHCRDNLSG 144 Query: 108 ------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------------VR 148 V R+D++T G+++ + R++ + + R Sbjct: 145 INGELRPGIVHRIDMDTTGVIIACKNDVSHRIIAEQLKEHSIKRKYQAIVYGVFKDEEGR 204 Query: 149 FHGQVDQDKLNLLKKGIVIQGIC----YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 G + + K + K ++ G Y ++ + A + L G+ +I+ Sbjct: 205 IEGSIGRSKTDRKKMAVIPDGKPAVTHYRVIRNYTSPNGNNFAHIECELETGRTHQIRVH 264 Query: 205 FEFFNWKVNRLIRISYG----PFQLGT 227 + L YG PF+L Sbjct: 265 MTSIGHPL--LGDEIYGAAKNPFKLDG 289 >gi|221633017|ref|YP_002522242.1| pseudouridine synthase, RluA family [Thermomicrobium roseum DSM 5159] gi|221156507|gb|ACM05634.1| pseudouridine synthase, RluA family [Thermomicrobium roseum DSM 5159] Length = 322 Score = 62.9 bits (151), Expect = 7e-08, Method: Composition-based stats. Identities = 36/242 (14%), Positives = 70/242 (28%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + E +R+ K+IA R SR V++++ + + VNG + A V D +EV Sbjct: 15 ISEREHGERLDKLIASRVTGMSRSFVQQLMKRGAILVNGEPCK-PAQRVRYGDRLEVYLP 73 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRS-------TVFDNLPS 103 +P+ + + P + + + D Sbjct: 74 PVEPPTDLEPEFLPIPVIYEDDDIIVFDKPPGIVTHPAPGHEHGTLVNALKAIRPDLQVQ 133 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R V RLD +T GLL++ L V + + + Sbjct: 134 PSHRPGIVHRLDKDTSGLLVVAKTEAARLALLEQWQSRSVVKKYTALVHGVVEPDSGTID 193 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVT------------VGLREGKNREIKKVFEFFNWK 211 + + + + + V + G+ +I+ F Sbjct: 194 APISRDPVERTKMAVVSWGRPAITHFRVLERFRCATLLDVTIETGRTHQIRVHCAFIGHP 253 Query: 212 VN 213 V Sbjct: 254 VV 255 >gi|312865253|ref|ZP_07725481.1| pseudouridine synthase, RluA family [Streptococcus downei F0415] gi|311099364|gb|EFQ57580.1| pseudouridine synthase, RluA family [Streptococcus downei F0415] Length = 298 Score = 62.9 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 27/236 (11%), Positives = 61/236 (25%), Gaps = 35/236 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K +A SR + + I V VNG ++A +V + D I Sbjct: 6 KEEGLRLDKALADLSNLSRSQANQAIKDGSVLVNGRP-KKAKYSVKAGDVISFEEPEEEV 64 Query: 63 -DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 D + ++ + +V + V L I G + Sbjct: 65 LDYQAENLPLEIVYEDQDLAVVNKPQGMVVHPSVGHSSGTLVNALLYRIKDLSTINGVVR 124 Query: 116 INTEGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 ++ ND + + + + + ++ I Sbjct: 125 PGIVHRIDKDTSGLLMVAKNDQAHQALADELKAKKSLRKYLAIVHGNLPNDRGKIEAPIG 184 Query: 167 IQGI---------CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + G+ + + + L G+ +I+ + Sbjct: 185 RSEKDRKKQAVTAKGRPAVTHFHVLERFGNYSLLELRLETGRTHQIRVHMAYIGHP 240 >gi|206889653|ref|YP_002248865.1| pseudouridylate synthase, 23S RNA-specific [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741591|gb|ACI20648.1| pseudouridylate synthase, 23S RNA-specific [Thermodesulfovibrio yellowstonii DSM 11347] Length = 315 Score = 62.9 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 37/244 (15%), Positives = 77/244 (31%), Gaps = 39/244 (15%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-- 65 ++ +R+ I+ SR + + I ++ VKVN ++ + + D IEV Sbjct: 8 EKADEGKRLDIFISDKLNISRAKAQEAIEKKFVKVNN-YVKTKSYKIKFNDLIEVSDEFS 66 Query: 66 --------------PLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------ 104 P++ + L + KP G+V T+ + L Sbjct: 67 LKLENSEKLIPQNIPIQVIYKDDYLIVLSKPAGMVVYPCAGHPDGTLMNALAYHVKKLAN 126 Query: 105 ---FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 R V RLD +T G++++ D L + + Sbjct: 127 VGAPFRPGIVHRLDKDTSGVMVVALDDETYYKLVEAFKKREIKKEYLALVYGQLRGSGKI 186 Query: 162 ----------KKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 +K + I+ + + + + ++ V + G+ +I+ F Sbjct: 187 TTPVGRAIYDRKKMSIKSKKAKEAITEWEVIKNFKNYTFLKVKILTGRTHQIRVHFSSIG 246 Query: 210 WKVN 213 V Sbjct: 247 HPVI 250 >gi|153834660|ref|ZP_01987327.1| ribosomal large subunit pseudouridine synthase D [Vibrio harveyi HY01] gi|156973324|ref|YP_001444231.1| 23S rRNA pseudouridine synthase D [Vibrio harveyi ATCC BAA-1116] gi|148868912|gb|EDL67970.1| ribosomal large subunit pseudouridine synthase D [Vibrio harveyi HY01] gi|156524918|gb|ABU70004.1| hypothetical protein VIBHAR_01005 [Vibrio harveyi ATCC BAA-1116] Length = 325 Score = 62.9 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 35/265 (13%), Positives = 79/265 (29%), Gaps = 35/265 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLAGKVQVNGEVVTKPRTRVMGGEEITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDEDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + + K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDKP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPMGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 L +YG + G++ E+++ Sbjct: 248 -LGDTAYGGRA--RIPTGASEELTE 269 >gi|154249509|ref|YP_001410334.1| RluA family pseudouridine synthase [Fervidobacterium nodosum Rt17-B1] gi|154153445|gb|ABS60677.1| pseudouridine synthase, RluA family [Fervidobacterium nodosum Rt17-B1] Length = 317 Score = 62.9 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 31/246 (12%), Positives = 70/246 (28%), Gaps = 43/246 (17%) Query: 15 RVSKVIARAGIASRREVE--------RMIAQQRVKVNGILLERAAVNVMSTDHIE----- 61 RV K + R+ ++ + + +VK+NG ++ + + D IE Sbjct: 29 RVDKFL-------RKMLKNVPLSAIYKFLRTGKVKINGKKVKDPSTKLNIGDVIELIEES 81 Query: 62 VDG--------VPLR-----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 +D P++ E + +KP G+ + ++ + L Sbjct: 82 LDNYSREYLELKPVKMDLDIIYEDELIIAINKPAGVSVHPGKNVNKPSIIEGLIHYGKEN 141 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 L + R + ++ + V Sbjct: 142 GFEPFLVHRLDKETSGVLIVAKDRSVARELSEIISSRNVEKIYNALVFGKVQKVTINTPI 201 Query: 169 GICYG-----DMQVTLDTQKGSN---AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 ++ G + +++ V + G+ +I+K N + Y Sbjct: 202 DGQDAVSHIIPIEYFRVKLNGISVELSFLEVEIETGRKHQIRKHLSSINCPIVGDK--DY 259 Query: 221 GPFQLG 226 G F+L Sbjct: 260 GNFRLN 265 >gi|288871585|ref|ZP_06410236.1| ribosomal large subunit pseudouridine synthase D [Clostridium hathewayi DSM 13479] gi|288862917|gb|EFC95215.1| ribosomal large subunit pseudouridine synthase D [Clostridium hathewayi DSM 13479] Length = 304 Score = 62.9 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 32/250 (12%), Positives = 78/250 (31%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK + +V+E R+ K ++ R SR +++++ + V V G ++ + D Sbjct: 1 MKQQFVVEEEDKAIRIDKYLSERCPELSRSYLQKLLKAEAVFVGGKPVKS-NYKTAAGDL 59 Query: 60 IE------VDGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE V+ + + + + +V + + V + Sbjct: 60 IELEVPEAVEPKIVPEEMDLDILYEDSDIILINKPKGMVVHPAAGHYSGTLVNGLMAHCR 119 Query: 106 ---------SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLR 143 R V R+D++T G+L++ + + ++ Sbjct: 120 ADLSGINGVMRPGIVHRIDMDTTGVLIVCKNDMAHNSIAEQLKVHSITRKYYAVVHGVMK 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 G + + ++ K I + + + +V L G+ +I+ Sbjct: 180 EDEGTVSGPIGRHPVDRKKMCINEKNGRDAVTHYRVLERFRQFTYVECRLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + Sbjct: 240 HMASIGHPLL 249 >gi|325268629|ref|ZP_08135259.1| ribosomal large subunit pseudouridine synthase D [Prevotella multiformis DSM 16608] gi|324989157|gb|EGC21110.1| ribosomal large subunit pseudouridine synthase D [Prevotella multiformis DSM 16608] Length = 364 Score = 62.5 bits (150), Expect = 8e-08, Method: Composition-based stats. Identities = 38/246 (15%), Positives = 73/246 (29%), Gaps = 42/246 (17%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + P R+ K + R +SR +++ + VNG ++ V D I + Sbjct: 38 VDKGQVPVRIDKFLFERMQHSSRNRIQKAADAGFIHVNGSPVKS-NYKVRPEDVITLMLD 96 Query: 63 ---DGVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + E T L + +KP GLV + T+ + + + + Sbjct: 97 RPKHDNTIEAEDIPLDIVYEDTVLMVINKPAGLVVHPGAGNFHGTLINAVAWHLRDMPAF 156 Query: 112 GRLDI----------NTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRVR 148 D +T GLL++ R R Sbjct: 157 DPNDPEVGLVHRIDKDTSGLLVVAKTPDAKTALGKQFFNKTTHRSYNALVWGNFTEDEGR 216 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGD---MQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G + +D + L+ + G G + + G + L G+ +I+ Sbjct: 217 IEGNIARDPRDRLRMTVFPPGSETGKHAVTHYRVLERFGYTTLIECILETGRTHQIRAHM 276 Query: 206 EFFNWK 211 + Sbjct: 277 KHIGHP 282 >gi|295105659|emb|CBL03203.1| ribosomal large subunit pseudouridine synthase D [Faecalibacterium prausnitzii SL3/3] Length = 310 Score = 62.5 bits (150), Expect = 8e-08, Method: Composition-based stats. Identities = 34/255 (13%), Positives = 78/255 (30%), Gaps = 46/255 (18%) Query: 1 MKDKN-IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M+ + IV++ QR+ + ++ G+ SR ++ ++A+ V+ NG + + ++ + + Sbjct: 1 MEQREFIVEQETAGQRIDRFLSGEDTGL-SRSALQALVAEGHVQCNGKTVAK-SLKLKAG 58 Query: 58 DHIEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 D + + D P+ + L + +V + V L Sbjct: 59 DTVLLEIPDAKPIEAVPQDIPLEIVYEDSHLLVVNKPKGMVVHPAPGNQDGTLVNALLWH 118 Query: 104 IF---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 R V R+D +T GLL++ D L + Sbjct: 119 CKGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGLSQQMAVHSVERAYQTVVYGG 178 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV------------TVGLRE-----GK 197 + + + ++ + + L E G+ Sbjct: 179 FAQDEGFVEA-NLGRSKTDRKKMAVYPANEPHTKYAYTGYKVLERLGEFTLLECRLKTGR 237 Query: 198 NREIKKVFEFFNWKV 212 +I+ + V Sbjct: 238 THQIRVHMASIHHPV 252 >gi|170766082|ref|ZP_02900893.1| ribosomal large subunit pseudouridine synthase D [Escherichia albertii TW07627] gi|170125228|gb|EDS94159.1| ribosomal large subunit pseudouridine synthase D [Escherichia albertii TW07627] Length = 326 Score = 62.5 bits (150), Expect = 8e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSEKQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + + + +V + + + L V Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIVDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ + L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKNVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|147669825|ref|YP_001214643.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides sp. BAV1] gi|289433036|ref|YP_003462909.1| pseudouridine synthase [Dehalococcoides sp. GT] gi|146270773|gb|ABQ17765.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides sp. BAV1] gi|288946756|gb|ADC74453.1| pseudouridine synthase, RluA family [Dehalococcoides sp. GT] Length = 300 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 33/248 (13%), Positives = 67/248 (27%), Gaps = 39/248 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ +V E +R+ K I + +G+ SR ++ +++ + VN + ++ + + D Sbjct: 1 MRTFKLVAETA-GERLDKYITQKESGL-SRSFIQELVSSGHILVNNQSAK-PSLRLKTGD 57 Query: 59 HIEVDGVPLRKAERTR--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I ++ P +E L + P V + V L Sbjct: 58 TITIEIPPETPSELKAENIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLVNGVLALE 117 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 L L G L + L + Sbjct: 118 PEMEDFDDPLRPGIVHRLDKDTSGLLLVAKNRQALANLSAQFKERTVRKYYLALVKGELR 177 Query: 156 -----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 +K V+ + + + + V L G+ +I+ Sbjct: 178 PAEGFIEAPLGRDPQNRQKIAVVSDGRHARTGYKVLRYIQGYSLLEVKLETGRTHQIRVH 237 Query: 205 FEFFNWKV 212 F V Sbjct: 238 FAAIGHPV 245 >gi|300867006|ref|ZP_07111676.1| conserved hypothetical protein [Oscillatoria sp. PCC 6506] gi|300334989|emb|CBN56842.1| conserved hypothetical protein [Oscillatoria sp. PCC 6506] Length = 319 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 35/243 (14%), Positives = 69/243 (28%), Gaps = 37/243 (15%) Query: 8 QENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---D 63 E+ QR+ ++ SR ++ +I Q V VN ++ + NV + D I + D Sbjct: 18 TESKLSQRLDLWLSNELPDLSRSRIQNLILQGNVTVNDLICKSKKENVKNGDRIHIAIPD 77 Query: 64 GVPLRKAERTR-----------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI--- 109 PL + + +V + G + V L I Sbjct: 78 AEPLDLKPEAIPLDILYEDESLIIINKPAGLVVHPAAGHPGGTLVNALLAHCPLAEIGGV 137 Query: 110 ----SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN------ 159 V RLD +T G +++ + L+ N Sbjct: 138 LRPGIVHRLDKDTSGAIVVAKTDFAHQHLQAQLKAKTARREYLGVVYGTLKTENGTIDLP 197 Query: 160 ---------LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + +G + + G+ + L G+ +I+ Sbjct: 198 IGRHSVDRKKMAVVTIEKGGRSAVTHWQIQERLGNYTLIHFQLETGRTHQIRVHAAQIGH 257 Query: 211 KVN 213 + Sbjct: 258 PIV 260 >gi|300726252|ref|ZP_07059705.1| ribosomal large subunit pseudouridine synthase D [Prevotella bryantii B14] gi|299776449|gb|EFI73006.1| ribosomal large subunit pseudouridine synthase D [Prevotella bryantii B14] Length = 352 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 40/249 (16%), Positives = 76/249 (30%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K V E TP R+ K +A SR ++ ++VNG ++ V D I + Sbjct: 21 KVQVDEGQTPVRIDKYLAEKNPYQSRNRIQNAADAGFIQVNGTPVKS-NYKVRPNDVITL 79 Query: 63 -------------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + +P+ E L + +K G+V + T+ + + + Sbjct: 80 MLDYPKHDTSIVAENIPIDVVYEDDDLMVINKAAGMVVHPGAGNFTGTLINAIAYYLRDL 139 Query: 109 ISV----------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVY 145 S R+D +T GLL++ R + Sbjct: 140 ESFDANNPEVGLVHRIDKDTSGLLVVAKTPEAKSALGKQFFNKTTHRSYNALVWGNIVED 199 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 R G + +D N L+ + + + G + L G+ +I+ Sbjct: 200 EGRIEGNIGRDPKNRLRMKVFEPDSGIGKSAVTHYRVLERFGYTTLIECILETGRTHQIR 259 Query: 203 KVFEFFNWK 211 + Sbjct: 260 AHMKHIGHP 268 >gi|166367953|ref|YP_001660226.1| ribosomal large subunit pseudouridine synthase D [Microcystis aeruginosa NIES-843] gi|166090326|dbj|BAG05034.1| ribosomal large subunit pseudouridine synthase D [Microcystis aeruginosa NIES-843] Length = 308 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 26/240 (10%), Positives = 63/240 (26%), Gaps = 38/240 (15%) Query: 12 TPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPL 67 +R+ + + SR ++++I Q +++NG + V D +++ D PL Sbjct: 11 KKERLDAWMGSHLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIPDSQPL 70 Query: 68 R-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + + + +V + + V L + G Sbjct: 71 ELTAEAIELDILYEDDYLIIINKPADLVVHPAPGHESGTLVNALLHHCPNLAGIGGIQRP 130 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------------- 155 L G + + Q L+ + + Sbjct: 131 GIVHRLDKDTTGAIVIAKTDQAHQHLQAQLKTKTARREYIALVHGVPKSETGTIDLPIGR 190 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + V +G + + G+ + L G+ +I+ + Sbjct: 191 HRSDRQKMAIIAVEKGGRNAVTHWQVKERLGNYTLMEFRLETGRTHQIRVHSSHIGHPIL 250 >gi|94990203|ref|YP_598303.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS10270] gi|94543711|gb|ABF33759.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS10270] Length = 296 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 41/240 (17%), Positives = 77/240 (32%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + + QR+ K +A SR + I Q V VN ++A V + D I + Sbjct: 3 INVITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNDQQ-KKAKYTVQAGDVICFELPK 61 Query: 64 GVPLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-- 111 L E L + +KP G+V S T+ + L + S+ Sbjct: 62 EEVLEYQAQNIPLDIIYEDDALAIINKPQGMVVHPSAGHPSGTMVNALMYHIKDLSSING 121 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+D +T GLL++ + L + + + + + Sbjct: 122 VVRPGIVHRIDKDTSGLLMVAKTDAAHQALAEELKAKKSLRKYLAIVHGNLPNDRGMIEA 181 Query: 165 IVIQGICYGDMQ------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + Q T+ + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKEAVTRFTVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|229541180|ref|ZP_04430240.1| pseudouridine synthase, RluA family [Bacillus coagulans 36D1] gi|229325600|gb|EEN91275.1| pseudouridine synthase, RluA family [Bacillus coagulans 36D1] Length = 303 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 29/243 (11%), Positives = 73/243 (30%), Gaps = 38/243 (15%) Query: 5 NIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + + E+ +R+ K+++ SR +V++ I + VNG E+A + + D +E+ Sbjct: 6 HTILEHEANERLDKMVSSIREEWSRSQVQQWIKDGDITVNGKK-EKANYRLQTGDLVEIE 64 Query: 63 -------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D P + + L + +V + + V + Sbjct: 65 VPEPELPDIEPEDLHLDIYYEDADVLVVNKPKGMVVHPSNGHFTGTLVNGLMYHCKDLSG 124 Query: 110 SVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G + D E L ++ + R + Sbjct: 125 INGVLRPGIVHRIDKDTSGLLMVAKNDYAHEKLAAQLSEKTVTRKYFALVHGNIPHEAGT 184 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + ++ V+ + + ++ L G+ +I+ ++ Sbjct: 185 IDAPIGRDPADR-QRMAVVDNGKDAVTHFHVLERFDRYTFIECRLETGRTHQIRVHMKYI 243 Query: 209 NWK 211 Sbjct: 244 GHP 246 >gi|332992387|gb|AEF02442.1| ribosomal large subunit pseudouridine synthase D [Alteromonas sp. SN2] Length = 327 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 24/230 (10%), Positives = 59/230 (25%), Gaps = 31/230 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ +V+A SR +++ I V V+G ++ + + + V Sbjct: 22 RLDQVLADLFPEYSRSKLKTWIQGGNVSVDGQVITVPRHKMQMDEVVTVSAEIEIQVTSQ 81 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 + + L + +V + + + L + RL Sbjct: 82 AQDIALDIVYEDEHILVINKSADLVVHPGAGNPSGTVLNALLNHVPDIDKVPRAGIVHRL 141 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKK 163 D +T GL+++ L + Sbjct: 142 DKDTTGLMVVAKTLPAQTHLVDQLQTRVMSREYEAVAMGTMVAGGVVDEPIGRHATKRTH 201 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + + L G+ +I+ + Sbjct: 202 MAVRENGKPAVTHFRVIEKFRAYTHLRLKLETGRTHQIRVHMAHIKHPLL 251 >gi|163802429|ref|ZP_02196322.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. AND4] gi|159173730|gb|EDP58545.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. AND4] Length = 325 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 72/249 (28%), Gaps = 33/249 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVHVNGEVVTKPRTRVMGGEEITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDEDIIVINKPRDFVVHPGAGTPDCTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + +++ Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVEQP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPLGKPAVTHYRVAERFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGP 222 L +YG Sbjct: 248 -LGDTAYGG 255 >gi|283786206|ref|YP_003366071.1| ribosomal large subunit pseudouridine synthase D [Citrobacter rodentium ICC168] gi|282949660|emb|CBG89279.1| ribosomal large subunit pseudouridine synthase D [Citrobacter rodentium ICC168] Length = 326 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 26/239 (10%), Positives = 61/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I +RV VN + ++ V+ + + +D Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDRRVLVNDKICDKPKEKVLGGEVVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIDEEIRFEPQDIPLDIVYEDDDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + A L + ++ V D Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQLREITREYEAVAIGHMTAGGTVDEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|114775713|ref|ZP_01451281.1| RNA pseudouridine synthase family protein [Mariprofundus ferrooxydans PV-1] gi|114553824|gb|EAU56205.1| RNA pseudouridine synthase family protein [Mariprofundus ferrooxydans PV-1] Length = 291 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 62/238 (26%), Gaps = 30/238 (12%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLRK 69 QR+ + +A SRR R I + V +NG A + D+I V +G L Sbjct: 20 GQRLDQGLAEVFTLSRRRSRRAIDEGGVYLNGKRCRTAGRKLSCHDNIRVVMLEGERLIP 79 Query: 70 --------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-----------IFSRVIS 110 + ++ K + + + Sbjct: 80 FTPAQLVWQQPPLYLIHKKSGQYAQEALHRSRGTLPDELARHLELTPAQASELRPVHRLD 139 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + A + ++L V + +L + + Sbjct: 140 RDTSGLMLFSASAAMLQHLQAHWHDAVEKRYLAVVSPAPDWDDQRIRLAIDRNRDAHGRY 199 Query: 171 CYGDM------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + + ++ + A V + G++ +++ + L YG Sbjct: 200 HLSPDGRACDSEAHVVERRDNRALVELVPHTGRSHQLRVHLSALGCPI--LGDSRYGG 255 >gi|227888161|ref|ZP_04005966.1| 23S rRNA pseudouridine synthase [Escherichia coli 83972] gi|227834801|gb|EEJ45267.1| 23S rRNA pseudouridine synthase [Escherichia coli 83972] gi|307554609|gb|ADN47384.1| 23S rRNA pseudouridine synthase [Escherichia coli ABU 83972] Length = 326 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV +NG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLINGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|187734524|ref|YP_001876636.1| pseudouridine synthase, RluA family [Akkermansia muciniphila ATCC BAA-835] gi|187424576|gb|ACD03855.1| pseudouridine synthase, RluA family [Akkermansia muciniphila ATCC BAA-835] Length = 323 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 34/249 (13%), Positives = 67/249 (26%), Gaps = 41/249 (16%) Query: 5 NIVQENFTP-QRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 N+ ++ R+ + +A SR ++ +I V VNG + V D I V Sbjct: 2 NLTTDDADGKIRLDQYLAAHLPELSRSRIQSLIKSGDVLVNGSPAK-PKNPVSRGDSITV 60 Query: 63 ---DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + P + + + + + +V + + V L Sbjct: 61 RIPEPEPAEAQPQDIPLDILYEDEDVVVINKESGMVVHPAAGNPDGTIVNALLHHCGDLS 120 Query: 109 ISVGRLDI---------NTEGLLLLTNDGGLA------------RVLELPSTQWLRVYRV 147 G + L++ NDG + Sbjct: 121 GIGGVERPGIVHRLDKDTSGCLVIAKNDGAHQSLTAQFAARSTEKRYLAVVQGIPSQSSG 180 Query: 148 RFHGQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKV 204 + + +N LK +V G L S + V L G+ +I+ Sbjct: 181 TVFTHIGRHPVNRLKMAVVNPGSGKAAITDYDLLCADPSTDSSLVLCTLHTGRTHQIRVH 240 Query: 205 FEFFNWKVN 213 + + Sbjct: 241 MLYLGHPLI 249 >gi|331091117|ref|ZP_08339959.1| hypothetical protein HMPREF9477_00602 [Lachnospiraceae bacterium 2_1_46FAA] gi|330405339|gb|EGG84875.1| hypothetical protein HMPREF9477_00602 [Lachnospiraceae bacterium 2_1_46FAA] Length = 307 Score = 62.5 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 30/246 (12%), Positives = 83/246 (33%), Gaps = 38/246 (15%) Query: 2 KDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +++ I+ + R+ +++ SR ++++I ++ + VNG+ ++ A V + D + Sbjct: 3 EEQFIINQEENGMRIDVFLSKKMDNVSRSYIQKLIKEKEISVNGMAVK-ANYKVSANDIV 61 Query: 61 EV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF- 105 ++ + +PL + L + +V + V + Sbjct: 62 QLTIPDLSEPDILPENIPLDILYEDADILIVNKPKGMVVHPSPSHYTGTLVNALMYYCKD 121 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLAR-------------VLELPSTQWLRV 144 R V R+D++T G LL+ + + + ++ Sbjct: 122 DLSGINGVMRPGIVHRIDMDTTGSLLVCKNDFAHQKLAEDLKVHNIKRIYHAIVHGVIKE 181 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 G + + ++ K I + + + + ++ L G+ +I+ Sbjct: 182 DEGTVEGPIGRHPIDRKKMSINYKNGKPAVTHYRVLKRFSNYTYIECQLETGRTHQIRVH 241 Query: 205 FEFFNW 210 + Sbjct: 242 MASIHH 247 >gi|260856684|ref|YP_003230575.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] gi|257755333|dbj|BAI26835.1| 23S rRNA pseudouridine synthase [Escherichia coli O26:H11 str. 11368] Length = 326 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGELVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|157150916|ref|YP_001450379.1| RluA family pseudouridine synthase [Streptococcus gordonii str. Challis substr. CH1] gi|157075710|gb|ABV10393.1| pseudouridine synthase, RluA family [Streptococcus gordonii str. Challis substr. CH1] Length = 296 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 35/240 (14%), Positives = 67/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 V+ R+ K +A SR I ++ VNG L+++A V D I + Sbjct: 3 VKVEQAGVRLDKAVADLTDLSRSLANEQIKTGKILVNG-LVKKAKYTVKEGDVISYELPE 61 Query: 67 LRKAERTRLWL--------------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + + E + +V + + V + I G Sbjct: 62 IEEIEYVTENIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 121 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 122 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 181 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + G + V + L G+ +I+ + V Sbjct: 182 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|315658516|ref|ZP_07911388.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus lugdunensis M23590] gi|315496845|gb|EFU85168.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus lugdunensis M23590] Length = 305 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 29/243 (11%), Positives = 63/243 (25%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I T QR+ K+++ SR +++ I + V VNG ++ A V D I + Sbjct: 8 ITDTRHTGQRIDKLLSDYNHDWSRSQIQDWIKHELVIVNGKAIK-ANHKVKLHDSIVITE 66 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + ++ +Y +V + V + I Sbjct: 67 KEVVDADIQPENLNLDIYYEDKDVAIVYKPKGMVVHPSPGHYSGTLVNGLMYQIKDLSGI 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST------------QWLRVYRVRFHGQVDQ--- 155 G + + G L + + V + D Sbjct: 127 NGEIRPGIVHRIDKDTSGLLMVAKNDIAHRSLVDQLVAKSVKRKYTALVHGNIPHDYGTV 186 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + V+ + + L G+ +I+ ++ + Sbjct: 187 DAPIGRNKKDRQSMDVVDDGKDAVTHFNVLEHFKDYTLIECQLETGRTHQIRVHMKYIGY 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|227823294|ref|YP_002827266.1| putative ribosomal large subunit pseudouridine synthase D [Sinorhizobium fredii NGR234] gi|227342295|gb|ACP26513.1| putative ribosomal large subunit pseudouridine synthase D [Sinorhizobium fredii NGR234] Length = 352 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 35/263 (13%), Positives = 69/263 (26%), Gaps = 51/263 (19%) Query: 2 KDKNIVQENFTPQRVSKVI--ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 K + + R+ + A +G SR ++ +I Q V +NG+ + V D Sbjct: 21 NRKVLTADENAAGRLDAFLTEALSGEFSRNRIKALIEQGAVSINGVTVLEPKRKVHPGDR 80 Query: 60 IEV------DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E+ D P + + + L +V + + V + Sbjct: 81 FEITLPAPEDPEPKGEDIPIDVLYEDDDLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCG 140 Query: 106 ---------SRVISVGRLDINTEGLLLLTNDGGLARV-----LELPSTQWLRVYRVRFHG 151 R V RLD T G++++ + R + T L Sbjct: 141 DSLSGIGGVRRPGIVHRLDKETSGVMVVAKNDAAHRHLSDQFADHGRTGPLERAYQAVVW 200 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN---------------------AWVT 190 + + + G ++ A V Sbjct: 201 GRPRQLKGTINAALGRAGDRTKRAVKREESDDAREAITHYEVVERYHEKPDGTCLAATVE 260 Query: 191 VGLREGKNREIKKVFEFFNWKVN 213 L G+ +I+ + Sbjct: 261 CHLETGRTHQIRVHMAHIGNPLI 283 >gi|255326173|ref|ZP_05367259.1| ribosomal RNA large subunit methyltransferase J [Rothia mucilaginosa ATCC 25296] gi|255296627|gb|EET75958.1| ribosomal RNA large subunit methyltransferase J [Rothia mucilaginosa ATCC 25296] Length = 242 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + AG +SR ++IA V+VNG + +A++ V D + V Sbjct: 1 MRLDKYLVEAGFVSSRTLAAKLIAAGDVQVNGKVARKASMLVGPEDTLYV 50 >gi|325263923|ref|ZP_08130656.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp. D5] gi|324030961|gb|EGB92243.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp. D5] Length = 305 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 61/238 (25%), Gaps = 38/238 (15%) Query: 13 PQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------D 63 R+ K +A A +R ++++I+ V V G +A D I V D Sbjct: 14 GIRIDKFLAEAIPDVTRSHIQKLISTGLVTV-GQKAVKANYKTALNDEIAVRIPEPEIPD 72 Query: 64 GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG----- 112 P + + L + +V + V + + + Sbjct: 73 IQPEDIPLDILYEDNDILIVNKPKGMVVHPAPGHYSNTLVNAVMYHCRDNLSGINGVARP 132 Query: 113 -----------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + D + L + + R L+ + + Sbjct: 133 GIVHRIDMDTTGSLIICKNDTAHQALAEQLKEHHITRKYHAVVHGNLKEDSQTVDAPIGR 192 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ K + + G ++ L G+ +I+ + Sbjct: 193 HPVDRKKMSTRAPHGRQAVTHYKVLERFGEYTYIECELETGRTHQIRVHMASIGHPIV 250 >gi|291285956|ref|YP_003502772.1| pseudouridine synthase, RluA family [Denitrovibrio acetiphilus DSM 12809] gi|290883116|gb|ADD66816.1| pseudouridine synthase, RluA family [Denitrovibrio acetiphilus DSM 12809] Length = 302 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 40/250 (16%), Positives = 67/250 (26%), Gaps = 39/250 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAA-VNVMSTDHIEVD-- 63 + R+ IA SR ER++ + VKVNG + + V S D I +D Sbjct: 10 LNVETGNMRLDAYIADNTDISRSFAERLVTDEFVKVNG--VSKPKKYKVKSGDSIVIDVP 67 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----- 106 + + + V + V L Sbjct: 68 REEVPELTPVKMDIEIIYDCDEFAVINKPAGITVHPAPGHADDTIVNAMLAEFDITDDND 127 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLA------------RVLELPSTQWLRVYRVRFHGQV 153 R V RLD +T GL+++ + L Q Sbjct: 128 LRPGIVHRLDKDTSGLMIVAKNRKSREVLSKVFADRDIDKRYLAVCWGKPKELEFTIEQP 187 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK-- 211 K+ V + Y V + Q + + + G+ +I+ + Sbjct: 188 IGRHYKDRKRMCVREDGRYSKSGVRVLKQNNNAFLAEIRIFTGRTHQIRVHMSHAGFPLA 247 Query: 212 --VNRLIRIS 219 V R S Sbjct: 248 GDVVYGHRQS 257 >gi|118443119|ref|YP_878025.1| ribosomal large subunit pseudouridine synthase D [Clostridium novyi NT] gi|118133575|gb|ABK60619.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Clostridium novyi NT] Length = 304 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 32/252 (12%), Positives = 70/252 (27%), Gaps = 43/252 (17%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 MK +N + E+ R+ I++ SR +++I + V VNG + +++ + + D Sbjct: 1 MKTENFLINEDEANSRLDVFISKCFEEKSRSYAQKLIEDKNVLVNGSI-KKSNYKLKTGD 59 Query: 59 HIEV---DGVPLRKAERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSI 104 ++EV + + +V + + V L Sbjct: 60 NVEVTIKEDETINIEPEDIKLNILYEDEDVIVIDKPQGMVVHPGNGNYSGTLVNGLLYHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 S G + + G L + + + + + L +G Sbjct: 120 DSLSSINGDVRPGIVHRIDKDTSGVLVVAKNDNAH---IILSEQLKEHSMKREYVALVEG 176 Query: 165 IVIQGICY-----------------------GDMQVTLDTQKGSNAWVTVGLREGKNREI 201 I+ + + N V L G+ +I Sbjct: 177 IIKDDEGTIDEPLGRNPKDRIKRAVVRNGKNAITHYEVIRRFNKNTLVKCILETGRTHQI 236 Query: 202 KKVFEFFNWKVN 213 + N + Sbjct: 237 RVHMAHINHPLV 248 >gi|332141865|ref|YP_004427603.1| ribosomal large subunit pseudouridine synthase D [Alteromonas macleodii str. 'Deep ecotype'] gi|327551887|gb|AEA98605.1| ribosomal large subunit pseudouridine synthase D [Alteromonas macleodii str. 'Deep ecotype'] Length = 327 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 26/230 (11%), Positives = 60/230 (26%), Gaps = 31/230 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN--------VMSTDHIEVDGV 65 R+ +V+A SR +++ I V VNG ++ V + ++V Sbjct: 22 RLDQVLADLFPEYSRSKLKTWIQDGNVSVNGEVITVPRHKMQMDELVTVQAEMDVQVTSE 81 Query: 66 P------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 + + L + +V + + + L + RL Sbjct: 82 AQDIALDIVYEDEHILVINKPADLVVHPGAGNPSGTVLNALLNHVPEIDKVPRAGIVHRL 141 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKK 163 D +T GL+++ L + Sbjct: 142 DKDTTGLMVVAKTIPAQTHLVDQLQRREVSREYEAIALGTMVAGGIVDEPIGRHATKRTH 201 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + + L G+ +I+ + Sbjct: 202 MAVREMGKPAITHFRVIEKFRAYTHLRLKLETGRTHQIRVHMAHIKHPLL 251 >gi|282900595|ref|ZP_06308537.1| Pseudouridine synthase, RluD [Cylindrospermopsis raciborskii CS-505] gi|281194395|gb|EFA69350.1| Pseudouridine synthase, RluD [Cylindrospermopsis raciborskii CS-505] Length = 326 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 70/248 (28%), Gaps = 38/248 (15%) Query: 4 KNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K + QR+ + ++ SR ++ +I Q V+VNG + + + +++EV Sbjct: 23 KIHLSITQKTQRLDRYLSSVIPDLSRSRIQDLIEQGYVQVNGKVCYSKNITLDGGEYLEV 82 Query: 63 DGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + P++ + L L +V + V L + Sbjct: 83 EIPPVQAAQLVAQDIPLDILYEDEQLLILNKPAGLVVHPAPGHLEGTLVHALLAHCPNLP 142 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------- 155 G L G +A + + L++ + + Sbjct: 143 GIGGVQRPGIVHRLDKDTTGAIAIAKTDIAYKQLQLQLQSKIARREYLGVVYGAPKSESG 202 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + V QG + + G+ + L G+ +I+ Sbjct: 203 TIDLPIGRHPQQRKKMAIVPVEQGGRNAITNWHIKERLGNYTLIHFQLETGRTHQIRVHS 262 Query: 206 EFFNWKVN 213 + Sbjct: 263 AKMGHPIV 270 >gi|262163884|ref|ZP_06031623.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus VM223] gi|262027412|gb|EEY46078.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus VM223] Length = 324 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 33/264 (12%), Positives = 79/264 (29%), Gaps = 35/264 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+E+ QR+ + +A SR ++ + + ++ VNG ++ + VM + I V Sbjct: 9 QTVKESQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGEVVTKPRTKVMGGEVIVVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + + + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADGTVLNALLFHYPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 L +YG + G++ E++ Sbjct: 248 -LGDTAYGGRA--RIPKGASEELT 268 >gi|282896340|ref|ZP_06304362.1| Pseudouridine synthase, RluD [Raphidiopsis brookii D9] gi|281198836|gb|EFA73715.1| Pseudouridine synthase, RluD [Raphidiopsis brookii D9] Length = 323 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 70/248 (28%), Gaps = 38/248 (15%) Query: 4 KNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K + QR+ + ++ SR ++ +I Q V+VNG + + + +++EV Sbjct: 20 KIHLSITQKTQRLDRYLSSVIPDLSRSRIQDLIEQGYVQVNGKVCYSKNITLDGGEYLEV 79 Query: 63 DGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + P++ + L L +V + V L + Sbjct: 80 EVPPVQAAQLVAQDIPLDILYEDEQLLILNKPAGLVVHPAPGHLEGTLVHALLAHCPNLP 139 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------- 155 G L G +A + + L++ + + Sbjct: 140 GIGGVQRPGIVHRLDKDTTGAIAIAKTDIAYKQLQLQLQSKTARREYLGVVYGAPKSESG 199 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + V QG + + G+ + L G+ +I+ Sbjct: 200 TMDLPIGRHPQQRKKMAIVPVEQGGRNAITNWYIKERLGNYTLIHFQLETGRTHQIRVHS 259 Query: 206 EFFNWKVN 213 + Sbjct: 260 AKMGHPIV 267 >gi|114561852|ref|YP_749365.1| pseudouridine synthase, RluA family protein [Shewanella frigidimarina NCIMB 400] gi|114333145|gb|ABI70527.1| ribosomal large subunit pseudouridine synthase D [Shewanella frigidimarina NCIMB 400] Length = 324 Score = 62.5 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 29/243 (11%), Positives = 73/243 (30%), Gaps = 35/243 (14%) Query: 4 KNIVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K+ + T R+ + +A G+ SR ++ I + ++GI +++ V + + Sbjct: 8 KSEITAIQTGLRLDQALA--GLFPDYSRTRIKEWILSGAITIDGITVDKPREKVFESQLV 65 Query: 61 EVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 EV + + + L + + +V + + + L Sbjct: 66 EVTATLEEEVSAKAQNIDLNIVYEDDHILVINKQAGLVVHPGAGNADGTLMNALLYHCPD 125 Query: 107 RVISV-----GRLDINTEGLLLLTNDGGLARV------LELPSTQWLRVYRVRFHGQVDQ 155 RLD +T GL+++ ++ + Sbjct: 126 IEHVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQARDIVREYEAIVLGTMTAGGTV 185 Query: 156 D-----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 D + VI G + + ++ + + L G+ +I+ Sbjct: 186 DEPIERHATRRTQMAVIHGGRPSVTHYRVSEKFRAHTRLRLRLESGRTHQIRVHMAHIGH 245 Query: 211 KVN 213 ++ Sbjct: 246 ELV 248 >gi|258624747|ref|ZP_05719681.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus VM603] gi|258583034|gb|EEW07849.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus VM603] Length = 324 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 33/264 (12%), Positives = 79/264 (29%), Gaps = 35/264 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+E+ QR+ + +A SR ++ + + ++ VNG ++ + VM + I V Sbjct: 9 QTVKESQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGEVVTKPRTKVMGGEVIVVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + + + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADGTVLNALLFHYPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 L +YG + G++ E++ Sbjct: 248 -LGDTAYGGRA--RIPKGASEELT 268 >gi|260771763|ref|ZP_05880681.1| ribosomal large subunit pseudouridine synthase D [Vibrio metschnikovii CIP 69.14] gi|260613055|gb|EEX38256.1| ribosomal large subunit pseudouridine synthase D [Vibrio metschnikovii CIP 69.14] Length = 324 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 31/240 (12%), Positives = 68/240 (28%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 V+E+ QR+ + +A + SR ++ + ++ VNG ++ + VM + I V Sbjct: 9 QTVKESQLGQRLDQAVAELFVDFSRSRLKEWLLDGKITVNGTVVTKPRTKVMGGECITVL 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + L + +V + R+ + L Sbjct: 69 AELEDEQRWEAQDIPLNIVYEDDDILVINKPRDFVVHPGAGTPDRTVLNALLFHYPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRDLQKRNITREYEAIAIGKMTAGGMIDKP 188 Query: 165 IVIQ---------GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVNQMGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMAYLQHPLL 248 >gi|258620374|ref|ZP_05715412.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus VM573] gi|262172216|ref|ZP_06039894.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus MB-451] gi|258587253|gb|EEW11964.1| Ribosomal large subunit pseudouridine synthase D [Vibrio mimicus VM573] gi|261893292|gb|EEY39278.1| ribosomal large subunit pseudouridine synthase D [Vibrio mimicus MB-451] Length = 324 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 33/264 (12%), Positives = 79/264 (29%), Gaps = 35/264 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+E+ QR+ + +A SR ++ + + ++ VNG ++ + VM + I V Sbjct: 9 QTVKESQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGEVVTKPRTKVMGGEVIVVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + + + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADGTVLNALLFHFPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 L +YG + G++ E++ Sbjct: 248 -LGDTAYGGRA--RIPKGASEELT 268 >gi|315651411|ref|ZP_07904436.1| ribosomal large subunit pseudouridine synthase D [Eubacterium saburreum DSM 3986] gi|315486370|gb|EFU76727.1| ribosomal large subunit pseudouridine synthase D [Eubacterium saburreum DSM 3986] Length = 303 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 29/250 (11%), Positives = 77/250 (30%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFT-PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M I+ E +R+ +A+ SR ++ +I + +V +N +++ A + + Sbjct: 1 MDTFEIIAEESDVDKRIDLFLAKNLESFSRSYIQDLIKKGKVTINNKIIK-ANYRLKEGE 59 Query: 59 HIEVD---GVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + +D PL + + + +V + + V L Sbjct: 60 CVVLDIPKPEPLEIVPENIPIDILYEDEDVILVNKPKGMVVHPAAGHYKGTLVNALLYHC 119 Query: 105 FSR---------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 S V R+D++T G++++ + + + + + Sbjct: 120 KSNLSGINGVLRPGIVHRIDMDTTGVIIICKNDIAHQHIAKQLANHSITRKYVAIVTGNI 179 Query: 156 DKLN------------LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + KK V + + + ++ L G+ +I+ Sbjct: 180 KEDEGVIDAAIARSKSDRKKMAVDKDGKRAVTHYKVLERLNGYTYIECVLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + + + Sbjct: 240 HMAYIHHPLL 249 >gi|148377937|ref|YP_001256813.1| ribosomal large subunit pseudouridine synthaseD [Mycoplasma agalactiae PG2] gi|148291983|emb|CAL59375.1| Ribosomal large subunit pseudouridine synthaseD [Mycoplasma agalactiae PG2] Length = 305 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 36/239 (15%), Positives = 69/239 (28%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL-LERAAVNVMSTDHIEV--------DG 64 +R+ K I+ +R + + +I Q+ V V+ + + V I V + Sbjct: 10 ERIDKYISDNSEITRNDAKALIEQEAVYVDDRKFVRKPNYMVREGMVITVLRLLEKESNI 69 Query: 65 VPLRKA-----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL----- 114 + E L + +KP GLV + T+ + L F +S Sbjct: 70 EAVDMPLDIRYEDEYLLILNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDANGLLRLG 129 Query: 115 ------------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + L + + + R L + + + +D Sbjct: 130 IVHRIDKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYLAICEGILPNKTTKINLPIQRD 189 Query: 157 KLNLLKKGIVIQGI---CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 N I G Y M + + V L G+ +I+ + V Sbjct: 190 TKNRKLMSIHKDGKSSVTYVHMLKSFYIDNKPYSLVKCELETGRTHQIRVHLAYIKHPV 248 >gi|113475517|ref|YP_721578.1| ribosomal large subunit pseudouridine synthase D [Trichodesmium erythraeum IMS101] gi|110166565|gb|ABG51105.1| ribosomal large subunit pseudouridine synthase D [Trichodesmium erythraeum IMS101] Length = 316 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 37/256 (14%), Positives = 74/256 (28%), Gaps = 43/256 (16%) Query: 1 MKDKN--IVQENFT---PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNV 54 M D++ I++ N QR+ +++ + SR ++++I+Q VKVN L V Sbjct: 1 MSDESPIILEVNSEYEITQRLDIWLSQQMLELSRSHIQKLISQGNVKVNDQLCTSKKAIV 60 Query: 55 MSTDH------------IEVDGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 D IE + +PL + L + +V + V Sbjct: 61 HQGDKIILVIPPPIPLAIEANDIPLDILYEDDALLIINKPAGLVVHPAPGHSEGTLVNAL 120 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----- 155 L S G L G + + Q L+ + + Sbjct: 121 LAHCDSLAGIGGVQRPGIVHRLDKDTTGAIMVAKTDHAYQHLQAQLQAKTARREYLGVVY 180 Query: 156 ------------------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGK 197 + V +G + + G+ + + L G+ Sbjct: 181 GSPKTDSGIINLPIGRHRVDRKKMAVTPVERGGKIAVTHWEVKERLGNFSMILFRLETGR 240 Query: 198 NREIKKVFEFFNWKVN 213 +I+ + + Sbjct: 241 THQIRVHSAQVGYPIV 256 >gi|157964996|ref|YP_001499820.1| ribosomal large subunit pseudouridine synthases RluD subfamily protein [Rickettsia massiliae MTU5] gi|157844772|gb|ABV85273.1| Ribosomal large subunit pseudouridine synthases RluD subfamily protein [Rickettsia massiliae MTU5] Length = 313 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 31/238 (13%), Positives = 65/238 (27%), Gaps = 38/238 (15%) Query: 14 QRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------ 66 R+ K ++ SR ++++ I +V VN +++ V V D I Sbjct: 13 IRLDKALSSLLENVSRNQIQKAIKDSQVLVNDVIISDPDVLVKENDIILFSFKEPEELKI 72 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVGR 113 + + + + V + + V L + G Sbjct: 73 AAANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPGI 132 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG 173 + + L + L + Q + +R + + +N L+ I Sbjct: 133 VHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKVLVWGVINPLEGVIKNNIGRSR 192 Query: 174 DMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + KGS + V L G+ +I+ V Sbjct: 193 SDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSVV 250 >gi|15966478|ref|NP_386831.1| putative ribosomal large subunit pseudouridine synthase protein [Sinorhizobium meliloti 1021] gi|307300485|ref|ZP_07580265.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti BL225C] gi|307318350|ref|ZP_07597785.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti AK83] gi|15075749|emb|CAC47304.1| Putative ribosomal large subunit pseudouridine synthase [Sinorhizobium meliloti 1021] gi|306896032|gb|EFN26783.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti AK83] gi|306904651|gb|EFN35235.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti BL225C] Length = 343 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 32/250 (12%), Positives = 63/250 (25%), Gaps = 51/250 (20%) Query: 15 RVSKVI--ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ + A AG SR ++ +I Q V +NG + V D + Sbjct: 24 RLDAFLTEALAGEFSRNRIKSLIEQGAVSINGATVTEPKRKVHPGDSFRIALPEPEDPEP 83 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RVI 109 G + + + L +V + + V + R Sbjct: 84 KGEAIPLDVLYEDADLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVKRPG 143 Query: 110 SVGRLDINTEGLLLLTNDGGLARV-----LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 V RLD +T G++++ + R + L + + Sbjct: 144 IVHRLDKDTSGVMVVAKNDAAHRHLSDQFADHGRNGPLERAYRAVVWGRPRQLKGKIDAP 203 Query: 165 IVIQGICYGDMQVTLDTQKGSN---------------------AWVTVGLREGKNREIKK 203 + G D+ + V L G+ +I+ Sbjct: 204 LGRAGDRTKRAVKREDSDDAREAITHYEVVERYHEKPDGTSLASTVECHLETGRTHQIRV 263 Query: 204 VFEFFNWKVN 213 + Sbjct: 264 HMAHIGHPLI 273 >gi|117921609|ref|YP_870801.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp. ANA-3] gi|117613941|gb|ABK49395.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp. ANA-3] Length = 323 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 68/238 (28%), Gaps = 31/238 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T R+ + +A SR ++ I V V+G+++ + V IE+ Sbjct: 8 KSEISATQTGLRLDQALAELFPDYSRTRIKEWILSDAVYVDGVIVNKPREKVFELQRIEI 67 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + L + + +V + + + L + Sbjct: 68 NATLEEEVHAAAQAIELDIVYEDDDILVINKQAGLVVHPGAGNADGTLMNALLHHCPNIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARV------LELPSTQWLRVYRVRFHGQVDQD- 156 RLD +T GL+++ + ++ + D Sbjct: 128 HVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREITREYEAIVLGTMTAGGTVDE 187 Query: 157 ----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + + ++ + + L G+ +I+ + Sbjct: 188 PIGRHPTKRTHMAVHHSGKPAVTHYRVAEKFRNHTRLRLRLESGRTHQIRVHMAYIGH 245 >gi|238917079|ref|YP_002930596.1| lysozyme [Eubacterium eligens ATCC 27750] gi|238872439|gb|ACR72149.1| lysozyme [Eubacterium eligens ATCC 27750] Length = 310 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 16/244 (6%), Positives = 57/244 (23%), Gaps = 36/244 (14%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGI--------------LLERA 50 I + R+ K +++ SR +++++ + V+ + Sbjct: 9 IAEPEDKGTRIDKYLSQELEDVSRSRIQKLLDDGDITVDDKCVKSNYKLNGTEHITITIP 68 Query: 51 AVNV--------------MSTDHIEVD---GVPLRKAERTRLWLYHKPIGLVTTHSDPDG 93 + V D I +D G+ + A + + Sbjct: 69 ELIVPQILPENIPLNIIYEDDDVILIDKPKGMVVHPAAGHYTGTVVNALMYHCRDNLSGI 128 Query: 94 RSTVFDNLPSIFSRVISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + + + + + + R + Sbjct: 129 NGVMRPGIVHRIDMNTTGVIVACKNDKAHNDIAAQLAVHSITRKYYCIVHNRFKEEEGTV 188 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + ++ + + + + + +++ L G+ +I+ Sbjct: 189 DAPIGRNPKDRKMMAVDRKNGKHAVTHYRVLENFDKYSFIECQLETGRTHQIRVHMASIG 248 Query: 210 WKVN 213 + Sbjct: 249 HPIL 252 >gi|325680269|ref|ZP_08159829.1| pseudouridine synthase, RluA family [Ruminococcus albus 8] gi|324107978|gb|EGC02234.1| pseudouridine synthase, RluA family [Ruminococcus albus 8] Length = 304 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 68/245 (27%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 I R+ K++ A+ SR ++++ V V G + + + + D I VD Sbjct: 8 IAAPEDAGTRIDKLLSAQLSDMSRSALQKLTEDGSVLVGGKAVSK-NYKLKNGDVITVDI 66 Query: 64 -----------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 +P+ + L + +V + + V L R+ S Sbjct: 67 PEPQELKAEPQDIPIDIVYEDDALLVVNKPKGMVVHPAAGNPDGTLVNALLYHCKGRLSS 126 Query: 111 VG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + D L + R + Sbjct: 127 INGVIRPGIVHRIDKFTSGLLMVAKTDKAHNSLAAQIKEHSFTREYNAVCVGRFKEPTGT 186 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + K + K + Q + + G + V L G+ +I+ F Sbjct: 187 INEPIGRSKFDRKKMCVTYQNSKEAVTHYEVIEELGQYSLVRFRLETGRTHQIRVHSAFI 246 Query: 209 NWKVN 213 V Sbjct: 247 GHPVL 251 >gi|291550385|emb|CBL26647.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus torques L2-14] Length = 304 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 34/243 (13%), Positives = 74/243 (30%), Gaps = 38/243 (15%) Query: 8 QENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---D 63 + T +R+ K + R SR ++++I ++++ VN L +A + + D I + D Sbjct: 7 NADITGERIDKFLDGRIESLSRSYIQKLIKEKKILVN-QLPVKANYKLTTGDTIILQIPD 65 Query: 64 GVPLRKAERTR-----------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----- 107 PL L + +V + V L Sbjct: 66 PEPLDIQPENIPLDILYEDDDILVVNKPKGMVVHPAPGHYSHTLVNAVLYHCGENLSGIN 125 Query: 108 ----VISVGRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRVRFH 150 V R+D+NT G LL+ + ++ L+ + Sbjct: 126 GVIRPGIVHRIDMNTTGSLLICKNDKAHQILAEQLKEHSITRKYHSIVHGNLKEDTGTVN 185 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + K + + + G+ ++ L G+ +I+ Sbjct: 186 APIGRHPTDRKKMSTKAPNGRHAVTHYRVLERFGNFTYIECQLETGRTHQIRVHMSSIGH 245 Query: 211 KVN 213 + Sbjct: 246 PIL 248 >gi|227892505|ref|ZP_04010310.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] gi|227865626|gb|EEJ73047.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047] Length = 305 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 72/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K +++ R+ K ++ SR V+ +I + + VN + + V + D Sbjct: 1 MPKKYLLEVKDEHGRLDKFVSEQVPDLSRTRVKELIQDKNILVNNKSEKV-SYKVQAGDC 59 Query: 60 IEVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + V+ ++ + + + +V + V L Sbjct: 60 VLVNVPAVKPLDVVPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTK 119 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 R V R+D +T GLL++ + LE + Sbjct: 120 DLAQSPEGFRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIYWAIVHGNFGE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 180 EGGTIDALIGRNPYDRKKMAVVENGKKAVTHFKVLEQFKGFSLIECQLETGRTHQIRVHL 239 Query: 206 EFFNWKV 212 ++ V Sbjct: 240 DYIGHAV 246 >gi|270264067|ref|ZP_06192335.1| ribosomal large subunit pseudouridine synthase D [Serratia odorifera 4Rx13] gi|270042260|gb|EFA15356.1| ribosomal large subunit pseudouridine synthase D [Serratia odorifera 4Rx13] Length = 325 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV+VNG + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDDRVQVNGKTTNKPKEKVLGGETVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 QIEEEARWEPQDIALNIVYEDSDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPEIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGTMTAGGTVEEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|329118620|ref|ZP_08247324.1| 30S ribosomal protein S4 [Neisseria bacilliformis ATCC BAA-1200] gi|327465355|gb|EGF11636.1| 30S ribosomal protein S4 [Neisseria bacilliformis ATCC BAA-1200] Length = 118 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ VI R G S R E ++++ + V VNG ++ + V + D + V ++ Sbjct: 9 RLDNVIYRMGFGSTRAEARQLVSHKAVTVNGQVVNIPSYQVKAGDVVAVREKAKKQVRIQ 68 >gi|227872363|ref|ZP_03990714.1| pseudouridylate synthase [Oribacterium sinus F0268] gi|227841792|gb|EEJ52071.1| pseudouridylate synthase [Oribacterium sinus F0268] Length = 303 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 73/245 (29%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V + QR+ K ++ SR + + I + V VNG + A++ V + D I+ D Sbjct: 5 VAKEEEGQRLDKYLSEQKDHDFSRSYLGKCIQEGCVSVNGEKAK-ASLKVKAGDRIDFDI 63 Query: 64 ---------GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + + +V + + V L S + S Sbjct: 64 PEQKDPEVLPEAIPLDIVYEDDDLLVVNKERGMVVHPAAGHYSGTLVNAVLAHAGSSLSS 123 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + ++ + + GL + + + ++ H + + K GI Sbjct: 124 INGVNRPGIVHRIDKDTTGLLLICKNDLSHQSLAKQLEEHSITRRYHALVFGKIKEEDGI 183 Query: 171 CYGDM----------------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + + V L G+ +I+ + Sbjct: 184 ISAPIGRDEKDRKKQAISYKHGKEALTHYKVLERFSDSTLVECRLETGRTHQIRVHMKSI 243 Query: 209 NWKVN 213 + Sbjct: 244 GHPLL 248 >gi|284048842|ref|YP_003399181.1| pseudouridine synthase, RluA family [Acidaminococcus fermentans DSM 20731] gi|283953063|gb|ADB47866.1| pseudouridine synthase, RluA family [Acidaminococcus fermentans DSM 20731] Length = 305 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 39/248 (15%), Positives = 72/248 (29%), Gaps = 36/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK + R +A +R V+ I + RV NG + A V D Sbjct: 1 MKTLDPAAPEEKGLRADVFLAARLDCTRSAVQHDIQEGRVTRNGKPAK-ANTKVKEGDVF 59 Query: 61 E------VDGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 + VD + ++ + + +V + + V L Sbjct: 60 QVQVLPPVDLEARPENIPLDILYEDQDVIVVNKPRGMVVHPAAGNPDGTLVNALLYHCRD 119 Query: 107 --------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY------------- 145 R V RLD +T G+++ + L + Sbjct: 120 LSGINGVIRPGIVHRLDKDTSGVMICAKNDRAHLSLAEQIQKKEAKRTYLAIVRGNIKDD 179 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 R Q+D+D + K +V G + + + G V L G+ +I+ Sbjct: 180 RGHIETQLDRDPRDRKKMAVVPSGGRWAATDYEVLERYGKFTVVRCRLLTGRTHQIRVHM 239 Query: 206 EFFNWKVN 213 + + Sbjct: 240 TYIGHPLV 247 >gi|229519979|ref|ZP_04409409.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae TM 11079-80] gi|229343031|gb|EEO08019.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae TM 11079-80] Length = 324 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 35/278 (12%), Positives = 86/278 (30%), Gaps = 36/278 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+++ QR+ + +A SR ++ + + ++ VNG ++ + VM + I V Sbjct: 9 QTVKDSQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGDVITKPRTKVMGGEVITVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + ++ + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADKTVLNALLFHYPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +YG + G+T E++ +++R+ L Sbjct: 248 -LGDTAYGGRA--RIPKGATEELT-EMIRDFDRQALHA 281 >gi|325335513|gb|ADZ11787.1| Pseudouridylate synthase, 23S RNA-specific [Riemerella anatipestifer RA-GD] Length = 354 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 39/248 (15%), Positives = 74/248 (29%), Gaps = 46/248 (18%) Query: 6 IVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +V +N P R+ K + + SR ++ + V VNG +++ V D + Sbjct: 34 VVDKNQEPLRIDKYLLIFRQNS---SRNKISQTCRAGNVVVNGTPVKQ-NYRVKPGDKVS 89 Query: 62 V-----------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 V D L + + ++ T + Sbjct: 90 VLLTHPPRENVIVPQDIPINIVYEDDDLLVVDKEAGMVVHPGFGNWDGTLVNALAYHFEK 149 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVY 145 + L + RV V R+D +T GLL++ + L L Sbjct: 150 NGLKTDLDRVGLVHRIDKDTSGLLVIAKNEYAMSFLAKQFFERTTKRLYWAFVWGNLAED 209 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 G + +D N ++ + G + + + WV L G+ +I+ Sbjct: 210 TGTIKGHIGRDLKNRMQMAVYEDGSLGKHAVTHYKVLERFRYMTWVECKLETGRTHQIRA 269 Query: 204 VFEFFNWK 211 F Sbjct: 270 HFRHIGHT 277 >gi|313896045|ref|ZP_07829599.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 137 str. F0430] gi|312975470|gb|EFR40931.1| pseudouridine synthase, RluA family [Selenomonas sp. oral taxon 137 str. F0430] Length = 301 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 28/237 (11%), Positives = 61/237 (25%), Gaps = 37/237 (15%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVN----------VMSTDHIE 61 +R+ +AR SR V+R+I V+V+G ++ V + + Sbjct: 10 GERLDVFLARQIENCSRSYVQRLITDGNVRVDGAPVK-PNYKLRSGEEICCTVPPAEEVV 68 Query: 62 VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 + + + + + +V + + V L G L Sbjct: 69 IAAEDIPLDVLYEDEDIIVINKARGMVVHPAAGNLTGTLVNALLFRCRDLSGINGELRPG 128 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------------D 156 L G + + +L + + Sbjct: 129 IVHRLDKDTSGVMVAAKNDMAHHFLAQQIRSKDARREYRALVHGNIAERAGVITGDIGRH 188 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + IV G + + G V+ L G+ +I+ + Sbjct: 189 PTDRKRMAIVRSGGKSATTHFEVLERFGDYTLVSCVLETGRTHQIRVHMTSIGHPLV 245 >gi|332638853|ref|ZP_08417716.1| pseudouridine synthase [Weissella cibaria KACC 11862] Length = 304 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 36/246 (14%), Positives = 66/246 (26%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++ +V + T R+ KV+A A +R +V I + VNG + ++A +V D Sbjct: 1 MSEETLVITDQTG-RLDKVVADAFDDYTRTQVTGWINDGILTVNGAV-KKAKYSVKPNDE 58 Query: 60 I--------EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I E+D P + + L + +V + + V + Sbjct: 59 IKFTVPEAVEIDLQPEDIPLDIVYEDDDLLVVNKPQGMVVHPALGHESGTLVNALMFHTP 118 Query: 106 SRVISVGRLD-------------------INTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 I+ L V Sbjct: 119 LSTINGVVRPGIVHRIDKDTSGLLMVAKNDKAHESLSAQLKDKKNLRQYYALVHGEFVEN 178 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK V+ G + + + V L G+ +I+ Sbjct: 179 EGTIKAPLGRSSADRKKQAVVAGGRDAVTHFKVVKRFVGYTLLQVTLETGRTHQIRVHMA 238 Query: 207 FFNWKV 212 + V Sbjct: 239 YIGHPV 244 >gi|225027663|ref|ZP_03716855.1| hypothetical protein EUBHAL_01922 [Eubacterium hallii DSM 3353] gi|224954977|gb|EEG36186.1| hypothetical protein EUBHAL_01922 [Eubacterium hallii DSM 3353] Length = 319 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 34/256 (13%), Positives = 67/256 (26%), Gaps = 43/256 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAA--VNVMSTDHIEV 62 V E R+ + +A SR ++++I + RV V E+ + V I V Sbjct: 23 TVMEEQEGMRLDQFLAGELKEHSRSYIQKLIKEGRVTVGDKK-EKPGCRLKVEDNVVICV 81 Query: 63 -------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + E L K + + G + Sbjct: 82 PPLKELEVLPEKMDLDIIYEDEDVILINKPKDMVVHPCPGRYTGTLVNGLLYHCRDNLSG 141 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 G L + G L + + L + + +G Sbjct: 142 INGVLRPGIVHRIDKDTTGVLVVCKNDMAHKSLAEQLKEHSITRKYEAIVY-NNFTQEEG 200 Query: 170 ICYGDM--------QVTLDTQKGSNAW---------------VTVGLREGKNREIKKVFE 206 + ++ ++ + G A + L G+ +I+ Sbjct: 201 TVDAPIGRSPADRKKMAVEPKNGKRAVTHYKVLSHLNHQFNHIECQLETGRTHQIRVHMA 260 Query: 207 FFNWKVNRLIRISYGP 222 + L +YGP Sbjct: 261 SIRHPL--LGDTTYGP 274 >gi|327441137|dbj|BAK17502.1| pseudouridylate synthase, 23S RNA-specific [Solibacillus silvestris StLB046] Length = 300 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 32/238 (13%), Positives = 65/238 (27%), Gaps = 36/238 (15%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 E F +R+ K +++ + SR ++ + ++R+ VNG ++ A V D IEV Sbjct: 9 EEFAGERIDKALSQMEESWSRSQISNWLDEERILVNGAAVK-AKYKVKQGDVIEVTVPEV 67 Query: 63 -DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 D + + L + +V + V + G Sbjct: 68 EDLEIIPEDLNLEIVYEDADVLVVNKPRGMVVHPAPGHATGTLVNGLMHHCKDLSGINGV 127 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 + G L + + L V Sbjct: 128 ARPGIVHRIDKDTSGLLMVAKNDVAHESLVNQLVEKSVTRKYTALVHGHIAHEKGTIDAP 187 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +K V+ + + + G V L G+ +I+ + + Sbjct: 188 IGRDQKDRQKQAVVDKGKHAVTHFQVIERFGEFTLVECRLETGRTHQIRVHMNYIGFP 245 >gi|238752927|ref|ZP_04614389.1| Ribosomal large subunit pseudouridine synthase D [Yersinia rohdei ATCC 43380] gi|238708835|gb|EEQ01091.1| Ribosomal large subunit pseudouridine synthase D [Yersinia rohdei ATCC 43380] Length = 325 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +V V+G + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKDWILDDKVTVDGKKINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLYYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|213420845|ref|ZP_03353911.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 278 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + +D Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILNQRVLVNGQLCDKPKEKVLGGERVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|121587761|ref|ZP_01677521.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 2740-80] gi|121730333|ref|ZP_01682696.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae V52] gi|147673459|ref|YP_001216201.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae O395] gi|153215116|ref|ZP_01949823.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 1587] gi|153801880|ref|ZP_01956466.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MZO-3] gi|153818725|ref|ZP_01971392.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae NCTC 8457] gi|153826766|ref|ZP_01979433.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MZO-2] gi|153829371|ref|ZP_01982038.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 623-39] gi|229525359|ref|ZP_04414764.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae bv. albensis VL426] gi|229530513|ref|ZP_04419901.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 12129(1)] gi|254224983|ref|ZP_04918597.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae V51] gi|254291985|ref|ZP_04962765.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae AM-19226] gi|262170005|ref|ZP_06037695.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae RC27] gi|262191805|ref|ZP_06049976.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae CT 5369-93] gi|297580830|ref|ZP_06942756.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae RC385] gi|121547988|gb|EAX58068.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 2740-80] gi|121627915|gb|EAX60491.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae V52] gi|124114907|gb|EAY33727.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 1587] gi|124122591|gb|EAY41334.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MZO-3] gi|125622370|gb|EAZ50690.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae V51] gi|126510747|gb|EAZ73341.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae NCTC 8457] gi|146315342|gb|ABQ19881.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae O395] gi|148875154|gb|EDL73289.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 623-39] gi|149739417|gb|EDM53657.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MZO-2] gi|150422124|gb|EDN14091.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae AM-19226] gi|227012534|gb|ACP08744.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae O395] gi|229332286|gb|EEN97774.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae 12129(1)] gi|229338940|gb|EEO03957.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae bv. albensis VL426] gi|262021739|gb|EEY40450.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae RC27] gi|262032292|gb|EEY50859.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae CT 5369-93] gi|297535246|gb|EFH74081.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae RC385] gi|327483506|gb|AEA77913.1| Ribosomal large subunit pseudouridine synthase D [Vibrio cholerae LMA3894-4] Length = 324 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 35/278 (12%), Positives = 86/278 (30%), Gaps = 36/278 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+++ QR+ + +A SR ++ + + ++ VNG ++ + VM + I V Sbjct: 9 QTVKDSQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGDVITKPRTKVMGGEVITVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + ++ + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADKTVLNALLFHYPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +YG + G+T E++ +++R+ L Sbjct: 248 -LGDTAYGGRA--RIPKGATEELT-EMIRDFDRQALHA 281 >gi|325292121|ref|YP_004277985.1| hemolysin [Agrobacterium sp. H13-3] gi|325059974|gb|ADY63665.1| hemolysin [Agrobacterium sp. H13-3] Length = 250 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 1/57 (1%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + +R+ +++ G ASR IA+ V VNG + + V I + Sbjct: 1 MSKTPENERLDQLLVSLGHFASRSRARDAIARGTVSVNGKTATKPSQTVAGNVKIAI 57 >gi|315221340|ref|ZP_07863261.1| pseudouridine synthase, RluA family [Streptococcus anginosus F0211] gi|315189459|gb|EFU23153.1| pseudouridine synthase, RluA family [Streptococcus anginosus F0211] Length = 298 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 31/234 (13%), Positives = 59/234 (25%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 R+ K +A SR I ++ VNG + ++A V + D I + P Sbjct: 9 GVRLDKAVADLTSLSRSHANEQIKNGQILVNGQV-KKAKYAVKAGDVITYELPEPEALEY 67 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 68 VAENLPLDIVYQDEDVAVVNKAQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL------------------ 160 + G L + L + Sbjct: 128 VHRIDKDTSGLLMIAKNDDAHIKLAEELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 161 --LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK V + + + G+ V + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFHVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|313207050|ref|YP_004046227.1| ribosomal large subunit pseudouridine synthase d [Riemerella anatipestifer DSM 15868] gi|312446366|gb|ADQ82721.1| ribosomal large subunit pseudouridine synthase D [Riemerella anatipestifer DSM 15868] gi|315022556|gb|EFT35583.1| ribosomal large subunit pseudouridine synthase D [Riemerella anatipestifer RA-YM] Length = 352 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 39/248 (15%), Positives = 74/248 (29%), Gaps = 46/248 (18%) Query: 6 IVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +V +N P R+ K + + SR ++ + V VNG +++ V D + Sbjct: 32 VVDKNQEPLRIDKYLLIFRQNS---SRNKISQTCRAGNVVVNGTPVKQ-NYRVKPGDKVS 87 Query: 62 V-----------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 V D L + + ++ T + Sbjct: 88 VLLTHPPRENVIVPQDIPINIVYEDDDLLVVDKEAGMVVHPGFGNWDGTLVNALAYHFEK 147 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVY 145 + L + RV V R+D +T GLL++ + L L Sbjct: 148 NGLKTDLDRVGLVHRIDKDTSGLLVIAKNEYAMSFLAKQFFERTTKRLYWAFVWGNLAED 207 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 G + +D N ++ + G + + + WV L G+ +I+ Sbjct: 208 TGTIKGHIGRDLKNRMQMAVYEDGSLGKHAVTHYKVLERFRYMTWVECKLETGRTHQIRA 267 Query: 204 VFEFFNWK 211 F Sbjct: 268 HFRHIGHT 275 >gi|212715757|ref|ZP_03323885.1| hypothetical protein BIFCAT_00657 [Bifidobacterium catenulatum DSM 16992] gi|212661124|gb|EEB21699.1| hypothetical protein BIFCAT_00657 [Bifidobacterium catenulatum DSM 16992] Length = 260 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 1/57 (1%) Query: 8 QENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ R+ + G I SR + +R+IA +V VNG+ + + + V D I VD Sbjct: 11 SDSIQVVRLDVALLERGLIGSRSKAQRLIADGKVSVNGVDITKVSTKVGCDDIITVD 67 >gi|294634724|ref|ZP_06713255.1| ribosomal large subunit pseudouridine synthase D [Edwardsiella tarda ATCC 23685] gi|291091854|gb|EFE24415.1| ribosomal large subunit pseudouridine synthase D [Edwardsiella tarda ATCC 23685] Length = 326 Score = 62.1 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 35/239 (14%), Positives = 69/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV VNGI++ + V+ +HI +D Sbjct: 10 TVTESQLGQRLDQALAELFPDYSRSRIKEWILEDRVSVNGIIINKPKEKVLGGEHIAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 + + + L + +V + + + L Sbjct: 70 LIEEENRWEAQDIALDIVYEDEDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPQIADV 129 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGTMTAGGTVREPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHPTKRTHMSVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|329964664|ref|ZP_08301718.1| pseudouridine synthase, RluA family [Bacteroides fluxus YIT 12057] gi|328525064|gb|EGF52116.1| pseudouridine synthase, RluA family [Bacteroides fluxus YIT 12057] Length = 356 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 32/244 (13%), Positives = 67/244 (27%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V RV K + R ASR +++ V NG ++ + V D I V Sbjct: 33 VVDRGQEMMRVDKYLFDRLTNASRNRIQKAADAGFVMANGKPVKS-SYKVKPQDVITVMM 91 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + +R + + +V + V + Sbjct: 92 DRPRYENEVIPEDIPLNIVYEDRCLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDNPD 151 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-- 158 R+D +T GLL++ L R R + ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTHLGNQFFNKTTKRRYRALVWGNVEQDEG 211 Query: 159 -----------NLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 212 TVVGNIGRNPKDRMQMAVLSDDQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHMK 271 Query: 207 FFNW 210 Sbjct: 272 HIGH 275 >gi|15832711|ref|NP_311484.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H7 str. Sakai] gi|168752065|ref|ZP_02777087.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4113] gi|168758664|ref|ZP_02783671.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4401] gi|168762387|ref|ZP_02787394.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4501] gi|168771700|ref|ZP_02796707.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4486] gi|168773478|ref|ZP_02798485.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4196] gi|168778572|ref|ZP_02803579.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4076] gi|168789497|ref|ZP_02814504.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC869] gi|168801712|ref|ZP_02826719.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC508] gi|195940189|ref|ZP_03085571.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H7 str. EC4024] gi|208808732|ref|ZP_03251069.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4206] gi|208812778|ref|ZP_03254107.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4045] gi|208821085|ref|ZP_03261405.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4042] gi|209396635|ref|YP_002272067.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4115] gi|217326855|ref|ZP_03442938.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. TW14588] gi|254794542|ref|YP_003079379.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H7 str. TW14359] gi|261227479|ref|ZP_05941760.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. FRIK2000] gi|261255673|ref|ZP_05948206.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. FRIK966] gi|291283867|ref|YP_003500685.1| Ribosomal large subunit pseudouridine synthase D [Escherichia coli O55:H7 str. CB9615] gi|34395799|sp|Q8X9F0|RLUD_ECO57 RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|13362928|dbj|BAB36880.1| suppressor of ftsH mutation [Escherichia coli O157:H7 str. Sakai] gi|187770638|gb|EDU34482.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4196] gi|188014009|gb|EDU52131.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4113] gi|189003176|gb|EDU72162.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4076] gi|189354550|gb|EDU72969.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4401] gi|189359603|gb|EDU78022.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4486] gi|189367297|gb|EDU85713.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4501] gi|189370886|gb|EDU89302.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC869] gi|189376176|gb|EDU94592.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC508] gi|208728533|gb|EDZ78134.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4206] gi|208734055|gb|EDZ82742.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4045] gi|208741208|gb|EDZ88890.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4042] gi|209158035|gb|ACI35468.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. EC4115] gi|209762678|gb|ACI79651.1| suppressor of ftsH mutation [Escherichia coli] gi|209762680|gb|ACI79652.1| suppressor of ftsH mutation [Escherichia coli] gi|209762682|gb|ACI79653.1| suppressor of ftsH mutation [Escherichia coli] gi|209762684|gb|ACI79654.1| suppressor of ftsH mutation [Escherichia coli] gi|209762686|gb|ACI79655.1| suppressor of ftsH mutation [Escherichia coli] gi|217319222|gb|EEC27647.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli O157:H7 str. TW14588] gi|254593942|gb|ACT73303.1| 23S rRNA pseudouridine synthase [Escherichia coli O157:H7 str. TW14359] gi|290763740|gb|ADD57701.1| Ribosomal large subunit pseudouridine synthase D [Escherichia coli O55:H7 str. CB9615] gi|320640778|gb|EFX10276.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H7 str. G5101] gi|320646123|gb|EFX15068.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H- str. 493-89] gi|320651420|gb|EFX19821.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H- str. H 2687] gi|320657025|gb|EFX24848.1| 23S rRNA pseudouridine synthase D [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320662689|gb|EFX30033.1| 23S rRNA pseudouridine synthase D [Escherichia coli O55:H7 str. USDA 5905] gi|320667506|gb|EFX34430.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H7 str. LSU-61] Length = 326 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKLCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|194435119|ref|ZP_03067355.1| ribosomal large subunit pseudouridine synthase D [Shigella dysenteriae 1012] gi|194416650|gb|EDX32783.1| ribosomal large subunit pseudouridine synthase D [Shigella dysenteriae 1012] gi|332089232|gb|EGI94339.1| ribosomal large subunit pseudouridine synthase D [Shigella dysenteriae 155-74] Length = 326 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHMRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|293415867|ref|ZP_06658507.1| rluD [Escherichia coli B185] gi|291432056|gb|EFF05038.1| rluD [Escherichia coli B185] Length = 326 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKLCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|306829292|ref|ZP_07462482.1| ribosomal large subunit pseudouridine synthase D [Streptococcus mitis ATCC 6249] gi|304428378|gb|EFM31468.1| ribosomal large subunit pseudouridine synthase D [Streptococcus mitis ATCC 6249] Length = 299 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 31/232 (13%), Positives = 62/232 (26%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP------- 66 R+ K ++ SR I +V VNG ++A V D + P Sbjct: 11 RLDKALSDLTELSRSLANEQIKVGQVLVNGQ-AKKAKYTVQEGDIVTYHVPEPEVLEYVA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDLPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDEAHLALAQELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + + + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKPAVTRFQVLERFGDYSLLELQLETGRTHQIRVHMAYIGHPV 241 >gi|284007738|emb|CBA73551.1| 23S rRNA pseudouridine synthase D [Arsenophonus nasoniae] Length = 325 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 29/236 (12%), Positives = 63/236 (26%), Gaps = 31/236 (13%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 E+ QR+ + +A SR ++ I RV VNG ++ R V ++ I +D Sbjct: 13 ESQLGQRLDQALAELFPDYSRSRIKEWILDNRVLVNGKIINRPKEKVFGSEQIAIDVLIE 72 Query: 64 ----GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-------- 105 P + + L + +V + + + L Sbjct: 73 EDMRWQPQNIPLNIVYEDDEILVINKPRDLVVHPGAGNPDGTVLNALLYRYPEIINVPRA 132 Query: 106 ---SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-----K 157 R+ + + A + ++ V R D Sbjct: 133 GIVHRLDKDTTGLMVIAKTIPAQTHLVEALQRREITREYEAVVNGRMTAGGTVDEPIARH 192 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + ++ + + L G+ +I+ N + Sbjct: 193 PTKRTHMAIHPMGKPAITHYRVMEHFRAHTRLRLRLESGRTHQIRVHMAHINHPLV 248 >gi|257869391|ref|ZP_05649044.1| pseudouridylate synthase [Enterococcus gallinarum EG2] gi|257803555|gb|EEV32377.1| pseudouridylate synthase [Enterococcus gallinarum EG2] Length = 301 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 66/245 (26%), Gaps = 35/245 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M ++ V + RV KV+A ASR ++++ + + V G + A V + D + Sbjct: 1 MNNQIEVVIHEEKGRVDKVLADRLEASRSQIQQWLKEGAVTCQGDPIR-ANYKVKAGDQL 59 Query: 61 EV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 + D P + ++ + +V + + V L + Sbjct: 60 VIQVPEPESLDLEPEDIPLTIVYQDQDVAVINKPQGMVVHPSAGHPNGTLVNALLYHMTD 119 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 + + G L + + L Sbjct: 120 LSSINDVVRPGIVHRIDKDTSGLLMIAKNDHAHEALAKQLKDKTSLRKYVALVHGNISHE 179 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K V + T+ + V + L G+ +I+ + Sbjct: 180 KGTINAPIGRSKVNRKMQAVQEDGKPAVTHFTVLERFDQFTLVELQLETGRTHQIRVHMQ 239 Query: 207 FFNWK 211 + + Sbjct: 240 YIGFP 244 >gi|322385620|ref|ZP_08059264.1| ribosomal large subunit pseudouridine synthase D [Streptococcus cristatus ATCC 51100] gi|321270358|gb|EFX53274.1| ribosomal large subunit pseudouridine synthase D [Streptococcus cristatus ATCC 51100] Length = 300 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 33/232 (14%), Positives = 61/232 (26%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLR--- 68 R+ K +A SR I ++ VNG ++A V D I D + Sbjct: 13 RLDKAVADLTELSRGLANEQIKNGQILVNGE-AKKAKYAVKEGDVISYEVPDPEVVEYVA 71 Query: 69 --------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + +V + + V + I G L Sbjct: 72 EDLPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 131 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 132 RIDKDTSGLLMIAKNDQAHLALADELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 191 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G V + L G+ +I+ + V Sbjct: 192 RKKQAVTAKGKPALTRFQVLERFGDYTLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|304440211|ref|ZP_07400101.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus duerdenii ATCC BAA-1640] gi|304371260|gb|EFM24876.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus duerdenii ATCC BAA-1640] Length = 307 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 35/246 (14%), Positives = 70/246 (28%), Gaps = 34/246 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M +VQ + R+ + SR ++ + I + V VNG+ ++ + D I Sbjct: 9 MNKTLVVQSQYEGMRLDIFLKEVLDYSRSKINKEIKNKSVLVNGVSVKS-GYIIKKNDII 67 Query: 61 E--------------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 +D L + E + + + + +I Sbjct: 68 TLEILEDQVNLEPQKIDFKILFEDEYIMVISKPENLVVHPGAGVFSETLVNGLLDYNINI 127 Query: 107 RVI-------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + I V RLD +T GL+++ D + L + Sbjct: 128 KDIGEEDRPGIVHRLDKDTSGLMIIAKDALAYKKLVNMFKYGEIHKEYIAILTGHLENEI 187 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWV------------TVGLREGKNREIKKVFEF 207 + + I V K + + V + G+ +I+ + Sbjct: 188 RVDEPIGRNPKDRKSFTVIYSNSKNAISTFVPIKYMNGFTLCRVIIETGRTHQIRVHARY 247 Query: 208 FNWKVN 213 N V Sbjct: 248 LNHPVL 253 >gi|206889218|ref|YP_002248052.1| hemolysin A [Thermodesulfovibrio yellowstonii DSM 11347] gi|206741156|gb|ACI20213.1| hemolysin A [Thermodesulfovibrio yellowstonii DSM 11347] Length = 246 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 1/56 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ +++ + GI SR + +I + +V VNG +E+ V I + G L Sbjct: 4 RLDQLLFKKGITESREKARALIIEGKVIVNGHKIEKPGTMVDENSEITICGETLPY 59 >gi|307151436|ref|YP_003886820.1| hemolysin A [Cyanothece sp. PCC 7822] gi|306981664|gb|ADN13545.1| hemolysin A [Cyanothece sp. PCC 7822] Length = 270 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 1/54 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 QR+ + + SR++ +R+I VKVN ++++ V + I + P Sbjct: 4 QRLDNRLVELNLCDSRQQAQRLIRAGEVKVNQQIIDKPGTEVDPSAEIVLQAKP 57 >gi|37678897|ref|NP_933506.1| 23S rRNA pseudouridine synthase D [Vibrio vulnificus YJ016] gi|37197638|dbj|BAC93477.1| pseudouridylate synthase, 23S RNA-specific [Vibrio vulnificus YJ016] Length = 325 Score = 61.7 bits (148), Expect = 1e-07, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 69/240 (28%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V V+G ++ + VM + I V Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVTVDGNVVTKPRTKVMGGEVITVL 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D V + L + +V + + + L Sbjct: 69 AELEDEVRWEAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLFHCPEVAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R V RLD +T GL+++ L + + K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRHITREYEAIAIGRMTAGGKVDKP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHATKRTLMAVSPMGKPAVTHFRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPLL 248 >gi|85860531|ref|YP_462733.1| ribosomal large subunit pseudouridine synthase D [Syntrophus aciditrophicus SB] gi|85723622|gb|ABC78565.1| ribosomal large subunit pseudouridine synthase D [Syntrophus aciditrophicus SB] Length = 333 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 32/244 (13%), Positives = 69/244 (28%), Gaps = 38/244 (15%) Query: 7 VQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V + R+ +A +G SR ++R+I RV ++G RA+ + + D + ++ Sbjct: 12 VTATESGLRLDLFLASHESGF-SRARLQRLIESGRVTISGKAAIRASQKLRTGDIVMLEE 70 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + L L +V + + V L Sbjct: 71 PPATPLELIPQDIPLSILYEDHDLLVLDKPAGLVVHPAAGHVSGTLVNALLFHCRDLAGI 130 Query: 111 VGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 G + +GL L + + + R + Sbjct: 131 GGVMRPGIVHRLDKDTSGLLVVAKTDAAHQGLALQFKKHQVGKTYQALVYGDPREKTGQI 190 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 V + + K + + + + G + V + G+ +I+ Sbjct: 191 DLPVGRHPVERKKMSTKSRRGKEAATRWRIAERFGVATLLNVDIVTGRTHQIRVHLAAIG 250 Query: 210 WKVN 213 V Sbjct: 251 HPVV 254 >gi|319763720|ref|YP_004127657.1| pseudouridine synthase, rlua family [Alicycliphilus denitrificans BC] gi|317118281|gb|ADV00770.1| pseudouridine synthase, RluA family [Alicycliphilus denitrificans BC] Length = 332 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 37/237 (15%), Positives = 68/237 (28%), Gaps = 38/237 (16%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ K +A SR +++++AQ V++NG + A V + D + V P Sbjct: 40 RLDKALAELVPEFSRSYLQQLLAQGDVRLNGQPAAKPAHKVRAGDQVAVRMRPTQQSQAF 99 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GR 113 + + L + +V + + L + R Sbjct: 100 KPESLPLDVVHEDEHLLVIDKPAGLVVHPAPGNWSGTLLNALLGRDAQAMQVPRAGIVHR 159 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------DKLN 159 LD +T GL+++ + L + D N Sbjct: 160 LDKDTSGLMVVARNRAAMDALVRMIAAREVSRQYLALAWGAWSGSEQRRIRAPIGRDPRN 219 Query: 160 LLKKGIVIQGICYGDMQVT---LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 L+ +V G G T L V L G+ +I+ + Sbjct: 220 RLRMAVVDLGQHAGKEACTDFDLLASGEEVCLVRCTLHTGRTHQIRVHMASIRHPLV 276 >gi|288931952|ref|YP_003436012.1| RNA-binding S4 domain protein [Ferroglobus placidus DSM 10642] gi|288894200|gb|ADC65737.1| RNA-binding S4 domain protein [Ferroglobus placidus DSM 10642] Length = 208 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 3/65 (4%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLRKA 70 R+ + + ++G SR + + I + VKVNG ++ + + V ++ IEV G P Sbjct: 1 MRLDEFLKKSGYFKSRSQAKEAIKRGFVKVNGKVITKPSFQVKGSEKIEVAEKGKPRGYY 60 Query: 71 ERTRL 75 + L Sbjct: 61 KLKEL 65 >gi|90408473|ref|ZP_01216632.1| Ribosomal large subunit pseudouridine synthase D [Psychromonas sp. CNPT3] gi|90310405|gb|EAS38531.1| Ribosomal large subunit pseudouridine synthase D [Psychromonas sp. CNPT3] Length = 322 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 32/228 (14%), Positives = 68/228 (29%), Gaps = 32/228 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD----GVPLRK 69 R+ K +A SR ++ I VK++ + + R V + +EV+ + Sbjct: 19 RLDKALAALFPDYSRTRIKEWILDDLVKIDDVTVNRPREKVYTGQQVEVNATLEDEVVFH 78 Query: 70 AER----------TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 + L + +V + + + L V RL Sbjct: 79 PQNIPLDIIFEDEHILVINKPAGLVVHPGAGNPDGTVLNALLHHYPEIVEVPRAGIVHRL 138 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVDQDKLNLLK 162 D +T GL+++ L R + +DK N +K Sbjct: 139 DKDTTGLMVIAKTVPAQTHLVTSLQAREITREYDAIAMGCFTAGGRVEAPIGRDKANRVK 198 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + G + + + ++ + + L G+ +I+ Sbjct: 199 MAVATVGGKHAVTHYRVAEKYRAHTRLRLRLETGRTHQIRVHMSHIGH 246 >gi|317493978|ref|ZP_07952395.1| RluA family pseudouridine synthase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316918305|gb|EFV39647.1| RluA family pseudouridine synthase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 326 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V E+ R+ + +A SR ++ I RVKVNG ++ + V+ + I +D Sbjct: 10 TVTESQLGHRLDQALAELFPDYSRSRIKEWILDDRVKVNGKIINKPKEKVLGGEEIAIDA 69 Query: 64 -------GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 P + + L + +V + + + L Sbjct: 70 LIEEEARWEPQNIPLDIVYEDSDILVINKPRDLVVHPGAGNPDGTILNALLYYYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGTMTAGGTVEEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHISHPLV 248 >gi|27363948|ref|NP_759476.1| 23S rRNA pseudouridine synthase D [Vibrio vulnificus CMCP6] gi|320157325|ref|YP_004189704.1| ribosomal large subunit pseudouridine synthase D [Vibrio vulnificus MO6-24/O] gi|34395776|sp|Q8DEV0|RLUD_VIBVU RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|27360065|gb|AAO09003.1| Ribosomal large subunit pseudouridine synthase D [Vibrio vulnificus CMCP6] gi|319932637|gb|ADV87501.1| ribosomal large subunit pseudouridine synthase D [Vibrio vulnificus MO6-24/O] Length = 325 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 69/240 (28%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V V+G ++ + VM + I V Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVTVDGNVVTKPRTKVMGGEVITVL 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D V + L + +V + + + L Sbjct: 69 AELEDEVRWEAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLFHCPEVAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R V RLD +T GL+++ L + + K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDKP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHATKRTLMAVSPMGKPAVTHFRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPLL 248 >gi|120599938|ref|YP_964512.1| RluA family pseudouridine synthase [Shewanella sp. W3-18-1] gi|146292126|ref|YP_001182550.1| RluA family pseudouridine synthase [Shewanella putrefaciens CN-32] gi|120560031|gb|ABM25958.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp. W3-18-1] gi|145563816|gb|ABP74751.1| ribosomal large subunit pseudouridine synthase D [Shewanella putrefaciens CN-32] gi|319425422|gb|ADV53496.1| pseudouridine synthase, RluA family [Shewanella putrefaciens 200] Length = 324 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 63/238 (26%), Gaps = 31/238 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T R+ + +A SR ++ I V V+G+++ + V IE+ Sbjct: 8 KSEISATQTGLRLDQALAELFPDYSRTRIKEWILSDAVYVDGVIVNKPREKVFELQQIEI 67 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + L + + +V + + + L Sbjct: 68 AATLEEEVHAAAQAIELNIVYEDDHILVINKQAGLVVHPGAGNADGTLMNALLHHCPDIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 RLD +T GL+++ L Sbjct: 128 HVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREITREYEAIVMGTMTGGGTVDE 187 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + + ++ + + L G+ +I+ E+ Sbjct: 188 PIGRHPTKRTHMAVHHSGKPAVTHYRVAEKFRNHTRLRLRLESGRTHQIRVHMEYIGH 245 >gi|330824017|ref|YP_004387320.1| RluA family pseudouridine synthase [Alicycliphilus denitrificans K601] gi|329309389|gb|AEB83804.1| pseudouridine synthase, RluA family [Alicycliphilus denitrificans K601] Length = 336 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 37/237 (15%), Positives = 68/237 (28%), Gaps = 38/237 (16%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ K +A SR +++++AQ V++NG + A V + D + V P Sbjct: 44 RLDKALAELVPEFSRSYLQQLLAQGDVRLNGQPAAKPAHKVRAGDQVAVRMRPTQQSQAF 103 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GR 113 + + L + +V + + L + R Sbjct: 104 KPESLPLDVVHEDEHLLVIDKPAGLVVHPAPGNWSGTLLNALLGRDAQAMQVPRAGIVHR 163 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------DKLN 159 LD +T GL+++ + L + D N Sbjct: 164 LDKDTSGLMVVARNRAAMDALVRMIAAREVSRQYLALAWGAWSGSEQRRIRAPIGRDPRN 223 Query: 160 LLKKGIVIQGICYGDMQVT---LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 L+ +V G G T L V L G+ +I+ + Sbjct: 224 RLRMAVVDLGQHAGKEACTDFDLLASGEEVCLVRCTLHTGRTHQIRVHMASIRHPLV 280 >gi|218282381|ref|ZP_03488663.1| hypothetical protein EUBIFOR_01245 [Eubacterium biforme DSM 3989] gi|218216667|gb|EEC90205.1| hypothetical protein EUBIFOR_01245 [Eubacterium biforme DSM 3989] Length = 243 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 1/51 (1%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + I+SR + + MI + ++ VNG ++ +A+ V D I V Sbjct: 2 DKIRLDKAL-LKTISSRAKAQDMIKEGKISVNGKVITKASYLVSDEDDIVV 51 >gi|15640728|ref|NP_230358.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae O1 biovar El Tor str. N16961] gi|153822744|ref|ZP_01975411.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae B33] gi|227080889|ref|YP_002809440.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae M66-2] gi|229505673|ref|ZP_04395183.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae BX 330286] gi|229508754|ref|ZP_04398247.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae B33] gi|229519496|ref|ZP_04408939.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae RC9] gi|229608691|ref|YP_002879339.1| 23S rRNA pseudouridine synthase D [Vibrio cholerae MJ-1236] gi|254851039|ref|ZP_05240389.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MO10] gi|255743834|ref|ZP_05417790.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholera CIRS 101] gi|262156053|ref|ZP_06029172.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae INDRE 91/1] gi|298500820|ref|ZP_07010623.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MAK 757] gi|34395835|sp|Q9KU20|RLUD_VIBCH RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|9655151|gb|AAF93874.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae O1 biovar El Tor str. N16961] gi|126519727|gb|EAZ76950.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae B33] gi|227008777|gb|ACP04989.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae M66-2] gi|229344185|gb|EEO09160.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae RC9] gi|229354278|gb|EEO19208.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae B33] gi|229357896|gb|EEO22813.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae BX 330286] gi|229371346|gb|ACQ61769.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MJ-1236] gi|254846744|gb|EET25158.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MO10] gi|255738465|gb|EET93854.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholera CIRS 101] gi|262030089|gb|EEY48734.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae INDRE 91/1] gi|297540601|gb|EFH76659.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae MAK 757] Length = 324 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 35/278 (12%), Positives = 86/278 (30%), Gaps = 36/278 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+++ QR+ + +A SR ++ + + ++ VNG ++ + VM + I V Sbjct: 9 QTVKDSQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGDVITKPRTKVMGGEVITVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + ++ + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADKTVLNALLFHYSPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L +YG + G+T E++ +++R+ L Sbjct: 248 -LGDTAYGGRA--RIPKGATEELT-EMIRDFDRQALHA 281 >gi|261212185|ref|ZP_05926471.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC341] gi|262401594|ref|ZP_06078160.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC586] gi|260838793|gb|EEX65444.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC341] gi|262352011|gb|EEZ01141.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. RC586] Length = 324 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 33/265 (12%), Positives = 81/265 (30%), Gaps = 35/265 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+E+ QR+ + +A SR ++ + + ++ VNG ++ + + VM + I V Sbjct: 9 QTVKESQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGEVITKPRMKVMGGEVIVVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + + + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADSTVLNALLFHYPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTHLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 L +YG + G++ E+++ Sbjct: 248 -LGDTAYGGRA--RIPKGASEELTE 269 >gi|78189580|ref|YP_379918.1| pseudouridine synthase, RluD [Chlorobium chlorochromatii CaD3] gi|78171779|gb|ABB28875.1| ribosomal large subunit pseudouridine synthase D [Chlorobium chlorochromatii CaD3] Length = 363 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 27/248 (10%), Positives = 71/248 (28%), Gaps = 42/248 (16%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V +P R+ + + A+R +V+ I + RV VNG ++ A + S D IEV Sbjct: 41 VSRTQSPMRIDVYLTQQVENATRNKVQEAIEEGRVVVNGKCVK-ANYRLKSCDVIEVTFL 99 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +P +V + L + + ++ Sbjct: 100 RPPAPELAPEAIPIAIMYEDDDLMVINKEPGMVVHPAFGNWTGTLANAILHHLGNSAEAL 159 Query: 112 GRLDINT--------------------------EGLLLLTNDGGLARVLELPSTQWLRVY 145 ++ G + + L + Sbjct: 160 DASEMRPGIVHRLDKDTSGLIIIAKNPIALHKLARQFAERKVGKIYKALTWGVPKQASGT 219 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G+ +++ + ++ + +++ L G+ +I+ Sbjct: 220 ITTNIGRSHKNRKVMANFPFEGLEGKTAITDYCVEENLEWFSVMSLRLHTGRTHQIRVHL 279 Query: 206 EFFNWKVN 213 + + Sbjct: 280 QHLGLPIV 287 >gi|239631456|ref|ZP_04674487.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus paracasei subsp. paracasei 8700:2] gi|239525921|gb|EEQ64922.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus paracasei subsp. paracasei 8700:2] Length = 306 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 36/232 (15%), Positives = 65/232 (28%), Gaps = 35/232 (15%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLRKA 70 R+ KVI A +R +V++ + V VNG +A V S D I + + PL Sbjct: 13 RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISIPEAKPLEAI 71 Query: 71 ERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-------VG 112 +V + V L I+ V Sbjct: 72 PEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGINGVIRPGIVH 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------KLNL 160 R+D +T GLL++ L + Sbjct: 132 RIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRD 191 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 K+ V+ + + + ++ L G+ +I+ + + V Sbjct: 192 RKRQAVVADGRHAVTHFQVLERFEHYTFIKCILETGRTHQIRVHMAYIHHPV 243 >gi|160945091|ref|ZP_02092317.1| hypothetical protein FAEPRAM212_02610 [Faecalibacterium prausnitzii M21/2] gi|158442822|gb|EDP19827.1| hypothetical protein FAEPRAM212_02610 [Faecalibacterium prausnitzii M21/2] Length = 310 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 34/255 (13%), Positives = 77/255 (30%), Gaps = 46/255 (18%) Query: 1 MKDKN-IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMS 56 M+ + IV++ QR+ + ++ G+ SR ++ ++A+ V+ NG + + + + Sbjct: 1 MEQREFIVEQETAGQRIDRFLSGEDTGL-SRSALQALVAEGHVQCNGKAVAKSL--KLKA 57 Query: 57 TDHIEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 D + + D P+ + L + +V + V L Sbjct: 58 GDTVLLEIPDAKPIEAVPQDIPLEIVYEDAHLLVVNKPKGMVVHPAPGNPDGTLVNALLW 117 Query: 103 SIF---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R V R+D +T GLL++ D L + Sbjct: 118 HCKGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGLSQQMAVHSVERAYQTVVYG 177 Query: 154 DQDKLNLLKKGIVIQGICYG------DMQ----------VTLDTQKGSNAWVTVGLREGK 197 + + + + + + G + L+ G+ Sbjct: 178 GFAQDEGFVEANLGRSKIDRKKMAVYPATEPHTKYAYTGYKVLERLGEFTLLECRLKTGR 237 Query: 198 NREIKKVFEFFNWKV 212 +I+ + V Sbjct: 238 THQIRVHMASIHHPV 252 >gi|238854437|ref|ZP_04644777.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 269-3] gi|260664477|ref|ZP_05865329.1| pseudouridylate synthase [Lactobacillus jensenii SJ-7A-US] gi|282932582|ref|ZP_06338003.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 208-1] gi|313472076|ref|ZP_07812568.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 1153] gi|238832930|gb|EEQ25227.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 269-3] gi|239530107|gb|EEQ69108.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 1153] gi|260561542|gb|EEX27514.1| pseudouridylate synthase [Lactobacillus jensenii SJ-7A-US] gi|281303278|gb|EFA95459.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus jensenii 208-1] Length = 301 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 35/239 (14%), Positives = 70/239 (29%), Gaps = 35/239 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 + + R+ K I+ SR V+ ++ + VN E+ + V D I V Sbjct: 6 LNVSAKAGRLDKYISEHSDLSRSRVQELLTSGDILVNSKQ-EKPSYKVAIGDKISVHVPK 64 Query: 63 ----DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + P + + + + +V + + V + Sbjct: 65 LVPLNVEPEDIPLDIVYEDNDVIVVNKPQGMVVHPSAGHPNHTLVNALMNHTKELAASPE 124 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------- 156 R V R+D +T GLL++ + LE + Sbjct: 125 GFRPGIVHRIDKDTSGLLMIAKNTQARESLESQLAHKTNKRVYLAIVHGNFKEASGTIDA 184 Query: 157 ----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK V++ + Q + A V+ L G+ +I+ ++ Sbjct: 185 PIARNPKERKKMAVVESGKAAVTHFKVLEQYPNYALVSCQLETGRTHQIRVHMKYIGHP 243 >gi|323143512|ref|ZP_08078192.1| ribosomal large subunit pseudouridine synthase D [Succinatimonas hippei YIT 12066] gi|322416706|gb|EFY07360.1| ribosomal large subunit pseudouridine synthase D [Succinatimonas hippei YIT 12066] Length = 323 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 39/260 (15%), Positives = 84/260 (32%), Gaps = 41/260 (15%) Query: 6 IVQENFTPQRVSKVIARAGIA----SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + F +R+ A G SR + I + +V V+G+++ + ++ V S + Sbjct: 8 TITDEFHNKRLD---AALGGLIDTHSRSTLREYIDEGKVAVDGVVITKPSIKVSSGQIVS 64 Query: 62 V--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V D P + + L + +V + + + L Sbjct: 65 VTIPDPEDLDAKPQDLPLDIIYQDDDILIINKPINFVVHPGAGIKDGTVMNAVLYHFPQT 124 Query: 108 VI-----SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFH 150 V RLD +T GL+++ +VL + V Sbjct: 125 SSLPRAGIVHRLDKDTSGLMVIALSQLAQQVLTKAIAKHDVVREYEAIAEGQITAGGTID 184 Query: 151 GQVDQDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D K ++ +G + + ++ + + L G+ +I+ + Sbjct: 185 APIGRDPYVRTKMAVMPEGIGREAVTHYRVMERFRAHTRLRLRLETGRTHQIRVHMASIH 244 Query: 210 WKVNRLIRISYGPFQLGTLL 229 + L YG +L L Sbjct: 245 HPL--LGDNQYGGKRLKMLP 262 >gi|319939285|ref|ZP_08013648.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] gi|319811681|gb|EFW07957.1| pseudouridine synthase [Streptococcus anginosus 1_2_62CV] Length = 298 Score = 61.7 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 31/234 (13%), Positives = 59/234 (25%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP----- 66 R+ K +A SR I ++ VNG + ++A V + D I + P Sbjct: 9 GVRLDKAVADLTPLSRSHANEQIKNGQILVNGQV-KKAKYAVKAGDVITYELPEPEALEY 67 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + + + +V + + V + I G L Sbjct: 68 VAENLPLDIVYQDEDVAVVNKAQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGI 127 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL------------------ 160 + G L + L + Sbjct: 128 VHRIDKDTSGLLMIAKNDDAHIKLAEELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSE 187 Query: 161 --LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 KK V + + + G+ V + L G+ +I+ + V Sbjct: 188 KDRKKQAVTAKGKPAVTRFHVLERFGNYTLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|189499996|ref|YP_001959466.1| pseudouridine synthase, RluA family [Chlorobium phaeobacteroides BS1] gi|189495437|gb|ACE03985.1| pseudouridine synthase, RluA family [Chlorobium phaeobacteroides BS1] Length = 346 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 41/248 (16%), Positives = 84/248 (33%), Gaps = 42/248 (16%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + P R+ +A+ A+R +V+ I++ RV+VNG ++ A + S D IE+ Sbjct: 27 VAQTQKPMRIDVYLAQQVENATRNKVQEAISEHRVRVNGKTVK-ANYKIKSLDSIEITFL 85 Query: 63 ---------DGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS------ 106 + +P+ E L + +K G+V + + T+ + + Sbjct: 86 RPPAPELAPEDIPVDIIYEDNDLMVINKAPGMVVHPAFGNWTGTLANAILHHLGTDAEKL 145 Query: 107 -----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 R V RLD NT GL+++ L + + + + + Sbjct: 146 DTTELRPGIVHRLDKNTSGLIIVAKHATALHRLAKQFAERQVEKKYQAIVWGVPEPPEGI 205 Query: 162 KK----------------GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K + + + + V + L G+ +I+ Sbjct: 206 VKTNIGRSIRDRKVMTSYDFEGKEGKTAVTEYRVVENLRYFSLVEMILHTGRTHQIRVHL 265 Query: 206 EFFNWKVN 213 + N + Sbjct: 266 KHINAPIL 273 >gi|188590369|ref|YP_001921578.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum E3 str. Alaska E43] gi|188500650|gb|ACD53786.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum E3 str. Alaska E43] Length = 302 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 68/243 (27%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----- 60 V + R+ K ++ SR ++ +I ++ +KVN L++ + + D I Sbjct: 8 VSKENEGIRIDKYLSEMLNGKSRSFIQGLIEKESIKVNNKLIKS-NYKLKACDEIVITMP 66 Query: 61 -----EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +V+ + ++ + + + +V + V L Sbjct: 67 EAEILKVESEDIDLDILYEDKDVIVVNKEQGMVVHPAPGNYNGTLVNALLFHCTDLSSIN 126 Query: 112 G---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 G + D + L D + R + Sbjct: 127 GVIRPGIVHRIDKDTSGVLVIAKNDESHNKLAAQLKDHSMNREYYALVEGRFKNDSGVID 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +DK N LK I G L+ + L G+ +I+ Sbjct: 187 KPLGRDKKNRLKIAITEDGRRAITHYEVLERYDTGCTLIKCKLETGRTHQIRVHMASLGH 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|330831468|ref|YP_004394420.1| ribosomal large subunit pseudouridine synthase D [Aeromonas veronii B565] gi|328806604|gb|AEB51803.1| Ribosomal large subunit pseudouridine synthase D [Aeromonas veronii B565] Length = 326 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 22/237 (9%), Positives = 61/237 (25%), Gaps = 31/237 (13%) Query: 8 QENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 Q++ QR+ + +A SR ++ I Q RV ++G + +++ + V+ Sbjct: 12 QDHQFGQRLDQALAELFPDYSRTRIKEWILQDRVTLDGQVANTPREKILAGQQVHVNVEL 71 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + + L + +V + + + L Sbjct: 72 EDDTRWDAQDIELNIVYEDEHILVIDKPAGLVVHPGAGTPDGTILNALLHRYPGIAEVPR 131 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD----- 156 R+ + + A + ++ + D Sbjct: 132 AGIVHRLDKDTTGLMVVAKTVPAQTHLVEALQARQITREYEAIAIGHMTAGGTVDAPIGR 191 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V+ + + + + + L G+ +I+ + Sbjct: 192 HPTQRTHMAVVPNGRPSVTHYRVHEKFRGHTRLRLRLETGRTHQIRVHMAHIKHPLV 248 >gi|251778563|ref|ZP_04821483.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243082878|gb|EES48768.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 302 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 68/243 (27%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----- 60 V + R+ K ++ SR ++ +I ++ +KVN L++ + + D I Sbjct: 8 VSKENEGIRIDKYLSEMLNGKSRSFIQGLIEKESIKVNDKLIKS-NYKLKACDEIVITMP 66 Query: 61 -----EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +V+ + ++ + + + +V + V L Sbjct: 67 EVETLKVESEDIDLDILYEDKDVIVVNKEQGMVVHPAPGNYNGTLVNALLFHCTDLSSIN 126 Query: 112 G---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 G + D + L D + R + Sbjct: 127 GVIRPGIVHRIDKDTSGVLVIAKNDESHNKLAAQLKDHSMNREYYALVEGRFKNDSGVID 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +DK N LK I G L+ + L G+ +I+ Sbjct: 187 KPLGRDKKNRLKIAITEDGRRAITHYEVLERYDTGCTLIKCKLETGRTHQIRVHMASLGH 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|157826322|ref|YP_001494042.1| ribosomal large subunit pseudouridine synthase, RluD subfamily protein [Rickettsia akari str. Hartford] gi|157800280|gb|ABV75534.1| Ribosomal large subunit pseudouridine synthase, RluD subfamily protein [Rickettsia akari str. Hartford] Length = 329 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/251 (12%), Positives = 68/251 (27%), Gaps = 39/251 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M N+ E R+ K +++ SR ++++ I +V VN +++ V V D Sbjct: 1 MLTYNVPNELNN-IRLDKALSQLLEKISRNQIQKAIKNSQVLVNDVIISDPDVLVKENDV 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + + + V + + V L Sbjct: 60 ILFAFKEPEELKIAAVNIALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLYHTK 119 Query: 106 S-----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + G + + L + L + Q + +R + + +N Sbjct: 120 NLSDIGSAARPGIVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKALVWGVINP 179 Query: 161 LKKGIVIQGICYGDMQVTL------------------DTQKGSNAWVTVGLREGKNREIK 202 L I + + G+ + V L G+ +I+ Sbjct: 180 LAGVIKNNIGRSRVERQKMSILKYGGKEAVTHYKTLELFYGGTISMVECRLNTGRTHQIR 239 Query: 203 KVFEFFNWKVN 213 V Sbjct: 240 VQLSHVKHSVV 250 >gi|261346208|ref|ZP_05973852.1| ribosomal large subunit pseudouridine synthase D [Providencia rustigianii DSM 4541] gi|282565514|gb|EFB71049.1| ribosomal large subunit pseudouridine synthase D [Providencia rustigianii DSM 4541] Length = 325 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 70/239 (29%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 + E+ QR+ + +A SR ++ I RV+VNG ++ +A V+ + I +D Sbjct: 10 TIAESQLGQRLDQALAELFPDYSRSRIKEWILDDRVQVNGKVINKAKEKVLGGEQISIDA 69 Query: 64 -------GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 P + + L + +V + + + L Sbjct: 70 LIEEDTRWEPQDIPLDVVYEDEDILVINKPRGLVVHPGAGNPDGTILNALLYRYPEIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVD 154 R V RLD +T GL+++ L + + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVDALQRREITREYEAVAVGRMTAGGMVEEPI 189 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLI 248 >gi|212702767|ref|ZP_03310895.1| hypothetical protein DESPIG_00797 [Desulfovibrio piger ATCC 29098] gi|212673824|gb|EEB34307.1| hypothetical protein DESPIG_00797 [Desulfovibrio piger ATCC 29098] Length = 531 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 25/240 (10%), Positives = 53/240 (22%), Gaps = 41/240 (17%) Query: 13 PQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------ 63 QR+ K + G+ SR V+R I +++G+ + A++ + + + +D Sbjct: 19 GQRLDKAL--CGLLPELSRAAVQRAITAGACRIDGMPVATASLKLKAGQAVCLDLPDTAN 76 Query: 64 -----GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG---- 112 + + L V + V L G Sbjct: 77 ELRAEDEAVDILWQDEHLLLCNKPAGLTVHPCPSCPENTLVQRLLHHFPRLREQEGLRPG 136 Query: 113 -----------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 L L + R Sbjct: 137 VVHRLDKDTSGLLLVALDEPTRLRMSEAFARREVHKEYLALVGGVPPQTGTCREPLGRHP 196 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFNWKVN 213 + +G + + V V + G+ +I+ + Sbjct: 197 TAKVKMAVVPENRGGKTAHSDWRVLWSSPRKDFSLVAVRIHTGRTHQIRVHMAHVGHPLL 256 >gi|172038237|ref|YP_001804738.1| pseudouridine synthase [Cyanothece sp. ATCC 51142] gi|171699691|gb|ACB52672.1| pseudouridine synthase [Cyanothece sp. ATCC 51142] Length = 314 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 24/249 (9%), Positives = 63/249 (25%), Gaps = 45/249 (18%) Query: 10 NFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---GV 65 R+ ++ SR ++R+I Q + +N + + V D ++++ Sbjct: 8 ENKGNRLDLWLSNQLTDISRSHIQRLIEQGNIILNNEVCTNKKIKVKIGDRLQINLPEPK 67 Query: 66 PLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG-- 112 PL + + + +V + + V L + G Sbjct: 68 PLELKPEPLPLDILYEDEQLIIINKPANLVVHPAPGHETGTLVHGLLYHCSNLAGIGGVQ 127 Query: 113 -------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 + D + L + R L + + Sbjct: 128 RPGIVHRLDKDTTGAMVVAKTDFAHQNLQAQIKNKTAKREYLGIIYGVLTNQEDKENSHQ 187 Query: 154 ---------DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + + + + G+ + V L G+ +I+ Sbjct: 188 GIINLPIGRHPIDRKKMAVVPLEKRGREAITHWEILERLGNYSLVKFTLETGRTHQIRVH 247 Query: 205 FEFFNWKVN 213 ++ + Sbjct: 248 SSYYGNPIV 256 >gi|187932847|ref|YP_001886621.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum B str. Eklund 17B] gi|187721000|gb|ACD22221.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum B str. Eklund 17B] Length = 302 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 68/243 (27%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----- 60 V + R+ K ++ SR ++ +I ++ +KVN L++ + + D I Sbjct: 8 VSKENEGIRIDKYLSEMLNGKSRSFIQGLIEKESIKVNDKLIKN-NYKLKACDEIVITMP 66 Query: 61 -----EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +V+ + ++ + + + +V + V L Sbjct: 67 EAETLKVESEDIDLDILYEDKDVIVVNKEQGMVVHPAPGNYNGTLVNALLFHCTDLSSIN 126 Query: 112 G---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 G + D + L D + R + Sbjct: 127 GVIRPGIVHRIDKDTSGVLVIAKNDESHNKLAAQLKDHSMNREYYALVEGRFKNDSGIID 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +DK N LK I G L+ + L G+ +I+ Sbjct: 187 KPLGRDKKNRLKIAITEDGRRAITHYEVLERYDTGCTLIKCKLETGRTHQIRVHMASLGH 246 Query: 211 KVN 213 + Sbjct: 247 PLV 249 >gi|302874641|ref|YP_003843274.1| pseudouridine synthase, RluA family [Clostridium cellulovorans 743B] gi|307690747|ref|ZP_07633193.1| pseudouridine synthase, RluA family protein [Clostridium cellulovorans 743B] gi|302577498|gb|ADL51510.1| pseudouridine synthase, RluA family [Clostridium cellulovorans 743B] Length = 313 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 67/248 (27%), Gaps = 36/248 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M++ I+ + +R+ K +A SR ++ +I V VNG + + + D Sbjct: 1 MEEIIIIFNELSSKRIDKFLAEQLDGYSRSFIQNIIDGNNVLVNGKPCKS-NLKLKMQDE 59 Query: 60 IEV---DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + + + + + +V S + V L Sbjct: 60 ITVIIPEPQEMNVVPENISLNILYEDEDLIVINKPQGMVVHPASGVYNNTLVNALLYHCK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G+L + G + S +L + + Sbjct: 120 DLSGINGKLRPGIVHRIDKDTSGVIVVAKNDKSHNFLAAQLKEHSMKREYIALVEGIIKE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K V++G + + N V L G+ +I+ Sbjct: 180 EEGTINQPLARDPKERIKIAVVKGGREAITHYKVIERFKENTLVRCILETGRTHQIRVHM 239 Query: 206 EFFNWKVN 213 + + Sbjct: 240 NYKKHPLV 247 >gi|320539057|ref|ZP_08038731.1| putative 23S rRNA pseudouridine synthase [Serratia symbiotica str. Tucson] gi|320030897|gb|EFW12902.1| putative 23S rRNA pseudouridine synthase [Serratia symbiotica str. Tucson] Length = 325 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV+VNG + V+ + + + Sbjct: 10 TVAESQLGQRLDQAMAELFPDYSRSRIKEWILDDRVQVNGKTANKPKEKVLGGEIVAIAA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 QIEEDPRWEPQDIALDVVYEDCDILVINKPRDRVVHPGAGNPDGTVLNALLHYYPKIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQEREITREYEAVAIGTMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHSTKRTHMAVYPMGKPAVTHYRILEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|317486057|ref|ZP_07944910.1| RluA family pseudouridine synthase [Bilophila wadsworthia 3_1_6] gi|316922684|gb|EFV43917.1| RluA family pseudouridine synthase [Bilophila wadsworthia 3_1_6] Length = 532 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 29/232 (12%), Positives = 64/232 (27%), Gaps = 34/232 (14%) Query: 14 QRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 R+ + + A SR +V+R I V+G + + V + IE+ Sbjct: 1 MRLDRFLGEALREQDVSREKVKRAIRDGGCLVDGAVCTDVSAKVGAGQSIELRMEAEPTS 60 Query: 63 ----DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 +G + L + +KP G+ + T+ L + F + + Sbjct: 61 VQPEEGELEILYQDAWLAVLNKPAGMTVHPAPSCPDGTLVHRLVARFPSLRAQEGFRPGI 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------------DKLN 159 L G + L + L + + Sbjct: 121 VHRLDKDTSGLICVALTEEARMRLSEAFAAREIRKEYLALVQGVPAPAGTVDAPLGRHPT 180 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + K V + + + + + + V + G+ +I+ Sbjct: 181 VKVKVAVAKNGKEARSEWRVLHKGQGYSLLEVRIFTGRTHQIRVHMAHIGHP 232 >gi|15803118|ref|NP_289149.1| 23S rRNA pseudouridine synthase D [Escherichia coli O157:H7 EDL933] gi|12517018|gb|AAG57707.1|AE005490_2 suppressor of ftsH mutation [Escherichia coli O157:H7 str. EDL933] Length = 326 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKLCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTXLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|161502239|ref|YP_001569351.1| hypothetical protein SARI_00264 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|160863586|gb|ABX20209.1| hypothetical protein SARI_00264 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] Length = 318 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + +D Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILNQRVLVNGQLCDKPKEKVLGGERVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|293401501|ref|ZP_06645644.1| ribosomal large subunit pseudouridine synthase D [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305139|gb|EFE46385.1| ribosomal large subunit pseudouridine synthase D [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 305 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/250 (12%), Positives = 70/250 (28%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTP-QRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M++ +++ QR+ K I+ SR V++++ + V VNG + A + D Sbjct: 1 MREIDVIVTEEEAFQRIDKYISEKEDDLSRSRVQQLLQEGIVCVNGNACK-ANYKIKPKD 59 Query: 59 HI------EVDGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 HI E++ +R + + + +V + V L Sbjct: 60 HITAVFCDEIEMEAKPEQMDLDIRYEDHDVIVINKPKGMVVHPAVGNQTGTLVNGLLYHC 119 Query: 105 FSRVISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 G + D L + + R+ + Sbjct: 120 KDLSGINGVLRPGIVHRIDKDTTGLLIVAKNDKAHTALSKQLQNKTVNRLYYALVHGVIE 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + +D + K + + + V L G+ +I+ Sbjct: 180 HDFGTIDAPIGRDVKDRQKMAVTATNAKDARTHFKVIERFAHYTLVECRLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 ++ V Sbjct: 240 HMQYIKHPVV 249 >gi|315103776|gb|EFT75752.1| ribosomal RNA large subunit methyltransferase J [Propionibacterium acnes HL050PA2] Length = 263 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 1/68 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 P R+ + + AG+A SR R++ + RV VN ++ + A+ V +TD + D Sbjct: 15 QSVPVRLDQALVEAGLARSRTLATRLVREGRVTVNRAVVTKPAMKVSTTDVLVADEEVWV 74 Query: 69 KAERTRLW 76 +L Sbjct: 75 SRAAHKLL 82 >gi|253682097|ref|ZP_04862894.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum D str. 1873] gi|253561809|gb|EES91261.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum D str. 1873] Length = 302 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 73/248 (29%), Gaps = 37/248 (14%) Query: 1 MKDKNIVQE-----NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 M+ K+ + + R++ + S R + + + R+KVNG + + Sbjct: 1 MESKDNIIKLKVEIETEEIRLNHYLKEVAQCSSRFIRKAAREGRIKVNGNNAR-LSYMLT 59 Query: 56 STDHIEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 + D +E+ + + + + +V + L Sbjct: 60 NNDIVELQINRKEEQDIIPEKMDLDIIYEDNDIIVVNKPKGIVVHPTKRHLNGTLSNGVL 119 Query: 102 PSIFSRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRV-YRVRFHGQVDQ 155 + + RLD++T GL+L+ + L + V + Sbjct: 120 YYFNDKNENSIVRLVNRLDMDTSGLVLIAKNAYSHMALSRDMQKDDFVKKYLAIVHGNFN 179 Query: 156 DKLNLLKKGIVIQGICYGD-----------MQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + ++ K I G + Q + + V + L G+ +I+ Sbjct: 180 EDSGVIDKPIYRVGEGTLKRIIDERGQRSITLFKVIEQYKNASLVELTLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 + Sbjct: 240 LSSIGHPI 247 >gi|116494944|ref|YP_806678.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus casei ATCC 334] gi|227535056|ref|ZP_03965105.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|301066507|ref|YP_003788530.1| 23S RNA-specific pseudouridylate synthase [Lactobacillus casei str. Zhang] gi|116105094|gb|ABJ70236.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus casei ATCC 334] gi|227187271|gb|EEI67338.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|300438914|gb|ADK18680.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus casei str. Zhang] Length = 306 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 36/232 (15%), Positives = 65/232 (28%), Gaps = 35/232 (15%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLRKA 70 R+ KVI A +R +V++ + V VNG +A V S D I + + PL Sbjct: 13 RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISIPEAKPLEAI 71 Query: 71 ERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-------VG 112 +V + V L I+ V Sbjct: 72 PEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGINGVIRPGIVH 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------KLNL 160 R+D +T GLL++ L + Sbjct: 132 RIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRD 191 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 K+ V+ + + + ++ L G+ +I+ + + V Sbjct: 192 RKRQAVVADGRHAVTHFQVLERFEHYTFIKCILETGRTHQIRVHMAYIHHPV 243 >gi|227499078|ref|ZP_03929215.1| hemolysin A [Acidaminococcus sp. D21] gi|226904527|gb|EEH90445.1| hemolysin A [Acidaminococcus sp. D21] Length = 266 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 13/69 (18%), Positives = 25/69 (36%), Gaps = 1/69 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ + G+ SR + + +I V V+ +++ V I + G L Sbjct: 2 KKERLDLFLVEQGLFESRSKAQAVIMAGEVLVDDQKIDKPGTMVKPDAKITLLGKKLPFV 61 Query: 71 ERTRLWLYH 79 R L Sbjct: 62 SRGGYKLNK 70 >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 = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 39/249 (15%), Positives = 78/249 (31%), Gaps = 41/249 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 MK +R+ + +A + SR ++++AQ V+VNG ++E+A+ ++ D + Sbjct: 1 MKSSRHELTVDASRRLDQFLAATELFSRSMAQKLVAQGHVQVNGTVIEKASYSLQPGDLV 60 Query: 61 EVD-----------GVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 V G + E L + +KP G+V + + +T+ + L Sbjct: 61 CVQQPAPVDHATVVGQEIPLNIWYEDESLLVVNKPAGMVVHPAAGNYDATLVNALVHYLG 120 Query: 107 RVIS----------VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + V RLD +T GL+L+ + L D Sbjct: 121 DGLPAIGGVLRPGIVHRLDKDTSGLMLVAKTEVAHQRLVSMFAAKEIDRCYLALCHGSLD 180 Query: 157 K-------------LNLLKKGIVIQGICYGDMQVTLDTQ----KGSNAWVTVGLREGKNR 199 + L + + + + L G+ Sbjct: 181 DSGVIEGNIGRDPKDRKRMAIVEADKGKTARTHYRLLEKFFCHQQWVSLIECRLDTGRTH 240 Query: 200 EIKKVFEFF 208 +I+ Sbjct: 241 QIRVHLRSV 249 >gi|261250364|ref|ZP_05942940.1| ribosomal large subunit pseudouridine synthase D [Vibrio orientalis CIP 102891] gi|260939480|gb|EEX95466.1| ribosomal large subunit pseudouridine synthase D [Vibrio orientalis CIP 102891] Length = 326 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 28/250 (11%), Positives = 69/250 (27%), Gaps = 34/250 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +VKVNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVKVNGEVISKPRTKVMGGEEIILQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + L + +V + + + L + Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDLLVINKPRGFVVHPGAGTPDGTVLNALLHHYPNIAE 128 Query: 110 SVGRLDIN------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ + + T + ++ + R ++ Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKKRNFVREYEAIAIGRMTAGGRVEQ 188 Query: 158 LNLLKKGIVIQGICY---GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + L G+ +I+ + + Sbjct: 189 PIGRHSTKRTLMAVTPTGKPAITHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL 248 Query: 213 NRLIRISYGP 222 L +YG Sbjct: 249 --LGDTAYGG 256 >gi|313903976|ref|ZP_07837356.1| pseudouridine synthase, RluA family [Eubacterium cellulosolvens 6] gi|313471125|gb|EFR66447.1| pseudouridine synthase, RluA family [Eubacterium cellulosolvens 6] Length = 311 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 34/246 (13%), Positives = 67/246 (27%), Gaps = 39/246 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH----- 59 V+ RV +A SR +++++ Q V VNG ++ V D Sbjct: 7 TVETEDEDTRVDAYLASQIDRMSRSYIQKILKQGGVLVNGKAVK-PNYKVCEDDRIEIEI 65 Query: 60 -------IEVDGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 IE + +PL + L + +V + + V L Sbjct: 66 PENEELDIEAEDIPLDILYEDDDVLIVNKPKDMVVHPAAGHYEHTLVNALLFHCRDRLSG 125 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLAR--------------VLELPSTQWLRVYRV 147 R V R+D +T G L++ + + + + + Sbjct: 126 INGVMRPGIVHRIDKDTTGALVICKNDAAHQSLAAQLAVHSITRRYRAIVAGNFKDETFT 185 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + V + A+V L G+ +I+ Sbjct: 186 VEGNIGRSANDRKKMAVVSPDKGKHAVTHVKVLQNLKGYAYVECELETGRTHQIRVHMAH 245 Query: 208 FNWKVN 213 + Sbjct: 246 IGHPLL 251 >gi|227115223|ref|ZP_03828879.1| 23S rRNA pseudouridine synthase D [Pectobacterium carotovorum subsp. brasiliensis PBR1692] Length = 325 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 68/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV++NG ++ + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILENRVQINGNVINKPKEKVLGGESVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + L + +V + + + L Sbjct: 70 LIEEEARWEAQDIKLDIVYEDEDILVINKPRDLVVHPGAGNPDGTVLNALLHHYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGSMTAGGMVEQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHATKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|182417977|ref|ZP_02949285.1| ribosomal large subunit pseudouridine synthase D [Clostridium butyricum 5521] gi|237667420|ref|ZP_04527404.1| ribosomal large subunit pseudouridine synthase D [Clostridium butyricum E4 str. BoNT E BL5262] gi|182378148|gb|EDT75683.1| ribosomal large subunit pseudouridine synthase D [Clostridium butyricum 5521] gi|237655768|gb|EEP53324.1| ribosomal large subunit pseudouridine synthase D [Clostridium butyricum E4 str. BoNT E BL5262] Length = 304 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 35/282 (12%), Positives = 72/282 (25%), Gaps = 50/282 (17%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V E R+ K ++ SR ++ +I ++ VKVN L+ + D IE+ Sbjct: 8 VDEQDEGLRIDKYLSNIFKDKSRSFIQGLIEKENVKVNSKTLKS-NYKLKKADEIEIMIP 66 Query: 63 ---------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + +P+ + + + +V + V L Sbjct: 67 EPEILSVEAENIPIDIVYEDEDVIVVNKAQGMVVHPAPGNYNGTLVNALLYHCKDLSSIN 126 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------- 155 G + + G L + L + + Sbjct: 127 GVIRPGIVHRIDKDTSGILVIAKNDDAHNKLSEQLKDHSMKREYYALIEGRLKNNDGTID 186 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +I+ + + V L G+ +I+ + Sbjct: 187 KPLGRCKKDRLKIGIIEDGKRAVTHYEVVERYNGYTLVKCVLETGRTHQIRVHMASIGFP 246 Query: 212 VN-----RLIRISY---GPF----QLGTLLA--GSTREVSKK 239 + R + G LG + G E + + Sbjct: 247 LVGDPLYGFKRQKFKLEGQVLHARTLGFIHPRTGEYMEFTSE 288 >gi|260887804|ref|ZP_05899067.1| ribosomal large subunit pseudouridine synthase D [Selenomonas sputigena ATCC 35185] gi|330838700|ref|YP_004413280.1| pseudouridine synthase, RluA family [Selenomonas sputigena ATCC 35185] gi|260862480|gb|EEX76980.1| ribosomal large subunit pseudouridine synthase D [Selenomonas sputigena ATCC 35185] gi|329746464|gb|AEB99820.1| pseudouridine synthase, RluA family [Selenomonas sputigena ATCC 35185] Length = 301 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 39/251 (15%), Positives = 78/251 (31%), Gaps = 42/251 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK++ IV E +R+ + +A R SR ++++I V VNG + A + D Sbjct: 1 MKERLIVDEGAAGERLDRFLAGRELEVSRSHIQKLIESGCVLVNGRTAK-ANAKLREGDA 59 Query: 60 IE-----------------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 +E +D + + + + +V + + V L Sbjct: 60 VETELPEARELEILPEDIPLD---ILYEDSDVIVINKARGMVVHPAAGAADGTLVNALLH 116 Query: 103 SI--------FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 R V RLD +T G+++ + L + R Sbjct: 117 HCEDLSGINGVIRPGIVHRLDKDTSGVMVAAKNDRAHVDLAEQIREKTAQRIYRAIVCGT 176 Query: 155 Q------------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 KK V+ G + + ++ V L+ G+ +I+ Sbjct: 177 IAEDRGEIRAPIGRHPTERKKMAVVPGGKEATTLFRVVERFPAHTLVECRLKTGRTHQIR 236 Query: 203 KVFEFFNWKVN 213 + + + Sbjct: 237 VHMAYIDHPLL 247 >gi|254509457|ref|ZP_05121534.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus 16] gi|219547619|gb|EED24667.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus 16] Length = 326 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 68/241 (28%), Gaps = 32/241 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLAGKVQVNGEVVTKPRTKVMGGEEIILQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + L + +V + + + L + Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDILVINKPRGFVVHPGAGTPDGTVLNALLHHYPNIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH------------GQ 152 RLD +T GL+++ L + R Q Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKKRNFVREYEAIAIGRMTAGGRIEQ 188 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 V + + + + L G+ +I+ + + Sbjct: 189 PIGRHSTKRTLMAVSPMGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL 248 Query: 213 N 213 Sbjct: 249 L 249 >gi|147921289|ref|YP_684897.1| putative ribosomal RNA methyltransferase [uncultured methanogenic archaeon RC-I] gi|110620293|emb|CAJ35571.1| putative ribosomal RNA methyltransferase [uncultured methanogenic archaeon RC-I] Length = 216 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G IASR +R I + VK+NG ++ + + V IE+ Sbjct: 1 MRLDEYLVSEGLIASRSRAKRYIHRGLVKLNGEVVTKPSKQVKPGAIIEI 50 >gi|166031852|ref|ZP_02234681.1| hypothetical protein DORFOR_01553 [Dorea formicigenerans ATCC 27755] gi|166028305|gb|EDR47062.1| hypothetical protein DORFOR_01553 [Dorea formicigenerans ATCC 27755] Length = 302 Score = 61.3 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 75/242 (30%), Gaps = 38/242 (15%) Query: 9 ENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 EN R+ + +A SR ++++I +Q +KVN ++ A ++ D +EV Sbjct: 8 ENEEGDRIDRYLAEEMPERSRSYLQKLIKEQYIKVNNKPVK-ANYRLVLGDRVEVCIPEA 66 Query: 63 ---DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG- 112 D P + + + + +V + V + + + + Sbjct: 67 KEPDIEPENIPLDILYEDEDVIVVNKPKQMVVHPAPGHYSGTLVNALMYHCGNELSGING 126 Query: 113 ---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + D+ + L + + + R+ E ++ + Sbjct: 127 TSRPGIVHRIDMDTTGSLIICKNDMAHQSLAVQLEEHSINRIYEAIVHGNIKEEEGTVNA 186 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + K I + + + G ++ L G+ +I+ Sbjct: 187 PIGRHPTDRKKMSIHAKNARNAITHYKVLKRFGDYTYIQCKLETGRTHQIRVHMASIGHP 246 Query: 212 VN 213 + Sbjct: 247 LL 248 >gi|288803980|ref|ZP_06409402.1| ribosomal large subunit pseudouridine synthase D [Prevotella melaninogenica D18] gi|288333550|gb|EFC72003.1| ribosomal large subunit pseudouridine synthase D [Prevotella melaninogenica D18] Length = 365 Score = 61.0 bits (146), Expect = 2e-07, Method: Composition-based stats. Identities = 30/247 (12%), Positives = 67/247 (27%), Gaps = 42/247 (17%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 IV + P R+ K + R +SR +++ + VN ++ V D I + Sbjct: 37 IVDKGQEPVRIDKFLFERMQHSSRNRIQKAADAGYIHVNNAPVKS-NYKVRPEDVITLML 95 Query: 63 -----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + + +V + + + + Sbjct: 96 DRPKHDNTIEAEDIPLDVVYEDDILMVVNKPAGLVVHPGAGNFHGTLINAIAWHLKDMPS 155 Query: 110 SV---------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRV 147 R+D +T GLL++ R + Sbjct: 156 FDPNDPEVGLVHRIDKDTSGLLVIAKTPDAKTALGKQFFNKTTHRSYNAIVWGNMTEDEG 215 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICY-GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKV 204 R G + +D + L+ + + + G + L G+ +I+ Sbjct: 216 RIEGNIARDPKDRLRMTVFPPDSEVGKPAVTHYRVIERFGYTTLIECILETGRTHQIRAH 275 Query: 205 FEFFNWK 211 + Sbjct: 276 MKHIGHP 282 >gi|119713310|gb|ABL97374.1| putative ribosomal large subunit pseudouridine synthase D [uncultured marine bacterium EB80_02D08] Length = 310 Score = 61.0 bits (146), Expect = 2e-07, Method: Composition-based stats. Identities = 35/241 (14%), Positives = 70/241 (29%), Gaps = 33/241 (13%) Query: 4 KNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 KN+ N +R+ K A SR ++++ I +V VNG + + V D IE+ Sbjct: 4 KNVPN-NLALKRLDKAAAEMFTDYSRTQIKKWIEDGKVLVNGEI-SQPREKVHENDEIEL 61 Query: 63 DGV--------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 + + + + ++ S + + Sbjct: 62 NPAEEQKVSWEPEDIQFEVHFENEDFIIINKPAGLIMHPGSGCYDGTLANGLIFKFPELV 121 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-----------VRFHGQ 152 R V RLD +T G+LL+ + + + Sbjct: 122 NIPRSGIVHRLDKDTSGILLVARTESFRNFFINEMQERRVIKKYSSIVIGSTLGSFSIED 181 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 N K + + V L G+ + + V + G+ +I+ + Sbjct: 182 PIGRDKNNRTKMAIREDGKDALTFVKLKENIGNYSVLDVRIETGRTHQIRVHLASKKLPI 241 Query: 213 N 213 Sbjct: 242 I 242 >gi|283835694|ref|ZP_06355435.1| ribosomal large subunit pseudouridine synthase D [Citrobacter youngae ATCC 29220] gi|291068911|gb|EFE07020.1| ribosomal large subunit pseudouridine synthase D [Citrobacter youngae ATCC 29220] Length = 326 Score = 61.0 bits (146), Expect = 2e-07, Method: Composition-based stats. Identities = 27/239 (11%), Positives = 62/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG L ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNGHLCDKPKEKVLGGEQVSINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEVRFEPQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|229587213|ref|YP_002845714.1| Ribosomal large subunit pseudouridine synthases RluD subfamily protein [Rickettsia africae ESF-5] gi|228022263|gb|ACP53971.1| Ribosomal large subunit pseudouridine synthases RluD subfamily protein [Rickettsia africae ESF-5] Length = 313 Score = 61.0 bits (146), Expect = 2e-07, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 65/239 (27%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ K ++ SR ++++ I +V VN +++ V V D I Sbjct: 12 GIRLDKALSSLLENVSRNQIQKAIKDSQVLVNDVIISDPDVLVKENDIILFSFKEPEELK 71 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVG 112 + + + + V + + V L + G Sbjct: 72 IATANVALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTKNLSDIGSSERPG 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + + L + L + Q + +R + + +N L+ I Sbjct: 132 IVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKVLVWGVINPLEGVIKNNIGRS 191 Query: 173 GDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + KGS + V L G+ +I+ + Sbjct: 192 RSDRQKMTILKYGGKEAVTHYKTLELFYKGSISMVECKLSTGRTHQIRVQLSHLKHSIV 250 >gi|50122269|ref|YP_051436.1| 23S rRNA pseudouridine synthase D [Pectobacterium atrosepticum SCRI1043] gi|49612795|emb|CAG76245.1| ribosomal large subunit pseudouridine synthase D [Pectobacterium atrosepticum SCRI1043] Length = 325 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 68/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV++NG ++ + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDNRVQINGNVINKPKEKVLGGESVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + ++ L + +V + + + L Sbjct: 70 LIEEEARWEAQDIKLDIVYEDQDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGSMTAGGMVEQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 ARHATKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHIDHPLV 248 >gi|300771291|ref|ZP_07081167.1| ribosomal large subunit pseudouridine synthase D [Sphingobacterium spiritivorum ATCC 33861] gi|300761961|gb|EFK58781.1| ribosomal large subunit pseudouridine synthase D [Sphingobacterium spiritivorum ATCC 33861] Length = 348 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 36/236 (15%), Positives = 74/236 (31%), Gaps = 40/236 (16%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 R+ K + ASR +++ I V VN +++ + V D I V Sbjct: 32 RIDKFLMNRVENASRNKIQNAIDAGSVLVNDSVIKS-SYKVKPFDIISVVLPDPPRDTEV 90 Query: 63 --DGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 + +PL E + + +K G+V + T+ + L F+++ ++ Sbjct: 91 YPEDIPLDIIFEDDEVMVVNKVAGMVVHPGFNNYTGTLVNALTHHFNQLPTMPGNAGRPG 150 Query: 112 --GRLDINTEGLLLLTNDGGLARV----LELPSTQWLRVYRVRFHGQVDQ---------- 155 R+D +T GLL++ S V V D Sbjct: 151 LVHRIDKDTSGLLVIAKSEWAMTYLAKQFFDHSIMRKYVAMVWGDIAEDGTVTGYIGRNL 210 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 ++ + + + + G + L G+ +I+ + Sbjct: 211 KDRRVMTMYDDSEKGKWSVTHYRVLERLGYVTLIECQLETGRTHQIRAHMQSIGHP 266 >gi|254976188|ref|ZP_05272660.1| putative pseudouridylate synthase [Clostridium difficile QCD-66c26] gi|255093577|ref|ZP_05323055.1| putative pseudouridylate synthase [Clostridium difficile CIP 107932] gi|255315322|ref|ZP_05356905.1| putative pseudouridylate synthase [Clostridium difficile QCD-76w55] gi|255517989|ref|ZP_05385665.1| putative pseudouridylate synthase [Clostridium difficile QCD-97b34] gi|255651105|ref|ZP_05398007.1| putative pseudouridylate synthase [Clostridium difficile QCD-37x79] Length = 315 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 35/235 (14%), Positives = 72/235 (30%), Gaps = 37/235 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ +A G SR ++++I +VKVN + E+A V D+I ++ Sbjct: 29 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKAKYLVKEEDNIVIEIPEPKVLEVL 87 Query: 64 --GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 +P+ + L + +V + V L ++ S+ Sbjct: 88 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSINGVIRPGI 147 Query: 112 -GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 R+D +T GLL++ + L + F + + + + Sbjct: 148 VHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREYEFICYGVVKEDKITVDKPIGRNP 207 Query: 171 CYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIKKVFEFFNWKVN 213 + K + V L G+ +I+ N + Sbjct: 208 KDRLKMAVVKDGKNAITHFEVVERFDKFTHMRARLETGRTHQIRVHALSINHPLL 262 >gi|226328713|ref|ZP_03804231.1| hypothetical protein PROPEN_02608 [Proteus penneri ATCC 35198] gi|225201899|gb|EEG84253.1| hypothetical protein PROPEN_02608 [Proteus penneri ATCC 35198] Length = 325 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 38/304 (12%), Positives = 82/304 (26%), Gaps = 44/304 (14%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V ++ QR+ + +A SR ++ I RV+VN ++ + ++ + IE+D Sbjct: 10 TVADSQLGQRLDQALAEMFPDYSRSRIKEWILDNRVQVNDKIINKPKEKMLGGEKIEIDA 69 Query: 64 -------GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + L + +V + + + L Sbjct: 70 LIEEDVRWEPQNIPLNIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLYRYPEIANV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVEALQRREITREYEAVATGRMTAGGLVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHIHHAL-- 247 Query: 215 LIRISYGPFQLGTLLAGSTREVSK--KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 G L AG R + LRE L + + + + + Sbjct: 248 -----IG----DQLYAGRPRPLKGASDELRETLRLFDRQALHATMLRLYHPITGIEMEWH 298 Query: 273 NIIS 276 + Sbjct: 299 APLP 302 >gi|255656576|ref|ZP_05401985.1| putative pseudouridylate synthase [Clostridium difficile QCD-23m63] gi|296449972|ref|ZP_06891736.1| ribosomal large subunit pseudouridine synthase D [Clostridium difficile NAP08] gi|296878353|ref|ZP_06902361.1| ribosomal large subunit pseudouridine synthase D [Clostridium difficile NAP07] gi|296261242|gb|EFH08073.1| ribosomal large subunit pseudouridine synthase D [Clostridium difficile NAP08] gi|296430651|gb|EFH16490.1| ribosomal large subunit pseudouridine synthase D [Clostridium difficile NAP07] Length = 315 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 35/235 (14%), Positives = 72/235 (30%), Gaps = 37/235 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ +A G SR ++++I +VKVN + E+A V D+I ++ Sbjct: 29 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKI-EKAKYLVKEEDNIVIEIPEPKVLEVV 87 Query: 64 --GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 +P+ + L + +V + V L ++ S+ Sbjct: 88 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSINGVIRPGI 147 Query: 112 -GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 R+D +T GLL++ + L + F + + + + Sbjct: 148 VHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREYEFICYGVVKENKITVDKPIGRNP 207 Query: 171 CYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIKKVFEFFNWKVN 213 + K + V L G+ +I+ N + Sbjct: 208 KDRLKMAVVKDGKNAITHFEVVERFDKFTHMRAKLETGRTHQIRVHALSINHPLL 262 >gi|209525222|ref|ZP_03273765.1| pseudouridine synthase, RluA family [Arthrospira maxima CS-328] gi|209494407|gb|EDZ94719.1| pseudouridine synthase, RluA family [Arthrospira maxima CS-328] Length = 308 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 31/270 (11%), Positives = 67/270 (24%), Gaps = 45/270 (16%) Query: 8 QENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++ QR+ K ++ SR ++ +I+ V +N V D I+V+ P Sbjct: 9 DKDGENQRLDKWLSERVHQLSRSRLQALISSGHVWINNSPCTSKKATVQIGDRIQVEIPP 68 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + + L + +V + + V L Sbjct: 69 AIPLELKATNIPLDILYEDEELLIINKPAGLVVHPAPGHENDTLVNALLAHCETLAGIGG 128 Query: 106 --------------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + I++ + D + L R + Sbjct: 129 VQRPGIVHRLDKDTTGAIAIAKTDHAHQHLQAQIQAKTARRQYLGIIYGVPKTTSGVIDQ 188 Query: 152 Q--VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + QG + + G+ + L G+ +I+ Sbjct: 189 PIGRHPSDRQKMAIVPQHQGGRSAITHWKVKERLGNYTLIEFELETGRTHQIRVHSASMG 248 Query: 210 WKVNRLIRISYG-----PFQLGTLLAGSTR 234 + R+ YG L + + Sbjct: 249 HPIVG-DRV-YGKGRSVGVNLPGQALHAWK 276 >gi|268611664|ref|ZP_06145391.1| RluA family pseudouridine synthase [Ruminococcus flavefaciens FD-1] Length = 304 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 36/244 (14%), Positives = 76/244 (31%), Gaps = 38/244 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V ++ R+ K I+ +R V+ ++ + ++ V+G + + + D +EV+ Sbjct: 9 VSDSDRGARIDKFISDNVEELTRSAVQGLMEKGKILVSGKSVSK-NYKLRDGDTVEVEIP 67 Query: 64 -GVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----- 106 P + + L + +V + V L Sbjct: 68 EPEPMDALPEDIPLDIVYEDSDLLVVNKPKGMVVHPAHGNHSGTLVNALLHHCGDSLSGI 127 Query: 107 ----RVISVGRLDINTEGLLLLTNDGGLARVLELPST-------------QWLRVYRVRF 149 R V R+D NT GLL++ + L + + Sbjct: 128 NGVIRPGIVHRIDKNTSGLLIVAKNDAAHLHLAEQIKVHSFTREYEAVASGYFKETEGTI 187 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + K + K + + ++ Q G A V + L G+ +I+ + Sbjct: 188 DAPIGRHKTDRKKMCVTTENSRNAVTHYSVIRQYGGYAHVRLRLETGRTHQIRVHLAYIG 247 Query: 210 WKVN 213 V Sbjct: 248 HPVL 251 >gi|225567968|ref|ZP_03776993.1| hypothetical protein CLOHYLEM_04041 [Clostridium hylemonae DSM 15053] gi|225163256|gb|EEG75875.1| hypothetical protein CLOHYLEM_04041 [Clostridium hylemonae DSM 15053] Length = 304 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 24/241 (9%), Positives = 68/241 (28%), Gaps = 36/241 (14%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILL--------------ERAAVN 53 EN +R+ + +A SR ++++I + VN + + Sbjct: 8 ENEEGERIDRYLAEMLSDRSRSYIQKLIKDSHILVNNKPVKANYRLSCGDMLEVTIPSAK 67 Query: 54 ---VMSTD---HIEVDGVPLRKAERTRLWLYHKPIGLVTTH---------------SDPD 92 ++ D HI + + + + + H G + + Sbjct: 68 EPDILPEDIPLHILYEDADIIIVNKPKQMVVHPAPGHYSGTLVNALMFHCGRELSGINGM 127 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 R + + + + V + D+ + L + R+ E + Sbjct: 128 MRPGIVHRIDMDTTGSLIVCKNDMAHQALSEQLKKHSIRRIYEAVVHGGFKEEEGTVSAP 187 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + + + + G +++ L G+ +I+ + Sbjct: 188 IGRHPTDRKRMSTHAKNAREAVTHYKVLERFGEYSYIQCELETGRTHQIRVHMSSIGHPI 247 Query: 213 N 213 Sbjct: 248 V 248 >gi|227540505|ref|ZP_03970554.1| pseudouridylate synthase [Sphingobacterium spiritivorum ATCC 33300] gi|227239587|gb|EEI89602.1| pseudouridylate synthase [Sphingobacterium spiritivorum ATCC 33300] Length = 348 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 35/236 (14%), Positives = 74/236 (31%), Gaps = 40/236 (16%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 R+ K + ASR +++ I V VN +++ + V D I V Sbjct: 32 RIDKFLMNRVENASRNKIQNAIDAGSVLVNDSVIKS-SYKVKPFDIISVVLPDPPRDTEV 90 Query: 63 --DGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 + +PL E + + +K G+V + T+ + L F+++ ++ Sbjct: 91 YPEDIPLDIMFEDDEVMVVNKVAGMVVHPGFNNYTGTLVNALTHHFNQLPTMPGNAGRPG 150 Query: 112 --GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------------- 155 R+D +T GLL++ L V + D Sbjct: 151 LVHRIDKDTSGLLVIAKSEWAMTYLAKQFFDHSIVRKYVAMVWGDIAEDGTITGYIGRNL 210 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 ++ + + + + G + L G+ +I+ + Sbjct: 211 KDRRVMTMYDDPEKGKWSVTHYRVLERLGYVTLIECQLETGRTHQIRAHMQSIGHP 266 >gi|49066398|gb|AAT49291.1| putative bacteriocin [Prevotella nigrescens] gi|242332477|tpg|DAA06525.1| TPA_exp: NigA [Prevotella nigrescens] Length = 363 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 30/246 (12%), Positives = 65/246 (26%), Gaps = 42/246 (17%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K + R +SR +++ + VNG ++ V D I + Sbjct: 38 VDKGQEAVRIDKFLFERMQHSSRNRIQKAADAGSIYVNGTPVKS-NYKVRPNDVITLMLD 96 Query: 63 ----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + + + + +V + + + + Sbjct: 97 RPKHDNTIVAEDMPLNVVYEDNEIMVINKPAGLVVHPGAGNFRGTLINAIAWHLRDLKNF 156 Query: 111 V---------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRVR 148 R+D +T GLLL+ R R Sbjct: 157 DPNDPAVGLVHRIDKDTSGLLLIAKTPDAKTFLGKQFFNKTTHRSYVALVWGNFTEDEGR 216 Query: 149 FHGQVDQDKLNLLKKGIVIQG-ICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G + +D + L+ + + + G + L G+ +I+ Sbjct: 217 IEGNIGRDSKDRLRMKVFDTDSGIGKPAVTHYKVLERFGYTTLIECILETGRTHQIRAHM 276 Query: 206 EFFNWK 211 + Sbjct: 277 KHIGHP 282 >gi|121604767|ref|YP_982096.1| RluA family pseudouridine synthase [Polaromonas naphthalenivorans CJ2] gi|120593736|gb|ABM37175.1| ribosomal large subunit pseudouridine synthase D [Polaromonas naphthalenivorans CJ2] Length = 344 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 67/245 (27%), Gaps = 42/245 (17%) Query: 10 NFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ K +A G+ SR ++++I V V G+ + + V + D + ++ P Sbjct: 44 ESHGCRLDKALA--GLVPEFSRSYLQQLIEDGGVLVKGLKAIKTSAKVKAGDELTIELRP 101 Query: 67 ---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + +R + + +V + + L Sbjct: 102 TPQSQAFKPEEMALDIVYEDRHLIVVNKPAGLVVHPAPGNWSGTLLNGLLAHDPQASFMP 161 Query: 112 -------------------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 + + + ++ + L W + Sbjct: 162 RAGIVHRLDKDTSGLMVVARQRQTMDQLVSMIAARTVSREYIALAHGTWEGAKTRQVEAP 221 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLD---TQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D N L+ +V G T+ + V L G+ +I+ F Sbjct: 222 IGRDPRNRLRMAVVDLEKNSGKAASTVISLLDNAEKHCLVKCKLHTGRTHQIRVHMAFLG 281 Query: 210 WKVNR 214 + Sbjct: 282 HPLVS 286 >gi|189346997|ref|YP_001943526.1| pseudouridine synthase, RluA family [Chlorobium limicola DSM 245] gi|189341144|gb|ACD90547.1| pseudouridine synthase, RluA family [Chlorobium limicola DSM 245] Length = 354 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 35/242 (14%), Positives = 76/242 (31%), Gaps = 42/242 (17%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------- 62 P R+ K + + A+R +V+ I ++RV VNG ++ + S D I + Sbjct: 37 PMRIDKYLTQQVENATRNKVQEAIEEERVLVNGRPVKS-NYRIKSCDTILITFLRPPAPE 95 Query: 63 ---DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS------- 110 + +P+ + + + +P +V + L I S Sbjct: 96 LAPEDIPIDIVYEDSDLMVVNKEPGMVVHPAFGNWTGTLANAILHHIGRDAESLDASELR 155 Query: 111 ---VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK---------- 157 V RLD +T GL+++ + L + D Sbjct: 156 PGIVHRLDKDTSGLIIIAKNPTALHRLARQFAMRQVQKIYKAIVWGVPDPRSGTILTNIG 215 Query: 158 ----LNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFNWK 211 + +G+ ++ + + V++ L G+ +I+ + Sbjct: 216 RSKKNRKIMANYPYEGLDGKHAITDYLVEENLHWFSVVSLTLHTGRTHQIRAHMQHTGNP 275 Query: 212 VN 213 + Sbjct: 276 IL 277 >gi|307132187|ref|YP_003884203.1| 23S rRNA pseudouridine synthase [Dickeya dadantii 3937] gi|306529716|gb|ADM99646.1| 23S rRNA pseudouridine synthase [Dickeya dadantii 3937] Length = 325 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 70/239 (29%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +QRV++NG ++++ V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKTWILEQRVQINGKMVDKPKEKVLGGESVAIDA 69 Query: 65 ----------VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 P+ + L + +V + + + L Sbjct: 70 LIEEDARWEAQPISLDIVYEDEDILVINKPRDLVVHPGAGNPDGTVLNALLHHYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQAREITREYEAVAIGTMTAGGTVEEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|319900222|ref|YP_004159950.1| ribosomal large subunit pseudouridine synthase D [Bacteroides helcogenes P 36-108] gi|319415253|gb|ADV42364.1| ribosomal large subunit pseudouridine synthase D [Bacteroides helcogenes P 36-108] Length = 355 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 68/244 (27%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + R ASR +++ V NG ++ + V D I V Sbjct: 32 VVDKGQVMMRVDKYLFDRLTNASRNRIQKAADAGFVMANGKPVKS-SYKVKPQDVITVMM 90 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + ++ + + +V + V + Sbjct: 91 DRPRYENEVIPEDIPLNIVYEDKHLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDNPD 150 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-- 158 R+D +T GLL++ L R R + ++ Sbjct: 151 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGNQFFNKTTKRRYRALVWGNVEQDEG 210 Query: 159 -----------NLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 211 TVVGNIGRNPKDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHMK 270 Query: 207 FFNW 210 Sbjct: 271 HIGH 274 >gi|15888079|ref|NP_353760.1| hemolysin [Agrobacterium tumefaciens str. C58] gi|15155705|gb|AAK86545.1| hemolysin [Agrobacterium tumefaciens str. C58] Length = 250 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 27/57 (47%), Gaps = 1/57 (1%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + +R+ +++ G ASR +++ V VNG ++ + + V + I + Sbjct: 1 MSKTSENERLDQLLVSRGHFASRSRARDAVSRGTVSVNGKIVTKPSQTVAANVKIAI 57 >gi|156932863|ref|YP_001436779.1| 23S rRNA pseudouridine synthase D [Cronobacter sakazakii ATCC BAA-894] gi|156531117|gb|ABU75943.1| hypothetical protein ESA_00660 [Cronobacter sakazakii ATCC BAA-894] Length = 326 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I QRV VNG + + V+ + + ++ Sbjct: 10 TVSESQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGQMCDTPKEKVLGGERVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQLREITREYEAVAIGHMTAGGTVSEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRIHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|313679575|ref|YP_004057314.1| hemolysin a [Oceanithermus profundus DSM 14977] gi|313152290|gb|ADR36141.1| hemolysin A [Oceanithermus profundus DSM 14977] Length = 245 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 1/54 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +A G+ SR + + +I RV+V+G + + + V IEV G Sbjct: 3 ERVRLDVALAARGLVESRAKAQELIRAGRVRVDGAVATKPSRKVGPEARIEVVG 56 >gi|319408111|emb|CBI81764.1| ribosomal large subunit pseudouridine synthase D [Bartonella schoenbuchensis R1] Length = 340 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 23/268 (8%), Positives = 65/268 (24%), Gaps = 64/268 (23%) Query: 4 KNIVQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + I E+ QR+ + +A+ SR ++ +I + +KV+G L++ + IE Sbjct: 3 QQITDESALGQRIDQWLAKKYHNELSRSRLQTLIREGYLKVDGQLIKEPKTKLQPNQTIE 62 Query: 62 ----------VDGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--- 104 ++G + + + + +V + + V + Sbjct: 63 LIIPPLKNVHLEGEAIVLDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIHHCGDS 122 Query: 105 ----------------------------FSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + G + A + Sbjct: 123 LSGIGGVKRPGIVHRLDKNTSGVMVVAKNDFAHKSLSAQFSDHGRTCALDRRYHALIWNA 182 Query: 137 PSTQ-----------WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 P + + + + +++ + Sbjct: 183 PRRNIGTIDVPLGRSPHNRIKQTVVRHQNVHARHAITHFSLLEKYKT------CADAEPF 236 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + L G+ +I+ + Sbjct: 237 ASLLECRLETGRTHQIRVHMAHIGHPLV 264 >gi|294791518|ref|ZP_06756675.1| cytotoxin/hemolysin [Scardovia inopinata F0304] gi|294457989|gb|EFG26343.1| cytotoxin/hemolysin [Scardovia inopinata F0304] Length = 276 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + G+ SR +R++ V +NG + + + V D I + Sbjct: 1 MRIDKALVSRGLCPSRTRAQRLLEAGLVLLNGHVCTKPSQTVEDKDQISL 50 >gi|317504079|ref|ZP_07962082.1| ribosomal large subunit pseudouridine synthase D [Prevotella salivae DSM 15606] gi|315664821|gb|EFV04485.1| ribosomal large subunit pseudouridine synthase D [Prevotella salivae DSM 15606] Length = 355 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 41/249 (16%), Positives = 75/249 (30%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K V + TP R+ K +A SR +++ ++VN ++ V D I + Sbjct: 24 KIEVDKGQTPVRIDKFLAEKNPYQSRNRIQQAADSGCIRVNNQPVKS-NYKVRPGDVITL 82 Query: 63 -------------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + +PL E L + +KP G+V + T+ + + + Sbjct: 83 MLDRPKHDTSIIAEDIPLDIVYEDDVLMVVNKPAGMVVHPGAGNFTGTLINAVAWHLKDL 142 Query: 109 ISV----------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVY 145 R+D +T GLL++ R L Sbjct: 143 KGFDANDPEVGLVHRIDKDTSGLLVVAKTPEAKTVLGKQFFNKTTHRSYNALVWGNLVED 202 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 G V +D N L+ + + + G V L G+ +I+ Sbjct: 203 EGTIEGNVARDPKNRLRMKVFSPESGIGKNAVTHYRVIERYGYTTLVECILETGRTHQIR 262 Query: 203 KVFEFFNWK 211 + Sbjct: 263 VHMKHIGHP 271 >gi|212712902|ref|ZP_03321030.1| hypothetical protein PROVALCAL_03999 [Providencia alcalifaciens DSM 30120] gi|212684447|gb|EEB43975.1| hypothetical protein PROVALCAL_03999 [Providencia alcalifaciens DSM 30120] Length = 325 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 + E+ QR+ + +A SR ++ I RV+VNG ++ +A V+ + I +D Sbjct: 10 TIAESQLGQRLDQALAELFPDYSRSRIKEWILDDRVQVNGKVINKAKEKVLGGEQISIDA 69 Query: 64 -------GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 P + + L + +V + + + L Sbjct: 70 LIEEDTRWEPQDIPLDVVYEDEDILIINKPRDLVVHPGAGNPDGTILNALLYRYPEIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + A + ++ V R + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVEALQRREITREYEAVAVGRMTAGGMVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLI 248 >gi|15895383|ref|NP_348732.1| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824] gi|15025103|gb|AAK80072.1|AE007712_8 Predicted pseudouridylate synthase, YLYB B.subtilis ortholog [Clostridium acetobutylicum ATCC 824] gi|325509529|gb|ADZ21165.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018] Length = 305 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 33/244 (13%), Positives = 70/244 (28%), Gaps = 36/244 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K I++E + QR+ +A+ SR ++ +I +++V VNG ++ + S D++ Sbjct: 3 KYNFIIEEEYENQRIDVYLAQEFENISRSHIQDLIGKKKVFVNGKAVKS-NYKLKSRDNV 61 Query: 61 EV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 E D L+ +R + + +V + V L Sbjct: 62 EFEIPDNEELKIEAENIPLDIVYEDRDIVVVNKAQGMVVHPAPGNYNGTLVNALLYHCKD 121 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G L + G L + + L Sbjct: 122 LSGINGVLRPGIVHRIDKDTSGILVVAKNDAAHKNLANQLKEHSMNRVYRAVVEGIIKED 181 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K V++G + + ++ + L G+ +I+ Sbjct: 182 EGTVDKPLARHPVERVKIAVVKGGRNAVTHYKVLERYRNSTLIECKLETGRTHQIRVHMA 241 Query: 207 FFNW 210 + Sbjct: 242 YIGH 245 >gi|56964104|ref|YP_175835.1| pseudouridine synthase [Bacillus clausii KSM-K16] gi|56910347|dbj|BAD64874.1| pseudouridine synthase [Bacillus clausii KSM-K16] Length = 302 Score = 61.0 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 69/241 (28%), Gaps = 35/241 (14%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLER-----AAVNVMST-- 57 I+ + QR+ KV+ G ASR V+R I + V VN ++ V T Sbjct: 5 IITKEHHEQRIDKVVVDLHGQASRTAVQRWINEGAVLVNEKEVKTNSKVQQGDKVTLTEP 64 Query: 58 --DHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +E+ G + + + + +V + + V L Sbjct: 65 AAQEVELLGEDIPLDVVYEDSDVIVVNKPRGLVVHPAPGHESGTLVNALLFHCKDLSGIN 124 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRFH 150 G + + G + + + L + Sbjct: 125 GEIRPGIVHRIDKDTSGLIMAAKHDAAHEHLAAQLKAKTTERRYKAIVHGVIPHAKGTID 184 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +D + K + +L+ ++++ L G+ +I+ F + Sbjct: 185 APIGRDPKDRQKMAVTHVNSRPAVTHFSLEETFKQYSYISCELETGRTHQIRVHFNYIGH 244 Query: 211 K 211 Sbjct: 245 P 245 >gi|313901079|ref|ZP_07834567.1| pseudouridine synthase, RluA family [Clostridium sp. HGF2] gi|312954037|gb|EFR35717.1| pseudouridine synthase, RluA family [Clostridium sp. HGF2] Length = 304 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 64/245 (26%), Gaps = 36/245 (14%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-- 61 K I R+ K I+ SR V+ ++A+ + VN ++ A V + D I Sbjct: 5 KIIAAAEDAGARIDKYISEQEDLSRSRVQALLAEGSILVNQNAVK-ANYKVKADDCITAV 63 Query: 62 VDGVP------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +R + + + +V + + V L Sbjct: 64 FNDEMEMEARPEKMELDVRYEDEDVIVINKPKNIVVHPAAGNQSGTLVNGLLYHCKDLSG 123 Query: 110 SVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G L L + R+ ++ Sbjct: 124 INGTLRPGIVHRIDKDTTGLLIIAKNDLAHASLSKQLQSKTVNRLYYALVHGVIQHDFGT 183 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D + K + + + + V L G+ +I+ ++ Sbjct: 184 IDAPIGRDVKDRQKMAVTATNSKDARTHFQVIERFENYTLVECRLETGRTHQIRVHMQYI 243 Query: 209 NWKVN 213 V Sbjct: 244 GHPVV 248 >gi|330896109|gb|EGH28330.1| S4 domain-containing protein [Pseudomonas syringae pv. japonica str. M301072PT] Length = 161 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 31/158 (19%), Positives = 62/158 (39%), Gaps = 4/158 (2%) Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 ++T + S L F R+ ++ L N GL++ + D + R L ++ Sbjct: 6 QMITPGTLSVDHSYSKRPLKGHFMRLEAISSLQANASGLMVFSQDWKILRKLTDDRSKIE 65 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + Y V G++ LN L G+ +G ++ + + + ++ + I Sbjct: 66 QEYVVEISGEMVAHGLNRLNHGLTYKGKELPAVKASWQNENR----LRFAMKNPQPSIIA 121 Query: 203 KVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKI 240 + E K+ + RI G +G L G R ++ K Sbjct: 122 LLCEAVGLKIVAIRRIRIGGVSMGKLPEGQWRYMTAKE 159 >gi|332799431|ref|YP_004460930.1| pseudouridine synthase, RluA family [Tepidanaerobacter sp. Re1] gi|332697166|gb|AEE91623.1| pseudouridine synthase, RluA family [Tepidanaerobacter sp. Re1] Length = 308 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 25/247 (10%), Positives = 69/247 (27%), Gaps = 36/247 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K V + +R+ +A SR +++ I + +KVNG +++ + D I Sbjct: 4 KYAFTVTRDDEKKRLDIFLADKLQDSRSFLKKGIVEGWIKVNGSIVK-PNYRLRQEDQII 62 Query: 62 V----------DGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V D + +R + + +V + + L Sbjct: 63 VTVPQALQPLIDPEDIPLDIIFEDRDIVVINKPRGMVVYPAPGNYSGTLINALLNHTKDL 122 Query: 108 VISVGRLDI---------------------NTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 G + L + +V + ++ + Sbjct: 123 SARGGTMRPGIVHRLDKDTSGVIVVAKNDTAHINLSKQLKSREVKKVYQTLVWGKVQEDK 182 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + + + + + + + + ++ V + G+ +I+ + Sbjct: 183 ATINAPIGRHPIKRKEMAVTTKNSKEAITHFKVLERFDEFTFLEVAIETGRTHQIRVHMK 242 Query: 207 FFNWKVN 213 F + Sbjct: 243 FIGHPIV 249 >gi|289422301|ref|ZP_06424151.1| ribosomal large subunit pseudouridine synthase D [Peptostreptococcus anaerobius 653-L] gi|289157246|gb|EFD05861.1| ribosomal large subunit pseudouridine synthase D [Peptostreptococcus anaerobius 653-L] Length = 320 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 81/245 (33%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 IV ++ R+ IA SR ++++I + R++VN + E+A+ V + D IEV+ Sbjct: 23 IVSDDDADSRLDFYIASQYRDISRSYIQKLIKEDRIRVNSKI-EKASYKVKTGDKIEVNM 81 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 G+ + + + + + +V R+ V L R+ S Sbjct: 82 PEPQALEIEPQDIGIDIVYEDDYLMVVNKQQGMVVHPAPGNPDRTLVNAVLFHCGDRLSS 141 Query: 111 VGRL----------------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + + +GL + R E+ + Sbjct: 142 INGVIRPGIVHRIDKNTSGLLVIAKDNQTHQGLSDQFKVHSITREYEMICIGNVEWQEKT 201 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 G + ++ + +K IV L + ++ L G+ +I+ Sbjct: 202 IDGPIGRNPKDRMKMAIVKTNGKRAVTHFRLVENYDGYSHLSARLETGRTHQIRVHISSI 261 Query: 209 NWKVN 213 N + Sbjct: 262 NRPIL 266 >gi|260771109|ref|ZP_05880036.1| ribosomal large subunit pseudouridine synthase D [Vibrio furnissii CIP 102972] gi|260613706|gb|EEX38898.1| ribosomal large subunit pseudouridine synthase D [Vibrio furnissii CIP 102972] gi|315179286|gb|ADT86200.1| 23S rRNA pseudouridine synthase D/large subunit [Vibrio furnissii NCTC 11218] Length = 324 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 35/265 (13%), Positives = 79/265 (29%), Gaps = 35/265 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+E+ QR+ + +A SR ++ + + +V VNG ++ + VM + I V Sbjct: 9 QTVKESQLGQRLDQAVAELFTDFSRSRLKEWLLEGKVMVNGNVVTKPRTKVMGGEAITVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + + + L Sbjct: 69 AELEDEQRWEAQDIPLNIVYEDDDIIVINKPRDLVVHPGAGTPDGTVLNALLFHFPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRELQKRNITREYEAIAIGKMTAGGMIDKP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVSPLGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 L +YG + G+T+E++ Sbjct: 248 -LGDTAYGGRA--RIPKGATQELTD 269 >gi|149907608|ref|ZP_01896355.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Moritella sp. PE36] gi|149809278|gb|EDM69207.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Moritella sp. PE36] Length = 326 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 28/240 (11%), Positives = 68/240 (28%), Gaps = 33/240 (13%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 +V E+ QR+ +V+A SR ++ I V +NG ++ +A + D I Sbjct: 10 VVAEHQVGQRLDQVLAEMFPDYSRTRLKEWILAGFVNLNGNVVVKAREKMQYGDKIILNA 69 Query: 61 EVDGV----------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 EVD + + L + +V + + + L Sbjct: 70 EVDEEVRYEPQDLPLVIVYEDDDILVINKPAGFVVHPGAGNPDGTVLNALLFHYPDIIDV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF------HGQV 153 R+ + + A + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVIAKTIPAQTHLVTALQARRITREYEAVVSGTMTAGGFVDEPI 189 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + G + + +++ + + L G+ +I+ + Sbjct: 190 GRHATKRTQMAVRPLGKPAKT-HYRVAEKYRAHSLLRLRLESGRTHQIRVHMTHIMHPIV 248 >gi|117624818|ref|YP_853731.1| 23S rRNA pseudouridine synthase D [Escherichia coli APEC O1] gi|218559515|ref|YP_002392428.1| 23S rRNA pseudouridine synthase D [Escherichia coli S88] gi|237706817|ref|ZP_04537298.1| 23S rRNA pseudouridine synthase D [Escherichia sp. 3_2_53FAA] gi|115513942|gb|ABJ02017.1| 23S rRNA pseudouridine synthase [Escherichia coli APEC O1] gi|218366284|emb|CAR04036.1| 23S rRNA pseudouridine synthase [Escherichia coli S88] gi|226899857|gb|EEH86116.1| 23S rRNA pseudouridine synthase D [Escherichia sp. 3_2_53FAA] gi|315284807|gb|EFU44252.1| pseudouridine synthase, RluA family [Escherichia coli MS 110-3] gi|323951205|gb|EGB47081.1| RluA family protein pseudouridine synthase [Escherichia coli H252] gi|323957037|gb|EGB52763.1| RluA family protein pseudouridine synthase [Escherichia coli H263] Length = 326 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 56/239 (23%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNV---------- 54 V EN QR+ + +A SR ++ I QRV VNG + ++ V Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQMAINA 69 Query: 55 --------MSTDH---IEVDGVPLRKAERTRLWLYHKPIGLVTTHS----DPDGRSTVFD 99 D I + + + R + H G Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 I R+ + + + + ++ V D Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|78776982|ref|YP_393297.1| pseudouridine synthase, RluD [Sulfurimonas denitrificans DSM 1251] gi|78497522|gb|ABB44062.1| ribosomal large subunit pseudouridine synthase D [Sulfurimonas denitrificans DSM 1251] Length = 323 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 36/248 (14%), Positives = 74/248 (29%), Gaps = 41/248 (16%) Query: 7 VQENF-----TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + E T +R+ + SR ++ ++I ++ V+V+G ++ R+ V + + Sbjct: 1 MNETQSYICETIERLDTFLTSILGQSRSQIAQLIKKELVQVDGKVVSRSGVKLKKNQVVL 60 Query: 62 V----------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 V D L + T L ++ P T D + Sbjct: 61 VKFPPAEIKPALDIDFDVEILYEDDDILVINKPTGLTVHPAPSVKEATLVDWLKHKGMRL 120 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------V 147 + S R V RLD T G +++ + L + Sbjct: 121 SSLSGEERHGIVHRLDKGTSGAMVIAKNNSTHEFLSDQLQDKSMGRYYLAVINPPLKDEL 180 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--TQKGSNAWVTVGLREGKNREIKKVF 205 + K ++ Y + + +N + L G+ +I+ Sbjct: 181 TEVIFPIARSSHNRLKMAPLEHGKYAKSAFKVLAYSNDEANQLIACKLYTGRTHQIRVHL 240 Query: 206 EFFNWKVN 213 E N + Sbjct: 241 ESLNRHIV 248 >gi|284052171|ref|ZP_06382381.1| ribosomal large subunit pseudouridine synthase D [Arthrospira platensis str. Paraca] gi|291568935|dbj|BAI91207.1| probable pseudouridine synthase [Arthrospira platensis NIES-39] Length = 308 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 31/270 (11%), Positives = 68/270 (25%), Gaps = 45/270 (16%) Query: 8 QENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +++ QR+ + ++ SR ++ +I+ V VN V D I+V+ P Sbjct: 9 EQDGENQRLDRWLSERVQQLSRSRLQALISSGHVWVNNSPCTSKKATVQIGDRIQVEIPP 68 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + + L + +V + V L Sbjct: 69 AIPLELKATNIPLDILYEDEELLIINKPAGLVVHPAPGHANDTLVNALLAHCETLAGIGG 128 Query: 106 --------------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + I++ + D + L R + Sbjct: 129 VQRPGIVHRLDKDTTGAIAIAKTDHAHQHLQAQIQAKTARRQYLGIIYGVPKTTSGVIDQ 188 Query: 152 Q--VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + QG + + + G+ + L G+ +I+ Sbjct: 189 PIGRHHSDRKKMAIVPEHQGGRSAITRWQVQERLGNYTLIEFELETGRTHQIRVHSASIG 248 Query: 210 WKVNRLIRISYG-----PFQLGTLLAGSTR 234 + R+ YG L + + Sbjct: 249 HPIVG-DRV-YGKGRSVGVNLPGQALHAWK 276 >gi|149182321|ref|ZP_01860799.1| ribosomal large subunit pseudouridine synthase D [Bacillus sp. SG-1] gi|148849940|gb|EDL64112.1| ribosomal large subunit pseudouridine synthase D [Bacillus sp. SG-1] Length = 303 Score = 60.6 bits (145), Expect = 3e-07, Method: Composition-based stats. Identities = 34/243 (13%), Positives = 67/243 (27%), Gaps = 36/243 (14%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-- 60 ++IV+E R+ KV+ + SR +V++ I VKVNG ++ D I Sbjct: 5 EHIVREEEKSVRLDKVLTQLEEKWSRSQVQQWIKDGNVKVNGSQVKT-NYKCAIEDKIII 63 Query: 61 ------EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 E+D VP + + + + +V + V + Sbjct: 64 SIPEPEELDVVPENMDLDIYFEDADVIVVNKPRGMVVHPAPGHPSGTLVNGLMAHCKDLS 123 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------ 156 G L + G L + + L V Sbjct: 124 GINGVLRPGIVHRIDKDTSGLLMVAKNDLAHEKLVEQLVNKTVTRKYKAIVHGIIPHDHG 183 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V+ + + +V L G+ +I+ ++ Sbjct: 184 TIDAPLGRDPKDRQNMAVVDSGRDAVTHFNVLERFTDFTYVECKLETGRTHQIRVHMKYI 243 Query: 209 NWK 211 + Sbjct: 244 GYP 246 >gi|164688606|ref|ZP_02212634.1| hypothetical protein CLOBAR_02251 [Clostridium bartlettii DSM 16795] gi|164603019|gb|EDQ96484.1| hypothetical protein CLOBAR_02251 [Clostridium bartlettii DSM 16795] Length = 275 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 25/185 (13%), Positives = 53/185 (28%), Gaps = 2/185 (1%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ F +R+ ++ G SR + +R I V V+ ++A V + IEV G Sbjct: 1 MKGKFMKKRIDVLLVEQGFFESREKAKRSIMAGLVFVDNQKCDKAGTEVKTDAKIEVKGN 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLT 125 P+ R L L T D ++ G + + + Sbjct: 61 PIPYVSRGGLKLEKAMKNFDITLQDKVCMDIGAST-GGFTDCMLQNGARKVFSIDVGYGQ 119 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 L + + + + V + + + + + Sbjct: 120 LAWKLRQDDRVVCMERTNIRYVTIEDTKEFADFASIDVSFISLKLVLPVAHNLIIPGGEI 179 Query: 186 NAWVT 190 A + Sbjct: 180 VALIK 184 >gi|319406711|emb|CBI80344.1| ribosomal large subunit pseudouridine synthase D [Bartonella sp. 1-1C] Length = 333 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 26/263 (9%), Positives = 70/263 (26%), Gaps = 52/263 (19%) Query: 3 DKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++I EN QR+ + +A+ G SR ++ +I + +K++G L++ + S I Sbjct: 2 TQHITSENACGQRIDQWLAKQYKGELSRSRLQTLIREGYLKIDGQLIKEPKTKLKSNQII 61 Query: 61 EV----------DGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 E+ G + + + + +V + + V + Sbjct: 62 ELTIPTPNDAQPQGEAIALDILFEDNHIIVINKPAGLVVHPGNGNWTGTLVNGLIYHCRD 121 Query: 107 RVISVGRLDIN--------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 + +G + +++ A Sbjct: 122 SLSGIGGIKRPGIVHRLDKDTSGVMVIAKSDFAHRNLNAQFADHGRTSPLDRRYHAVIWG 181 Query: 159 NLLKKGIVIQGICYG----DMQVTLDTQKGSN------------------------AWVT 190 + + I + T+ + ++ + + Sbjct: 182 SPNRNIATIDTFLARSSRDRTKRTVVHSEHAHARRAITHISLLEKYGTCNDATSLASLLE 241 Query: 191 VGLREGKNREIKKVFEFFNWKVN 213 L G+ +I+ + Sbjct: 242 CRLETGRTHQIRVHMSHIGHPLI 264 >gi|18310832|ref|NP_562766.1| hypothetical protein CPE1850 [Clostridium perfringens str. 13] gi|110801362|ref|YP_696533.1| RluA family pseudouridine synthase [Clostridium perfringens ATCC 13124] gi|168206096|ref|ZP_02632101.1| pseudouridine synthase, RluA family [Clostridium perfringens E str. JGS1987] gi|168210787|ref|ZP_02636412.1| pseudouridine synthase, RluA family [Clostridium perfringens B str. ATCC 3626] gi|18145514|dbj|BAB81556.1| conserved hypothetical protein [Clostridium perfringens str. 13] gi|110676009|gb|ABG84996.1| pseudouridine synthase, RluA family [Clostridium perfringens ATCC 13124] gi|170662443|gb|EDT15126.1| pseudouridine synthase, RluA family [Clostridium perfringens E str. JGS1987] gi|170711120|gb|EDT23302.1| pseudouridine synthase, RluA family [Clostridium perfringens B str. ATCC 3626] Length = 306 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 64/248 (25%), Gaps = 38/248 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD- 58 K+ + E R K +A G+ SR ++ + ++ +NG E+ + D Sbjct: 5 KEVIKITEEEKGIRADKFLALKIDGV-SRNFIQGLFDDGKILINGK-AEKGKYKLSVGDC 62 Query: 59 -----------HIEVDGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 +E + +P + + + + +V + V L Sbjct: 63 VEVEIPEPEELKVEAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLHHCD 122 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G + + G L + Q L + + Sbjct: 123 DLSGINGVIRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKK 182 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K V++ + S + V L G+ +I+ Sbjct: 183 EGGTIDAPLGRHHRDRLKYAVVKDGKRAVTHYEVLKVFNSCSLVKCTLETGRTHQIRVHM 242 Query: 206 EFFNWKVN 213 F + Sbjct: 243 AFIGHPLL 250 >gi|315038468|ref|YP_004032036.1| pseudouridine synthase [Lactobacillus amylovorus GRL 1112] gi|325956884|ref|YP_004292296.1| pseudouridine synthase [Lactobacillus acidophilus 30SC] gi|312276601|gb|ADQ59241.1| pseudouridine synthase [Lactobacillus amylovorus GRL 1112] gi|325333449|gb|ADZ07357.1| pseudouridine synthase [Lactobacillus acidophilus 30SC] gi|327183663|gb|AEA32110.1| pseudouridine synthase [Lactobacillus amylovorus GRL 1118] Length = 302 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 36/247 (14%), Positives = 72/247 (29%), Gaps = 36/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K +++ R+ K ++ SR V+ +I + VN + + V + D Sbjct: 1 MPKKYLLEVKDEHGRLDKFVSEQIPDLSRTRVKELIQDDNILVNQKKEKV-SYKVQAGDQ 59 Query: 60 IEVD------------GVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IEV+ +P + + + + +V + V L Sbjct: 60 IEVNVPAVKPLDVVPEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHSDHTLVNALLYHTK 119 Query: 106 SRVISV--------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-- 155 S R+D +T GLL++ + LE + Sbjct: 120 DLAKSPEGFRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIYWAIVHGNFSE 179 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK V++ + Q + + L G+ +I+ Sbjct: 180 ENGTIDAPIGRNPYDRKKMAVVERGKKAITHFKVLKQFKGYSLIECQLETGRTHQIRVHL 239 Query: 206 EFFNWKV 212 ++ V Sbjct: 240 DYIGHAV 246 >gi|317129279|ref|YP_004095561.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522] gi|315474227|gb|ADU30830.1| pseudouridine synthase, RluA family [Bacillus cellulosilyticus DSM 2522] Length = 305 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 68/243 (27%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + R+ K I+ SR +++ I ++VNG ++ V + DHIE+ Sbjct: 6 ITSEENGVRIDKFISDHFPQWSRTIIQQWIVDNHIQVNGTPIKS-KYKVKAGDHIEIREP 64 Query: 63 DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D +PL + L + +V + V + Sbjct: 65 DPIPLEIPAENLNLDIIYEDGDVLVVNKPRGMVVHPAPGHYTGTLVNGLMYHCHDLSGIN 124 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRFH 150 G + + G L + + L + Sbjct: 125 GVMRPGIVHRIDKDTSGLLMVAKNDRAHESLVNQLKNKETKRRYYAIVSGIIPHDKGTID 184 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + ++ + + + + + + V+ L G+ +I+ ++ + Sbjct: 185 APIGRNPEDRQSMMVTEKNSRDAVTHFQVVERFYRHTLVSCELETGRTHQIRVHLKYIGF 244 Query: 211 KVN 213 + Sbjct: 245 PIV 247 >gi|323491101|ref|ZP_08096291.1| 23S rRNA pseudouridine synthase D [Vibrio brasiliensis LMG 20546] gi|323314648|gb|EGA67722.1| 23S rRNA pseudouridine synthase D [Vibrio brasiliensis LMG 20546] Length = 326 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 68/241 (28%), Gaps = 32/241 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVQVNGEVVTKPRTKVMGGEEIILQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + L + +V + + + L + Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDILVINKPRGFIVHPGAGTPDGTVLNALLHHYPNIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH------------GQ 152 RLD +T GL+++ L + R Q Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKKRNFTREYEAIAIGRMTAGGRIEQ 188 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 V + + + + L G+ +I+ + + Sbjct: 189 PIGRHSTKRTLMAVSPMGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL 248 Query: 213 N 213 Sbjct: 249 L 249 >gi|168215478|ref|ZP_02641103.1| pseudouridine synthase, RluA family [Clostridium perfringens NCTC 8239] gi|182382386|gb|EDT79865.1| pseudouridine synthase, RluA family [Clostridium perfringens NCTC 8239] Length = 306 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 29/247 (11%), Positives = 62/247 (25%), Gaps = 36/247 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTD-- 58 K+ + E R K +A SR ++ + ++ +NG E+ + D Sbjct: 5 KEVIKITEEEKGIRADKFLALKIEGVSRNFIQGLFDDGKILINGK-AEKGKYKLSVGDCV 63 Query: 59 ----------HIEVDGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 +E + +P + + + + +V + V L Sbjct: 64 EVEIPEPEELKVEAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLYHCDD 123 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 G + + G L + Q L + + Sbjct: 124 LSGINGVIRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKKE 183 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K V++ + S + V L G+ +I+ Sbjct: 184 GGTIDAPLGRHHRDRLKYAVVKDGKRAVTHYEVLKVFNSCSLVKCTLETGRTHQIRVHMA 243 Query: 207 FFNWKVN 213 F + Sbjct: 244 FIGHPLL 250 >gi|313901597|ref|ZP_07835036.1| hemolysin A [Thermaerobacter subterraneus DSM 13965] gi|313468127|gb|EFR63602.1| hemolysin A [Thermaerobacter subterraneus DSM 13965] Length = 308 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 1/61 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + R+ +++ G +R I RV+V G ++++A V IEV G P+ Sbjct: 2 SPRGIRLDQLLVERGYFPTRNRARAAILAGRVRVEGQVVDKAGAAVSPDARIEVAGDPIP 61 Query: 69 K 69 Sbjct: 62 Y 62 >gi|291557471|emb|CBL34588.1| hemolysin TlyA family protein [Eubacterium siraeum V10Sc8a] Length = 241 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ ++ + SR +I Q V+VNG + +A+ V D+I + G Sbjct: 4 RLDVYLSENNTVKSRSLAASLIKQGSVEVNGRICTKASFAVDENDNIRIIGE 55 >gi|167750993|ref|ZP_02423120.1| hypothetical protein EUBSIR_01978 [Eubacterium siraeum DSM 15702] gi|167656172|gb|EDS00302.1| hypothetical protein EUBSIR_01978 [Eubacterium siraeum DSM 15702] Length = 241 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ ++ + SR +I Q V+VNG + +A+ V D+I + G Sbjct: 4 RLDVYLSENNTVKSRSLAASLIKQGSVEVNGRICTKASFAVDENDNIRIIGE 55 >gi|327460457|gb|EGF06794.1| ribosomal large subunit pseudouridine synthase D [Streptococcus sanguinis SK1057] Length = 298 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 66/240 (27%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV 65 ++ + QR+ K +A SR I R+ VNG ++A V D I + Sbjct: 5 IEASVAGQRLDKAVAELTDLSRSLAHEQIKDSRILVNGQ-AKKAKYAVKEGDVISYELPE 63 Query: 66 P-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P + + + +V + + V + I G Sbjct: 64 PEVVEYVAEDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGING 123 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLK 162 L + G L + + LR Y HG + D+ + Sbjct: 124 VLRPGIVHRIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEA 183 Query: 163 KGIVIQGICYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + + V + L G+ +I+ + V Sbjct: 184 PIGRSEKDRKKQAVTAKGKPALTRFQVLERFADYSLVELQLETGRTHQIRVHMAYIGHPV 243 >gi|253827544|ref|ZP_04870429.1| Ribosomal large subunit pseudouridine synthase D [Helicobacter canadensis MIT 98-5491] gi|313141752|ref|ZP_07803945.1| ribosomal large subunit pseudouridine synthase [Helicobacter canadensis MIT 98-5491] gi|253510950|gb|EES89609.1| Ribosomal large subunit pseudouridine synthase D [Helicobacter canadensis MIT 98-5491] gi|313130783|gb|EFR48400.1| ribosomal large subunit pseudouridine synthase [Helicobacter canadensis MIT 98-5491] Length = 319 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 27/237 (11%), Positives = 70/237 (29%), Gaps = 37/237 (15%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ K + + SR ++ ++I ++++ +NG+ +++ ++ D I + Sbjct: 1 MRLDKFLTQKLGLSRNQISKIIQEKQITLNGVFIQKNGTSLNFNDQIILTLPNKQEKSKP 60 Query: 64 ---GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL------ 114 +P+ + L L +V D + T+ D L + ++G Sbjct: 61 NHLNIPILYEDEDLLILNKPINLIVHQTHQDDSQYTLQDWLQENNFSLSNLGDSYRQGII 120 Query: 115 ---------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + +L + + + + N Sbjct: 121 HRLDKTTSGAIVIAKNNYAHEILSQQLKSKEMGRYYVCVIDSPLKQNILIDAPLIRHPKN 180 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFFNWKVN 213 LK + T + +N + + L G+ +I+ + Sbjct: 181 RLKYIPTTKDTPLSKEAKTAFFKIINNDKIELIGAKLFSGRTHQIRAHLSKIQRHIL 237 >gi|319898406|ref|YP_004158499.1| ribosomal large subunit pseudouridine synthase D [Bartonella clarridgeiae 73] gi|319402370|emb|CBI75909.1| ribosomal large subunit pseudouridine synthase D [Bartonella clarridgeiae 73] Length = 335 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 26/258 (10%), Positives = 67/258 (25%), Gaps = 52/258 (20%) Query: 8 QENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 EN QR+ + +A+ G SR ++ +I + +K++G L++ + S IE+ Sbjct: 9 NENACGQRIDQWLAKQYKGEISRSRLQTLIREGHLKIDGQLIKEPKTKLKSNQIIELIIP 68 Query: 63 -------DGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 G L + + + +V + + V + + + Sbjct: 69 APNDARPQGEALALDIFFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCSDSLSGI 128 Query: 112 GRLDIN--------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 G + +++ +A + + Sbjct: 129 GGIKRPGIVHRLDKDTSGVMVIAKNDIAHRNLNAQFADHGRTSALDRRYHAIIWGSPNRN 188 Query: 164 GIVIQGICYG----DMQVTLDTQKGSN------------------------AWVTVGLRE 195 I + + + +N + + L Sbjct: 189 IATIDTFLARSSHDRTKRAVVHSEHANARHAITHFSLLEKYGTCNDTTPFASLLECRLET 248 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 249 GRTHQIRVHMAHIGHPLI 266 >gi|269836533|ref|YP_003318761.1| pseudouridine synthase, RluA family [Sphaerobacter thermophilus DSM 20745] gi|269785796|gb|ACZ37939.1| pseudouridine synthase, RluA family [Sphaerobacter thermophilus DSM 20745] Length = 313 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 63/246 (25%), Gaps = 43/246 (17%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V +R+ ++IA R SR + ++ V VNG A + D IE+ Sbjct: 16 VAAEEDGERLDRLIAARVAEISRSYAQSLVKAGDVYVNGEPAR-PARRIHEGDTIEILLP 74 Query: 63 -----DG-------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D VP+ + + + + + V + Sbjct: 75 PVPEPDDLTPEYIPVPVIYEDDDVIIFDKPAGLVTHPAPGHEHGTLVNVVKALRPDVPLL 134 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +G L G + + ++L + + L G++ + Sbjct: 135 MGGKRPGIVHRLDKDTSGLIVVAKNEEARRYLVQQWQQRDV---VKRYIALVHGVIRENE 191 Query: 171 CY---------------------GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + + V + G+ +I+ F Sbjct: 192 GTIDAPISRDPRNRKRMAVVPNGRPAVTHFRVLERFRDATLLNVQIETGRTHQIRVHMLF 251 Query: 208 FNWKVN 213 + Sbjct: 252 IGHPIV 257 >gi|169831112|ref|YP_001717094.1| RluA family pseudouridine synthase [Candidatus Desulforudis audaxviator MP104C] gi|169637956|gb|ACA59462.1| pseudouridine synthase, RluA family [Candidatus Desulforudis audaxviator MP104C] Length = 309 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 30/251 (11%), Positives = 66/251 (26%), Gaps = 38/251 (15%) Query: 3 DKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ V+E R+ +A + SR ++++I+ + V VNG A+ V D +E Sbjct: 5 NRYTVEEEDEQTRLDVFLAGQNPELSRARIQKLISLELVTVNGRPAR-ASHRVRGGDCVE 63 Query: 62 ----------VDGVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 ++ + L + +V + V L Sbjct: 64 LKVPDPETPRIEPEAIPLEVCFEDPDVLVVNKPRGLVVHPAVGHYSGTLVNALLHHCRDL 123 Query: 108 VISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 G + D L D + R R Sbjct: 124 SGINGILRPGIVHRLDRDTSGLLMVAKNDAAHLALAGQLKDRAVLRRYTALVHGRPRRET 183 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + + + + + + + + + + L G+ +I+ Sbjct: 184 GTVDAPIGRHPRDRQRMAVTPRSGRAARTHYRVVRRFDKFSLLELTLDTGRTHQIRVHMA 243 Query: 207 FFNWK-VNRLI 216 V L Sbjct: 244 HVGHPLVGDLK 254 >gi|182625703|ref|ZP_02953472.1| pseudouridine synthase, RluA family [Clostridium perfringens D str. JGS1721] gi|177909105|gb|EDT71580.1| pseudouridine synthase, RluA family [Clostridium perfringens D str. JGS1721] Length = 306 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 64/248 (25%), Gaps = 38/248 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD- 58 K+ + E R K +A G+ SR ++ + ++ +NG E+ + D Sbjct: 5 KEVIKITEEEKGIRADKFLALKIDGV-SRNFIQGLFDDGKILINGK-AEKGKYKLSVGDC 62 Query: 59 -----------HIEVDGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 +E + +P + + + + +V + V L Sbjct: 63 VEVEIPEPEELKVEAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLHHCD 122 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G + + G L + Q L + + Sbjct: 123 DLSGINGVIRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKK 182 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K V++ + S + V L G+ +I+ Sbjct: 183 EGGTIDAPLGRHHRDRLKYAVVKDGKRAVTHYEVLKVFNSCSLVKCTLETGRTHQIRVHM 242 Query: 206 EFFNWKVN 213 F + Sbjct: 243 AFIGHPLL 250 >gi|260684170|ref|YP_003215455.1| putative pseudouridylate synthase [Clostridium difficile CD196] gi|260687829|ref|YP_003218963.1| putative pseudouridylate synthase [Clostridium difficile R20291] gi|260210333|emb|CBA64669.1| putative pseudouridylate synthase [Clostridium difficile CD196] gi|260213846|emb|CBE05842.1| putative pseudouridylate synthase [Clostridium difficile R20291] Length = 303 Score = 60.6 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 35/235 (14%), Positives = 72/235 (30%), Gaps = 37/235 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ +A G SR ++++I +VKVN + E+A V D+I ++ Sbjct: 17 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKAKYLVKEEDNIVIEIPEPKVLEVL 75 Query: 64 --GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 +P+ + L + +V + V L ++ S+ Sbjct: 76 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSINGVIRPGI 135 Query: 112 -GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 R+D +T GLL++ + L + F + + + + Sbjct: 136 VHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREYEFICYGVVKEDKITVDKPIGRNP 195 Query: 171 CYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIKKVFEFFNWKVN 213 + K + V L G+ +I+ N + Sbjct: 196 KDRLKMAVVKDGKNAITHFEVVERFDKFTHMRARLETGRTHQIRVHALSINHPLL 250 >gi|325115730|emb|CBZ51285.1| pseudouridine synthase, related [Neospora caninum Liverpool] Length = 567 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 21/91 (23%), Positives = 42/91 (46%), Gaps = 2/91 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA-ER 72 + +++ ++ AG+ SRRE E+ IA +V VNG + + V V S + G + Sbjct: 17 EWLARRLSLAGVLSRREAEKAIAAGQVTVNGETICQ-NVEVCSEAIVCYKGAFVPPPVMT 75 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 +L+ KP ++ + + T+ + Sbjct: 76 PQLFGLVKPRRVLCVMEEREDMPTLHTLMRH 106 >gi|323497826|ref|ZP_08102840.1| 23S rRNA pseudouridine synthase D [Vibrio sinaloensis DSM 21326] gi|323317173|gb|EGA70170.1| 23S rRNA pseudouridine synthase D [Vibrio sinaloensis DSM 21326] Length = 326 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 34/241 (14%), Positives = 69/241 (28%), Gaps = 32/241 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLAGKVQVNGEVVTKPRTKVMGGEEIILQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D + L + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDILVINKPRGFVVHPGAGTPDGTVLNALLHHYPSIAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH------------GQ 152 R V RLD +T GL+++ L + R Q Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKKRNFVREYEAIAIGRMTAGGRVEQ 188 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 V + + + + L G+ +I+ + + Sbjct: 189 PIGRHSTKRTLMAVSPMGKPAITHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL 248 Query: 213 N 213 Sbjct: 249 L 249 >gi|281425096|ref|ZP_06256009.1| ribosomal large subunit pseudouridine synthase D [Prevotella oris F0302] gi|281400940|gb|EFB31771.1| ribosomal large subunit pseudouridine synthase D [Prevotella oris F0302] Length = 377 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 38/242 (15%), Positives = 72/242 (29%), Gaps = 42/242 (17%) Query: 11 FTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 TP R+ K +A SR +++ + VN ++ V D I + Sbjct: 53 QTPVRIDKFLAEKNPYQSRNRIQQAADSGFIYVNDKPVKS-NYKVRPGDVITLMLDRPKH 111 Query: 63 ------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---- 111 + +PL E L + +K G+V + T+ + + + S Sbjct: 112 DTSIVAEDIPLDIVYEDDALMVINKQAGMVVHPGAGNFTGTLINAVAWHLKDLESFDAND 171 Query: 112 ------GRLDINTEGLLLLTN-------------DGGLARVLELPSTQWLRVYRVRFHGQ 152 R+D +T GLL++ + R L G Sbjct: 172 PEVGLVHRIDKDTSGLLVVAKTADAKSALGKQFFNKSTHRSYNALVWGNLIDDEGTIEGN 231 Query: 153 VDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D N L+ + + + G V L G+ +I+ + Sbjct: 232 IARDPKNRLRMKVFSPDSGIGKNAVTHYRVIERFGYTTLVECILETGRTHQIRAHMKHIG 291 Query: 210 WK 211 Sbjct: 292 HP 293 >gi|148978562|ref|ZP_01815014.1| 23S rRNA pseudouridine synthase D [Vibrionales bacterium SWAT-3] gi|145962351|gb|EDK27632.1| 23S rRNA pseudouridine synthase D [Vibrionales bacterium SWAT-3] Length = 324 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 45/278 (16%), Positives = 93/278 (33%), Gaps = 36/278 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + V+ + QR+ + +A SR ++ + +V+V+G ++ + V VM + I + Sbjct: 9 DTVKSSQLGQRLDQAVAELFTDFSRSRIKEWLLDGKVQVDGEVITKPRVKVMGGEEIILQ 68 Query: 63 ----DGVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 D E L + +KP V TV + L + ++ Sbjct: 69 AELEDEERWEAQDIPLDIVFEDEHLLVINKPRDFVVHPGAGTPDGTVLNALLHHYPQIAE 128 Query: 109 ----ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 V RLD +T GL+++ L + +++KG Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALAKRRITREYEAIAIGKMTAGGMVEKG 188 Query: 165 IVIQ---------GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 ISRHATKRTLMAVNETGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLE 251 L I+YG + G++ E++ K++R L Sbjct: 248 -LGDIAYGGRA--RIPKGASEELT-KMIRAFDRQALHA 281 >gi|81428560|ref|YP_395560.1| pseudouridylate synthase, 23S rRNA-specific [Lactobacillus sakei subsp. sakei 23K] gi|78610202|emb|CAI55251.1| Pseudouridylate synthase, 23S rRNA-specific [Lactobacillus sakei subsp. sakei 23K] Length = 301 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 39/248 (15%), Positives = 80/248 (32%), Gaps = 39/248 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNG-------ILLERAAV 52 M +K R+ KV+++ SR ++++ + + V++NG ++ + Sbjct: 1 MTEKKEFTITTETGRIDKVLSQLLPDYSRSQIQQWLKKDLVEINGQTSKGNHKVVADEKI 60 Query: 53 NVMSTDHIEVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF- 105 +V D + +D VP + + L + +V + V L Sbjct: 61 SVTIPDPVSLDLVPEDIPLDIVYEDDQVLVVNKPQGMVVHPSPGHPNGTLVNALLAHTPL 120 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYR 146 R V R+D +T GLL++ L + Sbjct: 121 SEINGVFRPGIVHRIDKDTSGLLMVAKTNEAHESLSEQLKAKSNLREYLALVHGNIEEDE 180 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVGLREGKNREIKKV 204 + + KL+ +K+ IV G + + + L G+ +I+ Sbjct: 181 GTIDAPIGRSKLDRMKQAIVPDG---RPAVTHFEVVERFTDYTLIRCRLETGRTHQIRVH 237 Query: 205 FEFFNWKV 212 + N V Sbjct: 238 LAYINRPV 245 >gi|329667353|gb|AEB93301.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus johnsonii DPC 6026] Length = 304 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 34/245 (13%), Positives = 71/245 (28%), Gaps = 37/245 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K+ +V ++ R+ KVIA SR +++ ++ + + VN E+ + V S D I Sbjct: 3 KNYKLVIDDEKG-RLDKVIAEKITDLSRTKIKELVNDKNILVNNK-AEKVSYKVQSGDVI 60 Query: 61 EVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 +V P++ + + + +V + + V L Sbjct: 61 DVTIPPVKPLSLEAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTRD 120 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 S + G L + + L + + Sbjct: 121 LADSPEGFRPGIVHRIDKDTSGLLMIAKNDKARESLEKQLAEKINKREYLAIVHGNFEVK 180 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 N K+ V T+ Q + + V L G+ +I+ + Sbjct: 181 NGVINAPIGRNPNNRKQMAVNPKGKAAVTHFTVLEQFKNYSLVKCVLETGRTHQIRVHMK 240 Query: 207 FFNWK 211 + Sbjct: 241 YIGHP 245 >gi|312886031|ref|ZP_07745658.1| ribosomal large subunit pseudouridine synthase D [Mucilaginibacter paludis DSM 18603] gi|311301488|gb|EFQ78530.1| ribosomal large subunit pseudouridine synthase D [Mucilaginibacter paludis DSM 18603] Length = 347 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 30/247 (12%), Positives = 67/247 (27%), Gaps = 40/247 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +V + + R+ K + ASR ++ I V VN ++ + V D I V Sbjct: 20 RIVVDKGQSLLRIDKFLMHRVENASRNRIQNAIELGNVLVNDKAIKS-SYKVKPLDVISV 78 Query: 63 -------DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 D + + L + +V + + V + Sbjct: 79 VLPHPPRDTEVYPENIPLDIVYEDDDVLVVNKPAGLVVHPGYNNYTGTLVNGLVYHFQQL 138 Query: 108 VISVGR---------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-- 156 G +D +T GLLL++ + L + + D + Sbjct: 139 PTLPGNDGRPGLVHRIDKDTSGLLLISKNERSMTWLARQFYEHTIARKYLALVWGDLEID 198 Query: 157 ------------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 ++ + + + + + L G+ +I+ Sbjct: 199 GTVTGYIGRSIKDRRVMSIYDDPEKGKWSVTHYRVLQRMTYVTLIECELETGRTHQIRAH 258 Query: 205 FEFFNWK 211 + Sbjct: 259 MKHIGHP 265 >gi|293392744|ref|ZP_06637062.1| ribosomal large subunit pseudouridine synthase D [Serratia odorifera DSM 4582] gi|291424603|gb|EFE97814.1| ribosomal large subunit pseudouridine synthase D [Serratia odorifera DSM 4582] Length = 325 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV+VNG + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILEDRVQVNGKTTNKPKEKVLGGETVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEEARWEPQDIPLDIVYEDSDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPEIIDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQLREITREYEAVAIGTMTAGGTVEEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 ARHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >gi|225872347|ref|YP_002753802.1| hemolysin A [Acidobacterium capsulatum ATCC 51196] gi|225791816|gb|ACO31906.1| hemolysin A [Acidobacterium capsulatum ATCC 51196] Length = 261 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ K++A G+A SR + +I RV VN + + V + + G LR Sbjct: 3 VRLDKLVAEQGLAASRERAQALILAGRVLVNEQKITKPGHAVDEAATLRLLGEDLRY 59 >gi|284048216|ref|YP_003398555.1| hemolysin A [Acidaminococcus fermentans DSM 20731] gi|283952437|gb|ADB47240.1| hemolysin A [Acidaminococcus fermentans DSM 20731] Length = 267 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 1/56 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +R+ + G SR + + +I V VN +++ V I + G Sbjct: 2 KKERLDVFLTEQGFFESRSKAQAVIMAGEVLVNDQKIDKPGTMVKPDAKITLLGKK 57 >gi|251788633|ref|YP_003003354.1| pseudouridine synthase, RluA family [Dickeya zeae Ech1591] gi|247537254|gb|ACT05875.1| pseudouridine synthase, RluA family [Dickeya zeae Ech1591] Length = 325 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 69/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +QRV++NG ++R V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKTWILEQRVQINGNTVDRPKEKVLGGESVAIDA 69 Query: 65 ----------VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 P+ + L + +V + + + L Sbjct: 70 LIEEEARWEAQPISLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHHYPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQAREITREYEAVAIGTMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLI 248 >gi|227499268|ref|ZP_03929380.1| pseudouridylate synthase [Anaerococcus tetradius ATCC 35098] gi|227218677|gb|EEI83908.1| pseudouridylate synthase [Anaerococcus tetradius ATCC 35098] Length = 305 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 25/241 (10%), Positives = 68/241 (28%), Gaps = 40/241 (16%) Query: 11 FTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----- 64 R+ K I+ +R +++ I + +KVN ++ + + D I +D Sbjct: 6 DEIIRIDKFISDELEEIAREKIKDFIKDKLIKVNNKAVK-PSFKLSEGDEIFIDDSLFAI 64 Query: 65 ----------VPLRKAERTRLWL----------------------YHKPIGLVTTHSDPD 92 + + E + +K +H + Sbjct: 65 AEIKAENIDLKVVYENEDYAVIDKDSDLIVHPAGKIVTGTLVNALLYKYGYDGLSHIGGE 124 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 R + L + +I + + + + + + + + Sbjct: 125 DRPGIVHRLDKDTTGLILITKNNASYKYFKKMFETRKVDKYYYAIVFGNFDKKTGTIETF 184 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 +D+D N K + G + + + + + + G+ +I+ N + Sbjct: 185 MDRDPNNRRKMAVRPAGRRA-VSHYEVLREVDGFSLLRIKIETGRTHQIRVHMTHINHPL 243 Query: 213 N 213 Sbjct: 244 L 244 >gi|225850427|ref|YP_002730661.1| ribosomal large subunit pseudouridine synthase, RluA family [Persephonella marina EX-H1] gi|225645814|gb|ACO04000.1| ribosomal large subunit pseudouridine synthase, RluA family [Persephonella marina EX-H1] Length = 319 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 38/320 (11%), Positives = 84/320 (26%), Gaps = 52/320 (16%) Query: 1 MKDKN-----IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNV 54 M K+ +V E + +R+ + ++ SR +++I V +G +++ + V Sbjct: 1 MNHKDEILSFMVDEEYDRKRLDQFLSSVYPEYSRSYFQKLIKDGYVFEDGKDIKKPSYKV 60 Query: 55 MSTDHIEVDGVPLRKAERTRL-----------------WLYHKPIGLVTTHSDPDGRSTV 97 I + + E + +Y +V + V Sbjct: 61 RKGQEITL---VIPPPETLEIKPENIPVDILFEDEDIAVVYKPAGMVVHPSPGHTSGTLV 117 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ----- 152 L + G+ L G + + + L+ Sbjct: 118 NALLYHFRNISEYGGKERAGIVHRLDKDTAGLMIIAKSEFAHKELQKQFQERTVDKRYIA 177 Query: 153 ------VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT------------VGLR 194 + L G I + T + WV + L Sbjct: 178 VVTGIVQNDHGFIDLPIGRSIYNRKKMGTEATNLRDALTEYWVKNRSEKENLTVVDIKLH 237 Query: 195 EGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQ 254 G+ +I+ F + F+ L + R +S + L L + + Sbjct: 238 TGRTHQIRVHFSAIGHPLFNDKVY---GFKKSQLRSEKMRSISDQTLYHALLAYRIAFDH 294 Query: 255 VNLDAPIYSSETLVRDRPNI 274 I + + + + Sbjct: 295 PRTGEKIDITLQKLPEHISK 314 >gi|268317176|ref|YP_003290895.1| pseudouridine synthase, RluA family [Rhodothermus marinus DSM 4252] gi|262334710|gb|ACY48507.1| pseudouridine synthase, RluA family [Rhodothermus marinus DSM 4252] Length = 355 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +AR ASR +++R I + RV VNG+++++ A V D I + Sbjct: 18 EGGRLDAYLARFLAQASRTKIQRGIREGRVTVNGVVVQKPAYTVQPGDVITL 69 >gi|261342024|ref|ZP_05969882.1| ribosomal large subunit pseudouridine synthase D [Enterobacter cancerogenus ATCC 35316] gi|288315680|gb|EFC54618.1| ribosomal large subunit pseudouridine synthase D [Enterobacter cancerogenus ATCC 35316] Length = 326 Score = 60.2 bits (144), Expect = 4e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V + + ++ Sbjct: 10 TVSENQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNGKIWDKPKEKVFGGEAVAINV 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 EIEEDVRFEPQDIPLDIVYEDDDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPPIIDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTIPAQTHLVESLQLREITREYEAVAIGHMTSGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRIHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|330501971|ref|YP_004378840.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas mendocina NK-01] gi|328916257|gb|AEB57088.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas mendocina NK-01] Length = 327 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 69/232 (29%), Gaps = 32/232 (13%) Query: 13 PQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 QR+ +V A+ G SR + I + R+ V+G + V + + +D Sbjct: 24 GQRLDQVAAQLFGEYSRSRLSTWIKEGRLTVDGAVAR-PRDTVHAGSTLVLDAEQEAQGE 82 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 + + L + +V + + + L + + Sbjct: 83 WIAQDIELNIVYEDEHMLVIDKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRAGIVH 142 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQ------WLRVYRVRFHGQVDQDKLN-----LL 161 RLD +T GL+++ L + + + D Sbjct: 143 RLDKDTTGLMVVAKTLQAQTNLVEQLQKRTVSRIYECICIGVITAGGTIDAPIGRSSSQR 202 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V G + + S+ V V L G+ +I+ + + Sbjct: 203 QRMAVTDGGKPAISHYRVLERYRSHTHVRVKLETGRTHQIRVHMTHVGYPLV 254 >gi|326800939|ref|YP_004318758.1| pseudouridine synthase [Sphingobacterium sp. 21] gi|326551703|gb|ADZ80088.1| pseudouridine synthase, RluA family [Sphingobacterium sp. 21] Length = 348 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 33/247 (13%), Positives = 67/247 (27%), Gaps = 40/247 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +V + T R+ K + ASR V+ I + V VN ++ + V D I V Sbjct: 23 RIVVDKGQTLLRIDKFLMHRVENASRNRVQNAIEAENVLVNNRPVKS-SYKVKPGDLITV 81 Query: 63 -------DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 D +R + L + +V + + V + Sbjct: 82 VLPHPPRDTEIYPENIPLDIRYEDDDLLIVNKPAGMVVHPGYNNYTGTLVNALVYHFNQL 141 Query: 108 VISVGR---------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 G +D +T GLL++ + L + D + Sbjct: 142 PQLPGNDGRPGLVHRIDKDTSGLLVIAKNEWTITNLAKQFFDHTIQRKYLALVWGDLQEN 201 Query: 159 --------------NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 ++ + + + G + L G+ +I+ Sbjct: 202 GTVSGYIGRSLKDRRVMSVYENEDKGKWSVTHYRVLERLGYVTLIECQLETGRTHQIRAH 261 Query: 205 FEFFNWK 211 + Sbjct: 262 MQSIGHP 268 >gi|302392482|ref|YP_003828302.1| hemolysin A [Acetohalobium arabaticum DSM 5501] gi|302204559|gb|ADL13237.1| hemolysin A [Acetohalobium arabaticum DSM 5501] Length = 270 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K++ + SR + +R I V V+G L+++A V IE+ G Sbjct: 4 ERLDKLVTQRELYPSRSKAKRAIMAGLVLVDGELVDKAGTQVDVEADIEIKGKVHPY 60 >gi|240146315|ref|ZP_04744916.1| ribosomal large subunit pseudouridine synthase D [Roseburia intestinalis L1-82] gi|257201556|gb|EEU99840.1| ribosomal large subunit pseudouridine synthase D [Roseburia intestinalis L1-82] Length = 310 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 32/258 (12%), Positives = 76/258 (29%), Gaps = 46/258 (17%) Query: 1 MKDKNI-VQENFTPQRVSKVIA--------RAGIASRREVERMIAQQRVKVNGILLERAA 51 MK + ++ + +R+ K ++ + SR +++I VKVN + + A Sbjct: 1 MKQETFEIEAEYEGERLDKYLSVIFEQSKTSSNAPSRSFFQKLIRDGHVKVNDSIAK-AN 59 Query: 52 VNVMSTDHIEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTV 97 + D + V + +PL + L + +V + + V Sbjct: 60 YRLRMDDLVCVEIPDAVETPILPEDIPLDILYEDDDLLVVNKPKGMVVHPSAGHYSGTLV 119 Query: 98 FDNLPSIFS---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL------ 142 + R V R+D++T G L++ + + + Sbjct: 120 NAIMFHCKDSLSGINGEIRPGIVHRIDMDTTGSLIVCKNDESHIKIAEQIKEHSVNRRYR 179 Query: 143 -----RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLRE 195 V + +K + I + + + ++ L Sbjct: 180 GIVYGVVKDDEGTINAPIGRHPTNRKKMAINEKNGKPAITHYKVLERFSNYTYMEFKLET 239 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 240 GRTHQIRVHMASIGHPLL 257 >gi|310766696|gb|ADP11646.1| 23S rRNA pseudouridine synthase D [Erwinia sp. Ejp617] Length = 325 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ R+ + +A SR ++ I + + VNG+++++ V+ + I +D Sbjct: 10 TVAESQLGHRLDQALAELFPDYSRSRIKEWILNRHITVNGVIIDKPKEKVLGGEQISIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARWEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHHFPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVDSLQRREITREYEAVAIGRMTAGGTVDQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >gi|307243485|ref|ZP_07525636.1| pseudouridine synthase, RluA family [Peptostreptococcus stomatis DSM 17678] gi|306493129|gb|EFM65131.1| pseudouridine synthase, RluA family [Peptostreptococcus stomatis DSM 17678] Length = 310 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 77/244 (31%), Gaps = 38/244 (15%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-G 64 V ++ +R+ IA SR V+++I V VN +++A+ + D +E+ Sbjct: 13 VDQDSAGKRLDVFIADQYQDISRSYVQKLIKDGLVLVN-EEVKKASYKLEEGDRMEIAMP 71 Query: 65 VP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 P + + L + +V + V + ++ S+ Sbjct: 72 EPEVLEVLAQDIDLDIVYEDDDLLIVNKPQGMVVHPAPGNPDGTLVNAIMYHCKDKLSSI 131 Query: 112 G----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + + + +GL + R E+ + ++ Sbjct: 132 NGVIRPGIVHRIDKNTSGLLVVAKNNASHQGLADQFKLHSITREYEMVCIGGVNWDQMTI 191 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + ++ + LK ++ G + T+ ++ L G+ +I+ + Sbjct: 192 DKNIGRNPKDRLKMAVLDTGGRHAVTHFTVIEHLEGYTYMKAKLETGRTHQIRVHSNYLR 251 Query: 210 WKVN 213 + Sbjct: 252 HPIL 255 >gi|218437902|ref|YP_002376231.1| hemolysin A [Cyanothece sp. PCC 7424] gi|218170630|gb|ACK69363.1| hemolysin A [Cyanothece sp. PCC 7424] Length = 270 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 13/55 (23%), Positives = 27/55 (49%), Gaps = 1/55 (1%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 QR+ ++ + S R+ +R+I V+VN ++++ V I++ PL Sbjct: 4 QRLDNLLVTLNLCSSRQLAQRLIRAGEVRVNQQIIDKPGTEVDPGAEIQLQAKPL 58 >gi|110803816|ref|YP_699133.1| pseudouridine synthase [Clostridium perfringens SM101] gi|110684317|gb|ABG87687.1| pseudouridine synthase, RluA family [Clostridium perfringens SM101] Length = 306 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 64/248 (25%), Gaps = 38/248 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD- 58 K+ + E R K +A G+ SR ++ + ++ +NG E+ + D Sbjct: 5 KEVIKITEEEKGIRADKFLALKIDGV-SRNFIQGLFDDGKILINGK-AEKGKYKLSVGDC 62 Query: 59 -----------HIEVDGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 +E + +PL + + + +V + V L Sbjct: 63 VEVEIPEPEELKVEAEDIPLNIIYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLYHCD 122 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G + + G L + Q L + + Sbjct: 123 DLSGINGVIRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKK 182 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K V++ + S + V L G+ +I+ Sbjct: 183 EGGTIDAPLGRHHRDRLKYAVVKDGKRAVTHYEVLKVFNSCSLVKCTLETGRTHQIRVHM 242 Query: 206 EFFNWKVN 213 F + Sbjct: 243 AFIGHPLL 250 >gi|261820451|ref|YP_003258557.1| 23S rRNA pseudouridine synthase D [Pectobacterium wasabiae WPP163] gi|261604464|gb|ACX86950.1| pseudouridine synthase, RluA family [Pectobacterium wasabiae WPP163] Length = 325 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 69/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV++NG ++ + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILENRVQINGNVINKPKEKVLGGESVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + ++ L + +V + + + L Sbjct: 70 LIEEEARWEAQDIKLDIVYEDQDILVINKSRDLVVHPGAGNPDGTVLNALLHHYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGSMTAGGMVEQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHATKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHINHPLV 248 >gi|149280326|ref|ZP_01886447.1| pseudouridylate synthase, 23S RNA-specific [Pedobacter sp. BAL39] gi|149228875|gb|EDM34273.1| pseudouridylate synthase, 23S RNA-specific [Pedobacter sp. BAL39] Length = 343 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 68/245 (27%), Gaps = 40/245 (16%) Query: 6 IVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + RV K + R ASR ++ I V VNG ++ + V D I + Sbjct: 22 VVDKGQSLLRVDKFLMGRMENASRNRIQNAIDAGNVLVNGKTVKS-SYKVKPADEISIVF 80 Query: 63 -----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRS------TVFDNLPS 103 D + + L + +V + + F+ LP Sbjct: 81 PHPPRDTEVYPEDIPLDIVYEDNDLLVVNKPAGMVVHPGYNNYTGTLVNALAFHFEQLPQ 140 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 + G + + L + + Q+ R + + Sbjct: 141 LPGNEGRPGLVHRIDKDTSGLLLISKNEITMTKLAKQFFDHSITRKYIALAWGDIAENGT 200 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 ++ + + T+ + G ++ L G+ +I+ + Sbjct: 201 VTGFIGRSLKNRIVMDVYDDEEKGKWSVTHYTVLERLGYVTLISCQLETGRTHQIRAHMQ 260 Query: 207 FFNWK 211 Sbjct: 261 HIGHP 265 >gi|239618278|ref|YP_002941600.1| hemolysin A [Kosmotoga olearia TBF 19.5.1] gi|239507109|gb|ACR80596.1| hemolysin A [Kosmotoga olearia TBF 19.5.1] Length = 268 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 13/51 (25%), Positives = 27/51 (52%), Gaps = 1/51 (1%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ AR +SR +I Q +V +NG ++++ V IE++ Sbjct: 6 RLDELLVARNFFSSRSRASDIIKQGKVSINGKIVKKPGKKVPLDIKIEIND 56 >gi|313897410|ref|ZP_07830953.1| ribosomal RNA large subunit methyltransferase J [Clostridium sp. HGF2] gi|312957780|gb|EFR39405.1| ribosomal RNA large subunit methyltransferase J [Clostridium sp. HGF2] Length = 259 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 28/51 (54%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ ++ G+ SR + I + RV VNG + +++++ V + I+++ Sbjct: 1 MRLDVYLSTQGLCDSRARAQDAIQEGRVTVNGRIAKKSSMPVDDSMDIKLE 51 >gi|313678812|ref|YP_004056552.1| ribosomal large subunit pseudouridine synthase, RluA family [Mycoplasma bovis PG45] gi|312950691|gb|ADR25286.1| ribosomal large subunit pseudouridine synthase, RluA family [Mycoplasma bovis PG45] Length = 305 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 64/239 (26%), Gaps = 40/239 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGIL-LERAAVNVMSTDHIEV----DGVP-- 66 +R+ K I+ +R + + +I Q+ V ++ + + V I + + Sbjct: 10 ERIDKYISDNSEITRNDAKALIEQEAVYIDDKKFVRKPNYMVREGMVITILRLLEKETNI 69 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL---- 114 +R + L L +V + V + + + L Sbjct: 70 EAVNMPLDIRYEDDNLLVLNKPSGLVVHPAPGHLNDTLVNALMYHFKNNLSDTNGLLRLG 129 Query: 115 ------------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + L + + + R L + + + +D Sbjct: 130 IVHRIDKDTSGLLIIAKDNETHNELAKMLKNHQIKRTYIAICKGILPNKVTKINLPIQRD 189 Query: 157 KLNLLKKGIVIQGI---CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 N I G Y + T + V L G+ +I+ + V Sbjct: 190 AKNRKLMSIHKDGKSSVTYVHLLKTFYIDNKPYSLVKCELETGRTHQIRVHLAYIKHPV 248 >gi|255101761|ref|ZP_05330738.1| putative pseudouridylate synthase [Clostridium difficile QCD-63q42] gi|255307629|ref|ZP_05351800.1| putative pseudouridylate synthase [Clostridium difficile ATCC 43255] Length = 315 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 35/235 (14%), Positives = 72/235 (30%), Gaps = 37/235 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ +A G SR ++++I +VKVN + E+A V D+I ++ Sbjct: 29 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKARYLVKEEDNIVIEIPEPKVLEVL 87 Query: 64 --GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 +P+ + L + +V + V L ++ S+ Sbjct: 88 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSINGVIRPGI 147 Query: 112 -GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 R+D +T GLL++ + L + F + + + + Sbjct: 148 VHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREYEFICYGVVKEDKITVDKPIGRNP 207 Query: 171 CYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIKKVFEFFNWKVN 213 + K + V L G+ +I+ N + Sbjct: 208 KDRLKMAVVKDGKNAITHFEVVERFDKFTHMRARLETGRTHQIRVHALSINHPLL 262 >gi|89901092|ref|YP_523563.1| pseudouridine synthase RluD [Rhodoferax ferrireducens T118] gi|89345829|gb|ABD70032.1| ribosomal large subunit pseudouridine synthase D [Rhodoferax ferrireducens T118] Length = 334 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 38/239 (15%) Query: 13 PQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 QR+ + + SR ++++I V +NGI++ + + V + D ++ P Sbjct: 38 GQRLDRALVELVPEFSRSYLQQLIDLGGVTINGIVIHKPSTRVKAADVGTIELRPTPQSQ 97 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL-----PSIFSRVISV 111 + + + + +V + + L R V Sbjct: 98 AFKPETMALNVVFEDEHLMVINKPAGLVVHPAPGNWSGTLLNGLLARDAKAMNLPRAGIV 157 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI---- 167 RLD +T GL+++ + L + ++ I Sbjct: 158 HRLDKDTSGLMVVARTRPVMDALIRSIAAREVSRQYVALAHGPWTGNRRVEINAPIGRDP 217 Query: 168 -------------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V L WV L G+ +I+ + Sbjct: 218 RNRLRMAVVDLARNPGKLARTDVELLQNCDQGCWVLCTLHTGRTHQIRVHMAMIGHPLV 276 >gi|298208169|ref|YP_003716348.1| ribosomal large subunit pseudouridine synthase D [Croceibacter atlanticus HTCC2559] gi|83848090|gb|EAP85960.1| ribosomal large subunit pseudouridine synthase D [Croceibacter atlanticus HTCC2559] Length = 356 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 74/245 (30%), Gaps = 42/245 (17%) Query: 8 QENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 + P RV K + A+R ++++ + + VN ++++ V + D ++V Sbjct: 34 SKGQEPLRVDKFLMNFIENATRNKIQKAAKEGNIYVNDAVVKQ-NYKVKAGDEVKVLFEH 92 Query: 63 ---------DGVPLRKAE--RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + +PL L + +V + + + + + Sbjct: 93 PPYEMLLTPEDIPLNIVHEDDDVLVVNKPAGMVVHPGHGNYSGTLINALVFHFDNLPNNS 152 Query: 112 -------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHG 151 R+D +T GLL++ L + + G Sbjct: 153 SNRPGLVHRIDKDTSGLLVVAKTEHAMTHLSKQFFNKTSSREYIALVWGNVEDDQGTIEG 212 Query: 152 QVDQDKLNLLKKGIVIQG---ICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + N L+ + ++ + + G ++ L G+ +I+ + Sbjct: 213 HIGRHPKNRLQNTVFLEDDADEKGKPAVTHYKVIERLGYVTLLSCKLETGRTHQIRVHLK 272 Query: 207 FFNWK 211 Sbjct: 273 HIGHT 277 >gi|229512403|ref|ZP_04401877.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae TMA 21] gi|229350553|gb|EEO15499.1| ribosomal large subunit pseudouridine synthase D [Vibrio cholerae TMA 21] Length = 324 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 32/265 (12%), Positives = 81/265 (30%), Gaps = 35/265 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V+++ QR+ + +A SR ++ + + ++ VNG ++ + VM + I V Sbjct: 9 QTVKDSQLGQRLDQAVAELFTDFSRSRLKEWLLEGKIAVNGDVITKPRTKVMGGEVITVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + ++ + L Sbjct: 69 AELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADKTVLNALLFHYPPIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRDVTREYEAIVIGTMTAGGMIDKP 188 Query: 165 IVIQ-----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMSVSPMGKHAVTHYRVAEHFREHTRLRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVSK 238 L +YG + G++ E+++ Sbjct: 248 -LGDTAYGGRA--RIPKGASEELTE 269 >gi|311278476|ref|YP_003940707.1| pseudouridine synthase, RluA family [Enterobacter cloacae SCF1] gi|308747671|gb|ADO47423.1| pseudouridine synthase, RluA family [Enterobacter cloacae SCF1] Length = 326 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 25/239 (10%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ +++ ++ Sbjct: 10 TVSENQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNGKMCDKPKEKVLGGENVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEDVRFEAQDIPLNIVYEDDDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVEQPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|188994625|ref|YP_001928877.1| ribosomal large subunit pseudouridine synthase [Porphyromonas gingivalis ATCC 33277] gi|188594305|dbj|BAG33280.1| ribosomal large subunit pseudouridine synthase [Porphyromonas gingivalis ATCC 33277] Length = 365 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 29/249 (11%), Positives = 63/249 (25%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + T R+ K + R A+R +++ + VNG ++ + D + + Sbjct: 34 RTVADPGQTLIRIDKFLVDRMNNATRSRIQQAAEAGAIFVNGRPVKS-NYRIKPGDVVTL 92 Query: 63 D-------------GVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + +P + + L + +V + V + Sbjct: 93 ELLRPRRELEIIPEDIPLDIVYEDDVLLVINKPAGLVVHPGHGNYTGTLVNALAYYLRED 152 Query: 108 VISV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R+D +T GLL++ L R D Sbjct: 153 PEYDPMDPSLGLVHRIDKDTSGLLVVAKRAEAKSDLCKQFYYKTTHRSYRALVWGRFDYP 212 Query: 159 --------------NLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIK 202 L G + + +W+ L G+ +I+ Sbjct: 213 IGTITGNIGRDLKDRLQMAVFPPDGDIGKPAVTHYQVLEELAYVSWIECRLETGRTHQIR 272 Query: 203 KVFEFFNWK 211 + Sbjct: 273 AHMKHIGHT 281 >gi|259909396|ref|YP_002649752.1| 23S rRNA pseudouridine synthase D [Erwinia pyrifoliae Ep1/96] gi|224965018|emb|CAX56548.1| Ribosomal large subunit pseudouridine synthase D [Erwinia pyrifoliae Ep1/96] gi|283479469|emb|CAY75385.1| ribosomal large subunit pseudouridine synthase D [Erwinia pyrifoliae DSM 12163] Length = 325 Score = 60.2 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ R+ + +A SR ++ I + + VNG+++++ V+ + I +D Sbjct: 10 TVAESQLGHRLDQALAELFPDYSRSRIKEWILNRHITVNGVIIDKPKEKVLGGEQISIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARWEAQDIPLDIVYEDEDILVVNKPRDLVVHPGAGNPDGTVLNALLHHFPAIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVDALQRREITREYEAVAIGRMTAGGTVDQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMSHISHPLV 248 >gi|262273643|ref|ZP_06051456.1| ribosomal large subunit pseudouridine synthase D [Grimontia hollisae CIP 101886] gi|262222058|gb|EEY73370.1| ribosomal large subunit pseudouridine synthase D [Grimontia hollisae CIP 101886] Length = 325 Score = 59.8 bits (143), Expect = 5e-07, Method: Composition-based stats. Identities = 30/240 (12%), Positives = 70/240 (29%), Gaps = 32/240 (13%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I +V V+G ++ + + +M + I V Sbjct: 10 TVNENQLGQRLDQALAELFPDYSRSRIKEWILADKVSVDGEIVNKPRLKMMGGEVIVVQA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + + + +V + + + L Sbjct: 70 EIEDEQRFEAQDIPLNIVYEDDDIIVINKPRDLVVHPGAGCPDGTVLNGLLYHYPDIAEV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR------------FHGQV 153 RLD +T GL+++ + L + + R + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKNIPTQTRLVRALQKRKKFTREYEAIALGNMTGGGMIEKP 189 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + ++ + + L G+ +I+ + N + Sbjct: 190 IGRHSTKRTHMAVQELGKPAITHYRVVEHFRAHTRLRLRLETGRTHQIRVHMAYLNHPLV 249 >gi|257058664|ref|YP_003136552.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 8802] gi|256588830|gb|ACU99716.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 8802] Length = 318 Score = 59.8 bits (143), Expect = 5e-07, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 66/245 (26%), Gaps = 41/245 (16%) Query: 10 NFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 R+ +++ SR ++++I Q + +N + V S D ++V Sbjct: 16 QDKGDRIDLWLSQNLDQISRSHLQKLIEQGNIYLNNQVCLNKKTKVNSGDRLQVFLPPPE 75 Query: 63 ----------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 D + + L ++ P T Sbjct: 76 PLELQPEPIPLDILYEDDSLIIINKSAGLVVHPAPGHTTGTLVHGLLYHCPNLVGIGGIQ 135 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELP------STQWLRVYRVRFHGQVDQD---- 156 R V RLD +T G +++ + L+ ++L V + Sbjct: 136 RPGIVHRLDKDTTGAIVVAKTDYAHQHLQAQLKAKTARREYLGVVYGVPRHEDTHQGTIN 195 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V G + + G+ V L G+ +I+ + Sbjct: 196 VPIGRHRGDRKKMAVVPVENGGREAITHWQIVERLGNYTLVEFRLETGRTHQIRVHSSYI 255 Query: 209 NWKVN 213 + Sbjct: 256 GHPIV 260 >gi|150016581|ref|YP_001308835.1| hemolysin A [Clostridium beijerinckii NCIMB 8052] gi|149903046|gb|ABR33879.1| hemolysin A [Clostridium beijerinckii NCIMB 8052] Length = 269 Score = 59.8 bits (143), Expect = 5e-07, Method: Composition-based stats. Identities = 25/176 (14%), Positives = 52/176 (29%), Gaps = 3/176 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ GI SR + + I + +V V+G +++A V S +IE G L+ Sbjct: 3 EKKERLDLLLVEKGIINSREKAKACIMEGKVYVDGQKVDKAGEKVSSNANIEYRGETLKY 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L + + ++ G + + + Sbjct: 63 VSRGGLKLEKAMKTYSISLENKVCMDIGAST-GGFTDCMLQNGASKVFSVDVGYGQFAWK 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 L + + + V + + I + L G Sbjct: 122 LRTDERVVCMERTNIRYVTLEDIGEHLDFASIDVSF-ISLKKIMPATINLLKDDGE 176 >gi|237737691|ref|ZP_04568172.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium mortiferum ATCC 9817] gi|229419571|gb|EEO34618.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium mortiferum ATCC 9817] Length = 318 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 73/242 (30%), Gaps = 38/242 (15%) Query: 8 QENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 EN +R+ K + I A+R V+++I V++ G + ++ + T+ I V+ Sbjct: 12 NENDKGKRIDKFL-NELIDDATRSYVQKIIDNGLVEIQGKKITKSGNKLKGTEIIVVNIP 70 Query: 64 -GVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 L + + + P +V + V L I Sbjct: 71 EDEVLDLTPEDIPLDIIYEDSDIVVINKAPNLVVHPAHGNYSGTLVNALLYHIKDLSTIN 130 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRFH 150 G + L G + + L + R Sbjct: 131 GVIRPGIVHRLDKDTSGVIVVAKNDEAHGKLSEMFKEKTLEKIYVCIAKGIFKEKSGRIK 190 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +D + K +V + + + +++ V V + G+ +I+ + N Sbjct: 191 TLIGRDSRDRKKMAVVNENGKIAISNYEVIDEGKNHSLVKVRIETGRTHQIRVHMKHLNH 250 Query: 211 KV 212 + Sbjct: 251 PI 252 >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 = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 30/121 (24%), Positives = 51/121 (42%), Gaps = 15/121 (12%) Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + GRLD ++EGLL+LTNDG L L P + ++Y V+ G D L L+ G+ + Sbjct: 33 YAAGRLDRDSEGLLVLTNDGALQARLTQPGKRTGKIYYVQVEGIPDNAALQALRTGVTLN 92 Query: 169 GICYGDM---------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +W+ V L EG+N +++++ Sbjct: 93 DGPTLPAGIEIVAEPDWLWPRTPPIRERKNIPTSWLKVTLYEGRNHQVRRMTAHVGHPTL 152 Query: 214 R 214 R Sbjct: 153 R 153 >gi|237729509|ref|ZP_04559990.1| 23S rRNA pseudouridine synthase D [Citrobacter sp. 30_2] gi|226908115|gb|EEH94033.1| 23S rRNA pseudouridine synthase D [Citrobacter sp. 30_2] Length = 326 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 26/239 (10%), Positives = 61/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VN L ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNDQLCDKPKEKVLGGERVSINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIDEEVRFEPQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAVAIGHMTAGGTVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|15229266|ref|NP_189920.1| unknown protein [Arabidopsis thaliana] gi|7263609|emb|CAB81575.1| putative protein [Arabidopsis thaliana] gi|332644266|gb|AEE77787.1| Pseudouridine synthase family protein [Arabidopsis thaliana] Length = 74 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 16/69 (23%), Positives = 36/69 (52%), Gaps = 2/69 (2%) Query: 159 NLLKKGIVIQGICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + +G +++GI V L ++ AW+ + + EG+N E++++ + +V+ L Sbjct: 1 MAISEGTMVEGIHCVPDLVELMPKQHDIPRAWLRIVVHEGRNHEVRELVKNVGLEVDSLK 60 Query: 217 RISYGPFQL 225 R+ G +L Sbjct: 61 RVRIGGVRL 69 >gi|251797854|ref|YP_003012585.1| pseudouridine synthase [Paenibacillus sp. JDR-2] gi|247545480|gb|ACT02499.1| pseudouridine synthase, RluA family [Paenibacillus sp. JDR-2] Length = 315 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 26/242 (10%), Positives = 65/242 (26%), Gaps = 40/242 (16%) Query: 9 ENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 +R+ K + + SR +V+ I V VN ++ + S DH+ + Sbjct: 19 PEQAGERIDKFVTDSLNEDSISRTQVQEWIKSGAVLVNQNTVK-PNYKLSSGDHVGIRVP 77 Query: 63 ---------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + +P + + + + +V + V + Sbjct: 78 EPEDAAIVAEDIPLDIVYEDADVIVINKPRGMVVHPAPGHSSGTVVNALMYHCKDLSGIN 137 Query: 112 GRLDI---------------------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 G L L D ++R L + Sbjct: 138 GVLRPGIVHRIDKDTSGLLMAAKNDLAHVSLAEQLKDHSVSRKYIALVHGNLPHDQGTID 197 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTL-DTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D+ + + + + + + V + L G+ +I+ ++ Sbjct: 198 APIGRDQNDRKLFTVTDRNSKHAVTHFAVLERIADDYTIVELQLETGRTHQIRVHMKYIG 257 Query: 210 WK 211 + Sbjct: 258 YP 259 >gi|42519111|ref|NP_965041.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus johnsonii NCC 533] gi|41583398|gb|AAS09007.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus johnsonii NCC 533] Length = 304 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 34/245 (13%), Positives = 71/245 (28%), Gaps = 37/245 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K+ +V ++ R+ KVIA SR +++ ++ + + VN E+ + V S D I Sbjct: 3 KNYKLVIDDEKG-RLDKVIAEKITDLSRTKIKELVNDKNILVNNK-AEKVSYKVQSGDVI 60 Query: 61 EVDGVPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 +V P++ + + + +V + + V L Sbjct: 61 DVTIPPVKPLSLEAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTRD 120 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 S + G L + + L + + Sbjct: 121 LADSPEGFRPGIVHRIDKDTSGLLMIAKNDKARESLEKQLAEKINKREYLAIVHGNFEVK 180 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 N K+ V T+ Q + + V L G+ +I+ + Sbjct: 181 NGVINAPIGRNPNNRKQMAVNPKGKAAVTHFTVLEQFKNYSLVKCVLETGRTHQIRVHMK 240 Query: 207 FFNWK 211 + Sbjct: 241 YIGHP 245 >gi|113971328|ref|YP_735121.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp. MR-4] gi|114048565|ref|YP_739115.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp. MR-7] gi|113886012|gb|ABI40064.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp. MR-4] gi|113890007|gb|ABI44058.1| ribosomal large subunit pseudouridine synthase D [Shewanella sp. MR-7] Length = 323 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 68/238 (28%), Gaps = 31/238 (13%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ + T R+ + +A SR ++ I V V+G+++ + V IE+ Sbjct: 8 KSEISATQTGLRLDQALAELFPDYSRTRIKEWILSDAVYVDGVMVNKPREKVFELQRIEI 67 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + L + + +V + + + L + Sbjct: 68 NATLEEEVHAAAQAIELDIVYEDDDILVINKQAGLVVHPGAGNADGTLMNALLHHCPNIE 127 Query: 109 ISV-----GRLDINTEGLLLLTNDGGLARV------LELPSTQWLRVYRVRFHGQVDQD- 156 RLD +T GL+++ + ++ + D Sbjct: 128 HVPRAGIVHRLDKDTTGLMVVAKTVEAQTHLVAALQAREITREYEAIVLGTMTAGGTVDE 187 Query: 157 ----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + + ++ + + L G+ +I+ + Sbjct: 188 PIGRHPTKRTHMAVHHSGKPAVTHYRVAEKFRNHTRLRLRLESGRTHQIRVHMAYIGH 245 >gi|225010881|ref|ZP_03701348.1| pseudouridine synthase, RluA family [Flavobacteria bacterium MS024-3C] gi|225004928|gb|EEG42883.1| pseudouridine synthase, RluA family [Flavobacteria bacterium MS024-3C] Length = 379 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 34/244 (13%), Positives = 80/244 (32%), Gaps = 39/244 (15%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 I + P R+ K + A+R ++++ + + VN +++++ V + D I+V Sbjct: 58 IASKGQEPLRIDKYLMNFIENATRNKIQQAAKEGHIWVNDLVVKQ-NYKVKAGDQIKVMF 116 Query: 63 -----------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +PL + + + P +V + + L + + Sbjct: 117 THPPYEFLLTPEDIPLDVVYEDSDLMVVNKPPGMVVHPGHGNYSGTLINALLFHVKDLPL 176 Query: 110 S-------VGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRF 149 + V R+D +T GLL++ L + + Sbjct: 177 NADERPGLVHRIDKDTSGLLVVAKTAKAMTHLAKQFFDKTSEREYVAIVWGNVEEEQGTV 236 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 G + + N L+ + G + + + G V+ L G+ +I+ + Sbjct: 237 RGHIGRHPKNRLQMAVFPDGDQGKEAVTHYKVMERLGYVTLVSCVLETGRTHQIRAHMKH 296 Query: 208 FNWK 211 Sbjct: 297 IGHT 300 >gi|227494657|ref|ZP_03924973.1| possible pseudouridylate synthase [Actinomyces coleocanis DSM 15436] gi|226831839|gb|EEH64222.1| possible pseudouridylate synthase [Actinomyces coleocanis DSM 15436] Length = 304 Score = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 36/235 (15%), Positives = 77/235 (32%), Gaps = 39/235 (16%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--LRK-- 69 +R+ ++R SR ++I ++V+VNG+++ + + + + IE D P L+ Sbjct: 16 ERIDSALSRMLGLSRSAAGKLIDDEKVRVNGVVVAK-SHRLSINEIIEADLEPPALKPAP 74 Query: 70 -------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR--------- 113 E L + +KP+G+ TV DNL + R+ + G Sbjct: 75 IVGMDIVYEDEDLVVVNKPVGVAAHGGPGWDGPTVIDNLEAAGFRISTSGPPERKGIVHR 134 Query: 114 -------------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 ++ L + + + + + + + Sbjct: 135 LDVGTSGAMAVAKSELAYTKLKHAFKERRVHKTYHALVSGHPDPAKGTIDAPIARHPSKE 194 Query: 161 LKKGIVIQGICYGDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + +V G TQ+ A + + L G+ +I+ F Sbjct: 195 WRMAVVAGG---RPAITHYQTQELLPGAALLDITLETGRTHQIRVHFSAIGHPCV 246 >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 = 59.8 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 34/256 (13%), Positives = 74/256 (28%), Gaps = 43/256 (16%) Query: 1 MKDKN-IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M + N +V ENF +R+ +V+A+ SR +V ++I + +K+NG +L+ + V S D Sbjct: 1 MNNYNFVVDENFDQKRIDQVVAKQYPKISRSKVSKIIKTELLKLNGQILKDPSHKVKSGD 60 Query: 59 HIEVDG---VPLRKAERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSI 104 IE + + + +V + + V L Sbjct: 61 QIEFENLIEETINLIPKKMDLNIIFEDQDIIIIDKPIGMVVHPGAGNYEDTMVNGLLYHC 120 Query: 105 FSRVISVGRLDIN-------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 + + + D + + + + Sbjct: 121 KNNLSGMNGEDRPGIVHRIDKDTSGLLVVAKNDQAHAFIAKQFEEHSIKRSYLVFVYGIL 180 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGIC--------YGDMQVTLDTQKGSNAWVTVGLREGK 197 R N + + + Y ++V + + V L G+ Sbjct: 181 RPLHGKIETLIGRNKTNRQKMSADVIRGKDAITNYETLEVFKGNKIPDISLVKCILETGR 240 Query: 198 NREIKKVFEFFNWKVN 213 +I+ + Sbjct: 241 THQIRVHMSHKGNPIL 256 >gi|329956079|ref|ZP_08296850.1| pseudouridine synthase, RluA family [Bacteroides clarus YIT 12056] gi|328524838|gb|EGF51892.1| pseudouridine synthase, RluA family [Bacteroides clarus YIT 12056] Length = 356 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 39/244 (15%), Positives = 75/244 (30%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + R ASR +++ V N ++ + V D I V Sbjct: 33 VVDKGQEMMRVDKYLFDRLTNASRNRIQKAADAGFVMANDKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYENEVIPEDIPLDIVYEDKYLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDIPD 151 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-- 158 V V R+D +T GLL++ L L R R + ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFFNKTTKRRYRALVWGNVEQDEG 211 Query: 159 -----------NLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 212 TIIGNVGRNPKDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHMK 271 Query: 207 FFNW 210 Sbjct: 272 HIGH 275 >gi|313114073|ref|ZP_07799625.1| pseudouridine synthase, RluA family [Faecalibacterium cf. prausnitzii KLE1255] gi|310623482|gb|EFQ06885.1| pseudouridine synthase, RluA family [Faecalibacterium cf. prausnitzii KLE1255] Length = 310 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 35/255 (13%), Positives = 77/255 (30%), Gaps = 46/255 (18%) Query: 1 MKDKN-IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M+ + +V++ QR+ + ++ G+ SR ++ ++A V NG L+ + ++ + + Sbjct: 1 MEQREFVVEQETAGQRIDRFLSGEDTGL-SRSALQALVADGHVLCNGRLVAK-SLKLKAG 58 Query: 58 DHIEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 D I + D P+ + L + +V + V L Sbjct: 59 DTIVLEIPDAKPIEAVPQDIPLEIVYEDEHLLVVNKPKGMVVHPAPGNPDGTLVNALLWH 118 Query: 104 IF---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 R V R+D +T GLL++ D L R Sbjct: 119 CKGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGLSQQMAVHSVERAYRTIVYGG 178 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW-----------------VTVGLREGK 197 + + + ++ + + + L+ G+ Sbjct: 179 FAQDEGFVES-NLGRSKTDRKKMAVYPASEPHTKYAYTGYQVLERLNNFTMLECRLKTGR 237 Query: 198 NREIKKVFEFFNWKV 212 +I+ V Sbjct: 238 THQIRVHMASIQHPV 252 >gi|300854258|ref|YP_003779242.1| ribosomal large subunit pseudouridine synthase D [Clostridium ljungdahlii DSM 13528] gi|300434373|gb|ADK14140.1| ribosomal large subunit pseudouridine synthase D [Clostridium ljungdahlii DSM 13528] Length = 302 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 29/251 (11%), Positives = 73/251 (29%), Gaps = 41/251 (16%) Query: 1 MKDKNIVQ-ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ K + R+ +++ SR ++ +I + V+VNG +++ + S D Sbjct: 1 MESKKFLVCSEEENMRLDVFLSKCFQDKSRSYIQNVIEYKLVEVNGK-AKKSNYKIKSGD 59 Query: 59 HIEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 +IE+ + +PL ++ + + +V + V L Sbjct: 60 NIEITIPDPVNLNIQSEDIPLDILYEDKDVIVVNKPQGMIVHPAPGVYEGTLVNALLNHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 G + G L S L + + ++ + L++ Sbjct: 120 RDLSGINGVTRPGIVHRIDKDTSGILVVAKNDNSHNKL--AKQLKDHSMTREYIALVEGV 177 Query: 165 IVIQGICY----------------------GDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + + + + +N + L G+ +I+ Sbjct: 178 VKLDEGTVDEPIARHPKDKIKMAVCVNGKRAITHYKVIKRFKNNTLIKCILETGRTHQIR 237 Query: 203 KVFEFFNWKVN 213 + + Sbjct: 238 VHMAYIGHPLV 248 >gi|154483518|ref|ZP_02025966.1| hypothetical protein EUBVEN_01222 [Eubacterium ventriosum ATCC 27560] gi|149735428|gb|EDM51314.1| hypothetical protein EUBVEN_01222 [Eubacterium ventriosum ATCC 27560] Length = 251 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 16/64 (25%), Positives = 26/64 (40%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + I++ + R+ +IA A SR + I +V VNG ++ D I Sbjct: 163 PEFKIIKGTISNIRLDSLIATAFGTSRSSIISFIESGKVFVNGKMVTSNGHQPKPDDIIS 222 Query: 62 VDGV 65 V G Sbjct: 223 VRGK 226 >gi|146306004|ref|YP_001186469.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas mendocina ymp] gi|145574205|gb|ABP83737.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas mendocina ymp] Length = 324 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 68/232 (29%), Gaps = 32/232 (13%) Query: 13 PQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 QR+ +V A+ G SR + I R+ V+G + V + + +D Sbjct: 21 GQRLDQVAAQLFGEFSRSRLSTWIKDGRLTVDGAVAR-PRDTVHAGSTLVLDAEQEAQGE 79 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 + + L + +V + + + L + + Sbjct: 80 WVAQDIELNIVYEDEHLLVIDKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRAGIVH 139 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQ------WLRVYRVRFHGQVDQDKLN-----LL 161 RLD +T GL+++ L + + + D Sbjct: 140 RLDKDTTGLMVVAKTLQAQTNLVEQLQKRSVSRIYECICIGVITAGGTIDAPIGRSSSQR 199 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V G + + S+ V V L G+ +I+ + + Sbjct: 200 QRMAVTDGGKPAISHYRVLERYRSHTHVRVKLETGRTHQIRVHMSHVGYPLV 251 >gi|254995115|ref|ZP_05277305.1| sfhb-like protein [Anaplasma marginale str. Mississippi] Length = 328 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 68/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH------- 59 V + QR+ K+I+ A SR + +IA +V ++G ++ + + D Sbjct: 9 VTKEDDQQRIDKLISCALEISRNRAQGLIAGGQVTISGRVINNNSYLTKTGDVYTIVTAV 68 Query: 60 ---------------IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDP------------- 91 + + + ++ H G+ Sbjct: 69 QKPSTLSPNYDIDLKVVYEDHDVIVIDKDPYIAVHPGNGIEHHTITNALLARFGAGLQSV 128 Query: 92 --DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 R + L S ++ + + L + G + + R Sbjct: 129 GSSSRPGIVHRLDKDTSGLMVAAKTENAYYRLSEELANQGFKKEYLAVAWGIPCPKRGVI 188 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFF 208 H + + ++ G + ++ + G + + L G+ +I+ Sbjct: 189 HTNIRVKRSDITMMEAANSGGKPAKTEYEVEQELGEVASLIRCTLHTGRTHQIRVHMSHI 248 Query: 209 NWKVN 213 + Sbjct: 249 GHSIV 253 >gi|255531126|ref|YP_003091498.1| pseudouridine synthase, RluA family [Pedobacter heparinus DSM 2366] gi|255344110|gb|ACU03436.1| pseudouridine synthase, RluA family [Pedobacter heparinus DSM 2366] Length = 342 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 67/245 (27%), Gaps = 40/245 (16%) Query: 6 IVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + R+ K + R ASR ++ I V VN ++ A+ V D I + Sbjct: 22 VVDKGQSLLRIDKFLMHRMENASRNRIQNAIEAGNVLVNQKTVK-ASYKVKPADEISIVF 80 Query: 63 -----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRS------TVFDNLPS 103 D + + L + +V + + F+ LP Sbjct: 81 PHPPRDTEVYPEDIPLDIVYEDNDLLVVNKPAGMVVHPGYNNYTGTLVNALAFHFEQLPQ 140 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL--- 160 + G + + L + + Q+ R + + + Sbjct: 141 LPGNEGRPGLVHRIDKDTSGLLLISKNEITMTRLAKQFFDHTITRKYVALAWGDIEKDGT 200 Query: 161 --------------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + + + + G ++ L G+ +I+ + Sbjct: 201 VTGYIGRSAKNRIVMDVYDDEEKGKWSVTHYAVLERLGYVTLISCQLETGRTHQIRAHMQ 260 Query: 207 FFNWK 211 Sbjct: 261 HIGHP 265 >gi|75764813|ref|ZP_00744194.1| Ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74487697|gb|EAO51532.1| Ribosomal large subunit pseudouridine synthase D [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 192 Score = 59.8 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 25/146 (17%), Positives = 41/146 (28%), Gaps = 20/146 (13%) Query: 12 TPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGV 65 +R+ K +A GI SR +V++ I V VNG ++ V D I V D Sbjct: 14 KNERIDKFVA--GINNEWSRSQVQQWIKDDVVTVNGKAVKV-NYKVKEEDEITVTIPDPE 70 Query: 66 PLRKAER-----------TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 L L + +V + V + G + Sbjct: 71 ALDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLSGINGVM 130 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQ 140 + G L + + Sbjct: 131 RPGIVHRIDKDTSGLLMVAKNDMAHE 156 >gi|319403704|emb|CBI77289.1| ribosomal large subunit pseudouridine synthase D [Bartonella rochalimae ATCC BAA-1498] Length = 333 Score = 59.4 bits (142), Expect = 7e-07, Method: Composition-based stats. Identities = 33/263 (12%), Positives = 78/263 (29%), Gaps = 52/263 (19%) Query: 3 DKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++I EN QR+ + +A+ G SR ++ +I + +K++G L++ + S I Sbjct: 2 TQHITNENACGQRIDQWLAKQYKGELSRSRLQTLIREGYLKIDGQLIKEPKTKLKSNQII 61 Query: 61 EV----------DGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 E+ G + + + + +V + + V + Sbjct: 62 ELTIPTPNEAQPQGEALVLDILFEDNHIIVINKPAGLVVHPGNGNWTGTLVNGLIYHCRD 121 Query: 107 ---------RVISVGRLDINTEGLLLLTNDGGLARV-----------------LELPSTQ 140 R V RLD +T G++++ + R Sbjct: 122 SLSGIGGIKRPGIVHRLDKDTSGVMVIAKNDLAHRNLNAQFADHGRTSALDRRYHAVIWG 181 Query: 141 WLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQKGSN--------AWVT 190 + + + K+ +V + + +K + + Sbjct: 182 SPNRNIATIDTFLARSSRDRTKRTVVHSEYAHARRAITHFSLLEKYGTCNDTTSLASLLE 241 Query: 191 VGLREGKNREIKKVFEFFNWKVN 213 L G+ +I+ + Sbjct: 242 CRLETGRTHQIRVHMSHIGHPLI 264 >gi|218438495|ref|YP_002376824.1| pseudouridine synthase [Cyanothece sp. PCC 7424] gi|218171223|gb|ACK69956.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7424] Length = 306 Score = 59.4 bits (142), Expect = 7e-07, Method: Composition-based stats. Identities = 27/237 (11%), Positives = 66/237 (27%), Gaps = 38/237 (16%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--------VDGV 65 R+ + +A+ SR ++ +I Q +++NG + V S D + +D Sbjct: 13 RLDRWLAQKLPDLSRSRLQTLIEQGNLQLNGTICTDKKTLVKSGDRLHLLIPPVKPLDLQ 72 Query: 66 P------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 P + + + + +V + + V L + G Sbjct: 73 PQDIPLDILYEDDQLIIINKPAGLVVHPSPGHEQGTLVNALLSHCSNLAGIGGVQRPGIV 132 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-----------------------D 156 L G L + L+ + + Sbjct: 133 HRLDKDTTGALVVAKTDYAHHHLQQQLKAKTARREYLGIVYGVPKTTSGKINLSIGRHPI 192 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + +G + + G+ + + L G+ +I+ + N + Sbjct: 193 ERKKMAVVPLEKGGREAITHWEILERLGNYSLIYFRLETGRTHQIRVHCQAMNHPIV 249 >gi|297180914|gb|ADI17118.1| pseudouridylate synthases, 23S RNA-specific [uncultured gamma proteobacterium HF0070_03O15] gi|297181510|gb|ADI17697.1| pseudouridylate synthases, 23S RNA-specific [uncultured gamma proteobacterium HF0130_23I23] Length = 305 Score = 59.4 bits (142), Expect = 7e-07, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 67/243 (27%), Gaps = 32/243 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILL-ERAAVNVMSTD 58 + + + E R+ ++R SR V+ +I + +V VNG + V Sbjct: 2 ISKRFQIDEENANNRIDIFLSRKFDSLSRGIVQGLIDEGKVLVNGKTVDRDYKTKVDDQI 61 Query: 59 HIEVDGVP------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 IE D + L + V + + + L Sbjct: 62 EIEFDLETNNADLPQDINLNIVFENNDLLIIDKHAGLTVHPGAGQKDSTLINGLLYMYPD 121 Query: 107 RVISV-----GRLDINTEGLLLLTNDGGLARV------------LELPSTQWLRVYRVRF 149 + RLD +T GL+++ + Sbjct: 122 QKKIPRYGVVHRLDKDTSGLMIIARTLESHTNLTDLIQTRKIKRNYYALVHGQPIAGNTI 181 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + N L + +G + + + + + V L G+ +I+ + Sbjct: 182 DKPIGRHPKNRLLFCVK-EGGREAITHFKVHKKFKNFSLLDVSLETGRTHQIRVHMQHIG 240 Query: 210 WKV 212 + Sbjct: 241 HPI 243 >gi|291531061|emb|CBK96646.1| hemolysin TlyA family protein [Eubacterium siraeum 70/3] Length = 241 Score = 59.4 bits (142), Expect = 7e-07, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ ++ + SR +I Q V+VNG + +A+ V D+I + G Sbjct: 4 RLDVYLSENNTVKSRSLAASLIKQGSVEVNGRICTKASFAVDDNDNIRIIGE 55 >gi|117925422|ref|YP_866039.1| ribosomal large subunit pseudouridine synthase D [Magnetococcus sp. MC-1] gi|117609178|gb|ABK44633.1| ribosomal large subunit pseudouridine synthase D [Magnetococcus sp. MC-1] Length = 332 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 39/274 (14%), Positives = 80/274 (29%), Gaps = 59/274 (21%) Query: 10 NFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGV 65 + QR+ K + +R ++R I ++RV V+ + + + V HI + + Sbjct: 17 DDAGQRLDKALCCHFPDLTRSTLQRWIKEERVIVDHEVAKLPSQKVRVGQHIIIYPSEPE 76 Query: 66 P-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---- 110 P + + + L +V + + + V L + Sbjct: 77 PSTALPEEIALEILFEDEHLIVLNKPAGMVVHPGAGVNHGTLVNALLYHCGTPDNPHGGL 136 Query: 111 -----------VGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYR 146 V RLD T G+++ L + + + Sbjct: 137 SGIGGVIRPGIVHRLDKETSGIMVAAKQDHAHIHLSRQFEQRTIGRRYLALTRGIPQPAQ 196 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 R G + + ++ K +V QG + + G A + L G+ +I+ Sbjct: 197 GRIEGAIGRHPIHRTKMAVVEQGGRAAATRYKVLEPLGQFALIRCRLESGRTHQIRVHMT 256 Query: 207 FFNWKVNR----------------LIRISYGPFQ 224 + L R + FQ Sbjct: 257 HIGHPLVGDPLYGAQHKAPSHWPPLHRQRFDQFQ 290 >gi|317495177|ref|ZP_07953547.1| RluA family pseudouridine synthase [Gemella moribillum M424] gi|316914599|gb|EFV36075.1| RluA family pseudouridine synthase [Gemella moribillum M424] Length = 299 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 77/247 (31%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ K I + T +R+ K + SR ++ +I++ +KV+G ++ + + Sbjct: 1 MEAKIIKYTSQTVERIDKFLQKELSELSRTNIQNLISEGYIKVDGKEIKT-NFKLKDGNE 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I ++ + + + + +V + + V L Sbjct: 60 ITIEYKEPEELDVVKQDIPVDIVYEDSDLIVVNKAKGMVVHPSAGHRDGTLVNALLFHSE 119 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRFHGQVD 154 R V R+D +T GLL++ + ++ + V + D Sbjct: 120 LSSINGTIRPGIVHRIDKDTSGLLVVAKNDKAHVKLSEMIANKDVKRKYYALVHGSIKHD 179 Query: 155 Q--------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ +I + + + L G+ +I+ + Sbjct: 180 YGTIDAPIARNPKERKEMAIIDEGKPSITHFKVVERFEKYTLIECELETGRTHQIRVHMK 239 Query: 207 FFNWKVN 213 + N + Sbjct: 240 YINHPLV 246 >gi|291536189|emb|CBL09301.1| ribosomal large subunit pseudouridine synthase D [Roseburia intestinalis M50/1] Length = 310 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 32/258 (12%), Positives = 76/258 (29%), Gaps = 46/258 (17%) Query: 1 MKDKNI-VQENFTPQRVSKVIA--------RAGIASRREVERMIAQQRVKVNGILLERAA 51 MK + ++ + +R+ K ++ + SR +++I VKVN + + A Sbjct: 1 MKQETFEIEAEYEGERLDKYLSVIFEQSKTSSNAPSRSFFQKLIRDGHVKVNDSIAK-AN 59 Query: 52 VNVMSTDHIEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTV 97 + D + V + +PL + L + +V + + V Sbjct: 60 YRLRMDDLVCVEIPDAVETPILPEDIPLDILYEDDDLLVVNKPKGMVVHPSAGHYSGTLV 119 Query: 98 FDNLPSIFS---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL------ 142 + R V R+D++T G L++ + + + Sbjct: 120 NAIMFHCKDSLSGINGEIRPGIVHRIDMDTTGSLIVCKNDESHVKIAEQIKEHSVNRRYR 179 Query: 143 -----RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLRE 195 V + +K + I + + + ++ L Sbjct: 180 GIVYGVVKDDEGTINAPIGRHPTNRKKMAINKKNGKPAITHYKVLERFSNYTYMEFKLET 239 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 240 GRTHQIRVHMASIGHPLL 257 >gi|302345911|ref|YP_003814264.1| pseudouridine synthase, RluA family [Prevotella melaninogenica ATCC 25845] gi|302150113|gb|ADK96375.1| pseudouridine synthase, RluA family [Prevotella melaninogenica ATCC 25845] Length = 365 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 36/247 (14%), Positives = 71/247 (28%), Gaps = 42/247 (17%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 IV + P R+ K + R +SR +++ + VN ++ V D I + Sbjct: 37 IVDKGQEPARIDKFLFERMQHSSRNRIQKAADAGYIHVNNAPVKS-NYKVRPEDVITLML 95 Query: 63 ----DGVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + E L + +KP GLV + T+ + + + S Sbjct: 96 DRPKHDNTIEAEDIPLDVVYEDDVLMVVNKPAGLVVHPGAGNFHGTLINAIAWHLKDMPS 155 Query: 111 VGRLDI----------NTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRV 147 D +T GLL++ R + Sbjct: 156 FDPNDPEVGLVHRIDKDTSGLLVIAKTPDAKTALGKQFFNKTTHRSYNAIVWGNMTEDEG 215 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICY-GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKV 204 R G + +D + L+ + + + G + L G+ +I+ Sbjct: 216 RIEGNIARDPKDRLRMTVFPPDSEVGKPAVTHYRVIERFGYTTLIECILETGRTHQIRAH 275 Query: 205 FEFFNWK 211 + Sbjct: 276 MKHIGHP 282 >gi|313901894|ref|ZP_07835313.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter subterraneus DSM 13965] gi|313467835|gb|EFR63330.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter subterraneus DSM 13965] Length = 321 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 65/244 (26%), Gaps = 38/244 (15%) Query: 6 IVQENFTPQRVSKVIARA-GI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +V + +R+ +A G+ +R ++R+I RV VNG + + + + ++ Sbjct: 18 VVPGSAAGERLDVFLAEQDGLDLTRSAIQRLIRSHRVWVNGRTAR-PSRRLEPGEEVVIE 76 Query: 64 -------GVP-------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 GV + + + L +V + L Sbjct: 77 LPEPAPSGVVPEALPLDVVYEDPDVVVLNKPRGWVVHPAPGHPQGTLANALLARYPEMEG 136 Query: 110 SVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G L+ + + R W V Sbjct: 137 VGGPGRPGIVHRLDRDTTGLLVVARSPLAYRELVRQIKERRVHREYLALVRGWPEVREGT 196 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + + ++ G + Q G + L G+ +I+ F Sbjct: 197 VEAPIGRHPADRTRMTVLTTGGRPARTHFAVVEQVGRYTLLRCWLDTGRTHQIRVHLAFI 256 Query: 209 NWKV 212 V Sbjct: 257 GLPV 260 >gi|269958655|ref|YP_003328442.1| putative pseudouridylate synthase [Anaplasma centrale str. Israel] gi|269848484|gb|ACZ49128.1| putative pseudouridylate synthase [Anaplasma centrale str. Israel] Length = 327 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 68/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH------- 59 V + QR+ K+I+ A SR + +IA +V ++G ++ + + D Sbjct: 9 VTKEGDQQRIDKLISCALEISRNRAQGLIAGGQVTISGRVINDNSYLTKTGDVYTIVTAV 68 Query: 60 ---------------IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDP------------- 91 + + + ++ H G+ Sbjct: 69 QKPSTLSPNYDIDLKVVYEDHDVIVIDKDPYIAVHPGNGIEHHTITNALLARFGAGLQSV 128 Query: 92 --DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 R + L S ++ + + L + G + + R Sbjct: 129 GSSSRPGIVHRLDKDTSGLMVAAKTENAYYRLSEELANQGFKKEYLAVAWGIPCPKRGVI 188 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFF 208 H + + ++ G + ++ + G + + L G+ +I+ Sbjct: 189 HTNIRVKRSDITMMEAANSGGKPAKTEYEVEQELGEVASLIRCTLHTGRTHQIRVHMSHI 248 Query: 209 NWKVN 213 + Sbjct: 249 GHSIV 253 >gi|126700216|ref|YP_001089113.1| putative pseudouridylate synthase [Clostridium difficile 630] gi|115251653|emb|CAJ69486.1| putative pseudouridylate synthase, RluC/RluD family [Clostridium difficile] Length = 303 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 35/235 (14%), Positives = 72/235 (30%), Gaps = 37/235 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---------- 63 R+ +A G SR ++++I +VKVN + E+A V D+I ++ Sbjct: 17 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKARYLVKEEDNIVIEIPEPKVLEVL 75 Query: 64 --GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 +P+ + L + +V + V L ++ S+ Sbjct: 76 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHCKDKLSSINGVIRPGI 135 Query: 112 -GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 R+D +T GLL++ + L + F + + + + Sbjct: 136 VHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREYEFICYGVVKEDKITVDKPIGRNP 195 Query: 171 CYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIKKVFEFFNWKVN 213 + K + V L G+ +I+ N + Sbjct: 196 KDRLKMAVVKDGKNAITHFEVVERFDKFTHMRARLETGRTHQIRVHALSINHPLL 250 >gi|257460774|ref|ZP_05625875.1| ribosomal large subunit pseudouridine synthase D [Campylobacter gracilis RM3268] gi|257442105|gb|EEV17247.1| ribosomal large subunit pseudouridine synthase D [Campylobacter gracilis RM3268] Length = 495 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 9/51 (17%), Positives = 24/51 (47%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ ++ SR ++ +I V+VNG + + + + + + +D Sbjct: 9 SERLDVFLSSQLGISRNQISNLIKSAAVRVNGAVQTKPGYKLSAGELVRID 59 >gi|192288803|ref|YP_001989408.1| pseudouridine synthase, RluA family [Rhodopseudomonas palustris TIE-1] gi|192282552|gb|ACE98932.1| pseudouridine synthase, RluA family [Rhodopseudomonas palustris TIE-1] Length = 334 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 34/254 (13%), Positives = 75/254 (29%), Gaps = 46/254 (18%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 +V + QR+ +V+A R SR ++ +I RV + G + A + + I +D Sbjct: 12 VVAGDEGSQRLDRVLAARCPELSRSRLKALILDGRVAIAGTPVRDPAYHASPGETITIDV 71 Query: 64 ---------GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 G + + + L +V + + + V + + + Sbjct: 72 PPPVPAEPAGEAIALDIVYEDADIIVLNKPRGLVVHPAAGHETGTLVNALIAHCGASLSG 131 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +G + L + GL + + HG+ + + L + G Sbjct: 132 IGGVRRPGIVHRLDKDTTGLMVAAKNDKAHQSLSAQFADHGRTGELRRGYLAFVWGVPGR 191 Query: 171 CYGDMQVTLDT--------------QKGSNAW-----------------VTVGLREGKNR 199 YG + +D ++ W + L G+ Sbjct: 192 KYGTIDAPIDRHPHAREKMAVRQGGREAITHWEVLENFAGKDGKPVAALIACQLETGRTH 251 Query: 200 EIKKVFEFFNWKVN 213 +I+ + Sbjct: 252 QIRVHLAHLGHPLL 265 >gi|56460291|ref|YP_155572.1| 23S rRNA pseudouridine synthase D [Idiomarina loihiensis L2TR] gi|56179301|gb|AAV82023.1| Pseudouridylate synthase [Idiomarina loihiensis L2TR] Length = 322 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 69/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 IV E+ +R+ + +A SR ++ I +V ++ ++E+ V++ + VD Sbjct: 10 IVTESLAGKRLDQALAELFPDYSRSRLKSWITDGKVTIDTKVIEKPREKVVAGALVAVDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + R+ + L + Sbjct: 70 EIEGEERHAAQPVELDIVYEDDDILVINKPAGLVVHPGAGAPDRTLLNGLLHYDPQLDLV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ + L Sbjct: 130 PRAGIIHRLDKDTTGLMVVARNVPAQTQLVSMMQDRDITREYEAVCNGVMTAGGMVDQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V+Q + + ++ + + L G+ +I+ + Sbjct: 190 GRHPTKRTHMAVVQSGKPAVTHYRVLDRYRAHTLLRLRLESGRTHQIRVHMAHIRHPLV 248 >gi|239948112|ref|ZP_04699865.1| ribosomal large subunit pseudouridine synthase, RluA family [Rickettsia endosymbiont of Ixodes scapularis] gi|239922388|gb|EER22412.1| ribosomal large subunit pseudouridine synthase, RluA family [Rickettsia endosymbiont of Ixodes scapularis] Length = 310 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 30/251 (11%), Positives = 65/251 (25%), Gaps = 39/251 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M N+ E R+ K +++ SR ++++ I V+VN +++ V V D Sbjct: 1 MLTYNVPNELNN-IRLDKALSQLLENVSRNQIQKSIKSSCVQVNDVIISDPDVLVKENDV 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + + + V + + V L Sbjct: 60 ILFSFKEPEELKIAAANIALDIIYEDDDLIVINKAAGMTVHPGAGHHDDTLVNALLYHTK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQ-----WLRVYRVRFHGQVDQDKLNL 160 + L G + + + +R + + +N Sbjct: 120 NLSDIGSSERPGIVHRLDKNTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKALVWGVINP 179 Query: 161 LKKGIVIQGICYGDMQVTL------------------DTQKGSNAWVTVGLREGKNREIK 202 L+ I + + G+ + V L G+ +I+ Sbjct: 180 LEGVIKNNIGRSRSDRQKMTILKYGGKEAVTHYKTLELFYSGTISMVECKLSTGRTHQIR 239 Query: 203 KVFEFFNWKVN 213 V Sbjct: 240 VQLSHLKHSVV 250 >gi|152991961|ref|YP_001357682.1| ribosomal large subunit pseudouridine synthase D [Sulfurovum sp. NBC37-1] gi|151423822|dbj|BAF71325.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Sulfurovum sp. NBC37-1] Length = 245 Score = 59.4 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 22/200 (11%), Positives = 58/200 (29%), Gaps = 6/200 (3%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIEVDGVPLRKAERTRL 75 KV+A+ S ++ + +I + V V+ + A + + IE E + Sbjct: 8 KVLAQQQGISNKKAKELIDRGLVFVDDRKVRIARAEINTETTFRIEYPEDIEILYEDEDI 67 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP + + + + + + + + + RV + Sbjct: 68 IAVNKPAQVDSYEIQDAIEGAELLHRLDRDTSGVLLLGRNREFIERAI--KEFKNRRVEK 125 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTVGL 193 V + K +I + + + +G + V + + Sbjct: 126 HYVAWVDGVIYETVEIDEPIFTVKKGKAFSMIDPVRGKKAHTVVHPEEVQGKKSKVKIDI 185 Query: 194 REGKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 186 TTGRTHQIRVHLAHIGHPIV 205 >gi|317474426|ref|ZP_07933700.1| RluA family pseudouridine synthase [Bacteroides eggerthii 1_2_48FAA] gi|316909107|gb|EFV30787.1| RluA family pseudouridine synthase [Bacteroides eggerthii 1_2_48FAA] Length = 356 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 68/244 (27%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + R ASR +++ V N ++ + V D I V Sbjct: 33 VVDKGQEMMRVDKYLFDRLTNASRNRIQKAADAGFVMANDKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + ++ + + +V + V + Sbjct: 92 DRPRYENEVIPEDIPLNIVYEDKFLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDIPD 151 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-- 158 R+D +T GLL++ L L R R + ++ Sbjct: 152 YNANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFFNKTTKRRYRALVWGNVEQDEG 211 Query: 159 -----------NLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 212 TIVGNVGRNPKDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHMK 271 Query: 207 FFNW 210 Sbjct: 272 HIGH 275 >gi|326791366|ref|YP_004309187.1| pseudouridine synthase [Clostridium lentocellum DSM 5427] gi|326542130|gb|ADZ83989.1| pseudouridine synthase, RluA family [Clostridium lentocellum DSM 5427] Length = 304 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 37/248 (14%), Positives = 75/248 (30%), Gaps = 38/248 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K ++IV RV K +A +R +++ I + + VN ++ V + DHI Sbjct: 4 KIEHIVNSEAKG-RVDKYLAEVFPEYTRSFIQKQIEKGGILVNQKVINS-KYQVKADDHI 61 Query: 61 --------EVDGVPLRKAERTRL------WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 EVD +P + +V + V L Sbjct: 62 IMTIPDPIEVDIIPEPIDIEIVYEDDDLMIVNKPQDMVVHPAPGNYSGTLVNGLLYHCKD 121 Query: 107 ---------RVISVGRLDINTEGLLLLTNDGGLAR------VLELPSTQWLRVYRVRFHG 151 R V R+D +T GLL++ + + ++ + F Sbjct: 122 KLSGINGEIRPGIVHRIDKDTSGLLMIAKNDKAHLGLSELLKDHHITRKYHAIVYGGFKE 181 Query: 152 QVDQ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 KK +++ Y + + ++ + L G+ +I+ Sbjct: 182 DEGTIEEPIGRSTQDRKKMAIVRDGRYAKTDYKVLERFKQFTYIELTLHTGRTHQIRVHM 241 Query: 206 EFFNWKVN 213 + + Sbjct: 242 KHIGHPLL 249 >gi|254721426|ref|ZP_05183215.1| ribosomal large subunit pseudouridine synthase, RluA family protein [Bacillus anthracis str. A1055] Length = 139 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 25/128 (19%), Positives = 40/128 (31%), Gaps = 20/128 (15%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITV 64 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 D P + + L + +V + V + Sbjct: 65 TIPEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCTDLS 124 Query: 109 ISVGRLDI 116 G + Sbjct: 125 GINGVMRP 132 >gi|218131974|ref|ZP_03460778.1| hypothetical protein BACEGG_03597 [Bacteroides eggerthii DSM 20697] gi|217985850|gb|EEC52190.1| hypothetical protein BACEGG_03597 [Bacteroides eggerthii DSM 20697] Length = 357 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 68/244 (27%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + R ASR +++ V N ++ + V D I V Sbjct: 34 VVDKGQEMMRVDKYLFDRLTNASRNRIQKAADAGFVMANDKPVKS-SYKVKPLDVITVMM 92 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + ++ + + +V + V + Sbjct: 93 DRPRYENEVIPEDIPLNIVYEDKFLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDIPD 152 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-- 158 R+D +T GLL++ L L R R + ++ Sbjct: 153 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFFNKTTKRRYRALVWGNVEQDEG 212 Query: 159 -----------NLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 213 TIVGNVGRNPKDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHMK 272 Query: 207 FFNW 210 Sbjct: 273 HIGH 276 >gi|85707640|ref|ZP_01038706.1| pseudouridine synthase D large subunit [Erythrobacter sp. NAP1] gi|85689174|gb|EAQ29177.1| pseudouridine synthase D large subunit [Erythrobacter sp. NAP1] Length = 317 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 31/240 (12%), Positives = 69/240 (28%), Gaps = 45/240 (18%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--------------- 57 P R+ K +A A SR V+ +IA+ V++ G + A+V V Sbjct: 14 PARLDKALADATELSRARVQALIAEGAVEIAGKAVTSASVKVTENTPFRITVPAVVEAEA 73 Query: 58 --DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 I +D + + + + +V + + V L ++ +G + Sbjct: 74 QAQDIALD---VAFEDEDLIVVNKPAGMVVHPAAGNPDGTLVNALLHHCRGQLSGIGGVA 130 Query: 116 IN----------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 EGL + + R + ++ Sbjct: 131 RPGIVHRIDKDTSGLLVVAKSDAAHEGLAAQFAEHSVHRRYLAVCGGHPSPAEGTINERL 190 Query: 154 DQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + N K ++ + + + G+ A + L G+ +++ Sbjct: 191 GRSDANRKKMAVLPKNSSRGKHAITHYKVLKPIGAAALIECRLETGRTHQVRVHCASIGH 250 >gi|327385684|gb|AEA57158.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Lactobacillus casei BD-II] Length = 306 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 34/232 (14%), Positives = 64/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLRKA 70 R+ KVI A +R +V++ + V VNG +A V S D I + + PL Sbjct: 13 RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISIPEAKPLEAI 71 Query: 71 ERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-------VG 112 +V + V L I+ V Sbjct: 72 PEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGINGVIRPGIVH 131 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--- 169 R+D +T GLL++ L + + + + Sbjct: 132 RIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRD 191 Query: 170 ---------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + ++ L G+ +I+ + + V Sbjct: 192 RKRQAVVAAGRHAVTHFQVLERFEHYTFIKCILETGRTHQIRVHMAYIHHPV 243 >gi|260220876|emb|CBA28881.1| hypothetical protein Csp_A09350 [Curvibacter putative symbiont of Hydra magnipapillata] Length = 201 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 43/171 (25%), Positives = 68/171 (39%), Gaps = 15/171 (8%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKV---N-G---ILLERAAVN-VMSTDHIEVDGV 65 ++ +++ G +RR +I Q V+V N G + + +AA V V GV Sbjct: 1 MQLQEILYTQGFGTRRVCAGLIQQGLVQVYMPNEGPAPVTIAQAATEFVAEGLRFRVQGV 60 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPD-------GRSTVFDNLPSIFSRVISVGRLDINT 118 AER L L+ + + V +VGRLD +T Sbjct: 61 DWPYAERAYLMLHKPAGTECSQKPSTYPSIYTLLPSPLRLRPQKAAVQGVQAVGRLDQDT 120 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 G+LLLT+DG + P +VY V +D ++N L G+V+ Sbjct: 121 TGMLLLTDDGKFIHRMSSPKHHVPKVYEVTVKHPLDDKQVNKLLSGVVLDD 171 >gi|191638454|ref|YP_001987620.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|190712756|emb|CAQ66762.1| Pseudouridine synthase [Lactobacillus casei BL23] gi|327382486|gb|AEA53962.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase) [Lactobacillus casei LC2W] Length = 307 Score = 59.4 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 34/232 (14%), Positives = 64/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLRKA 70 R+ KVI A +R +V++ + V VNG +A V S D I + + PL Sbjct: 14 RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISIPEAKPLEAI 72 Query: 71 ERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-------VG 112 +V + V L I+ V Sbjct: 73 PEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLPGINGVIRPGIVH 132 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG--- 169 R+D +T GLL++ L + + + + Sbjct: 133 RIDKDTSGLLMVAKTEKAQLSLSAQLKAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRD 192 Query: 170 ---------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + ++ L G+ +I+ + + V Sbjct: 193 RKRQAVVAAGRHAVTHFQVLERFEHYTFIKCILETGRTHQIRVHMAYIHHPV 244 >gi|300866710|ref|ZP_07111394.1| hemolysin A [Oscillatoria sp. PCC 6506] gi|300335310|emb|CBN56554.1| hemolysin A [Oscillatoria sp. PCC 6506] Length = 292 Score = 59.0 bits (141), Expect = 9e-07, Method: Composition-based stats. Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 1/54 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 QR+ ++ + SR++ +R+I V VN ++++ V I++ P Sbjct: 4 QRLDALLVNLDLCASRQQAQRLIRAGEVTVNQQVIDKPGTEVDILAVIKIKERP 57 >gi|296126237|ref|YP_003633489.1| pseudouridine synthase, RluA family [Brachyspira murdochii DSM 12563] gi|296018053|gb|ADG71290.1| pseudouridine synthase, RluA family [Brachyspira murdochii DSM 12563] Length = 307 Score = 59.0 bits (141), Expect = 9e-07, Method: Composition-based stats. Identities = 35/249 (14%), Positives = 81/249 (32%), Gaps = 41/249 (16%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 I++E +R+ I+ SR +V+ + VKVNG + ++ + + D IE Sbjct: 9 NKYFIIEEADAKKRLDVFISEKLNISRSQVKNYLNS--VKVNG-IEKKLSYALKINDKIE 65 Query: 62 VD----GVPLRKA-------------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 VD + E L + +KP G+ S + T+ + L Sbjct: 66 VDIKNSDKEIDIENPKAENISLDIIYEDKYLLVINKPAGMSVHCSASEITGTLVNALLYN 125 Query: 105 FSRVISVGR--------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 +G +++ + ++ ++ + Sbjct: 126 IKDFDFIGNKSRAGIIHRLDKDTSGIMIIGKNADIVSSIQEQFKNRKIKKIYHAIVIGVL 185 Query: 157 KLNLLKKGIVI-------------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 K N L+ + I + + + + ++ + + L+ G+ +I+ Sbjct: 186 KDNYLEINLPIGRHQVYRKKMTVREDGKKALTHIKVLKRFKNHTLIEIDLKTGRTHQIRV 245 Query: 204 VFEFFNWKV 212 + N+ V Sbjct: 246 HSSYKNFPV 254 >gi|299144084|ref|ZP_07037164.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298518569|gb|EFI42308.1| ribosomal large subunit pseudouridine synthase D [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 304 Score = 59.0 bits (141), Expect = 9e-07, Method: Composition-based stats. Identities = 28/273 (10%), Positives = 80/273 (29%), Gaps = 45/273 (16%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------- 60 R+ + + +R ++++ I + +N +++ A D I Sbjct: 17 ESDNIRIDRYLVEKLNINRSQIKKYIDFGNILINNSVVK-AGYMTKIGDIIDVSYEDEIL 75 Query: 61 ----EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 E+D + + E + +V S + V L + +L Sbjct: 76 LLPEEIDFKIIYEDEHIAVIS-KPQNLVVHPGSGNYNHTLVNGLLFKFKNLSNCGDKLRP 134 Query: 117 NTEGLLLLTNDGGLARVLELPST--------------------QWLRVYRVRFHGQVDQD 156 L G + + + + + +D Sbjct: 135 GIVHRLDKDTSGLMIIAKTNLAYLKLVKDFKESKIRKTYIAVVEGKTDEFGIINEPIGRD 194 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 N K ++ + + + + + +++ + G+ +I+ + V L Sbjct: 195 PKNRKKMAVIYENSKNAITEYKKIREFNNFSLISINILTGRTHQIRVHLSYIKHPV--LG 252 Query: 217 RISYGP---FQLGTLLAGSTR-----EVSKKIL 241 ++YG +++ + + R ++ + L Sbjct: 253 DLTYGNKNKYKIDKQMLHAYRLKFNHPITGEEL 285 >gi|257439837|ref|ZP_05615592.1| putative S4 domain protein [Faecalibacterium prausnitzii A2-165] gi|257197746|gb|EEU96030.1| putative S4 domain protein [Faecalibacterium prausnitzii A2-165] Length = 273 Score = 59.0 bits (141), Expect = 9e-07, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 25/63 (39%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ + R+ V+A SR + IA RV++N + E A V D V Sbjct: 187 ERKTQTATVSSLRLDAVLAAMLHCSRGQACEWIAAGRVEINHLPAESAHAPVYEGDVFTV 246 Query: 63 DGV 65 G Sbjct: 247 RGK 249 >gi|222475297|ref|YP_002563714.1| Ribosomal large subunit pseudouridine synthase D (rluD) [Anaplasma marginale str. Florida] gi|222419435|gb|ACM49458.1| Ribosomal large subunit pseudouridine synthase D (rluD) [Anaplasma marginale str. Florida] Length = 321 Score = 59.0 bits (141), Expect = 9e-07, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 68/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH------- 59 V + QR+ K+I+ A SR + +IA +V ++G ++ + + D Sbjct: 3 VTKEDDQQRIDKLISCALEISRNRAQGLIAGGQVTISGRVINNNSYLTKTGDVYTIVTAV 62 Query: 60 ---------------IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDP------------- 91 + + + ++ H G+ Sbjct: 63 QKPSTLSPNYDIDLKVVYEDHDVIVIDKDPYIAVHPGNGIEHHTITNALLARFGAGLQSV 122 Query: 92 --DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 R + L S ++ + + L + G + + R Sbjct: 123 GSSSRPGIVHRLDKDTSGLMVAAKTENAYYRLSEELANQGFKKEYLAVAWGIPCPKRGVI 182 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFF 208 H + + ++ G + ++ + G + + L G+ +I+ Sbjct: 183 HTNIRVKRSDITMMEAANSGGKPAKTEYEVEQELGEVASLIRCTLHTGRTHQIRVHMSHI 242 Query: 209 NWKVN 213 + Sbjct: 243 GHSIV 247 >gi|290476241|ref|YP_003469141.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Xenorhabdus bovienii SS-2004] gi|289175574|emb|CBJ82377.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Xenorhabdus bovienii SS-2004] Length = 325 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 25/239 (10%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E QR+ + +A SR ++ I +V+VNG L+ + V+ + I +D Sbjct: 10 TVAETQLGQRLDQALAELFSDYSRSRIKEWILDNKVQVNGKLINKPKEKVLGGEVISIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + L + +V + + + L Sbjct: 70 IIEEDARWEPQDIELNIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLYRYPAIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ + + Sbjct: 130 PRAGIVHRLDKDTTGLMVIAKTVPAQTRLVESLQLREITREYEAIALGCMTAGGMVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKSAVTHYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHIKHPLV 248 >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 = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRRE E+ I + RVK+NG + V D + +D + + + R Sbjct: 4 RINKLISDAGLGSRREAEKYITEGRVKINGRIAR-LTDLVCEKDIVLLDDIDIPIKDLIR 62 Query: 75 L 75 Sbjct: 63 E 63 >gi|56416931|ref|YP_154005.1| sfhb-like protein [Anaplasma marginale str. St. Maries] gi|255003281|ref|ZP_05278245.1| sfhb-like protein [Anaplasma marginale str. Puerto Rico] gi|56388163|gb|AAV86750.1| sfhb-like protein [Anaplasma marginale str. St. Maries] Length = 327 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 68/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH------- 59 V + QR+ K+I+ A SR + +IA +V ++G ++ + + D Sbjct: 9 VTKEDDQQRIDKLISCALEISRNRAQGLIAGGQVTISGRVINNNSYLTKTGDVYTIVTAV 68 Query: 60 ---------------IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDP------------- 91 + + + ++ H G+ Sbjct: 69 QKPSTLSPNYDIDLKVVYEDHDVIVIDKDPYIAVHPGNGIEHHTITNALLARFGAGLQSV 128 Query: 92 --DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 R + L S ++ + + L + G + + R Sbjct: 129 GSSSRPGIVHRLDKDTSGLMVAAKTENAYYRLSEELANQGFKKEYLAVAWGIPCPKRGVI 188 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFF 208 H + + ++ G + ++ + G + + L G+ +I+ Sbjct: 189 HTNIRVKRSDITMMEAANSGGKPAKTEYEVEQELGEVASLIRCTLHTGRTHQIRVHMSHI 248 Query: 209 NWKVN 213 + Sbjct: 249 GHSIV 253 >gi|325288855|ref|YP_004265036.1| ribosomal large subunit pseudouridine synthase D [Syntrophobotulus glycolicus DSM 8271] gi|324964256|gb|ADY55035.1| ribosomal large subunit pseudouridine synthase D [Syntrophobotulus glycolicus DSM 8271] Length = 312 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 31/238 (13%), Positives = 64/238 (26%), Gaps = 37/238 (15%) Query: 12 TPQ-RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVP--- 66 P+ R+ + SR + MI + RV VNG ++A + + D I ++ P Sbjct: 20 KPEVRLDVCLTEKTGTSRSFIRNMIEEGRVLVNGET-KKANYRIRAEDKIGINLPKPREL 78 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG---- 112 + + L + +V + V L G Sbjct: 79 KVVPQQIPLEIIYEDDDLLVVNKPQGMVVHPAPGVWEGTLVNALLYHCRDLSGINGIIRP 138 Query: 113 -----------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + D + L + + R L + + Sbjct: 139 GIVHRIDKDTSGLLVVAKNDESHNQLAGQLKEHKMQRKYLAVVHGVLSEPSGTIDAPIGR 198 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 D + K +V + ++ + + L G+ +I+ + V Sbjct: 199 DPKDRKKMAVVFKHSRPAVTHYEVEERFIGYTKIKAVLETGRTHQIRVHMAYIRNPVL 256 >gi|255284126|ref|ZP_05348681.1| hemolysin A [Bryantella formatexigens DSM 14469] gi|255265300|gb|EET58505.1| hemolysin A [Bryantella formatexigens DSM 14469] Length = 284 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 25/177 (14%), Positives = 59/177 (33%), Gaps = 2/177 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M++ + +E +R+ ++ + G+A SR + + +I V V+G ++A T Sbjct: 1 MQNISDYKEKQMKERLDVLVVQKGLAPSREKAKALIMAGCVLVDGEREDKAGTMFAETVQ 60 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 I + G L+ R L L T + ++ G + + Sbjct: 61 ITLKGGTLKYVSRGGLKLEKAMEKFSVTPAGKVCMDIGAST-GGFTDCMLQNGAVKVYAV 119 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + D L + + + + V V++ + + ++ Sbjct: 120 DVGYGQLDWKLRQDPRVVCMEKTNIRYVTPEDIVEKAAFASIDVSFISLTKVLLPVR 176 >gi|255036339|ref|YP_003086960.1| pseudouridine synthase, RluA family [Dyadobacter fermentans DSM 18053] gi|254949095|gb|ACT93795.1| pseudouridine synthase, RluA family [Dyadobacter fermentans DSM 18053] Length = 343 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 37/252 (14%), Positives = 79/252 (31%), Gaps = 47/252 (18%) Query: 4 KNIVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + + + + R+ K + A A SR +++ I + V+VNG +A+ V D Sbjct: 20 RIVADKGQSLMRLDKYLNLHVANA---SRTKIQNGIEAEAVRVNGQP-TKASYKVKPFDV 75 Query: 60 IEV-------DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + D + E L + +K G+V + + T+ + L F Sbjct: 76 VTLSLPQPPRDTEIIPENLPLDIIYEDDVLLIVNKAAGMVVHPAFGNWTGTLINGLVYHF 135 Query: 106 SR----------VISVGRLDINTEGLLLLTNDGGLARV-------------LELPSTQWL 142 + V R+D +T GLL++ Sbjct: 136 QQLPTGRNGEGRPGLVHRIDKDTSGLLVIAKTEFAMTFLASQFADHSIERTYHALIWGEP 195 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNRE 200 + + G V + + + + G + K + + L G+ + Sbjct: 196 KAEKGTITGHVGRSARDRRVMDVYVDGSQGKHAVTHYEVIKPLRYVSLIKCNLETGRTHQ 255 Query: 201 IKKVFEFFNWKV 212 I+ + + Sbjct: 256 IRAHMKHIGHPI 267 >gi|46445989|ref|YP_007354.1| 23S RNA-specific pseudouridine synthase D [Candidatus Protochlamydia amoebophila UWE25] gi|46399630|emb|CAF23079.1| probable 23S RNA-specific pseudouridine synthase D [Candidatus Protochlamydia amoebophila UWE25] Length = 318 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 38/257 (14%), Positives = 76/257 (29%), Gaps = 41/257 (15%) Query: 6 IVQENFTPQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 I+ E+ +R+ KV+AR A SR + +I + + VNGI +++ + D +EV Sbjct: 13 IISEDEVGERLDKVLARRFNAKYSRTYFQFLIDKHLILVNGIAVKK-RTLLQEGDEVEVQ 71 Query: 63 -----------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +PL + L + +V + V L + Sbjct: 72 FLASPESNLMPENIPLSILYEDEHLLVINKPAGMVVHPAPGNWSGTFVNALLYYCQKLPL 131 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV-----------DQDKL 158 + L G L L + Q L D + Sbjct: 132 LPDTIRPGIVHRLDKGTSGLLVAAKTLETQQKLIELFASRKVYKAYLAICIGRPADGEIQ 191 Query: 159 NLLKKGIVIQGICY-----GDMQ--VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + + + ++V + + G+ +I+ ++ Sbjct: 192 APIGRHPIHRKQMAVIPTGKPAISFCKTLGWSDKLSFVQIEIATGRTHQIRVHMKYRGSP 251 Query: 212 VNR--LIRISYGPFQLG 226 + L YG L Sbjct: 252 ILGDPL----YGQISLN 264 >gi|306822649|ref|ZP_07456027.1| ribosomal RNA large subunit methyltransferase J [Bifidobacterium dentium ATCC 27679] gi|309800961|ref|ZP_07695093.1| ribosomal RNA large subunit methyltransferase J [Bifidobacterium dentium JCVIHMP022] gi|304554194|gb|EFM42103.1| ribosomal RNA large subunit methyltransferase J [Bifidobacterium dentium ATCC 27679] gi|308222497|gb|EFO78777.1| ribosomal RNA large subunit methyltransferase J [Bifidobacterium dentium JCVIHMP022] Length = 252 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 1/57 (1%) Query: 8 QENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ R+ + G++ SR + +R+I Q +V VNG+++ +A+ V D I D Sbjct: 4 NDSQHAVRLDLALLDRGLSDSRSKAQRLIVQGKVSVNGVVVSKASAKVSDDDVIAAD 60 >gi|302342169|ref|YP_003806698.1| pseudouridine synthase, RluA family [Desulfarculus baarsii DSM 2075] gi|301638782|gb|ADK84104.1| pseudouridine synthase, RluA family [Desulfarculus baarsii DSM 2075] Length = 317 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 37/238 (15%), Positives = 67/238 (28%), Gaps = 41/238 (17%) Query: 14 QRVSKVIARAGIA----SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVP 66 QR+ +A G+ SR +V+R++ V V+G + AA + I V D P Sbjct: 15 QRLD--VALLGLLGDDFSRAQVQRLLRDGLVLVDGQAAK-AAQKLRPGQAIAVRLPDPEP 71 Query: 67 -----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 + + + + P +V + V L G+L Sbjct: 72 SELIPMAMDLAILHEDEDLIIINKPPGLVVHPSPGHAEGTLVHGLLHHCGGLAEVGGKLR 131 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------DK 157 L G L + + L Q + + Sbjct: 132 PGIVHRLDKDTSGALVAAKNDRAHRGLVARFAAGRVQKEYLALVHGRPAKRGRVDSGIGR 191 Query: 158 LNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +K + QG Q + G + + V + G+ +I+ V Sbjct: 192 HPGDRKRMSSQGSRTKPALSQWRVCRSFGEASLLRVNIHTGRTHQIRVHLSEAGHPVL 249 >gi|8575702|gb|AAF78056.1|AF263561_1 23S rRNA pseudouridine synthase [secondary endosymbiont of Glycaspis brimblecombei] Length = 314 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 29/236 (12%), Positives = 66/236 (27%), Gaps = 31/236 (13%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 E+ QR+ + +A SR ++ I RV+VNG ++ R V ++ I +D Sbjct: 2 ESQLGQRLDQTLAELFPDYSRSRIKEWILDNRVQVNGKIINRPKEKVFGSEQIAIDVLIE 61 Query: 64 ----GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-------- 105 P + + + + +V + + + L Sbjct: 62 EDMRWQPQNIPLNIVYEDDEIIVINKPRDLVVHPGAGNPDGTVLNALLYRYPEIINVPRA 121 Query: 106 ---SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 R+ + + A L + ++ V R D+ Sbjct: 122 GIVHRLDKDTTGLMVIAKTIPAQTHLVEALQLREITREYEAVVNGRMTAGGTVDEPIARH 181 Query: 163 KGIVIQGICY---GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + ++ + + L G+ +I+ N + Sbjct: 182 PTKRTHMAIHPLGKPAITHYRVMEHFRAHTRLRLRLESGRTHQIRVHMAHINHPLV 237 >gi|163814069|ref|ZP_02205461.1| hypothetical protein COPEUT_00222 [Coprococcus eutactus ATCC 27759] gi|158450518|gb|EDP27513.1| hypothetical protein COPEUT_00222 [Coprococcus eutactus ATCC 27759] Length = 304 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 34/252 (13%), Positives = 80/252 (31%), Gaps = 40/252 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M++ N+ E +T +R+ KV++ SR ++++ + VN ++ + V + D Sbjct: 1 MEEYNLESSEEWTDRRLDKVLSEYFDGYSRSFIKKLFDDGLILVNSKAVK-PSYKVRAGD 59 Query: 59 HI--------EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 I +D VP + + + + +V + V + Sbjct: 60 MIDISVPDPVSIDIVPEDIPLDIIYEDDDVILVNKPKGMVVHPAPGHYSGTLVNGLMYHF 119 Query: 105 F---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR--------- 146 R V R+D++T G+L++ + R L + + Sbjct: 120 GSSLSGINGEFRPGIVHRIDMDTTGVLVVCKNDNAHRALSEQLHEHSITRKYYAIVYGNI 179 Query: 147 ----VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQ-KGSNAWVTVGLREGKNREI 201 + + + K I + + + G ++ L G+ +I Sbjct: 180 SSDEGTVDAPIGRSPKDRKKMAINNRNGRRAVTHYRVLERFGGRYTYIECQLETGRTHQI 239 Query: 202 KKVFEFFNWKVN 213 + + Sbjct: 240 RVHMASIGHPIL 251 >gi|167764292|ref|ZP_02436419.1| hypothetical protein BACSTE_02677 [Bacteroides stercoris ATCC 43183] gi|167698408|gb|EDS14987.1| hypothetical protein BACSTE_02677 [Bacteroides stercoris ATCC 43183] Length = 356 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 41/244 (16%), Positives = 77/244 (31%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + R ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQEMVRVDKYLFDRLTNASRNRIQKAADAGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + E L + +KP GLV + R T+ + + Sbjct: 92 DRPRYENEVIPEDIPLDIVYEDKYLMVVNKPAGLVVHPGHGNYRGTLVNAIAWHMKDIPD 151 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD------ 154 V V R+D +T GLL++ L L R R + Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFFNKTTKRRYRALVWGNVGQDEG 211 Query: 155 -------QDKLNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 ++ + ++ ++ + + + G V L G+ +I+ + Sbjct: 212 TIVGNVGRNPKDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHMK 271 Query: 207 FFNW 210 Sbjct: 272 HIGH 275 >gi|218245618|ref|YP_002370989.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 8801] gi|218166096|gb|ACK64833.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 8801] Length = 318 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 65/245 (26%), Gaps = 41/245 (16%) Query: 10 NFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 R+ +++ SR ++++I Q + +N + V D ++V Sbjct: 16 QDKGDRIDLWLSQNLDQISRSHLQKLIEQGNIYLNNQVCLNKKTKVNLGDRLQVFLPPPE 75 Query: 63 ----------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 D + + L ++ P T Sbjct: 76 PLELQPEPIPLDILYEDDSLIIINKSAGLVVHPAPGHTSGTLVHGLLYHCPNLVGIGGVQ 135 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELP------STQWLRVYRVRFHGQVDQD---- 156 R V RLD +T G +++ + L+ ++L V + Sbjct: 136 RPGIVHRLDKDTTGAIVVAKTDYAHQHLQAQLKAKTARREYLGVVYGVPRHKDTHQGTIN 195 Query: 157 --------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + V G + + G+ V L G+ +I+ + Sbjct: 196 VPIGRHRGDRKKMAVVPVENGGREAITHWQIVERLGNYTLVEFRLETGRTHQIRVHSSYI 255 Query: 209 NWKVN 213 + Sbjct: 256 GHPIV 260 >gi|260893452|ref|YP_003239549.1| pseudouridine synthase, RluA family [Ammonifex degensii KC4] gi|260865593|gb|ACX52699.1| pseudouridine synthase, RluA family [Ammonifex degensii KC4] Length = 331 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 44/340 (12%), Positives = 82/340 (24%), Gaps = 52/340 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----- 60 V+E R+ +AR SR ++R+I + V+V G ++ + V + I Sbjct: 9 VEEEEAGVRLDVYLARNLPENSRSYLQRLINEGYVQVGGRKVK-PSYKVKPGEEILVFLP 67 Query: 61 -----EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 EV+ P+ + L + +V + + V L S Sbjct: 68 PAETLEVEPEPIPLEIIYEDEDLLVVNKPRGMVVHPGAGHKRGTLVNALLYHCRSLSGIN 127 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 G L L G L + L + Sbjct: 128 GVLRPGIVHRLDKDTSGLLMVAKNDAAHLSLSAQLKERRVLKEYWALVYGEVKPAQGRIE 187 Query: 157 -----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +K V+ G + + V G+ +I+ + Sbjct: 188 APIGRHPRYRQKMAVVAGGRPAVTHYEVVEYFPGYTLLRVRPETGRTHQIRVHLHYLGHP 247 Query: 212 VNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDR 271 + G L G R L + Sbjct: 248 IV------------GDLKYGPARP----HLGLEGQFLHAGVLGFTHPRTGEFLRFEAPLP 291 Query: 272 PNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLA 311 P + + + R + ++ A P +R Sbjct: 292 PELERVLAELRARQAGRPGSQPLQQEEGVAAQPPSQRGQG 331 >gi|218249068|ref|YP_002374439.1| hemolysin A [Cyanothece sp. PCC 8801] gi|218169546|gb|ACK68283.1| hemolysin A [Cyanothece sp. PCC 8801] Length = 266 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 1/56 (1%) Query: 12 TPQRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 T QR+ ++ + S R+E + +I VKVN ++++ V ST IE+ P Sbjct: 2 TKQRLDTLLVERNLCSSRQEAQGLIRAGEVKVNQQVIDKPGTPVESTAEIELQAKP 57 >gi|73670608|ref|YP_306623.1| FtsJ-like methyltransferase [Methanosarcina barkeri str. Fusaro] gi|72397770|gb|AAZ72043.1| FtsJ-like methyltransferase [Methanosarcina barkeri str. Fusaro] Length = 236 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ I G SR ++ I VKVNG ++ +A+ +V + D IEV Sbjct: 1 MRLDAYIVDMGHFKSRGRAKKAILAGNVKVNGAVITKASRDVSTDDIIEV 50 >gi|301632247|ref|XP_002945202.1| PREDICTED: ribosomal large subunit pseudouridine synthase D-like [Xenopus (Silurana) tropicalis] Length = 341 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 35/237 (14%), Positives = 76/237 (32%), Gaps = 38/237 (16%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A SR +++++AQ V ++G + A V + D + V+ P ++++ Sbjct: 39 RLDKALAELVPELSRSYLQQLLAQGLVCLDGAASRKPAHKVKAGDALVVEIRPTQQSQAF 98 Query: 74 R---------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-----SVGR 113 + L + +V + + + ++ V R Sbjct: 99 KPEPVPVPVVFEDAHLLVVNKPAGLVVHPAPGHWSGTLLNGLMGRDPKAMLLPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------DKLN 159 LD +T GL+++ + L Q + G D N Sbjct: 159 LDKDTSGLMVVARERTTMDALVRLIAQRQVRRQYLALGHCVWRGGGLRTVDAALGRDPRN 218 Query: 160 LLKKGIVIQGICY-GDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFNWKVN 213 L+ +V + + G++ V L G+ +I+ + Sbjct: 219 RLRMAVVDLAQHAGKPARTDFEYLAGNDLGCLVRCTLHTGRTHQIRVHMLSMGHPLV 275 >gi|255009930|ref|ZP_05282056.1| ribosomal large subunit pseudouridine synthase [Bacteroides fragilis 3_1_12] gi|313147717|ref|ZP_07809910.1| ribosomal large subunit pseudouridine synthase D [Bacteroides fragilis 3_1_12] gi|313136484|gb|EFR53844.1| ribosomal large subunit pseudouridine synthase D [Bacteroides fragilis 3_1_12] Length = 357 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 36/245 (14%), Positives = 66/245 (26%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEDGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYDNEIIPEDIPLNIVYEDKYLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHLKDNSD 151 Query: 111 VGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------- 152 D + T GLL++ L + R R Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGIQFFNKTTKRRYRALVWGIVDQNEG 211 Query: 153 -------VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + G V L G+ +I+ Sbjct: 212 TVVGSIARNPKDRMQMAVMPDPAQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|253689512|ref|YP_003018702.1| pseudouridine synthase, RluA family [Pectobacterium carotovorum subsp. carotovorum PC1] gi|251756090|gb|ACT14166.1| pseudouridine synthase, RluA family [Pectobacterium carotovorum subsp. carotovorum PC1] Length = 325 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 68/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV++NG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILENRVQINGNVTNKPKEKVLGGESVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + ++ L + +V + + + L Sbjct: 70 LIEEEARWEAQDIKLDIVYEDQDILVINKPRDLVVHPGAGNPDGTVLNALLHHYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGSMTAGGMVDQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|227329204|ref|ZP_03833228.1| 23S rRNA pseudouridine synthase D [Pectobacterium carotovorum subsp. carotovorum WPP14] Length = 325 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 68/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I + RV++NG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILENRVQINGNVTNKPKEKVLGGESVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + ++ L + +V + + + L Sbjct: 70 LIEEEARWEAQDIKLDIVYEDQDILVINKPRDLVVHPGAGNPDGTVLNALLHHYPEIVDV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGSMTAGGMVEQPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHATKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|169838827|ref|ZP_02872015.1| hemolysin A [candidate division TM7 single-cell isolate TM7a] Length = 81 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 QR+ + I + SR + E I RV VNG ++++ V + D + ++ Sbjct: 3 QRLDRYIVENRLTNSRSQAENYIRLGRVTVNGEVIKKCGFIVSTVDKVVLN 53 >gi|153007893|ref|YP_001369108.1| hemolysin A [Ochrobactrum anthropi ATCC 49188] gi|151559781|gb|ABS13279.1| hemolysin A [Ochrobactrum anthropi ATCC 49188] Length = 253 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 1/58 (1%) Query: 8 QENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R+ +++ G A+R I + VKV+G + + V+ T I VD Sbjct: 4 ETSDKNLRLDQLLVELGLFATRSRARDAIQRGTVKVDGKPVTKPGQTVLRTAKIAVDD 61 >gi|240850017|ref|YP_002971410.1| ribosomal large subunit pseudouridine synthase D [Bartonella grahamii as4aup] gi|240267140|gb|ACS50728.1| ribosomal large subunit pseudouridine synthase D [Bartonella grahamii as4aup] Length = 334 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 35/265 (13%), Positives = 81/265 (30%), Gaps = 52/265 (19%) Query: 1 MKDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M + I E QR+ + +A+ + SR ++ +I + +K++G ++ + Sbjct: 1 MVIQKITDEGALGQRLDQWLAKQYHNVFSRSRLQTLIREGYLKIDGQFIKEPKTKLRPKQ 60 Query: 59 HIEV------DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 IE+ D P + + + + +V + + V + Sbjct: 61 IIELAMPDLRDAEPSAEAIALDILFEDDHIIVINKPAGLVVHPGNGNWTGTLVNALIYHC 120 Query: 105 FS---------RVISVGRLDINTEGLLLLTNDGGLA-----------------RVLELPS 138 + R V RLD NT G++++ + R Sbjct: 121 GNSLSGIGGVKRPGIVHRLDKNTSGVMIVAKNDLAHKSLSAQFSDHGRTCALDRRYHALI 180 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY---GDMQVTLDTQKGSN-------AW 188 + + N K+ ++ + Y +L + GS+ + Sbjct: 181 WGTPHRNVWTIDASLGRSPHNRTKQAVIHKQNPYARHAVTHFSLLEKYGSHADSTSFASL 240 Query: 189 VTVGLREGKNREIKKVFEFFNWKVN 213 + L G+ +I+ + Sbjct: 241 LECRLETGRTHQIRVHMAHIGHPLI 265 >gi|221135103|ref|ZP_03561406.1| RluA family pseudouridine synthase [Glaciecola sp. HTCC2999] Length = 330 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN------VMSTD 58 IV + +R+ +V+A SR +++ I VKV+ ++ A + Sbjct: 16 IVDQTQFDKRLDQVLADLFPEYSRSKLKEWILAGFVKVDDEVVTVARQKMQGDEQIDIHA 75 Query: 59 HIEVD--GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 I V P + + L + +V + + + L Sbjct: 76 VIAVQVLNTPQNIELDIVFEDEHVLVINKPAGLVVHPGAGNADGTVLNALLAHHPEIENI 135 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 136 PRAGIVHRLDKDTTGLMVVAKTLIAQTYLVEQLQTRVMSREYEALVMGTMVAGGFVDEPI 195 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + ++ + + L G+ +I+ + Sbjct: 196 GRHPTKRTSMAVRATGKEATTHYRIKEKFRAHTHLRLKLESGRTHQIRVHMAHIRHPLV 254 >gi|237756115|ref|ZP_04584689.1| ribosomal large subunit pseudouridine synthase D [Sulfurihydrogenibium yellowstonense SS-5] gi|237691719|gb|EEP60753.1| ribosomal large subunit pseudouridine synthase D [Sulfurihydrogenibium yellowstonense SS-5] Length = 318 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 27/244 (11%), Positives = 65/244 (26%), Gaps = 40/244 (16%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V+E F+ +R+ + +A SR + +I V ++ +++ + V + + Sbjct: 9 VEEEFSNKRLDQFLALVYPEYSRSFYQNLIENGFVLLDNSPVKKPSTKVKTGQEFTIIIP 68 Query: 66 --------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + +Y P +V + V L + Sbjct: 69 PPEPLEIEPENIPLEICYEDEDLAVVYKPPGMVVHPSVGHTSGTLVNALLYHFKNVSQYQ 128 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 G+ L G L + + L+ + G+ Sbjct: 129 GKERAGIVHRLDKDTAGLLIVAKTEFAHKELQKMFQDREIDKKYKAIVS-GIVKKDHGLI 187 Query: 172 YGDMQVTLDTQKG------------SNAWVT------------VGLREGKNREIKKVFEF 207 + ++ ++ + WV + L G+ +I+ F Sbjct: 188 DLPIGRSIYNRQKMGTVSTNLKDALTEYWVEKRFEKHNLTLVDIKLHTGRTHQIRVHFSA 247 Query: 208 FNWK 211 Sbjct: 248 IGHP 251 >gi|171742791|ref|ZP_02918598.1| hypothetical protein BIFDEN_01905 [Bifidobacterium dentium ATCC 27678] gi|171278405|gb|EDT46066.1| hypothetical protein BIFDEN_01905 [Bifidobacterium dentium ATCC 27678] Length = 252 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 1/57 (1%) Query: 8 QENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ R+ + G++ SR + +R+I Q +V VNG+++ +A+ V D I D Sbjct: 4 NDSQHAVRLDLALLDRGLSDSRSKAQRLIVQGKVSVNGVVVSKASAKVSDDDVIAAD 60 >gi|168700598|ref|ZP_02732875.1| ribosomal large subunit pseudouridine synthase [Gemmata obscuriglobus UQM 2246] Length = 354 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 40/264 (15%), Positives = 75/264 (28%), Gaps = 44/264 (16%) Query: 10 NFTPQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 R+ + + A SR V+R I V +NG + + + V D + V Sbjct: 38 KSEGMRLDQYVQLHLGADWSRSVVQRAIESGGVLLNGRPVLKPSYKVRKNDRLHVTMPEP 97 Query: 63 -------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + +PL + L L +KP +V + + T+ + L F +S G Sbjct: 98 THEIPVPEDIPLDILYQDEWLALVNKPADMVVHPAKGNWSGTLVNALQWHFREHLSTGAG 157 Query: 115 DIN-----------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + L + + + + L G Sbjct: 158 HLRAGIVHRLDKDTSGVILVAKDDLTHRDLAMQFESRKVFKEYVAIAAGELERDSDYIEG 217 Query: 152 QVDQDKLNLLKKGIVIQ-GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + LK + + + + V V R G+ +I+ Sbjct: 218 ALKMHPYDRLKMIVSTDPDAKHALSYYEVLERFRGFTLVKVQPRTGRTHQIRVHLLHVGC 277 Query: 211 KVNRLIRISYGP---FQLGTLLAG 231 V YG +L + G Sbjct: 278 AVLADK--IYGGRAQVKLSEIAPG 299 >gi|165923990|ref|ZP_02219822.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii RSA 334] gi|165916576|gb|EDR35180.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii RSA 334] Length = 323 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 34/240 (14%), Positives = 74/240 (30%), Gaps = 31/240 (12%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I+ R+ +V+A+ SR +++ I VKV+GI +A V IE+ Sbjct: 9 KKIIPPELAGARLDQVLAKLFPDYSRSQLQNWIRGGHVKVDGIQKTKAREKVRENQFIEI 68 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + T L + +V + ++ + L S Sbjct: 69 EAQLEPNERWVPQPIPLDVIYEDETLLVINKPVGLIVHPGAGVRDQTLINALLHYDPSLS 128 Query: 109 ISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRV------------RFHGQ 152 + I+ LLL + + + + ++ R R Sbjct: 129 VVPRAGIIHRLDKDTSGLLLIARTLASHHALIKAMKARQIVREYEAIVKGVLISGRTIEA 188 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + V++ + + ++ + V L G+ +I+ + V Sbjct: 189 PVGRHPIHRTRMAVVEFGRPAITHFRIIKRYRAHTHIRVQLETGRTHQIRVHMAHIHHPV 248 >gi|152990876|ref|YP_001356598.1| hemolysin A [Nitratiruptor sp. SB155-2] gi|151422737|dbj|BAF70241.1| hemolysin A [Nitratiruptor sp. SB155-2] Length = 234 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 10/54 (18%), Positives = 24/54 (44%), Gaps = 2/54 (3%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ K + + G S R + +I + V V+G ++ + + + + + P Sbjct: 1 MRLDKYLYQKGFTSSRNKAAELIREGLVSVDGKVVTKPSFELQKG-EVSIKAKP 53 >gi|291278963|ref|YP_003495798.1| hypothetical protein DEFDS_0560 [Deferribacter desulfuricans SSM1] gi|290753665|dbj|BAI80042.1| conserved hypothetical protein [Deferribacter desulfuricans SSM1] Length = 278 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 27/211 (12%), Positives = 73/211 (34%), Gaps = 11/211 (5%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLER-AAVNVMSTDHIE--VDGVPLRKA 70 ++ +++ S+R ++ I +++V ++G + + + HI +D + Sbjct: 23 MKLVDYLSQQFNISKRLAKKYIKEKKVLIDGKFAKENLEITNIENHHISLNIDIKKIEYN 82 Query: 71 -------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLL 123 + +KP + T + T+ D + F + RLD T+G++ Sbjct: 83 LDEFIISNYENVIFLYKPPFMHTERHKLEDSLTISDIVSEHFKEYKLISRLDFETDGVIA 142 Query: 124 LTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV-TLDTQ 182 DG + + ++ KK V++ I + + Sbjct: 143 AIKDGYKPENVLKKYLAVVIGNFPEDTIVFNKIVYKKRKKVKVLEEIDLEHLSNIKVINS 202 Query: 183 KGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + + + +I+ F + + Sbjct: 203 DKNYSLLEITIFKATRHQIRAHLSFLGFPIL 233 >gi|237668428|ref|ZP_04528412.1| hemolysin A [Clostridium butyricum E4 str. BoNT E BL5262] gi|237656776|gb|EEP54332.1| hemolysin A [Clostridium butyricum E4 str. BoNT E BL5262] Length = 270 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 28/176 (15%), Positives = 48/176 (27%), Gaps = 2/176 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ GI SR + + I + RV VNG +++A V IE G L+ Sbjct: 3 EKKERLDILLVEKGIITSREKAKACIMEGRVYVNGQKVDKAGEKVGVDSDIEYRGDTLKY 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L T D ++ G + + Sbjct: 63 VSRGGLKLEKAMATWDLTLDDKVCMDIGAST-GGFTDCMLQNGAAKVFAVDVGYGQFAWK 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 L + + + V + I + L G Sbjct: 122 LRTDERVVCMERTNIRYVTPEDIDNDLLDFASIDVSFISLKKIMPATLGLLKDDGE 177 >gi|257062155|ref|YP_003140043.1| hemolysin A [Cyanothece sp. PCC 8802] gi|256592321|gb|ACV03208.1| hemolysin A [Cyanothece sp. PCC 8802] Length = 266 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 1/56 (1%) Query: 12 TPQRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 T QR+ ++ + S R+E + +I VKVN ++++ V ST IE+ P Sbjct: 2 TKQRLDTLLVERNLCSSRQEAQGLIRAGEVKVNQQVIDKPGTPVESTAEIELQAKP 57 >gi|83319260|ref|YP_424375.1| ribosomal large subunit pseudouridine synthase A [Mycoplasma capricolum subsp. capricolum ATCC 27343] gi|83283146|gb|ABC01078.1| ribosomal large subunit pseudouridine synthase, RluA family [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 322 Score = 59.0 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 35/263 (13%), Positives = 67/263 (25%), Gaps = 52/263 (19%) Query: 3 DKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + T R+ K++ SR ++++I ++ + VN ++ V Sbjct: 2 NKITLNSVNTTLRLDKLLVELLTSYDYSRSYIQKLIKEECISVNNQIITSNNFLVKPNSQ 61 Query: 60 IEV-------DGVP---------------------LRKAERTRLWLYHKPIGLVTTHSDP 91 I + D + + L + + V + Sbjct: 62 IIITIKDPVLDPNITKNKDPVLDPNITKNKDIDLNIIYQDDDLLVINKQNNITVHPSLNN 121 Query: 92 DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + V L S G L + G L + + L Sbjct: 122 TNNTIVNALLASDVELSSINGELRPGIVHRIDKQTTGLLIVAKNDKTHKLLSEMFKNHQI 181 Query: 152 QVDQ-------DKLNLLKKGIVIQGICY--GDMQVTLDTQKGSNAWVTVG---------- 192 + K N I M VT K + V Sbjct: 182 YKEYLAIVTGVIKPNKGLIDAPIGRSQTDRKKMSVTAKNSKHAITTFEVVERFLKNTLIK 241 Query: 193 --LREGKNREIKKVFEFFNWKVN 213 ++ G+ +I+ F + N V Sbjct: 242 CQIQTGRTHQIRVHFNYINHPVL 264 >gi|167957172|ref|ZP_02544246.1| Hemolysin A [candidate division TM7 single-cell isolate TM7c] Length = 199 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 QR+ + I + SR + E I RV VNG ++++ V + D + ++ Sbjct: 3 QRLDRYIVENRLTNSRSQAENYIRLGRVTVNGEVIKKCGFIVSTVDKVVLN 53 >gi|302035759|ref|YP_003796081.1| 23S rRNA pseudouridine synthase [Candidatus Nitrospira defluvii] gi|300603823|emb|CBK40155.1| 23S rRNA pseudouridine synthase [Candidatus Nitrospira defluvii] Length = 320 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 27/247 (10%), Positives = 66/247 (26%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + I+ P+R+ + R SR ++RMI V+VN + + + + + D Sbjct: 1 MQTEFIISAGEQPKRLDVFLVQREPKLSRAALQRMITAGWVRVNSHIAKS-SQRIRAGDV 59 Query: 60 IEVD----------GV----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I D G + + L L + + + L Sbjct: 60 IVFDTPQPAPLRIAGETQQLEVLFEDHACLVLNKPAGIVTHPSPGHWSNTLLNALLDHCA 119 Query: 106 SRVISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + ++ +++ A + + R V + Sbjct: 120 RGGGAATPGVVHRLDKDTSGVMVVAKTEEAHRKLSEQFERHSITRQYEALVVGVPAQSEG 179 Query: 162 KKGIVIQGICYGDMQVTLDTQKG-------------SNAWVTVGL--REGKNREIKKVFE 206 + + + + + T + + L G+ +I+ Sbjct: 180 RIEAALGPDRHHPKRTSTQTLQPKPAVTDYRVEEVFDKVAARLVLSPHTGRTHQIRAHLH 239 Query: 207 FFNWKVN 213 + Sbjct: 240 VIGHPIL 246 >gi|295099509|emb|CBK88598.1| ribosomal large subunit pseudouridine synthase D [Eubacterium cylindroides T2-87] Length = 305 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 69/248 (27%), Gaps = 37/248 (14%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + I+ + RV K +A SR+ V+ ++ + + VNG + A+ + DH Sbjct: 1 METREFIIDDENAKIRVDKAVASLLDFSRKRVKDILDEGNILVNGSPCK-ASYILQEGDH 59 Query: 60 IEVD------------GVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + V+ +P + + + + +V + V + Sbjct: 60 LLVNIPEVQSLEVLPENIPLNIVYEDDDVIVINKPKGMVVHPAFGHVSGTLVNALMYHCK 119 Query: 106 SRVISVGRLDINTEGLLLLTNDG---------------------GLARVLELPSTQWLRV 144 G + + G R Sbjct: 120 DLSGINGVMRPGIVHRIDKDTSGLLVVCKNDKAHLALSEQLSNKTCHREYLAIVHHPFSH 179 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + +D+ + K + T+ A V L G+ +I+ Sbjct: 180 EHGTINAPIGRDEKDRQKMAVTANNSKEAITHFTVLENFKDYALVRCRLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 ++ + Sbjct: 240 MQYIKHPI 247 >gi|297621774|ref|YP_003709911.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] gi|297377075|gb|ADI38905.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] Length = 310 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 68/242 (28%), Gaps = 36/242 (14%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-- 60 + +R+ KV+A SR ++ +I + V +N +++ V + D I Sbjct: 10 MTTAEEAGKRLDKVLAER-YPDAYSRSYLQWLIEENHVLLNHKPVKK-RAKVAAGDRIDV 67 Query: 61 ------EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 E++ P + + + + +V + + V L Sbjct: 68 CFVLAPEIELKPEKIFLDIIHEDEAIIVVNKPAGLVVHPGAGNWTGTFVNGLLYHCKKLP 127 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------- 155 L T +A + + ++ R + Sbjct: 128 EGETLRPGIVHRLDKETTGLLVAAKTAEAQHKLVELFSSRRVYKEYIAVCVGNPGKGTVD 187 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +K +++G S + V + L G+ +I+ + + Sbjct: 188 APIARHPVHRQKMAIVEGGRRSVTHYETLKYDVSLSLVKLVLETGRTHQIRVHMKQIGFP 247 Query: 212 VN 213 V Sbjct: 248 VL 249 >gi|283458437|ref|YP_003363061.1| putative rRNA methylase [Rothia mucilaginosa DY-18] gi|283134476|dbj|BAI65241.1| predicted rRNA methylase [Rothia mucilaginosa DY-18] Length = 242 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + AG +SR ++IA + V+VNG + +A++ V D + V Sbjct: 1 MRLDKYLVEAGFVSSRTLAAKLIAARDVQVNGKVARKASMLVGPEDTLYV 50 >gi|329577702|gb|EGG59129.1| S4 domain protein [Enterococcus faecalis TX1467] Length = 64 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 1/60 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ K++ SR+ V+R+I ++V V+GI+ + NV + I+V G + Sbjct: 1 MRLDKLLEELQFGSRKTVKRLIKGKQVTVDGIVTLNESQNVDAQLQMIKVKGQLISHRPM 60 >gi|254495420|ref|ZP_05108344.1| ribosomal large subunit pseudouridine synthase D [Polaribacter sp. MED152] gi|85819775|gb|EAQ40932.1| ribosomal large subunit pseudouridine synthase D [Polaribacter sp. MED152] Length = 345 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 36/246 (14%), Positives = 72/246 (29%), Gaps = 39/246 (15%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K + + P RV K + A+R +V++ V VN I ++ V D + V Sbjct: 19 KFVAADGQEPLRVDKFLMNFIENATRNKVQQAAKAGNVLVNDIAVKS-NHKVKPKDVVRV 77 Query: 63 -------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + +PL + + + +V + V + I + Sbjct: 78 VLAYPPAENLLVAEDIPLDIIYEDDAVIVVNKPAGMVVHPGHGNYSGTLVNGLIHHIENL 137 Query: 108 VISV-------GRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRV 147 + R+D +T GLL++ + Sbjct: 138 PTNSNERPGLVHRIDKDTSGLLVVAKTEFAMAHLSKQFFDRTTERLYYALVWGNIEEDEG 197 Query: 148 RFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 R G + + N L+ + G + + + V L G+ +I+ F Sbjct: 198 RIEGNIGRSLKNRLQMAVFPDGDFGKHAVTHFKVLERLTYVTLVQCKLETGRTHQIRAHF 257 Query: 206 EFFNWK 211 + Sbjct: 258 KHIGHT 263 >gi|315453493|ref|YP_004073763.1| putative ribosomal pseudouridine synthase [Helicobacter felis ATCC 49179] gi|315132545|emb|CBY83173.1| putative ribosomal pseudouridine synthase [Helicobacter felis ATCC 49179] Length = 321 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 34/237 (14%), Positives = 71/237 (29%), Gaps = 38/237 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------ 62 R+ +++A+ SR +V I V ++G + ++ V V ++ V Sbjct: 11 RLDQLLAQELNISRSQVLGCIKAGLVSMDGKICQKGGVEVKPGSYVCVQEPPTAEITPLP 70 Query: 63 ----------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D L + L ++ P + D + + SR V Sbjct: 71 TTLNIECLYEDEDLLVINKPPHLAVHPAPSLKEESLVDYLVAKGYQLSNLNGTSRCGIVH 130 Query: 113 RLDINTEGLLLLTNDGGLARV----LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 RLD T G L++ + L+ V ++ H + L + + Sbjct: 131 RLDKETSGALVIAKNNACHAHLSAQLQSRQMGRYYVALIQGHLREPLFVECHLGRHPKNR 190 Query: 169 GICYGDMQVTLDTQKGSNAWV---------TVG---LREGKNREIKKVFEFFNWKVN 213 + + K S + + L G+ +++ E + Sbjct: 191 LKRANLDALKVKGGKPSKTFFVPLFDGLKCQLVGARLYSGRTHQVRAHLESLGRPIL 247 >gi|271501679|ref|YP_003334705.1| pseudouridine synthase, RluA family [Dickeya dadantii Ech586] gi|270345234|gb|ACZ77999.1| pseudouridine synthase, RluA family [Dickeya dadantii Ech586] Length = 325 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 70/239 (29%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I +QRV++NG +++R V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKTWILEQRVQINGNMVDRPKEKVLGGESVAIDA 69 Query: 65 ----------VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 P+ + L + +V + + + L Sbjct: 70 LIEEDARWEAQPISLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHHYPEIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ L Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQAREITREYEAVAIGTMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHSTKRTHMAVHPMGKPAVTHYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|300869762|ref|YP_003784633.1| hemolysin A [Brachyspira pilosicoli 95/1000] gi|300687461|gb|ADK30132.1| hemolysin A [Brachyspira pilosicoli 95/1000] Length = 240 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G SR + + +I V VNG+ + A + TD IEV Sbjct: 1 MRLDEYVHHNGYTESRSKAQDIILAGCVFVNGVKVTSKAQKIKDTDKIEV 50 >gi|238897770|ref|YP_002923449.1| pseudouridine synthase [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229465527|gb|ACQ67301.1| pseudouridine synthase [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 325 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 34/248 (13%), Positives = 70/248 (28%), Gaps = 35/248 (14%) Query: 1 MKDKNIVQ----ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVM 55 M K + E+ QR+ + +A SR ++ I +V VNGI V+ Sbjct: 1 MTQKIQLNTTVCESQLGQRLDRALAELFPTYSRSRIKEWILAHQVTVNGITKSIPKEKVL 60 Query: 56 STDHIEV-----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 +HIE+ + + L + +V + + + L Sbjct: 61 GGEHIEIHTYIEENKRWMPQKIPLNIIYEDTDILVINKPSGLVVHPGAGNPDHTILNALL 120 Query: 102 PSIFSRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWL-----------RVY 145 RLD +T GL+++ L L + Sbjct: 121 DYYPDITHVPRAGIVHRLDKDTTGLMVIAKTLRAQTSLVDALQARLVTREYEAIAVGHIT 180 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + V + ++ + + L G+ +I+ F Sbjct: 181 AGGSINEPIARHKSKRTHMAVHPLGKSAVTHYRILQHFRAHTRLRLRLETGRTHQIRVHF 240 Query: 206 EFFNWKVN 213 + + + Sbjct: 241 SYIHHPLV 248 >gi|118444250|ref|YP_878581.1| ribosomal large subunit pseudouridine synthase D [Clostridium novyi NT] gi|118134706|gb|ABK61750.1| ribosomal large subunit pseudouridine synthases, RluD subfamily [Clostridium novyi NT] Length = 301 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 34/248 (13%), Positives = 76/248 (30%), Gaps = 37/248 (14%) Query: 1 MKDKN-----IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 M++KN VQ + R++ + S R + + + R+KVN + + + Sbjct: 1 MEEKNNILKIKVQIDEEEIRLNHYLKNHANCSSRFIRKAAREGRIKVNNENVR-LSYMLK 59 Query: 56 STDHIEV-----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 + D IE+ + + + + + +V + L Sbjct: 60 NDDVIELQINREENQDIVPEKMHLDVIYEDKDIVVINKPKGIVVHPTKRHQNGTLSNGVL 119 Query: 102 PSIFSRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY-RVRFHGQVDQ 155 + + RLD++T GL+L+ + L + V + + Sbjct: 120 YYFKEKNENSIVRLVNRLDMDTSGLVLIAKNAYSHMALSRDMQKDDFVKSYLAIVHGNLK 179 Query: 156 DKLNLLKKGIVIQGICYG-----------DMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 +K ++ K I G + + V + L G+ +I+ Sbjct: 180 EKSGVINKPIYRVGEGTLRRVIDERGQRSVTRFKVVESYEDADLVELTLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 + Sbjct: 240 LSSIGHPI 247 >gi|269123861|ref|YP_003306438.1| pseudouridine synthase, RluA family [Streptobacillus moniliformis DSM 12112] gi|268315187|gb|ACZ01561.1| pseudouridine synthase, RluA family [Streptobacillus moniliformis DSM 12112] Length = 297 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 29/234 (12%), Positives = 68/234 (29%), Gaps = 35/234 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 +R+ +++ +R ++ +I + VNG +A+ V D I +D L+ Sbjct: 11 ERIDIYLSKKLDETRSRIQELIKSNNILVNGKK-TKASYKVNFGDEIFIDIPLLKEVDII 69 Query: 69 --------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR------- 113 E L + +K G+V S T+ + + + + Sbjct: 70 PQDIDIDIVYEDKYLAIINKYAGMVVHPSKGHEEDTLVNAIMYKIKDLSGINGDLRPGIV 129 Query: 114 -LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH-------------GQVDQDKLN 159 L++ + + ++ + + N Sbjct: 130 HRLDKNTSGLIIIAKDDKTHFKLSEMFKNKEIKKIYYAIVKGKVNKKSGRIETMIGRNPN 189 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 KK V+ + + + V L G+ +I+ F + + Sbjct: 190 DRKKMAVVDNGKLAITNFEVIDSNEKFSLLKVDLETGRTHQIRVHLSHFFFPIL 243 >gi|225419732|ref|ZP_03762035.1| hypothetical protein CLOSTASPAR_06070 [Clostridium asparagiforme DSM 15981] gi|225041622|gb|EEG51868.1| hypothetical protein CLOSTASPAR_06070 [Clostridium asparagiforme DSM 15981] Length = 303 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 33/250 (13%), Positives = 73/250 (29%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + E+ R+ K + + SR +++++ +V V G ++ A+ V D Sbjct: 1 MERFRVTDEDG-GVRIDKYLTSVCEGLSRSYLQKLLKSGQVLVGGQGVK-ASYAVQEGDL 58 Query: 60 IE------VDGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE V+ L + + + +V + + V L Sbjct: 59 IELEVPEAVEPEILAEPMDLDVLYEDEDIILINKPKGMVVHPAAGHYTHTLVNGLLDHCR 118 Query: 106 ---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR---------- 146 R V R+D++T G+++ + L + R Sbjct: 119 GQLSGINGVMRPGIVHRIDMDTTGVIIACKNDLAHSCLAEQLKEHSITRRYQAIVHGVVK 178 Query: 147 ---VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + K I + + V L G+ +I+ Sbjct: 179 EDEGTVDAPIGRHPVERKKMSINYNNGREAVTHYKVLRRFRQYTHVECRLETGRTHQIRV 238 Query: 204 VFEFFNWKVN 213 + + Sbjct: 239 HMASIHHPLL 248 >gi|40889481|pdb|1QYU|A Chain A, Structure Of The Catalytic Domain Of 23s Rrna Pseudouridine Synthase Rlud Length = 349 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + + ++ Sbjct: 33 TVSENQLGQRLDQALAEXFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINA 92 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 + + + + +V + + + L Sbjct: 93 EIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 152 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL-----------RVYRVRFHGQVD 154 R V RLD +T GL ++ L + + Sbjct: 153 PRAGIVHRLDKDTTGLXVVAKTVPAQTRLVESLQRREITREYEAVAIGHXTAGGTVDEPI 212 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 213 SRHPTKRTHXAVHPMGKPAVTHYRIXEHFRVHTRLRLRLETGRTHQIRVHXAHITHPLV 271 >gi|184201185|ref|YP_001855392.1| hypothetical protein KRH_15390 [Kocuria rhizophila DC2201] gi|183581415|dbj|BAG29886.1| hypothetical protein [Kocuria rhizophila DC2201] Length = 255 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 13 PQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + + G+A SR I +V VNG + +A+ V D +EV+ Sbjct: 2 STRLDRALTDRGLARSRTVAAGWIRDGKVSVNGAPVTKASTPVSEQDRVEVE 53 >gi|253564151|ref|ZP_04841608.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_2_5] gi|251947927|gb|EES88209.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_2_5] gi|301161553|emb|CBW21093.1| ribosomal large subunit pseudouridine synthase [Bacteroides fragilis 638R] Length = 357 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 39/245 (15%), Positives = 70/245 (28%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEDGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 D + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYDNEIIPEDIPLHIVYEDKYLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHLKDDPV 151 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------- 152 V V R+D +T GLL++ L + R R Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGVQFFNKTTKRRYRALVWGIVDQDEG 211 Query: 153 -------VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + G V L G+ +I+ Sbjct: 212 TIVGSIARNPKDRMQMAVMADPTQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|168187890|ref|ZP_02622525.1| hypothetical RNA pseudouridine synthase YhcT [Clostridium botulinum C str. Eklund] gi|169294254|gb|EDS76387.1| hypothetical RNA pseudouridine synthase YhcT [Clostridium botulinum C str. Eklund] Length = 301 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 76/248 (30%), Gaps = 37/248 (14%) Query: 1 MKDKN-----IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 M++KN VQ N R++ + S R + + + R+KVN + + + Sbjct: 1 MEEKNNVLKLKVQINDEEIRLNHYLKNYAKCSSRFIRKAAREGRIKVNNENVR-LSYMLK 59 Query: 56 STDHIEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 + D IE+ + + + + +V + L Sbjct: 60 NNDLIEIQINRKEEQDIVPEKMKLDIIYEDEDIIVINKPKAIVVHPTKRHLNGTLSNGVL 119 Query: 102 PSIFSRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + + RLD++T GL+L+ + L + + R + + Sbjct: 120 YYFKEKNENSIVRLVNRLDMDTSGLVLIAKNAYSHMALSRDMQKDDFIKRYLAIVHGNLE 179 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV------------TVGLREGKNREIKKV 204 + + + + + +V + + S + L G+ +I+ Sbjct: 180 EKSGVIDKPIYRVGEGTLKRVIDERGQKSITRFKVIESYENADLIELTLETGRTHQIRVH 239 Query: 205 FEFFNWKV 212 + Sbjct: 240 LSSIGHPI 247 >gi|195978250|ref|YP_002123494.1| ribosomal large subunit pseudouridine synthase D [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195974955|gb|ACG62481.1| ribosomal large subunit pseudouridine synthase D [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 296 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 33/232 (14%), Positives = 64/232 (27%), Gaps = 37/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------DGVP 66 R+ K +A SR + I Q+RV VNG ++A V D I D Sbjct: 11 RLDKALADLTPLSRSQANDQIKQKRVLVNGSP-KKAKYIVQVGDCISYHIPEESSLDYQA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + + +V + + V L + G + Sbjct: 70 QDIPLDIVYQDDVLVIINKPQGMVVHPSAGHSTGTLVNALLYHVKDLSSINGVIRPGIVH 129 Query: 121 LLLLTNDGGLA---------------------RVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + G L R L R + + + Sbjct: 130 RIDKDTSGLLMVAKTDKAHQLLADELKAKKSLRKYVAIVHGNLPKDRGVIEAPIGRSDKD 189 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ + +G + + + G + V + L G+ +I+ + Sbjct: 190 RKKQTVTAKGKEALT-RFKVLERFGRYSLVELQLETGRTHQIRVHMAYIGHP 240 >gi|229918562|ref|YP_002887208.1| pseudouridine synthase, RluA family [Exiguobacterium sp. AT1b] gi|229469991|gb|ACQ71763.1| pseudouridine synthase, RluA family [Exiguobacterium sp. AT1b] Length = 303 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 32/236 (13%), Positives = 64/236 (27%), Gaps = 36/236 (15%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 R+ K ++ G SR +V+ I + VNG ++ A + D +EV+ Sbjct: 9 DEKARIDKWVSDRGEWSRSQVQEWIKTGALLVNGSAVK-ANYKLQVGDEVEVNVPEAVEL 67 Query: 64 -----GVPLRK--AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG---- 112 +PL + + + +V + + V L G Sbjct: 68 EVLPEDIPLEIVFEDEDVIVVNKARGMVVHPAAGHTSGTLVNALLYHCDDLSGINGVKRP 127 Query: 113 -----------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + D+ E L D + R L + + Sbjct: 128 GIVHRIDKDTTGLLMVAKNDLAHESLASQLKDKTIKREYIALVHGELVHELGTIEAPIGR 187 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 D + + + + L + V L G+ +I+ + Sbjct: 188 DTNDRQRMTVTDRNAKEAVTHFRLLERYKDFTLVECKLETGRTHQIRVHMRYIGHP 243 >gi|222147750|ref|YP_002548707.1| hemolysin A [Agrobacterium vitis S4] gi|221734738|gb|ACM35701.1| hemolysin A [Agrobacterium vitis S4] Length = 263 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%) Query: 9 ENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ PQR+ +++ A ASR + + VKVNG + + ++ IE+D Sbjct: 8 QSLEPQRLDQLLVALNLFASRSRARDAVQRGGVKVNGRTVTKPSLTFSPDVTIEIDD 64 >gi|319760323|ref|YP_004124261.1| ribosomal large subunit pseudouridine synthase D [Candidatus Blochmannia vafer str. BVAF] gi|318039037|gb|ADV33587.1| ribosomal large subunit pseudouridine synthase D [Candidatus Blochmannia vafer str. BVAF] Length = 333 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 74/248 (29%), Gaps = 40/248 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +VQ ++ +R+ V++ SR +++R I ++V +N + V+S + IE++ Sbjct: 15 VVQIAYSGKRLDWVLSELLPQFSRSQIKRWIINKKVVINNQISVLPKKKVISGEIIEIND 74 Query: 65 V--------------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + + + L + +V + + + L Sbjct: 75 INNDSTSDCNNNILIPQNISLNIVYEDNDILVINKPSNMVVHPGVKNNKDTVLNALLYRY 134 Query: 105 FSRVISV------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 S + RLD +T GL+++ L + Sbjct: 135 PSIMQISKQAGIVQRLDKDTTGLMIIAKTYLAYTNLLQSFKMKQVIKEYDAVVCGTFSYN 194 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGS-------------NAWVTVGLREGKNREIKKVF 205 + + + K + + + V L G+ +I+ Sbjct: 195 AGIISQPIRRHSINRTCMTVHPHGKPAVTRYSVVESFGRTYSRIRVYLETGRTHQIRVHM 254 Query: 206 EFFNWKVN 213 + N V Sbjct: 255 AYINHPVV 262 >gi|258593870|emb|CBE70211.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [NC10 bacterium 'Dutch sediment'] Length = 314 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 25/234 (10%), Positives = 56/234 (23%), Gaps = 36/234 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----------EVDG 64 R+ + ++ A R +++R+I RV V+G +A+ I + Sbjct: 19 RLDRYLSTATGLPRSQIQRLIKAGRVLVDGR-CPKASAIAHPGQQISLSIPPPQPSTLTP 77 Query: 65 VPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 P+ + L L +V + V L Sbjct: 78 EPIPLDILYEDTDMLVLNKPAGLVVHPAPGHHSGTLVHAILYHCPDLPGIGEERRPGIVH 137 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------------DKLN 159 L G + + L Q + + Sbjct: 138 RLDKETSGVMVVAKTDTAMASLATQFKGRRVQKTYIALVHGEVKQPQGQIAADIGRHERD 197 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + + G + + + G+ +I+ V Sbjct: 198 RKRMAVRTRKGREAVTNYRVIKRLGGLTLLELQPQTGRTHQIRVHLSAIGHPVV 251 >gi|53711780|ref|YP_097772.1| ribosomal large subunit pseudouridine synthase D [Bacteroides fragilis YCH46] gi|60680012|ref|YP_210156.1| ribosomal large subunit pseudouridine synthase [Bacteroides fragilis NCTC 9343] gi|265765162|ref|ZP_06093437.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 2_1_16] gi|52214645|dbj|BAD47238.1| ribosomal large subunit pseudouridine synthase D [Bacteroides fragilis YCH46] gi|60491446|emb|CAH06196.1| ribosomal large subunit pseudouridine synthase [Bacteroides fragilis NCTC 9343] gi|263254546|gb|EEZ25980.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 2_1_16] Length = 357 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 36/245 (14%), Positives = 66/245 (26%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEDGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYDNEIIPEDIPLHIVYEDKYLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHLKDNPD 151 Query: 111 VGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-------- 152 D + T GLL++ L + R R Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGVQFFNKTTKRRYRALVWGIVDQDEG 211 Query: 153 -------VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + G V L G+ +I+ Sbjct: 212 TIVGSIARNPKDRMQMAVMADPTQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|300173082|ref|YP_003772248.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc gasicomitatum LMG 18811] gi|299887461|emb|CBL91429.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc gasicomitatum LMG 18811] Length = 308 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 64/247 (25%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K + R+ ++A+ + SR + + + VNG+ ++R A V + D Sbjct: 1 MTKKITINIIDQIGRIDAILAKENLPYSRTTLAEWLQTGHILVNGVQVKR-AYKVTTGDT 59 Query: 60 IEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + +PL + L + +V + + V L Sbjct: 60 ITILQPEVITTEIIAEDIPLDIIYEDDDILVVNKPQGMVVHPAAGHSSGTLVNALLFHAP 119 Query: 106 SRVISVGRLD-------------------INTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 I+ L + + V Sbjct: 120 LSTINGEFRPGIVHRIDRDTSGLLMVAKNDQAHQGLSAQLKAHKNDRIYYALVRGEFVEN 179 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK V +G + + + V L G+ +I+ Sbjct: 180 SGTINAPINRHKVDRKKQAVQEGGREAITHFEVIERYVGYTLLKVRLETGRTHQIRVHMT 239 Query: 207 FFNWKVN 213 + V Sbjct: 240 YIGHPVV 246 >gi|21674122|ref|NP_662187.1| ribosomal large subunit pseudouridine synthase D [Chlorobium tepidum TLS] gi|21647279|gb|AAM72529.1| ribosomal large subunit pseudouridine synthase D [Chlorobium tepidum TLS] Length = 329 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 40/248 (16%), Positives = 81/248 (32%), Gaps = 42/248 (16%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + TP R+ + + + A+R +V++ I +QRV VNG ++ + S DHI + Sbjct: 5 VSKVQTPMRIDRYLTQQVENATRNKVQKAIEEQRVLVNGKPVKS-NYRIKSCDHIHITFL 63 Query: 63 ---------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------- 105 + +P+ E L + K G+V + + T+ + + Sbjct: 64 RPPAPELAPEDIPISILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLGKDADDL 123 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLAR----VLELPSTQWLRVYRVRFHGQVD--- 154 R V RLD +T GL+++ + + + V Sbjct: 124 DKTEMRPGIVHRLDKDTSGLIIVAKNPVALHKLATQFARRQVEKVYKAIVWGVPNPPSGT 183 Query: 155 -------QDKLNLLKKGIVIQGICYGDMQVTLDTQKG--SNAWVTVGLREGKNREIKKVF 205 K + +G + A + + L G+ +I+ Sbjct: 184 IKTNIGRSHKNRKVMANFPFEGAEGKHAITDYLVVEDLAYFALMDMTLHTGRTHQIRVHL 243 Query: 206 EFFNWKVN 213 + + Sbjct: 244 QHLGHPIL 251 >gi|194289464|ref|YP_002005371.1| 23S rRNA pseudouridine synthase [Cupriavidus taiwanensis LMG 19424] gi|193223299|emb|CAQ69304.1| 23S rRNA pseudouridine synthase [Cupriavidus taiwanensis LMG 19424] Length = 418 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 68/245 (27%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V +R+ K++AR SR +++ I V+V+G + R V + IEV Sbjct: 68 VDSASHGERLDKLLARHFSEFSRSRLQQWIESGAVRVDGQV-RRPRDAVQMGNRIEVQPQ 126 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + T L + +V + + + L Sbjct: 127 AAPEASAFAPEDVPLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRDPGAASL 186 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL-RVYRVRFHGQVDQDKLNLLKKG 164 R V RLD T GL+++ L + + D+ + Sbjct: 187 PRAGIVHRLDKETSGLMVVARTLTAQTDLVRQLQARTVKRTYIALVWGRTYDEGTIDAPI 246 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVT----------------VGLREGKNREIKKVFEFF 208 V + K S L G+ +I+ FE Sbjct: 247 GRDPRERTRMAIVQTASGKPSRTHFRTLATVPLGRGFVSMVMCKLETGRTHQIRVHFESI 306 Query: 209 NWKVN 213 + Sbjct: 307 GHPLV 311 >gi|163867809|ref|YP_001609013.1| ribosomal large subunit pseudouridine synthase D [Bartonella tribocorum CIP 105476] gi|161017460|emb|CAK01018.1| ribosomal large subunit pseudouridine synthase D [Bartonella tribocorum CIP 105476] Length = 334 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 30/265 (11%), Positives = 79/265 (29%), Gaps = 52/265 (19%) Query: 1 MKDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M + + E QR+ + +A+ + SR ++ +I + +K++G ++ + Sbjct: 1 MVIQKVTDEGALDQRLDQWLAKQYHDVLSRSRLQTLIREGCLKIDGQFIKEPKTKLKPNQ 60 Query: 59 HIEV------DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 IE+ D P + + + + +V + + V + Sbjct: 61 IIELEMPNLRDAEPSAEAIALDILYEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHC 120 Query: 105 FS---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ--- 152 + R V RLD NT G++++ + + L + R + Sbjct: 121 GNSLSGIGGVKRPGVVHRLDKNTSGVMVVAKNDLAHKSLSAQFSDHGRTCALDRRYHALI 180 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN------------------------AW 188 N+ + + + + ++ + + Sbjct: 181 WGTPHRNVWTIDASLGRSPHNRTKQAVVHKQTPHARHAVTHFSLLEKYGTHADSTSFASL 240 Query: 189 VTVGLREGKNREIKKVFEFFNWKVN 213 + L G+ +I+ + Sbjct: 241 LECRLETGRTHQIRVHMAHIGHPLI 265 >gi|29349120|ref|NP_812623.1| ribosomal large subunit pseudouridine synthase D [Bacteroides thetaiotaomicron VPI-5482] gi|253571283|ref|ZP_04848690.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 1_1_6] gi|298386817|ref|ZP_06996372.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 1_1_14] gi|29341027|gb|AAO78817.1| ribosomal large subunit pseudouridine synthase D [Bacteroides thetaiotaomicron VPI-5482] gi|251839236|gb|EES67320.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 1_1_6] gi|298260491|gb|EFI03360.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 1_1_14] Length = 357 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 64/245 (26%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEDGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + + +V + V + Sbjct: 92 DRPRYENEIIPENIPLNIVYEDPYVMVVNKPAGLVVHPGHGNYHGTLVNALAWHMKDIPE 151 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--- 157 R+D +T GLL++ L + R R + ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGIQFFNKTTKRRYRALVWGNVEQDEG 211 Query: 158 ------------LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + G V L G+ +I+ Sbjct: 212 TIVGSIARNPKDRMQMAVMSDPSMGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|312881916|ref|ZP_07741679.1| 23S rRNA pseudouridine synthase D [Vibrio caribbenthicus ATCC BAA-2122] gi|309370434|gb|EFP97923.1| 23S rRNA pseudouridine synthase D [Vibrio caribbenthicus ATCC BAA-2122] Length = 325 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 30/249 (12%), Positives = 71/249 (28%), Gaps = 33/249 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 N V++ QR+ + IA SR ++ + +V+V+G ++ + VM + I + Sbjct: 9 NTVKDAQLGQRLDQAIAELFSDFSRSRLKDWLLDGKVQVDGEVVTKPRTKVMGGEVIVLH 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDIIVINKPRGFVVHPGAGTPDGTVLNALLHHFPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + +++ Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGRVEQP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPLGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMAYLQHPL- 247 Query: 214 RLIRISYGP 222 L +YG Sbjct: 248 -LGDTAYGG 255 >gi|189462984|ref|ZP_03011769.1| hypothetical protein BACCOP_03686 [Bacteroides coprocola DSM 17136] gi|189430266|gb|EDU99250.1| hypothetical protein BACCOP_03686 [Bacteroides coprocola DSM 17136] Length = 355 Score = 58.7 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 65/245 (26%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + TP R+ K + + ASR ++ V NG ++ + V D + V Sbjct: 32 VVDKGQTPVRIDKYLFERIVNASRNRIQTAADAGFVMANGKPVKS-SYKVKPLDVLTVMM 90 Query: 63 -----------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +PL E L + +KP GLV + T+ + + V S Sbjct: 91 DRPRYENDIIPEDIPLDIVYEDNDLMVINKPAGLVVHPGCGNYHGTLVNAIAWHLRDVPS 150 Query: 111 VGRLDINTE-------------------------GLLLLTNDGGLARVLELPSTQWLRVY 145 D G+ + Sbjct: 151 YDPNDPQVGLVHRIDKDTSGLLVVAKTPDAKTSLGMQFYNKTTKREYNALVWGIVEEDEG 210 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 211 TITGNIGRNPKDRMQMAVMSDPTQGKHAVTHYQVLERLGYVTLVKCVLETGRTHQIRVHM 270 Query: 206 EFFNW 210 + Sbjct: 271 KHIGH 275 >gi|206577750|ref|YP_002237068.1| ribosomal large subunit pseudouridine synthase D [Klebsiella pneumoniae 342] gi|290510910|ref|ZP_06550279.1| ribosomal large subunit pseudouridine synthase D [Klebsiella sp. 1_1_55] gi|206566808|gb|ACI08584.1| ribosomal large subunit pseudouridine synthase D [Klebsiella pneumoniae 342] gi|289775903|gb|EFD83902.1| ribosomal large subunit pseudouridine synthase D [Klebsiella sp. 1_1_55] Length = 326 Score = 58.7 bits (140), Expect = 2e-06, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ +HI +D Sbjct: 10 TVTENQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNGNIGDKPKEKVLGGEHIAIDV 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARFQPQDIPLNIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTIPAQTRLVESLQLREITREYEAVAIGHMTSGGTVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRIHTRLRLRLETGRTHQIRVHMSHITHPLV 248 >gi|259503429|ref|ZP_05746331.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus antri DSM 16041] gi|259168507|gb|EEW53002.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus antri DSM 16041] Length = 303 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 26/245 (10%), Positives = 61/245 (24%), Gaps = 35/245 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + ++ RV K +A SR ++++ IA V+VNG ++ A + D Sbjct: 1 MDTFKLTVDDTLTGRVDKALAHHFRQFSRSQLQKWIADGNVQVNGEAVK-AKAKLAVGDQ 59 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + + + + + +V + V L Sbjct: 60 VVIKPEAPQKIDLVPEKIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHCP 119 Query: 106 SRVISVGRLDINTEGL-------------------LLLTNDGGLARVLELPSTQWLRVYR 146 I+ + L + + + Sbjct: 120 LSTINGEFRPGIVHRIDKDTSGLLMVAKNDLAHRSLAAQLKAKTNQREYVALVHGVIKQD 179 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK ++ + + + V+ L G+ +I+ + Sbjct: 180 AGTVDAPIGRSKKDRKKQAIVSDGRHAVTHFKVLERFRHYTLVSCRLETGRTHQIRVHMK 239 Query: 207 FFNWK 211 Sbjct: 240 SIGHP 244 >gi|149190361|ref|ZP_01868634.1| 23S rRNA pseudouridine synthase D [Vibrio shilonii AK1] gi|148835850|gb|EDL52814.1| 23S rRNA pseudouridine synthase D [Vibrio shilonii AK1] Length = 324 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 30/240 (12%), Positives = 69/240 (28%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 N V+++ QR+ + +A SR ++ + ++ VNG ++ + VM + I V Sbjct: 9 NTVKDSQLGQRLDQAVAELFADFSRSRLKEWLLDGKIAVNGEVITKPRTKVMGGELITVQ 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 + + + + +V + + + L Sbjct: 69 AELEDEERFEAQDIPLNIVYEDDDIIVINKPRDFVVHPGAGTPDGTVLNALLHHFPAIAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R V RLD +T GL+++ L + ++ K Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGKMTAGGMVDKA 188 Query: 165 IVIQ---------GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVNELGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPLL 248 >gi|282859073|ref|ZP_06268205.1| pseudouridine synthase, RluA family [Prevotella bivia JCVIHMP010] gi|282588153|gb|EFB93326.1| pseudouridine synthase, RluA family [Prevotella bivia JCVIHMP010] Length = 364 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 31/249 (12%), Positives = 68/249 (27%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K V + +R+ K + R +SR +++ + VNG ++ V D I + Sbjct: 33 KIEVDKGQEKERIDKFLFERMQHSSRNRIQKAADSGFIHVNGQPVKS-NYKVRPLDVITL 91 Query: 63 ------DGVPLRKAERTRLWLY---------HKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + + +Y +V + + + + Sbjct: 92 MLDRPKHDNTIEPEDIPLDVIYEDDDLMVIMKPAGLVVHPGAGNFHGTLINAIAWHLKDL 151 Query: 108 VISV---------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVY 145 R+D +T GLLL+ R Sbjct: 152 ASFDANDPEVGLVHRIDKDTSGLLLIAKTPEAKTKLGKQFFNKTTHRSYIALVWGNFVED 211 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 R G + +D + L+ + + + + G + L G+ +I+ Sbjct: 212 EGRIEGNIARDPKDRLRMTVFPPDSEIGKHAVTHYKVIERFGYTTLIECILETGRTHQIR 271 Query: 203 KVFEFFNWK 211 ++ Sbjct: 272 AHMKYIGHP 280 >gi|262282338|ref|ZP_06060106.1| pseudouridine synthase [Streptococcus sp. 2_1_36FAA] gi|262261629|gb|EEY80327.1| pseudouridine synthase [Streptococcus sp. 2_1_36FAA] Length = 296 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 33/232 (14%), Positives = 64/232 (27%), Gaps = 35/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--------- 65 R+ K +A SR I ++ VNG L+++A V D I + Sbjct: 11 RLDKAVADLTDLSRSLANEQIKTGKILVNG-LVKKAKYTVKEGDVISYELPEVEEVEYVP 69 Query: 66 -----PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V + I G L Sbjct: 70 EDIPLEIVYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHIKDLSGINGVLRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST----------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + G L + + LR Y HG + D+ + + Sbjct: 130 RIDKDTSGLLMIAKNDQAHVALADELKDKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKD 189 Query: 171 CYGDM----------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + G + V + L G+ +I+ + V Sbjct: 190 RKKQAVTAKGKSALTRFQVLERFGDYSLVELQLETGRTHQIRVHMAYIGHPV 241 >gi|256829592|ref|YP_003158320.1| RluA family pseudouridine synthase [Desulfomicrobium baculatum DSM 4028] gi|256578768|gb|ACU89904.1| pseudouridine synthase, RluA family [Desulfomicrobium baculatum DSM 4028] Length = 526 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 64/239 (26%), Gaps = 39/239 (16%) Query: 13 PQRVSKV----IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 QR+ + G+ R V+ I R ++NG + +AA +M + + Sbjct: 14 GQRLDVFWQTCLEEEGVG-RSRVQAWIKDGRARINGQVCSKAATRLMPGQTLTLAPEYTD 72 Query: 63 ------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 DG L + +K + + T+ + F ++S Sbjct: 73 SSVVPDDGPLNVFFADEDLVVVNKTPAMTVHPAPSVAEPTLVHRVAHHFPALLSQSGERP 132 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------------D 156 L G + L + L + Sbjct: 133 GIVHRLDKDTSGLIVLALSESARLSLTQAFASREVYKEYLALVAGVPDSSGTVSLALGRH 192 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + +V +G + + L S + V V + G+ +I+ + Sbjct: 193 PSIKTRMAVVERGGRAAETRFELLWSAADRSASLVRVRIMTGRTHQIRVHMAALGHPLL 251 >gi|183601729|ref|ZP_02963099.1| possible rRNA methyltransferase [Bifidobacterium animalis subsp. lactis HN019] gi|183219335|gb|EDT89976.1| possible rRNA methyltransferase [Bifidobacterium animalis subsp. lactis HN019] gi|289178509|gb|ADC85755.1| Putative cell adhesion protein (contact hemolysin TlyA-related) [Bifidobacterium animalis subsp. lactis BB-12] Length = 262 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 24/49 (48%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ V+A A SR + +R+I +V VNG + A V I V Sbjct: 14 ERLDVVVANATGESRSKAQRLIKTGKVHVNGHPQTKPAYAVQPESTISV 62 >gi|323702785|ref|ZP_08114445.1| hemolysin A [Desulfotomaculum nigrificans DSM 574] gi|323532302|gb|EGB22181.1| hemolysin A [Desulfotomaculum nigrificans DSM 574] Length = 268 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T +R+ + G S RE + V V+ +++ V H++V G PL Sbjct: 4 TKERLDVYLVNHGYFSSREKARAAVMAGLVFVDNRRVDKPGYPVKPDAHVQVQGDPLPY 62 >gi|125973425|ref|YP_001037335.1| ribosomal large subunit pseudouridine synthase D [Clostridium thermocellum ATCC 27405] gi|256004403|ref|ZP_05429384.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM 2360] gi|281417627|ref|ZP_06248647.1| pseudouridine synthase, RluA family [Clostridium thermocellum JW20] gi|125713650|gb|ABN52142.1| ribosomal large subunit pseudouridine synthase D [Clostridium thermocellum ATCC 27405] gi|255991687|gb|EEU01788.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM 2360] gi|281409029|gb|EFB39287.1| pseudouridine synthase, RluA family [Clostridium thermocellum JW20] gi|316940339|gb|ADU74373.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM 1313] Length = 303 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 75/245 (30%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 I+ N + R+ + + SR ++++I + VNG ++ + D I Sbjct: 5 ILVSNESGIRIDAWLCGKVKDYSRSYIQKLINDGMILVNGKPVKS-NYKIKQNDEILARI 63 Query: 61 ----EVD------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 +D VP+ + + + +V + + V L + + + Sbjct: 64 PEPQVLDVVAEDIDVPILYEDEHIIVVDKPKGMVVHPAAGNYSGTLVNALLKHCGTNLSN 123 Query: 111 VG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + + EGL D + RV +R + Sbjct: 124 INGIIRPGIVHRIDKDTSGVLVVAKSNAAHEGLSEKLKDHDIERVYIAVVHGIIREDYGK 183 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + ++ K + + + + + ++ L G+ +I+ + Sbjct: 184 IDAPIGRHPVDRKKMAVNTKNGRRAVTRFKVLERFKDATYIEATLETGRTHQIRVHMSYI 243 Query: 209 NWKVN 213 + + Sbjct: 244 GFPII 248 >gi|71891968|ref|YP_277698.1| pseudouridine synthase [Candidatus Blochmannia pennsylvanicus str. BPEN] gi|71796074|gb|AAZ40825.1| pseudouridine synthase [Candidatus Blochmannia pennsylvanicus str. BPEN] Length = 343 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 75/244 (30%), Gaps = 39/244 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN------VMSTD 58 IVQE+ + +R+ +++ SR +++ I ++V VN + + D Sbjct: 31 IVQESQSGKRLDCILSELLPNYSRSKIKCWILSKKVNVNNQTVIIPKKKMMGGEFIEIKD 90 Query: 59 HIEVDGVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +D + E + + +K +V + T+ + L + + Sbjct: 91 IVNIDNNNIVPQDIPLDIVYEDDDIVVINKAKNMVVHPGAGNHSGTILNALLYKYPAITE 150 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 V R L G + + + L + + + + L + +G Sbjct: 151 VFRSG--IVQRLDKDTTGLMVVAKNMIAYHSLLRLFKKRKIIREYEAVV-LGNFLHNEGT 207 Query: 171 CYGDMQVTLDTQK---------------------GSNAWVTVGLREGKNREIKKVFEFFN 209 ++ + G + V L G+ +I+ + N Sbjct: 208 INQPIRRHAVHRTRMTVNPMGKSAITHYSIIESFGMYTRIRVRLETGRTHQIRVHMAYIN 267 Query: 210 WKVN 213 + Sbjct: 268 HPLL 271 >gi|219683739|ref|YP_002470122.1| hemolysin-like protein [Bifidobacterium animalis subsp. lactis AD011] gi|219621389|gb|ACL29546.1| hemolysin-like protein with S4 domain found in bacteria and plants [Bifidobacterium animalis subsp. lactis AD011] Length = 259 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 24/49 (48%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ V+A A SR + +R+I +V VNG + A V I V Sbjct: 11 ERLDVVVANATGESRSKAQRLIKTGKVHVNGHPQTKPAYAVQPESTISV 59 >gi|227890010|ref|ZP_04007815.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] gi|227849454|gb|EEJ59540.1| pseudouridylate synthase [Lactobacillus johnsonii ATCC 33200] Length = 304 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 65/232 (28%), Gaps = 36/232 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 R+ KVIA SR +++ ++ + + VN E+ + V S D I+V P++ Sbjct: 15 RLDKVIAEKITDLSRTKIKELVNDKNILVNNK-AEKVSYKVQSGDVIDVTIPPVKPLSLE 73 Query: 69 ---------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + + + +V + + V L S Sbjct: 74 AENLHLDIVYEDSDVIVVNKPQGIVVHPSAGHPDHTLVNGLLYHTRDLADSPEGFRPGIV 133 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------------DKLN 159 + G L + + L + + N Sbjct: 134 HRIDKDTSGLLMIAKNDRARESLEKQLAEKINKREYLAIVHGNFEVKNGVINAPIGRNPN 193 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ V T+ Q + + V L G+ +I+ ++ Sbjct: 194 NRKQMAVNPKGKAAVTHFTVLEQFKNYSLVKCVLETGRTHQIRVHMKYIGHP 245 >gi|15603584|ref|NP_246658.1| 23S rRNA pseudouridine synthase D [Pasteurella multocida subsp. multocida str. Pm70] gi|20139708|sp|Q9CKA6|RLUD_PASMU RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|12722131|gb|AAK03803.1| SfB [Pasteurella multocida subsp. multocida str. Pm70] Length = 324 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 32/232 (13%), Positives = 62/232 (26%), Gaps = 31/232 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-----DGVP 66 QR+ + +A SR ++ I Q V VNG ++ V + IE+ D Sbjct: 16 GQRLDQALAELFPDYSRSRLKTWIEQNLVHVNGDVVNVPRAKVYGGEQIEIVVEIDDDTR 75 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVG 112 + + L + +V + + + L R V Sbjct: 76 FEPENLPLNIVYEDDDILVINKPKDFVVHPGAGNASGTVLNALLYHYPAIAEVPRAGIVH 135 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQDKLNLL 161 RLD +T GL+++ L + Q Sbjct: 136 RLDKDTTGLMVIAKTIPAQTKLVRDLQKRKITREYEAIACGIMTKGGMVDQPMARHPTKR 195 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + Sbjct: 196 THMAVHPMGKPAVTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|153948512|ref|YP_001402171.1| 23S rRNA pseudouridine synthase D [Yersinia pseudotuberculosis IP 31758] gi|152960007|gb|ABS47468.1| ribosomal large subunit pseudouridine synthase D [Yersinia pseudotuberculosis IP 31758] Length = 327 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 66/243 (27%), Gaps = 37/243 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV VNG + + V+ + + +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKEWILDSRVTVNGKKINKPKEKVLGGELVAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L + Sbjct: 70 QIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLHYYPEIMDV 129 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 V RLD +T GL+++ L + + + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQAREITREYEAVAIGNMTAGGRVDEP- 188 Query: 166 VIQGICYGDMQVTLD-TQKGSNAWVTVGLR--------------EGKNREIKKVFEFFNW 210 I + + K + + G+ +I+ N Sbjct: 189 -ISRHSTKRTHMAVHPMGKPATTHYRIMEHFRAHTRLRLRLRLETGRTHQIRVHMSHINH 247 Query: 211 KVN 213 + Sbjct: 248 PLV 250 >gi|317478569|ref|ZP_07937726.1| RluA family pseudouridine synthase [Bacteroides sp. 4_1_36] gi|316905210|gb|EFV27007.1| RluA family pseudouridine synthase [Bacteroides sp. 4_1_36] Length = 356 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 71/244 (29%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + R +SR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQEMMRVDKYLFDRLTNSSRNRIQKAADAGFVMANGKAVKS-SYKVKPMDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYENEVIPEDIPLDIVYEDKYLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDNPD 151 Query: 111 VGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--- 157 D + T GLL++ L R R + ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGNQFFNKTTKRRYRALVWGNVEQDEG 211 Query: 158 ----------LNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 212 TVVGNIGRNPRDRMQMTVLPDDQGKHAVTHYRVLKRLGYVTLVECILETGRTHQIRVHMK 271 Query: 207 FFNW 210 Sbjct: 272 HIGH 275 >gi|260598975|ref|YP_003211546.1| 23S rRNA pseudouridine synthase D [Cronobacter turicensis z3032] gi|260218152|emb|CBA32977.1| Ribosomal large subunit pseudouridine synthase D [Cronobacter turicensis z3032] Length = 328 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 62/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I QRV VN + + V+ + + ++ Sbjct: 12 TVSESQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNDQMCDTPKEKVLGGERVAINA 71 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-- 108 + + L + +V + + + L V Sbjct: 72 EIEEEARFEPQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIVDV 131 Query: 109 ---ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 V RLD +T GL+++ L Sbjct: 132 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVEALQLREITREYEAVAIGHMTAGGTVSEPI 191 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 192 SRHPTKRTHMSVHPMGKPAVTHYRIMEHFRIHTRLRLRLETGRTHQIRVHMAHITHPLV 250 >gi|241190773|ref|YP_002968167.1| hemolysin-like protein [Bifidobacterium animalis subsp. lactis Bl-04] gi|241196179|ref|YP_002969734.1| hemolysin-like protein [Bifidobacterium animalis subsp. lactis DSM 10140] gi|240249165|gb|ACS46105.1| hemolysin-like protein [Bifidobacterium animalis subsp. lactis Bl-04] gi|240250733|gb|ACS47672.1| hemolysin-like protein [Bifidobacterium animalis subsp. lactis DSM 10140] gi|295793762|gb|ADG33297.1| hemolysin-like protein [Bifidobacterium animalis subsp. lactis V9] Length = 252 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 24/49 (48%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ V+A A SR + +R+I +V VNG + A V I V Sbjct: 4 ERLDVVVANATGESRSKAQRLIKTGKVHVNGHPQTKPAYAVQPESTISV 52 >gi|239618296|ref|YP_002941618.1| pseudouridine synthase, RluA family [Kosmotoga olearia TBF 19.5.1] gi|239507127|gb|ACR80614.1| pseudouridine synthase, RluA family [Kosmotoga olearia TBF 19.5.1] Length = 311 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 34/273 (12%), Positives = 75/273 (27%), Gaps = 41/273 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M ++ IV R+ K ++ SR ++R I V VNG ++A+ V S D Sbjct: 1 MPEEQIVTNREDGWRLDKFLSEKAPQWVSRTAIQRHIKDGGVLVNGEK-KKASYRVKSGD 59 Query: 59 HI-----------EVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 + V+ + + + + P +V + + V L Sbjct: 60 IVTYTFPEKVEPGTVEPENIPLNIIYEDHDIIVVNKPPDMIVHPVHNKTSGTLVNALLNY 119 Query: 104 IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------DK 157 G + L G + + L + Sbjct: 120 CNDLQGIGGIMRPGIVHRLDKETSGVIVVAKNDRAHNSLVQQFKARTTEKYYLAIARGKT 179 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR--------------EGKNREIKK 203 + + +++T+ + + + G+ +I+ Sbjct: 180 PLQGEINFSLARHPVNRLKMTVSATGKESHTLFKTITYFGNIASLVLAKPKTGRTHQIRV 239 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 F+ + YG ++ G+ R + Sbjct: 240 HFKEIGHPLLGDK--LYGR-HKDDIILGAERHM 269 >gi|188996912|ref|YP_001931163.1| pseudouridine synthase [Sulfurihydrogenibium sp. YO3AOP1] gi|188931979|gb|ACD66609.1| pseudouridine synthase [Sulfurihydrogenibium sp. YO3AOP1] Length = 270 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 27/200 (13%), Positives = 60/200 (30%), Gaps = 9/200 (4%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR-----KAERT 73 IA + S+ + + +I + V VN + A+ N+ D +E+ L+ E Sbjct: 16 FIAESLKISKNQAKDIIDSRNVIVNNKRVWIASHNLKPGDVVEIVQSELKNDLKILYEDD 75 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + KP +V+ + L + + I +LL Sbjct: 76 YIIAIDKPPTIVSDKESSSAEDILRKKLKNDKIKAIH---RLDKETSGVLLFAKDYKIFE 132 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + V ++ ++ I G + + + + V + Sbjct: 133 KFKEIWEDKNVLKIYLAISHNEANFKDFTINQDIDGKQA-ITHLKVLNKGNGFTYFQVRI 191 Query: 194 REGKNREIKKVFEFFNWKVN 213 G+ +I+K + Sbjct: 192 ETGRKHQIRKHLASIRHPIV 211 >gi|119470041|ref|ZP_01612846.1| 23S rRNA pseudouridine synthase [Alteromonadales bacterium TW-7] gi|119446751|gb|EAW28024.1| 23S rRNA pseudouridine synthase [Alteromonadales bacterium TW-7] Length = 325 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 26/233 (11%), Positives = 68/233 (29%), Gaps = 32/233 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 +R+ +V+A+ SR ++ I ++ V+G +L ++ + + V+ Sbjct: 17 GKRLDQVLAQLFPDYSRSRIKTWILDDKITVDGEILNTPRTKLLGGEVLNVETTIEAPRE 76 Query: 64 ------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 + + + L + +V + + + L + Sbjct: 77 YLAQNIDLNIVYEDDHILVINKPMGLVVHPGAGNPDGTVLNALLHHYPDIINVPRAGIVH 136 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------KLNL 160 RLD +T GL+++ L + R Sbjct: 137 RLDKDTTGLMVVAKTIQAQTHLVKALQKRENFTREYEALCNGTMTAGGMVEKPIGRHATQ 196 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + ++ + + L G+ +I+ + N + Sbjct: 197 RTHMAVHEMGKPAITHYRVAEKFRAHTRLRLRLETGRTHQIRVHMAYLNHPLI 249 >gi|294660309|ref|NP_852991.2| pseudouridine synthase [Mycoplasma gallisepticum str. R(low)] gi|284811965|gb|AAP56559.2| Pseudouridine synthase [Mycoplasma gallisepticum str. R(low)] gi|284930466|gb|ADC30405.1| Pseudouridine synthase [Mycoplasma gallisepticum str. R(high)] Length = 311 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 72/246 (29%), Gaps = 33/246 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M V + R+ + SR + +I VKVN L+ + + D + Sbjct: 1 MPKHTFVNNDSEKIRLDIFLTYNLNLSRNKTSFLILNDLVKVNKKLVNKNNFVLKVGDVV 60 Query: 61 EVDGVP------------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 E++ + + + + L + + + + + Sbjct: 61 ELEYEESIFNKVSNEILPFNKKLDIVYEDDDLIIVNKPTNMLSHPTTHNEPDTLLNCLMY 120 Query: 103 SIFSRV-ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + RLD +T GL++ T + ++ T+ + ++L + Sbjct: 121 HNKKQKVYLAHRLDKDTTGLIVATKNFKALEKIQEQITKRIMKRYYLAIVHYPFNELRAV 180 Query: 162 KK--GIVIQGICYGD------------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 ++ ++ + Q A + L G+ +I+ +F Sbjct: 181 IDAPIGYLKDHDLKFGVENTKNPKNAITKIYVLDQNKKYALIKCELLTGRTHQIRVHMDF 240 Query: 208 FNWKVN 213 + Sbjct: 241 IKHNII 246 >gi|160933118|ref|ZP_02080507.1| hypothetical protein CLOLEP_01961 [Clostridium leptum DSM 753] gi|156868192|gb|EDO61564.1| hypothetical protein CLOLEP_01961 [Clostridium leptum DSM 753] Length = 306 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 76/244 (31%), Gaps = 38/244 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 ++ E R+ KV+A +R ++R++ +++V +NG + + D + + Sbjct: 8 VLSEREEGIRLDKVLAERLPDLTRTAIQRLLEEEQVLINGKPAAK-NRKGRAGDSVALRI 66 Query: 63 -DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 D P + + L + +V + V L + Sbjct: 67 PDPEPLCLQAENVPLDIVYEDDDLLVVNKPQGMVVHPAPGNYQGTLVNALLAHCGNSLSG 126 Query: 107 -----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------------VR 148 R V R+D +T GLL++ + + L + Sbjct: 127 INGVIRPGIVHRIDKDTSGLLMVAKNDFAHQGLARQIKEHSFRREYEAVVAGRMKQESGV 186 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + ++ K + + + + + + L G+ +I+ + Sbjct: 187 VNAPIGRHPIDRKKMAVTEKNSKEAVTYFRVIAEYPGYTHIRLRLETGRTHQIRVHMAYL 246 Query: 209 NWKV 212 V Sbjct: 247 GHPV 250 >gi|160885528|ref|ZP_02066531.1| hypothetical protein BACOVA_03528 [Bacteroides ovatus ATCC 8483] gi|260172152|ref|ZP_05758564.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D2] gi|293371714|ref|ZP_06618125.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CMC 3f] gi|299147380|ref|ZP_07040445.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_1_23] gi|315920461|ref|ZP_07916701.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D2] gi|156109150|gb|EDO10895.1| hypothetical protein BACOVA_03528 [Bacteroides ovatus ATCC 8483] gi|292633411|gb|EFF51981.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CMC 3f] gi|298514658|gb|EFI38542.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_1_23] gi|313694336|gb|EFS31171.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D2] Length = 357 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 63/245 (25%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEDGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLRKA-------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + + E L + +KP GLV + T+ + L + Sbjct: 92 DRPRYENEIIPENIPLTIVYEDPYLMVVNKPAGLVVHPGHGNYHGTLVNALAWHMKDIPD 151 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D + G+ + Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGIQFFNKTTKRKYRALVWGVMEQDEG 211 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 212 TIVGNIARNPRDRMQMAVMSDPTVGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|206901656|ref|YP_002250670.1| RNA-binding protein, putative [Dictyoglomus thermophilum H-6-12] gi|206740759|gb|ACI19817.1| RNA-binding protein, putative [Dictyoglomus thermophilum H-6-12] Length = 259 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 27/60 (45%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +++ + +R+ V + A SR +++ I V VNG + A + D + V G Sbjct: 173 RVIRTTESSKRLDSVGSAALGISRSKMQSYIKAGVVTVNGKKVYDAHYELEEGDIVIVQG 232 >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 = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R++K+I+ AG+ SRRE E+ I + RVK+NG + V D + +D + + + R Sbjct: 4 RINKLISDAGLGSRREAEKYITEGRVKINGRIAR-LTDLVCEKDIVLLDDIDIPIKDLIR 62 Query: 75 L 75 Sbjct: 63 E 63 >gi|237809510|ref|YP_002893950.1| pseudouridine synthase, RluA family [Tolumonas auensis DSM 9187] gi|237501771|gb|ACQ94364.1| pseudouridine synthase, RluA family [Tolumonas auensis DSM 9187] Length = 326 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 34/295 (11%), Positives = 81/295 (27%), Gaps = 39/295 (13%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 ++ + +R+ +V+A SR ++ I +V+++G + VM +E+ Sbjct: 10 TIEPHHEGKRLDQVLADLFTDYSRTRLKEWILGGKVQLDGKVCLLPKEKVMGGQQVEIAT 69 Query: 63 ---DGVPLRKAERTRLWLY---------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + + +Y +V + + + L Sbjct: 70 ELEDDTRWQAQDLPLNIVYEDEHLLVIDKPAGLVVHPGAGTPDGTVLNALLHRYPDIAEV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY---------RVRFHGQVDQD 156 RLD T GL+++ L + + Sbjct: 130 PRAGIVHRLDKETTGLMVVAKTIPAQIRLVYALQKRRITREYEAIVVGHMTAGGTVDEPI 189 Query: 157 KLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN- 213 + ++ ++ + + ++ + L G+ +I+ N + Sbjct: 190 SRHSTQRTMMAVNPMGKPAITHYRVAERFRAHTRLRCRLETGRTHQIRVHMAHINHALVG 249 Query: 214 ------RLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPI 261 RL I +L L + + +LR E + Sbjct: 250 DPVYGGRLRPIRNASVELSDFLRTFRRQALHATMLRLTHPITGEEMEWHSPIPDD 304 >gi|295100789|emb|CBK98334.1| ribosomal large subunit pseudouridine synthase D [Faecalibacterium prausnitzii L2-6] Length = 310 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 35/255 (13%), Positives = 74/255 (29%), Gaps = 46/255 (18%) Query: 1 MKDKN-IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMS 56 M+ + IV+ QR+ + ++ G+ SR ++ ++A+ V NG + + + + Sbjct: 1 MEQREFIVEAEAAGQRIDRFLSGEDTGL-SRSALQGLVAEGHVLCNGKSIAKSL--KLKA 57 Query: 57 TDHIEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 D I + D P+ + L + +V + V L Sbjct: 58 GDTILLEIPDAKPIEAVPQDIPLDIVYEDDHLLVVNKPKGMVVHPAPGNPDGTLVNALLW 117 Query: 103 SIF---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R V R+D +T GLL++ D L + Sbjct: 118 HCKGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGLSQQMAVHSVERAYQTVVYG 177 Query: 154 DQDKLNLLKKGIVIQGICYG------DMQ----------VTLDTQKGSNAWVTVGLREGK 197 + + + + + + G + L+ G+ Sbjct: 178 GFAQDEGFVEANLGRSKTDRKKMAVYPASEPHTKYAYTGYKVLERFGGFTLLECRLKTGR 237 Query: 198 NREIKKVFEFFNWKV 212 +I+ V Sbjct: 238 THQIRVHMASIQHPV 252 >gi|260593408|ref|ZP_05858866.1| ribosomal large subunit pseudouridine synthase D [Prevotella veroralis F0319] gi|260534684|gb|EEX17301.1| ribosomal large subunit pseudouridine synthase D [Prevotella veroralis F0319] Length = 366 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 31/246 (12%), Positives = 67/246 (27%), Gaps = 42/246 (17%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + P R+ K + R +SR +++ + VNG ++ V D I + Sbjct: 39 VDKGQVPVRIDKFLFERMQHSSRNRIQKAADAGFIHVNGAPVKS-NYKVRPEDTITLMLD 97 Query: 63 ----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + + + + +V + + + + Sbjct: 98 RPKHDNTIEAEDIPLDIVYEDNALMVVNKPAGLVVHPGAGNFHGTLINAIAWHLKDLPSF 157 Query: 111 V---------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRVR 148 R+D +T GLL++ R L R Sbjct: 158 DPNDPEVGLVHRIDKDTSGLLVIAKTPDAKTILGKQFFNKTTHRSYNALVWGNLTADEGR 217 Query: 149 FHGQVDQDKLNLLKKGIVIQG-ICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G + +D + L+ + + + G + L G+ +I+ Sbjct: 218 IEGNIARDPKDRLRMTVFPPDSEIGKPAVTHYRVLERFGYTTLIECVLETGRTHQIRAHM 277 Query: 206 EFFNWK 211 + Sbjct: 278 KHIGHP 283 >gi|333029726|ref|ZP_08457787.1| pseudouridine synthase, RluA family [Bacteroides coprosuis DSM 18011] gi|332740323|gb|EGJ70805.1| pseudouridine synthase, RluA family [Bacteroides coprosuis DSM 18011] Length = 355 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 68/247 (27%), Gaps = 41/247 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + IV + + R+ K + ASR +V++ VKVNG ++ V + I + Sbjct: 30 RIIVDKGQSLVRIDKFLCDRIENASRNQVQKAAEAGFVKVNGNPVKS-NYKVKPLEEITI 88 Query: 63 -------------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + +PL E L + +KP GLV + R T+ + + Sbjct: 89 YMDTPPHEIEIIPEDIPLNIVYEDDYLMVVNKPAGLVVHPGHGNYRGTLVNAIAWHMKNN 148 Query: 109 ISVGRLDINTE-------------------------GLLLLTNDGGLARVLELPSTQWLR 143 D G+ + Sbjct: 149 SCYDANDPRVGLVHRIDKDTSGLLVIAKTPEAKSKLGIQFFNKTTKREYRALVWGNIEEE 208 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 R+ + + + + + + + G V L G+ +I+ Sbjct: 209 EGRIEGNIARNPKDRLQMAVFADPEIGKHAVTHYKVLERLGYVTLVACRLETGRTHQIRV 268 Query: 204 VFEFFNW 210 + Sbjct: 269 HMKHIGH 275 >gi|313202664|ref|YP_004041321.1| pseudouridine synthase, rlua family [Paludibacter propionicigenes WB4] gi|312441980|gb|ADQ78336.1| pseudouridine synthase, RluA family [Paludibacter propionicigenes WB4] Length = 299 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 31/225 (13%), Positives = 76/225 (33%), Gaps = 30/225 (13%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----------VPLR 68 ++++ G SR V+ ++A ++V VN + + + + D + ++ Sbjct: 27 LLSKMGGMSRNSVKSLLAHRQVMVNNKITTQFNLALQPEDLVVINNGRGNIELNHPKLKI 86 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------FSRVISVGRLDINTEGLL 122 E L + K GL+T + +T F L + +R+ V RLD T G++ Sbjct: 87 IFEDEYLIVVEKKEGLLTVSTGNPDETTAFSILKNHVKKSSPDNRIYVVHRLDRETSGVI 146 Query: 123 LLTNDGGLARVLELPST--------------QWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + + + +L+ + + ++ +K + Sbjct: 147 MFAKNKEVQTILQENWHRIITRRIYVALVEGKVEKEQDTIVSWLLENEKSLKIHSSATDN 206 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 G + + + + L G+ +I+ + + Sbjct: 207 GGQQAVTHYRCVRSNDNYSLLEIELETGRKNQIRVHMQDIGHPIV 251 >gi|310659174|ref|YP_003936895.1| ribosomal large subunit pseudouridine synthase, rlud subfamily [Clostridium sticklandii DSM 519] gi|308825952|emb|CBH21990.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Clostridium sticklandii] Length = 306 Score = 58.3 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 41/248 (16%), Positives = 79/248 (31%), Gaps = 37/248 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K IV E R+ I+ A SR ++ +I ++V VN + + + V D+I Sbjct: 5 KKYFIVDEEEEDLRLDVFISSALSDLSRTYIQSLIKDKKVTVNDKIEKS-SYKVAQLDNI 63 Query: 61 EV------------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + + +P+ E L + +K G+V + T+ + L F Sbjct: 64 CILIPPAKELVIEAEDIPIEILYEDEDLAVVYKERGMVVHPGAGNANHTLVNALMYHFKG 123 Query: 108 VISV----------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD- 156 +S R+D +T GLL++ R L + F + Sbjct: 124 QLSSINGIIRPGIVHRIDKDTSGLLMIAKSDIAHRGLSEQLKEHTVQRTYTFICHGNIKA 183 Query: 157 -----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K V+ + +T + ++ L G+ +I+ Sbjct: 184 DEFTIDAPIGRNPRDRMKMAVVSDGKHAVTHITKIKSNENYSYAMANLETGRTHQIRVHM 243 Query: 206 EFFNWKVN 213 + Sbjct: 244 ASKGLPLV 251 >gi|284931618|gb|ADC31556.1| Pseudouridine synthase [Mycoplasma gallisepticum str. F] Length = 311 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 72/246 (29%), Gaps = 33/246 (13%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M V + R+ + SR + +I VKVN L+ + + D + Sbjct: 1 MPKHTFVNNDSEKIRLDIFLTYNLNLSRNKTSFLILNDLVKVNKKLVNKNNFVLKVGDVV 60 Query: 61 EVDGVP------------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 E++ + + + + L + + + + + Sbjct: 61 ELEYEESIFNKVSNEILPFNKKLDIVYEDDDLIIVNKPTNMLSHPTTHNEPDTLLNCLMY 120 Query: 103 SIFSRV-ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + RLD +T GL++ T + ++ T+ + ++L + Sbjct: 121 YNKKQKVYLAHRLDKDTTGLIVATKNFKSLEKIQEQITKRIMKRYYLAIVHYPFNELRAV 180 Query: 162 KK--GIVIQGICYGD------------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 ++ ++ + Q A + L G+ +I+ +F Sbjct: 181 IDAPIGYLKDHDLKFGVENTKNPKNAITKIYVLDQNKKYALIKCELLTGRTHQIRVHMDF 240 Query: 208 FNWKVN 213 + Sbjct: 241 IKHNII 246 >gi|288934030|ref|YP_003438089.1| pseudouridine synthase [Klebsiella variicola At-22] gi|288888759|gb|ADC57077.1| pseudouridine synthase, RluA family [Klebsiella variicola At-22] Length = 326 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 63/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ +HI +D Sbjct: 10 TVTENQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNGSIGDKPKEKVLGGEHIAIDV 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIEEEARFQPQDIPLNIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTIPAQTRLVESLQLREITREYEAVAIGHMTSGGTVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRIHTRLRLRLETGRTHQIRVHMSHITHPLV 248 >gi|256847299|ref|ZP_05552745.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus coleohominis 101-4-CHN] gi|256715963|gb|EEU30938.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus coleohominis 101-4-CHN] Length = 308 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 28/235 (11%), Positives = 65/235 (27%), Gaps = 35/235 (14%) Query: 11 FTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K +A SR ++++ I V VN ++ ++ + D ++V Sbjct: 13 QETGRIDKQLATLLSDVSRSQIKKWIEDGNVTVNKQSVK-PKYHLQAGDIVQVIPEQPQK 71 Query: 63 -DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 D P + + L + +V + + V L I+ Sbjct: 72 IDLEPENIPLEIVYEDDDVLVVNKPQGMVVHPSAGHPNHTLVNALLYHCPLSHINGEYRP 131 Query: 116 INTEGL--------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK----- 162 + ++ ND + + + V V ++ + Sbjct: 132 GIVHRIDKDTSGLLMVAKNDRAHRSLAAQLKAKTNQREYVALVHGVIKEDQGTIDAPLGR 191 Query: 163 ------KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K V+ + + V L G+ +I+ ++ Sbjct: 192 SPKDRKKQAVVADGRPAVTHFRVLKRYLHYTLVACKLETGRTHQIRVHMKYIGHP 246 >gi|251780386|ref|ZP_04823306.1| S4 domain protein YaaA [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243084701|gb|EES50591.1| S4 domain protein YaaA [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 72 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K+ N ++ N ++ + +GIAS E + I + +KVNG + + + + D I Sbjct: 3 KNMNKIEINTEIIKLDAFLKWSGIASLGSEAKIYIQEGLIKVNGEICLQRGKKLKAGDII 62 Query: 61 EVDGVP 66 E + Sbjct: 63 EFEDEK 68 >gi|153808958|ref|ZP_01961626.1| hypothetical protein BACCAC_03259 [Bacteroides caccae ATCC 43185] gi|149128291|gb|EDM19510.1| hypothetical protein BACCAC_03259 [Bacteroides caccae ATCC 43185] Length = 357 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 66/245 (26%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEDGFVMANGKPVKS-SYKVKPLDVITVVM 91 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 + + ++ + + +V + V + Sbjct: 92 DRPRYENEIIPEDIPLNIVYEDKYVMVVNKPAGLVVHPGHGNYHGTLVNALAWHMKDVPD 151 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--- 157 V V R+D +T GLL++ L L + R ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFFNKTTKRKYRALVWGTVEQDEG 211 Query: 158 ------------LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + G V L G+ +I+ Sbjct: 212 TIVGNIARNPKDRMQMAVMSDPAVGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|224024580|ref|ZP_03642946.1| hypothetical protein BACCOPRO_01306 [Bacteroides coprophilus DSM 18228] gi|224017802|gb|EEF75814.1| hypothetical protein BACCOPRO_01306 [Bacteroides coprophilus DSM 18228] Length = 354 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 65/245 (26%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + +P R+ K + + ASR ++ V NG ++ + V D + V Sbjct: 32 VVDKGQSPVRIDKYLFERIVNASRNRIQTAADAGFVMANGKPVKS-SYKVKPQDVLTVMM 90 Query: 63 -----------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +PL E L + +KP GLV + T+ + + V + Sbjct: 91 DRPRYENDIIPEDIPLDVVYEDEDLMVINKPAGLVVHPGCGNYHGTLVNAIAWHLRDVPT 150 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D GL + Sbjct: 151 YNPNDPQVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFYNKTTKREYNALVWGIVEEDEG 210 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 211 TITGNIGRNPRDRMQMAVISDPTQGKHAVTHYQVLERLGYVTLVKCVLETGRTHQIRVHM 270 Query: 206 EFFNW 210 + Sbjct: 271 KHIGH 275 >gi|330751985|emb|CBL80498.1| protein with similarity to pseudouridine synthase [uncultured Polaribacter sp.] Length = 105 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 15/104 (14%), Positives = 34/104 (32%) Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYS 263 + E+ +++V +L R +LG L +G RE+++ ++E Sbjct: 1 MCEYLDYEVTKLKRTRIMNVELGYLQSGDWRELTEDEMKEINNMISSSSKTEEASVVEEK 60 Query: 264 SETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 S+ R ++ + S ++ R Sbjct: 61 SKQAKPKRSKAPTKNDFNKKSASFRKSSPKSKRSNSSFSSKKKR 104 >gi|260775124|ref|ZP_05884022.1| ribosomal large subunit pseudouridine synthase D [Vibrio coralliilyticus ATCC BAA-450] gi|260608825|gb|EEX34987.1| ribosomal large subunit pseudouridine synthase D [Vibrio coralliilyticus ATCC BAA-450] Length = 325 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 28/240 (11%), Positives = 68/240 (28%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + V+++ QR+ + IA SR ++ + +V+VNG ++ + VM + I + Sbjct: 9 HTVKDSQLGQRLDQAIAELFADFSRSRLKEWLVDGKVQVNGEVITKPRTKVMGGEIITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDIMVINKPRDFVVHPGAGTPDGTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + +++ Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGRVEQP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVSPMGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPLL 248 >gi|218961736|ref|YP_001741511.1| Pseudouridylate synthase, 23S RNA-specific [Candidatus Cloacamonas acidaminovorans] gi|167730393|emb|CAO81305.1| Pseudouridylate synthase, 23S RNA-specific [Candidatus Cloacamonas acidaminovorans] Length = 351 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 47/275 (17%), Positives = 83/275 (30%), Gaps = 52/275 (18%) Query: 1 MKDK-NIVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MKDK ++ QR+ K +A I SR +E +I + R+ VN +++ + + Sbjct: 8 MKDKLKVIYTLQEMQRLDKFLAELKIQELYSRTFIEHLIEEDRILVNLTPVKK-SYLLKE 66 Query: 57 TDHIEVD------------GVPLRKAERTRLWLY--HKPIGLVTTHSDPDGRSTVFDNLP 102 D + ++ +PL K +V + V L Sbjct: 67 GDEVIINLPEPEPMNVLPQDIPLDVVYEDEYLAIINKKAGMIVHPGFGNPEGTLVNAILY 126 Query: 103 SI---------FSRVISVGRLDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRF 149 F+R V RLD T GL+++ + + + Sbjct: 127 RFGENLSSGKEFNRPGIVHRLDRGTSGLIIIAKNDLTHAKLSDMFARREIKKTYFAITTG 186 Query: 150 HGQV---DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE-----GKNREI 201 + + + + + L K W L E G+ +I Sbjct: 187 IPEPEKGEIETYLARSNKNPRTICVTNEGRYALTHYKTIKTWHYFALVEINPATGRMHQI 246 Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + F + + LG LL S R V Sbjct: 247 RVHFAHIRYPI------------LGDLLYNSRRYV 269 >gi|254974743|ref|ZP_05271215.1| putative RNA methyltransferase [Clostridium difficile QCD-66c26] gi|255092132|ref|ZP_05321610.1| putative RNA methyltransferase [Clostridium difficile CIP 107932] gi|255313869|ref|ZP_05355452.1| putative RNA methyltransferase [Clostridium difficile QCD-76w55] gi|255516550|ref|ZP_05384226.1| putative RNA methyltransferase [Clostridium difficile QCD-97b34] gi|255649650|ref|ZP_05396552.1| putative RNA methyltransferase [Clostridium difficile QCD-37x79] gi|260682814|ref|YP_003214099.1| putative RNA methyltransferase [Clostridium difficile CD196] gi|260686412|ref|YP_003217545.1| putative RNA methyltransferase [Clostridium difficile R20291] gi|306519766|ref|ZP_07406113.1| putative RNA methyltransferase [Clostridium difficile QCD-32g58] gi|260208977|emb|CBA62031.1| putative RNA methyltransferase [Clostridium difficile CD196] gi|260212428|emb|CBE03297.1| putative RNA methyltransferase [Clostridium difficile R20291] Length = 270 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 22/177 (12%), Positives = 47/177 (26%), Gaps = 2/177 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G SR ++ I V V+ ++A V IEV G P+ R Sbjct: 4 RIDLLLVEQGYFESRERAKKAIMAGLVFVDNQRCDKAGTEVKEDCSIEVKGNPIPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T ++ G + + + + L + Sbjct: 64 GLKLEKAMKNFDLTIDGKVCMDIGAST-GGFTDCMLKNGAIKVFSIDVGYGQLAWKLRQD 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V + + + + + A + Sbjct: 123 DRVVCMERTNIRNVTIEYTKQFADFASIDVSFISLKLVLPKAKELVRHDGEVVALIK 179 >gi|305664420|ref|YP_003860707.1| ribosomal large subunit pseudouridine synthase D [Maribacter sp. HTCC2170] gi|88708437|gb|EAR00673.1| ribosomal large subunit pseudouridine synthase D [Maribacter sp. HTCC2170] Length = 341 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 32/246 (13%), Positives = 75/246 (30%), Gaps = 39/246 (15%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I + P RV K + A+R ++++ + VN ++++ V + D ++V Sbjct: 19 KFIASKGQEPLRVDKFLMNFIENATRNKIQQAAKDGHIWVNEKIVKQ-NYKVKAGDEVKV 77 Query: 63 DGVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + + L + +V + + L Sbjct: 78 LFEHPPYELLLTPENIPLDIVYEDDVLLVVNKPAGMVVHPGHGNYTGTLINALLYHSKDL 137 Query: 108 VISV-------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRV 147 ++ R+D +T GLL++ L + Sbjct: 138 PVNSNDRPGLVHRIDKDTSGLLVVAKTEAAMTHLAKQFFDKTSEREYVALVWGNVEDESG 197 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G + ++ N L+ + +G + + + G V+ L G+ +I+ Sbjct: 198 TIEGNIARNPKNRLQMQVFPEGEQGKEAVTHYGVLERLGYVTLVSCKLETGRTHQIRVHM 257 Query: 206 EFFNWK 211 ++ Sbjct: 258 KYIGHT 263 >gi|295109999|emb|CBL23952.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus obeum A2-162] Length = 304 Score = 57.9 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 28/244 (11%), Positives = 70/244 (28%), Gaps = 38/244 (15%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ + +A + SR +++++ +++V VNG +++ A S D+IE Sbjct: 8 VDASANNIRIDRYLADQCPEHSRSYIQKLLKEEQVLVNGRVIK-ANYKTQSGDYIEFHIP 66 Query: 63 DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D + + L + +V + + V + + + Sbjct: 67 DPEVPDILPENIPLDILYEDDYVLVVNKPKDMVVHPSAGHTSGTLVNAVMAHCGEHLSGI 126 Query: 112 GRLDIN----------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + L + + R L+ Sbjct: 127 NGVLRPGIVHRIDKDTTGALLICKDDVVHRDLAEQLKEHSIKRRYRAVVQGNLKEDEGTV 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + V + + K I + + + G ++ L G+ +I+ Sbjct: 187 NAPVGRHPTDRKKMAINHKNGKEAITHYKVLERFGQATYIECRLETGRTHQIRVHMASLG 246 Query: 210 WKVN 213 + Sbjct: 247 HPLL 250 >gi|168334458|ref|ZP_02692629.1| putative pseudouridylate synthase [Epulopiscium sp. 'N.t. morphotype B'] Length = 304 Score = 57.9 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 37/251 (14%), Positives = 75/251 (29%), Gaps = 40/251 (15%) Query: 1 MKDKNIVQ-ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAA-VNVMST 57 M DK ++ N RV K + +R +++ I + +NG + A + + Sbjct: 1 MNDKLLLTINNIADIRVDKFLTEQLPQYTRSYIQKQIELGLLLINGKVA--PARTRIKTG 58 Query: 58 DHIE--------VDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 D IE VD P + + L + +V + + V L Sbjct: 59 DTIEFTIAPPREVDITPSEIKLDIIYEDSDILIVNKPKNMVVHPSAGHYNDTLVNALLFY 118 Query: 104 IFS---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY--------- 145 R V R+D +T GLL++ + L Sbjct: 119 AKDSLSGINGEIRPGIVHRIDKDTTGLLMVAKNDHSHVFLSDLLKDHNIERKYNALVYGN 178 Query: 146 ---RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + KK +++ + + + G+ + + L+ G+ +I+ Sbjct: 179 IKEDFFTIDRPIARNPKDRKKMAIVENGRRAVTECRVLERFGNATHIELSLQTGRTHQIR 238 Query: 203 KVFEFFNWKVN 213 + Sbjct: 239 VHLTSIGHPLL 249 >gi|224536385|ref|ZP_03676924.1| hypothetical protein BACCELL_01259 [Bacteroides cellulosilyticus DSM 14838] gi|224521998|gb|EEF91103.1| hypothetical protein BACCELL_01259 [Bacteroides cellulosilyticus DSM 14838] Length = 357 Score = 57.9 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 66/244 (27%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V RV K + R ASR +++ V N ++ + V D I + Sbjct: 34 VVDRGQEMMRVDKYLFDRLTNASRNRIQKSAEAGFVMANNKPVKS-SYKVKPMDVITIMM 92 Query: 63 -----------DGVPLRKAERTRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +PL + + +V + V + Sbjct: 93 DRPRYENEVIPEDIPLNIIYEDKYLMVVNKPAGLVVHPGHGNYQGTLVNAIAWHMKDNPD 152 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--- 157 R+D +T GLL++ L + R R ++ Sbjct: 153 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGMQFFNKTTKRRYRALVWGTVEQDEG 212 Query: 158 ----------LNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 213 TITGNIGRNPRDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHMK 272 Query: 207 FFNW 210 Sbjct: 273 HIGH 276 >gi|307610038|emb|CBW99572.1| ribosomal large subunit pseudouridine synthase D [Legionella pneumophila 130b] Length = 321 Score = 57.9 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 36/236 (15%), Positives = 68/236 (28%), Gaps = 38/236 (16%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 QRV +VIAR SR + I V +N + + + D I ++ Sbjct: 18 QRVDRVIARLLPEYSRSLISNWIKTGAVTLNNLPCK-PKDKALGGDLITINVDHTMVNTD 76 Query: 64 -------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----- 109 +P++ + + + +V + + V L + Sbjct: 77 FNFCKPENIPIQIIYEDSEVIVVNKPAGLVVHPGAGNKEHTLVNALLHHCPELQLLPRAG 136 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVDQDK 157 + RLD +T GLL++ + L + Sbjct: 137 IIHRLDKDTTGLLIVAKNLISHTSLIRQMQNREIKRHYLTLVHGYVISGGTIDTGFGRHP 196 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK + G ++ + V L G+ +I+ + N V Sbjct: 197 KNRLKMAVTDFGRQA-VTHYNINKHYKDFTLLNVSLMTGRTHQIRVHMNYINHPVV 251 >gi|152971444|ref|YP_001336553.1| 23S rRNA pseudouridine synthase D [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238896040|ref|YP_002920776.1| 23S rRNA pseudouridine synthase D [Klebsiella pneumoniae NTUH-K2044] gi|262043838|ref|ZP_06016928.1| ribosomal large subunit pseudouridine synthase D [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|330012968|ref|ZP_08307538.1| ribosomal large subunit pseudouridine synthase D [Klebsiella sp. MS 92-3] gi|150956293|gb|ABR78323.1| 23S rRNA pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|238548358|dbj|BAH64709.1| 23S rRNA pseudouridine synthase [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259038808|gb|EEW39989.1| ribosomal large subunit pseudouridine synthase D [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|328533634|gb|EGF60346.1| ribosomal large subunit pseudouridine synthase D [Klebsiella sp. MS 92-3] Length = 326 Score = 57.9 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 27/239 (11%), Positives = 62/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VNG + ++ V+ + I +D Sbjct: 10 TVTENQLGQRLDQALAELFPDYSRSRIKEWILDQRVLVNGTIGDKPKEKVLGGERIAIDV 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFQPQDIPLNIVYEDDDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTIPAQTRLVESLQLREITREYEAVAIGHMTAGGTVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRIHTRLRLRLETGRTHQIRVHMSHITHPLV 248 >gi|213961970|ref|ZP_03390235.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga sputigena Capno] gi|213955323|gb|EEB66640.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga sputigena Capno] Length = 350 Score = 57.9 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 29/241 (12%), Positives = 66/241 (27%), Gaps = 39/241 (16%) Query: 9 ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 + P RV K + A+R +V++ Q + VNG ++ A V + D ++V Sbjct: 32 KGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGEPVK-ANHRVKANDVVKVLLSHP 90 Query: 63 --------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + +P + + L + +V + + + + Sbjct: 91 PHEDLLVPENIPLNIVYEDDALLVVNKPAGMVVHPGHGNYSGTLINALVYHFEHLPNNSS 150 Query: 113 RLDINTE-----------------GLLLLTNDGGLARVLELPS---TQWLRVYRVRFHGQ 152 +L LT + G Sbjct: 151 NRPGLVHRIDKDTSGLLVIAKTEEAMLHLTQQFFYKTTQREYIALVWGNIEEDEGTVRGH 210 Query: 153 VDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + L+ + G + + + G V+ L G+ +I+ + Sbjct: 211 IGRHLKDRLQMDVFPDGSHGKEAVTHYKVLERFGYVTLVSCRLETGRTHQIRVHLKHIGH 270 Query: 211 K 211 Sbjct: 271 T 271 >gi|153853144|ref|ZP_01994553.1| hypothetical protein DORLON_00538 [Dorea longicatena DSM 13814] gi|149753930|gb|EDM63861.1| hypothetical protein DORLON_00538 [Dorea longicatena DSM 13814] Length = 251 Score = 57.9 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 19/80 (23%), Positives = 29/80 (36%), Gaps = 8/80 (10%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 + R+ V+A A SR ++ I +V VNG L+ + D I V Sbjct: 171 TVSSIRLDSVLALAYPLSRSKITAQIEAGKVFVNGKLITSNGYRLKDNDIISVRKMGRIA 230 Query: 63 -DGVPLRKAERTRLWLYHKP 81 DG+ + L K Sbjct: 231 YDGILSETKKGRYLISVRKY 250 >gi|224373114|ref|YP_002607486.1| hemolysin A [Nautilia profundicola AmH] gi|223589777|gb|ACM93513.1| hemolysin A [Nautilia profundicola AmH] Length = 236 Score = 57.9 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + SR + + +I VKVN ++++ + + TD +EV Sbjct: 1 MRLDQYLVTNEYTFSRNKAQEIIKSGYVKVNDKIIKKPSFKIAETDSVEV 50 >gi|116492705|ref|YP_804440.1| ribosomal large subunit pseudouridine synthase D [Pediococcus pentosaceus ATCC 25745] gi|116102855|gb|ABJ67998.1| ribosomal large subunit pseudouridine synthase D [Pediococcus pentosaceus ATCC 25745] Length = 300 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 34/246 (13%), Positives = 71/246 (28%), Gaps = 35/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + V + R+ KV+ +R +++ +I Q+++ VN V D Sbjct: 1 MEQFSFVVSDQESGRLDKVVTNHYPDLTRSKIQNLIKQEQILVN-QAPTTNRYKVSENDV 59 Query: 60 IEV---DGVPLRKAERT-----------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V D V + + + +V + + V L Sbjct: 60 IDVTLPDPVEVSVKPEKMNLDIVFEDDDVIVVNKPQGMVVHPAPGHENGTLVNGLLDHAP 119 Query: 106 S-------RVISVGRLDINTEGLLLLTNDGGLA------------RVLELPSTQWLRVYR 146 R V R+D +T GLL++ + + L Sbjct: 120 LATVNGELRPGIVHRIDKDTSGLLMVAKNDQAMLSLSAQLKAKTNQRKYLAIVHGNFKEE 179 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK +++ + + + L G+ +I+ + Sbjct: 180 AGTINAPIGRSKKDRKKMAIVEDGRPAVTHFKVLERFTDYTLIECELETGRTHQIRVHLK 239 Query: 207 FFNWKV 212 + V Sbjct: 240 YIGHPV 245 >gi|316971885|gb|EFV55608.1| pseudouridylate synthase 6 [Trichinella spiralis] Length = 404 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 35/263 (13%), Positives = 78/263 (29%), Gaps = 35/263 (13%) Query: 32 ERMIAQQRVKVNGILLERAAVNVMSTDHIE----------VDGVPLRKAERTRLWLYHKP 81 E I RV VNG V + D I +D + + + +KP Sbjct: 88 EEAILAGRVTVNGQP-TSVDYVVENGDLIRHMCHRHELPVLDSAVDIVTDTEDILVVNKP 146 Query: 82 IGLVTTHSDPDGRSTVFDNLPSIFSRV--ISVGRLDINTEGLLLLTNDGGL----ARVLE 135 + +++ L I + RLD T GL++ + + + + Sbjct: 147 CSIPVHPCGRYHFNSLVLYLKHIGGMDNLKTFHRLDRLTSGLVIFLKNEKIEKKLRQQMI 206 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNL--------LKKGIVIQGICYGDMQVTLDTQKGSNA 187 + + V ++ + + + + G + Sbjct: 207 ENQIKKEYLCLVDGEFPEEEVVCDKPLDVLSQSMGIMYITADGKPSLTKFYKLFSDGKTS 266 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVNRL----IRISYGPFQLGTLL-AGSTREVSKKILR 242 + G+ +I+ ++ + + ++GP G L G S LR Sbjct: 267 ILKCCPETGRTHQIRVHLQYLGYPIVNDYIYNNSDAFGP-NKGKLCDYGK----SLDELR 321 Query: 243 EQLGPHLLEEAQVNLDAPIYSSE 265 E + E ++ + + ++ Sbjct: 322 EVVKTCFTAEKWIDRKSTVDPTK 344 >gi|262282736|ref|ZP_06060504.1| S4 domain-containing protein [Streptococcus sp. 2_1_36FAA] gi|262262027|gb|EEY80725.1| S4 domain-containing protein [Streptococcus sp. 2_1_36FAA] Length = 264 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 15/51 (29%), Positives = 27/51 (52%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + R+ K+IA + SR + ++I + VKVN +++ + V D I V Sbjct: 184 SSMRLDKLIASSFKLSRSDASQLIFGKHVKVNYSIIDNPSYLVGLNDLISV 234 >gi|225870653|ref|YP_002746600.1| RNA pseudouridylate synthase [Streptococcus equi subsp. equi 4047] gi|225700057|emb|CAW94108.1| putative RNA pseudouridylate synthase [Streptococcus equi subsp. equi 4047] Length = 296 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 34/232 (14%), Positives = 65/232 (28%), Gaps = 37/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------DGVP 66 R+ K +A SR + I Q+RV VNG L ++A V D I D Sbjct: 11 RLDKALADLTPLSRSQANDQIKQKRVLVNG-LPKKAKYIVQVGDCISYHIPEESSLDYQA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V L I G + Sbjct: 70 QDIPLDIVYQDDVLAIINKPQGMVVHPSAGHSTGTLVNALLYHIKDLSSINGVIRPGIVH 129 Query: 121 LLLLTNDGGLARVLELPST---------------------QWLRVYRVRFHGQVDQDKLN 159 + G L + L R + + + + Sbjct: 130 RIDKDTSGLLMVAKTDKAHQLLADELKAKKSLRKYVAIVHGNLPKDRGVIEAPIGRSEKD 189 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ + +G + + + G +V + L G+ +I+ + Sbjct: 190 RKKQTVTAKGKEALTL-FKVLERFGHYTFVELQLETGRTHQIRVHMAYIGHP 240 >gi|237719675|ref|ZP_04550156.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 2_2_4] gi|229450944|gb|EEO56735.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 2_2_4] Length = 357 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 63/245 (25%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEDGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLRKA-------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + + E L + +KP GLV + T+ + L + Sbjct: 92 DRPRYENEIIPENIPLTIVYEDPYLMVVNKPAGLVVHPGHGNYHGTLVNALAWHMKDIPD 151 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D + GL + Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFFNKTTKRRYRALVWGVVEQDEG 211 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 212 TIVGNIARNPKDRMQMAVMSDPTVGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|118475501|ref|YP_892378.1| ribosomal pseudouridine synthase [Campylobacter fetus subsp. fetus 82-40] gi|118414727|gb|ABK83147.1| ribosomal pseudouridine synthase [Campylobacter fetus subsp. fetus 82-40] Length = 323 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 67/244 (27%), Gaps = 38/244 (15%) Query: 7 VQE--NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 + E + R+ +++A SR ++ +I V VN L+ + + V+ D I + Sbjct: 1 MNEFISSNSARLDQILASYLSISRNQISELIKSGNVYVNDNLMLKPSFKVLLNDKIGFNL 60 Query: 64 --------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 V + + L L V + V + + Sbjct: 61 PKAKFENCEFKADFDVEILYEDDDILVLNKPSNLTVHPAPSVKEATLVEWLKQNGYMLST 120 Query: 110 SVGRL--------------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 G + + + L + L + ++ Sbjct: 121 LNGDIRAGIVHRLDKGTSGVIVVAKNNASHSALAAQLSDKSMGRVYLALIDFNLKDKLII 180 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + ++ N LK + G + + N + L G+ +I+ N Sbjct: 181 DRPIGRNPQNRLKNSVAANGRAAKSAFTNIICEDDLN-LIAAKLFTGRTHQIRVHLASIN 239 Query: 210 WKVN 213 + Sbjct: 240 RHIL 243 >gi|258405122|ref|YP_003197864.1| pseudouridine synthase, RluA family [Desulfohalobium retbaense DSM 5692] gi|257797349|gb|ACV68286.1| pseudouridine synthase, RluA family [Desulfohalobium retbaense DSM 5692] Length = 547 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 75/247 (30%), Gaps = 41/247 (16%) Query: 6 IVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI- 60 +V+ +R+ K + A G+ SR + + I Q+RV+V G L + V++ + Sbjct: 16 VVEAGEAGKRLDKFLSDRLADLGV-SRSRISQWIRQERVRVAGALCLQGKTKVLNGQKVV 74 Query: 61 ------------EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 EV V + ++ + + V + + + V Sbjct: 75 LLAPSLQSGIKPEVGPVEVVYSDPDVVVVNKAAGVTVHPGTGCESGTLVHHLAALYPELA 134 Query: 109 ISVGRLDI-----------------NTEGLLLLTNDGGLARVLELPST--QWLRVYRVRF 149 G N L LT V + T Sbjct: 135 RFDGERPGVVHRLDKDTSGLLTVALNESARLALTRSFARREVDKEYLTLVHGRPEAEGTV 194 Query: 150 HGQVDQDKLNLLKKGIVIQGIC---YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + +D + ++ +V +G + + G + + V + G+ +I+ Sbjct: 195 DHPLGRDPQSKIRMAVVPRGGKEALTRF-KRVWTSPDGRVSLLRVRILTGRTHQIRVHMA 253 Query: 207 FFNWKVN 213 + + + Sbjct: 254 YLGFPLV 260 >gi|152992058|ref|YP_001357779.1| hemolysin A [Sulfurovum sp. NBC37-1] gi|151423919|dbj|BAF71422.1| hemolysin A [Sulfurovum sp. NBC37-1] Length = 237 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + G SR I +V V+G + +V + + ++EV Sbjct: 1 MRLDKYLVEEGYFESRNRALEAIKAGQVTVDGKKAK-PSVKIDTNSYVEV 49 >gi|282163383|ref|YP_003355768.1| hypothetical protein MCP_0713 [Methanocella paludicola SANAE] gi|282155697|dbj|BAI60785.1| conserved hypothetical protein [Methanocella paludicola SANAE] Length = 215 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ + + G+ SR +R+I + +VKV+G + + + V + ++G Sbjct: 1 MRLDEYLVSEGLVPSRSRAKRLIEKGQVKVDGKAVLKPSQKVEYGRKVAIEGE 53 >gi|23098941|ref|NP_692407.1| hypothetical protein OB1486 [Oceanobacillus iheyensis HTE831] gi|22777169|dbj|BAC13442.1| hypothetical conserved protein [Oceanobacillus iheyensis HTE831] Length = 303 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 38/247 (15%), Positives = 80/247 (32%), Gaps = 36/247 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K ++IV E RV K++ + SR +++ I + V+VNG+ ++ A + D + Sbjct: 3 KSQHIVTEQQGKTRVDKLLTQLLADQSRSQIQGWIDEGLVEVNGVSVK-ANYKCVEGDAL 61 Query: 61 EV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-- 104 + +PL + + + +V + + V L Sbjct: 62 TWEIPETKPLILEPENIPLDVVYEDSDVIVINKPKGMVVHPSAGHQTGTLVHALLYHCDD 121 Query: 105 ------FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R V R+D +T GLL++ + + L Q + + Sbjct: 122 LSGINGIERPGIVHRIDKDTSGLLVVAKNDVAHQKLSDQLQQKQLKRKYVAIVHGEIGHD 181 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG------------LREGKNREIKKVFE 206 L + + +D K + V L G+ +I+ + Sbjct: 182 TGLIDAPIGRDPKDRQKMAVVDNGKSAITHFRVIERFPDYTFVECQLETGRTHQIRVHMQ 241 Query: 207 FFNWKVN 213 + + + Sbjct: 242 YIGFPLV 248 >gi|255004408|ref|ZP_05279209.1| sfhb-like protein [Anaplasma marginale str. Virginia] Length = 340 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 27/245 (11%), Positives = 68/245 (27%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH------- 59 V + QR+ K+I+ A SR + +IA +V ++G ++ + + D Sbjct: 9 VTKEGDQQRIDKLISCALEISRNRAQGLIAGGQVTISGRVINNNSYLTKTGDVYTIVTAV 68 Query: 60 ---------------IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDP------------- 91 + + + ++ H G+ Sbjct: 69 QKPSTLSPNYDIDLKVVYEDHDVIVIDKDPYIAVHPGNGIEHHTITNALLARFGAGLQSV 128 Query: 92 --DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 R + L S ++ + + L + G + + R Sbjct: 129 GSSSRPGIVHRLDKDTSGLMVAAKTENAYYRLSEELANQGFKKEYLAVAWGIPCPKRGVI 188 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFF 208 H + + ++ G + ++ + G + + L G+ +I+ Sbjct: 189 HTNIRVKRSDITMMEAANSGGKPAKTEYEVEQELGEVASLIRCTLHTGRTHQIRVHMSHI 248 Query: 209 NWKVN 213 + Sbjct: 249 GHSIV 253 >gi|255658173|ref|ZP_05403582.1| hemolysin A [Mitsuokella multacida DSM 20544] gi|260849481|gb|EEX69488.1| hemolysin A [Mitsuokella multacida DSM 20544] Length = 268 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G+ SR +RMI V V+G +++A V I + G + Sbjct: 4 ERLDILLVERGLAGSRERAKRMIMAGEVLVDGQKIDKAGTTVKPEAEIRLLGHDIPY 60 >gi|288800657|ref|ZP_06406114.1| ribosomal large subunit pseudouridine synthase D [Prevotella sp. oral taxon 299 str. F0039] gi|288332118|gb|EFC70599.1| ribosomal large subunit pseudouridine synthase D [Prevotella sp. oral taxon 299 str. F0039] Length = 358 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 21/250 (8%), Positives = 53/250 (21%), Gaps = 44/250 (17%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + E P RV K + +SR +++ V VN ++ + D + + Sbjct: 27 RIVADEGQKPLRVDKFMFEKLQHSSRNRIQKAAEAGFVHVNDQPVKS-NYKIRPNDVVTL 85 Query: 63 -------DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 D + + L + +V + + + Sbjct: 86 MLDRPRHDNTIEAENIPLDIVYEDAELLVVNKPAGLVVHPGVGNFHGTLINAVAWHMKDD 145 Query: 108 VISVGRLD------------------------INTEGLLLLTNDGGLARVLELPSTQWLR 143 G+ + + Sbjct: 146 KNFDANSPEVGLVHRIDKDTSGLLVVAKTPNAKTKLGVQFFNKTTTRSYKALVWGHIAED 205 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREI 201 R+ + D + + + G + L G+ +I Sbjct: 206 EGRIEGNIGRDPKDRQRMT-VFSPDSGIGKPAVTHYKVIERFGYTTLIECILETGRTHQI 264 Query: 202 KKVFEFFNWK 211 + + Sbjct: 265 RAHMKHIGHP 274 >gi|167753888|ref|ZP_02426015.1| hypothetical protein ALIPUT_02173 [Alistipes putredinis DSM 17216] gi|167658513|gb|EDS02643.1| hypothetical protein ALIPUT_02173 [Alistipes putredinis DSM 17216] Length = 356 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 28/241 (11%), Positives = 63/241 (26%), Gaps = 41/241 (17%) Query: 11 FTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 +P R+ K + SR ++ + VNG + + V D I + Sbjct: 36 QSPLRLDKFLTIHMERCSRNRIQTAADAGNILVNGKPAKS-SYKVKPGDRISLVMPYPKR 94 Query: 63 ------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--- 111 + +P + + L + +V + V + + + Sbjct: 95 EIEIIPENIPLEIPYEDDDLLLVNKPAGMVVHPGHGNYSATLVNALTYYLQNLPLFQEGD 154 Query: 112 ------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------- 156 R+D NT GLL++ + L R + + Sbjct: 155 MRAGLVHRIDKNTSGLLVIAKNERAHARLAKQFFDHTITRRYVALVWGNFEEDEGTITGN 214 Query: 157 ------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + + G + L G+ +I+ ++ Sbjct: 215 IGRSPKDRQKMWVFEDGSDGKHAVTHYRVLKRYGYVTLIECRLETGRTHQIRVHMQWKGH 274 Query: 211 K 211 Sbjct: 275 P 275 >gi|218283674|ref|ZP_03489635.1| hypothetical protein EUBIFOR_02229 [Eubacterium biforme DSM 3989] gi|218215663|gb|EEC89201.1| hypothetical protein EUBIFOR_02229 [Eubacterium biforme DSM 3989] Length = 295 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 28/268 (10%), Positives = 73/268 (27%), Gaps = 54/268 (20%) Query: 1 MKDKNIVQENFTPQRVSKVIAR----AGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK+ I +N QR+ K + + G + + + I +++KVN + Sbjct: 1 MKEIKI-NQNDANQRLDKFLMKTFPKLG---KSMMYKAIRNKKIKVNRKRCT-FDQKIQE 55 Query: 57 TDHI-------EVDGVPLR-----------KAERTRLWLYHKPI---------------- 82 D I ++ + + L + Sbjct: 56 NDSILLFLPPDVLEEKKVETNYISSKLDVIYEDENILIVNKPYGLLSQSDQSQNQDCLVN 115 Query: 83 ---------GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + ++ L + ++ + + + + ++ Sbjct: 116 RVQAYLMEKNEYDPNKEHSFAPSICHRLDRNTTGLVIAAKNANALRKVNEAIANRTIQKM 175 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + ++ ++G M V ++ G N+ T+ L Sbjct: 176 YRAHVVGTFEQKDFTMCYYIRKENTIAKVSDKKLEGYQKALMDVHVERDDGENSICTITL 235 Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYG 221 G+ +I+ + + L + YG Sbjct: 236 HTGRFHQIRALMGHIQHPL--LGDVKYG 261 >gi|300775211|ref|ZP_07085073.1| ribosomal large subunit pseudouridine synthase D [Chryseobacterium gleum ATCC 35910] gi|300505951|gb|EFK37087.1| ribosomal large subunit pseudouridine synthase D [Chryseobacterium gleum ATCC 35910] Length = 357 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 32/248 (12%), Positives = 62/248 (25%), Gaps = 46/248 (18%) Query: 6 IVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 V P R+ K + + SR ++ + V VNG+ +++ V D I Sbjct: 38 TVDSKQEPLRIDKFLLIYRQNS---SRNKISQTCRAGNVIVNGVAVKQ-NYRVKPGDQIS 93 Query: 62 V-------------DGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V +P+ E L + K G+V + T+ + L F + Sbjct: 94 VLLAHPPRENVIIPQDIPVNIIYEDDDLVVVDKEAGMVVHPGFGNWDGTLVNALAYHFEK 153 Query: 108 V------------------------ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 I+ ++ + Sbjct: 154 NGEKSDLDRVGLVHRIDKDTSGLLVIAKNEYALSFLAKQFFNRTTKRLYWAFVWGNLQED 213 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 +R H + + + + WV L G+ +I+ Sbjct: 214 EGTIRGHIGRHPKNRMQMSVYEDGSQGKHAVTHYKVLERFKYMTWVECKLETGRTHQIRA 273 Query: 204 VFEFFNWK 211 F Sbjct: 274 HFRHIGHT 281 >gi|82778018|ref|YP_404367.1| 23S rRNA pseudouridine synthase D [Shigella dysenteriae Sd197] gi|309789452|ref|ZP_07684038.1| ribosomal large subunit pseudouridine synthase D [Shigella dysenteriae 1617] gi|81242166|gb|ABB62876.1| suppressor of ftsH mutation [Shigella dysenteriae Sd197] gi|308922695|gb|EFP68216.1| ribosomal large subunit pseudouridine synthase D [Shigella dysenteriae 1617] Length = 326 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 32/239 (13%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V EN QR+ + +A SR ++ I QRV VN L ++ V+ + + ++ Sbjct: 10 TVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNSKLCDKPKEKVLGGEQVAINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + + +V + + + L Sbjct: 70 EIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDSTVLNALLHYYPPIADV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R V RLD +T GL+++ R L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQRRLVESLQRREITREYEAVAIGHMTAGGTVDEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 248 >gi|124006632|ref|ZP_01691464.1| pseudouridine synthase, RluD [Microscilla marina ATCC 23134] gi|123987787|gb|EAY27478.1| pseudouridine synthase, RluD [Microscilla marina ATCC 23134] Length = 360 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 35/246 (14%), Positives = 73/246 (29%), Gaps = 39/246 (15%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +V + P R+ K + R +R + + I + VKVN ++ V D I + Sbjct: 39 RIVVDKGQEPVRIDKFLMDRVPNITRNKTQNAIREGFVKVNDQEVK-PNYKVRPEDIIII 97 Query: 63 -------------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 + +P+ E L + HK G+V + + T+ + L F Sbjct: 98 SLPEPPRESEVVPEDIPINIVYEDDDLLVVHKEAGMVVHPAYNNWTGTLVNALAYHFKNL 157 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 +R G + + L L+ + Q+ R + + + Sbjct: 158 PENRDGRPGLVHRIDKDTSGLLVVAKSEHALQHLAKQFFDHTIERTYYALVWGEPKQEAG 217 Query: 164 GIVI------------------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 I + + + + V L G+ +I+ Sbjct: 218 TIDVNLGRSLKDRRVTAAFPEGDFGRHAVTHYKVLKNLRYVSLVQCNLETGRTHQIRAHM 277 Query: 206 EFFNWK 211 + Sbjct: 278 KHLGHP 283 >gi|114775487|ref|ZP_01451055.1| possible pseudouridine synthase [Mariprofundus ferrooxydans PV-1] gi|114553598|gb|EAU55979.1| possible pseudouridine synthase [Mariprofundus ferrooxydans PV-1] Length = 325 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 64/243 (26%), Gaps = 35/243 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRV-KVNGILLERAAVNVMSTDHIEVDG 64 V + +R+ V+A A SR ++ ++ + V G ++ +A+ V + + Sbjct: 14 TVSTEASGKRLDAVLAAACELSRSRIQTLLREGHVRTAGGSVISQASARVWEGERYLLTL 73 Query: 65 VPLRK--------------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P++ + + L +V D + V L + Sbjct: 74 PPVKPLILEPEDLPLDILFEDEHLIVLNKPAGIVVHPSHGHDHGTLVHALLHHCKTLPGI 133 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 G L G L Q L + ++ I Sbjct: 134 NGVERPGIVHRLDKDTSGSLVIAKSEVVHQRLSEMFAEHNLNRQYIAWCRGVPSWRVKCI 193 Query: 171 CYGDMQVTLDTQK--------------------GSNAWVTVGLREGKNREIKKVFEFFNW 210 + QK G + + + L G+ +I+ N Sbjct: 194 ELPIGRHPHQRQKMAVTDSGRESITDAAVEHIFGPFSQMRLTLHTGRTHQIRVHMAHENL 253 Query: 211 KVN 213 V Sbjct: 254 PVL 256 >gi|225378086|ref|ZP_03755307.1| hypothetical protein ROSEINA2194_03746 [Roseburia inulinivorans DSM 16841] gi|225210087|gb|EEG92441.1| hypothetical protein ROSEINA2194_03746 [Roseburia inulinivorans DSM 16841] Length = 303 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 74/244 (30%), Gaps = 44/244 (18%) Query: 10 NFTPQRVSKVIA----RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + +R+ K ++ SR +++I V VN + ++A + + D + V Sbjct: 11 EYEGERLDKYVSILFPEQ---SRSFFQKLIKDGNVSVNDKV-QKANYRLKTEDLVTVEIP 66 Query: 63 ---------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----- 106 + +PL + L + +V + + V + Sbjct: 67 DAVETQILPEDIPLDILYEDDDLLVVNKPKGMVVHPSAGHYSGTLVNAIMYHCKDSLSGI 126 Query: 107 ----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-------------F 149 R V R+D++T G L++ + + + R R Sbjct: 127 NGEIRPGIVHRIDMDTTGSLIVCKNDESHVFIAEQIKEHSVNRRYRGIVYGVVRDDEGTI 186 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 H + + ++ K I + + + ++ L G+ +I+ Sbjct: 187 HAPIGRHPVDRKKMAINEKNGKDAITHYKVLERFDKYTYMEFKLETGRTHQIRVHMASIG 246 Query: 210 WKVN 213 + Sbjct: 247 HPLL 250 >gi|317131689|ref|YP_004091003.1| pseudouridine synthase, RluA family [Ethanoligenens harbinense YUAN-3] gi|315469668|gb|ADU26272.1| pseudouridine synthase, RluA family [Ethanoligenens harbinense YUAN-3] Length = 302 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 69/242 (28%), Gaps = 42/242 (17%) Query: 10 NFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---D 63 +R+ + +AR + +R +++++ V +NG + + + D I V D Sbjct: 11 EQAGERLDRALAR--LCPDQTRSGLQKLLECGLVTLNGKPAGKHD-RMRAGDEIVVEFPD 67 Query: 64 GVPLRKAERTR-----------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 VPL + L + +V + + V L + +G Sbjct: 68 PVPLEAKAQDIPIEVVYEDDDLLVVNKPQGMVVHPGAGNPDGTLVNALLFHCGDSLSGIG 127 Query: 113 ----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 + D + L R E ++ Sbjct: 128 GVLRPGIVHRIDKDTSGLLMVAKNDRAHQSLAAQIKAHSFLREYEAVVCGVIKEDSGTVD 187 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + N + + + + T+ + + + L G+ +I+ + Sbjct: 188 APVGRHPTNRKRMAVTQKNSRHAVTHYTVLRRYTHYTHLRLRLETGRTHQIRLHMAYIGH 247 Query: 211 KV 212 V Sbjct: 248 PV 249 >gi|91200050|emb|CAJ73092.1| similar to ribosomal large subunit pseudouridine synthase D [Candidatus Kuenenia stuttgartiensis] Length = 335 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 18/237 (7%), Positives = 58/237 (24%), Gaps = 35/237 (14%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERA-----------------AVN 53 +R+ + I+ SR +++++ + + VNG +++ + Sbjct: 24 ESKRIDRFISSRFPDLSRTYIQKLVKEGAIVVNGNVVKSSYFIKKGDVISATVPVPEETK 83 Query: 54 VMSTDH---IEVDGVPLRKAERTRLWLYHKPIGLVT------THSDPDGRSTVFDNLPSI 104 + D I + L + + H G + S + L + Sbjct: 84 ITPEDIPLNIIYEDDYLMLINKPYDMVVHPAGGHPSGTLVNAVTFYCQNLSQINGPLKAG 143 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 + + + + + + + + + Sbjct: 144 IVHRLDRDTSGVMLVIKSDAVHSHIAMQFEKRLVKKEYFAVVEGEVAFDSNEINMPIGRH 203 Query: 165 --------IVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + V + + G+ +I+ + V Sbjct: 204 RVDRQKMAVRRDTGKNATSVYEVIERFRGYTLVKIMPKTGRTHQIRVHMQAIGHPVV 260 >gi|26553585|ref|NP_757519.1| pseudouridine synthase [Mycoplasma penetrans HF-2] gi|26453591|dbj|BAC43923.1| pseudouridine synthase [Mycoplasma penetrans HF-2] Length = 298 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 30/241 (12%), Positives = 60/241 (24%), Gaps = 41/241 (17%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 QR+ +++ SR + I V VNG ++ + V I + + E Sbjct: 4 TQRLDILVSSKFSLSRSIAKHKIENNLVTVNGKIISKPNTKVDEESEIILKEEKI-VEET 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV---GRLDINTEGLLLLTNDGG 129 L + K I +V + D + S +S + + + N Sbjct: 63 KVLTPWKKDIEIVYEDKYILIVNKPNDIIVHPTSYDLSNTLANIIKYIFDSKKIKYNGDP 122 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG---------------ICYGD 174 L + + + + L I+ Sbjct: 123 LRMGIVHRLDKCTEGLVIVAKSLDSFNAFTKLFLDQKIEKKYLALLHNHLQTRTVEVDAP 182 Query: 175 MQ----------------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 ++ + + V L G+ +I+ EF V Sbjct: 183 IKRVETSTRREVSRDIDAKEARTIFKEINKYKNFTLAEVELFTGRTHQIRVHAEFIKNHV 242 Query: 213 N 213 Sbjct: 243 I 243 >gi|294495319|ref|YP_003541812.1| RNA-binding S4 domain protein [Methanohalophilus mahii DSM 5219] gi|292666318|gb|ADE36167.1| RNA-binding S4 domain protein [Methanohalophilus mahii DSM 5219] Length = 218 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + G S R ++ I++ VKV+G ++ +++ V + IEVD Sbjct: 1 MRLDVYLIETGFFSSRGRAKKAISEGHVKVDGNVITKSSREVSEFNEIEVD 51 >gi|325680798|ref|ZP_08160336.1| ribosomal RNA large subunit methyltransferase J [Ruminococcus albus 8] gi|324107578|gb|EGC01856.1| ribosomal RNA large subunit methyltransferase J [Ruminococcus albus 8] Length = 263 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ + G+A SR + MI VKV+G + + + +V IEVD Sbjct: 1 MRLDIYLTEKGLAKSRERAKTMIKAGCVKVSGTVCTKPSADVADGAEIEVDD 52 >gi|322378491|ref|ZP_08052942.1| Pseudouridine synthase [Helicobacter suis HS1] gi|322380818|ref|ZP_08054919.1| 23S rRNA-specific pseudouridylate synthase [Helicobacter suis HS5] gi|321146755|gb|EFX41554.1| 23S rRNA-specific pseudouridylate synthase [Helicobacter suis HS5] gi|321149093|gb|EFX43542.1| Pseudouridine synthase [Helicobacter suis HS1] Length = 250 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 20/202 (9%), Positives = 51/202 (25%), Gaps = 6/202 (2%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAERTRL 75 K++A+ S ++ ++ I V + G L A H + + L Sbjct: 6 KILAKNLNISHKQAKKYIDMGLVSLQGKRLTLARQKFPLDTHFHIKECLKTDVLYQDQEL 65 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 + +K + + + + + + + + LL + + Sbjct: 66 LVLNKATHIDSYTLERQHKPYKLLHRLDKSTSGLLLLAQATFYTKALLAFKKREVYKEYL 125 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGI--VIQGICYGDMQVTL--DTQKGSNAWVTV 191 L+ + + KG + L + V Sbjct: 126 ALIEGILKRPKTLTQPLSVRTNHMHFNKGFVKTFVDLKGKPAITHLYPIYHTKQQTLLKV 185 Query: 192 GLREGKNREIKKVFEFFNWKVN 213 + G +I+ + Sbjct: 186 VIETGITHQIRAHLSHIGHPIV 207 >gi|225868421|ref|YP_002744369.1| RNA pseudouridylate synthase [Streptococcus equi subsp. zooepidemicus] gi|225701697|emb|CAW99033.1| putative RNA pseudouridylate synthase [Streptococcus equi subsp. zooepidemicus] Length = 296 Score = 57.5 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 33/232 (14%), Positives = 63/232 (27%), Gaps = 37/232 (15%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------DGVP 66 R+ K +A SR + I Q+RV VNG ++A V D I D Sbjct: 11 RLDKALADLTPLSRSQANDQIKQKRVLVNGSP-KKAKYIVQVGDCISYHIPEESSLDYQA 69 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V L + G + Sbjct: 70 QDIPLDIVYQDDVLAIINKPQGMVVHPSAGHSTGTLVNALLYHVKDLSSINGVIRPGIVH 129 Query: 121 LLLLTNDGGLA---------------------RVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + G L R L R + + + Sbjct: 130 RIDKDTSGLLMVAKTDKAHQLLADELKAKKSLRKYVAIVHGNLPKDRGVIEAPIGRSDKD 189 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ + +G + + + G + V + L G+ +I+ + Sbjct: 190 RKKQTVTAKGKEALT-RFKVLERFGRYSLVELQLETGRTHQIRVHMAYIGHP 240 >gi|237755669|ref|ZP_04584280.1| ribosomal large subunit pseudouridine synthase protein [Sulfurihydrogenibium yellowstonense SS-5] gi|237692181|gb|EEP61178.1| ribosomal large subunit pseudouridine synthase protein [Sulfurihydrogenibium yellowstonense SS-5] Length = 270 Score = 57.1 bits (136), Expect = 3e-06, Method: Composition-based stats. Identities = 28/202 (13%), Positives = 62/202 (30%), Gaps = 13/202 (6%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------DGVPLRKAE 71 IA + S+ + + +I + V VN + A+ N+ D +E+ D L E Sbjct: 16 FIAESLKISKNQAKDIIDSRNVIVNNKRVWIASHNLKPGDVVEIVQSEPKNDLKIL--YE 73 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + KP +V+ + L + + I +LL Sbjct: 74 DDYIIAIDKPPTIVSDKESSSAEDLLRKKLKNDKIKAIH---RLDKETSGVLLFAKDYKI 130 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 + V ++ ++ I+G + + ++ + V Sbjct: 131 FEKFKEIWEDKNVLKIYLAISHNEANFKDFTINHDIEGKQA-ITHLKVLSKGNGFTYFQV 189 Query: 192 GLREGKNREIKKVFEFFNWKVN 213 + G+ +I+K + Sbjct: 190 RIETGRKHQIRKHLASIRHPIV 211 >gi|126698804|ref|YP_001087701.1| putative RNA methyltransferase [Clostridium difficile 630] gi|255100223|ref|ZP_05329200.1| putative RNA methyltransferase [Clostridium difficile QCD-63q42] gi|255306112|ref|ZP_05350284.1| putative RNA methyltransferase [Clostridium difficile ATCC 43255] gi|115250241|emb|CAJ68062.1| putative RNA-binding S4-domain protein [Clostridium difficile] Length = 270 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 22/177 (12%), Positives = 47/177 (26%), Gaps = 2/177 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G SR ++ I V V+ ++A V IEV G P+ R Sbjct: 4 RIDLLLVEQGYFESRERAKKAIMAGLVFVDNQRCDKAGTEVKEDCSIEVKGNPIPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T ++ G + + + + L + Sbjct: 64 GLKLEKAMKNFDLTIDGKVCMDIGAST-GGFTDCMLKNGAIKVFSIDVGYGQLAWKLRQD 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V + + + + + A + Sbjct: 123 DRVVCMERTNIRNVTIEDTKQFADFASIDVSFISLKLVLPKAKELVRHDGEVVALIK 179 >gi|75910708|ref|YP_325004.1| hemolysin A [Anabaena variabilis ATCC 29413] gi|75704433|gb|ABA24109.1| Hemolysin A [Anabaena variabilis ATCC 29413] Length = 272 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ + SR +R+I V VN ++++ V I++ Sbjct: 4 QRLDNLLVELNLCNSRTLAQRLIQAGEVTVNEQVIDKPGTEVDVAAQIKI 53 >gi|160888049|ref|ZP_02069052.1| hypothetical protein BACUNI_00457 [Bacteroides uniformis ATCC 8492] gi|270295585|ref|ZP_06201786.1| conserved hypothetical protein [Bacteroides sp. D20] gi|156862548|gb|EDO55979.1| hypothetical protein BACUNI_00457 [Bacteroides uniformis ATCC 8492] gi|270274832|gb|EFA20693.1| conserved hypothetical protein [Bacteroides sp. D20] Length = 356 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 35/244 (14%), Positives = 71/244 (29%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + R +SR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQEMVRVDKYLFDRLTNSSRNRIQKAADAGFVMANGKAVKS-SYKVKPMDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYENEVIPEDIPLDIVYEDKYLMVVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDNPD 151 Query: 111 VGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--- 157 D + T GLL++ L R R + ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGNQFFNKTTKRRYRALVWGNVEQDEG 211 Query: 158 ----------LNLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 212 TVVGNIGRNPRDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHMK 271 Query: 207 FFNW 210 Sbjct: 272 HIGH 275 >gi|312601410|gb|ADQ90665.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma hyopneumoniae 168] Length = 304 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 74/244 (30%), Gaps = 43/244 (17%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------- 60 + R+ ++A+ SR+ + +I +++V +N L+ + V + I Sbjct: 12 DQEDIRIDILVAKLANLSRKVAQDLILEKKVLINNNLVLKKNQIVKTGQKIKIFNDYKRP 71 Query: 61 -------EVDGVPLRKAERTRLWLYHKPIGLV-------------------TTHSDPDGR 94 EVD + + + L K + + + R Sbjct: 72 KPQLEPAEVDFEIIFQDQNMILINKPKNLVVHPGVGNWKNTLVNGLISHFDSLEQLDHIR 131 Query: 95 STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + L + ++ V + + + + R + + ++ + + Sbjct: 132 PGIVHRLDKDTTGLLLVAKNAKAHSFFVNELANRQIKRFYKAIVIGKVLHKFMKINLPIG 191 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLD------TQKGSNAWVTVGLREGKNREIKKVFEFF 208 +D N LKK I ++ Q + V L G+ +I+ Sbjct: 192 RDLKNPLKKTISFFNS--KPAITNVELIKHFSYQNQDFSLVKCQLETGRTHQIRLHLAHI 249 Query: 209 NWKV 212 + + Sbjct: 250 GYPI 253 >gi|308274565|emb|CBX31164.1| Uncharacterized RNA pseudouridine synthase ylyB [uncultured Desulfobacterium sp.] Length = 335 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 27/243 (11%), Positives = 56/243 (23%), Gaps = 39/243 (16%) Query: 8 QENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---VD 63 E+ + R+ V++ + SR +I + ++ V + ++ V D I D Sbjct: 28 DESVSGIRLDIVVSSYIPLCSRSIAASLINKGKITVCNQI-KKQGYKVKFGDKITGTIPD 86 Query: 64 GVPLRKAERTRLWLY-----------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 P+ P + + V L G Sbjct: 87 PEPVSFLPEPIELNILYEDSDIIVINKPPGIVAHPAPGHYSGTLVNALLFHCPDLTGIGG 146 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 + L G L S L + + + G Sbjct: 147 EIRPGIVHRLDKDTSGALVVAKNDISHTNLCLQFKERRIRKKY-LALVWGNPEHDSGSIT 205 Query: 173 GDM----------------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + S + + L+ G+ +I+ Sbjct: 206 LPIGRHPSNRKKMSVLTRKPKTAETLWKVIERYKSVSLWEIDLKTGRTHQIRVHCAAIKH 265 Query: 211 KVN 213 V Sbjct: 266 PVI 268 >gi|302386409|ref|YP_003822231.1| pseudouridine synthase, RluA family [Clostridium saccharolyticum WM1] gi|302197037|gb|ADL04608.1| pseudouridine synthase, RluA family [Clostridium saccharolyticum WM1] Length = 304 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 30/250 (12%), Positives = 79/250 (31%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK + +V R+ + ++ R SR +++++ +Q V V ++ V + D Sbjct: 1 MKQEYVVAPEEAGVRIDRYLSDRCQDISRSYLQKLLKEQSVLVEEKPVKS-NYKVNAGDR 59 Query: 60 IEV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I V + +PL ++ + + +V + + V + Sbjct: 60 ISVFFPESKEPEIQPEDIPLNIIYEDKDIILINKPKGMVVHPAAGHYSGTLVNGLMSHCR 119 Query: 106 ---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR---------- 146 R V R+D++T G+L++ + + + + Sbjct: 120 SELSGINGVMRPGIVHRIDMDTTGVLIVCKNDMAHSSISEQLKEHSITRKYAAIVHGVLK 179 Query: 147 ---VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + ++ K I + + + ++ L G+ +I+ Sbjct: 180 EDEGTVNAPIGRHPVDRKKMSINEKNGREAVTHYRVLERFKQFTYIECQLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + Sbjct: 240 HMASIGHPLL 249 >gi|256827075|ref|YP_003151034.1| pseudouridine synthase, RluA family [Cryptobacterium curtum DSM 15641] gi|256583218|gb|ACU94352.1| pseudouridine synthase, RluA family [Cryptobacterium curtum DSM 15641] Length = 347 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 35/263 (13%), Positives = 65/263 (24%), Gaps = 47/263 (17%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 IV + R+ ++A +G SR + I +V VNG L V D I + Sbjct: 8 IVTQADAGMRLDSLLAVSGAYPSRSAAVKQIEAGKVLVNG-LARSKRSIVAPGDTIVYEE 66 Query: 64 ----------GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS------- 103 G P+ E + K GL + T+ + L Sbjct: 67 IPLATHIPLRGEPIPLDVRFEDRWMMAISKQAGLCVHPAPGHEGGTLVNALIYAYGRDSL 126 Query: 104 ------------IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + + G + + + + L + F Sbjct: 127 AHVQGDDRPGIVHRLDMDTSGLMMCAKDDTCGMALQDLVRDHKVDRRYLTLVHGNIAFDT 186 Query: 152 QVDQDKLNLLKKGIVIQGICYGDM------------QVTLDTQKGSNAWVTVGLREGKNR 199 + + + + I Y + + L G+ Sbjct: 187 GQIDEPIGRVGDDRLRMKISYRPTARNALTTFTVLERFEAGRADNGYTLLECRLYTGRTH 246 Query: 200 EIKKVFEFFNWKVNRLIRISYGP 222 +I+ EF +G Sbjct: 247 QIRVHMEFIGHCCVGDPLYRWGN 269 >gi|313675550|ref|YP_004053546.1| ribosomal large subunit pseudouridine synthase d [Marivirga tractuosa DSM 4126] gi|312942248|gb|ADR21438.1| ribosomal large subunit pseudouridine synthase D [Marivirga tractuosa DSM 4126] Length = 343 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 60/245 (24%), Gaps = 41/245 (16%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V R+ K + R +R +V++ I V+VNG+ ++ V D+I + Sbjct: 23 VDPKQDLLRIDKFLMDRLPNVTRNKVQKAIKDGFVQVNGVTIK-PNYKVHPDDNIRIALP 81 Query: 63 ----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + + L + + +V + V Sbjct: 82 EPPRDTEVKPENIPLDIVYEDSDLLIVNKEAGMVVHPAHQNWEGTLVNALAYHFQQLPEM 141 Query: 111 VGRLDIN------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 G TE + +E + G Sbjct: 142 QGNEGRPGLVHRIDKDTSGLLVIAKTEKSMTALAKQFFDHSIERTYYALVWGELEDEEGT 201 Query: 153 VDQDKLNLLKKGIVIQG------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 +D + K + + + + L G+ +I+ + Sbjct: 202 IDVNLGRSFKDRRITDAFPEGDFGRTAITHYKVLERLRYVTLIQCNLETGRTHQIRAHMK 261 Query: 207 FFNWK 211 + Sbjct: 262 YIGHP 266 >gi|197284293|ref|YP_002150165.1| 23S rRNA pseudouridine synthase D [Proteus mirabilis HI4320] gi|227357802|ref|ZP_03842150.1| ribosomal large subunit pseudouridine synthase D [Proteus mirabilis ATCC 29906] gi|194681780|emb|CAR40996.1| ribosomal large subunit pseudouridine synthase D [Proteus mirabilis HI4320] gi|227161912|gb|EEI46930.1| ribosomal large subunit pseudouridine synthase D [Proteus mirabilis ATCC 29906] Length = 325 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 38/304 (12%), Positives = 82/304 (26%), Gaps = 44/304 (14%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V ++ QR+ + +A SR ++ I RV+VN ++ + ++ + IEVD Sbjct: 10 TVADSQLGQRLDQALAELFPDYSRSRIKEWILDNRVQVNDKIINKPKEKMLGGEKIEVDA 69 Query: 64 -------GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + L + +V + + + L V Sbjct: 70 LIEEDVRWEPQNIPLNIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLYRYPEIVNV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTHLVEALQRREITREYEAVATGRMTAGGLVNEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHPTKRTHMAVHPMGKPAVTHYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHIHHPL-- 247 Query: 215 LIRISYGPFQLGTLLAGSTREVSK--KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRP 272 G L G R + + RE L + + + + + Sbjct: 248 -----IG----DQLYGGRPRPLKGASEEFRETLRRFDRQALHATMLRLYHPITGIEMEWH 298 Query: 273 NIIS 276 + Sbjct: 299 APLP 302 >gi|157151563|ref|YP_001449982.1| S4 domain-containing protein [Streptococcus gordonii str. Challis substr. CH1] gi|157076357|gb|ABV11040.1| S4 domain [Streptococcus gordonii str. Challis substr. CH1] Length = 275 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 15/51 (29%), Positives = 27/51 (52%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + R+ K+IA + SR + ++I + VKVN +++ + V D I V Sbjct: 195 SSMRLDKLIASSFKLSRNDASQLIFGKHVKVNYSIIDNPSYLVELNDLISV 245 >gi|148377981|ref|YP_001256857.1| ribosomal large subunit pseudouridine synthaseC [Mycoplasma agalactiae PG2] gi|148292027|emb|CAL59419.1| Ribosomal large subunit pseudouridine synthaseC [Mycoplasma agalactiae PG2] Length = 284 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 37/243 (15%), Positives = 77/243 (31%), Gaps = 41/243 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGIAS--------RREVERMIAQQRVKVNGILLERAAVNVM 55 K I Q + +++ K I S R + R+ Q+ +KVN + + V Sbjct: 3 KFIAQSSDNGRKLIKYI-----GSLFKKLPEGR--IYRLFRQKSIKVNNKRITDSNYVVK 55 Query: 56 STDHIEVDGVP-----------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF 98 + D I + G+ + + L + K +V S+ Sbjct: 56 TGDEIIIYGIKDEPSFVIYDNSWKLDSEIVYEDDNILLINKKAGTIVHGDSNCLDNQVFS 115 Query: 99 DNLPSIF--SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 R VGRLD T GL++ + L + ++Y ++ + Sbjct: 116 YFKFRQNSAFRPSHVGRLDKWTSGLIMYAKNYQTLTELNHKTEFLDKIYVLKSDYNPHDE 175 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNA-------WVTVGLREGKNREIKKVFEFFN 209 +++ +Q + K + + L G+ +I+ E+ Sbjct: 176 IVSVYIHHDELQQKMVATKNMQHPNDKIAKTRFFKKDNKLYAQLFTGRKHQIRATLEYLG 235 Query: 210 WKV 212 + + Sbjct: 236 YPI 238 >gi|157804237|ref|YP_001492786.1| type II citrate synthase [Rickettsia canadensis str. McKiel] gi|157785500|gb|ABV74001.1| type II citrate synthase [Rickettsia canadensis str. McKiel] Length = 325 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 31/248 (12%), Positives = 65/248 (26%), Gaps = 38/248 (15%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K+ V R+ K ++ SR ++++ + +V VN I++ V V D I Sbjct: 3 KHSVPHELNGIRLDKALSLLLKNVSRNQIQKAVKDSQVLVNDIIISDPDVLVKENDIILF 62 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-- 106 + + + V + V L + Sbjct: 63 SFKEPEELKIEAANIALDIIYENDDLIVINKAAGMTVHPGLGHHNDTLVNALLHYTKNLS 122 Query: 107 ---RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 G + + L + L + Q + +R + + +N L+ Sbjct: 123 DIGSSERPGIVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVIRKYKALIWGVINPLEG 182 Query: 164 GIVIQGICYGDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVF 205 I + + G+ + V L G+ +I+ Sbjct: 183 VIQNNIGRSRSDRQKMTILKYGGKEAVTHYKTLELFYGGTISMVECKLNTGRTHQIRVQL 242 Query: 206 EFFNWKVN 213 V Sbjct: 243 SHLKHSVV 250 >gi|222149596|ref|YP_002550553.1| ribosomal large subunit pseudouridine synthase RluD subfamily [Agrobacterium vitis S4] gi|221736578|gb|ACM37541.1| ribosomal large subunit pseudouridine synthase RluD subfamily [Agrobacterium vitis S4] Length = 342 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 35/263 (13%), Positives = 69/263 (26%), Gaps = 51/263 (19%) Query: 2 KDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 K ++ R+ +A + G SR V+ +I Q V VNG + + D Sbjct: 11 PRKELIAGEDAEGRLDAWLAASLGGDLSRNRVKALIEQGAVFVNGTAVTEPKRKIKPGDQ 70 Query: 60 IEV------DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + D P + ++ + L +V + + V + Sbjct: 71 LVIAMPEPEDPEPKGEDIPLTVLYEDKDLIVLSKPAGLVVHPGAGNWTGTLVNALIHHCG 130 Query: 106 S---------RVISVGRLDINTEGLLLLTNDGGLARV-----LELPSTQWLRVYRVRFHG 151 R V RLD T G++++ + R + + L Sbjct: 131 DSLSGIGGVKRPGIVHRLDKETSGVMVVAKNDIAHRHLADQFADHGRSGPLERAYQALVW 190 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN---------------------AWVT 190 + + + G DT + V Sbjct: 191 GRPRGLRGTIDAALGRAGDRTKRTVKREDTDDAREAITHYQVMERYGEKPDATCLASLVE 250 Query: 191 VGLREGKNREIKKVFEFFNWKVN 213 L G+ +I+ + Sbjct: 251 CRLETGRTHQIRVHMAHIGHPLI 273 >gi|15606155|ref|NP_213532.1| hemolysin [Aquifex aeolicus VF5] gi|2983347|gb|AAC06935.1| hemolysin [Aquifex aeolicus VF5] Length = 258 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + GI SR + + +I +V VNG ++++ + + +EV Sbjct: 1 MRLDKYLTDKGIVPSREKAQAVIMAGQVLVNGKVVDKPGYRLKGNEKVEV 50 >gi|291166433|gb|EFE28479.1| ribosomal large subunit pseudouridine synthase, RluA family [Filifactor alocis ATCC 35896] Length = 293 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 34/239 (14%), Positives = 81/239 (33%), Gaps = 43/239 (17%) Query: 14 QRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLRK 69 R+ + I+ SR ++++I ++RV VNG ++ + + S D+IE+ + + Sbjct: 1 MRLDQFISSNLPSISRSYIQKLIDEKRVLVNGKYEKK-SFLLKSFDNIEIYIPEPKSIEI 59 Query: 70 AERT-----------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRVI 109 + L + + +V + V L R Sbjct: 60 SPENIPLNILFEDKDILIVNKEKGMVVHPAPGNYSHTLVNAILYHCKGNLSEINGYIRPG 119 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHGQVDQD 156 V R+D +T G+L++ + + L + ++ + + ++ Sbjct: 120 IVHRIDKDTSGILVIAKNNDAHQFLSEQFKEHSIQREYQLITFGNIKTTHLSIEQPIGRN 179 Query: 157 KLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N L+ +V G +T+ ++ L G+ +I+ + + Sbjct: 180 PKNRLQMAVVPNG---KPAITHLTVIENFKDKTYLKARLETGRTHQIRVHCTYIGHPLL 235 >gi|307720729|ref|YP_003891869.1| ribosomal large subunit pseudouridine synthase D [Sulfurimonas autotrophica DSM 16294] gi|306978822|gb|ADN08857.1| ribosomal large subunit pseudouridine synthase D [Sulfurimonas autotrophica DSM 16294] Length = 324 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 28/239 (11%), Positives = 65/239 (27%), Gaps = 39/239 (16%) Query: 13 PQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 P+R+ + ++ G +R ++ +I + V V+G + R V + + ++V+ Sbjct: 12 PERLDTFLTSQIGQ-TRSQIAGLIKHECVFVDGKKVPRPGVKLKAGQVVKVEFPEAKQEK 70 Query: 64 ------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 V + + L + V + V G Sbjct: 71 ALDVNFDVEILYEDDDVLVINKPSGVTVHPAPSVKEATLVDWLKHKGIRLSTISGEERHG 130 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------------------HGQVDQD 156 L G + + ++L + + Sbjct: 131 IVHRLDKGTSGTMVVAKNNEAHEFLSKQLQDKSMGRYYIAVIVPPLKEDITVVESNIGRS 190 Query: 157 KLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK ++ Y + ++ + L G+ +I+ E N + Sbjct: 191 SHNRLKMACGLEHGKYAKTMFKQLALSEDEHTQLIACKLFTGRTHQIRVHLESMNRHIL 249 >gi|91788477|ref|YP_549429.1| ribosomal large subunit pseudouridine synthase D [Polaromonas sp. JS666] gi|91697702|gb|ABE44531.1| ribosomal large subunit pseudouridine synthase D [Polaromonas sp. JS666] Length = 344 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 69/241 (28%), Gaps = 44/241 (18%) Query: 15 RVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ + +A GI SR ++++I V++NG + + + V + D + ++ P Sbjct: 49 RLDRALA--GIVPEFSRSYLQQLIEAAVVQLNGRAVTKPSAKVKAGDELIIELRPTPQSQ 106 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI-----SV 111 + + L + +V + + L V Sbjct: 107 AFKPEAMALDIVFEDPYLLVIDKPAGLVVHPAPGNWSGTLLNGLLARDPQASFLPRAGIV 166 Query: 112 GRLDINTEGLLLLTNDGGLARV----------------LELPSTQWLRVYRVRFHGQVDQ 155 RLD +T GL+++ L + Q R V D Sbjct: 167 HRLDKDTSGLMVVARQRQAMDQLVSMIAARSVSREYIALAHGAWQGARTREVSAAIGRDP 226 Query: 156 DKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + ++ + + V L G+ +I+ + Sbjct: 227 RNRLRMAA-VDLEKNAGKPALTVISLLQNGERHCLVKCKLHTGRTHQIRVHMALLGHPLI 285 Query: 214 R 214 Sbjct: 286 S 286 >gi|300087236|ref|YP_003757758.1| RluA family pseudouridine synthase [Dehalogenimonas lykanthroporepellens BL-DC-9] gi|299526969|gb|ADJ25437.1| pseudouridine synthase, RluA family [Dehalogenimonas lykanthroporepellens BL-DC-9] Length = 301 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 33/236 (13%), Positives = 63/236 (26%), Gaps = 35/236 (14%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 R+ + +A SR ++ +I + V VNG A + D + V+ Sbjct: 16 EGWRLDRYLAEKLPDRSRASLQELIREGFVTVNGRPAR-PASPLKPGDRVTVELPPPAPT 74 Query: 64 --------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 L ++ H G S + S R Sbjct: 75 TATAEDIPLTVIYEDEDLAVIDKPAGLTTHPAPGHPAGTLLNALLSRFPELRDSGLDRPG 134 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------K 157 V RLD +T GL+++ L + + Sbjct: 135 IVHRLDKDTSGLMVVARSRQAHARLSDQFRNREVTKVYLALVRGCVEPAEGIIEAAIGRH 194 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 KK V + + + + ++ + V + G+ +I+ V Sbjct: 195 RTQRKKMTVSEQGREARSRFKVIRRFRNHTLLEVRIYTGRTHQIRVHLAAIGHPVI 250 >gi|291543962|emb|CBL17071.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus sp. 18P13] Length = 304 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 35/245 (14%), Positives = 71/245 (28%), Gaps = 39/245 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 ++ + + R+ K + SR V+ +I Q V NG + + + D + V Sbjct: 5 MLTADGSGMRLDKWLTEQLPELSRSGVQHLIEQGAVLCNGKPAAK-NLKLREGDGLLVQI 63 Query: 63 -------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D P + + L + +V + + V L Sbjct: 64 PDPAPLEDVQPQNLPLEIVYEDEALLVVNKPKGMVVHPAAGHPDGTLVNALLYHCQGRLS 123 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------------V 147 R V R+D NT GLL++ + L Sbjct: 124 TINGVIRPGIVHRIDKNTSGLLMVAKTDFAHQHLAEQIKGHSFTREYEAIACGRFREPSG 183 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + + K + + + + TQ +A + L G+ +I+ + Sbjct: 184 TVDAPIGRSTADRQKMCVTEKNARHAVTHYAVLTQFAKHAHIRCRLETGRTHQIRVHMRY 243 Query: 208 FNWKV 212 + Sbjct: 244 IGHPI 248 >gi|260460313|ref|ZP_05808565.1| hemolysin A [Mesorhizobium opportunistum WSM2075] gi|259033958|gb|EEW35217.1| hemolysin A [Mesorhizobium opportunistum WSM2075] Length = 254 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 QR+ ++ + G ASR + + V V+G++ + NV + +D Sbjct: 11 QRLDDLLVQRGLFASRSRARDAVERGTVTVDGVIARKPGQNVSLQCLVTIDD 62 >gi|288818047|ref|YP_003432394.1| hemolysin [Hydrogenobacter thermophilus TK-6] gi|288787446|dbj|BAI69193.1| hemolysin [Hydrogenobacter thermophilus TK-6] gi|308751648|gb|ADO45131.1| hemolysin A [Hydrogenobacter thermophilus TK-6] Length = 261 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 2/57 (3%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 QR+ K + G A +R + + +I V V+G+L+++ V I+V P+R Sbjct: 4 QRLDKKLVELGFAPTREKAQALIMAGMVTVDGLLVDKPGFLVKEGQKIDVK-EPVRY 59 >gi|255280915|ref|ZP_05345470.1| S4 domain protein [Bryantella formatexigens DSM 14469] gi|255268363|gb|EET61568.1| S4 domain protein [Bryantella formatexigens DSM 14469] Length = 268 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 15/48 (31%), Positives = 22/48 (45%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 R+ ++A A ASR + +I +V VNG L+ V D I Sbjct: 191 SVRLDSLLALAFGASRSSLVGLIEGGKVFVNGRLITSNGYKVKENDLI 238 >gi|325285479|ref|YP_004261269.1| pseudouridine synthase, RluA family [Cellulophaga lytica DSM 7489] gi|324320933|gb|ADY28398.1| pseudouridine synthase, RluA family [Cellulophaga lytica DSM 7489] Length = 344 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 76/247 (30%), Gaps = 40/247 (16%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K + + P R+ K + A+R ++++ + VN +L+++ V + D I V Sbjct: 19 KVVAAKGQEPLRIDKFLMNFIENATRSQIQKAAKDGHIWVNNVLVKQ-NYKVKAGDDIRV 77 Query: 63 -------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-- 105 + +P + + L + +V + + L Sbjct: 78 MFSHPPYEFLLQPEDIPLDIVYEDDVLLVVNKPAGMVVHPGHGNYSGTLINALLHHCKVD 137 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYR 146 R V R+D +T GLL++ L + Sbjct: 138 LPNNSSDRPGLVHRIDKDTSGLLVVAKTEAAMTFLSKQFFDKTSEREYVAIVWGNVEADE 197 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKV 204 G + + N L+ + +G + + + G ++ L G+ +I+ Sbjct: 198 GTIEGHLGRHPKNRLQMHVFPEGDQGKEAITHYKVLERLGYVTVISCKLETGRTHQIRVH 257 Query: 205 FEFFNWK 211 + Sbjct: 258 MKHIGHT 264 >gi|257439731|ref|ZP_05615486.1| hemolysin A [Faecalibacterium prausnitzii A2-165] gi|257197822|gb|EEU96106.1| hemolysin A [Faecalibacterium prausnitzii A2-165] Length = 273 Score = 57.1 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 23/177 (12%), Positives = 52/177 (29%), Gaps = 7/177 (3%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ I++ R+ + + + G+ SR + MI V VN +++A + Sbjct: 1 MERSRILK-----IRLDQYLVQHGLIQSRERAKAMIMSGVVFVNEQKVDKAGEMIKEDAK 55 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 +EV G + R L L T ++ G + + Sbjct: 56 VEVRGHDIGYVSRGGLKLEKAMQCFPLTPKGKVCMDIGAST-GGFTDCMLQNGAVKVYAV 114 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + L + + + + V + + + + + Q Sbjct: 115 DVGYGQLAWSLRTDERVVNMERTNIRNVTLDQLAEPIEFFSVDVSFISLHHIFPVAQ 171 >gi|315126099|ref|YP_004068102.1| 23S rRNA pseudouridine synthase D [Pseudoalteromonas sp. SM9913] gi|315014613|gb|ADT67951.1| 23S rRNA pseudouridine synthase D [Pseudoalteromonas sp. SM9913] Length = 325 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 26/233 (11%), Positives = 66/233 (28%), Gaps = 32/233 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------- 62 +R+ +V+A+ SR ++ I ++ V+G + ++ + + V Sbjct: 17 GKRLDQVLAQLFPDYSRSRIKTWILDDKITVDGEIFNTPREKLLGGEVVAVETTIEAPRE 76 Query: 63 ----DGVP-LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 D + + L + +V + + + L + Sbjct: 77 YEAQDIKLNIVYEDDDILVINKPMGLVVHPGAGNPDGTVLNALLHYYPEIINVPRAGIVH 136 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------KLNL 160 RLD +T GL+++ L + R Sbjct: 137 RLDKDTTGLMVVAKTIQAQTHLVKALQKRENFTREYEALCNGTMTAGGMVEKPIGRHATQ 196 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + ++ + + L G+ +I+ + N + Sbjct: 197 RTHMAVHEMGKPAITHYRVAEKFRAHTRLRLRLETGRTHQIRVHMAYLNHPLI 249 >gi|311029948|ref|ZP_07708038.1| pseudouridylate synthase [Bacillus sp. m3-13] Length = 204 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 2/57 (3%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + E+ R+ KV++ SR +V++ I + ++ VNG + D+I V Sbjct: 9 IDESQKNDRIDKVLSTQNEEWSRSQVQQWIKEGQILVNGEK-TKPNYKCSVGDNITV 64 >gi|37519642|ref|NP_923019.1| pseudouridine synthase [Gloeobacter violaceus PCC 7421] gi|35210633|dbj|BAC88014.1| glr0073 [Gloeobacter violaceus PCC 7421] Length = 310 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 65/243 (26%), Gaps = 38/243 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 VQ + + R+ + +A SR ++ +I Q V +N V S D + Sbjct: 12 TVQPDQSAMRLDRWLAEQVADLSRARIQALIDQGLVLLNNRPCR-PRDLVHSGDAVALTI 70 Query: 62 -------VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 ++ P+ + + + +V + V L + Sbjct: 71 PAPEPLAIEARPIALDIVYEDEELIVIDKPRGLVVHPAPGHSDDTLVNALLAHCRNLSGI 130 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQW---------------------LRVYRVRF 149 G L L G L + Q Sbjct: 131 NGVLRPGIVHRLDKDTTGLLVVAKTDRAHQHLQTQIQAKTARRDYLAIIAGAPAETTGTI 190 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + ++ K + +G + + G+ V L+ G+ +I+ Sbjct: 191 DAPIGRHPVHRQKMAVHPKGRPART-HWRVLERLGNFTLVEFSLQTGRTHQIRVHCLHKG 249 Query: 210 WKV 212 W + Sbjct: 250 WPI 252 >gi|225352189|ref|ZP_03743212.1| hypothetical protein BIFPSEUDO_03805 [Bifidobacterium pseudocatenulatum DSM 20438] gi|225157436|gb|EEG70775.1| hypothetical protein BIFPSEUDO_03805 [Bifidobacterium pseudocatenulatum DSM 20438] Length = 253 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 1/57 (1%) Query: 8 QENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 ++ R+ + G+ SR + +R+IA +V VNG+ + +A+ V D I D Sbjct: 4 SDSTQVVRLDVALLERGLTDSRSKAQRLIADGKVSVNGVTVTKASAKVGGDDVIAAD 60 >gi|260438388|ref|ZP_05792204.1| S4 domain protein [Butyrivibrio crossotus DSM 2876] gi|292808974|gb|EFF68179.1| S4 domain protein [Butyrivibrio crossotus DSM 2876] Length = 250 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 2/60 (3%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +++ + R+ VIA G SR + I +V VNG ++ A N+ + D I V G Sbjct: 166 VIKGSVASLRLDAVIA-LGFNGSRSHITSYIIDGKVSVNGRIITSNAYNLKAGDIISVHG 224 >gi|21226172|ref|NP_632094.1| putative ribosomal RNA methyltransferase [Methanosarcina mazei Go1] gi|20904401|gb|AAM29766.1| putative ribosomal RNA methyltransferase [Methanosarcina mazei Go1] Length = 243 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 P R+ + G SR + I +VKVNGI + + + +V D IEV Sbjct: 13 PMRLDAYLVEMGHFKSRGRAKTAILDGKVKVNGIAVTKVSRDVSIDDTIEV 63 >gi|184155639|ref|YP_001843979.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956] gi|183226983|dbj|BAG27499.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956] Length = 304 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 31/231 (13%), Positives = 65/231 (28%), Gaps = 35/231 (15%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLE-----RAAVNV--MSTDHIEVDGVP 66 R+ K + SR +++R I V VNG ++ +A V +E+D P Sbjct: 17 RIDKELGHHFPQFSRSQLKRWIDDGTVTVNGQTVKAKYQLQAGDRVVIEPETPVEIDLEP 76 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----------- 109 + + L + +V + V + I Sbjct: 77 ENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYHAPLSSINGELRPGIVHR 136 Query: 110 ---------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 V + D L + R ++ + + + Sbjct: 137 IDKDTSGLLMVAKTDRAHRSLTAQLKEKSNLREYVALVHGVIKENEGTIDAPLARSPKDR 196 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ +V+ G + + + V L G+ +I+ ++ N Sbjct: 197 KKQAVVV-GGRHAVTHFRVLKRYQHYTLVACRLETGRTHQIRVHMKYINHP 246 >gi|328950029|ref|YP_004367364.1| hemolysin A [Marinithermus hydrothermalis DSM 14884] gi|328450353|gb|AEB11254.1| hemolysin A [Marinithermus hydrothermalis DSM 14884] Length = 257 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ G+A SR + + +I RV+V G ++ +A+ V TD IEV Sbjct: 2 ERKRLDVLLVERGMAASRAKAQALIRAGRVRVAGRIVTKASAKVSLTDPIEV 53 >gi|332297938|ref|YP_004439860.1| pseudouridine synthase, RluA family [Treponema brennaborense DSM 12168] gi|332181041|gb|AEE16729.1| pseudouridine synthase, RluA family [Treponema brennaborense DSM 12168] Length = 318 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 28/247 (11%), Positives = 64/247 (25%), Gaps = 47/247 (19%) Query: 11 FTPQRVSKVI-------ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ K + + +R +++ IA + VNG + + + D I VD Sbjct: 12 SAAERLDKYLISCESVQQQCAGLNRSKLKA-IATG-ITVNGRDAK-LSTKIRPGDSIVVD 68 Query: 64 GVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + K + + V L + Sbjct: 69 WADNIPDHIDPEDIPLDIIYEDGNVAVVNKKQGMVTHPALGNWSGTLVNALLFHWNRESV 128 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR----------------------- 146 + L G + S +WL+ Sbjct: 129 AQTARRPGIVHRLDKDTSGLIITGKNRESEEWLQAQFRDRRVKKEYIAIVAGRPPHASGT 188 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 ++ D K + + Q GS + + + L+ G+ +I+ + Sbjct: 189 IKTQIIRDPRNRKRFKAETGTENGKFAHTQYRCIACYGSFSLMRLQLKTGRTHQIRVHMK 248 Query: 207 FFNWKVN 213 + + Sbjct: 249 YLGCPIL 255 >gi|300871333|ref|YP_003786206.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli 95/1000] gi|300689034|gb|ADK31705.1| pseudouridylate synthase, 23S RNA-specific [Brachyspira pilosicoli 95/1000] Length = 298 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 27/246 (10%), Positives = 73/246 (29%), Gaps = 40/246 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K ++E +R+ ++ SR +V+ ++ + VNG + ++ + ++ D +E++ Sbjct: 3 KFSIEEKDLNKRLDIFVSEKLNISRSQVKNYLSS--ILVNGNI-KKLSYSLKLNDIVEIN 59 Query: 64 GVP-----------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 + + L + V + V L I Sbjct: 60 IKTDDNEEEEDILAENIDLDILYEDEYLLVVNKPCNMSVHCSPSERHGTLVNALLYHIKD 119 Query: 107 RVI-----SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------ 155 G + + + G A ++ Q+ + + + Sbjct: 120 FNFVGDKSRAGIIHRLDKDTSGIMIVGKNADIVSAIQEQFKNRTIKKIYHAIVIGVLREN 179 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK V + + + + + + V ++ G+ +I+ Sbjct: 180 FYEINLPIGRHSVYRKKMTVREDGKKALSYIKVLNRFKKHTLIEVNIKTGRTHQIRVHCS 239 Query: 207 FFNWKV 212 + + V Sbjct: 240 YKGFPV 245 >gi|225848540|ref|YP_002728703.1| ribosomal large subunit pseudouridine synthase D [Sulfurihydrogenibium azorense Az-Fu1] gi|225644519|gb|ACN99569.1| ribosomal large subunit pseudouridine synthase D [Sulfurihydrogenibium azorense Az-Fu1] Length = 271 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 28/204 (13%), Positives = 61/204 (29%), Gaps = 15/204 (7%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------DGVPLRKAE 71 IA + S+ + + +I + V VN + A+ + D +E+ E Sbjct: 16 FIAASLNISKNQAKDIIDSRNVLVNNKRVWIASHTLKEGDVVEILQPQQPATKELKIIYE 75 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + +KP L++ S F + I +LL Sbjct: 76 DEYIVAVNKPPTLLSDREK---DSVEFILREKSKNPKIKAIHRLDKETSGILLLAKDYKV 132 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWV 189 + V+++ ++ N L + + + K N ++ Sbjct: 133 FERFKELWEDKIVFKLYLAISHNEANFNHLTVNLPVDD---KPAVSHIKLVKKGNGFSYF 189 Query: 190 TVGLREGKNREIKKVFEFFNWKVN 213 V + G+ +I+K + Sbjct: 190 QVRIETGRKHQIRKHLSSIRHPIV 213 >gi|157363878|ref|YP_001470645.1| RluA family pseudouridine synthase [Thermotoga lettingae TMO] gi|157314482|gb|ABV33581.1| pseudouridine synthase, RluA family [Thermotoga lettingae TMO] Length = 298 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 30/235 (12%), Positives = 64/235 (27%), Gaps = 42/235 (17%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-----------V 62 QR+ K I SR V+R I + +V VN ++ + V D ++ + Sbjct: 18 QRIPKAI------SRSFVQRAIKEGKVTVND-VIRKPNYRVKFGDVVKISIPSNAQSISI 70 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 + P++ + + + +V + + V L G L Sbjct: 71 EPEPIQIGVIYEDEDIIVVNKPAGMIVHPIPSHNSGTLVNALLYHCKDLKGIGGELRPGI 130 Query: 119 EGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 L G + + L L K + I + Sbjct: 131 VHRLDKDTSGVMVVAKNDFAHHNLSNQFKDRKVFKMYLALVSGKVEHLEGDIQISIARHP 190 Query: 179 LDTQKGSNAWV-TVGLR-------------------EGKNREIKKVFEFFNWKVN 213 + K + + + + + G+ +I+ + N + Sbjct: 191 VLRTKMAASEIGRIAVTHYKVIKYFEHATLLMAFPKTGRTHQIRVHMKCINHPIL 245 >gi|37525235|ref|NP_928579.1| 23S rRNA pseudouridine synthase D [Photorhabdus luminescens subsp. laumondii TTO1] gi|36784662|emb|CAE13562.1| ribosomal large subunit pseudouridine synthase D (pseudouridylate synthase) (uracil hydrolyase) [Photorhabdus luminescens subsp. laumondii TTO1] Length = 325 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 28/239 (11%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV+VNG L+ + V+ + I +D Sbjct: 10 TVAESQLGQRLDQALAELFPDYSRSRIKDWILDDRVQVNGKLINKPKEKVLGGEEIAIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + L + +V + + + L Sbjct: 70 IIEEDARWEPQNIALNIVYEDDDILVINKSRDLVVHPGAGNPDGTVLNALLYHYPEIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V R + Sbjct: 130 PRAGIVHRLDKDTTGLMVIAKTVPAQTRLVESLQLREITREYEAVATGRMTAGGMVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + + Sbjct: 190 SRHPTKRTHMAVHPMGKPAITHYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHISHPLV 248 >gi|332290082|ref|YP_004420934.1| 23S rRNA pseudouridine synthase D [Gallibacterium anatis UMN179] gi|330432978|gb|AEC18037.1| 23S rRNA pseudouridine synthase D [Gallibacterium anatis UMN179] Length = 324 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 68/248 (27%), Gaps = 36/248 (14%) Query: 1 MKDKNI---VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMS 56 M+ K + VQ + QR+ + +A SR ++ I V+V+ ++ V Sbjct: 1 MEHKKLTAEVQPHQLGQRLDQTLAELFPEYSRSRIKTWIEAGLVQVDDKIVTVPKEKVFG 60 Query: 57 TDHIEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 T+ I + + + L + +V + + + L Sbjct: 61 TEQIIMQAEIEEDTRFTPQNIPLDIVYEDEHILVINKSKDLVVHPGAGNPDNTVLNALLY 120 Query: 103 SIFSRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR----------- 146 RLD +T GL+++ L + Sbjct: 121 HYPPIAEVPRAGIVHRLDKDTTGLMVVAKTIEAQTKLVRALQKRQITREYEAIASGIMTK 180 Query: 147 -VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + I G + + + + + L G+ +I+ Sbjct: 181 GGTVDQPMARHPTKRTHMAIHPLGKPA-VTHYRIMERFRNYTRLRLRLETGRTHQIRVHM 239 Query: 206 EFFNWKVN 213 + + Sbjct: 240 AYIAHPLL 247 >gi|313159132|gb|EFR58507.1| pseudouridine synthase, RluA family [Alistipes sp. HGB5] Length = 362 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 33/246 (13%), Positives = 68/246 (27%), Gaps = 41/246 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI---- 60 + + P R+ K + R SR ++ + VNG + + V D I Sbjct: 35 VADKGQAPLRLDKFLTVRMEKCSRNRIQAAADSGSILVNGKAAKS-SYKVKPLDRIQIVM 93 Query: 61 -----EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 EV+ +P + + L + +V + V + + + Sbjct: 94 PYPRREVEIIPENIPLEIPYEDDDLLIVNKPAGLVVHPGHGNYSGTLVNALTYHLRNLPL 153 Query: 110 SV---------GRLDINTEGLLLLTNDGGLA----RVLELPSTQWLRVYRVRFHGQVD-- 154 R+D NT GLL++ + + + V V + + D Sbjct: 154 FQEGDMRAGLVHRIDKNTSGLLVVAKNEQSHARLAKQFFDHTIGRRYVALVWGNFEEDEG 213 Query: 155 ---------QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + G V L G+ +I+ Sbjct: 214 TITGNIGRSPRDRQKMFVFEDGSDGKHAVTHWRVLKRYGYVTLVECRLETGRTHQIRVHM 273 Query: 206 EFFNWK 211 + Sbjct: 274 SWQGHP 279 >gi|210622497|ref|ZP_03293202.1| hypothetical protein CLOHIR_01150 [Clostridium hiranonis DSM 13275] gi|210154210|gb|EEA85216.1| hypothetical protein CLOHIR_01150 [Clostridium hiranonis DSM 13275] Length = 270 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 21/163 (12%), Positives = 45/163 (27%), Gaps = 2/163 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G SR ++ I V V+ ++A V +IEV G P+ R Sbjct: 4 RIDVLLVEQGYFESRERAKKAIMAGLVFVDNQRCDKAGTEVKEDANIEVKGNPIPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T ++ G + + + + L Sbjct: 64 GLKLEKAMKNFDLTLEGKICMDIGAST-GGFTDCMLQNGAIKVFSIDVGYGQLAWKLRSD 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + + + V + + + + + Sbjct: 123 ERVVCMERTNIRNVTTEDLKEFPDFASIDVSFISLKLVLPVAK 165 >gi|228471651|ref|ZP_04056425.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga gingivalis ATCC 33624] gi|228277070|gb|EEK15756.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga gingivalis ATCC 33624] Length = 343 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 34/241 (14%), Positives = 71/241 (29%), Gaps = 39/241 (16%) Query: 9 ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---- 63 + P RV K + ASR +V++ + VNG + +A V + D ++V Sbjct: 22 KGQEPLRVDKFLMNFVENASRNKVQQAAKDGNIFVNG-VAVKANHRVKANDEVKVMFAHP 80 Query: 64 -------GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV- 111 P+ + + + +V + + + ++ Sbjct: 81 PHEYLLVPEPIPLDIVYEDEELIIINKPAGLVVHPGHGNYQGTLINGLIYHFQHLPMNSS 140 Query: 112 ------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY-------------RVRFHGQ 152 R+D +T GLL++ L G Sbjct: 141 DRPGLVHRIDKDTSGLLVVAKTEEAMNHLAKQFFNKTSEREYVALVWGNLAQDEGTIIGH 200 Query: 153 VDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + N L+ + G + + + G V+ L G+ +I+ F + Sbjct: 201 IGRHPKNRLQMTVFPDGSEGKEAITHYKVLERFGYVTIVSCRLETGRTHQIRAHFTYIGH 260 Query: 211 K 211 Sbjct: 261 P 261 >gi|327404068|ref|YP_004344906.1| hemolysin A [Fluviicola taffensis DSM 16823] gi|327319576|gb|AEA44068.1| hemolysin A [Fluviicola taffensis DSM 16823] Length = 249 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 18/73 (24%), Positives = 28/73 (38%), Gaps = 1/73 (1%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ K++ G + SR E +I V VNGI +E+ + I + L R Sbjct: 9 ERLDKILFDRGLVTSRTRGEELIKNGDVLVNGISIEKPGKKIPVDAKILLLNEELTWVSR 68 Query: 73 TRLWLYHKPIGLV 85 L L Sbjct: 69 GALKLLKAIEHFE 81 >gi|119511719|ref|ZP_01630823.1| Hemolysin A [Nodularia spumigena CCY9414] gi|119463628|gb|EAW44561.1| Hemolysin A [Nodularia spumigena CCY9414] Length = 270 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ + S R +R+I V VN ++++A V + I+V Sbjct: 4 QRLDTLLVDLNLCSSRALAQRLIQAGEVTVNQQVVDKAGTEVDTAAQIKV 53 >gi|77359880|ref|YP_339455.1| 23S rRNA pseudouridine synthase D [Pseudoalteromonas haloplanktis TAC125] gi|76874791|emb|CAI86012.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Pseudoalteromonas haloplanktis TAC125] Length = 325 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 26/236 (11%), Positives = 66/236 (27%), Gaps = 38/236 (16%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMST-------------- 57 +R+ +V+A+ SR ++ I ++ V+G + ++ Sbjct: 17 GKRLDQVLAQLFPDYSRSRIKTWILDDKITVDGEIFNTPRTKLLGGEVLNVETTIEAPRE 76 Query: 58 ---DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--- 111 I++D + + L + +V + + + L + Sbjct: 77 YIAQDIKLD---IVYEDDDILVINKPMGLVVHPGAGNPDGTVLNALLHYHPEIINVPRAG 133 Query: 112 --GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------K 157 RLD +T GL+++ L + R Sbjct: 134 IVHRLDKDTTGLMVVAKTIPAQTHLVTALQKRENFTREYEALCNGTMTAGGMVEKPIGRH 193 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + ++ + + L G+ +I+ + N + Sbjct: 194 ATQRTHMDVHEQGKPAITHYRVAEKFRAHTRLRLRLETGRTHQIRVHMAYLNHPLI 249 >gi|320160390|ref|YP_004173614.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] gi|319994243|dbj|BAJ63014.1| pseudouridine synthase [Anaerolinea thermophila UNI-1] Length = 310 Score = 56.7 bits (135), Expect = 5e-06, Method: Composition-based stats. Identities = 31/235 (13%), Positives = 64/235 (27%), Gaps = 37/235 (15%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------D 63 R+ K + A SR +++ +I V+V+G +++ V + +E+ + Sbjct: 17 RLDKFLVAHFPELSRSQIQGLIRDGFVRVSGKTVQKTGFLVEAGKEVEIRIPPPQPTSLE 76 Query: 64 GVPLRKA----ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 P+ + L + +V + D + V L I G Sbjct: 77 PEPIPLEVIFENQDLLLVNKPAGMVVHPSAGHDRGTLVHAALAHIPELEGIHGEERPGVV 136 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------------------DK 157 L G + + +WL+ Q K Sbjct: 137 HRLDKDTSGLILLAKNDRAHRWLQDQFRLRKVQKTYLALVDGRPPTPTGRIEAPIGRDPK 196 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + S+ + V G+ +I+ F V Sbjct: 197 NRQRMAVVPPEKGREAVSEYFTREVFPSHTLLEVHPLTGRTHQIRVHLAFIGCPV 251 >gi|169343529|ref|ZP_02864528.1| pseudouridine synthase, RluA family [Clostridium perfringens C str. JGS1495] gi|169298089|gb|EDS80179.1| pseudouridine synthase, RluA family [Clostridium perfringens C str. JGS1495] Length = 306 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 64/248 (25%), Gaps = 38/248 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD- 58 K+ + E R K +A G+ SR ++ + ++ +NG E+ + D Sbjct: 5 KEVIKITEEEKGIRADKFLALKIDGV-SRNFIQGLFDDGKILINGK-AEKGKYKLSVGDC 62 Query: 59 -----------HIEVDGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 +E + +P + + + + +V + V L Sbjct: 63 VEVEIPEPEELKVEAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLHHCD 122 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 G + + G L + Q L + + Sbjct: 123 DLSGINGVIRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKREYYAIVEGRFKK 182 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K V++ + S + V L G+ +I+ Sbjct: 183 EGGTIDAPLGRHHRDRLKYAVVKDGKRAVTHYEVLKVFNSCSLVKCNLETGRTHQIRVHM 242 Query: 206 EFFNWKVN 213 F + Sbjct: 243 AFIGHPLL 250 >gi|34497647|ref|NP_901862.1| pseudouridine synthase D [Chromobacterium violaceum ATCC 12472] gi|34103503|gb|AAQ59865.1| pseudouridine synthase D [Chromobacterium violaceum ATCC 12472] Length = 363 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 33/232 (14%), Positives = 71/232 (30%), Gaps = 34/232 (14%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV------ 65 +R+ +A+ SR + + + VKV+G ++ ++ + +EV Sbjct: 33 GERLDAALAKLLPDYSRSRLTQWVKDGLVKVDGQVVA-PKTKMLGGEKLEVTLQLTNEEM 91 Query: 66 ---------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISV 111 P+ + L + +V + + + L R V Sbjct: 92 AFQPEPMDLPIVFEDEHILVINKPAGLVVHPAAGNWSGTLLNGLLHHCPALASVPRAGIV 151 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLN 159 RLD +T GL+++ L + + +D N Sbjct: 152 HRLDKDTSGLMVVAKTLPAQTELVRQLQARTVKRVYRAIADGVVPFDGTIDANIGRDANN 211 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 LK ++ G + + + S++ V L G+ +I+ Sbjct: 212 RLKMAVLKFGGKPAITHIRVLERFASHSHVECKLETGRTHQIRVHMREAGHP 263 >gi|210633884|ref|ZP_03297899.1| hypothetical protein COLSTE_01816 [Collinsella stercoris DSM 13279] gi|210159053|gb|EEA90024.1| hypothetical protein COLSTE_01816 [Collinsella stercoris DSM 13279] Length = 338 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 30/253 (11%), Positives = 61/253 (24%), Gaps = 46/253 (18%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V +R+ + SR +++ V VNG V D I V+ Sbjct: 9 VSAADAGERLDSYLGAQSACPSRSACAKLVEAGSVAVNGETCLSKKQAVAEGDRICVELP 68 Query: 64 -----GVPLRK-------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 G + + E L + K GLV + T+ + L Sbjct: 69 EIREPGAIVPQAIPLDIRYEDDYLIVLSKQRGLVCHPAHGHEDGTLANALVHHCGIEHLG 128 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 + G++ + +L + R + + + L G ++ Sbjct: 129 TVQGEDRPGIVHRLDRDTSGLMLAAKDDETQRELQNLIRTRTLDRRYITLVHGEIVMDEG 188 Query: 172 Y--------------------GDMQVTL-----------DTQKGSNAWVTVGLREGKNRE 200 + + V L G+ + Sbjct: 189 TINTGIARSTRDRVKMAVSDDPFARQAITTFQVLERFEPARGDEGYTLVECHLYTGRTHQ 248 Query: 201 IKKVFEFFNWKVN 213 I+ + + Sbjct: 249 IRVHMRHIHHPLV 261 >gi|239831305|ref|ZP_04679634.1| hemolysin A [Ochrobactrum intermedium LMG 3301] gi|239823572|gb|EEQ95140.1| hemolysin A [Ochrobactrum intermedium LMG 3301] Length = 253 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V+ +I VD Sbjct: 11 RLDQLLVELGLFATRSRARDAIQRGTVKVDGKPVTKPGQTVLRNANIAVDD 61 >gi|310287601|ref|YP_003938859.1| FtsJ-like methyltransferase domain [Bifidobacterium bifidum S17] gi|311064517|ref|YP_003971242.1| hemolysinIII-like protein [Bifidobacterium bifidum PRL2010] gi|309251537|gb|ADO53285.1| conserved hypothetical protein with FtsJ-like methyltransferase domain [Bifidobacterium bifidum S17] gi|310866836|gb|ADP36205.1| Hemolysin-like protein with S4 and FtsJ-like methyltransferase domains [Bifidobacterium bifidum PRL2010] Length = 252 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ +I G+ SR + +R+I V V+G+ + + A NV + I VD Sbjct: 2 ERLDALIVGLGLVPSRSKAQRLIRDGHVLVDGVAVTKPAANVATASSITVD 52 >gi|224283243|ref|ZP_03646565.1| Putative rRNA methylase [Bifidobacterium bifidum NCIMB 41171] Length = 252 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ +I G+ SR + +R+I V V+G+ + + A NV + I VD Sbjct: 2 ERLDALIVGLGLVPSRSKAQRLIRDGHVLVDGVAVTKPAANVATASSITVD 52 >gi|221195841|ref|ZP_03568894.1| ribosomal large subunit pseudouridine synthase D [Atopobium rimae ATCC 49626] gi|221184315|gb|EEE16709.1| ribosomal large subunit pseudouridine synthase D [Atopobium rimae ATCC 49626] Length = 338 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 26/253 (10%), Positives = 58/253 (22%), Gaps = 48/253 (18%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DG 64 R+ +A SR +++ + +V +NG + + V+ D + V G Sbjct: 12 PEGDGIRIDAFLAAQDELPSRSACAKLVEEGKVFINGTPVSSKSEKVLLGDRLMVVLPKG 71 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P +R ++ + L + + + + + Sbjct: 72 EPEAGLLVPNPDIPLDIRFEDQYLIVLSKQAGLVCHPSPGHIDDTLANALVAHCGYEHLG 131 Query: 111 --VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 G L + G + + L+ L Sbjct: 132 LLQGEDRPGIVHRLDMDTSGLMVAAKSDEVQKALQDLIRLRVLDRRYVVLVQGYVAPDEG 191 Query: 169 GICYGDMQVTLD----------------------------TQKGSNAWVTVGLREGKNRE 200 I G + D + + + L G+ + Sbjct: 192 TIETGIARSIRDRLKMTVTDAPGAREAITTFRTLERFEAGRRGEGYSLLECHLYTGRTHQ 251 Query: 201 IKKVFEFFNWKVN 213 I+ V Sbjct: 252 IRVHMRHVGHPVV 264 >gi|153953824|ref|YP_001394589.1| pseudouridine synthase [Clostridium kluyveri DSM 555] gi|219854440|ref|YP_002471562.1| hypothetical protein CKR_1097 [Clostridium kluyveri NBRC 12016] gi|146346705|gb|EDK33241.1| Predicted pseudouridine synthase [Clostridium kluyveri DSM 555] gi|219568164|dbj|BAH06148.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 305 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 38/249 (15%), Positives = 78/249 (31%), Gaps = 36/249 (14%) Query: 1 MKDKNI-VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNG-------ILLERAA 51 MK +N V ++ R+ I + SR ++ +I V+VN Sbjct: 1 MKIRNFLVNDDEENLRLDLFICKHIQDKSRSYIQNLIEDNLVEVNHRMKKSNYKTKTGDN 60 Query: 52 VNVMSTDHIEVD--GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + V D +E++ G ++ + + + +V S + V L Sbjct: 61 IKVSLPDAVELNIKGEDIKLDILYEDSDVIVVNKPQGMIVHPASGVYTGTLVNALLNHCR 120 Query: 106 S---------RVISVGRLDINTEGLLLLTNDGGLARVLELP-STQWLRVYRVRFHGQVDQ 155 R V R+D +T G+L++ + L + + + + Sbjct: 121 EDLSGINGIARPGIVHRIDKDTSGILVIAKNDMSHNKLSEQLKDHSMTREYIALVEGIIK 180 Query: 156 DKLNLLKKGI-----------VIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 ++ L K I V++G + + V L G+ +I+ Sbjct: 181 EEKGSLDKPIGRHKKDKIKMAVVEGGKRAVTHYEVIKRFKEYTLVKCILETGRTHQIRVH 240 Query: 205 FEFFNWKVN 213 + V Sbjct: 241 MCYLGHPVV 249 >gi|116754873|ref|YP_843991.1| RNA-binding S4 domain-containing protein [Methanosaeta thermophila PT] gi|116666324|gb|ABK15351.1| RNA-binding S4 domain protein [Methanosaeta thermophila PT] Length = 238 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 1/49 (2%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + SR + +I +V VNG + + + V D +E+ Sbjct: 3 MRLDIYLVEI-AGSRSKAVHLIKSGKVMVNGAVCRKQSYRVKPGDRVEI 50 >gi|260912661|ref|ZP_05919147.1| ribosomal large subunit pseudouridine synthase D [Pasteurella dagmatis ATCC 43325] gi|260633039|gb|EEX51204.1| ribosomal large subunit pseudouridine synthase D [Pasteurella dagmatis ATCC 43325] Length = 324 Score = 56.7 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 28/232 (12%), Positives = 60/232 (25%), Gaps = 31/232 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 QR+ + +A SR ++ I + V VNG ++ V + IE+ Sbjct: 16 GQRLDQTLAELFPDYSRSRLKTWIEDELVLVNGEVVILPRAKVYGGEQIEITVEIEEDSR 75 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 + + L + +V + + + L Sbjct: 76 FMPENLPLNIVYEDDDILVINKPKDFVVHPGAGNPTGTVLNALLYHYPQIAEVPRAGIVH 135 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQDKLNLL 161 RLD +T GL+++ L + Q Sbjct: 136 RLDKDTTGLMVIAKTIPAQTKLVRDLQKRKITREYEAIASGIMTKGGMVDQPMARHPTKR 195 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + V + + + + + L G+ +I+ + Sbjct: 196 TQMAVHPMGKPAITHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|310778176|ref|YP_003966509.1| pseudouridine synthase [Ilyobacter polytropus DSM 2926] gi|309747499|gb|ADO82161.1| pseudouridine synthase [Ilyobacter polytropus DSM 2926] Length = 289 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 33/256 (12%), Positives = 77/256 (30%), Gaps = 53/256 (20%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRR--------EVERMIAQQRVKVNGILLERAAV 52 M+ K + +NF R+ K I R+ E+ ++I + R+KVNG +++ Sbjct: 1 MEHK--IDKNFHDTRLDKYI-------RKKYEGINLTEIFKLIRKGRIKVNGKKVKQ-NY 50 Query: 53 NVMSTDHIEV---DGVP-------------------LRKAERTRLWLYHKPIGLVTTHSD 90 + D ++V G + + L P ++ S Sbjct: 51 RLQDGDIVKVFYMGGETAVKKFIDLSPKETEYIKKGIVYEDEDVLLFNKSPNMVMHKGSG 110 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR-----VLELPSTQWLRVY 145 D + + R+D T GL++ + + R + + + + Sbjct: 111 HDYGLSEMLKSYYQREDFTFINRIDKATSGLIIGAKNLPMTRKLSEDMRDGNINKRYYIL 170 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ--------VTLDTQKGSNAWVTVGLREGK 197 + + + LKK + + + + + L G+ Sbjct: 171 VEGRVDREEFQIKSYLKKTDTHVVELEKYEKGAKESISYFKVVQRGKNRTILEGTLGTGR 230 Query: 198 NREIKKVFEFFNWKVN 213 +++ + Sbjct: 231 THQLRVHLANLGHPIV 246 >gi|188585950|ref|YP_001917495.1| pseudouridine synthase, RluA family [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350637|gb|ACB84907.1| pseudouridine synthase, RluA family [Natranaerobius thermophilus JW/NM-WN-LF] Length = 328 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 40/247 (16%), Positives = 81/247 (32%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I +E R+ ++ SR + + +I V VN ++ A+ ++ S D ++VD Sbjct: 17 IPKEKDEGLRLDLYLSEQIEDLSRSKAKMLINNNSVMVNDNWVK-ASYSITSGDVVKVDT 75 Query: 65 VPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR--- 107 ++ E L + +KP +V + R T+ + L Sbjct: 76 QLIQSEITLIPQSIPLDIVYEDEYLLVVNKPRNMVVHPGAGNYRDTMVNALLYHCQNLSD 135 Query: 108 ------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR-------------VYRVR 148 V RLD +T GLL++ +L + Sbjct: 136 GTSYERPGIVHRLDKDTSGLLVVAKQNETHDILSEEIKNRRVARTYLALVIGDFSKKKAT 195 Query: 149 FHGQVDQDKLNLLKKGIVIQGICY-GDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFE 206 + +D N K +V G +++ Q +++ L G+ +I+ Sbjct: 196 IDLPIGRDPRNRKKMAVVHGGKRAITKVEMLRSFQNPEKISYLKCSLETGRTHQIRVHLS 255 Query: 207 FFNWKVN 213 + + Sbjct: 256 HLGYPLL 262 >gi|88802386|ref|ZP_01117913.1| ribosomal large subunit pseudouridine synthase D [Polaribacter irgensii 23-P] gi|88781244|gb|EAR12422.1| ribosomal large subunit pseudouridine synthase D [Polaribacter irgensii 23-P] Length = 346 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 36/246 (14%), Positives = 73/246 (29%), Gaps = 39/246 (15%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K + P RV K + A+R ++++ V VN I ++ V D + + Sbjct: 19 KFVASAGQEPLRVDKFLMNFIENATRSKLQQAAKAGNVLVNEISVKS-NHKVKPNDVVRI 77 Query: 63 -------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + +PL + T + + +V + V + I + Sbjct: 78 VLAYPPAESLLVAEDIPLDIIYEDDTVIVVNKPAGMVVHPGHGNYSGTLVNGLIHHIENL 137 Query: 108 VISV-------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRV 147 + R+D +T GLL++ L + Sbjct: 138 PTNSNERPGLVHRIDKDTSGLLVVAKTEFAMANLSRQFFERTTERLYYALVWGNVAEDEG 197 Query: 148 RFHGQVDQDKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 R G + + N L+ + G + + + V L G+ +I+ F Sbjct: 198 RIEGNIGRSLKNRLQMAVFPDGDFGKHAVSHYKVLERLTYVTLVECKLETGRTHQIRAHF 257 Query: 206 EFFNWK 211 + Sbjct: 258 KHIGHT 263 >gi|154705997|ref|YP_001424165.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii Dugway 5J108-111] gi|154355283|gb|ABS76745.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii Dugway 5J108-111] Length = 323 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 73/239 (30%), Gaps = 31/239 (12%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I+ R+ +V+A+ SR +++ I VKV+GI +A V IE+ Sbjct: 9 KKIIPPELAGARLDQVLAKLFPDYSRSQLQNWIRGGHVKVDGIQKTKAREKVRENQFIEI 68 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + T L + +V + ++ + L S Sbjct: 69 EAQLEPNERWVPQPIPLDVIYEDETLLVINKPVGLIVHPGAGVRDQTLINALLHYDPSLS 128 Query: 109 ISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRV------------RFHGQ 152 + I+ LLL + + + + ++ R R Sbjct: 129 VVPRAGIIHRLDKDTSGLLLIARTLASHHALIKTMKARQIVREYEAIVKGVLISGRTIEA 188 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V++ + + ++ + V L G+ +I+ + Sbjct: 189 PVGRHPIHRTRMAVVEFGRPAITHFRIIKRYRAHTHIRVQLETGRTHQIRVHMAHIHHP 247 >gi|229825482|ref|ZP_04451551.1| hypothetical protein GCWU000182_00842 [Abiotrophia defectiva ATCC 49176] gi|229790045|gb|EEP26159.1| hypothetical protein GCWU000182_00842 [Abiotrophia defectiva ATCC 49176] Length = 275 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G SR + + +I V VNG ++A IEV G L+ Sbjct: 3 ERLDVLLTERGFFVSREKAKAVIMAGEVFVNGQREDKAGSKFDREAEIEVKGKVLKY 59 >gi|298492205|ref|YP_003722382.1| hemolysin A ['Nostoc azollae' 0708] gi|298234123|gb|ADI65259.1| hemolysin A ['Nostoc azollae' 0708] Length = 270 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 1/54 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 QR+ ++ G++ SR++ +R+I V+VN ++++A V T I+V P Sbjct: 4 QRLDTLLVDLGLSPSRQQAQRLIQAGEVRVNQQVIDKAGTEVDITAQIQVKQRP 57 >gi|313140389|ref|ZP_07802582.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB 41171] gi|313132899|gb|EFR50516.1| conserved hypothetical protein [Bifidobacterium bifidum NCIMB 41171] Length = 264 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ +I G+ SR + +R+I V V+G+ + + A NV + I VD Sbjct: 14 ERLDALIVGLGLVPSRSKAQRLIRDGHVLVDGVAVTKPAANVATASSITVD 64 >gi|260663035|ref|ZP_05863928.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN] gi|260552656|gb|EEX25656.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN] Length = 304 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 31/231 (13%), Positives = 65/231 (28%), Gaps = 35/231 (15%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLE-----RAAVNV--MSTDHIEVDGVP 66 R+ K + SR +++R I V VNG ++ +A V +E+D P Sbjct: 17 RIDKELGHHFPQFSRSQLKRWIDDGTVTVNGQTVKAKYQLQAGDRVVIEPETPVEIDLEP 76 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----------- 109 + + L + +V + V + I Sbjct: 77 ENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYHAPLSSINGELRPGIVHR 136 Query: 110 ---------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 V + D L + R ++ + + + Sbjct: 137 IDKDTSGLLMVAKTDRAHRSLTAQLKEKSNLREYVALVHGVIKENEGTIDAPLARSPKDR 196 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ +V+ G + + + V L G+ +I+ ++ N Sbjct: 197 KKQAVVV-GGRHAITHFRVLKRYQHYTLVACRLETGRTHQIRVHMKYINHP 246 >gi|215919036|ref|YP_338280.2| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii RSA 493] gi|206583921|gb|AAZ22628.2| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii RSA 493] Length = 327 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 73/239 (30%), Gaps = 31/239 (12%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I+ R+ +V+A+ SR +++ I VKV+GI +A V IE+ Sbjct: 13 KKIIPPELAGARLDQVLAKLFPDYSRSQLQNWIRGGHVKVDGIQKTKAREKVRENQFIEI 72 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + T L + +V + ++ + L S Sbjct: 73 EAQLEPNERWVPQPIPLDVIYEDETLLVINKPVGLIVHPGAGVRDQTLINALLHYDPSLS 132 Query: 109 ISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRV------------RFHGQ 152 + I+ LLL + + + + ++ R R Sbjct: 133 VVPRAGIIHRLDKDTSGLLLIARTLASHHALIKAMKARQIVREYEAIVKGVLISGRTIEA 192 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V++ + + ++ + V L G+ +I+ + Sbjct: 193 PVGRHPIHRTRMAVVEFGRPAITHFRIIKRYRAHTHIRVQLETGRTHQIRVHMAHIHHP 251 >gi|91206061|ref|YP_538416.1| ribosomal large subunit pseudouridine synthase RluD subfamily protein [Rickettsia bellii RML369-C] gi|157826559|ref|YP_001495623.1| ribosomal large subunit pseudouridine synthase RluD subfamily protein [Rickettsia bellii OSU 85-389] gi|91069605|gb|ABE05327.1| Ribosomal large subunit pseudouridine synthase RluD subfamily protein [Rickettsia bellii RML369-C] gi|157801863|gb|ABV78586.1| Ribosomal large subunit pseudouridine synthase RluD subfamily protein [Rickettsia bellii OSU 85-389] Length = 312 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 34/245 (13%), Positives = 70/245 (28%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V + R+ K +++ SR ++++ I V++N +++ + + V D I Sbjct: 6 VPTELSGLRLDKALSQLLENVSRNQIQKAIKSSCVQINNVIILDSDILVKENDIILFSFK 65 Query: 63 ----------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----- 107 D E L + +K G+ T+ + L Sbjct: 66 EPEELTIEAADIKLDIVYEDEDLIVINKAAGMTVHPGAGHHDDTLVNALLHHTRNLSDIG 125 Query: 108 -VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 G + + L + L + Q + VR + + +N L+ I Sbjct: 126 SSERPGIVHRLDKDTTGLMVVAKNNKAHMLLANQIEQRQVVRKYKALVWGVINPLEGTIK 185 Query: 167 IQGICYGDMQVTL------------------DTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + GS + V L G+ +I+ Sbjct: 186 NNIGRSRSDRQKMTILKYGGKEAVTYYKTLELFYGGSISMVECKLATGRTHQIRVQLSHL 245 Query: 209 NWKVN 213 V Sbjct: 246 KHSVV 250 >gi|39933445|ref|NP_945721.1| pseudouridine synthase RluD [Rhodopseudomonas palustris CGA009] gi|39647291|emb|CAE25812.1| possible pseudouridine synthases [Rhodopseudomonas palustris CGA009] Length = 407 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 34/254 (13%), Positives = 75/254 (29%), Gaps = 46/254 (18%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 +V + QR+ +V+A R SR ++ +I RV + G + A + + I +D Sbjct: 85 VVAGDEGSQRLDRVLAARCPELSRSRLKALILDGRVAIAGTPVRDPAYHASPGETITIDV 144 Query: 64 ---------GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 G + + + L +V + + + V + + + Sbjct: 145 PPPVPAEPAGEAIALDIVYEDADIIVLNKPRGLVVHPAAGHETGTLVNALIAHCGASLSG 204 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 +G + L + GL + + HG+ + + L + G Sbjct: 205 IGGVRRPGIVHRLDKDTTGLMVAAKNDKAHQSLSAQFADHGRTGELRRGYLAFVWGVPGR 264 Query: 171 CYGDMQVTLDT--------------QKGSNAW-----------------VTVGLREGKNR 199 YG + +D ++ W + L G+ Sbjct: 265 KYGTIDAPIDRHPHAREKMAVRQSGREAITHWEVLENFSGKDGKPVAALIACQLETGRTH 324 Query: 200 EIKKVFEFFNWKVN 213 +I+ + Sbjct: 325 QIRVHLAHLGHPLL 338 >gi|288962534|ref|YP_003452829.1| ribosomal large subunit pseudouridine synthase D [Azospirillum sp. B510] gi|288914800|dbj|BAI76285.1| ribosomal large subunit pseudouridine synthase D [Azospirillum sp. B510] Length = 363 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 38/246 (15%), Positives = 76/246 (30%), Gaps = 40/246 (16%) Query: 7 VQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 + + QR+ K ++ AG+ SR V+ ++ Q V+ +G + + V E+ Sbjct: 46 IPDTAAGQRLDKALS-AGLPDLSRSRVQALLEQGCVRGDGRTITDPSQRVKYGQIFELRM 104 Query: 63 ----------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 +PL + L + +V + + V L Sbjct: 105 PGSAAAEPLPQDIPLDVVYEDADVLVVDKPAGLVVHPAAGNPDGTLVNALLAHCGDSLSG 164 Query: 106 ----SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVR 148 R V RLD +T GL+++ + L + R Sbjct: 165 IGGVRRPGIVHRLDKDTSGLMVVAKNDRAHHGLSDQFSDRTLSRTYLALVWGVPNPTQGR 224 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEF 207 G + + + K +V G + + G + + V L G+ +I+ Sbjct: 225 IEGNIGRSSADRKKMAVVTGGGKPAGTKYRVVKSFGMAASLVECVLETGRTHQIRVHLTH 284 Query: 208 FNWKVN 213 + Sbjct: 285 IGHPLV 290 >gi|86144060|ref|ZP_01062398.1| ribosomal large subunit pseudouridine synthase D [Leeuwenhoekiella blandensis MED217] gi|85829520|gb|EAQ47984.1| ribosomal large subunit pseudouridine synthase D [Leeuwenhoekiella blandensis MED217] Length = 344 Score = 56.3 bits (134), Expect = 6e-06, Method: Composition-based stats. Identities = 29/241 (12%), Positives = 73/241 (30%), Gaps = 39/241 (16%) Query: 9 ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP- 66 + P RV K + A+R ++++ ++VNG ++++ V + D + V Sbjct: 26 KGQEPLRVDKFLMNFIEKATRNKIQQAAKNGNIQVNGAVVKQ-NHKVKANDVVRVLFEHP 84 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV- 111 + + T L + +V + + + + + Sbjct: 85 PYEFLLTPEDIPLDIVFEDDTLLVVNKPAGMVVHPGHGNYSGTLINALIYHFDNLPENSS 144 Query: 112 ------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHGQ 152 R+D +T GLL++ L + + G Sbjct: 145 GRPGLVHRIDKDTSGLLVVAKTEEAMTHLAKQFFDKTSEREYIAIVWGNVEEDQGTVEGH 204 Query: 153 VDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + N ++ + G + + + G ++ L G+ +I+ + Sbjct: 205 IGRHPKNRMQNTVYEDGDQGKEAVTHYKVLERLGYVTKISCKLETGRTHQIRVHMKHIGH 264 Query: 211 K 211 Sbjct: 265 T 265 >gi|332535270|ref|ZP_08411072.1| ribosomal large subunit pseudouridine synthase D [Pseudoalteromonas haloplanktis ANT/505] gi|332035301|gb|EGI71805.1| ribosomal large subunit pseudouridine synthase D [Pseudoalteromonas haloplanktis ANT/505] Length = 325 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 26/233 (11%), Positives = 65/233 (27%), Gaps = 32/233 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------- 62 +R+ +V+A+ SR ++ I ++ V+G + ++ + + V Sbjct: 17 GKRLDQVLAQLFPDYSRSRIKTWILDDKITVDGEIFNTPREKLLGGEVVSVETTIEAPRE 76 Query: 63 ----DGVP-LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 D + + L + +V + + + L + Sbjct: 77 YEAQDIKLNIVYEDDDILVINKPMGLVVHPGAGNPNGTVLNALLHYYPEIINVPRAGIVH 136 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------KLNL 160 RLD +T GL+++ L + R Sbjct: 137 RLDKDTTGLMVVAKTIPAQTHLVTALQKRENFTREYEALCNGTMTAGGMVEKAIGRHPTQ 196 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + ++ + + L G+ +I+ N + Sbjct: 197 RTHMAVHELGKPAITHYRVAEKFRAHTRLRLRLETGRTHQIRVHMAHLNHPLI 249 >gi|323343928|ref|ZP_08084155.1| ribosomal large subunit pseudouridine synthase D [Prevotella oralis ATCC 33269] gi|323095747|gb|EFZ38321.1| ribosomal large subunit pseudouridine synthase D [Prevotella oralis ATCC 33269] Length = 355 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 39/247 (15%), Positives = 74/247 (29%), Gaps = 42/247 (17%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + P R+ K ++ +SR ++R V VN ++ V D I + Sbjct: 26 VVDKGQEPLRIDKYMSEKLQHSSRNRIQRAADAGFVHVNDRPVKS-NYKVRPLDVITLML 84 Query: 63 -----------DGVPLRKA-ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +PL E + L + +KP GLV + T+ + + + S Sbjct: 85 DRPRHDSTIEAEDIPLDIVFEDSELMVINKPAGLVVHPGVGNFHGTLVNAIAWHLKDLKS 144 Query: 111 VGRLDI----------NTEGLLLLTNDGG-------------LARVLELPSTQWLRVYRV 147 D +T GLL++ R Sbjct: 145 FDPNDPEVGLVHRIDKDTSGLLVIAKTPMAKTKLGLQFFNKTTHRSYNALVWGNFTEDEG 204 Query: 148 RFHGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 R G + +D + L+ + + + G V L G+ +I+ Sbjct: 205 RIEGNIARDPKDRLRMTVFAPDSEIGKSAVTHYRVIERFGYVTLVECILETGRTHQIRAH 264 Query: 205 FEFFNWK 211 + Sbjct: 265 MKHIGHP 271 >gi|187928999|ref|YP_001899486.1| pseudouridine synthase [Ralstonia pickettii 12J] gi|309782614|ref|ZP_07677336.1| ribosomal large subunit pseudouridine synthase D [Ralstonia sp. 5_7_47FAA] gi|187725889|gb|ACD27054.1| pseudouridine synthase, RluA family [Ralstonia pickettii 12J] gi|308918589|gb|EFP64264.1| ribosomal large subunit pseudouridine synthase D [Ralstonia sp. 5_7_47FAA] Length = 370 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 71/245 (28%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E +R+ K +A+ SR +++ I V++ G ++ + D IEV Sbjct: 55 IPETMHGERLDKALAKLLPDYSRSRLQQWIDAGAVRLRGEVVR-PRAAISGGDRIEVVPQ 113 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + T L + +V + + + L Sbjct: 114 RAADENAFVAEPIDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPDAVEL 173 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPST--------------QWLRVYRVRFHG 151 R V RLD +T GL+++ L + + Sbjct: 174 PRAGIVHRLDKDTSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEEATIDAPI 233 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 234 GRDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQVSLVRCQLETGRTHQIRVHFESE 293 Query: 209 NWKVN 213 + Sbjct: 294 GHPLL 298 >gi|331001807|ref|ZP_08325329.1| hypothetical protein HMPREF0491_00191 [Lachnospiraceae oral taxon 107 str. F0167] gi|330412781|gb|EGG92164.1| hypothetical protein HMPREF0491_00191 [Lachnospiraceae oral taxon 107 str. F0167] Length = 304 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 26/250 (10%), Positives = 67/250 (26%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFT-PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M + I+ E +R+ +++ SR ++ +I + + + G ++ A + D Sbjct: 1 MDNFEIIAEESDINKRIDVFLSKNLESFSRSYIQDLIKKGKATIGGKTIK-ANYRLREGD 59 Query: 59 HIEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + + PL + + + +V + + V L Sbjct: 60 IVALAIPKPEPLEILPENIPLDIVYEDNDVILVNKPKGMVVHPAAGHYSGTLVNALLYHC 119 Query: 105 FSR-VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------- 155 G L + + G + + Q + Sbjct: 120 KDNLSGINGVLRPGIVHRIDMDTTGIIIVCKNDNAHQHIAKQLAEHSITRKYVAIVSGNI 179 Query: 156 ------------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 N KK V + + + + ++ L G+ +I+ Sbjct: 180 KEDEGVVDAAIARSKNDRKKMTVDKDGKRAVTHFKVLERLNNYTYIECVLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 + + + Sbjct: 240 HMSYLHHPLL 249 >gi|309792569|ref|ZP_07687031.1| RluA family pseudouridine synthase [Oscillochloris trichoides DG6] gi|308225383|gb|EFO79149.1| RluA family pseudouridine synthase [Oscillochloris trichoides DG6] Length = 299 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 35/280 (12%), Positives = 76/280 (27%), Gaps = 50/280 (17%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLE---------RAAVNVMS 56 ++ R+ + +A+A SR V+ +IA +V VN + +V V Sbjct: 1 MEAQAAGHRLDRFVAQALPDLSRSFVQHLIAAGQVLVNAQAVRPSHALRHGDLVSVTVPP 60 Query: 57 TDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + + + + + + +V + V L + Sbjct: 61 AQPVALVPEAIPLHVVYEDADVVVVEKPAGMVVHPAPGHPNGTLVNALLARYPDMQVGGD 120 Query: 113 RLDINTEGLLLLTN--------------------DGGLARVLELPSTQWLRVYRVRFHGQ 152 L T+ + ++ + + Sbjct: 121 LRPGIVHRLDAGTSGLLVVARHDQALRHLTALQHARQMRKIYLAVAEGRFKQAEGLIDAP 180 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 V + + L+ + G + + G+ + + L G+ +I+ + + Sbjct: 181 VGRHPHDRLRMAVTPTGREART-HYRVCEELGNYTLLELRLETGRTHQIRVHLQHLGRPI 239 Query: 213 N--------------RLIRISYGPFQLG-TLLAGSTREVS 237 L R LG LL GS RE + Sbjct: 240 LGDPLYGVRKGRPTFGLERQFLHAHCLGFQLLDGSWREFT 279 >gi|295101862|emb|CBK99407.1| Uncharacterized conserved protein [Faecalibacterium prausnitzii L2-6] Length = 71 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 12/61 (19%), Positives = 26/61 (42%), Gaps = 1/61 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ ++ AG+ + E + ++ VKVNG + D +E+DG + Sbjct: 7 HTEFIKLDALLKYAGLCETGGEAKELVQGGAVKVNGEVCTMRGKKCRPGDTVELDGQTIE 66 Query: 69 K 69 Sbjct: 67 I 67 >gi|237746821|ref|ZP_04577301.1| ribosomal large subunit pseudouridine synthase D [Oxalobacter formigenes HOxBLS] gi|229378172|gb|EEO28263.1| ribosomal large subunit pseudouridine synthase D [Oxalobacter formigenes HOxBLS] Length = 342 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 37/247 (14%), Positives = 75/247 (30%), Gaps = 37/247 (14%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + ++ +R+ K++AR SR ++R I Q V V+G + V + + + Sbjct: 30 RFVLSLKEGGERLDKIVARHLPDYSRSRIQRWIEQGYVTVDGKAAQGKQTVVGDEEIVVL 89 Query: 63 ------D--------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 D G P+ +R L + +V + + + L + Sbjct: 90 PQLAEEDLAFVPEPVGFPVLFEDRDILVVNKPAGLVVHPAAGNWSGTLLNGLLHHLPKSA 149 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELP------STQWLRVYRVRFHGQVDQDK 157 R V RLD +T GL+++ L ++L + D+ Sbjct: 150 AIPRAGIVHRLDKDTSGLMVVAKTLEAQTHLVRQLQARTVRREYLALVWGETPVAGTVDQ 209 Query: 158 LNLLKKGIVIQGICYGDMQVTL-----------DTQKGSNAWVTVGLREGKNREIKKVFE 206 I+ + V L G+ +I+ + Sbjct: 210 PIGRHPKDRIKMAVLQTASGKPAVTHYRLLETGVCNGSKVSLVKCRLETGRTHQIRVHMQ 269 Query: 207 FFNWKVN 213 F + + Sbjct: 270 FSGFPLV 276 >gi|254458907|ref|ZP_05072330.1| ribosomal RNA large subunit methyltransferase J [Campylobacterales bacterium GD 1] gi|207084178|gb|EDZ61467.1| ribosomal RNA large subunit methyltransferase J [Campylobacterales bacterium GD 1] Length = 235 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + ++ SR + + +I V VNG ++ ++++ + +D + V Sbjct: 1 MRLDNYLVENSLSESRTKAQGIIKDGLVSVNGNIITKSSLKIDESDEVNV 50 >gi|237708677|ref|ZP_04539158.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 9_1_42FAA] gi|229457377|gb|EEO63098.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 9_1_42FAA] Length = 357 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 31/269 (11%), Positives = 66/269 (24%), Gaps = 42/269 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + RV K + + +SR +++ + NG ++ + V D + V Sbjct: 33 VVDKGQSQVRVDKYLFERLVNSSRNRIQKAADAGLIMANGKPVKS-SYKVKPCDVLTVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYDNAIIPEDIPLDIVYEDNDLMVINKPAGLVVHPGCGNYHGTLVNAIAWHLKDNPR 151 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D GL + Sbjct: 152 YDPNDPQVGLVHRIDKDTSGLLVVAKTPDAKTHLGLQFYNKTTKRKYNALVWGIVENNEG 211 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 212 TIEGNIGRNPKDRMQMAVLSDPAQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHM 271 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + R G L + Sbjct: 272 KHIGHTLFNDERYG-GNEILKGTHFSKYK 299 >gi|227514877|ref|ZP_03944926.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931] gi|227086724|gb|EEI22036.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931] Length = 291 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 31/231 (13%), Positives = 65/231 (28%), Gaps = 35/231 (15%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLE-----RAAVNV--MSTDHIEVDGVP 66 R+ K + SR +++R I V VNG ++ +A V +E+D P Sbjct: 4 RIDKELGHHFPQFSRSQLKRWIDDGTVTVNGQTVKAKYQLQAGDRVVIKPETPVEIDLEP 63 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----------- 109 + + L + +V + V + I Sbjct: 64 ENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYYAPLSSINGELRPGIVHR 123 Query: 110 ---------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 V + D L + R ++ + + + Sbjct: 124 IDKDTSGLLMVAKTDRAHRSLTAQLKEKSNLREYVALVHGVIKENEGTIDAPLARSPKDR 183 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ +V+ G + + + V L G+ +I+ ++ N Sbjct: 184 KKQAVVV-GGRHAVTHFRVLKRYQHYTLVACRLETGRTHQIRVHMKYINHP 233 >gi|220907439|ref|YP_002482750.1| hemolysin A [Cyanothece sp. PCC 7425] gi|219864050|gb|ACL44389.1| hemolysin A [Cyanothece sp. PCC 7425] Length = 267 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ + SR++ +R+I V+VN ++++ V I+V Sbjct: 4 QRLDTLLVDRQLCDSRQQAQRLIRAGEVRVNQQVIDKPGTEVDVQAQIQV 53 >gi|149371695|ref|ZP_01891111.1| ribosomal large subunit pseudouridine synthase D [unidentified eubacterium SCB49] gi|149355322|gb|EDM43882.1| ribosomal large subunit pseudouridine synthase D [unidentified eubacterium SCB49] Length = 348 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 34/249 (13%), Positives = 78/249 (31%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + + P RV K + A+R ++++ + + VN ++++ V + D + V Sbjct: 22 RFVADKGQQPLRVDKYLMNRVENATRSKIQKAAKEGNIFVNNVIVKS-NYKVKANDVVTV 80 Query: 63 --------------D-GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-- 105 D + + + L + +P +V + + + I Sbjct: 81 LFAHPPYELLLTPEDIDIDIVYEDDDLLVVNKQPGMVVHPGHGNYSGTLINALIHHIDNL 140 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRV 147 +R V R+D +T GLL++ L + Sbjct: 141 PNNSSNRPGLVHRIDKDTSGLLVVAKTEEAMTHLAKQFFDKTTEREYVALVWGNIEDDEG 200 Query: 148 RFHGQVDQDKLNLLKKGIVIQG-----ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 G + + N L+ + + + + G V+ L G+ +I+ Sbjct: 201 TIEGHIGRHPKNRLQNTVFLDEDAEEKGKAAVTHFKVLERFGYVTLVSCKLETGRTHQIR 260 Query: 203 KVFEFFNWK 211 +F Sbjct: 261 VHMKFIGHT 269 >gi|121533717|ref|ZP_01665544.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans Nor1] gi|121307708|gb|EAX48623.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans Nor1] Length = 309 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 67/244 (27%), Gaps = 37/244 (15%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 I ++ +R+ + R SR ++R+IA V VNG +A + D++ + Sbjct: 12 IAEDVDKGKRLDLFLVERLPELSRTHIQRIIAAGEVTVNGK-AGKANYKLAPADYVTIRL 70 Query: 63 -DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + P + + + + +V + + V L Sbjct: 71 PEPKPAEIKAEAISLDILYEDEDIIVINKPRGMVVHPAAGNYEGTLVNALLRHCDRLSGI 130 Query: 111 VG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 G + D L + R ++ + Sbjct: 131 NGVSRPGIVHRLDKDTSGVMMVAKTDRAHLDLARQIKERTAGRKYVAIVHGNIKENQGII 190 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + K +V + + G V L G+ +I+ + Sbjct: 191 NAPIGRHPTDRKKMAVVFTNSKEAITTFQVLERFGDYTLVECRLFTGRTHQIRVHMAYIG 250 Query: 210 WKVN 213 V Sbjct: 251 HPVV 254 >gi|119946871|ref|YP_944551.1| pseudouridine synthase, RluA family protein [Psychromonas ingrahamii 37] gi|119865475|gb|ABM04952.1| ribosomal large subunit pseudouridine synthase D [Psychromonas ingrahamii 37] Length = 322 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 28/228 (12%), Positives = 68/228 (29%), Gaps = 32/228 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMST----------DHIEVD 63 R+ + +A SR ++ I VK++G ++ R V + D + Sbjct: 19 RLDQAVASLFPDYSRTRIKEWILADMVKIDGEVINRPREKVYTGQTVGVQAVLEDEVVFK 78 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 ++ + L + +V + + + L + RL Sbjct: 79 AQKIKLEIVYEDDDILVINKPAGLVVHPGAGNPDGTVLNALLHHFPQIIEVPRAGIVHRL 138 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVDQDKLNLLK 162 D +T GL+++ L + +DK++ +K Sbjct: 139 DKDTTGLMVVAKTVPAQTHLVTSLQAREITREYEAIAMGGFTAGGFVEAPIGRDKVHRVK 198 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + G + + + ++ + + L G+ +I+ Sbjct: 199 MAVNSTGGKHALTHYRVSEKYRAHTRLRLRLETGRTHQIRVHMMHIGH 246 >gi|21672662|ref|NP_660729.1| ribosomal large subunit pseudouridine synthase D [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|25009121|sp|Q8K9E9|RLUD_BUCAP RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|21623299|gb|AAM67940.1| ribosomal large subunit pseudouridine synthase d [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 315 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 28/234 (11%), Positives = 77/234 (32%), Gaps = 31/234 (13%) Query: 11 FTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGV- 65 F+ +R+ +++++ + SR +++ I V +NG + + ++ + I + D Sbjct: 15 FSGKRLDQILSKLFMQYSRSCLKKWIIMNNVYINGKIENQPDKKILGGEKITIYSTDEKL 74 Query: 66 PLR----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-----FSRVIS 110 P+ + L + P +V + + + L R Sbjct: 75 PINLPQNIALNTIYEDSNILIINKPPGLVVHPGAGNQDGTILNALLYRYTNISSIPRCGI 134 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------DKLNLL 161 + RLD +T GL+++ L + + + + + + + Sbjct: 135 IHRLDKDTSGLMVIAKTIFSYNKLVTLLKKRKIIRKYQGIIKGNMISGGIVNYPIMRHPF 194 Query: 162 KKGIVIQGICYGD--MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K+ + + + + V+ L G+ +I+ + + Sbjct: 195 KRICMTTDSLGKKSITHYKIINRFKFHTHVSFRLETGRTHQIRVHMLHIGYPLL 248 >gi|255692432|ref|ZP_05416107.1| ribosomal large subunit pseudouridine synthase D [Bacteroides finegoldii DSM 17565] gi|260621900|gb|EEX44771.1| ribosomal large subunit pseudouridine synthase D [Bacteroides finegoldii DSM 17565] Length = 357 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 35/245 (14%), Positives = 66/245 (26%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEGGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + E L + +KP GLV + T+ + L Sbjct: 92 DRPRYENEIIPEDIPLTIVYEDPYLMVVNKPAGLVVHPGHGNYHGTLVNALAWHMKDNPD 151 Query: 111 VGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--- 157 D + T GLL++ L + R ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGNQFFNKTTKRKYRALVWGIVEQDEG 211 Query: 158 ------------LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + G V L G+ +I+ Sbjct: 212 TIIGNIARNPKDRMQMAVMSDPTVGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|241663187|ref|YP_002981547.1| pseudouridine synthase [Ralstonia pickettii 12D] gi|240865214|gb|ACS62875.1| pseudouridine synthase, RluA family [Ralstonia pickettii 12D] Length = 370 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 72/245 (29%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E +R+ K +A+ SR +++ I V+++G ++ + D IEV Sbjct: 55 IPEAMHGERLDKALAKLLPDYSRSRLQQWIDAGAVRLHGEVVR-PRAAISGGDRIEVVPQ 113 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + T L + +V + + + L Sbjct: 114 RAADENAFVAEPIDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPDAVEL 173 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPST--------------QWLRVYRVRFHG 151 R V RLD +T GL+++ L + + Sbjct: 174 PRAGIVHRLDKDTSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEEATIDAPI 233 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 234 GRDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQVSLVRCQLETGRTHQIRVHFESE 293 Query: 209 NWKVN 213 + Sbjct: 294 GHPLL 298 >gi|326333482|ref|ZP_08199724.1| RNA pseudouridine synthase, RluA family [Nocardioidaceae bacterium Broad-1] gi|325948727|gb|EGD40825.1| RNA pseudouridine synthase, RluA family [Nocardioidaceae bacterium Broad-1] Length = 313 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 63/244 (25%), Gaps = 39/244 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-------- 58 V + +RV +AR SR +IA V V+G + + + V + Sbjct: 13 VPDGLEGERVDAAMARLFGLSRTRAAELIADGLVTVDGSAVAK-SDRVSAGSMLDATIPS 71 Query: 59 -----HIE---VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 I+ V+G+ + + + + V G++ V + F S Sbjct: 72 QADPLEIKPEIVEGIKIIYDDDAFVVIDKPVGVAVHPSPGWQGQTVVGHLAAAGFRISTS 131 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 + L + G + + L+ + L ++G Sbjct: 132 GAKEREGIVQRLDVGTSGVMVIAKSEHAYSVLKNAFRQRTVDKTYHALVQ-GHPDPLEGT 190 Query: 171 CYGDM---------------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + L G+ +I+ Sbjct: 191 IDAPIGRNPKYDYKFAVRADGRHSVTHYETLEAHRFASLLKIHLETGRTHQIRVHMSALK 250 Query: 210 WKVN 213 Sbjct: 251 HPCV 254 >gi|212218242|ref|YP_002305029.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii CbuK_Q154] gi|212012504|gb|ACJ19884.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii CbuK_Q154] Length = 327 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 73/239 (30%), Gaps = 31/239 (12%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I+ R+ +V+A+ SR +++ I VKV+GI +A V IE+ Sbjct: 13 KKIIPPELAGARLDQVLAKLFPDYSRSQLQNWIRGGHVKVDGIQKTKAREKVRENQFIEI 72 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + T L + +V + ++ + L S Sbjct: 73 EAQLEPNERWVPQPIPLDVIYEDETLLVINKPVGLIVHPGAGVRDQTLINALLHYDPSLS 132 Query: 109 ISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRV------------RFHGQ 152 + I+ LLL + + + + ++ R R Sbjct: 133 VVPRAGIIHRLDKDTSGLLLIARTLASHHALIKAMKARQIVREYEAIVKGVLISGRTIEA 192 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V++ + + ++ + V L G+ +I+ + Sbjct: 193 PVGRHPIHRTRMAVVEFGRPAITHFRIIKRYRAHTHIRVQLETGRTHQIRVHMAHIHHP 251 >gi|331270027|ref|YP_004396519.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Clostridium botulinum BKT015925] gi|329126577|gb|AEB76522.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Clostridium botulinum BKT015925] Length = 302 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 33/251 (13%), Positives = 75/251 (29%), Gaps = 43/251 (17%) Query: 1 MKDKNIVQE-----NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 M+ K+ + + R+S + S R + + R+KVNG + + + Sbjct: 1 MESKDNIIKLKVEIQDEEIRLSHYLKNVAQCSSRFTRKAAREGRIKVNGENVR-LSYMLK 59 Query: 56 STDHIEVDGVPLRKAERTRLWL-----------------YHKPIGLVTTHSDPDGRSTVF 98 + D +E+ + + E + +V + Sbjct: 60 NDDIVEL---QINRKEEQDIIPEKMDLDIIYEDDDIIVVNKPKGIVVHPTKRHLNGTLSN 116 Query: 99 DNLPSIFSRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRV-YRVRFHGQ 152 L + + RLD++T GL+L+ + L + V + Sbjct: 117 GVLYYFNDKNENSIVRLVNRLDMDTSGLVLIAKNAYSHMALSRDMQKDDFVKKYLAIVHG 176 Query: 153 VDQDKLNLLKKGIVIQGICYGD-----------MQVTLDTQKGSNAWVTVGLREGKNREI 201 + ++ K I G + + Q + + V + L G+ +I Sbjct: 177 NLNEDSGVIDKPIYRVGEGTLKRVIDERGQRSITRFKVVEQYKNASLVELTLETGRTHQI 236 Query: 202 KKVFEFFNWKV 212 + + + Sbjct: 237 RVHLSSIGYPI 247 >gi|219847267|ref|YP_002461700.1| hemolysin A [Chloroflexus aggregans DSM 9485] gi|219541526|gb|ACL23264.1| hemolysin A [Chloroflexus aggregans DSM 9485] Length = 264 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 T QR+ ++ G+A +R + + +I +V VNG + +A V + IEV Sbjct: 2 TRQRLDTLLVERGLAETRAKAQALIMAGQVLVNGQVQTKAGTQVAADAQIEV 53 >gi|153209393|ref|ZP_01947379.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii 'MSU Goat Q177'] gi|120575364|gb|EAX31988.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii 'MSU Goat Q177'] Length = 323 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 73/239 (30%), Gaps = 31/239 (12%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I+ R+ +V+A+ SR +++ I VKV+GI +A V IE+ Sbjct: 9 KKIIPPELAGARLDQVLAKLFPDYSRSQLQNWIRGGHVKVDGIQKTKAREKVRENQFIEI 68 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + T L + +V + ++ + L S Sbjct: 69 EAQLEPNERWVPQPIPLDVIYEDETLLVINKPVGLIVHPGAGVRDQTLINALLHYDPSLS 128 Query: 109 ISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRV------------RFHGQ 152 + I+ LLL + + + + ++ R R Sbjct: 129 VVPRAGIIHRLDKDTSGLLLIARTLASHHALIKAMKARQIVREYEAIVKGVLISGRTIEA 188 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V++ + + ++ + V L G+ +I+ + Sbjct: 189 PVGRHPIHRTRMAVVEFGRPAITHFRIIKRYRAHTHIRVQLETGRTHQIRVHMAHIHHP 247 >gi|296133201|ref|YP_003640448.1| hemolysin A [Thermincola sp. JR] gi|296031779|gb|ADG82547.1| hemolysin A [Thermincola potens JR] Length = 271 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ ++ G+ SR + + I V V+G +++A V + IEV G P+ Sbjct: 2 EKMRLDMLLVEKGLFPSREKAKSAIMAGLVFVDGQRVDKAGTTVSVSADIEVQGNPIPY 60 >gi|116626305|ref|YP_828461.1| ribosomal large subunit pseudouridine synthase D [Candidatus Solibacter usitatus Ellin6076] gi|116229467|gb|ABJ88176.1| ribosomal large subunit pseudouridine synthase D [Candidatus Solibacter usitatus Ellin6076] Length = 296 Score = 56.3 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 73/245 (29%), Gaps = 35/245 (14%) Query: 4 KNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERA-------AVNVM 55 + T QR+ + + A SR ++ I RV+VNG ++ + AV V Sbjct: 2 RFTADPADTGQRIDQWLHAHLPDFSRSRIQEWIKSARVRVNGAAVKTSYTLRAADAVEVE 61 Query: 56 STD-------------HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDP----------- 91 D I + + ++ + H G+ + Sbjct: 62 PADPPPLNATAEDIPLRILYEDADVVAIDKPAGMVVHAGAGVHSGTLVNALLHRFATLSG 121 Query: 92 ---DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 R + L S V+ V + D + L + + +V ++ R Sbjct: 122 VGGPLRPGIVHRLDRFTSGVLLVAKNDAAHQKLAAQFSGREIEKVYLALVHGTVKPETGR 181 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +D ++ + + + + + + V + G+ +I+ Sbjct: 182 IERPIARDPVHRARMTARLAEGRAAWSEYRVLRRFPDFTLLEVRIGTGRTHQIRVHLASI 241 Query: 209 NWKVN 213 V Sbjct: 242 RHPVV 246 >gi|326335706|ref|ZP_08201892.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga sp. oral taxon 338 str. F0234] gi|325692135|gb|EGD34088.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga sp. oral taxon 338 str. F0234] Length = 345 Score = 56.3 bits (134), Expect = 8e-06, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 70/241 (29%), Gaps = 39/241 (16%) Query: 9 ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP- 66 + P RV K + ASR +V++ + VNG+ ++ V + D ++V Sbjct: 27 KGQEPLRVDKFLMNFVENASRNKVQQAAKDGNIFVNGVAVKS-NHRVKANDEVKVMFAHP 85 Query: 67 --------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV- 111 + + + + +V + + + + Sbjct: 86 PHEYLLVPELIPLNIVYEDEELIIINKPAGLVVHPGHGNYQGTLINGLIYHFEQLPKNSS 145 Query: 112 ------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHGQ 152 R+D +T GLL++ L + G Sbjct: 146 DRPGLVHRIDKDTSGLLVVAKTEEAMNHLAKQFFNKTSEREYIALVWGNIPEDEGTITGH 205 Query: 153 VDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + N L+ + G + + + G V+ L G+ +I+ F + Sbjct: 206 IGRHPKNRLQMTVFPDGSEGKEAITHYKVLERFGYVTLVSCRLETGRTHQIRAHFTYIGH 265 Query: 211 K 211 Sbjct: 266 P 266 >gi|297184482|gb|ADI20596.1| pseudouridylate synthases, 23S RNA-specific [uncultured gamma proteobacterium EBAC_27G05] Length = 311 Score = 56.3 bits (134), Expect = 8e-06, Method: Composition-based stats. Identities = 31/241 (12%), Positives = 69/241 (28%), Gaps = 34/241 (14%) Query: 5 NIVQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 I+ +F R+ + A A SR +++R I + +NG L V D + + Sbjct: 6 KIISSDFHNIRLDQA-ATALFEDYSRSQIQRWIEAGNLLINGESLR-PKDKVQEGDELSL 63 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-- 106 D + + E L + ++ + + + Sbjct: 64 DPILENRVSWEAEDIPLNIHHEEDEFLIINKPYGLVMHPGAGCNNGTLANALAFHYPQLI 123 Query: 107 ---RVISVGRLDINTEGLLLLTNDGGLARVLELPST------QWLRVYRVRFHGQVDQDK 157 R V RLD +T GLL++ ++ + + G ++ Sbjct: 124 QLPRCGIVHRLDKDTSGLLVIAKTEKFRNFFVEKLQNREIFKEYEALVVGQVIGSFSIEQ 183 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQK-----GSNAWVTVGLREGKNREIKKVFEFFNWKV 212 I+ + + + V + + G+ +I+ + Sbjct: 184 AIERDPRNRIKMRTTDFGREAISHISLIKFYNGYSHVAIEIETGRTHQIRVHLSHHKLPI 243 Query: 213 N 213 Sbjct: 244 I 244 >gi|56751203|ref|YP_171904.1| hemolysin-like protein [Synechococcus elongatus PCC 6301] gi|81299130|ref|YP_399338.1| hemolysin A [Synechococcus elongatus PCC 7942] gi|56686162|dbj|BAD79384.1| hemolysin-like protein [Synechococcus elongatus PCC 6301] gi|81168011|gb|ABB56351.1| hemolysin A [Synechococcus elongatus PCC 7942] Length = 272 Score = 56.3 bits (134), Expect = 8e-06, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ G+ SR++ +R+I V+V ++++ V IEV P Sbjct: 5 RLDALLVERGLCPSRQQAQRLIRAGEVRVAQAIVDKPGSLVAEDAVIEVAAKP 57 >gi|257063802|ref|YP_003143474.1| pseudouridine synthase, RluA family [Slackia heliotrinireducens DSM 20476] gi|256791455|gb|ACV22125.1| pseudouridine synthase, RluA family [Slackia heliotrinireducens DSM 20476] Length = 320 Score = 56.3 bits (134), Expect = 8e-06, Method: Composition-based stats. Identities = 41/255 (16%), Positives = 76/255 (29%), Gaps = 49/255 (19%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V E R+ +A+ G +R + +A V +NG+ ++A V + D +E Sbjct: 10 VDETGDGMRLDAFLAKEGAYTTRSAAAKRVAAGEVSINGVAARKSAT-VKAGDVVEYQVF 68 Query: 63 --------------------DGVPLRKAERTRLWLY----HKPIGLVTTHSDPDGRSTVF 98 D L +++ L + H + Sbjct: 69 IDPRVFDLESADIPLDVRYEDDQVLVISKQAGLVTHPADGHPQQDTLVNALIHHCGRENL 128 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLL--TNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 N+ R+ V RLD +T GL+L TN+ G + ++ R Y HG + + Sbjct: 129 CNVQGEQDRLGIVHRLDRDTSGLMLAAKTNEAGQKLMEDIADRDVDRHYLALVHGWIPLE 188 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG------------------LREGKN 198 + D + + +V L G+ Sbjct: 189 TGLVDAPIGRSDRDRLRMCVSDRDNARDAMTSFSVVKRFEAGRNDDGYTLIDCKLFTGRT 248 Query: 199 REIKKVFEFFNWKVN 213 +I+ E+ Sbjct: 249 HQIRVHMEYIKHPCV 263 >gi|251793936|ref|YP_003008668.1| 23S rRNA pseudouridine synthase D [Aggregatibacter aphrophilus NJ8700] gi|247535335|gb|ACS98581.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter aphrophilus NJ8700] Length = 324 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 59/239 (24%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 VQ QR+ + +A SR ++ I V VNG++ V +HIE+ Sbjct: 9 TVQPQQMGQRLDQTLAELFPDYSRSRLKTWIEDDLVLVNGVVQNVPRTKVYGDEHIEITV 68 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + + + L Sbjct: 69 EIEDETRFEPENIPLNIVYEDDDILVINKPKDLVVHPGAGNPKGTVLNALLYHYPQIAEV 128 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 129 PRAGIVHRLDKDTTGLMVVAKTIPAQTQLVRDLQKRKITREYEAVACGIMTKGGTVDEPM 188 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 189 ARHPTKRTHMAVHPMGKPAVTHYRIMERFRDYTRLRLRLETGRTHQIRVHMAHLAHPLL 247 >gi|86156624|ref|YP_463409.1| pseudouridine synthase RluD [Anaeromyxobacter dehalogenans 2CP-C] gi|85773135|gb|ABC79972.1| Pseudouridine synthase, RluD [Anaeromyxobacter dehalogenans 2CP-C] Length = 299 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 21/50 (42%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ + IA G SR R I V V+G + A + + V+ Sbjct: 15 ERIDRFIAARGGISRGLARRAIEAGGVFVDGRRCKVAGRTLTPGQQVVVN 64 >gi|332879773|ref|ZP_08447463.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332682292|gb|EGJ55199.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 353 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 35/241 (14%), Positives = 75/241 (31%), Gaps = 39/241 (16%) Query: 9 ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 + P RV K + A+R +V++ Q + VNG ++ V + D ++V Sbjct: 37 KGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGQPVKS-NHRVKANDEVKVYFAHP 95 Query: 63 --------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-------F 105 + +PL+ + + L + +V + + + Sbjct: 96 PHEDLLIPENIPLQIVYEDDSLLVVNKPAGMVVHPGHGNYSGTLINALVYHFENLPNNSS 155 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY-------------RVRFHGQ 152 +R V R+D +T GLL++ L G Sbjct: 156 NRPGLVHRIDKDTSGLLVIAKTEEAMLHLTQQFFHKTTEREYIALVWGNVEADEGTVRGH 215 Query: 153 VDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + L+ + G + + + G V+ L G+ +I+ + Sbjct: 216 IGRHLKDRLQMDVFPDGSHGKEAVTHYKVLERFGYVTLVSCRLETGRTHQIRVHMKHIGH 275 Query: 211 K 211 Sbjct: 276 T 276 >gi|144227643|gb|AAZ44541.2| ribosomal large subunit pseudouridine synthase D [Mycoplasma hyopneumoniae J] Length = 304 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 74/244 (30%), Gaps = 43/244 (17%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------- 60 + R+ ++A+ SR+ + +I +++V +N L+ + V + I Sbjct: 12 DQEDIRIDILVAKLANLSRKVAQDLILEKKVLINNNLVLKKNQIVKTGQKIKIFNDYKRP 71 Query: 61 -------EVDGVPLRKAERTRLWLYHKPIGLV-------------------TTHSDPDGR 94 E+D + + + L K + + + R Sbjct: 72 KPQLEPAEIDFEIIFQDQNMILINKPKNLVVHPGVGNWKNTLVNGLISHFDSLEQLDHIR 131 Query: 95 STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + L + ++ V + + + + R + + ++ + + Sbjct: 132 PGIVHRLDKDTTGLLLVAKNAKAHSFFVNELANRQIKRFYKAIVIGKVLHKFMKINLPIG 191 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLD------TQKGSNAWVTVGLREGKNREIKKVFEFF 208 +D N LKK I ++ Q + V L G+ +I+ Sbjct: 192 RDLKNPLKKTISFFNS--KPAITNVELIKHFSYQNQDFSLVKCQLETGRTHQIRLHLAHI 249 Query: 209 NWKV 212 + + Sbjct: 250 GYPI 253 >gi|149372343|ref|ZP_01891531.1| Ribosomal large subunit pseudouridine synthase D [unidentified eubacterium SCB49] gi|149354733|gb|EDM43296.1| Ribosomal large subunit pseudouridine synthase D [unidentified eubacterium SCB49] Length = 300 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 32/209 (15%), Positives = 61/209 (29%), Gaps = 21/209 (10%) Query: 24 GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAERTRL------- 75 I SR+ ++ I Q V +N V D I + + K ++ Sbjct: 34 TITSRKAFKKAIKQGCVTLNNKQAYTGDY-VNENDLITIYKDKSISKKPSIQIPLKVLFE 92 Query: 76 -----WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVGRLDINTEGLLLLT 125 ++ V+ + + + L R + RLD T G LL+ Sbjct: 93 DNHLAIIHKPAGVEVSGNKKYTIENALPSLLKKSNQKDALDRPLPAHRLDYPTSGCLLIG 152 Query: 126 NDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + L + + +Q + K I + + T K Sbjct: 153 KTSETLQALHRMFEKREISKKYIAVTLGNQITEGKIDKPIDDKASLTTFKTLQTITSKKY 212 Query: 186 NA--WVTVGLREGKNREIKKVFEFFNWKV 212 NA V + G+ +++K + Sbjct: 213 NALNLVLLTPHTGRRHQLRKHMMQLGNPI 241 >gi|304414306|ref|ZP_07395674.1| 23S rRNA pseudouridine synthase [Candidatus Regiella insecticola LSR1] gi|304283520|gb|EFL91916.1| 23S rRNA pseudouridine synthase [Candidatus Regiella insecticola LSR1] Length = 325 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 65/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I V VNG + V+ ++ + ++ Sbjct: 10 TVAESQIGQRLDQALAELFPDYSRSRIKEWILADCVLVNGKKINTPKGRVLGSESVTINA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 EIKENVRSIPQQIPLNIVYEDNDILVINKPRGLVVHPGAGNADGTILNALLHYYPAISNV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 R + RLD +T GL+++ L + Sbjct: 130 PRAGIIHRLDKDTTGLMVVAKTVPAQTHLVEALQARKITREYEAIAIGNMIAGGAVEEPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + V + ++ + + L G+ +I+ F + Sbjct: 190 ARHASKRTHMAVHPMGKPAVTHYRIMEHFRAHTHLRLRLETGRTHQIRVHMSFIRHPLV 248 >gi|161830503|ref|YP_001596932.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii RSA 331] gi|161762370|gb|ABX78012.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii RSA 331] Length = 323 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 73/239 (30%), Gaps = 31/239 (12%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I+ R+ +V+A+ SR +++ I VKV+GI +A V IE+ Sbjct: 9 KKIIPPELAGARLDQVLAKLFPDYSRSQLQNWIRGGHVKVDGIQKTKAREKVRENQFIEI 68 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + T L + +V + ++ + L S Sbjct: 69 EAQLEPNERWVPQPIPLDVIYEDETLLVINKPVGLIVHPGAGVRDQTLINALLHYDPSLS 128 Query: 109 ISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRV------------RFHGQ 152 + I+ LLL + + + + ++ R R Sbjct: 129 VVPRAGIIHRLDKDTSGLLLIARTLASHHALIKAMKARQIVREYEAIVKGVLISGRTIEA 188 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V++ + + ++ + V L G+ +I+ + Sbjct: 189 PVGRHPIHRTRMAVVEFGRPAITHFRIIKRYRAHTHIRVQLETGRTHQIRVHMAHIHHP 247 >gi|78485714|ref|YP_391639.1| pseudouridine synthase, RluD [Thiomicrospira crunogena XCL-2] gi|78364000|gb|ABB41965.1| ribosomal large subunit pseudouridine synthase D [Thiomicrospira crunogena XCL-2] Length = 352 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 28/231 (12%), Positives = 65/231 (28%), Gaps = 32/231 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNV----------MSTDHIEVD 63 R+ V+A SR ++ I V ++G+ ++ V D + Sbjct: 18 RLDAVLAELFSDYSRNRIQDWIRAGLVTLDGVEHKKPNFKVFGDESVVLLAEIEDEVSYQ 77 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 + + L L +V + + + L + RL Sbjct: 78 AQDIPIEVVYEDEDILVLNKPAGLVVHPGAGNPDGTLLNALLFHYETIREVPRAGIVHRL 137 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQW------------LRVYRVRFHGQVDQDKLNLLK 162 D T GL+++ + L Q + + + + + Sbjct: 138 DKETSGLMVVAKNVPAQTHLVEQLQQHDVERVYDAIVVGKMISGGTISKPIGRHPTDRKR 197 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ G + + + V V L G+ +I+ + + + Sbjct: 198 MAVLTVGGKPATSHYRVLERFREHTHVRVKLETGRTHQIRVHMAYLGFPLV 248 >gi|302343356|ref|YP_003807885.1| hemolysin A [Desulfarculus baarsii DSM 2075] gi|301639969|gb|ADK85291.1| hemolysin A [Desulfarculus baarsii DSM 2075] Length = 252 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ + + G+A SR + + +I +++G + +V + VDG Sbjct: 6 RLDQRLVELGLAPSRAKAQALIMAGLARIDGQTARKPGQSVEPEAAVSVDG 56 >gi|291519200|emb|CBK74421.1| hemolysin TlyA family protein [Butyrivibrio fibrisolvens 16/4] Length = 265 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 24/164 (14%), Positives = 49/164 (29%), Gaps = 2/164 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ V+ G A SR + + MI + V V G ++A + IE+ G L+ R Sbjct: 3 ERLDIVLVDRGFAPSREKAKTMIMEGYVFVKGNREDKAGTKIDVDADIEIHGQQLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T ++ G + + + L + Sbjct: 63 GGLKLEKAMTHFDITLDGKVCMDIGAST-GGFTDCMLQNGASKVFSVDVGYGQFAWKLRQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + + + V ++ + + G + Sbjct: 122 DPRVVCMEKTNIRYVTLEDIGEKLDFASVDVSFISLTKVLGPAK 165 >gi|256819393|ref|YP_003140672.1| pseudouridine synthase, RluA family [Capnocytophaga ochracea DSM 7271] gi|256580976|gb|ACU92111.1| pseudouridine synthase, RluA family [Capnocytophaga ochracea DSM 7271] Length = 352 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 33/241 (13%), Positives = 75/241 (31%), Gaps = 39/241 (16%) Query: 9 ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 + P RV K + A+R +V++ Q + VNG ++ V + D ++V Sbjct: 33 KGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGEPVKS-NHRVKANDEVKVLFPHP 91 Query: 63 --------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-------F 105 + +P + + + L + +V + + + Sbjct: 92 PHEDLLVPENIPLNIVYEDDSLLVVNKPAGMVVHPGHGNYSGTLINALVYHFENLPNNSS 151 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHGQ 152 +R V R+D +T GLL++ L + G Sbjct: 152 NRPGLVHRIDKDTSGLLVVAKTEEAMLHLTQQFFNKTTQREYIALVWGNIEEDEGTVCGH 211 Query: 153 VDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + L+ + G + + + G ++ L G+ +I+ + Sbjct: 212 IGRHLKDRLQMDVFPDGSHGKEAVTHYKVLERFGYVTLISCKLETGRTHQIRVHLKHIGH 271 Query: 211 K 211 Sbjct: 272 T 272 >gi|15605669|ref|NP_213044.1| 30S ribosomal protein S4 [Aquifex aeolicus VF5] gi|6226103|sp|O66484|RS4_AQUAE RecName: Full=30S ribosomal protein S4 gi|2982819|gb|AAC06442.1| ribosomal protein S04 [Aquifex aeolicus VF5] Length = 211 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS RR+ +++A V VNG + + V D IE+ Sbjct: 99 RLDNVVYRLGFASTRRQARQLVAHGHVLVNGKKVNIPSYLVEPGDVIEI 147 >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 = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 30/237 (12%), Positives = 65/237 (27%), Gaps = 38/237 (16%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ + + SR +++++AQ V +NG + +AA V + D + ++ P Sbjct: 50 RIDRALVELVPEFSRSYLQQLLAQGGVSLNGRPVRKAASRVNAGDRVVLEMRPTVQSQAF 109 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR----------- 107 + + L L +V + + L + Sbjct: 110 RPQPMDIDVVYEDAHLLVLNKPAGLVVHPAPGHWSATLLNGLLARDANALLLPRAGIVHR 169 Query: 108 --------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 ++ + + + L L W + +D N Sbjct: 170 LDKDTSGLMVVARDRATMDALVAQIARRQVQRQYLALAHGAWSGPRSRSVQAPIGRDPRN 229 Query: 160 LLKKGIVIQGICYGDMQVT---LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 L+ +V G T W+ L G+ +I+ + Sbjct: 230 RLRMAVVDLARHAGKCARTDVLCLDATPQGCWLQCRLHTGRTHQIRVHMASLQHPLV 286 >gi|144575467|gb|AAZ53825.2| ribosomal large subunit pseudouridine synthase D [Mycoplasma hyopneumoniae 7448] Length = 304 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 74/244 (30%), Gaps = 43/244 (17%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------- 60 + R+ ++A+ SR+ + +I +++V +N L+ + V + I Sbjct: 12 DQEDIRIDILVAKLANLSRKVAQDLILEKKVLINNNLVLKKNQIVKTGQKIKIFNDYKRP 71 Query: 61 -------EVDGVPLRKAERTRLWLYHKPIGLV-------------------TTHSDPDGR 94 E+D + + + L K + + + R Sbjct: 72 KPQLEPAEIDFEIIFQDQNMILINKPKNLVVHPGVGNWKNTLVNGLISHFDSLEQLDHIR 131 Query: 95 STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + L + ++ V + + + + R + + ++ + + Sbjct: 132 PGIVHRLDKDTTGLLLVAKNAKAHSFFVNELANRQIKRFYKAIVIGKVLHKFMKINLPIG 191 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLD------TQKGSNAWVTVGLREGKNREIKKVFEFF 208 +D N LKK I ++ Q + V L G+ +I+ Sbjct: 192 RDLKNPLKKTISFFNS--KPAITNVELIKHFNYQNQDFSLVKCQLETGRTHQIRLHLAHI 249 Query: 209 NWKV 212 + + Sbjct: 250 GYPI 253 >gi|226941139|ref|YP_002796213.1| RluD [Laribacter hongkongensis HLHK9] gi|226716066|gb|ACO75204.1| RluD [Laribacter hongkongensis HLHK9] Length = 349 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 29/240 (12%), Positives = 60/240 (25%), Gaps = 35/240 (14%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R+ +A SR + + I V+V+G + + +EVD Sbjct: 21 TIPDTLAGDRLDAALAALMPDQSRSRLTQWIKDGHVRVDGSTVTVPRSKTVLGQQVEVDE 80 Query: 65 V---------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 P+ +R L + + + + + L + Sbjct: 81 QLSLDEMAFAPEDIEIPVIYEDRQILVVNKPAGLVTHPGNGNWSGTLLNGLLYRVPELAH 140 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L R + + K Sbjct: 141 VPRAGIVHRLDKDTSGLMVVAKTVAAQLDLIRQLQARTVKRHYRAIACGNVAGDITIDKA 200 Query: 165 IVIQGICYGDMQVTLDTQKGS-------------NAWVTVGLREGKNREIKKVFEFFNWK 211 I + + + V L G+ +I+ Sbjct: 201 IG-RDPKTRVKMAVVAFGGKPAITHVRPLEMFEHHTLVECRLETGRTHQIRVHMASIGCP 259 >gi|168186202|ref|ZP_02620837.1| hemolysin A [Clostridium botulinum C str. Eklund] gi|169295649|gb|EDS77782.1| hemolysin A [Clostridium botulinum C str. Eklund] Length = 270 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 1/62 (1%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 N +R+ ++ I SR + + I + +V VNG +++ + IE G + Sbjct: 2 SNIKSERLDVLLVEKKIFDSREKAKIAIMEGKVFVNGQRVDKCGQKIKVDSEIEFKGEVM 61 Query: 68 RK 69 Sbjct: 62 PY 63 >gi|91772977|ref|YP_565669.1| RNA-binding S4 [Methanococcoides burtonii DSM 6242] gi|91711992|gb|ABE51919.1| RNA-binding S4 domain protein [Methanococcoides burtonii DSM 6242] Length = 225 Score = 56.0 bits (133), Expect = 8e-06, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + G SR ++ I VK++G ++ + + +V D ++VD Sbjct: 1 MRLDAYLVEMGSFKSRGRSKKAIVDGHVKIDGSVVTKPSKDVSIDDDVKVD 51 >gi|307564398|ref|ZP_07626939.1| pseudouridine synthase, RluA family [Prevotella amnii CRIS 21A-A] gi|307346758|gb|EFN92054.1| pseudouridine synthase, RluA family [Prevotella amnii CRIS 21A-A] Length = 361 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 31/249 (12%), Positives = 68/249 (27%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K V + +R+ K + R +SR +++ + VNG ++ V D I + Sbjct: 30 KIEVDKGQKAERIDKYLFERMQHSSRNRIQKAAQAGFIHVNGSPVKS-NYKVRPEDVITL 88 Query: 63 ------DGVPLRKAERTRLWLY---------HKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + + +Y +V + + + + Sbjct: 89 MLDRPKHDNTIEAEDIPLDVVYEDDSLMVVMKPAGLVVHPGAGNFHGTLINAIAWHLRGL 148 Query: 108 VISV---------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVY 145 R+D +T GLLL+ R + Sbjct: 149 ASFDANDPEVGLVHRIDKDTSGLLLIAKTPEAKSSLGKQFFYKTTHRSYIALVWGNIVDE 208 Query: 146 RVRFHGQVDQDKLNLLKKG-IVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIK 202 + R G + +D + L+ + + + G + L G+ +I+ Sbjct: 209 QGRIEGNISRDPKDRLRMTVFPPESDIGKPAVTHYKVIERFGYTTLIECVLETGRTHQIR 268 Query: 203 KVFEFFNWK 211 + Sbjct: 269 AHMKHIGHP 277 >gi|218296418|ref|ZP_03497161.1| hemolysin A [Thermus aquaticus Y51MC23] gi|218243212|gb|EED09743.1| hemolysin A [Thermus aquaticus Y51MC23] Length = 235 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 28/50 (56%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G+ SR + +R+IA+ +V+V G ++ + A V +E+ Sbjct: 1 MRLDRYLVEKGLVESREKAKRLIAEGKVRVGGRVVTKPAHPVPEGAAVEL 50 >gi|331091119|ref|ZP_08339961.1| hypothetical protein HMPREF9477_00604 [Lachnospiraceae bacterium 2_1_46FAA] gi|330405341|gb|EGG84877.1| hypothetical protein HMPREF9477_00604 [Lachnospiraceae bacterium 2_1_46FAA] Length = 251 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 25/50 (50%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ ASR ++ +I RV VNG L+ + NV D + V Sbjct: 174 SVRLDSLLSLVFPASRSKLVPLIEGGRVFVNGKLITTNSYNVKENDIVSV 223 >gi|291459221|ref|ZP_06598611.1| ribosomal large subunit pseudouridine synthase D [Oribacterium sp. oral taxon 078 str. F0262] gi|291418475|gb|EFE92194.1| ribosomal large subunit pseudouridine synthase D [Oribacterium sp. oral taxon 078 str. F0262] Length = 308 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 70/245 (28%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V+ +R+ + +++ SR ER+I + RV ++G E+ + + + I + Sbjct: 9 VEAECAGERLDRYLSKRPELSLSRSYAERLIGEGRVLLDGQ-AEKPSKRLRGGEQISICF 67 Query: 63 -DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + P + + L + +V G + V L + S Sbjct: 68 PEEKPTEIRAEEIPLDIVYEDSELLLVNKPKGMVVHPAPGHSGGTLVNALLGRPGPELSS 127 Query: 111 VGRL----------------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + D L + + R +R + Sbjct: 128 INGVLRPGIVHRIDRDTTGLLLVCKKDRAHRALAEQLKEHTITRRYHAILCGRMREDEGK 187 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + + K+ I + + + V L G+ +I+ Sbjct: 188 VDAPIGRSRRDRKKQAIDWERGREAVTHYRVLERFSEYTLVECRLETGRTHQIRVHMASI 247 Query: 209 NWKVN 213 V Sbjct: 248 GHPVL 252 >gi|237724045|ref|ZP_04554526.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D4] gi|229437505|gb|EEO47582.1| ribosomal large subunit pseudouridine synthase D [Bacteroides dorei 5_1_36/D4] Length = 357 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 31/269 (11%), Positives = 66/269 (24%), Gaps = 42/269 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + RV K + + +SR +++ + NG ++ + V D + V Sbjct: 33 VVDKGQSQVRVDKYLFERLVNSSRNRIQKAADAGLIMANGKPVKS-SYKVKPCDVLTVMM 91 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + E L + +KP GLV + T+ + + Sbjct: 92 DRPRYDNDIIPEDIPLDIVYEDNDLMVINKPAGLVVHPGCGNYHGTLVNAIAWHLKDNPR 151 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D GL + Sbjct: 152 YDPNDPQVGLVHRIDKDTSGLLVVAKTPDAKTHLGLQFYNKTTKRKYNALVWGIVENNEG 211 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 212 TIEGNIGRNPKDRMQMAVLSDPAQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHM 271 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + R G L + Sbjct: 272 KHIGHTLFNDERYG-GNEILKGTHFSKYK 299 >gi|319784706|ref|YP_004144182.1| RNA-binding S4 domain protein [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317170594|gb|ADV14132.1| RNA-binding S4 domain protein [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 254 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 26/52 (50%), Gaps = 1/52 (1%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 QR+ ++ + G ASR + + V V+G++ + +V+ H+ +D Sbjct: 11 QRLDDLLVQRGLFASRSRARDAVERGTVTVDGVIARKPGQSVLPQCHVAIDD 62 >gi|301154795|emb|CBW14258.1| 23S rRNA pseudouridine synthase [Haemophilus parainfluenzae T3T1] Length = 324 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 62/238 (26%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +Q QR+ + +A SR ++ I ++VK+NG + + V + IE+ Sbjct: 10 IQPEQMGQRLDQTLAELFPEYSRSRLKTWIEAKQVKMNGEIADIPRAKVYGGEQIEISVE 69 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + +V + + + L Sbjct: 70 VEDENRFEPQNIPLNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPPIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|265755351|ref|ZP_06090121.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_1_33FAA] gi|263234493|gb|EEZ20083.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_1_33FAA] Length = 358 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 31/269 (11%), Positives = 66/269 (24%), Gaps = 42/269 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + RV K + + +SR +++ + NG ++ + V D + V Sbjct: 34 VVDKGQSQVRVDKYLFERLVNSSRNRIQKAADAGLIMANGKPVKS-SYKVKPCDVLTVMM 92 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + E L + +KP GLV + T+ + + Sbjct: 93 DRPRYDNDIIPEDIPLDIVYEDNDLMVINKPAGLVVHPGCGNYHGTLVNAIAWHLKDNPR 152 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D GL + Sbjct: 153 YDPNDPQVGLVHRIDKDTSGLLVVAKTPDAKTHLGLQFYNKTTKRKYNALVWGIVENNEG 212 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 213 TIEGNIGRNPKDRMQMAVLSDPAQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHM 272 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + R G L + Sbjct: 273 KHIGHTLFNDERYG-GNEILKGTHFSKYK 300 >gi|257439832|ref|ZP_05615587.1| ribosomal large subunit pseudouridine synthase D [Faecalibacterium prausnitzii A2-165] gi|257197741|gb|EEU96025.1| ribosomal large subunit pseudouridine synthase D [Faecalibacterium prausnitzii A2-165] Length = 314 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 35/255 (13%), Positives = 73/255 (28%), Gaps = 46/255 (18%) Query: 1 MKDKN-IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGI-LLERAAVNVMS 56 M+ + IV+ QR+ + ++ G+ SR ++ ++A+ V NG + + + Sbjct: 1 MEQREYIVEAEGAGQRIDRFLSGEDTGL-SRSALQGLVAEGHVLCNGKAPAKSL--KLKA 57 Query: 57 TDHIEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 D I + D P+ + L + +V + V L Sbjct: 58 GDIILLEIPDAKPIEAVPQEIPLDIIYEDAHLLVVNKPKGMVVHPAPGNPDGTLVNALLW 117 Query: 103 SIF---------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R V R+D +T GLL++ D L Sbjct: 118 HCKGSLSGIGGEIRPGIVHRVDKDTSGLLVVAKDDATHIGLSQQMAVHSVERAYNTIVYG 177 Query: 154 DQDKLNLLKKGIVIQGICYG------DMQ----------VTLDTQKGSNAWVTVGLREGK 197 + + + + + + G + L+ G+ Sbjct: 178 GFAQDEGFVESNLGRSKTDRKKMAVYPASEPHTKYAYTGYKVLERLGEFTMLECRLKTGR 237 Query: 198 NREIKKVFEFFNWKV 212 +I+ + V Sbjct: 238 THQIRVHMASIHHPV 252 >gi|212691724|ref|ZP_03299852.1| hypothetical protein BACDOR_01219 [Bacteroides dorei DSM 17855] gi|212665729|gb|EEB26301.1| hypothetical protein BACDOR_01219 [Bacteroides dorei DSM 17855] Length = 358 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 31/269 (11%), Positives = 66/269 (24%), Gaps = 42/269 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + RV K + + +SR +++ + NG ++ + V D + V Sbjct: 34 VVDKGQSQVRVDKYLFERLVNSSRNRIQKAADAGLIMANGKPVKS-SYKVKPCDVLTVMM 92 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + E L + +KP GLV + T+ + + Sbjct: 93 DRPRYDNDIIPEDIPLDIVYEDNDLMVINKPAGLVVHPGCGNYHGTLVNAIAWHLKDNPR 152 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D GL + Sbjct: 153 YDPNDPQVGLVHRIDKDTSGLLVVAKTPDAKTHLGLQFYNKTTKRKYNALVWGIVENNEG 212 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 213 TIEGNIGRNPKDRMQMAVLSDPAQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHM 272 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + R G L + Sbjct: 273 KHIGHTLFNDERYG-GNEILKGTHFSKYK 300 >gi|134298943|ref|YP_001112439.1| hemolysin A [Desulfotomaculum reducens MI-1] gi|134051643|gb|ABO49614.1| hemolysin A [Desulfotomaculum reducens MI-1] Length = 268 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 13/58 (22%), Positives = 24/58 (41%), Gaps = 1/58 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 T +R+ + G SR + + V V+G +++ V + I+V G L Sbjct: 4 TKERLDVYLVNNGFFPSREKARAAVMAGLVFVDGERVDKPGHQVKAEVSIQVQGKTLP 61 >gi|220915339|ref|YP_002490643.1| pseudouridine synthase, RluA family [Anaeromyxobacter dehalogenans 2CP-1] gi|219953193|gb|ACL63577.1| pseudouridine synthase, RluA family [Anaeromyxobacter dehalogenans 2CP-1] Length = 301 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 21/50 (42%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ + IA G SR R I V V+G + A + + V+ Sbjct: 15 ERIDRFIAARGGISRGLARRAIEAGGVFVDGRRCKVAGRTLTPGQQVVVN 64 >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 = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 1/80 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVDGVPLRKAER 72 R+ KVI + SR+E++R+ Q +V V+ + R NV S+ I V G L ER Sbjct: 1 MRLDKVIEQQLNTSRKEMKRLFQQGKVFVDHRIERRPERNVDSSLHQIMVAGRQLETQER 60 Query: 73 TRLWLYHKPIGLVTTHSDPD 92 + K + Sbjct: 61 YYIVNKPKGVVTANLDQQHQ 80 >gi|237715324|ref|ZP_04545805.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D1] gi|262405165|ref|ZP_06081715.1| conserved hypothetical protein [Bacteroides sp. 2_1_22] gi|294643535|ref|ZP_06721341.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CC 2a] gi|294807042|ref|ZP_06765861.1| pseudouridine synthase, RluA family [Bacteroides xylanisolvens SD CC 1b] gi|298482426|ref|ZP_07000612.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D22] gi|229444633|gb|EEO50424.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D1] gi|262356040|gb|EEZ05130.1| conserved hypothetical protein [Bacteroides sp. 2_1_22] gi|292641110|gb|EFF59322.1| pseudouridine synthase, RluA family [Bacteroides ovatus SD CC 2a] gi|294445741|gb|EFG14389.1| pseudouridine synthase, RluA family [Bacteroides xylanisolvens SD CC 1b] gi|295088097|emb|CBK69620.1| ribosomal large subunit pseudouridine synthase D [Bacteroides xylanisolvens XB1A] gi|298271405|gb|EFI12980.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. D22] Length = 357 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 63/245 (25%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + RV K + + ASR +++ V NG ++ + V D I V Sbjct: 33 VVDKGQAMVRVDKYLFERIVNASRNRIQKAAEGGFVMANGKPVKS-SYKVKPLDVITVMM 91 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + + +V + V + Sbjct: 92 DRPRYENEIIPEDIPLTIVYEDPYVMVVNKPAGLVVHPGHGNYHGTLVNALAWHMKDIPD 151 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--- 157 R+D +T GLL++ L L R R ++ Sbjct: 152 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGLQFFNKTTKRRYRALVWGVVEQDEG 211 Query: 158 ------------LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + G V L G+ +I+ Sbjct: 212 TIVGNIARNPKDRMQMAVMSDPTVGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHM 271 Query: 206 EFFNW 210 + Sbjct: 272 KHIGH 276 >gi|169334432|ref|ZP_02861625.1| hypothetical protein ANASTE_00832 [Anaerofustis stercorihominis DSM 17244] gi|169259149|gb|EDS73115.1| hypothetical protein ANASTE_00832 [Anaerofustis stercorihominis DSM 17244] Length = 267 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 10/66 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK K +R+ ++ +G+A SR + +R+I V VN +++A V + Sbjct: 1 MKSK---------ERLDVLLFESGMAESREKAKRLIMAGVVFVNDQRVDKAGTKVDIYSN 51 Query: 60 IEVDGV 65 I + G Sbjct: 52 IIIKGN 57 >gi|160945192|ref|ZP_02092418.1| hypothetical protein FAEPRAM212_02711 [Faecalibacterium prausnitzii M21/2] gi|158442923|gb|EDP19928.1| hypothetical protein FAEPRAM212_02711 [Faecalibacterium prausnitzii M21/2] Length = 267 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 20/166 (12%), Positives = 48/166 (28%), Gaps = 2/166 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ + + + G+ SR + +I V VN +++A + +EV G + R Sbjct: 3 IRLDQYLVQNGLVQSRERAKALIMAGVVFVNQQKVDKAGEMIKEDAVVEVRGHDIGYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T + ++ G + + + L Sbjct: 63 GGLKLEKAMKCFPLTPNGKVCMDIGAST-GGFTDCMLQNGAVKVYAVDVGYGQLAWSLRT 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVT 178 + + + + V + + + + + Q Sbjct: 122 DARVVNMERTNIRYVTPEDLAEPIEFFSVDVSFISLHHIFPVAQRI 167 >gi|319935496|ref|ZP_08009931.1| pseudouridine synthase [Coprobacillus sp. 29_1] gi|319809527|gb|EFW05944.1| pseudouridine synthase [Coprobacillus sp. 29_1] Length = 324 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 45/293 (15%), Positives = 82/293 (27%), Gaps = 72/293 (24%) Query: 1 MKDKNIVQENFTPQRVSKVI--------ARAGIASRREVERMIAQQRVKVNGILLERA-- 50 MK K I+ EN QR+ K + ++ +M+ ++ VKVNG+ ++ Sbjct: 1 MK-KLIIDENHANQRIDKYLKKLLCQAPSQLIY-------KMLRKKDVKVNGVKVKENYI 52 Query: 51 -------------------------------AVNVMSTDHIEVDGVP--------LRKAE 71 + D I V G P + + Sbjct: 53 LQNHDVVELFLYEDKFQEYTRAQTIFDLKIEFQVIYEDDKILVVGKPAGLLVHEDINEDM 112 Query: 72 RT---RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 T ++ Y G L S ++ G+ + L + Sbjct: 113 NTLSNQVITYLYQKGEYDPQISLGFTPGPVHRLDRNTSGIVIFGKTMRALQDLNEMMKKR 172 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK--GSN 186 L + G + +D L K + M ++ + Sbjct: 173 HCIEKTYLTICKGHM-SSADLVGYMKKDGDQSLVKVVTQNTPGALMMHTLVENIEYHQGF 231 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + V L G+ +I+ + YG F+L RE+ KK Sbjct: 232 SLLKVQLVTGRTHQIRVHLASVGHPIIG--DSKYGDFELN-------REMKKK 275 >gi|315634974|ref|ZP_07890255.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter segnis ATCC 33393] gi|315476236|gb|EFU66987.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter segnis ATCC 33393] Length = 324 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 60/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 VQ QR+ + +A SR ++ I + V VNG++ V +HIE+ Sbjct: 9 TVQPQQMGQRLDQTLAELFPDYSRSRLKTWIEEDLVLVNGVVQNVPRTKVYGDEHIEITV 68 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + + + L Sbjct: 69 EIEDETRFEPEAIPLNIVYEDEDILVINKPKDLVVHPGAGNPKGTVLNALLYHYPQIAEV 128 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 129 PRAGIVHRLDKDTTGLMVVAKTIPAQTQLVRDLQKRKITREYEAVACGIMTKGGTVDEPM 188 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 189 ARHPTKRTHMAVHPMGKPAVTHYRIMERFRDYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|54020208|ref|YP_115967.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma hyopneumoniae 232] gi|53987381|gb|AAV27582.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma hyopneumoniae 232] Length = 304 Score = 56.0 bits (133), Expect = 9e-06, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 74/244 (30%), Gaps = 43/244 (17%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------- 60 + R+ ++A+ SR+ + +I +++V +N L+ + V + I Sbjct: 12 DQEDIRIDILVAKLANLSRKVAQDLILEKKVLINNNLVLKKNQIVKTGQKIRIFNDYKRP 71 Query: 61 -------EVDGVPLRKAERTRLWLYHKPIGLV-------------------TTHSDPDGR 94 E+D + + + L K + + + R Sbjct: 72 KPQLEPAEIDFEIIFQDQNMILINKPKNLVVHPGVGNWKNTLVNGLISHFDSLEQLDHIR 131 Query: 95 STVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + L + ++ V + + + + R + + ++ + + Sbjct: 132 PGIVHRLDKDTTGLLLVAKNAKAHSFFVNELANRQIKRFYKAIVIGKVLHKFMKINLPIG 191 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLD------TQKGSNAWVTVGLREGKNREIKKVFEFF 208 +D N LKK I ++ Q + V L G+ +I+ Sbjct: 192 RDLKNPLKKTISFFNS--KPAITNVELIKHFSYQNQDFSLVKCQLETGRTHQIRLHLAHI 249 Query: 209 NWKV 212 + + Sbjct: 250 GYPI 253 >gi|77920540|ref|YP_358355.1| suppressor of ftsH mutation [Pelobacter carbinolicus DSM 2380] gi|77546623|gb|ABA90185.1| ribosomal large subunit pseudouridine synthase D [Pelobacter carbinolicus DSM 2380] Length = 326 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 26/240 (10%), Positives = 65/240 (27%), Gaps = 39/240 (16%) Query: 12 TPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 +P+R+ + + SR +++++I RV ++G + + + + VD Sbjct: 14 SPERLDRFLVEQLPELSRSQLKKLIDDGRVLLDGAAAK-PGSKLKGGETLTVDVPDPSPA 72 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + + +R + + P +V + V L G L Sbjct: 73 EAVSEDIPLVILYEDRHLIVIDKPPGMVVHPAPGHYQGTLVNALLHHCQDLSGIGGELRP 132 Query: 117 -------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 +++ A + + R + I Sbjct: 133 GIVHRLDKDTSGVMVATKTDSAHQSLAAQFKAHSITRRYIALIHGVLTGDRGSIDRPIGR 192 Query: 170 ICYGDMQVTLDTQKGSN----------------AWVTVGLREGKNREIKKVFEFFNWKVN 213 +++ + G + V + L G+ +I+ F + Sbjct: 193 HPTHRKKMSTTCRTGRHAVTHWRVLRRFDDDRLTLVELALETGRTHQIRVHFSEQQHPLL 252 >gi|253990666|ref|YP_003042022.1| 23S rRNA pseudouridine synthase D [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|253782116|emb|CAQ85280.1| ribosomal large subunit pseudouridine synthase D [Photorhabdus asymbiotica] Length = 325 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 28/236 (11%), Positives = 66/236 (27%), Gaps = 31/236 (13%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V E+ QR+ + +A SR ++ I RV+VNG L+ + V+ + I +D Sbjct: 10 TVAESQLGQRLDQALAEMFPDYSRSRIKEWILGDRVQVNGKLINKPKEKVLGGEEISIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + L + +V + + + L Sbjct: 70 IIEEDARWEPQNIELNIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLYRYPEIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ V R + Sbjct: 130 PRAGIVHRLDKDTTGLMVIAKTVPAQTRLVESLQLREITREYEAVATGRMTAGGIVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + + ++ + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAITRYRVMEHFRAHTRLRLRLETGRTHQIRVHMAHISH 245 >gi|254409976|ref|ZP_05023756.1| hemolysin A [Microcoleus chthonoplastes PCC 7420] gi|196183012|gb|EDX77996.1| hemolysin A [Microcoleus chthonoplastes PCC 7420] Length = 281 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 29/53 (54%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 QR+ ++ + SR++ +R+I V+VN L+++ + +T I+++ Sbjct: 3 QRLDTLLVDLNLCESRQQAQRLILAGEVRVNQQLVDKPGTEIETTAEIKINQK 55 >gi|261867120|ref|YP_003255042.1| 23S rRNA pseudouridine synthase D [Aggregatibacter actinomycetemcomitans D11S-1] gi|261412452|gb|ACX81823.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter actinomycetemcomitans D11S-1] Length = 324 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 61/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 VQ + QR+ + +A SR ++ I + V VNG++ V + IE+ Sbjct: 9 TVQSHQMGQRLDQTLAELFPDYSRSRLKTWIEEDLVLVNGVVQNVPRSKVYGDEQIEITV 68 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + + + L Sbjct: 69 EIEDETRFEPENIPLNIVYEDDDILVINKPKDLVVHPGAGNPSGTVLNALLYHYPPIAEV 128 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + + Sbjct: 129 PRAGIVHRLDKDTTGLMVVAKTIPAQTQLVRDLQKRKIIREYEAVACGIMTKGGTVDEPM 188 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 189 ARHPTKRTHMAVHPMGKPAVTHYRIMERFRDYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|330814384|ref|YP_004358623.1| ribosomal large subunit pseudouridine synthase D [Candidatus Pelagibacter sp. IMCC9063] gi|327487479|gb|AEA81884.1| ribosomal large subunit pseudouridine synthase D [Candidatus Pelagibacter sp. IMCC9063] Length = 327 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 39/254 (15%), Positives = 75/254 (29%), Gaps = 42/254 (16%) Query: 2 KDKNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K K V E +RV + I SR ++ ++I + + +N +E + V D + Sbjct: 5 KYKFTVSEEQNLKRVDQFIVEELPTFSRTKISKLIKEGALLINNEPIEERSKKVSFGDEV 64 Query: 61 EV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 E+ D P + + L + +V + + V L Sbjct: 65 ELSVPEPVPTDLKPQNIPLDVVYEDDDLLVINKPIGMVVHPGAGNPDGTLVNALLHHCKE 124 Query: 107 R---------VISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRV 144 V R+D +T GLL++ + VL + Sbjct: 125 NLSGINGELRPGIVHRIDKDTSGLLVVAKNDIAHNVLAKQFEDHSIQRTYLAFVWGMPKP 184 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGIC-----YGDMQVTLDTQKGSNAWVTVGLREGKNR 199 R + + K N K + Y ++V + + L G+ Sbjct: 185 IHGRIETLIGRSKYNRQKMSAEVGSGKDAITNYKTLEVFKGKTIPDISLIECRLETGRTH 244 Query: 200 EIKKVFEFFNWKVN 213 +I+ + Sbjct: 245 QIRVHLAHQGNPIL 258 >gi|291296964|ref|YP_003508362.1| 30S ribosomal protein S4 [Meiothermus ruber DSM 1279] gi|290471923|gb|ADD29342.1| ribosomal protein S4 [Meiothermus ruber DSM 1279] Length = 205 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R GIAS RR+ + + + VNG + V D I+V Sbjct: 96 RLDNVVFRMGIASTRRQARQFVRHGHILVNGKRVNIPGYRVRPGDEIKV 144 >gi|269101904|ref|ZP_06154601.1| ribosomal large subunit pseudouridine synthase D [Photobacterium damselae subsp. damselae CIP 102761] gi|268161802|gb|EEZ40298.1| ribosomal large subunit pseudouridine synthase D [Photobacterium damselae subsp. damselae CIP 102761] Length = 324 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 29/240 (12%), Positives = 68/240 (28%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVN---------- 53 N V ++ +R+ +VIA SR ++ I +V V+G ++++ + Sbjct: 9 NTVNDSQLGKRLDQVIAELYPDYSRTRIKDWILAGKVAVDGEIIDKPRIKMMGGEQLVIN 68 Query: 54 VMSTDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D + + + + + + +V + + + L Sbjct: 69 AEIEDEVRWEAQDIPLDIVYEDDDIIVINKPRDFVVHPGAGTPDGTVLNALLWHCPSLAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 R V RLD +T GL+++ L + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVQAQTRLVRALQKRNITREYEAIAMGKMTGGGTVEKA 188 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR--EGKNREIKKVFEFFNWKVN 213 + K+ + + + LR G+ +I+ + + Sbjct: 189 IGRHSTKRTCMAVHELGKPAITHYRVAEHFREHTRIVLRLETGRTHQIRVHMSYLTHPLV 248 >gi|163786072|ref|ZP_02180520.1| ribosomal large subunit pseudouridine synthase D [Flavobacteriales bacterium ALC-1] gi|159877932|gb|EDP71988.1| ribosomal large subunit pseudouridine synthase D [Flavobacteriales bacterium ALC-1] Length = 343 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 66/245 (26%), Gaps = 41/245 (16%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V + P R+ K + A+R +++ + +N ++ V D + V Sbjct: 22 VDKGQQPLRIDKYLMNFVENATRNKIQSAAKDGCIFINNSPVKS-NYKVKPNDFVTVKFK 80 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 + + L + +V + + + + Sbjct: 81 HPPHENLLIAEDIPIDVVYEDDDLLVVNKPAGMVVHPGHGNYSGTLINALIFHFENLPNN 140 Query: 107 ---RVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFH 150 R V R+D +T GLL++ L + Sbjct: 141 SSDRPGLVHRIDKDTSGLLVVAKTEQAMAHLSNQFAKKTSEREYVALVWGNMTEDEGIIE 200 Query: 151 GQVDQDKLNLLKKGIVIQGI--CYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 G + + N L+ + + + + G V+ L G+ +I+ + Sbjct: 201 GNIGRHPKNRLQNTVYLDDEADKGKPAITHYKVIERLGYVTLVSCKLETGRTHQIRVHMK 260 Query: 207 FFNWK 211 Sbjct: 261 HIGHT 265 >gi|150003134|ref|YP_001297878.1| ribosomal large subunit pseudouridine synthase D [Bacteroides vulgatus ATCC 8482] gi|254882415|ref|ZP_05255125.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 4_3_47FAA] gi|294778333|ref|ZP_06743757.1| pseudouridine synthase, RluA family [Bacteroides vulgatus PC510] gi|319640483|ref|ZP_07995205.1| pseudouridine synthase [Bacteroides sp. 3_1_40A] gi|149931558|gb|ABR38256.1| ribosomal large subunit pseudouridine synthase D [Bacteroides vulgatus ATCC 8482] gi|254835208|gb|EET15517.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 4_3_47FAA] gi|294447809|gb|EFG16385.1| pseudouridine synthase, RluA family [Bacteroides vulgatus PC510] gi|317387970|gb|EFV68827.1| pseudouridine synthase [Bacteroides sp. 3_1_40A] Length = 358 Score = 56.0 bits (133), Expect = 1e-05, Method: Composition-based stats. Identities = 31/269 (11%), Positives = 66/269 (24%), Gaps = 42/269 (15%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V + + RV K + + +SR +++ + NG ++ + V D + V Sbjct: 34 VVDKGQSQVRVDKYLFERLVNSSRNRIQKAADAGLIMANGKPVKS-SYKVKPCDVLTVMM 92 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 D + E L + +KP GLV + T+ + + Sbjct: 93 DRPRYDNDIIPEDIPLDIVYEDNDLMVVNKPAGLVVHPGCGNYHGTLVNAIAWHLKDNPK 152 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D GL + Sbjct: 153 YDPNDPQVGLVHRIDKDTSGLLVVAKTPDAKTHLGLQFYNKTTKRKYNALVWGVVENNEG 212 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 213 TIEGNIGRNPKDRMQMAVLSDPAQGKHAVTHYRVLERLGYVTLVECVLETGRTHQIRVHM 272 Query: 206 EFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + + R G L + Sbjct: 273 KHIGHTLFNDERYG-GNEILKGTHFSKYK 300 >gi|229815199|ref|ZP_04445535.1| hypothetical protein COLINT_02245 [Collinsella intestinalis DSM 13280] gi|229809209|gb|EEP44975.1| hypothetical protein COLINT_02245 [Collinsella intestinalis DSM 13280] Length = 338 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 33/253 (13%), Positives = 57/253 (22%), Gaps = 46/253 (18%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V +R+ + SR +++ V VNG V D I ++ Sbjct: 9 VPSEAAGERLDAYLGAQDACPSRSACAKLVEAGAVAVNGETCLSKKQVVCEGDRISIELP 68 Query: 64 --GVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI- 109 P +R + L L + + + + + + Sbjct: 69 EVREPGAIVPQAIPLDIRYEDDHLLVLSKQRGLVCHPAHGHEDGTLANALVYHCGIEHLG 128 Query: 110 ---------SVGRLDINTEGLLLLTNDGGLAR------------VLELPSTQWLRVYRVR 148 V RLD +T GL+L D R + V Sbjct: 129 TVQGEDRPGIVHRLDRDTSGLMLAAKDDETQRALQNLIRTRTLDRRYITLVHGEIVMDEG 188 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD--------TQKGSNAWVTVGLREGKNRE 200 K V T V L G+ + Sbjct: 189 TINTGIARSTRDRVKMAVSDDPFARQAITTFQVLERFEPARGDEGYTLVECHLYTGRTHQ 248 Query: 201 IKKVFEFFNWKVN 213 I+ + + Sbjct: 249 IRVHMRHIHHPLV 261 >gi|94310295|ref|YP_583505.1| ribosomal large subunit pseudouridine synthase D [Cupriavidus metallidurans CH34] gi|93354147|gb|ABF08236.1| 23S rRNA pseudouridine synthase [Cupriavidus metallidurans CH34] Length = 403 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 66/245 (26%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V +R+ K++AR SR +++ I V+V+G RA +V IEV Sbjct: 62 VDSASHGERLDKLLARHFSEFSRSRIQQWIEDGAVRVDGEP-SRAKASVQMGQKIEVQPQ 120 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 121 AAPESMAFTAEDVPLDVVYEDDAMLVINKPAGLVVHPAAGNWSGTVLNGLLHRDPSAARL 180 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 R V RLD T GL+++ L + + I Sbjct: 181 PRAGIVHRLDKETSGLMVVARTLVAQTDLVRQLAARTVKRTYLALVWGETPDDGTIDAPI 240 Query: 166 VIQ-GICYGDMQVTLDTQKGSNAWVT----------------VGLREGKNREIKKVFEFF 208 V ++ K S L G+ +I+ FE Sbjct: 241 GRDPRERTRMAIVHTNSGKPSRTHFETLGTVPLGRGKVSMVMCQLETGRTHQIRVHFESI 300 Query: 209 NWKVN 213 + Sbjct: 301 GHPLV 305 >gi|317056623|ref|YP_004105090.1| hemolysin A [Ruminococcus albus 7] gi|315448892|gb|ADU22456.1| hemolysin A [Ruminococcus albus 7] Length = 263 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 4/47 (8%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 K +A+ SR + MI V++NG + + A V +D IEVD Sbjct: 10 KALAK----SRERAKSMIKSGCVRINGKVCTKPAAEVGDSDLIEVDD 52 >gi|113867448|ref|YP_725937.1| pseudouridylate synthase, 23S RNA-specific [Ralstonia eutropha H16] gi|113526224|emb|CAJ92569.1| pseudouridylate synthase, 23S RNA-specific [Ralstonia eutropha H16] Length = 396 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 37/245 (15%), Positives = 68/245 (27%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V +R+ K++AR SR +++ I V+V+G + R V + IE+ Sbjct: 49 VDSASHGERLDKLLARHFSEFSRSRLQQWIESGAVRVDGHV-RRPRDAVQMGNRIEIQPQ 107 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + T L + +V + + + L Sbjct: 108 AAPESSAFSPEDVPLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRDPGAALL 167 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL-RVYRVRFHGQVDQDKLNLLKKG 164 R V RLD T GL+++ L + + D+ + Sbjct: 168 PRAGIVHRLDKETSGLMVVARSLTAQTDLVRQLQARTVKRTYIALVWGRTYDEGTIDAPI 227 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVT----------------VGLREGKNREIKKVFEFF 208 V + K S L G+ +I+ FE Sbjct: 228 GRDPRERTRMAVVHTASGKPSRTHFRTLATVPLGRGFVSMVMCKLETGRTHQIRVHFESI 287 Query: 209 NWKVN 213 + Sbjct: 288 GHPLV 292 >gi|315224831|ref|ZP_07866652.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga ochracea F0287] gi|314945234|gb|EFS97262.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga ochracea F0287] Length = 352 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 33/241 (13%), Positives = 75/241 (31%), Gaps = 39/241 (16%) Query: 9 ENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 + P RV K + A+R +V++ Q + VNG ++ V + D ++V Sbjct: 33 KGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGEPVKS-NHRVKANDEVKVLFPHP 91 Query: 63 --------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-------F 105 + +P + + + L + +V + + + Sbjct: 92 PHEDLLVPENIPLNIVYEDDSLLVVNKPAGIVVHPGHGNYSGTLINALVYHFENLPNNSS 151 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHGQ 152 +R V R+D +T GLL++ L + G Sbjct: 152 NRPGLVHRIDKDTSGLLVVAKTEEAMLHLTQQFFNKTTQREYIALVWGNIEEDEGTVCGH 211 Query: 153 VDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + L+ + G + + + G ++ L G+ +I+ + Sbjct: 212 IGRHLKDRLQMDVFPDGSHGKEAVTHYKVLERFGYVTLISCKLETGRTHQIRVHLKHIGH 271 Query: 211 K 211 Sbjct: 272 T 272 >gi|253682199|ref|ZP_04862996.1| hemolysin A [Clostridium botulinum D str. 1873] gi|253561911|gb|EES91363.1| hemolysin A [Clostridium botulinum D str. 1873] Length = 270 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 20/178 (11%), Positives = 47/178 (26%), Gaps = 3/178 (1%) Query: 9 ENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 N +R+ ++ SR + + I + ++ VNG +++ V IE G + Sbjct: 2 SNVKSERLDSLLVEKNLFESREKAKIAIMEGKIFVNGQRVDKCGQKVKVDSDIEFKGEVM 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R L ++ G + + + + Sbjct: 62 PYVSRGGYKLEKSMKSFNIELQGKSCMDIGAST-GGFTDCMLQNGAIKVFSVDVGYGQFA 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 L + + + F + + + L ++KG Sbjct: 121 WKLRTDPRVVCMERTNARYLTFDDLGEYPDFASIDVSFISLKKII-PAIANLLSEKGE 177 >gi|189464334|ref|ZP_03013119.1| hypothetical protein BACINT_00675 [Bacteroides intestinalis DSM 17393] gi|189438124|gb|EDV07109.1| hypothetical protein BACINT_00675 [Bacteroides intestinalis DSM 17393] Length = 357 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 66/244 (27%), Gaps = 40/244 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V RV K + R ASR +++ V N ++ + V D I + Sbjct: 34 VVDRGQEMMRVDKYLFDRLTNASRNRIQKSAEAGFVMANNKPVKS-SYKVKPMDVITIMM 92 Query: 63 -----------DGVPLRKAERTRLWLY--HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +PL + + +V + V + Sbjct: 93 DRPRYENEVIPEDIPLNIVYEDKYLMIVNKPAGLVVHPGHGNYHGTLVNAIAWHMKDNPD 152 Query: 110 SV---------GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL-- 158 R+D +T GLL++ L + R R ++ Sbjct: 153 YDANDPHVGLVHRIDKDTSGLLVIAKTPDAKTNLGIQFFNKTTKRRYRALVWGIVEQDEG 212 Query: 159 -----------NLLKKGIVIQG-ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + ++ ++ + + + G V L G+ +I+ + Sbjct: 213 TIIGNIGRNPKDRMQMTVLPDDQGKHAVTHYRVLERLGYVTLVECILETGRTHQIRVHMK 272 Query: 207 FFNW 210 Sbjct: 273 HIGH 276 >gi|187934192|ref|YP_001884268.1| S4 domain protein YaaA [Clostridium botulinum B str. Eklund 17B] gi|188588344|ref|YP_001919468.1| S4 domain protein YaaA [Clostridium botulinum E3 str. Alaska E43] gi|187722345|gb|ACD23566.1| S4 domain protein YaaA [Clostridium botulinum B str. Eklund 17B] gi|188498625|gb|ACD51761.1| S4 domain protein YaaA [Clostridium botulinum E3 str. Alaska E43] Length = 68 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 1/63 (1%) Query: 5 NIVQENFTPQRVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 N ++ N ++ + +GIAS E + I + +KVNG + + + + D IE + Sbjct: 2 NKIKINTEIIKLDAFLKWSGIASLGSEAKIYIQEGLIKVNGEICLQRGKKLKAGDIIEFE 61 Query: 64 GVP 66 Sbjct: 62 DEK 64 >gi|269123695|ref|YP_003306272.1| pseudouridine synthase [Streptobacillus moniliformis DSM 12112] gi|268315021|gb|ACZ01395.1| pseudouridine synthase [Streptobacillus moniliformis DSM 12112] Length = 280 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 33/267 (12%), Positives = 70/267 (26%), Gaps = 50/267 (18%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVER--------MIAQQRVKVNGILLERAAV 52 M +K +V ++ R+ K + R+ + +I + VKVNG + Sbjct: 1 MINKYLVDKDHVNIRLDKFM-------RKYSKEESLSIIFSLIRKGFVKVNGKKSKE-NY 52 Query: 53 NVMSTDHIE-------VDGVPLRKA-------------ERTRLWLYHKPIGLVTTHSDPD 92 ++ D I V + K E +++ +KP + D Sbjct: 53 RLLLNDEIFFPDAAKIVMDKKIEKEIIDIDLFKNMIVFEDEDVFIINKPNNMPMHKGDKH 112 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEG--LLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 + ++ ++ N L +V E + + + Sbjct: 113 KFGLSETAKAYYNNPNVNFANRLDLETEGLVIGCKNLQILRKVNEEIRNKKIIKRYIAKV 172 Query: 151 GQVDQDKLNLLKKGIVIQ----------GICYGDMQVTLDTQKGSNAWVTVGLREGKNRE 200 Q I+ + K + + L G+ + Sbjct: 173 EQKKLQLDEEFFSDKKIKIFEDRVRVSKDGLEAKTYFKVIEVKDFKVLLDIELITGRKHQ 232 Query: 201 IKKVFEFFNWKVNRLIRISYGPFQLGT 227 I+ + YG +Q Sbjct: 233 IRVHLSDIGHPIIG--DSKYGNYQKKD 257 >gi|113477291|ref|YP_723352.1| hemolysin A [Trichodesmium erythraeum IMS101] gi|110168339|gb|ABG52879.1| hemolysin A [Trichodesmium erythraeum IMS101] Length = 284 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 12/55 (21%), Positives = 26/55 (47%), Gaps = 1/55 (1%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 QR+ ++ + S R++ + +I V VN ++++ V +I+V L Sbjct: 4 QRLDVLLVERNLCSSRQKAQVLIRAGEVMVNQQIVDKPGTEVDLESNIKVKQKSL 58 >gi|325577679|ref|ZP_08147954.1| ribosomal large subunit pseudouridine synthase D [Haemophilus parainfluenzae ATCC 33392] gi|325160424|gb|EGC72550.1| ribosomal large subunit pseudouridine synthase D [Haemophilus parainfluenzae ATCC 33392] Length = 324 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 62/238 (26%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +Q QR+ + +A SR ++ I ++VK+NG + + V + IE+ Sbjct: 10 IQPEQMGQRLDQTLAELFPEYSRSRLKTWIEAKQVKMNGEIADIPRAKVYGGEQIEISVE 69 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + +V + + + L Sbjct: 70 VEDENRFEPQNIPLNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPPIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|11499766|ref|NP_071009.1| hypothetical protein AF2184 [Archaeoglobus fulgidus DSM 4304] gi|2648341|gb|AAB89068.1| conserved hypothetical protein [Archaeoglobus fulgidus DSM 4304] Length = 208 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 5/67 (7%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ ++ R G S R + I + V V+G + + + V I+V L+ Sbjct: 1 MRLDILLVRRGFFSSRSRAKEAIKKGFVLVDGKKVTKPSAEVDFEAEIKV----LQPERP 56 Query: 73 TRLWLYH 79 W Sbjct: 57 RGYWKLK 63 >gi|269926450|ref|YP_003323073.1| pseudouridine synthase, RluA family [Thermobaculum terrenum ATCC BAA-798] gi|269790110|gb|ACZ42251.1| pseudouridine synthase, RluA family [Thermobaculum terrenum ATCC BAA-798] Length = 313 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 36/263 (13%), Positives = 74/263 (28%), Gaps = 42/263 (15%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 I+ +R+ ++A + SR +V+R I Q + VN + + + D I + Sbjct: 15 IISPEDVGERLDTLLAHKLESVSRSQVQRAIEQGTILVNDHP-SKPSYKLREGDRILILT 73 Query: 63 -----DGV----------PLRKAERTRLWLYHKPIGLVTTHSDPDGRST-------VFDN 100 G + + + + +V + D Sbjct: 74 IPRVPQGEVALIPSYVDLRVVYEDDKIIVIDKPAGMVVHPSPGHYDNTLVNALIARYPDL 133 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 L R V RLD +T GL+++ D L+ D Sbjct: 134 LKQPTDRPGIVHRLDKDTSGLIIVARDLDTLNYLQGQMKARKIFKEYTLLCCGALDPPEG 193 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE-------------GKNREIKKVFEF 207 + + + + + K + + ++ G+ +I+ F Sbjct: 194 RIEAPIGRDLRDRTKMSVIAGGKEAVTEYS-TIQSLGKYTLAIARPITGRTHQIRVHFAA 252 Query: 208 FNWKVNRLIRISYGPFQLGTLLA 230 + YG +L L Sbjct: 253 IGHPIAG--DPIYGNCRLEGLNR 273 >gi|297583963|ref|YP_003699743.1| RluA family pseudouridine synthase [Bacillus selenitireducens MLS10] gi|297142420|gb|ADH99177.1| pseudouridine synthase, RluA family [Bacillus selenitireducens MLS10] Length = 307 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 23/240 (9%), Positives = 59/240 (24%), Gaps = 37/240 (15%) Query: 10 NFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD----- 63 + +R+ K + SR + I + V VN +A + D + V Sbjct: 9 DEQGKRLDKWLTDQSDDWSRSLTQSWIQEGYVTVNDET-SKANYKLKIGDVVRVKVPEVE 67 Query: 64 ---------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + + ++ + + +V + V + G Sbjct: 68 ELEITAEDLDLDIVYEDQDVIVVNKPAGMVVHPAPGHPSGTLVNGLMYHCQDLSGINGVA 127 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWL---------------------RVYRVRFHGQV 153 + G L + + L + + Sbjct: 128 RPGIVHRIDKDTSGLLMVAKHDKAHESLVDQLKNKTTIRQYEALVVGTIPHEKGTVDAPI 187 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +D + K + + + + V L G+ +I+ ++ + + Sbjct: 188 GRDPQDRQKMTVTEENARDAVTHFQVIERMNGYTHVLCELETGRTHQIRVHMKYIGYPIV 247 >gi|86608591|ref|YP_477353.1| RluA family pseudouridine synthase [Synechococcus sp. JA-2-3B'a(2-13)] gi|86557133|gb|ABD02090.1| pseudouridine synthase, RluA family [Synechococcus sp. JA-2-3B'a(2-13)] Length = 317 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 57/244 (23%), Gaps = 37/244 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V E R+ + +A SR ++++I Q +V +NG + + D +EV Sbjct: 16 VTEKQQGLRLDRGLAEQLPELSRSRLQQLIRQGQVWLNGQPCRDKDRPLQAGDEVEVRIP 75 Query: 63 -------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 P+ + L + +V + V L Sbjct: 76 PATPTALQPEPIPLDILYEDDDLLVINKPRGLVVHPAPGHASGTLVHALLAHCPRLSGIN 135 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF---------------------- 149 G L G L + Q L+ Sbjct: 136 GEQRPGIVHRLDKDTTGALVIAKHDQAHQHLQAQIQAKTARRLYLGVVFGRPAQSQGTVS 195 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + G+ + L G+ +I+ Sbjct: 196 APIGRHPVDRQKMAVLTPGQGRVAVTHWQVLERLGNYTLMQFELETGRTHQIRVHAAHLR 255 Query: 210 WKVN 213 + Sbjct: 256 LPIV 259 >gi|189502073|ref|YP_001957790.1| hypothetical protein Aasi_0665 [Candidatus Amoebophilus asiaticus 5a2] gi|189497514|gb|ACE06061.1| hypothetical protein Aasi_0665 [Candidatus Amoebophilus asiaticus 5a2] Length = 341 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 27/247 (10%), Positives = 68/247 (27%), Gaps = 41/247 (16%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V P R+ K + R SR +++ I Q + VNG + +A + D I++ Sbjct: 20 TVDPGQKPYRIDKFLIDRLPNTSRNKIQLAIDNQFILVNG-IPTKANYKIRPYDKIQIVL 78 Query: 63 -----DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + + + ++ +V + + V + + Sbjct: 79 PNPPRNNELIPENIPLDIVYEDEALMVVHKPAGMVVHPGYNNWTGTLVNALIYYFDNLPT 138 Query: 110 SVGRLDIN------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + + TE L+ + + G Sbjct: 139 APNNIGRPGLVHRIDKDTSGLLVVAKTEASLIALAKQFYDHSIARTYYALIWGEPETETG 198 Query: 152 QVDQDKLNLLKKGIVI------QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 +D + L+ ++ + + + + V L G+ +I+ Sbjct: 199 TIDINLDRSLQDRRIVAPYTNPEKGKRAVTHYQVVERLRYVSLVKCTLETGRTHQIRAHM 258 Query: 206 EFFNWKV 212 + + Sbjct: 259 KHMGHPI 265 >gi|317121731|ref|YP_004101734.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter marianensis DSM 12885] gi|315591711|gb|ADU51007.1| ribosomal large subunit pseudouridine synthase D [Thermaerobacter marianensis DSM 12885] Length = 321 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 28/244 (11%), Positives = 67/244 (27%), Gaps = 38/244 (15%) Query: 6 IVQENFTPQRVSKVIA--RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +V + +R+ +A + +R ++R+I Q+++VNG + + + + V+ Sbjct: 18 VVPASAAGERLDVFLAGQDSLELTRSAIQRLIRSQQIRVNGRPAR-PSRRLEPGEEVVVE 76 Query: 64 -------GVP-------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 GV + + + L +V + L Sbjct: 77 LPAPAPSGVVAEPLPLDVVYEDADVVVLNKPRGWVVHPAPGHPQGTLANALLARYPEMEG 136 Query: 110 SVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 G L+ + G+ R V Sbjct: 137 VGGPGRPGIVHRLDRDTTGLLVVARSPLAYRELVRQLKERGVHREYLALVRGSPEVREGT 196 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + ++ + ++ G + + G + L G+ +I+ F Sbjct: 197 VDAPIGRHPVDRKRMAVLPGGGRPARTHFEVVERAGRYTLLRCWLDTGRTHQIRVHLAFI 256 Query: 209 NWKV 212 V Sbjct: 257 GLPV 260 >gi|296133340|ref|YP_003640587.1| pseudouridine synthase, RluA family [Thermincola sp. JR] gi|296031918|gb|ADG82686.1| pseudouridine synthase, RluA family [Thermincola potens JR] Length = 321 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 28/239 (11%), Positives = 64/239 (26%), Gaps = 41/239 (17%) Query: 13 PQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------ 63 R+ +A GI SR ++++I + VNG ++ A + + + + V+ Sbjct: 32 GTRIDVYLA--GIFDHLSRSFIQKLIGDGYITVNGTRVK-ANYKLKAGELVRVEIPYTEE 88 Query: 64 ----GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 P+ +R + + +V + V L G + Sbjct: 89 LEVSAEPIPLEILYEDRDVIVINKPQGMVVHPAPGNYSGTLVNALLWHCKDLSGINGVMR 148 Query: 116 I---------------------NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 L D + R + + Sbjct: 149 PGIVHRLDKDTSGVIMAAKNDETHASLAKQIKDRTVTRRYLALIHGVIPEPAGIIEAPIG 208 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +D + K + + + + +V L G+ +I+ + + V Sbjct: 209 RDPKDRKKMAVTTKNSKPAVTHYKVLERFNKYTFVECKLETGRTHQIRVHMAYLKYPVV 267 >gi|268319474|ref|YP_003293130.1| pseudouridine synthase, RluA family [Lactobacillus johnsonii FI9785] gi|262397849|emb|CAX66863.1| pseudouridine synthase, RluA family [Lactobacillus johnsonii FI9785] Length = 304 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 37/232 (15%), Positives = 74/232 (31%), Gaps = 36/232 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR----- 68 R+ KVI SR +++ ++ + + VN E+ + V S D I+V P++ Sbjct: 15 RLDKVITEKITDLSRTKIKELVNDKNILVNNK-AEKVSYKVQSGDVIDVTIPPVKPLSLE 73 Query: 69 ---------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------SRVISV 111 + + + +V + + V L R V Sbjct: 74 AENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTRDLADSPEGFRPGIV 133 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------KLN 159 R+D +T GLL++ + LE + + + + N Sbjct: 134 HRIDKDTSGLLMIAKNDRARESLEKQLAKKINKREYLAIVHGNFEVKNGVINAPIGRNPN 193 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ V T+ Q + + V L G+ +I+ ++ Sbjct: 194 SRKQMAVNPKGKAAVTHFTVLEQFKNYSLVKCVLETGRTHQIRVHMKYIGHP 245 >gi|16331005|ref|NP_441733.1| hypothetical protein slr0950 [Synechocystis sp. PCC 6803] gi|1653500|dbj|BAA18413.1| slr0950 [Synechocystis sp. PCC 6803] Length = 274 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 QR+ ++ G+ SR +R+I VKVN L+++ V +E+ P Sbjct: 3 KADKQRLDALLVAKGLCESRALAQRLIRAGEVKVNQQLVDKPGTLVTMDVAVELAQRP 60 >gi|291295265|ref|YP_003506663.1| pseudouridine synthase RluA family [Meiothermus ruber DSM 1279] gi|290470224|gb|ADD27643.1| pseudouridine synthase, RluA family [Meiothermus ruber DSM 1279] Length = 327 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 36/252 (14%), Positives = 83/252 (32%), Gaps = 49/252 (19%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 + + R+ + +A SR + + I V V G ++ + + + + +EV Sbjct: 5 SASGVRLDQALAFEANTSRAKAQEWIEAGLVTVGGKVVTKPSYKLR-GETVEVEPPPPQP 63 Query: 63 -----DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 + +PL E L + +KP G++T + T+ + + F +S+G + Sbjct: 64 ASVAAEDIPLHILYEDPDLIVINKPAGMITHPAPGVYSGTLVNAILGRFGLDLSLGESEE 123 Query: 117 NTE-------------GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 G++ + G ++ R F G+ + L Sbjct: 124 EGGLLLQAQKPELIRPGIVHRLDKGTSGVIVVARHEAAHRRLAEAFAGRSVYKRYIALTV 183 Query: 164 GIVIQGICYGDM----------------------QVTLDTQKGSNAWVTVGLREGKNREI 201 GI +G+ + + + +A V+ L G+ +I Sbjct: 184 GIPREGLLSAPIGRHPVDRTRMHVGGVAARHAQTEFEVLAVAEPHALVSAILHTGRTHQI 243 Query: 202 KKVFEFFNWKVN 213 + + + + Sbjct: 244 RVHLKHLHAPIL 255 >gi|71894118|ref|YP_278226.1| ribosomal large subunit pseudouridine synthase C [Mycoplasma synoviae 53] gi|71850906|gb|AAZ43515.1| ribosomal large subunit pseudouridine synthase C [Mycoplasma synoviae 53] Length = 281 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 32/235 (13%), Positives = 73/235 (31%), Gaps = 34/235 (14%) Query: 8 QENFTPQRVSKVIA----RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +N + + K+I IA+ +E++ ++ +KVN + V D +EV Sbjct: 7 SKNDENRSLFKLICKYFPNLTIAT---IEKLFRKKEIKVNSKRITDKKFVVSENDLVEVY 63 Query: 64 GV-----------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 G+ + + L + K ++ + + Sbjct: 64 GISESNLNLPQIKKVSFDFQIIYEDANILIIDKKENLVIHGEDNSLDNQVLSYLKHKQID 123 Query: 107 RVISV--GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 GRLD T GL++ + + L S + +VY+ + L Sbjct: 124 SFKPSHVGRLDKETSGLIVYAKNYLTLKQLNEKSFNFKKVYQFKSDFLSSSPLELKLY-F 182 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVG-------LREGKNREIKKVFEFFNWKV 212 + + + K +++ + G+ +I+ + N + Sbjct: 183 YKDENNKTKISKTQKENSKLAHSIFYCENNKKFAQIITGRKHQIRLSLAYLNKPI 237 >gi|327401288|ref|YP_004342127.1| RNA-binding S4 domain-containing protein [Archaeoglobus veneficus SNP6] gi|327316796|gb|AEA47412.1| RNA-binding S4 domain protein [Archaeoglobus veneficus SNP6] Length = 218 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G + R++ + I + V VNG+ + + + V IEV Sbjct: 1 MRLDQFLVSKGFFTTRQKAKEAIKRGFVFVNGVRVTKPSARVSGDAEIEV 50 >gi|213858018|ref|ZP_03384989.1| 16S rRNA pseudouridylate synthase A [Salmonella enterica subsp. enterica serovar Typhi str. M223] Length = 82 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 21/82 (25%), Positives = 38/82 (46%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTT 87 R R I RV V+G ++ AA ++ + DG PL + R ++ +KP G V + Sbjct: 1 RAIAGREIRGNRVTVDGEIVRNAAFKLLPEHDVAYDGNPLAQQHGPRYFMLNKPQGYVCS 60 Query: 88 HSDPDGRSTVFDNLPSIFSRVI 109 DPD + ++ + ++ Sbjct: 61 TDDPDHPTVLYFLDEPVAWKLH 82 >gi|330955284|gb|EGH55544.1| pseudouridine synthase, Rsu [Pseudomonas syringae Cit 7] Length = 132 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 37/127 (29%), Positives = 58/127 (45%), Gaps = 3/127 (2%) Query: 26 ASRREV--ERM-IAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPI 82 +R + + +A RV+V+G V + +D L+ + R ++ HKP Sbjct: 6 GTRNHACVDSLALASGRVQVDGQATRDPHHEVREFSCVALDEEILQAGKAARYFMLHKPE 65 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL 142 G V+ SD + + + GRLD NT GL+L+TNDG +R L P T+ Sbjct: 66 GCVSATSDAQHPTVLDLLDEPDKHELHIAGRLDFNTTGLMLITNDGQWSRRLTQPQTKMP 125 Query: 143 RVYRVRF 149 +VY V Sbjct: 126 KVYYVET 132 >gi|227813198|ref|YP_002813207.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. CDC 684] gi|227007575|gb|ACP17318.1| ribosomal large subunit pseudouridine synthase, RluA family [Bacillus anthracis str. CDC 684] Length = 88 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 6/60 (10%) Query: 6 IVQENFTPQRVSKVIARAGI---ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V E +R+ K +A GI SR +V++ I V VNG ++ V D I V Sbjct: 8 TVAEEQKNERIDKFVA--GINNEWSRTQVQQWIKDDVVTVNGKAVK-GNYKVRENDEITV 64 >gi|158320450|ref|YP_001512957.1| RluA family pseudouridine synthase [Alkaliphilus oremlandii OhILAs] gi|158140649|gb|ABW18961.1| pseudouridine synthase, RluA family [Alkaliphilus oremlandii OhILAs] Length = 308 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 70/245 (28%), Gaps = 38/245 (15%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +++E+ R+ I+ SR ++++I +KVNG + E+A + D IE++ Sbjct: 7 RVLEEDVDN-RLDLYISEQYEELSRSYIQKLIKDHHIKVNGKI-EKAKYMIKLGDEIEIN 64 Query: 64 --------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 + + + + + +V + V L Sbjct: 65 LPQVEEVTIEPENIPLTIVYEDEDVIVVDKPQGMVVHPAPGNYSGTLVNALLFHCKNQLS 124 Query: 106 -----SRVISVGRLDINTEGLLLLTNDG------------GLARVLELPSTQWLRVYRVR 148 R V R+D +T GLL++ + + Sbjct: 125 DVNGPMRPGIVHRIDKDTSGLLVVAKNNAAHEILAEQFRAHTNTRKYHAIVVGNIREKEA 184 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 K V+ + + ++ L G+ +I+ + Sbjct: 185 AVDAPIGRHPVDRLKRAVMNDGKHAVTHFKVLEVFRDFTYIEAKLETGRTHQIRVHLSYI 244 Query: 209 NWKVN 213 + Sbjct: 245 GNPLV 249 >gi|13476217|ref|NP_107787.1| hemolysin-like protein [Mesorhizobium loti MAFF303099] gi|14026977|dbj|BAB53573.1| hemolysin-like protein [Mesorhizobium loti MAFF303099] Length = 254 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 1/55 (1%) Query: 11 FTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 T QR+ ++ + G ASR + + V V+G++ + NV + +D Sbjct: 8 STRQRLDDLLVQRGLFASRSRARDAVERGTVTVDGVMARKPGQNVSPQCLVAIDD 62 >gi|16329580|ref|NP_440308.1| hypothetical protein slr1592 [Synechocystis sp. PCC 6803] gi|3915463|sp|P72970|Y1592_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr1592; AltName: Full=RNA pseudouridylate synthase; AltName: Full=RNA-uridine isomerase gi|1652063|dbj|BAA16988.1| slr1592 [Synechocystis sp. PCC 6803] Length = 291 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 34/221 (15%), Positives = 63/221 (28%), Gaps = 30/221 (13%) Query: 29 REV-ERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT----------RLWL 77 R+ + I Q +++V+G + + + + P + E LW Sbjct: 14 RQAWQERIEQGQIEVDGKTV-DPTYPLQAGQTLTYWRSPWVEPEVPLQLSVLHRDEDLWA 72 Query: 78 YHKPIGLVTTHSDPDGRSTVFDNLPSIFS-------RVISVGRLDINTEGLLLLTNDGGL 130 KP GL TV + L + + G + G L Sbjct: 73 IDKPSGLPVLPGGDFVYHTVLEQLKIQYPQESLFPLHRLGTGTSGLLLLGRSTLGRRELS 132 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK-GIVIQGICY------GDMQV--TLDT 181 + E + R + + K G Y Q + Sbjct: 133 RQFREHICRKIYRTVIGPCDLPEKFECHQAIGKIPYPQLGYIYAASSHGKPAQSYGRILA 192 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGP 222 + W+ V +R G+ +I+ + + R+ YGP Sbjct: 193 RSPEKTWLEVEIRTGRPHQIRIHLASLGYPLLG-DRL-YGP 231 >gi|197120627|ref|YP_002132578.1| pseudouridine synthase [Anaeromyxobacter sp. K] gi|196170476|gb|ACG71449.1| pseudouridine synthase, RluA family [Anaeromyxobacter sp. K] Length = 302 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 21/50 (42%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 +R+ + IA G SR R I V V+G + A + + V+ Sbjct: 15 ERIDRFIAARGGISRGLARRAIEAGGVFVDGRRCKVAGRTLTPGQQVVVN 64 >gi|302039000|ref|YP_003799322.1| hemolysin TlyA-family protein [Candidatus Nitrospira defluvii] gi|300607064|emb|CBK43397.1| Hemolysin TlyA-family protein [Candidatus Nitrospira defluvii] Length = 251 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 34/55 (61%), Gaps = 1/55 (1%) Query: 11 FTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +R+ +V+ G +ASR + R+I V+V+G+++++AA ++S +E+ G Sbjct: 7 PERERLDRVLVSRGLVASREDAARLILAGLVRVDGVVVDKAAKPILSGAKVELTG 61 >gi|67920300|ref|ZP_00513820.1| Pseudouridine synthase, RluD [Crocosphaera watsonii WH 8501] gi|67857784|gb|EAM53023.1| Pseudouridine synthase, RluD [Crocosphaera watsonii WH 8501] Length = 313 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 35/249 (14%), Positives = 80/249 (32%), Gaps = 45/249 (18%) Query: 10 NFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---GV 65 R+ ++ SR ++++I Q + +N + + + D ++V+ Sbjct: 8 ENQGDRLDIWLSNQLTDISRSRIQKLIEQGNITLNNEVCPNKKIKLKIGDRLQVNIPEPQ 67 Query: 66 PLRKA----------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------S 106 PL E +L + +K LV + T+ L Sbjct: 68 PLELQPEPIPLDILYEDEQLIIINKSANLVVHPAPGHETGTLVHALLYHCSNLAGIGGVQ 127 Query: 107 RVISVGRLDINTEGLLLLTN----DGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 R V RLD +T G +++ L ++ + + + + ++D+ N K Sbjct: 128 RPGIVHRLDKDTTGAIVVAKTDFAHQNLQFQIKNRTAKREYLGIIYGVLNNEEDENNRDK 187 Query: 163 KGIVIQGICYGDMQ------------------VTLDTQKGSNAWVTVGLREGKNREIKKV 204 I + + + + + G+ + V L G+ +I+ Sbjct: 188 GMINLPIGRHPVDRKRMAVVPREKPGREAVTYWEIIERLGNYSLVKFILETGRTHQIRVH 247 Query: 205 FEFFNWKVN 213 +F + Sbjct: 248 SSYFGNPIV 256 >gi|258645705|ref|ZP_05733174.1| ribosomal large subunit pseudouridine synthase D [Dialister invisus DSM 15470] gi|260403074|gb|EEW96621.1| ribosomal large subunit pseudouridine synthase D [Dialister invisus DSM 15470] Length = 308 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 26/239 (10%), Positives = 65/239 (27%), Gaps = 36/239 (15%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP---- 66 +R+ + + +R EV++ I V + + + +V D I Sbjct: 12 DEGKRLDQFLKERTGLTRSEVQKWIKAGNVSLLPKKMIHSNYHVSEGDRISFFWEEKKKQ 71 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR--- 113 + + + + + +V + + V L ++ SVG Sbjct: 72 ELIGQNIPLDILYEDNDMIVINKRRGVVVHPGAGNTEGTLVNALLFHCGEQLRSVGDPER 131 Query: 114 ------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD----------- 156 LD +T G+++ +L+ + Sbjct: 132 PGIVHRLDKDTSGVMVAAKSERAYGILQKEIASHKAQRCYIALVHGQMEGDTGVIRLPLG 191 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + +K ++ + + +W+ L G+ +I+ V Sbjct: 192 RSTKDRMKWDVLHETGRPAVTHFHVIEYLPHYSWIECKLETGRTHQIRVHMAHIRHAVV 250 >gi|238921072|ref|YP_002934587.1| ribosomal large subunit pseudouridine synthase D [Edwardsiella ictaluri 93-146] gi|238870641|gb|ACR70352.1| ribosomal large subunit pseudouridine synthase D [Edwardsiella ictaluri 93-146] Length = 300 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 29/217 (13%), Positives = 59/217 (27%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I + RV VNG+++ + V+ +HI +D + + + Sbjct: 6 SRSRIKEWILEGRVSVNGVIINKPKEKVLGGEHIAIDALIEEENRWEAQDIALDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVGRLDINTEGLLLLTND 127 L + +V + + + L R V RLD +T GL+++ Sbjct: 66 DILVINKPRDLVVHPGAGNPDGTVLNALLHHYPQIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L V Sbjct: 126 VPAQTRLVESLQLREITREYEAVAIGTMTAGGTVREPIARHPTKRTHMSVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ N + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHINHPLV 222 >gi|54310131|ref|YP_131151.1| 23S rRNA pseudouridine synthase D [Photobacterium profundum SS9] gi|90414902|ref|ZP_01222867.1| putative ribosomal large subunit pseudouridine synthase D [Photobacterium profundum 3TCK] gi|46914570|emb|CAG21349.1| putative ribosomal large subunit pseudouridine synthase D [Photobacterium profundum SS9] gi|90324016|gb|EAS40610.1| putative ribosomal large subunit pseudouridine synthase D [Photobacterium profundum 3TCK] Length = 324 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 33/240 (13%), Positives = 66/240 (27%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILL----------ERAAVN 53 N V ++ R+ +VIA SR V+ I + V VNG ++ E + Sbjct: 9 NTVNDSQLGMRLDQVIAELYPDYSRSRVKEWILKNMVSVNGEIVNKPRLKMMGGEELFIK 68 Query: 54 VMSTDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D + + + L + +V + R+ + L Sbjct: 69 AEIEDEVRWVAQDIPLDIVYEDEHILVINKPRDFVVHPGAGTPDRTVLNALLFHCPALAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 R V RLD +T GL+++ L + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTIQAQTRLVRALQKRKITREYEAIAMGKMTGGGTVEKP 188 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + + + Sbjct: 189 IGRHATKRICMAVHELGKPAITHYRVAEHFREHTRLVLRLETGRTHQIRVHMSYMSHPLV 248 >gi|161349358|ref|ZP_02096742.1| ribosomal protein S4 [Coxiella burnetii 'MSU Goat Q177'] gi|164601574|gb|EDQ95165.1| ribosomal protein S4 [Coxiella burnetii 'MSU Goat Q177'] Length = 206 Score = 55.6 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A+R E ++I+ + + VNG ++ + V D IEV Sbjct: 97 RLDNVVYRMGFSATRAEARQLISHKAILVNGEVVNIPSYQVKPGDIIEV 145 >gi|149002474|ref|ZP_01827408.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP14-BS69] gi|147759411|gb|EDK66403.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pneumoniae SP14-BS69] Length = 64 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 1/48 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K ++ SR I +V VNG + ++A V D + Sbjct: 11 RLDKALSDLTELSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDVVTY 57 >gi|91216414|ref|ZP_01253381.1| ribosomal large subunit pseudouridine synthase [Psychroflexus torquis ATCC 700755] gi|91185552|gb|EAS71928.1| ribosomal large subunit pseudouridine synthase [Psychroflexus torquis ATCC 700755] Length = 345 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 68/244 (27%), Gaps = 41/244 (16%) Query: 8 QENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---- 62 + P RV K + A+R +V++ + VNGI +++ V + D ++V Sbjct: 22 SKGQEPLRVDKFLMNFIENATRNKVQQAAKDGNIYVNGIPVKQ-NYKVKAGDEVKVLLAY 80 Query: 63 -------------------DGVPLRKAERTRLWLYHKPIGLV--------TTHSDPDGRS 95 D L + + ++ + S Sbjct: 81 PPYENLLTPEDIPLDIVYEDDALLVVNKAAGMVVHPGHGNYSGTLINALVYHFENLPNNS 140 Query: 96 TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS----TQWLRVYRVRFHG 151 + L + S + TE + + + + L G Sbjct: 141 SDRPGLVHRIDKDTSGLLVVAKTEAAMAYLSRQFFHKTSKREYVAIAWGNLNEEEGTIEG 200 Query: 152 QVDQDKLNLLKKGIVIQG----ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + ++ N L+ + + + + G ++ L G+ +I+ + Sbjct: 201 NIGRNPKNRLQNIVYLGDDADQGKPAVTHYKVIERLGYVTLISCQLETGRTHQIRVHLKH 260 Query: 208 FNWK 211 Sbjct: 261 IGHT 264 >gi|15604676|ref|NP_221194.1| pseudouridylate synthase [Rickettsia prowazekii str. Madrid E] gi|3861371|emb|CAA15270.1| SFHB PROTEIN HOMOLOG (sfhB) [Rickettsia prowazekii] gi|292572507|gb|ADE30422.1| Ribosomal large subunit pseudouridine synthases RluD subfamily protein [Rickettsia prowazekii Rp22] Length = 313 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 33/237 (13%), Positives = 68/237 (28%), Gaps = 38/237 (16%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPLR-- 68 R+ K ++ SR +V++ I V+VNG+++ + V V D I + L+ Sbjct: 14 RLDKALSLLLKKVSRNQVQKAIKNYCVQVNGVIISDSDVLVKENDTILFSFKEPEELKIT 73 Query: 69 --------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN--- 117 E L + +K G+ +T+ + L + +G + Sbjct: 74 AANITLDIIYEDDDLIVINKAAGMTVHPGIRHHDNTLVNALLHHTKYLSDIGSAERPGIV 133 Query: 118 -----TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY 172 L++ +L + +V R + Sbjct: 134 HRLDKDTTGLMVVAKNNKTHILLANQIKQRQVIRKYKALVWGVINPLEGIIKNNVGRNRN 193 Query: 173 GDMQVTLDTQKGSN----------------AWVTVGLREGKNREIKKVFEFFNWKVN 213 ++T+ G + V L G+ +I+ V Sbjct: 194 NRKKMTILKYGGKKAVTYYKTLELFYGGTLSMVECKLSTGRTHQIRVQLSNLKHSVV 250 >gi|304437216|ref|ZP_07397176.1| ribosomal large subunit pseudouridine synthase D [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304369708|gb|EFM23373.1| ribosomal large subunit pseudouridine synthase D [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 300 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 27/241 (11%), Positives = 62/241 (25%), Gaps = 37/241 (15%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN----------VMST 57 + +R+ + R SR +R++A+ V V+G +A + Sbjct: 6 SDQAGERLDVFLVRQLPTLSRSYAQRLVAEGHVTVDGER-RKANFKLSGGESVACTIPPA 64 Query: 58 DHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 + +E+ + + + + +V + + V L G Sbjct: 65 EAVEIRAENIPLNVLYEDADIIVINKPRGMVVHPAAGVYTGTLVNALLHHCSDLSGINGD 124 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------------ 155 L L G + + +L + + Sbjct: 125 LRPGIVHRLDKDTSGVMVAAKNDMAHHFLARQIRDKEARREYRAIVYGNIVERAGVITGD 184 Query: 156 ---DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + K IV + + + G +V L G+ +I+ + Sbjct: 185 IGRHPTDRKKMAIVRENGKPATTHFEVLERFGDYTFVACRLETGRTHQIRVHMTSIGHPL 244 Query: 213 N 213 Sbjct: 245 V 245 >gi|289675786|ref|ZP_06496676.1| pseudouridine synthase, Rsu [Pseudomonas syringae pv. syringae FF5] Length = 179 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 38/155 (24%), Positives = 72/155 (46%), Gaps = 16/155 (10%) Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 +L L++KP ++T SD +GR+T+ D + GRLD ++EGLLLLTNDG Sbjct: 27 PPAEPKLILFNKPFDVLTQFSDEEGRATLKDFIKIPGI--YPAGRLDRDSEGLLLLTNDG 84 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLD-------- 180 L + P + + Y V+ G+ ++L L+ G+ + + Sbjct: 85 QLQSRIADPKHKLAKTYWVQVEGEPSDEQLQQLRDGVQLNDGPTLPAEARQLDEPQLWPR 144 Query: 181 ------TQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +W+ + ++EG+NR+++++ Sbjct: 145 NPPVRFRKSVPTSWLELVIKEGRNRQVRRMTAAVG 179 >gi|313114148|ref|ZP_07799700.1| ribosomal RNA large subunit methyltransferase J [Faecalibacterium cf. prausnitzii KLE1255] gi|310623557|gb|EFQ06960.1| ribosomal RNA large subunit methyltransferase J [Faecalibacterium cf. prausnitzii KLE1255] Length = 267 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 21/164 (12%), Positives = 50/164 (30%), Gaps = 2/164 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ + + + G+ SR + +I V VN +++A + +EV G + R Sbjct: 3 IRLDQYLVQHGLTQSRERAKALIMSGIVFVNEQKVDKAGEMIKEDAKVEVRGHDIGYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T + ++ G + + + L Sbjct: 63 GGLKLEKAMKCFPLTPNGKVCMDIGAST-GGFTDCMLQNGAVKVYAVDVGYGQLAWSLRT 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + + + + V+ +Q + + + + Q Sbjct: 122 DERVVNMERTNIRNVKPEDLAEQIEFFSVDVSFISLHHIFPVAQ 165 >gi|118579586|ref|YP_900836.1| hemolysin A [Pelobacter propionicus DSM 2379] gi|118502296|gb|ABK98778.1| hemolysin A [Pelobacter propionicus DSM 2379] Length = 367 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 1/56 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 QR+ K++ G+A SR + + +I +V V+ + ++A V I V G L Sbjct: 5 QRLDKLVLERGLAPSREKAQALIMAGQVIVDDHVADKAGQQVAVDAEIRVRGETLP 60 >gi|332668251|ref|YP_004451039.1| RluA family pseudouridine synthase [Haliscomenobacter hydrossis DSM 1100] gi|332337065|gb|AEE54166.1| pseudouridine synthase, RluA family [Haliscomenobacter hydrossis DSM 1100] Length = 366 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 39/249 (15%), Positives = 70/249 (28%), Gaps = 45/249 (18%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V N +P R+ K + R G SR V+ I V VN ++ + I + Sbjct: 31 VDGNQSPLRIDKFLMDRIGEVSRNRVQNAIKTGSVLVNDQEIK-PNFKIKPGQKITLILP 89 Query: 63 ----DGVPLRKA--------ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 D + + E L + +KP GLV + T+ + L Sbjct: 90 KSTTDKLRIVPQNIPLNVVYEDEDLLVVNKPPGLVVHPGVGHFKGTLVNALAYHLRLDPN 149 Query: 107 ---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD- 156 RV V R+D NT GLL++ + L + + Sbjct: 150 QISTGNFQERVGLVHRIDKNTSGLLVVAKNEFALSHLAKQFFYHTIERTYNALVWGEPEE 209 Query: 157 --------------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 + + + + + L G+ +I+ Sbjct: 210 DRGTINAHVGRHPRFRKDFTVFPEGDQGKWAVTHYQVLERLYYVSLIKCTLETGRTHQIR 269 Query: 203 KVFEFFNWK 211 ++ Sbjct: 270 VHLKYLGHT 278 >gi|332521351|ref|ZP_08397807.1| pseudouridine synthase, RluA family [Lacinutrix algicola 5H-3-7-4] gi|332043079|gb|EGI79277.1| pseudouridine synthase, RluA family [Lacinutrix algicola 5H-3-7-4] Length = 345 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 29/246 (11%), Positives = 67/246 (27%), Gaps = 41/246 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + P R+ K + A+R +++ + + VN ++ V D I+V Sbjct: 22 IADKGQAPLRIDKWLMNKVENATRNKIQAAAKEGNIYVNDQPVKS-NYKVKPLDVIKVLF 80 Query: 65 VP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + + T L + +V + + + + Sbjct: 81 EHPPFENLLVGEDLPLDIVYEDDTLLVVNKPAGMVVHPGHGNYSGTLINALIYHFDNLPK 140 Query: 110 SV-------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRF 149 + R+D +T GLL++ L + Sbjct: 141 NSSDRPGLVHRIDKDTSGLLVVAKTEHAMAHLSKQFKDKTSEREYVAIVWGNMEEDEGTI 200 Query: 150 HGQVDQDKLNLLKKGIVIQG--ICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 G + + N L+ + + + + V+ L G+ +I+ Sbjct: 201 EGNIGRHPKNRLQNTVYMDDDADKGKPAVTHYKVLERLTYVTLVSCKLETGRTHQIRVHM 260 Query: 206 EFFNWK 211 + Sbjct: 261 KHIGHT 266 >gi|282600817|ref|ZP_06257758.1| ribosomal large subunit pseudouridine synthase [Subdoligranulum variabile DSM 15176] gi|282571024|gb|EFB76559.1| ribosomal large subunit pseudouridine synthase [Subdoligranulum variabile DSM 15176] Length = 302 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 40/263 (15%), Positives = 73/263 (27%), Gaps = 39/263 (14%) Query: 13 PQRVSKVIARA----GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 P R+ K + G+ R + + + + ++K+NG + + V + D I + Sbjct: 11 PVRLDKYLMEQYPSLGLG-R--LNKALRENKIKLNGKK-QPLSTRVQNGDVIRLFLKDEQ 66 Query: 63 -DGVPLR-----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS--VGRL 114 + PL + L + V + V L + + RL Sbjct: 67 LEDRPLPSAVFVYEDEDILVVNKPAGIEVDGPAADTLLKRVQTTLAAAGKAGHAVLCHRL 126 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----- 169 D T GL+LL + L R L +++ Sbjct: 127 DTGTSGLVLLAKNQATELFLTQAIKARTIEKRYLCVTFGRPQPPAALMHDYLLKDAERGV 186 Query: 170 --ICYGDMQVTLDTQKGSNAW--------VTVGLREGKNREIKKVFEFFNWKVNRLIRIS 219 I + G + V L G+ +I+ + L Sbjct: 187 VKIITSPASGAKEVITGYETLAVSGRLALLEVELVTGRTHQIRAHLAHIGCPI--LGDSK 244 Query: 220 YGPFQLGTLLAGSTREVSKKILR 242 YG L + + LR Sbjct: 245 YGNNAANRELHFKYQALCAWELR 267 >gi|255655213|ref|ZP_05400622.1| putative RNA methyltransferase [Clostridium difficile QCD-23m63] gi|296451198|ref|ZP_06892939.1| hemolysin A [Clostridium difficile NAP08] gi|296880450|ref|ZP_06904412.1| hemolysin A [Clostridium difficile NAP07] gi|296260019|gb|EFH06873.1| hemolysin A [Clostridium difficile NAP08] gi|296428404|gb|EFH14289.1| hemolysin A [Clostridium difficile NAP07] Length = 270 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 22/177 (12%), Positives = 48/177 (27%), Gaps = 2/177 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G SR ++ I V V+ ++A V +IEV G P+ R Sbjct: 4 RIDLLLVEQGHFESRERAKKAIMAGLVFVDNQRCDKAGTEVKEDCNIEVKGNPIPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T ++ G + + + + L + Sbjct: 64 GLKLEKAMKNFDLTIDGKVCMDIGAST-GGFTDCMLKNGAIKVFSIDVGYGQLAWKLRQD 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V + + + + + A + Sbjct: 123 DRVVCMERTNIRNVTIEDTKQFADFASIDVSFISLKLVLPKAKELVRHDGEIVALIK 179 >gi|292669557|ref|ZP_06602983.1| ribosomal large subunit pseudouridine synthase D [Selenomonas noxia ATCC 43541] gi|292648766|gb|EFF66738.1| ribosomal large subunit pseudouridine synthase D [Selenomonas noxia ATCC 43541] Length = 302 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 68/244 (27%), Gaps = 37/244 (15%) Query: 6 IVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + +R+ + R SR +R+I ++RV V+G +A + + + D Sbjct: 4 IFSADCAGERLDVFLVRKMPDLSRSYAQRLIEEKRVTVDG-TPRKANYKLRGGECVACDL 62 Query: 65 VPLR--------------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P+ + + + +V + G + V L Sbjct: 63 PPVEEVSVRAENIPLDILYEDADIIVVNKPRGMVVHPAAGISGGTLVNALLYHCRDLSGI 122 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------- 155 G L L G +A + + L + + + Sbjct: 123 NGALRPGIVHRLDKDTSGVMAAAKNDAAHRSLAEQIQKKEARREYRAIVYGNIAERAGII 182 Query: 156 ------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + IV + + + + G +V L G+ +I+ Sbjct: 183 TGDIGRHPTDRKRMAIVRENGKHATTHFEVLERFGGYTFVACRLETGRTHQIRVHMTSIG 242 Query: 210 WKVN 213 + Sbjct: 243 HPLV 246 >gi|225567966|ref|ZP_03776991.1| hypothetical protein CLOHYLEM_04039 [Clostridium hylemonae DSM 15053] gi|225163254|gb|EEG75873.1| hypothetical protein CLOHYLEM_04039 [Clostridium hylemonae DSM 15053] Length = 251 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 15/58 (25%), Positives = 27/58 (46%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ R+ V++ A SR ++ I +V VNG L+ ++ +D I V G Sbjct: 168 MKGTVPSVRLDTVLSVAWPLSRSKLTAYIEGGKVFVNGKLITSNGYHLKESDRISVRG 225 >gi|291528977|emb|CBK94563.1| ribosomal large subunit pseudouridine synthase D [Eubacterium rectale M104/1] Length = 312 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 33/249 (13%), Positives = 76/249 (30%), Gaps = 38/249 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +D VQ +R+ K ++ SR +R++ + ++ VN ++A + + D + Sbjct: 3 RDTFEVQSEQEGERLDKYLSSIYPDISRSFFQRILKENQILVNDKP-QKANYRLKTDDIV 61 Query: 61 EV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 +V +PL + L + +V + + V + Sbjct: 62 DVTIPDAVQTPILPQDIPLDILYEDDDVLVVNKPKGMVVHPSAGHYSDTLVNAIMYHCKD 121 Query: 107 ---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR-----------VYR 146 R V R+D++T G L++ + + V Sbjct: 122 SLSGINGEIRPGIVHRIDMDTTGSLIVCKNDESHIKISEQIKHHSCNRIYVGIVCGNVKN 181 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + + +K + I + + G ++ L G+ +I+ Sbjct: 182 DEGTIEGAIGRNPNDRKKMAINEKNGKPAVTHYKVLERFGDYTYMQFKLETGRTHQIRVH 241 Query: 205 FEFFNWKVN 213 N + Sbjct: 242 MASINHPLL 250 >gi|51892381|ref|YP_075072.1| 23S rRNA pseudouridine synthase [Symbiobacterium thermophilum IAM 14863] gi|51856070|dbj|BAD40228.1| 23S rRNA pseudouridine synthase [Symbiobacterium thermophilum IAM 14863] Length = 304 Score = 55.2 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 37/251 (14%), Positives = 71/251 (28%), Gaps = 41/251 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIA---RAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M++ I E P R+ +A G+ SR ++ +I + +V +NG + + A V Sbjct: 1 MREYRITAEEGHP-RIDVFLAGRPEIGL-SRSRIQALIDEGQVTLNGAMPK-ARQAVNPG 57 Query: 58 DHIEV---DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 D I V D P + + L + + +V + + V L Sbjct: 58 DVIVVRVPDPEPMELVPEDIPLDIVYEDEDILVVNKQRGLVVHPAAGHWTGTLVHALLDK 117 Query: 104 IFSRVISVGRLDIN---------------------TEGLLLLTNDGGLARVLELPSTQWL 142 + G L L D + RV Sbjct: 118 VDDLEGIGGELRPGIVHRLDKDTTGLLVVAKSERAMASLQEQIRDHMVQRVYWALVHGNS 177 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 R + + + + + + + + A + L G+ +I+ Sbjct: 178 MPDTGRIEAPIGRHPRDRKRMAVNPKTGRDAVTYFRVLERYRGYALLECRLETGRTHQIR 237 Query: 203 KVFEFFNWKVN 213 F V Sbjct: 238 VHLSFIGHPVV 248 >gi|171911749|ref|ZP_02927219.1| hemolysin A [Verrucomicrobium spinosum DSM 4136] Length = 245 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ G+ SR + +R+I V VN + + +A V I V Sbjct: 4 QRLDHLLVARGLCASREQGKRLILAGDVLVNDVPVTKAGQLVPEDSVIRV 53 >gi|114566812|ref|YP_753966.1| pseudouridylate synthase [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337747|gb|ABI68595.1| ribosomal large subunit pseudouridine synthase D [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 305 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 31/242 (12%), Positives = 64/242 (26%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 V E +R+ + SR V+ +I ++V+ ++ + + + + I V+ Sbjct: 9 VDEEMEGERLDAFVTEQLDELSRSLVKTLIENGEIRVDSKQ-QKPSYRLKAGEEIIVEIP 67 Query: 64 ----------GVPLRKAERTRLWLY--HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +PL + + + + V L + Sbjct: 68 AVRELKLKAQDIPLSFIYQDKDIAVIDKPKGMVAHPAHGNWENTLVNALLFHLKDLSGIN 127 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------- 155 G L L G + + + L + Sbjct: 128 GELRPGIVHRLDKDTSGVMVIAKNDMAHRQLAAQIKDHSINREYITLVHGIIKENLGSIE 187 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK VI G + + G+ + V L G+ +I+ F + Sbjct: 188 APIGRSKQDRKKMAVIAGGRPAVSNYQVLERLGNYTLLKVKLLTGRTHQIRVHFAYIKHP 247 Query: 212 VN 213 V Sbjct: 248 VV 249 >gi|299066639|emb|CBJ37832.1| Ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Ralstonia solanacearum CMR15] Length = 353 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 46/310 (14%), Positives = 83/310 (26%), Gaps = 52/310 (16%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + E +R+ K +A+ SR +++ I V+V G + V D IEV Sbjct: 38 IPETLHGERLDKALAKLLPDYSRSRLQQWIDAGAVRVGGAAVR-PRAAVCGGDRIEVVPQ 96 Query: 63 --DGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 D + + T L + +V + + + L Sbjct: 97 RADDENAFVAEPIDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPQAAGL 156 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------- 152 R V RLD T GL+++ L Sbjct: 157 PRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEAGTIDAPI 216 Query: 153 -VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 217 GRDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQVSLVQCQLETGRTHQIRVHFESE 276 Query: 209 NWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 + LG + + R + ++ L +A + + + Sbjct: 277 GHPL------------LGDPVYTRNFRRGRPQTIKAPLPAPFARQALHAVRLGLVHPASG 324 Query: 268 VRDRPNIISE 277 + Sbjct: 325 HSVHWHAGVP 334 >gi|167766571|ref|ZP_02438624.1| hypothetical protein CLOSS21_01077 [Clostridium sp. SS2/1] gi|317498982|ref|ZP_07957264.1| hemolysin TlyA family protein [Lachnospiraceae bacterium 5_1_63FAA] gi|167711694|gb|EDS22273.1| hypothetical protein CLOSS21_01077 [Clostridium sp. SS2/1] gi|291558607|emb|CBL37407.1| hemolysin TlyA family protein [butyrate-producing bacterium SSC/2] gi|316893731|gb|EFV15931.1| hemolysin TlyA family protein [Lachnospiraceae bacterium 5_1_63FAA] Length = 273 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 24/175 (13%), Positives = 50/175 (28%), Gaps = 3/175 (1%) Query: 12 TPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ ++ + G+AS RE + +I V V+G ++A I V G L+ Sbjct: 2 KKERLDVLLVKKGLASSREKAKAIIMSGIVFVDGQREDKAGSTFDEKQEIIVKGKTLKYV 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L L D ++ G + + + + D L Sbjct: 62 SRGGLKLEKAMKNFDIVLKDKVCMDVGAST-GGFTDCMLQNGAVKVYSVDVGHGQLDWKL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + + + + ++ + I + G Sbjct: 121 RNDERVVCMERTNMRYMTEDDIDEKASFVSIDVSF-ISLTKILPAVYRILNTGGE 174 >gi|160892655|ref|ZP_02073445.1| hypothetical protein CLOL250_00185 [Clostridium sp. L2-50] gi|156865696|gb|EDO59127.1| hypothetical protein CLOL250_00185 [Clostridium sp. L2-50] Length = 305 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 39/253 (15%), Positives = 82/253 (32%), Gaps = 42/253 (16%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ NI EN+T +RV K +A SR +++++ + VN + ++ + S D Sbjct: 1 METYNIEADENWTDKRVDKGLADYFDNYSRSFLKKLLDDGNILVNDKKAK-PSLKIASGD 59 Query: 59 HI----------EVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I E++ + E + + +KP G+V + T+ + L F Sbjct: 60 RIDITIPSIASVEIEPENIPLDIVYEDEDIIIVNKPKGMVVHPAPGHYSGTLVNGLMYHF 119 Query: 106 SRVIS--VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 +S G L + + G L + +L + Sbjct: 120 KDSLSGINGELRPGIVHRIDMDTTGLLVVCKNDAAHNFLSEQLAVHSITRKYYAIC-FNY 178 Query: 164 GIVIQGICYGDM--------QVTLDTQKGSN---------------AWVTVGLREGKNRE 200 +GI + ++ ++ + G N + L G+ + Sbjct: 179 FTEDEGIVDLPIGRHPTDRKKMAVNYKNGRNAVTHYKVLKKLKNNFCLIECQLETGRTHQ 238 Query: 201 IKKVFEFFNWKVN 213 I+ + + Sbjct: 239 IRVHMSYIKHPLL 251 >gi|225619185|ref|YP_002720411.1| hemolysin protein [Brachyspira hyodysenteriae WA1] gi|1708222|sp|Q06803|HLYA_TREHY RecName: Full=Hemolysin A gi|296626|emb|CAA43858.1| hemolysin [Brachyspira hyodysenteriae] gi|225214004|gb|ACN82738.1| hemolysin protein [Brachyspira hyodysenteriae WA1] Length = 240 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G SR + + +I V VNG+ + A + TD+IEV Sbjct: 1 MRLDEYVHSEGYTESRSKAQDIILAGCVFVNGVKVTSKAHKIKDTDNIEV 50 >gi|307243246|ref|ZP_07525417.1| ribosomal RNA large subunit methyltransferase J [Peptostreptococcus stomatis DSM 17678] gi|306493374|gb|EFM65356.1| ribosomal RNA large subunit methyltransferase J [Peptostreptococcus stomatis DSM 17678] Length = 280 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 19/162 (11%), Positives = 44/162 (27%), Gaps = 2/162 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G SR + R I V V+ +++ V I V G PL R Sbjct: 4 RIDVLLVDMGFFPSREQARRTIMAGNVFVDNQRVDKPGTMVKDDSEILVKGKPLAYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + ++ G + + + + L + Sbjct: 64 GLKLEKAMKNFDISLEGKVCMDIGAST-GGFTDCMLQNGAVKVYSVDVGYGQLAWKLRQD 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 + + + + ++ + + + Sbjct: 123 ERVVCMERQNIRFLEVDALDERPDFASIDVSFISLKLVLPKA 164 >gi|83648561|ref|YP_436996.1| 23S RNA-specific pseudouridylate synthases-like protein [Hahella chejuensis KCTC 2396] gi|83636604|gb|ABC32571.1| Pseudouridylate synthases, 23S RNA-specific [Hahella chejuensis KCTC 2396] Length = 319 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 31/217 (14%), Positives = 62/217 (28%), Gaps = 31/217 (14%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I Q ++VNG ++ V+ D +E+D + + Sbjct: 32 SRSRIQNWIKQGALRVNGKQVK-PKEKVIEGDQVELDVELEAQGDWEAQPIALDVVFEDE 90 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 L + + +V + + V L R V RLD +T GL+++ Sbjct: 91 HLLVINKQADFVVHPAAGHSDGTVVNAVLHHCPALSELPRAGIVHRLDKDTTGLMVIAKT 150 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVD-----------QDKLNLLKKGIVIQGICYGDMQ 176 L + +K V +G Sbjct: 151 LIAHNSLVEQLQAREMGREYECVVYGELTGGGVVEAAIGRHPQNRQKMAVTRGGKDAVTH 210 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 L + + + L G+ +I+ + + Sbjct: 211 YRLIRRWRGFTHLRLKLETGRTHQIRVHMAHIHHSIL 247 >gi|152977723|ref|YP_001343352.1| 23S rRNA pseudouridine synthase D [Actinobacillus succinogenes 130Z] gi|150839446|gb|ABR73417.1| pseudouridine synthase, RluA family [Actinobacillus succinogenes 130Z] Length = 324 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 30/238 (12%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 VQ + QR+ + +A SR ++ I V+VNG + V+ + IE+ Sbjct: 10 VQSHQMGQRLDQTLAELFPDYSRSRLKTWIEGNLVRVNGNIQNIPRTKVLGGEQIEIRAE 69 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + L L +V + + + L Sbjct: 70 VEEETHYEPENLPLDIVYEDDHILVLNKPKNFVVHPGAGNPRGTVLNALLYHYPQIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-----------VDQ 155 RLD +T GL+++ L + Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTQLVRDLQKRKITREYEAVAFGVMTKGGKVDEPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHPTKRTAMAVHPMGKPAVTHYRIMEHFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|322514978|ref|ZP_08067990.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus ureae ATCC 25976] gi|322119031|gb|EFX91195.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus ureae ATCC 25976] Length = 325 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 29/230 (12%), Positives = 63/230 (27%), Gaps = 31/230 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ + +A+ SR ++ I VKVNG ++ +A V + IEV Sbjct: 19 RLDQALAQLFPYYSRSRLKVWIESDLVKVNGNIVNKAREKVFGGELIEVQAEIEEEVRFE 78 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 + + L + +V + + + L RL Sbjct: 79 PQDIPLNIVYEDDDILVINKPKDLVVHPGAGNPDGTVLNALLHYYPPIAEVPRAGIVHRL 138 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVY-----------RVRFHGQVDQDKLNLLKK 163 D +T GL+++ + L + + + Sbjct: 139 DKDTTGLMVVAKNIPAQTHLVTALQKRRITREYEAVTSGVMTQGGKVDEPMARHPTKRTA 198 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + Sbjct: 199 MAVHPMGKPAVTHYRIMERFRNYTRLRLRLETGRTHQIRVHMTHIAHPLL 248 >gi|218886014|ref|YP_002435335.1| pseudouridine synthase [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|218756968|gb|ACL07867.1| pseudouridine synthase, RluA family [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 558 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 35/253 (13%), Positives = 62/253 (24%), Gaps = 47/253 (18%) Query: 6 IVQENFTPQRVSKVIARA--------GIA---SRREVERMIAQQRVKVNGILLERAAVNV 54 V QR+ + + A G SR +V+R I V G V Sbjct: 17 TVAPEHAGQRLDRFLGDAMAEQRERDGHGDAVSREKVKRAIRDGAATVQGRACTVPNTRV 76 Query: 55 MSTDHIEV------------DG--------VPLRKAERTRLWLYHKPIGLVTTHSDPDGR 94 + + DG + ++ H Sbjct: 77 EPGQTVTLTLAVPAAKVTPEDGDLAVLYRDAAIAVLDKPAGLTVHPCPSCPEGTLVHRLV 136 Query: 95 STVFDNLPSIFSRVISVGRLDINTEGLLLLTND------------GGLARVLELPSTQWL 142 + R V R+D +T GLLL+ L + Sbjct: 137 RHFPELAAQEGFRPGIVHRIDKDTSGLLLVALTEAVRLELSRAFAERQVHKEYLALVHGV 196 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL----DTQKGSNAWVTVGLREGKN 198 + + + L+ +K +V + + G A V V + G+ Sbjct: 197 PKAQGELEAPIGRHPLHKVKMAVVPENRGGKPARSAWRVLLADPDGRFALVAVRIFTGRT 256 Query: 199 REIKKVFEFFNWK 211 +I+ Sbjct: 257 HQIRVHMAHLGHP 269 >gi|85373063|ref|YP_457125.1| pseudouridine synthase D large subunit [Erythrobacter litoralis HTCC2594] gi|84786146|gb|ABC62328.1| pseudouridine synthase D large subunit [Erythrobacter litoralis HTCC2594] Length = 322 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 27/241 (11%), Positives = 64/241 (26%), Gaps = 45/241 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN--------------VMST--- 57 R+ K +A A SR V+ ++ V V+G + V Sbjct: 24 RLDKALAEASGLSRERVKALMQGGAVLVDGDPATNPSAKGSEGTPYTITLPPTVDPEAQP 83 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG----- 112 I++D + + L + +V + + V L ++ + Sbjct: 84 QDIKLD---VVFEDEHLLVVNKPAGMVVHPAAGNPDGTLVNALLHHCRGQLSGINGVARP 140 Query: 113 -----------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + D EGL + + R G++ + Sbjct: 141 GIVHRIDKDTSGLLVVAKTDNAHEGLAAQFAEHTINRRYLALCAGHPNPAEGTIEGRIGR 200 Query: 156 DKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + K + + + + A + L G+ +++ + + Sbjct: 201 SERDRKKMAPLPEDSSRGKHAVTHYKTLRRLRDCALIECRLETGRTHQVRVHCQSIGHPL 260 Query: 213 N 213 Sbjct: 261 L 261 >gi|162448525|ref|YP_001610892.1| hypothetical protein sce0255 [Sorangium cellulosum 'So ce 56'] gi|161159107|emb|CAN90412.1| Hypothetical protein sce0255 [Sorangium cellulosum 'So ce 56'] Length = 753 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 16/125 (12%), Positives = 27/125 (21%), Gaps = 10/125 (8%) Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 +++R+ P A + R PD R + G + Sbjct: 118 RVVRDYRAPRPERPAAASGGPRPDRGPRPDRGPRPDRGPRPDRGPRPDRGPRPDRGPRPE 177 Query: 299 KKLAT----------PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + R W +G + R R R Sbjct: 178 QGPGAAQVAGAEQGARPDRGPRPDRPWSDRGPRPDRGPRPDRGPRPDRGPRPERGPRPDR 237 Query: 349 RTSAK 353 SA+ Sbjct: 238 GFSAR 242 Score = 45.6 bits (106), Expect = 0.011, Method: Composition-based stats. Identities = 12/109 (11%), Positives = 22/109 (20%), Gaps = 9/109 (8%) Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRN 309 + P ++ +VRD E P + + + P R Sbjct: 102 PPPTTEDAAPPPAAAPRVVRDYRAPRPERPAAASGGPRPDRGPRPDRGPRPDRGPRPDRG 161 Query: 310 LASNVWMAKGIHSSFLSDSGQRE---------ENHRRSPSFPSKRSLRR 349 + G + + P P R Sbjct: 162 PRPDRGPRPDRGPRPEQGPGAAQVAGAEQGARPDRGPRPDRPWSDRGPR 210 Score = 42.1 bits (97), Expect = 0.14, Method: Composition-based stats. Identities = 11/109 (10%), Positives = 22/109 (20%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P +A R RP + P + + + + P Sbjct: 70 APRPSSKAAAKEPQGSLLDVIAPRKRPALADAPPPTTEDAAPPPAAAPRVVRDYRAPRPE 129 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + +G + R R R ++ Sbjct: 130 RPAAASGGPRPDRGPRPDRGPRPDRGPRPDRGPRPDRGPRPDRGPRPEQ 178 Score = 40.9 bits (94), Expect = 0.26, Method: Composition-based stats. Identities = 10/103 (9%), Positives = 16/103 (15%), Gaps = 3/103 (2%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P E A R R + G + P Sbjct: 101 APPPTTEDAAPPPAAAPRVVRDYRAPRPERPAAASGGPRPDRGPRPDRGPRPD-RGPRPD 159 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 R + G + + P + Sbjct: 160 --RGPRPDRGPRPDRGPRPEQGPGAAQVAGAEQGARPDRGPRP 200 Score = 40.5 bits (93), Expect = 0.38, Method: Composition-based stats. Identities = 9/113 (7%), Positives = 21/113 (18%), Gaps = 5/113 (4%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + V + + P R+ ++ Sbjct: 76 KAAAKEPQGSLLDVIAPRKRPALADAPPPTTEDAAPPPAAAPRVVRDYRAPRPERPAAAS 135 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR-RSPSFPSKRSLRRTSAK 353 P R + +G + R P + +A+ Sbjct: 136 GGPRPDRGPRPD----RGPRPDRGPRPDRGPRPDRGPRPDRGPRPEQGPGAAQ 184 >gi|313896630|ref|ZP_07830179.1| ribosomal RNA large subunit methyltransferase J [Selenomonas sp. oral taxon 137 str. F0430] gi|312974815|gb|EFR40281.1| ribosomal RNA large subunit methyltransferase J [Selenomonas sp. oral taxon 137 str. F0430] Length = 268 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G+A SR +R+I +V V+ +++A V + + V G L Sbjct: 2 KKERLDLLLVAQGLAPSRERAKRLIMAGQVLVDERRVDKAGTTVDADASLRVTGEDLPY 60 >gi|300361720|ref|ZP_07057897.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus gasseri JV-V03] gi|300354339|gb|EFJ70210.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus gasseri JV-V03] Length = 304 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 68/245 (27%), Gaps = 37/245 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ +V E R+ KVIA SR +++ ++ + + VN E+ + V + D I Sbjct: 3 ENYQLVIEKEKG-RLDKVIAEKIKDLSRTKIKELVNDKNILVNNK-AEKVSYKVQAGDLI 60 Query: 61 EVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 ++ P + + + + +V + + V L Sbjct: 61 DITVPPAKPLSLEAQNLNLDIVYEDADVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTHK 120 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 S + G L + + L + + Sbjct: 121 LADSPEGFRPGIVHRIDKDTSGLLMVAKNDKARESLEKQLAEKINKREYLAIVHGNFETK 180 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 N K+ V T+ Q + V L G+ +I+ + Sbjct: 181 NGVIDAPIGRNPNNRKQMAVNPKGKAAVTHFTVLEQFKDYSLVKCVLETGRTHQIRVHMK 240 Query: 207 FFNWK 211 + Sbjct: 241 YIGHP 245 >gi|254424480|ref|ZP_05038198.1| hemolysin A [Synechococcus sp. PCC 7335] gi|196191969|gb|EDX86933.1| hemolysin A [Synechococcus sp. PCC 7335] Length = 283 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 13/54 (24%), Positives = 28/54 (51%), Gaps = 1/54 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 QR+ ++ G+ SR++ +R+I VK+ ++++ V + IE+ P Sbjct: 17 QRIDILLVEQGLCPSRQQAQRLIRAGEVKIAQQIIDKPGTLVATDAVIELKQKP 70 >gi|29653614|ref|NP_819306.1| 30S ribosomal protein S4 [Coxiella burnetii RSA 493] gi|154706831|ref|YP_001425158.1| 30S ribosomal protein S4 [Coxiella burnetii Dugway 5J108-111] gi|161831288|ref|YP_001596209.1| 30S ribosomal protein S4 [Coxiella burnetii RSA 331] gi|212213226|ref|YP_002304162.1| 30S ribosomal protein S4 [Coxiella burnetii CbuG_Q212] gi|41017834|sp|Q83EQ3|RS4_COXBU RecName: Full=30S ribosomal protein S4 gi|189045376|sp|A9KD07|RS4_COXBN RecName: Full=30S ribosomal protein S4 gi|189045377|sp|A9NAZ4|RS4_COXBR RecName: Full=30S ribosomal protein S4 gi|226697830|sp|B6J239|RS4_COXB2 RecName: Full=30S ribosomal protein S4 gi|29540876|gb|AAO89820.1| SSU ribosomal protein S4P [Coxiella burnetii RSA 493] gi|154356117|gb|ABS77579.1| SSU ribosomal protein S4P [Coxiella burnetii Dugway 5J108-111] gi|161763155|gb|ABX78797.1| ribosomal protein S4 [Coxiella burnetii RSA 331] gi|212011636|gb|ACJ19017.1| SSU ribosomal protein S4P [Coxiella burnetii CbuG_Q212] Length = 206 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +R E ++I+ + + VNG ++ + V D IEV Sbjct: 97 RLDNVVYRMGFAATRAEARQLISHKAILVNGEVVNIPSYQVKPGDIIEV 145 >gi|320451274|ref|YP_004203370.1| 30S ribosomal protein S4 [Thermus scotoductus SA-01] gi|320151443|gb|ADW22821.1| 30S ribosomal protein S4 [Thermus scotoductus SA-01] Length = 209 Score = 55.2 bits (131), Expect = 2e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SRR+ +M+ + VNG ++ A V D I + Sbjct: 100 RLDNVVYRLGFAASRRQARQMVRHGHITVNGRRVDLPAYRVKPGDEIAI 148 >gi|212218098|ref|YP_002304885.1| 30S ribosomal protein S4 [Coxiella burnetii CbuK_Q154] gi|226697829|sp|B6J5F6|RS4_COXB1 RecName: Full=30S ribosomal protein S4 gi|212012360|gb|ACJ19740.1| SSU ribosomal protein S4P [Coxiella burnetii CbuK_Q154] Length = 206 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A+R E ++I+ + + VNG ++ + V D IEV Sbjct: 97 RLDNVVYRMGFSATRAEARQLISHKAILVNGEVVNIPSYQVKPGDIIEV 145 >gi|33864373|ref|NP_895933.1| putative pseudouridylate synthase specific to ribosomal large subunit [Prochlorococcus marinus str. MIT 9313] gi|33641153|emb|CAE22283.1| putative pseudouridylate synthase specific to ribosomal large subunit [Prochlorococcus marinus str. MIT 9313] Length = 324 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 32/241 (13%), Positives = 65/241 (26%), Gaps = 43/241 (17%) Query: 13 PQRVSKVI-ARAGIASRREVERMIAQQRVKVNGIL--LERAAVNVMSTDHIEVD---GVP 66 P R+ + + ++ SR +++ I V+VNGI + + D +E+ P Sbjct: 27 PMRLDRWLVSQRSEQSRSHIQKFIEAGLVRVNGITGRAKTP---LRQGDEVELWMPPPEP 83 Query: 67 LRK------------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI--------FS 106 L +R + + V + V L Sbjct: 84 LPYLQPEEMPLDVLFEDRHLIVINKPAGLTVHPAPGNRNGTLVNGLLHHCSDLPGISGKL 143 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD------------ 154 R V RLD +T G +++ L+ + + Sbjct: 144 RPGIVHRLDKDTTGCIVIAKSQEALVKLQEQIQKRIASRNYLAVVHGAPSGDQGTIVAAI 203 Query: 155 --QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + G + TL + + + L G+ +I+ + Sbjct: 204 GRHPVDRKKYAVVTEDGGRHACTHWTLVERLADYSLLRFKLDTGRTHQIRVHCAHIGHPI 263 Query: 213 N 213 Sbjct: 264 V 264 >gi|158424732|ref|YP_001526024.1| hemolysin A [Azorhizobium caulinodans ORS 571] gi|158331621|dbj|BAF89106.1| hemolysin A [Azorhizobium caulinodans ORS 571] Length = 274 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 1/48 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 R+ K++ G+ SR + + +V VNG + ++ V IE Sbjct: 37 RIDKLLVERGLFDSRARAQAAVLAGQVSVNGAVAKKPGQEVDEDAQIE 84 >gi|90580377|ref|ZP_01236184.1| putative ribosomal large subunit pseudouridine synthase D [Vibrio angustum S14] gi|90438679|gb|EAS63863.1| putative ribosomal large subunit pseudouridine synthase D [Vibrio angustum S14] Length = 324 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 32/240 (13%), Positives = 67/240 (27%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERA----------AVN 53 N V EN R+ +VIA+ SR ++ I V VNG ++++ + Sbjct: 9 NTVGENQLGMRLDQVIAQLYPDYSRSRIKDWILNGMVSVNGDVVKKPREKMMGGEELFIQ 68 Query: 54 VMSTDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D + + + L + +V + + + L Sbjct: 69 AEIEDEVRWVAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLHHCPSLAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 R V RLD +T GL+++ L + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTIQAQTRLVRALQKRKITREYEALAIGQMTGGGTIEKP 188 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + + L G+ +I+ + + + Sbjct: 189 IGRHSTKRICMAVHEMGKDAITHYRVAERFREHTRIVLRLETGRTHQIRVHMSYMSHPLI 248 >gi|20090852|ref|NP_616927.1| FtsJ-like methyltransferase [Methanosarcina acetivorans C2A] gi|19915923|gb|AAM05407.1| FtsJ-like methyltransferase [Methanosarcina acetivorans C2A] Length = 226 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + G SR + I VKVNGI + + + +V D IEV Sbjct: 1 MRLDAYLVEMGHFKSRGRAKTAILDGNVKVNGITVTKVSRDVSIDDVIEV 50 >gi|327404084|ref|YP_004344922.1| ribosomal large subunit pseudouridine synthase D [Fluviicola taffensis DSM 16823] gi|327319592|gb|AEA44084.1| ribosomal large subunit pseudouridine synthase D [Fluviicola taffensis DSM 16823] Length = 342 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 28/241 (11%), Positives = 66/241 (27%), Gaps = 41/241 (17%) Query: 11 FTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ K + R SR +++ V VNG ++ + D + + Sbjct: 27 QESVRIDKYLLDRMPNTSRNKIQSAAKSGSVVVNGSSVKS-NYKIKPKDEVTIVLPYPVR 85 Query: 63 ----------------DGVPLRKAERTRLWLYHKPIGLVTT--HSDPDGRSTVFDNLPSI 104 D + + + ++ T ++ + + Sbjct: 86 ELELIAQDIPIDIVYEDDEVIVVNKPPNMVVHPGYGNYTGTLVNALVYHFDNLPERKLDY 145 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---- 160 F R V RLD +T G++++ L R + D ++ Sbjct: 146 FGRPGLVHRLDKHTTGVMVVAKTEDALTNLAKQFYDRTTERRYQALVWGDVEEDMRIEGN 205 Query: 161 ----------LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + V + + G + L G+ +I+ ++ + Sbjct: 206 LGRSLNNRKVMTVFPEGDYGKHAVTHVKVLKRYGLVTLIECKLETGRTHQIRTHLKWKGY 265 Query: 211 K 211 Sbjct: 266 P 266 >gi|313682856|ref|YP_004060594.1| ribosomal large subunit pseudouridine synthase d [Sulfuricurvum kujiense DSM 16994] gi|313155716|gb|ADR34394.1| ribosomal large subunit pseudouridine synthase D [Sulfuricurvum kujiense DSM 16994] Length = 325 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 30/250 (12%), Positives = 66/250 (26%), Gaps = 38/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGI--------------- 45 M ++ R+ + + +R ++ ++I Q V V+G Sbjct: 1 MTQEDSTFTTDEAVRLDVFLTQQLGQTRNQITQLIEQNCVSVDGKETAKSGLKLKPSQTV 60 Query: 46 ----------LLERAAVNVM---STDHIEVDGVP----LRKAERTRL-----WLYHKPIG 83 + +V D I V P + A + WL HK I Sbjct: 61 IIRFPEQKSTPAQEIDFDVDILFEDDDILVINKPSSLTVHPAPSVKEPTLVDWLKHKGIA 120 Query: 84 LVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 L T + + + + VI+ L L G + + Sbjct: 121 LSTLSGEERHGIVHRLDRGTSGAMVIAKNNEAHEALSLQLQDKTMGRYYLAIITPAMKET 180 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + + + ++ + + L G+ +I+ Sbjct: 181 ITVIDRPIGRSANNRLKMAISESGKNAKTAFAKLLPSHDETEE-LIACKLYTGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 E + + Sbjct: 240 HLESISRHII 249 >gi|148358865|ref|YP_001250072.1| ribosomal large subunit pseudouridine synthase D [Legionella pneumophila str. Corby] gi|296106912|ref|YP_003618612.1| ribosomal large subunit pseudouridine synthase D [Legionella pneumophila 2300/99 Alcoy] gi|148280638|gb|ABQ54726.1| ribosomal large subunit pseudouridine synthase D, RluD [Legionella pneumophila str. Corby] gi|295648813|gb|ADG24660.1| ribosomal large subunit pseudouridine synthase D [Legionella pneumophila 2300/99 Alcoy] Length = 321 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 35/236 (14%), Positives = 67/236 (28%), Gaps = 38/236 (16%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 QRV V+AR SR + I V +N + + + D I ++ Sbjct: 18 QRVDSVLARLLPEYSRSLICNWIKTGAVTLNNLPCK-PKDKALGGDLITINVNHTIVNTD 76 Query: 64 -------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----- 109 +P++ + + + +V + + V L + Sbjct: 77 FNLCKPENIPIQIIYEDSEVIVVNKPAGLVVHPGAGNKEHTLVNALLHHCPELQLLPRAG 136 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVDQDK 157 + RLD +T GLL++ + L + Sbjct: 137 IIHRLDKDTTGLLIVAKNLISHTSLIRQMQNREIKRHYLTLVHGYVISGGTIDTGFGRHP 196 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK + G ++ + V L G+ +I+ + N V Sbjct: 197 KNRLKMAVTDFGRQA-VTHYNINKHYKDFTLLNVSLMTGRTHQIRVHMNYINHPVV 251 >gi|52841563|ref|YP_095362.1| ribosomal large subunit pseudouridine synthase D, RluD [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|52628674|gb|AAU27415.1| ribosomal large subunit pseudouridine synthase D, RluD [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] Length = 321 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 35/236 (14%), Positives = 67/236 (28%), Gaps = 38/236 (16%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 QRV V+AR SR + I V +N + + + D I ++ Sbjct: 18 QRVDSVLARLLPEYSRSLICNWIKTGAVTLNNLPCK-PKDKALGGDLITINVDHTIVNTD 76 Query: 64 -------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----- 109 +P++ + + + +V + + V L + Sbjct: 77 FNYCKPENIPIQIIYEDSEVIVVNKPAGLVVHPGAGNKEHTLVNALLHHCPELQLLPRAG 136 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVDQDK 157 + RLD +T GLL++ + L + Sbjct: 137 IIHRLDKDTTGLLIVAKNLISHTSLIRQMQNREIKRHYLTLVHGYVISGGTIDTGFGRHP 196 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK + G ++ + V L G+ +I+ + N V Sbjct: 197 KNRLKMAVTDFGRQA-VTHYNINKHYKDFTLLNVSLMTGRTHQIRVHMNYINHPVV 251 >gi|54297242|ref|YP_123611.1| ribosomal large subunit pseudouridine synthase D (pseudouridylate synthase) (Uracil hydrolyase) [Legionella pneumophila str. Paris] gi|53751027|emb|CAH12438.1| Ribosomal large subunit pseudouridine synthase D (Pseudouridylate synthase) (Uracil hydrolyase) [Legionella pneumophila str. Paris] Length = 321 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 35/236 (14%), Positives = 67/236 (28%), Gaps = 38/236 (16%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 QRV V+AR SR + I V +N + + + D I ++ Sbjct: 18 QRVDSVLARLLPEYSRSLICNWIKTGAVTLNNLPCK-PKDKALGGDLITINVDHTIVNTD 76 Query: 64 -------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----- 109 +P++ + + + +V + + V L + Sbjct: 77 FNLCKPENIPIQIIYEDSEVIVVNKPAGLVVHPGAGNKEHTLVNALLHHCPELQLLPRAG 136 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVDQDK 157 + RLD +T GLL++ + L + Sbjct: 137 IIHRLDKDTTGLLIVAKNLISHTSLIRQMQNREIKRHYLTLVHGYVISGGTIDTGFGRHP 196 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK + G ++ + V L G+ +I+ + N V Sbjct: 197 KNRLKMAVTDFGRQA-VTHYNINKHYKDFTLLNVSLMTGRTHQIRVHMNYINHPVV 251 >gi|94676946|ref|YP_588650.1| ribosomal large subunit pseudouridine synthase D [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] gi|94220096|gb|ABF14255.1| ribosomal large subunit pseudouridine synthase D [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] Length = 319 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 21/234 (8%), Positives = 65/234 (27%), Gaps = 33/234 (14%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 PQR+ + IA+ SR +++ I + +VKVN + ++ + I++ + Sbjct: 18 PQRLDQAIAKLLADYSRSQIKGWILEGKVKVNDQVTILPNKKILGGEIIKISVMIEREHE 77 Query: 67 -----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------- 105 + + + + +V + + + + L Sbjct: 78 QYWKAQNIALNIVYEDDDIIVINKPRDMVVHSGAGNLDGTILNALLYYYPAIANVPRAGI 137 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 R+ + L ++ + + ++ Sbjct: 138 VHRLDKNTTGLMIVGKTLSAQTKLVELLRTRSIIREYEAITIGIINNDGTVEQPIARHAT 197 Query: 165 IVIQGICY---GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ + ++ + + L G+ +I+ + N + Sbjct: 198 KRTHMTVNPLGKPAITHYSIIERFRAHTRLRLRLETGRTHQIRVHMAYMNHHLV 251 >gi|124006880|ref|ZP_01691710.1| ribosomal large subunit pseudouridine synthase D [Microscilla marina ATCC 23134] gi|123987561|gb|EAY27270.1| ribosomal large subunit pseudouridine synthase D [Microscilla marina ATCC 23134] Length = 297 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 34/206 (16%), Positives = 64/206 (31%), Gaps = 20/206 (9%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-VDGVPLRKA----------ERTRL 75 SR+ V++ I + V++NG+ E V D I VD E Sbjct: 31 SRKGVKKAIKKGAVRLNGMPAET-GRWVQPGDIITLVDLEETPPKQYEFTLEVVYEDDHF 89 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFD------NLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +KP G+ + + + LP V RLD+ T GLL++ Sbjct: 90 AVINKPAGVKVSGNQYRTIVNMLPGNLKASPLPDALKWAKPVHRLDVPTSGLLMVAKTTQ 149 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ--GICYGDMQVTLDTQKGSNA 187 L Q + ++ I Q + +Q + + + Sbjct: 150 AHIHLGQQLEQKTIKKAYHAIVKGTPAARGHIRTPINGQSAHSEFEVLQTVPSLRNETLS 209 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVN 213 V + G+ +++ + Sbjct: 210 LVRLSPHTGRTHQLRVHLASLGHPIT 235 >gi|120610104|ref|YP_969782.1| ribosomal large subunit pseudouridine synthase D [Acidovorax citrulli AAC00-1] gi|120588568|gb|ABM32008.1| ribosomal large subunit pseudouridine synthase D [Acidovorax citrulli AAC00-1] Length = 339 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 34/237 (14%), Positives = 71/237 (29%), Gaps = 38/237 (16%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A SR +++++ + V VNG + + V + D + V+ P +++ Sbjct: 45 RLDKALAELVPEFSRSYLQQLLGEGGVLVNGRAAAKPSARVQAGDVLSVELRPTPQSQAF 104 Query: 74 R---------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 R + +V + + L R V R Sbjct: 105 RPEAMALDTVYEDEHLRIVNKPAGLVVHPAPGNWSGTLLNGLLALDPRAGNVPRAGIVHR 164 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------DKLN 159 LD +T GL+++ + + L + G D N Sbjct: 165 LDKDTSGLMVVARERSVMDALVRMIAAREVSRQYLALGHRAWQGAQTRVVEEAIGRDPRN 224 Query: 160 LLKKGIVIQGICY-GDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 L+ V + + + + V L G+ +I+ + + Sbjct: 225 RLRMAAVDLAVHAGKPARTDIAVLDTCENGCLVHCTLHTGRTHQIRVHMAWLRHPLV 281 >gi|10835588|pdb|1FJG|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin gi|13096397|pdb|1HR0|D Chain D, Crystal Structure Of Initiation Factor If1 Bound To The 30s Ribosomal Subunit gi|14278013|pdb|1GIX|G Chain G, Crystal Structure Of The Ribosome At 5.5 A Resolution. This File, 1gix, Contains The 30s Ribosome Subunit, Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy gi|15826123|pdb|1JGO|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File, 1jgo, Contains The 30s Ribosome Subunit, Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy gi|15826148|pdb|1JGP|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File, 1jgp, Contains The 30s Ribosome Subunit, Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy gi|15826173|pdb|1JGQ|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File, 1jgq, Contains The 30s Ribosome Subunit, Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy gi|28373702|pdb|1ML5|G Chain G, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 gi|110591326|pdb|2F4V|D Chain D, 30s Ribosome + Designer Antibiotic Length = 209 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SRR+ +++ + VNG ++ + V D I V Sbjct: 100 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAV 148 >gi|46199603|ref|YP_005270.1| 30S ribosomal protein S4 [Thermus thermophilus HB27] gi|55981634|ref|YP_144931.1| 30S ribosomal protein S4 [Thermus thermophilus HB8] gi|7404455|sp|P80373|RS4_THET8 RecName: Full=30S ribosomal protein S4 gi|50401228|sp|P62664|RS4_THET2 RecName: Full=30S ribosomal protein S4 gi|10120567|pdb|1FKA|D Chain D, Structure Of Functionally Activated Small Ribosomal Subunit At 3.3 A Resolution gi|13399795|pdb|1HNW|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With Tetracycline gi|13399817|pdb|1HNX|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With Pactamycin gi|13399839|pdb|1HNZ|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With Hygromycin B gi|14278059|pdb|1IBK|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotic Paromomycin gi|14278080|pdb|1IBL|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With A Messenger Rna Fragment And Cognate Transfer Rna Anticodon Stem-Loop Bound At The A Site And With The Antibiotic Paromomycin gi|14278104|pdb|1IBM|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With A Messenger Rna Fragment And Cognate Transfer Rna Anticodon Stem-Loop Bound At The A Site gi|58177403|pdb|1XMO|D Chain D, Crystal Structure Of Mnm5u34t6a37-Trnalysuuu Complexed With Aag-Mrna In The Decoding Center gi|58177426|pdb|1XMQ|D Chain D, Crystal Structure Of T6a37-Asllysuuu Aaa-Mrna Bound To The Decoding Center gi|58177467|pdb|1XNQ|D Chain D, Structure Of An Inosine-Adenine Wobble Base Pair Complex In The Context Of The Decoding Center gi|58177490|pdb|1XNR|D Chain D, Crystal Structure Of An Inosine-Cytosine Wobble Base Pair In The Context Of The Decoding Center gi|66361057|pdb|1YL4|G Chain G, Crystal Structure Of 70s Ribosome With Thrs Operator And Trnas. 30s Subunit. The Coordinates For The 50s Subunit Are In The Pdb Entry 1yl3 gi|88192239|pdb|2B64|D Chain D, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1 From A Crystal Structure Of The Whole Ribosomal Complex. This File Contains The 30s Subunit, Trnas, Mrna And Release Factor Rf1 From A Crystal Structure Of The Whole Ribosomal Complex". The Entire Crystal Structure Contains One 70s Ribosome, Trnas, Mrna And Release Factor Rf1 And Is Described In Remark 400. gi|88192302|pdb|2B9M|D Chain D, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2 From A Crystal Structure Of The Whole Ribosomal Complex. This File Contains The 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2 From A Crystal Structure Of The Whole Ribosomal Complex". The Entire Crystal Structure Contains One 70s Ribosome, Trnas, Mrna And Release Factor Rf2 And Is Described In Remark 400. gi|88192358|pdb|2B9O|D Chain D, 30s Ribosomal Subunit, Trnas And Mrna From A Crystal Structure Of The Whole Ribosomal Complex With A Stop Codon In The A-Site. This File Contains The 30s Subunit, Trnas And Mrna From A Crystal Structure Of The Whole Ribosomal Complex With A Stop Codon In The A-Site And Is Described In Remark 400. gi|116667657|pdb|2HHH|D Chain D, Crystal Structure Of Kasugamycin Bound To The 30s Ribosomal Subunit gi|116668200|pdb|2J00|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 1 Of 4). This File Contains The 30s Subunit, Mrna, A-, P- And E-Site Trnas And Paromomycin For Molecule I. gi|116668261|pdb|2J02|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 3 Of 4) This File Contains The 30s Subunit, Mrna, A-, P- And E-Site Trnas And Paromomycin For Molecule Ii. gi|119389715|pdb|2HGI|G Chain G, Crystal Structure Of The 70s Thermus Thermophilus Ribosome Showing How The 16s 3'-End Mimicks Mrna E And P Codons. This Entry 2hgi Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 2hgj. gi|119389772|pdb|2HGP|G Chain G, Crystal Structure Of The 70s Thermus Thermophilus Ribosome With Translocated And Rotated Shine-Dalgarno Duplex. This Entry 2hgp Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 2hgq. gi|119389828|pdb|2HGR|G Chain G, 70s T.Th. Ribosome Functional Complex With Mrna And E- And P-Site Trnas At 4.5a. This Entry 2hgr Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 2hgu. gi|149242711|pdb|2OW8|EE Chain e, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals Functional Interactions And Rearrangements. This File, 2ow8, Contains The 30s Ribosome Subunit, Two Trna, And Mrna Molecules. 50s Ribosome Subunit Is In The File 1vsa. gi|149243621|pdb|2UU9|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit Complexed With A Valine-Asl With Cmo5u In Position 34 Bound To An Mrna With A Gug-Codon In The A-Site And Paromomycin. gi|149243648|pdb|2UUA|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit Complexed With A Valine-Asl With Cmo5u In Position 34 Bound To An Mrna With A Guc-Codon In The A-Site And Paromomycin. gi|149243675|pdb|2UUB|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit Complexed With A Valine-Asl With Cmo5u In Position 34 Bound To An Mrna With A Guu-Codon In The A-Site And Paromomycin. gi|149243702|pdb|2UUC|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit Complexed With A Valine-Asl With Cmo5u In Position 34 Bound To An Mrna With A Gua-Codon In The A-Site And Paromomycin. gi|149243841|pdb|2UXC|D Chain D, Crystal Structure Of An Extended Trna Anticodon Stem Loop In Complex With Its Cognate Mrna Ucgu In The Context Of The Thermus Thermophilus 30s Subunit. gi|157836411|pdb|2UXB|D Chain D, Crystal Structure Of An Extended Trna Anticodon Stem Loop In Complex With Its Cognate Mrna Gggu In The Context Of The Thermus Thermophilus 30s Subunit. gi|157836488|pdb|2V46|D Chain D, Structure Of The Ribosome Recycling Factor Bound To The Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 1 Of 4). This File Contains The 30s Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For Molecule 1. gi|157836544|pdb|2V48|D Chain D, Structure Of The Ribosome Recycling Factor Bound To The Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 3 Of 4). This File Contains The 30s Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For Molecule 2. gi|158430903|pdb|2UXD|D Chain D, Crystal Structure Of An Extended Trna Anticodon Stem Loop In Complex With Its Cognate Mrna Cggg In The Context Of The Thermus Thermophilus 30s Subunit. gi|160285942|pdb|2QNH|EE Chain e, Interactions And Dynamics Of The Shine-Dalgarno Helix In The 70s Ribosome. This File, 2qnh, Contains The 30s Ribosome Subunit, Two Trna, And Mrna Molecules. 50s Ribosome Subunit Is In The File 1vsp. gi|186972852|pdb|2VQE|D Chain D, Modified Uridines With C5-Methylene Substituents At The First Position Of The Trna Anticodon Stabilize U-G Wobble Pairing During Decoding gi|186972875|pdb|2VQF|D Chain D, Modified Uridines With C5-Methylene Substituents At The First Position Of The Trna Anticodon Stabilize U-G Wobble Pairing During Decoding gi|187609258|pdb|2ZKQ|DD Chain d, Structure Of A Mammalian Ribosomal 40s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map gi|209156499|pdb|3D5A|D Chain D, Structural Basis For Translation Termination On The 70s Ribosome. This File Contains The 30s Subunit, Release Factor 1 (Rf1), Two Trna, And Mrna Molecules Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes As Described In Remark 400. gi|209156555|pdb|3D5C|D Chain D, Structural Basis For Translation Termination On The 70s Ribosome. This File Contains The 30s Subunit, Release Factor 1 (Rf1), Two Trna, And Mrna Molecules Of The Second 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes As Described In Remark 400. gi|211938822|pdb|2JL5|D Chain D, Insights Into Translational Termination From The Structure Of Rf2 Bound To The Ribosome (Part 1 Of 4). This File Contains The 30s Subunit. gi|211938880|pdb|2JL7|D Chain D, Insights Into Translational Termination From The Structure Of Rf2 Bound To The Ribosome (Part 3 Of 4). This File Contains The 30s Subunit. gi|218766776|pdb|3F1E|D Chain D, Crystal Structure Of A Translation Termination Complex Formed With Release Factor Rf2. This File Contains The 30s Subunit, Rf2, Two Trna, And Mrna Molecules Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes As Described In Remark 400. gi|218766832|pdb|3F1G|D Chain D, Crystal Structure Of A Translation Termination Complex Formed With Release Factor Rf2. This File Contains The 30s Subunit, Rf2, Two Trna, And Mrna Molecules Of The Second 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes As Described In Remark 400. gi|226887377|pdb|2WDG|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In Complex With Mrna, Paromomycin, Acylated A-Site Trna, Deacylated P-Site Trna, And E-Site Trna. This File Contains The 30s Subunit A-,P-, And E-Site Trnas And Paromomycin For Molecule I. gi|226887402|pdb|2WDH|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In Complex With Mrna, Paromomycin, Acylated A-Site Trna, Deacylated P-Site Trna, And E-Site Trna. This File Contains The 30s Subunit A-,P-, And E-Site Trnas And Paromomycin For Molecule Ii. gi|226887491|pdb|2WDK|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In Complex With Mrna, Paromomycin, Acylated A- And P-Site Trnas, And E-Site Trna. This File Contains The 30s Subunit A-,P-, And E-Site Trnas And Paromomycin For Molecule I. gi|226887548|pdb|2WDM|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In Complex With Mrna, Paromomycin, Acylated A- And P-Site Trnas, And E-Site Trna. This File Contains The 30s Subunit A-,P-, And E-Site Trnas And Paromomycin For Molecule Ii. gi|237823532|pdb|2WH1|D Chain D, Insights Into Translational Termination From The Structure Of Rf2 Bound To The Ribosome gi|237823591|pdb|2WH3|D Chain D, Insights Into Translational Termination From The Structure Of Rf2 Bound To The Ribosome). This File Contains The 30s Subunit. gi|260099989|pdb|3HUW|D Chain D, Structure Of Ef-P Bound To The 70s Ribosome; This File Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For Molecule I. gi|260100045|pdb|3HUY|D Chain D, Structure Of Ef-P Bound To The 70s Ribosome; This File Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For Molecule Ii. gi|261824487|pdb|2WRI|D Chain D, The Structure Of The Ribosome With Elongation Factor G Trapped In The Post-Translocational State (Part 1 Of 4). gi|261824549|pdb|2WRK|D Chain D, The Structure Of The Ribosome With Elongation Factor G Trapped In The Post-Translocational State (Part 3 Of 4). gi|261824611|pdb|2WRN|D Chain D, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu And Trna (Part 1 Of 4). gi|261824670|pdb|2WRQ|D Chain D, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu And Trna (Part 3 Of 4). gi|281307170|pdb|3KIQ|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome (Precleavage State; Part 1 Of 4) gi|281307228|pdb|3KIS|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome (Precleavage State; Part 3 Of 4) gi|281307286|pdb|3KIU|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome (Postcleavage State; Part 1 Of 4) gi|281307344|pdb|3KIX|DD Chain d, Structure Of Rele Nuclease Bound To The 70s Ribosome (Postcleavage State; Part 3 Of 4) gi|288965607|pdb|3KNH|D Chain D, The Structures Of Viomycin Bound To The 70s Ribosome. This File Contains The 30s Subunit For Molecule I gi|289526685|pdb|3KNJ|D Chain D, The Structures Of Viomycin Bound To The 70s Ribosome. This File Contains The 30s Subunit For Molecule Ii' gi|289526710|pdb|3KNL|D Chain D, The Structures Of Capreomycin Bound To The 70s Ribosome. This File Contains The 30s Subunit For Molecule I gi|289526735|pdb|3KNN|D Chain D, The Structures Of Capreomycin Bound To The 70s Ribosome. This File Contains The 30s Subunit For Molecule Ii gi|294979507|pdb|3I8G|G Chain G, Elongation Complex Of The 70s Ribosome With Three Trnas And Entry 3i8g Contains 30s Ribosomal Subnit.The 50s Ribosomal Can Be Found In Pdb Entry 3i8f. Molecule B In The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f (50s). gi|294979532|pdb|3I8H|G Chain G, Elongation Complex Of The 70s Ribosome With Three Trnas And Entry 3i8h Contains 30s Ribosomal Subnit. The 50s Ribosomal Can Be Found In Pdb Entry 3i8i. Molecule A In The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g (30s). gi|294979591|pdb|3I9B|G Chain G, Initiation Complex Of 70s Ribosome With Two Trnas And Mrna. 3i9b Contains 30s Ribosomal Subunit Of Molecule B. The 50s Subunit Can Be Found In Pdb Entry 3i9c. Molecule A In The S Asymmetric Unit Is Deposited As 3i9d (30s) And 3i9e (50s) gi|294979645|pdb|3I9D|G Chain G, Initiation Complex Of 70s Ribosome With Two Trnas And Mrna. 3i9d Contains 30s Ribosomal Subunit Of Molecule A. The 50s Subunit Can Be Found In Pdb Entry 3i9e. Molecule B In The S Asymmetric Unit Is Deposited As 3i9b (30s) And 3i9c (50s) gi|295982078|pdb|2X9R|D Chain D, Structure Of The 70s Ribosome Bound To Release Factor 2 And A Substrate Analog Provides Insights Into Catalysis Of Peptide Release gi|295982137|pdb|2X9T|D Chain D, Structure Of The 70s Ribosome Bound To Release Factor 2 And A Substrate Analog Provides Insights Into Catalysis Of Peptide Release gi|307567965|pdb|2XFZ|D Chain D, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The 70s Ribosome (Part 1 Of 4) gi|307568023|pdb|2XG1|D Chain D, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The 70s Ribosome (Part 3 Of 4) gi|307776615|pdb|3OTO|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From A Ksga Mutant Of Thermus Thermophilus (Hb8) gi|309320238|pdb|3OGE|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed With Chloramphenicol. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|309320259|pdb|3OGY|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed With Chloramphenicol. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|309320340|pdb|3OHC|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed With Erythromycin. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|309320361|pdb|3OHD|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed With Erythromycin. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|309320442|pdb|3OHY|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Azithromycin. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|309320493|pdb|3OI0|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Azithromycin. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|309320544|pdb|3OI2|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Telithromycin. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|309320595|pdb|3OI4|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Telithromycin. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. gi|312207676|pdb|2XQD|D Chain D, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s Ribosome With A Gtp Analog gi|313754002|pdb|2XSY|D Chain D, Trna Tranlocation On The 70s Ribosome: The Pre- Translocational Translocation Intermediate Ti(Pre) gi|313754117|pdb|2XUY|D Chain D, Trna Tranlocation On The 70s Ribosome: The Post- Translocational Translocation Intermediate Ti(Post) gi|325533405|pdb|2Y0U|D Chain D, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome gi|325533464|pdb|2Y0W|D Chain D, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome gi|325533523|pdb|2Y0Y|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome gi|325533582|pdb|2Y10|D Chain D, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A Cognate Codon On The 70s Ribosome. gi|325533641|pdb|2Y12|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome gi|325533700|pdb|2Y14|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Cognate Codon On The 70s Ribosome. gi|325533759|pdb|2Y16|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Cognate Codon On The 70s Ribosome. gi|325533818|pdb|2Y18|D Chain D, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A Cognate Codon On The 70s Ribosome. gi|4519422|dbj|BAA75548.1| ribosomal protein S4 [Thermus thermophilus] gi|46197229|gb|AAS81643.1| SSU ribosomal protein S4P [Thermus thermophilus HB27] gi|55773047|dbj|BAD71488.1| 30S ribosomal protein S4 [Thermus thermophilus HB8] Length = 209 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SRR+ +++ + VNG ++ + V D I V Sbjct: 100 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAV 148 >gi|300703940|ref|YP_003745542.1| ribosomal large subunit pseudouridine synthase d [Ralstonia solanacearum CFBP2957] gi|299071603|emb|CBJ42927.1| Ribosomal large subunit pseudouridine synthase D [Ralstonia solanacearum CFBP2957] Length = 370 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 46/310 (14%), Positives = 82/310 (26%), Gaps = 52/310 (16%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E +R+ K +A+ SR +++ I V+V G + V D IEV Sbjct: 55 IPETLHGERLDKALAKLLPDYSRSRLQQWIDAGAVRVGGAAVR-PRAAVCGGDRIEVVPQ 113 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 + + T L + +V + + + L Sbjct: 114 RAADENAFVAEPIDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPQAAGL 173 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------- 152 R V RLD T GL+++ L Sbjct: 174 PRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEAGTIDAPI 233 Query: 153 -VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 234 GRDPRDRTRMAIIETASGKPARTHFKTLDVIDLGRAQVSLVQCQLETGRTHQIRVHFESE 293 Query: 209 NWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 + LG + + R + ++ L +A + I + Sbjct: 294 GHPL------------LGDPVYTRNFRRGRPQTIKAPLPIPFARQALHAVRLGIVHPASG 341 Query: 268 VRDRPNIISE 277 + Sbjct: 342 QSMHWHAGVP 351 >gi|295105662|emb|CBL03206.1| Uncharacterized conserved protein, contains S4-like domain [Faecalibacterium prausnitzii SL3/3] Length = 272 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 27/64 (42%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ ++ + R+ V++ SR +I RV++N + +E+ V D Sbjct: 185 PERQLLTATVSSLRLDAVLSAMLHVSRGTAAELIEAGRVEINHLPVEKPHAPVYEQDVFT 244 Query: 62 VDGV 65 V G Sbjct: 245 VRGK 248 >gi|160945087|ref|ZP_02092313.1| hypothetical protein FAEPRAM212_02606 [Faecalibacterium prausnitzii M21/2] gi|158442818|gb|EDP19823.1| hypothetical protein FAEPRAM212_02606 [Faecalibacterium prausnitzii M21/2] Length = 272 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 27/64 (42%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++ ++ + R+ V++ SR +I RV++N + +E+ V D Sbjct: 185 PERQLLTATVSSLRLDAVLSAMLHVSRGTAAELIEAGRVEINHLPVEKPHAPVYEQDVFT 244 Query: 62 VDGV 65 V G Sbjct: 245 VRGK 248 >gi|119025929|ref|YP_909774.1| hemolysin-like protein [Bifidobacterium adolescentis ATCC 15703] gi|118765513|dbj|BAF39692.1| hemolysin-like protein with S4 domain [Bifidobacterium adolescentis ATCC 15703] Length = 251 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/55 (23%), Positives = 29/55 (52%), Gaps = 2/55 (3%) Query: 7 VQENFTPQ-RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + ++ R+ + G+ SR + +R+I +V+VNG + +A++ V + D Sbjct: 1 MNDDSGAVVRLDIALVERGVTDSRSKAQRLIESGKVRVNGTVASKASLKVTAADT 55 >gi|20807748|ref|NP_622919.1| rRNA methylase [Thermoanaerobacter tengcongensis MB4] gi|254478689|ref|ZP_05092060.1| ribosomal RNA large subunit methyltransferase J, putative [Carboxydibrachium pacificum DSM 12653] gi|20516302|gb|AAM24523.1| predicted rRNA methylase [Thermoanaerobacter tengcongensis MB4] gi|214035376|gb|EEB76079.1| ribosomal RNA large subunit methyltransferase J, putative [Carboxydibrachium pacificum DSM 12653] Length = 265 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ + G S RE + I V V+G E+A V IEV G L Sbjct: 3 ERIDVLLVKRGFFSSREKAKAAIMAGEVYVDGKRAEKAGEMVKEDSKIEVKGNSLPY 59 >gi|296188746|ref|ZP_06857133.1| hypothetical protein CLCAR_4281 [Clostridium carboxidivorans P7] gi|296046673|gb|EFG86120.1| hypothetical protein CLCAR_4281 [Clostridium carboxidivorans P7] Length = 42 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 14/40 (35%), Positives = 21/40 (52%) Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILRE 243 + +F N +V L RI G +LG L G R +S K ++ Sbjct: 1 MCDFINHQVLELKRIQIGDIKLGNLPLGKWRYLSNKEVKN 40 >gi|291087665|ref|ZP_06572048.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp. M62/1] gi|291074400|gb|EFE11764.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp. M62/1] Length = 300 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 22/245 (8%), Positives = 69/245 (28%), Gaps = 38/245 (15%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 +V R+ K ++ A SR +++++ + V+V+ ++ + + + + IE + Sbjct: 1 MVPAEAQGVRIDKFLSEACDGLSRSYLQKLLKSELVEVDKRTVKN-SYKLSAGEKIEFEV 59 Query: 64 -----------GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 +PL + + + +V + ++ V + + Sbjct: 60 PEAAEPEIKAEDIPLDIIYEDSDIILVNKPKGMVVHPAAGHYSQTLVNGLMYHCRDGLSG 119 Query: 111 VG----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR 148 + + D + + R ++ Sbjct: 120 INGVLRPGIVHRIDMDTTGVLIVCKNDFAHNAIAEQLKVHSITRKYFAIVHGVIQEDEGT 179 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + ++ K I + + + +V L G+ +I+ Sbjct: 180 VDAPIGRHPVDRKKMSINRKNGKEAVTHYRVLERFRQFTYVECQLETGRTHQIRVHMASI 239 Query: 209 NWKVN 213 + Sbjct: 240 GHPLL 244 >gi|158338042|ref|YP_001519218.1| hemolysin A [Acaryochloris marina MBIC11017] gi|158308283|gb|ABW29900.1| hemolysin A, putative [Acaryochloris marina MBIC11017] Length = 272 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 QR+ ++ + SR++ +R+I VKVN ++++ V T I+V Sbjct: 4 QRLDTLLVSLELCTSRQQAQRVIRAGEVKVNDQIIDKPGTEVQLTAEIQVKQK 56 >gi|14278533|pdb|1I94|D Chain D, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 gi|14278554|pdb|1I95|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From Thermus Thermophilus In Complex With Edeine gi|14278575|pdb|1I96|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From Thermus Thermophilus In Complex With The Translation Initiation Factor If3 (C-Terminal Domain) gi|14278597|pdb|1I97|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From Thermus Thermophilus In Complex With Tetracycline gi|20663889|pdb|1J5E|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit gi|27065879|pdb|1N32|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit Bound To Codon And Near-Cognate Transfer Rna Anticodon Stem-Loop Mismatched At The First Codon Position At The A Site With Paromomycin gi|27065906|pdb|1N33|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit Bound To Codon And Near-Cognate Transfer Rna Anticodon Stem-Loop Mismatched At The Second Codon Position At The A Site With Paromomycin gi|27065933|pdb|1N34|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In The Presence Of Codon And Crystallographically Disordered Near-Cognate Transfer Rna Anticodon Stem-Loop Mismatched At The First Codon Position gi|27065959|pdb|1N36|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In The Presence Of Crystallographically Disordered Codon And Near-Cognate Transfer Rna Anticodon Stem-Loop Mismatched At The Second Codon Position gi|34811532|pdb|1PNS|D Chain D, Crystal Structure Of A Streptomycin Dependent Ribosome From E. Coli, 30s Subunit Of 70s Ribosome. This File, 1pns, Contains The 30s Subunit, Two Trnas, And One Mrna Molecule. The 50s Ribosomal Subunit Is In File 1pnu. gi|34811588|pdb|1PNX|D Chain D, Crystal Structure Of The Wild Type Ribosome From E. Coli, 30s Subunit Of 70s Ribosome. This File, 1pnx, Contains Only Molecules Of The 30s Ribosomal Subunit. The 50s Subunit Is In The Pdb File 1pny. gi|56966326|pdb|1VOQ|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia Coli In Complex With Protein Y. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Five 70s Ribosomes And Is Described In Remark 400. gi|56966379|pdb|1VOS|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia Coli In Complex With Protein Y. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Five 70s Ribosomes And Is Described In Remark 400. gi|56966432|pdb|1VOV|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia Coli In Complex With Protein Y. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Five 70s Ribosomes And Is Described In Remark 400. gi|56966485|pdb|1VOX|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia Coli In Complex With Protein Y. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Five 70s Ribosomes And Is Described In Remark 400. gi|56966538|pdb|1VOZ|D Chain D, Crystal Structure Of Five 70s Ribosomes From Escherichia Coli In Complex With Protein Y. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Five 70s Ribosomes And Is Described In Remark 400. gi|149241278|pdb|2E5L|D Chain D, A Snapshot Of The 30s Ribosomal Subunit Capturing Mrna Via The Shine- Dalgarno Interaction gi|224510686|pdb|3FIC|D Chain D, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef-Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 30s Subunit And The Ligands gi|226887632|pdb|2ZM6|D Chain D, Crystal Structure Of The Thermus Thermophilus 30s Ribosomal Subunit gi|300508608|pdb|3MR8|D Chain D, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 3ms1. Molecule B In The Same Asymmetric Unit Is Deposited As 3mrz (50s) And 3ms0 (30s). gi|300508663|pdb|3MS0|D Chain D, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3ms0 Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 3mrz. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (30s) And 3ms1 (50s). gi|322812553|pdb|3PYN|D Chain D, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 30s Subunit Of The First 70s Ribosome. gi|322812606|pdb|3PYQ|D Chain D, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 30s Subunit Of The Second 70s Ribosome. gi|322812659|pdb|3PYS|D Chain D, Crystal Structure Of A Complex Containing Domain 3 Of Crpv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 30s Subunit Of The First 70s Ribosome. gi|322812712|pdb|3PYU|D Chain D, Crystal Structure Of A Complex Containing Domain 3 Of Crpv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 30s Subunit Of The Second 70s Ribosome Length = 208 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SRR+ +++ + VNG ++ + V D I V Sbjct: 99 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAV 147 >gi|86747580|ref|YP_484076.1| pseudouridine synthase RluD [Rhodopseudomonas palustris HaA2] gi|86570608|gb|ABD05165.1| ribosomal large subunit pseudouridine synthase D [Rhodopseudomonas palustris HaA2] Length = 324 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 36/255 (14%), Positives = 71/255 (27%), Gaps = 48/255 (18%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 +V + R+ +V+A R SR ++ +I RV + G + A + + I +D Sbjct: 2 VVAGDEGSSRLDRVLATRCPALSRSRLKVLILDGRVAIAGSAVRDPAYHASPGETITIDV 61 Query: 64 ---------GVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 G + + + +V + + + V + Sbjct: 62 PPPVAPEPEGEAIALEIVHEDDDIIVINKPRGLVVHPAAGHETGTLVNALIAHCGESLSG 121 Query: 106 ----SRVISVGRLDINTEGLLLLTND-----------------GGLARVLELPSTQWLRV 144 R V RLD +T GL++ + G L R Sbjct: 122 IGGVRRPGIVHRLDKDTTGLMVAAKNDRAHQSLSAQFADHGRTGELRRGYYAFVWGVPNR 181 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG------LREGKN 198 R +D+ +K V G + + + L G+ Sbjct: 182 ARGTIEAPIDRHPYAR-EKMAVRDGGREAITHWEVLETFTGRSGGEIVSLIACQLETGRT 240 Query: 199 REIKKVFEFFNWKVN 213 +I+ + Sbjct: 241 HQIRVHLAHLGHPLL 255 >gi|269792594|ref|YP_003317498.1| pseudouridine synthase, RluA family [Thermanaerovibrio acidaminovorans DSM 6589] gi|269100229|gb|ACZ19216.1| pseudouridine synthase, RluA family [Thermanaerovibrio acidaminovorans DSM 6589] Length = 320 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 35/272 (12%), Positives = 69/272 (25%), Gaps = 56/272 (20%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV--- 65 E+ R+ V++R SR ++I + V+V + V + + V G Sbjct: 26 EDGEGHRLDFVLSREIGVSRSYASKLIKEGMVQV------SWSPRVKPSLKVRVGGTVTA 79 Query: 66 -----------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + ++ + + +V + V L + Sbjct: 80 QLPPSEELELEPQDVPFRVVYQDQDLVVVDKPAGLVVHPAPGHWRGTLVHGLLYRYPDLM 139 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH------------------ 150 G L T G + + + L Sbjct: 140 ELNGVKRPGIVHRLDATTSGLMVVARNGLAMEGLVRAFKDRRVGKVYLAMAAGTLRGEGS 199 Query: 151 ----GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 D D + + + +G + V ++ G+ +I+ Sbjct: 200 VSLPIGRDPDNRKRMACVPWGREALTR---YRVIWSRGGYSLVACQIKTGRTHQIRVHMR 256 Query: 207 FFNWKVNRLIRISYGP----FQLGTLLAGSTR 234 + RI GP F LG + S R Sbjct: 257 SLGHPLVG-DRIYGGPCPEGFPLGRVFLHSWR 287 >gi|7440168|pir||JE0399 ribosomal protein S4 - Thermus aquaticus (strain HB8) Length = 209 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SRR+ +++ + VNG ++ + V D I V Sbjct: 100 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAV 148 >gi|148273167|ref|YP_001222728.1| hypothetical protein CMM_1986 [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|147831097|emb|CAN02042.1| unnamed protein product [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 292 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ + G+A SR R+IA V V+G + +A+ VM +EV G Sbjct: 27 RLDAALPALGLARSRTHAARLIADGLVTVDGRGVVKASFRVMPGSVVEVAG 77 >gi|316931592|ref|YP_004106574.1| pseudouridine synthase, RluA family [Rhodopseudomonas palustris DX-1] gi|315599306|gb|ADU41841.1| pseudouridine synthase, RluA family [Rhodopseudomonas palustris DX-1] Length = 334 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 15 RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ +V+A R SR ++ +I RV + G + A + + I +D Sbjct: 21 RLDRVLAARCPELSRSRLKALILDGRVAIAGNPVRDPAYHASPGETITID 70 >gi|330446994|ref|ZP_08310645.1| 23S rRNA pseudouridine synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|328491185|dbj|GAA05142.1| 23S rRNA pseudouridine synthase [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 324 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 30/240 (12%), Positives = 66/240 (27%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERA----------AVN 53 N V E+ R+ +V+A SR ++ I V VNG ++++ + Sbjct: 9 NTVGESQLGMRLDQVVAELYPDYSRSRIKDWILNGMVSVNGKVVKKPREKMMGGEELFIQ 68 Query: 54 VMSTDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D + + + L + +V + + + L Sbjct: 69 AEIEDEVRWVAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLHHCPSLAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 R V RLD +T GL+++ L + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTIQAQTRLVRALQKRKITREYEALAIGQMTGGGTVEKP 188 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + + L G+ +I+ + + + Sbjct: 189 IGRHSTKRTCMAVHEMGKDAITHYRVAERFREHTRIVLRLETGRTHQIRVHMSYLSHPLI 248 >gi|190571305|ref|YP_001975663.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|213018702|ref|ZP_03334510.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Wolbachia endosymbiont of Culex quinquefasciatus JHB] gi|190357577|emb|CAQ55016.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|212995653|gb|EEB56293.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Wolbachia endosymbiont of Culex quinquefasciatus JHB] Length = 315 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 27/242 (11%), Positives = 73/242 (30%), Gaps = 35/242 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKV-------NGILLE----------- 48 + R+ +A+ SR + +R+I ++VK+ N +++ Sbjct: 7 ISSEEKKLRLDTYVAKKCNISRSKAQRLIQNEQVKLLGIPIINNDHIVKPGEEYVVHLIQ 66 Query: 49 -RAAVNVMST-----DHIEVDGVPLRKAERTRLWLYHKPIG-----------LVTTHSDP 91 + ++ D + D + ++++RL ++ + Sbjct: 67 PDISTSIEPNYDIKLDIVYEDDDIIVLSKQSRLTVHPGAGTNNDTLLNAVIAHLGKIPYT 126 Query: 92 DGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 + R + L S ++ + + + + L L ++ + R L + Sbjct: 127 NTRPGIVHRLDKDTSGLMVIAKNEQSHSFLSELLSNRKIKREYLAVIWGALPNLQGTVKT 186 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + N + ++ G + V L G+ +I+ Sbjct: 187 HIAPKRSNKEMMCVTKTAGKLAITHYSVKKIIGQASLVKCTLETGRTHQIRVHMSHIGHS 246 Query: 212 VN 213 V Sbjct: 247 VV 248 >gi|70726725|ref|YP_253639.1| hypothetical protein SH1724 [Staphylococcus haemolyticus JCSC1435] gi|68447449|dbj|BAE05033.1| unnamed protein product [Staphylococcus haemolyticus JCSC1435] Length = 275 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 26/50 (52%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ V+ SR +++I ++RVKVN +++ V + D + + G Sbjct: 199 RLDVVLKEMIHKSRTIAKQLIEKKRVKVNHTIIDSPDFQVQTNDLLSIQG 248 >gi|309789597|ref|ZP_07684178.1| hemolysin A [Oscillochloris trichoides DG6] gi|308228333|gb|EFO81980.1| hemolysin A [Oscillochloris trichoides DG6] Length = 261 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ G+A +R + + ++ V+VNG + V + IEV Sbjct: 4 IRLDQLLVSRGLAETRSKAQALLMAGSVRVNGQPAGKPGAMVDAEVEIEV 53 >gi|257784936|ref|YP_003180153.1| 30S ribosomal protein S4 [Atopobium parvulum DSM 20469] gi|257473443|gb|ACV51562.1| ribosomal protein S4 [Atopobium parvulum DSM 20469] Length = 197 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A +R+E + + + VNG ++ + V S D I V Sbjct: 88 RLDNVIFRLGFARTRKEARQTVRHGHITVNGQRVDIPSYRVKSGDVIAV 136 >gi|225023856|ref|ZP_03713048.1| hypothetical protein EIKCOROL_00722 [Eikenella corrodens ATCC 23834] gi|224943330|gb|EEG24539.1| hypothetical protein EIKCOROL_00722 [Eikenella corrodens ATCC 23834] Length = 372 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 67/238 (28%), Gaps = 32/238 (13%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLE---------RAAVNVM 55 V + QR+ +A+ SR + I V +NG + V++ Sbjct: 33 TVPTDLAGQRLDAALAKLLPDYSRSRLSTWIKDGNVLLNGQVARPKERLIGGETLEVHIQ 92 Query: 56 -------------STDHIEVDGVPLRKAERTRLWLYHKPIGLVTT--HSDPDGRSTVFDN 100 D + D + + L ++ T + + + Sbjct: 93 HSHETAAFTPEPMPLDIVFEDDSVIVLNKPAGLVVHPAAGNWSGTLLNGLLAHCPALAEI 152 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR-------VYRVRFHGQV 153 + + + + + ++ E + R + + + Sbjct: 153 PRAGIVHRLDKDTSGLMVVAKTPAAQNSLVQQLQERSVKRIYRAVADGIVPFDGKIDTLI 212 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +D N LK +V G + + + S++++ L G+ +I+ Sbjct: 213 GRDPHNRLKMAVVGFGGKKAVTHIKVLERYQSHSYIECTLETGRTHQIRVHMREAKHP 270 >gi|78224625|ref|YP_386372.1| ribosomal large subunit pseudouridine synthase D [Geobacter metallireducens GS-15] gi|78195880|gb|ABB33647.1| ribosomal large subunit pseudouridine synthase D [Geobacter metallireducens GS-15] Length = 319 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 31/234 (13%), Positives = 74/234 (31%), Gaps = 35/234 (14%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLE-----RAAVNV-------------- 54 R+ + +AR+ +R V+R+I + RV V+G + + R + Sbjct: 17 RLDQFVARSVEGMTRSTVQRLIDEGRVTVDGKVEKPSLKLRGGERIVVAVPPPAPAVPEA 76 Query: 55 ---------MSTDHIEVD---GVPLRKAERT---RLWLYHKPIGLVTTHSDPDGRSTVFD 99 +D + V+ G+ + T L + + R + Sbjct: 77 EEIPLVILHEDSDLVVVNKSAGMVVHPGAGTPGGTLVNALLAHCTDLSGIGGEIRPGIVH 136 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + + V+ V + D + EGL + + R+ + R G + + + Sbjct: 137 RIDKDTTGVLVVAKNDRSHEGLARQFREHTIKRIYLALVFGSPKTDTGRIEGAIGRHPTD 196 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 L+ + + + + + + L G+ +I+ + Sbjct: 197 RLRMSGKAKHGKHAVTHWKVLARYPGMTLLRLRLETGRTHQIRVHLAESGHPLV 250 >gi|163755786|ref|ZP_02162904.1| ribosomal large subunit pseudouridine synthase D [Kordia algicida OT-1] gi|161324307|gb|EDP95638.1| ribosomal large subunit pseudouridine synthase D [Kordia algicida OT-1] Length = 346 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 70/245 (28%), Gaps = 43/245 (17%) Query: 8 QENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 ++ P RV K + G A+R ++++ + VNG ++ V D I+V Sbjct: 25 EKGQQPLRVDKYLMNFIEG-ATRNKIQQAAKDGNIFVNGKPVKS-NYKVKGNDVIKVLFA 82 Query: 63 ----------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +P+ + L + +V + + + + + Sbjct: 83 HPPYENLLVGEDIPIDIVYEDDDLLVVNKPAGMVVHPGHGNYSGTLINALIYHFDNLPKN 142 Query: 111 V-------GRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRVRFH 150 R+D +T GLL++ + Sbjct: 143 SNERPGLVHRIDKDTSGLLVVAKTEEAMTHLAKQFFDKTSERIYYALVWGNVEEDEGTVE 202 Query: 151 GQVDQDKLNLLKKGIVI----QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 G + + N L+ + + + G V+ L G+ +I+ + Sbjct: 203 GNIGRHPKNRLQNTVFFGEDADKGKPAVTHYKVLERLGYVTLVSCQLETGRTHQIRVHMK 262 Query: 207 FFNWK 211 Sbjct: 263 HIGHT 267 >gi|189425760|ref|YP_001952937.1| hemolysin A [Geobacter lovleyi SZ] gi|189422019|gb|ACD96417.1| hemolysin A [Geobacter lovleyi SZ] Length = 249 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 1/60 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + QR+ K++ G+A SR + + +I +V V ++A V I + G L Sbjct: 2 SSKQRLDKLMVERGLAPSREKAQALIMAGQVVVGDHAAQKAGQQVTDEVEIRIKGELLPY 61 >gi|300691371|ref|YP_003752366.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Ralstonia solanacearum PSI07] gi|299078431|emb|CBJ51083.2| Ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Ralstonia solanacearum PSI07] Length = 358 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 39/245 (15%), Positives = 67/245 (27%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E +R+ K +A+ SR +++ I V+V G + V D +EV Sbjct: 43 IPETLHGERLDKALAKLLPDYSRSRLQQWIDAGAVRVGGAAVR-PRAAVCGGDRVEVVPQ 101 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + T L + +V + + + L Sbjct: 102 RAADESAFVAEPIDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPEAAEL 161 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------- 152 R V RLD T GL+++ L Sbjct: 162 PRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEAGTIDAPI 221 Query: 153 -VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 222 GRDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQVSLVRCQLETGRTHQIRVHFESE 281 Query: 209 NWKVN 213 + Sbjct: 282 GHPLL 286 >gi|170017468|ref|YP_001728387.1| pseudouridylate synthase, 23S RNA-specific [Leuconostoc citreum KM20] gi|169804325|gb|ACA82943.1| Pseudouridylate synthase, 23S RNA-specific [Leuconostoc citreum KM20] Length = 307 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 38/247 (15%), Positives = 79/247 (31%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M +K ++ R+ V+A+ + SR + + + VN ++R + V S D Sbjct: 1 MTEKITLEITNETGRIDAVLAKKSLPYSRTVLAEWLQDGHIVVNQTQVKR-SYKVNSGDL 59 Query: 60 IEV------DGVPLRKAERTRLWL--------YHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + + + + +V + + V L Sbjct: 60 ITILPPAVQNTEIIAENMPLDIIYEDNDLLVVNKPQGMVVHPAAGHTSGTLVNALLYHAP 119 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLARVLELP--STQWLRVYRVRFHGQVDQD 156 R V R+D +T GLL++ + + L + + R+Y G+ +D Sbjct: 120 LSTINGSFRPGIVHRIDRDTSGLLMVAKNDKAHQALSEQLKAHKNERIYYALVRGEFSED 179 Query: 157 ----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK V G + T+ + + L G+ +I+ Sbjct: 180 SGTINAPLARHKVDRKKQAVQAGGREAITHFEVVTRYVGYTLLKIRLETGRTHQIRVHMT 239 Query: 207 FFNWKVN 213 + + Sbjct: 240 YIGHPII 246 >gi|104783634|ref|YP_610132.1| 23S rRNA pseudouridine synthase [Pseudomonas entomophila L48] gi|95112621|emb|CAK17349.1| 23S rRNA pseudouridine synthase [Pseudomonas entomophila L48] Length = 320 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 34/235 (14%), Positives = 65/235 (27%), Gaps = 38/235 (16%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMST-------------- 57 QR+ +V A+ SR + I R+ V+G +L V S Sbjct: 17 GQRLDQVAAQLFSEYSRSRLSSWIKDGRLTVDGAVLR-PRDTVHSGSILALEAEQEAQGE 75 Query: 58 ---DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--- 111 IE+D + + L + +V + + + L + + Sbjct: 76 WVAQDIELD---IVYEDDQILVINKPAGLVVHPAAGHPDGTLLNALLHHVPDIINVPRAG 132 Query: 112 --GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 RLD +T GL+++ L + + I G Sbjct: 133 IVHRLDKDTTGLMVVAKTLQAQTNLVDQLQKRSVSRIYECIVVGVVIAGGKIDAPIGRHG 192 Query: 170 IC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + S+ V V L G+ +I+ + + Sbjct: 193 GERQRMAVTDGGKPAVSHYRVLKRFRSHTHVRVKLETGRTHQIRVHMAHVGYPLV 247 >gi|17546347|ref|NP_519749.1| ribosomal large subunit pseudouridine synthase D protein [Ralstonia solanacearum GMI1000] gi|34395802|sp|Q8XYX8|RLUD_RALSO RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|17428644|emb|CAD15330.1| probable ribosomal large subunit pseudouridine synthase d protein [Ralstonia solanacearum GMI1000] Length = 358 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 46/310 (14%), Positives = 83/310 (26%), Gaps = 52/310 (16%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + E +R+ K +A+ SR +++ I V+V G + V D IEV Sbjct: 43 IPEALHGERLDKALAKLLPDYSRSRLQQWIDAGAVRVGGAAVR-PRAAVCGGDRIEVVPQ 101 Query: 63 --DGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 D + + T L + +V + + + L Sbjct: 102 RADDENAFVAEPVDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPQAAGL 161 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------- 152 R V RLD T GL+++ L Sbjct: 162 PRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEAGTIDAPI 221 Query: 153 -VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 222 GRDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQVSLVQCQLETGRTHQIRVHFESE 281 Query: 209 NWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETL 267 + LG + + R + ++ L +A + + + Sbjct: 282 GHPL------------LGDPVYTRNFRRGRPQTIKAPLPAPFARQALHAVRLGLVHPASG 329 Query: 268 VRDRPNIISE 277 + Sbjct: 330 QSVHWHAGVP 339 >gi|167749411|ref|ZP_02421538.1| hypothetical protein EUBSIR_00365 [Eubacterium siraeum DSM 15702] gi|167657583|gb|EDS01713.1| hypothetical protein EUBSIR_00365 [Eubacterium siraeum DSM 15702] gi|291532117|emb|CBK97702.1| SSU ribosomal protein S4P [Eubacterium siraeum 70/3] gi|291558143|emb|CBL35260.1| SSU ribosomal protein S4P [Eubacterium siraeum V10Sc8a] Length = 198 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RRE +++ VNG ++ + + D + V Sbjct: 89 RLDNVVFRMGMAITRREARQLVTHGHFTVNGKKVDVPSYRIKPGDVVAV 137 >gi|260893252|ref|YP_003239349.1| hemolysin A [Ammonifex degensii KC4] gi|260865393|gb|ACX52499.1| hemolysin A [Ammonifex degensii KC4] Length = 276 Score = 54.8 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ G SR + I +V VNG + V D +EV Sbjct: 7 RLDILLVEQGYFPSRERARQAILAGQVLVNGQRAAKPGRMVGPEDRVEV 55 >gi|320529115|ref|ZP_08030207.1| ribosomal RNA large subunit methyltransferase J [Selenomonas artemidis F0399] gi|320138745|gb|EFW30635.1| ribosomal RNA large subunit methyltransferase J [Selenomonas artemidis F0399] Length = 268 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G+A SR +R+I +V V+ +++A V + + V G L Sbjct: 2 KKERLDLLLVAQGLAPSRERAKRLIMAGQVLVDERRVDKAGTTVDADASLRVTGEDLPY 60 >gi|296127781|ref|YP_003635033.1| hemolysin A [Brachyspira murdochii DSM 12563] gi|296019597|gb|ADG72834.1| hemolysin A [Brachyspira murdochii DSM 12563] Length = 240 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + + G SR + + +I V VNG+ + A + TD+IEV Sbjct: 1 MRLDEYVYKEGYTESRSKAQDIILAGCVFVNGVKVTAKAQKIKDTDNIEV 50 >gi|34556591|ref|NP_906406.1| putative ribosomal pseudouridine synthase [Wolinella succinogenes DSM 1740] gi|34482305|emb|CAE09306.1| PUTATIVE RIBOSOMAL PSEUDOURIDINE SYNTHASE [Wolinella succinogenes] Length = 320 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 42/256 (16%), Positives = 69/256 (26%), Gaps = 38/256 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M ++ I N R+ + +A+ SR +VE ++ V V+G + V + + I Sbjct: 1 MNERKIFH-NTEMARLDQALAKLLGESRNQVEALVRGGNVWVDGEKSSKGGVKLKGGERI 59 Query: 61 EVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 EV+ V + E + L +V + V S Sbjct: 60 EVEIPLLRENPAMEVEFEVEILHEEEHFIVLNKPSGAVVHGAPSVKEATLVDWLKKKGIS 119 Query: 107 RVISVGRLDI--------------------NTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 G L L L Sbjct: 120 LSTLNGEERHGIVHRLDKETSGAIVIAKSNEAHRRLSLQLQEKSMGRYYLAIIDHPLKED 179 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDT-QKGSNAWVTVGLREGKNREIKKVF 205 R + + + LK V G V L+ GS + L G+ +I+ Sbjct: 180 QRVECYLGRHPHHRLKIAKVPVGRYAKSAFVKLEESIDGSKELIAAKLFTGRTHQIRAHL 239 Query: 206 EFFNWKVNRLIRISYG 221 E + L YG Sbjct: 240 ELLGRHI--LHDELYG 253 >gi|89075039|ref|ZP_01161480.1| putative ribosomal large subunit pseudouridine synthase D [Photobacterium sp. SKA34] gi|89049126|gb|EAR54691.1| putative ribosomal large subunit pseudouridine synthase D [Photobacterium sp. SKA34] Length = 324 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 32/240 (13%), Positives = 67/240 (27%), Gaps = 31/240 (12%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERA----------AVN 53 N V EN R+ +VIA+ SR ++ I V VNG ++++ + Sbjct: 9 NTVGENQLGMRLDQVIAQLYPDYSRSRIKDWILNGMVSVNGDVVKKPREKMMGGEELFIQ 68 Query: 54 VMSTDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 D + + + L + +V + + + L Sbjct: 69 AEIEDEVRWVAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTILNALLHYCPSLAE 128 Query: 106 -SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 R V RLD +T GL+++ L + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTIQAQTRLVRALQKRKITREYEALAIGQMTGGGTIEKP 188 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + + L G+ +I+ + + + Sbjct: 189 IGRHSTKRICMAVHEMGKDAITHYRVAERFREHTRIVLRLETGRTHQIRVHMSYMSHPLI 248 >gi|326316273|ref|YP_004233945.1| pseudouridine synthase, RluA family [Acidovorax avenae subsp. avenae ATCC 19860] gi|323373109|gb|ADX45378.1| pseudouridine synthase, RluA family [Acidovorax avenae subsp. avenae ATCC 19860] Length = 339 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 35/237 (14%), Positives = 70/237 (29%), Gaps = 38/237 (16%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ K +A SR +++++ + V VNG + + V + D + V+ P +++ Sbjct: 45 RLDKALAELVPEFSRSYLQQLLGEGGVLVNGRAAAKPSARVQAGDVLSVELRPTPQSQAF 104 Query: 74 R---------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 R + +V + + L R V R Sbjct: 105 RPEAMALDTVYEDEHLRIVNKPAGLVVHPAPGNWSGTLLNGLLSLDPRAGNVPRAGIVHR 164 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------DKLN 159 LD +T GL+++ + + L + G D N Sbjct: 165 LDKDTSGLMVVARERSVMDALVRMIAAREVSRQYLALGHRAWQGSQTRVVEEAIGRDPRN 224 Query: 160 LLKKGIVIQGICY-GDMQVTLDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 L+ V + + L V L G+ +I+ + + Sbjct: 225 RLRMAAVDLAVHAGKPARTDLAVLDTCEDGCLVHCTLHTGRTHQIRVHMAWLRHPLL 281 >gi|47779342|gb|AAT38571.1| predicted ribosomal large subunit pseudouridine synthase D [uncultured gamma proteobacterium eBACHOT4E07] Length = 311 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 36/246 (14%), Positives = 75/246 (30%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + E+ + +R K A SR ++++ I + RV +N + V + D Sbjct: 1 MEVTKKITEDLSMERFDKACALIFNDYSRSQLKKWIIEGRVLLNNEIA-SPKEIVTTDDE 59 Query: 60 IEVD---GVPLRKAERTR-----------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I ++ ++ L + ++ S D + L Sbjct: 60 ISLNPIFKKIIQWEPENIDFEVVHEDENFLIINKPSKLVIHPGSGCDSGTLANGLLFKYP 119 Query: 106 SRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VR 148 RLD +T G+LL+ + + Sbjct: 120 ELNKMPRAGIVHRLDKDTSGILLVARTEKFRNYFVSLLQERKVKKIYKAVVVGKIIGSFQ 179 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQK-GSNAWVTVGLREGKNREIKKVFEF 207 + + +DK N +K I G + + G+ + V V + G+ +I+ Sbjct: 180 INEPIGRDKTNRIKMSIRSDGKEA--ISFVKLHESLGNYSVVDVSIETGRTHQIRVHLAN 237 Query: 208 FNWKVN 213 + Sbjct: 238 KKLPII 243 >gi|323358624|ref|YP_004225020.1| rRNA methylase [Microbacterium testaceum StLB037] gi|323274995|dbj|BAJ75140.1| predicted rRNA methylase [Microbacterium testaceum StLB037] Length = 265 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +A G+A SR ++IA V VNG + +A+ V + IEV Sbjct: 3 RLDAELAARGLARSRSHATQLIAAGEVSVNGRAVVKASAPVDTDSVIEV 51 >gi|323350794|ref|ZP_08086453.1| 30S ribosomal protein S4 [Streptococcus sanguinis VMC66] gi|322122968|gb|EFX94671.1| 30S ribosomal protein S4 [Streptococcus sanguinis VMC66] gi|325689321|gb|EGD31327.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK115] gi|325695727|gb|EGD37626.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK150] Length = 245 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 136 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 192 >gi|309798830|ref|ZP_07693093.1| 30S ribosomal protein S4 [Streptococcus infantis SK1302] gi|308117556|gb|EFO54969.1| 30S ribosomal protein S4 [Streptococcus infantis SK1302] Length = 133 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 24 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 80 >gi|148653370|ref|YP_001280463.1| RluA family pseudouridine synthase [Psychrobacter sp. PRwf-1] gi|148572454|gb|ABQ94513.1| ribosomal large subunit pseudouridine synthase D [Psychrobacter sp. PRwf-1] Length = 420 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 27/246 (10%), Positives = 63/246 (25%), Gaps = 40/246 (16%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVN--GILLERAAVNVMSTDHIE 61 + V + QR+ K+ A SR +++ + + VN + V D + Sbjct: 107 HTVTQEQAGQRIDKLAADMFTEHSRAQLQDWLKSGNLTVNDHNEKAK---YRVKIGDIVR 163 Query: 62 VDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 ++ + + + + + +V + + V L ++ Sbjct: 164 LEAKLEQHGSDQPEDIKLDIIYEDDSVIVINKPVGMVVHPGAGNWSGTLVNGLLYHYPNQ 223 Query: 108 VISV--GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGI 165 G + + L G Q R + V L + Sbjct: 224 AHLPRAGLVHRIDKNTSGLLVIGKTKAAQLELQEQLKDKSVYRHYQCVVAGDAPSLARQR 283 Query: 166 VIQ------------------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 I G + + + + + V L G+ +I+ Sbjct: 284 TIDAPIGRHRTQRTKMTVTSTGKTAITHIMKITPLSDTYSLLDVRLETGRTHQIRVHLSH 343 Query: 208 FNWKVN 213 + Sbjct: 344 IGHPII 349 >gi|148544158|ref|YP_001271528.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri DSM 20016] gi|184153530|ref|YP_001841871.1| pseudouridylate synthase [Lactobacillus reuteri JCM 1112] gi|227364587|ref|ZP_03848648.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri MM2-3] gi|325682298|ref|ZP_08161815.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri MM4-1A] gi|148531192|gb|ABQ83191.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri DSM 20016] gi|183224874|dbj|BAG25391.1| pseudouridylate synthase [Lactobacillus reuteri JCM 1112] gi|227070424|gb|EEI08786.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri MM2-3] gi|324978137|gb|EGC15087.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri MM4-1A] Length = 303 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 25/232 (10%), Positives = 63/232 (27%), Gaps = 37/232 (15%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ K + SR +++ I V VNG ++ ++ DH+++ Sbjct: 16 RIDKQLGHHFDQFSRSQIQHWIEDGHVLVNGKQVK-PKYKLLVGDHVQIIPEEPQKIDLA 74 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI---------- 109 + + + + +V + V L I Sbjct: 75 PEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPLSTINGEFRPGIVH 134 Query: 110 ----------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 V + D+ L R ++ + + + + Sbjct: 135 RIDKDTSGLLMVAKNDMAHRSLTAQLKAKTNKREYVALVHGVIKEDKGTIDAPLGRSLKD 194 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ +V+ + + + + V L G+ +I+ ++ Sbjct: 195 RKKQAVVV-DGRHAVTHFNVLERFKNYTLVACQLETGRTHQIRVHMKYIGHP 245 >gi|313112550|ref|ZP_07798214.1| S4 domain protein [Faecalibacterium cf. prausnitzii KLE1255] gi|310625132|gb|EFQ08423.1| S4 domain protein [Faecalibacterium cf. prausnitzii KLE1255] Length = 71 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 27/60 (45%), Gaps = 1/60 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ ++ AG+ + E + ++ VKVNG + + D IE+DG + Sbjct: 7 HTEFIKLDALLKYAGLCETGGEAKELVQGGAVKVNGEVCTMRGKKCRAGDVIELDGQTVE 66 >gi|257437732|ref|ZP_05613487.1| S4 domain protein [Faecalibacterium prausnitzii A2-165] gi|257200039|gb|EEU98323.1| S4 domain protein [Faecalibacterium prausnitzii A2-165] Length = 71 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 12/60 (20%), Positives = 27/60 (45%), Gaps = 1/60 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ ++ AG+ + E + ++ VKVNG + + D +E+DG + Sbjct: 7 HTEFIKLDALLKYAGLCETGGEAKELVQGGAVKVNGEVCTMRGKKCRAGDVVELDGQTVE 66 >gi|148381393|ref|YP_001255934.1| ribosomal protein S4 [Clostridium botulinum A str. ATCC 3502] gi|153933367|ref|YP_001385768.1| 30S ribosomal protein S4 [Clostridium botulinum A str. ATCC 19397] gi|153935510|ref|YP_001389175.1| 30S ribosomal protein S4 [Clostridium botulinum A str. Hall] gi|153940320|ref|YP_001392806.1| 30S ribosomal protein S4 [Clostridium botulinum F str. Langeland] gi|168178860|ref|ZP_02613524.1| ribosomal protein S4 [Clostridium botulinum NCTC 2916] gi|168181892|ref|ZP_02616556.1| 30S ribosomal protein S4 [Clostridium botulinum Bf] gi|170755638|ref|YP_001783093.1| 30S ribosomal protein S4 [Clostridium botulinum B1 str. Okra] gi|226950905|ref|YP_002805996.1| ribosomal protein S4 [Clostridium botulinum A2 str. Kyoto] gi|237796914|ref|YP_002864466.1| 30S ribosomal protein S4 [Clostridium botulinum Ba4 str. 657] gi|171769230|sp|A7FZ45|RS4A_CLOB1 RecName: Full=30S ribosomal protein S4 A gi|171769265|sp|A7GJ46|RS4A_CLOBL RecName: Full=30S ribosomal protein S4 A gi|172047868|sp|A5I7H8|RS4A_CLOBH RecName: Full=30S ribosomal protein S4 A gi|148290877|emb|CAL85013.1| 30S ribosomal protein S4 [Clostridium botulinum A str. ATCC 3502] gi|152929411|gb|ABS34911.1| 30S ribosomal protein S4 [Clostridium botulinum A str. ATCC 19397] gi|152931424|gb|ABS36923.1| 30S ribosomal protein S4 [Clostridium botulinum A str. Hall] gi|152936216|gb|ABS41714.1| 30S ribosomal protein S4 [Clostridium botulinum F str. Langeland] gi|169120850|gb|ACA44686.1| 30S ribosomal protein S4 [Clostridium botulinum B1 str. Okra] gi|182669924|gb|EDT81900.1| ribosomal protein S4 [Clostridium botulinum NCTC 2916] gi|182674921|gb|EDT86882.1| 30S ribosomal protein S4 [Clostridium botulinum Bf] gi|226841883|gb|ACO84549.1| ribosomal protein S4 [Clostridium botulinum A2 str. Kyoto] gi|229261759|gb|ACQ52792.1| 30S ribosomal protein S4 [Clostridium botulinum Ba4 str. 657] gi|295320786|gb|ADG01164.1| 30S ribosomal protein S4 [Clostridium botulinum F str. 230613] gi|322807778|emb|CBZ05353.1| SSU ribosomal protein S4p (S9e) [Clostridium botulinum H04402 065] Length = 206 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 1/69 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ V+ R G SR E +++ VNG ++ + V + D I V + Sbjct: 98 MRLDNVVYRLGYGNSRTEARQLVTHGHFLVNGKKVDIPSYQVSANDVITVCDKSKATEKF 157 Query: 73 TRLWLYHKP 81 K Sbjct: 158 KTFAENPKT 166 >gi|332307416|ref|YP_004435267.1| pseudouridine synthase, RluA family [Glaciecola agarilytica 4H-3-7+YE-5] gi|332174745|gb|AEE23999.1| pseudouridine synthase, RluA family [Glaciecola agarilytica 4H-3-7+YE-5] Length = 327 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 26/239 (10%), Positives = 69/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 +V + +R+ + +A SR ++ I +V ++G ++ + ++ + IE+D Sbjct: 13 VVPQTLLGKRLDQALAEMFPDYSRSRIKDWILADQVSIDGQIVNKPREKLLGEELIEIDA 72 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + + L + +V + + + L + Sbjct: 73 SIEIQERHSAQEIDLNIVYEDEHILVINKPTNLVVHPGAGNANGTILNALLSHVPDIASV 132 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD----------- 154 RLD +T GL+++ L + Sbjct: 133 PRAGIVHRLDKDTTGLMVVAKTIPAQTHLVEKLQAREISREYEAVVYGNLIAGGSVDEPI 192 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V+Q + + ++ + + L G+ +I+ + Sbjct: 193 GRHPTKRTNMAVVQSGKPALTHYRVKHKYRAHTHLRLKLESGRTHQIRVHMAHLRHPLV 251 >gi|224436535|ref|ZP_03657544.1| hypothetical protein HcinC1_01225 [Helicobacter cinaedi CCUG 18818] Length = 240 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 25/182 (13%), Positives = 54/182 (29%), Gaps = 14/182 (7%) Query: 14 QRVS---KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ K + SR + + I VKVNG ++++ + + D + VD L + Sbjct: 1 MRLDIYVKSLCS----SRTKAKEAIESGCVKVNGAVVKKGSFLLEKDDEVGVDSKDLLLS 56 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE---GLLLLTND 127 Y + + + +I + G + E ++ + Sbjct: 57 RA----GYKLRGFIESLVQKGLWDRAYLFHKKAIDIGASTGGFTQVLLESGIDSVVCVDV 112 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 G + + + V+ ++ L V Y M+ Sbjct: 113 GKNQLHTSILQDERVSVFEECDIRDFSDEREFDLMVCDVSFISLYKLMESFERLNVKEYI 172 Query: 188 WV 189 W+ Sbjct: 173 WL 174 >gi|169838496|ref|ZP_02871684.1| pseudouridine synthase [candidate division TM7 single-cell isolate TM7a] Length = 44 Score = 54.4 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 1/45 (2%) Query: 22 RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 G SRR+ + +I + RV VN +++ D + +DG Sbjct: 1 ETGFCSRRKADELINEGRVTVN-KQEAIIGMDIKPEDVVRIDGKE 44 >gi|311895525|dbj|BAJ27933.1| putative ribosomal large subunit pseudouridine synthase D [Kitasatospora setae KM-6054] Length = 312 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 23/243 (9%), Positives = 65/243 (26%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIE--- 61 V + +R+ +AR SR + + A+ +V ++G + + + V + +E Sbjct: 12 VPDGLEGERLDAALARMFGFSRTKAAELAAEGKVTLDGAVAGK-SDRVTAGSWLEVEIPA 70 Query: 62 -----------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 V+G+ + + + + G + + + + S Sbjct: 71 PAAPVQIVAEAVEGMRIIHDDDHVVVIDKPVGVAAHPSPGWTGPTVIGGLAAAGYRISTS 130 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST-----QWLRVYRVRFHGQVDQDKLNLLKKGI 165 L + G + + Q+ + + + Q + L + Sbjct: 131 GAAERQGVVHRLDVGTSGIMVVAKSERAYTDLKRQFHDRVTEKKYNALVQGHPDPLSGTV 190 Query: 166 VIQGICYGDMQVTLDTQKGSN---------------AWVTVGLREGKNREIKKVFEFFNW 210 + + + + + L G+ +I+ Sbjct: 191 DAPIGRHPSSDWKWAVTRDGKPSVTHYDLIEAYRAASLLDIKLETGRTHQIRVHMSALRH 250 Query: 211 KVN 213 Sbjct: 251 PCV 253 >gi|261366958|ref|ZP_05979841.1| hemolysin A [Subdoligranulum variabile DSM 15176] gi|282571076|gb|EFB76611.1| hemolysin A [Subdoligranulum variabile DSM 15176] Length = 273 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 18/167 (10%), Positives = 50/167 (29%), Gaps = 2/167 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ + + + G+ SR + +I V V+ +++A + +EV G + R Sbjct: 4 IRLDQYLCQHGLVQSRERAKALIMSGIVFVDEQKVDKAGEMIAEDAKVEVRGHDIGYVSR 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L K + + D + + ++ G + + + L Sbjct: 64 GGL-KLEKAMQVFPMRPDGKVCMDIGASTGGFTDCMLQNGAVKVYAVDVGYGQLAWSLRT 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 + + + + V+ + + + + Sbjct: 123 DSRVVNMERTNIRNVKPEDLTESISFFSVDVSFISLKHIFPVADQIC 169 >gi|114566130|ref|YP_753284.1| hypothetical protein Swol_0583 [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|114337065|gb|ABI67913.1| conserved hypothetical protein [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 270 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ +A SR + MI V+VNG ++++ V IE+ Sbjct: 4 IRLDSLLYDKALAPSREKARAMILAGEVRVNGQMVDKPGTTVDEEARIEL 53 >gi|95929505|ref|ZP_01312248.1| hemolysin A [Desulfuromonas acetoxidans DSM 684] gi|95134621|gb|EAT16277.1| hemolysin A [Desulfuromonas acetoxidans DSM 684] Length = 250 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 1/56 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + T +R+ K + G+ SR +I V VN ++++A V I V G Sbjct: 2 SATKERLDKRVVELGLCRSRERARALIMSGNVLVNETVIDKAGTRVAVDAAIRVRG 57 >gi|257866108|ref|ZP_05645761.1| pseudouridylate synthase [Enterococcus casseliflavus EC30] gi|257872439|ref|ZP_05652092.1| pseudouridylate synthase [Enterococcus casseliflavus EC10] gi|257800042|gb|EEV29094.1| pseudouridylate synthase [Enterococcus casseliflavus EC30] gi|257806603|gb|EEV35425.1| pseudouridylate synthase [Enterococcus casseliflavus EC10] Length = 302 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 77/245 (31%), Gaps = 37/245 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K ++ + RV KV+A SR ++++ + + V + G + A V + DH+ Sbjct: 3 KQIEVIIKEEKG-RVDKVLAERLPNHSRSQIQQWLKEDAVTLKGETVR-ANYKVKAGDHL 60 Query: 61 --------EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 VD P + + + +V + + V L + Sbjct: 61 IIQVPEPEVVDLQPENIPLTIVYQDADVAVINKPQGMVVHPSAGHPNGTLVNALLYHMDD 120 Query: 107 --------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R V R+D +T GLL++ + L + + Sbjct: 121 LSTINDVVRPGIVHRIDKDTSGLLMIAKNDQAHESLAKQLKDKTSLRKYVALVHGTISHE 180 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV-------GLRE-----GKNREIKKVFE 206 + + MQ ++ K + TV L E G+ +I+ + Sbjct: 181 KGTINAPIGRSKVNRKMQAVIENGKPAVTHFTVLERFEQFTLVELQLETGRTHQIRVHMQ 240 Query: 207 FFNWK 211 + + Sbjct: 241 YIGFP 245 >gi|261417496|ref|YP_003251179.1| pseudouridine synthase, RluA family [Fibrobacter succinogenes subsp. succinogenes S85] gi|261373952|gb|ACX76697.1| pseudouridine synthase, RluA family [Fibrobacter succinogenes subsp. succinogenes S85] gi|302326984|gb|ADL26185.1| ribosomal large subunit pseudouridine synthase D [Fibrobacter succinogenes subsp. succinogenes S85] Length = 424 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 47/406 (11%), Positives = 110/406 (27%), Gaps = 66/406 (16%) Query: 6 IVQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 IV+E +R+ K + G+ SR +V+++I VKV G + + V + + V Sbjct: 4 IVEEKHNGERIDKFL--VGVMENVSRTDVQKLIEAGEVKVGGGKVSK-NFRVETGMAVVV 60 Query: 63 DGVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + + + + + + +V + + L Sbjct: 61 EKMIEKESSTLEPEDIPLNIVYEDDDIVVINKPRNLVVHPGNGVSKGTLAAALLYHFKEN 120 Query: 108 ------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + G + + L + Q R + + L Sbjct: 121 LSTVNGPLRPGIVHRLDKDTPGLMVVAKNDAAHRHLAHQLETRTLHRTYNALVWGCPRDL 180 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSN---------------AWVTVGLREGKNREIKKVFE 206 + I ++ + KG + + L G+ +I+ Sbjct: 181 EGTIDAPIGRNPKNRLKMAVVKGGKESRTHYVAKQFFAIATLLELQLESGRTHQIRVHSR 240 Query: 207 FFNWKVN----------RLIRI------------SYGPFQLGTLLAGSTREVSKKILREQ 244 + V L R+ P QL L A + + ++ Sbjct: 241 YTGHPVVGDPLYDGRDESLNRVPPLMKPVAEKVLEIAPAQL--LQAVKIELIHPRTNKKL 298 Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 +EE N+ + + D +++ + + ++ +P Sbjct: 299 TFKVPMEEPFANVLKLLKKECPASAPVYDEEEGFRDFDAQIRFDEDDEFDEYEEPLEISP 358 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + A+ + + + +R R K + R+ Sbjct: 359 DEAAPVKERKTRAQRLAEKKATAAKRRAVAAERKLIKQMKAARRKG 404 >gi|324989545|gb|EGC21491.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK353] Length = 245 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 136 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVNPGQVISVREKSLKVP 192 >gi|170758349|ref|YP_001788793.1| 30S ribosomal protein S4 [Clostridium botulinum A3 str. Loch Maree] gi|169405338|gb|ACA53749.1| 30S ribosomal protein S4 [Clostridium botulinum A3 str. Loch Maree] Length = 206 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 1/69 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ V+ R G SR E +++ VNG ++ + V + D I V + Sbjct: 98 MRLDNVVYRLGYGNSRTEARQLVTHGHFLVNGKKVDIPSYQVSANDVITVCDKSKATEKF 157 Query: 73 TRLWLYHKP 81 K Sbjct: 158 KTFAENPKT 166 >gi|195952821|ref|YP_002121111.1| hemolysin A [Hydrogenobaculum sp. Y04AAS1] gi|195932433|gb|ACG57133.1| hemolysin A [Hydrogenobaculum sp. Y04AAS1] Length = 246 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ G+ S RE + I + RV VNG + +A V D IE+ G Sbjct: 4 RLDLLLVEKGLVSSREKAQAFIMEGRVFVNGKAVLKAGTLVQEEDGIELLGEE 56 >gi|54294221|ref|YP_126636.1| ribosomal large subunit pseudouridine synthase D (pseudouridylate synthase) (Uracil hydrolyase) [Legionella pneumophila str. Lens] gi|53754053|emb|CAH15526.1| Ribosomal large subunit pseudouridine synthase D (Pseudouridylate synthase) (Uracil hydrolyase) [Legionella pneumophila str. Lens] Length = 321 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 34/236 (14%), Positives = 65/236 (27%), Gaps = 38/236 (16%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 QRV V+AR SR + I V +N + + + D I ++ Sbjct: 18 QRVDSVLARLLPEYSRSLICNWIKTGAVTLNNLPCK-PKDKALGGDLITINVDYTIDNTD 76 Query: 64 ---------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI----- 109 + + + + + +V + + V L + Sbjct: 77 FNLCKPENIPIQIVYEDSEVIVVNKPASLVVHPGAGNKEHTLVNALLHHCPELQLLPRAG 136 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVDQDK 157 + RLD +T GLL++ + L + Sbjct: 137 IIHRLDKDTTGLLIVAKNLISHTYLIRQMQNREIKRHYLTLVHGYVISGGTIDTGFGRHP 196 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N LK + G ++ + V L G+ +I+ + N V Sbjct: 197 KNRLKMAVTDFGRQA-VTHYNINKHYKDFTLLNVSLMTGRTHQIRVHMNYINHPVV 251 >gi|307634844|gb|ADI84260.2| rRNA methyltransferase, YqxC-related, putative [Geobacter sulfurreducens KN400] Length = 263 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 15/69 (21%), Positives = 30/69 (43%), Gaps = 1/69 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + + + +R+ K++ G+ SR +I +V VN L ++A + V Sbjct: 1 MTASSTLNTAKSRERLDKLLVDRGLVQSRERARALIMAGQVVVNDHLADKAGLQVPVEAE 60 Query: 60 IEVDGVPLR 68 I + G + Sbjct: 61 IRLKGEDIP 69 >gi|238917013|ref|YP_002930530.1| putative hemolysin [Eubacterium eligens ATCC 27750] gi|238872373|gb|ACR72083.1| putative hemolysin [Eubacterium eligens ATCC 27750] Length = 267 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 25/165 (15%), Positives = 53/165 (32%), Gaps = 2/165 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ G+A SR + + +I V V+G ++A + T IEV G L+ R Sbjct: 4 ERLDVLLVNKGLATSREKAKAIIMSGNVYVDGQKEDKAGQSFPDTAVIEVRGTTLKYVSR 63 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T ++ G + + + D L Sbjct: 64 GGLKLEKAMQNFDVTLEGKICMDVGSST-GGFTDCMLQNGAIKVYAVDVGHGQLDWKLRN 122 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + + + V D+ + + + + ++ Sbjct: 123 DERVVCMEKTNIRYVTPDDVADRIQFSSIDVSFISLTKVLTPVRN 167 >gi|194468025|ref|ZP_03074011.1| pseudouridine synthase, RluA family [Lactobacillus reuteri 100-23] gi|194452878|gb|EDX41776.1| pseudouridine synthase, RluA family [Lactobacillus reuteri 100-23] Length = 303 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 26/232 (11%), Positives = 62/232 (26%), Gaps = 37/232 (15%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ K + SR +++ I V VNG ++ ++ DH+++ Sbjct: 16 RIDKQLGHHFDQFSRSQIQHWIEDGHVLVNGKQVK-PKYKLLVGDHVQIIPEEPQKIDLA 74 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI---------- 109 + + + + +V + V L I Sbjct: 75 PEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPLSTINGEFRPGIVH 134 Query: 110 ----------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 V + D+ L R ++ + + + + Sbjct: 135 RIDKDTSGLLMVAKNDMAHRSLTAQLKAKTNKREYVALVHGVIKEDKGTIDAPLGRSLKD 194 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 KK V+ + + + + V L G+ +I+ ++ Sbjct: 195 R-KKQGVVVDGRHAVTHFNVLERFKNYTLVACQLETGRTHQIRVHMKYIGHP 245 >gi|328724994|ref|XP_001952731.2| PREDICTED: hypothetical protein LOC100168337, partial [Acyrthosiphon pisum] Length = 1131 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 27/156 (17%), Positives = 49/156 (31%), Gaps = 16/156 (10%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--- 60 I EN R+ K++ SR +++ I V+VNG +++ A D I Sbjct: 479 KIETENEIGVRIDKLLPDLNPDWSRNQIQDWIKLGLVEVNGKVIK-ANYKTKLNDVIVAT 537 Query: 61 -----EVD------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 EVD G+ + ++ +Y +V + V + I Sbjct: 538 EKVIEEVDIVAEDLGIEVYYEDKDVAVVYKPKGMVVHPAPGHYTGTLVNGLMYVIKDLSG 597 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY 145 G + + G L + + L Sbjct: 598 INGEIRPGIVHRIDKDTSGLLMIAKNDIAHRGLVEQ 633 >gi|261368842|ref|ZP_05981725.1| S4 domain protein [Subdoligranulum variabile DSM 15176] gi|282569112|gb|EFB74647.1| S4 domain protein [Subdoligranulum variabile DSM 15176] Length = 71 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 1/63 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ ++ AG+ + E + +I VKVNG + + D +E+DG ++ Sbjct: 7 HTEYIKLDALLKFAGLCETGGEAKELIQGGAVKVNGEVCTMRGKKCRAGDTVELDGRTVQ 66 Query: 69 KAE 71 AE Sbjct: 67 VAE 69 >gi|169836316|ref|ZP_02869504.1| pseudouridine synthase [candidate division TM7 single-cell isolate TM7a] Length = 42 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 1/40 (2%) Query: 204 VFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILR 242 +F+ N +V L R+ G L L G RE++++ L Sbjct: 1 MFKAVNNEVLYLKRVKMGNLSLDEKLKLGEYRELTEEELD 40 >gi|125719124|ref|YP_001036257.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK36] gi|125499041|gb|ABN45707.1| 30S ribosomal protein S4, putative [Streptococcus sanguinis SK36] gi|325686442|gb|EGD28471.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK72] gi|325698067|gb|EGD39948.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK160] gi|327463801|gb|EGF10117.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK1057] gi|327467659|gb|EGF13156.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK330] gi|327471574|gb|EGF17017.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK408] gi|328945138|gb|EGG39293.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK1087] gi|332363571|gb|EGJ41352.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK1059] gi|332364129|gb|EGJ41906.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK49] Length = 245 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 136 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 192 >gi|123969198|ref|YP_001010056.1| rRNA methyltransferase [Prochlorococcus marinus str. AS9601] gi|123199308|gb|ABM70949.1| FtsJ cell division protein:S4 domain:Hemolysin A [Prochlorococcus marinus str. AS9601] Length = 270 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 11/54 (20%), Positives = 27/54 (50%), Gaps = 2/54 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVP 66 R+ + G+ +R++ + +I +V+ +NG +L++ V+ +D P Sbjct: 6 RLDLYLLNKGLCETRQKAQGLILAGKVRDINGKVLDKPGQQVLIGSEFFIDSEP 59 >gi|78779941|ref|YP_398053.1| hemolysin A [Prochlorococcus marinus str. MIT 9312] gi|78713440|gb|ABB50617.1| hemolysin A [Prochlorococcus marinus str. MIT 9312] Length = 270 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 11/54 (20%), Positives = 27/54 (50%), Gaps = 2/54 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVP 66 R+ + G+ +R++ + +I +V+ +NG +L++ V+ +D P Sbjct: 6 RLDLYLLNKGLCETRQKAQGLILAGKVRDINGKVLDKPGQQVLIGSEFFIDSEP 59 >gi|78356492|ref|YP_387941.1| pseudouridine synthase, RluD [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|78218897|gb|ABB38246.1| dephospho-CoA kinase / ribosomal large subunit pseudouridine synthase D [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 578 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 29/247 (11%), Positives = 59/247 (23%), Gaps = 41/247 (16%) Query: 6 IVQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +V +R + IA A SR +++R I+ ++ ++ + + S HI Sbjct: 44 MVSPQAAGERADRFIAAALAGDAISRGKIQRAISDGQLLIDNTVCTSPKTKLKSGQHIVF 103 Query: 63 ------------DGVP-LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 +G + + L + V + V L Sbjct: 104 SMEAPAACVSPEEGELEVLYRDAHMLVINKPAGLTVHPAPSCPEGTLVHRLLHHFPELEA 163 Query: 110 SVGRLDINTEGL---------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 G + + LT LA + + Y G + D + Sbjct: 164 QEGFRPGIVHRIDKDTSGLLLIALTEKARLALSDAFAGRRIHKEYLALVKGIPEGDSGEI 223 Query: 161 LKKGIVIQGICYGDM----------QVTLDTQKG------SNAWVTVGLREGKNREIKKV 204 + V V + G+ +I+ Sbjct: 224 DAPVGRHPTHKTRMAVVRGGREALSTWRVLLADPHGGGGTGWTLVAVRIHTGRTHQIRVH 283 Query: 205 FEFFNWK 211 + Sbjct: 284 MQHTGHP 290 >gi|325280294|ref|YP_004252836.1| pseudouridine synthase, RluA family [Odoribacter splanchnicus DSM 20712] gi|324312103|gb|ADY32656.1| pseudouridine synthase, RluA family [Odoribacter splanchnicus DSM 20712] Length = 353 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 33/238 (13%), Positives = 68/238 (28%), Gaps = 42/238 (17%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 RV K + +R ASR +++ + VNG ++ + V D + V Sbjct: 38 RVDKFLMSRLPNASRTKIQEAADAGNILVNGKAVKS-SYKVKPKDIVSVVMAYPRREIEI 96 Query: 63 --DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS-------- 110 + +P + + + + +V + V + + Sbjct: 97 IPENIPLNIVYEDDDLMVVNKPAGMVVHPSYGHYTGTLVNALAWHLKGNPLFKDNNDPRP 156 Query: 111 --VGRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRVRFHGQVDQ 155 V R+D +T GLL++ L G + + Sbjct: 157 GLVHRIDKDTSGLLVIAKTEKAKTHLGLQFFNKTSDRKYVAVCWGNLEDETGTITGHIGR 216 Query: 156 DKLNLLKKGIVIQG--ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + N G + + + G V L G+ +I+ F++ Sbjct: 217 NLTNRKVMACFPDGSHGKHAVTHYRVLERLGYVNVVECILETGRTHQIRAHFKYIKHP 274 >gi|28211276|ref|NP_782220.1| ribosomal large subunit pseudouridine synthase D [Clostridium tetani E88] gi|28203716|gb|AAO36157.1| ribosomal large subunit pseudouridine synthase D [Clostridium tetani E88] Length = 307 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 37/249 (14%), Positives = 76/249 (30%), Gaps = 37/249 (14%) Query: 1 MK-DKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 MK +K +V+E F +R+ I SR ++++ + + VN + ++ V D Sbjct: 3 MKIEKFLVKEEFENERLDLFIVENLKDKSRSFIKKLSDDKGIMVNDEI-KKVNYKVKCGD 61 Query: 59 HIEV-----DGVPLR---------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 ++V +G+ L + + + +V + V L Sbjct: 62 IVKVLLPKEEGIYLEKENMDLNILYEDEDIIVINKPQGMVVHPGVGNTKGTLVNGLLAHC 121 Query: 105 FSRVISVGRLDINTEGLL----------LLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 S G + TN +L LRVY G + Sbjct: 122 KSLSNINGEERPGIVHRIDKDTSGILVIAKTNRAHEHLANQLKDHSMLRVYMALTEGVIK 181 Query: 155 QDK----------LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 +D + K V+ + + +N+ + L G+ +I+ Sbjct: 182 EDMGTIDKDLGRNPSDRIKFAVVDEGKRAVTHYKVINRYNNNSLIECRLETGRTHQIRVH 241 Query: 205 FEFFNWKVN 213 + + Sbjct: 242 MSYIGHPIV 250 >gi|186685337|ref|YP_001868533.1| hemolysin A [Nostoc punctiforme PCC 73102] gi|186467789|gb|ACC83590.1| hemolysin A [Nostoc punctiforme PCC 73102] Length = 272 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ + S R +R+I V VN L+++ V + I + Sbjct: 4 QRLDTLLVELNLCSSRALAQRLIQAGEVTVNQQLVDKPGTEVDISAQINI 53 >gi|307297764|ref|ZP_07577570.1| pseudouridine synthase, RluA family [Thermotogales bacterium mesG1.Ag.4.2] gi|306917024|gb|EFN47406.1| pseudouridine synthase, RluA family [Thermotogales bacterium mesG1.Ag.4.2] Length = 312 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 29/242 (11%), Positives = 73/242 (30%), Gaps = 38/242 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRRE--------VERMIAQQRVKVNGILLERAAVN 53 K+ + +ENF +R+ +V+ R+E + +++ + V+VNG + + Sbjct: 21 KEFKVTKENFY-ERLDRVL-------RKELSDLKLSSIYKLLRRGNVRVNGNKIRDGSWK 72 Query: 54 VMSTDHIEV--DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + D ++V G P + + + D V + Sbjct: 73 MEIGDKVQVVFSGDPSKLKRLEESRELTPKHIPLDILFEDDLIVAVDKPSGISVHPGKGI 132 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 + + + + G + R + V + ++ L ++ V +G Sbjct: 133 QIITLVEGLMAYGNSKGFVPRPVHRLDKHTSGVILFAKSPEAARELSKLFRERGVEKGYF 192 Query: 172 YG----DMQVTLDTQKGSN----------------AWVTVGLREGKNREIKKVFEFFNWK 211 + + + + + L GK +I++ + Sbjct: 193 TLVKGFPEKRGKLVSQREKFVESLAFTVEKSYATTSLLWIDLFTGKKHQIRRQLSEAGYP 252 Query: 212 VN 213 V Sbjct: 253 VV 254 >gi|71893806|ref|YP_279252.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma hyopneumoniae J] Length = 289 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 29/240 (12%), Positives = 73/240 (30%), Gaps = 43/240 (17%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI------------- 60 R+ ++A+ SR+ + +I +++V +N L+ + V + I Sbjct: 1 MRIDILVAKLANLSRKVAQDLILEKKVLINNNLVLKKNQIVKTGQKIKIFNDYKRPKPQL 60 Query: 61 ---EVDGVPLRKAERTRLWLYHKPIGLV-------------------TTHSDPDGRSTVF 98 E+D + + + L K + + + R + Sbjct: 61 EPAEIDFEIIFQDQNMILINKPKNLVVHPGVGNWKNTLVNGLISHFDSLEQLDHIRPGIV 120 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 L + ++ V + + + + R + + ++ + + +D Sbjct: 121 HRLDKDTTGLLLVAKNAKAHSFFVNELANRQIKRFYKAIVIGKVLHKFMKINLPIGRDLK 180 Query: 159 NLLKKGIVIQGICYGDMQVTLD------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 N LKK I ++ Q + V L G+ +I+ + + Sbjct: 181 NPLKKTISFFNS--KPAITNVELIKHFSYQNQDFSLVKCQLETGRTHQIRLHLAHIGYPI 238 >gi|86148440|ref|ZP_01066731.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. MED222] gi|218708594|ref|YP_002416215.1| 23S rRNA pseudouridine synthase D [Vibrio splendidus LGP32] gi|85833794|gb|EAQ51961.1| ribosomal large subunit pseudouridine synthase D [Vibrio sp. MED222] gi|218321613|emb|CAV17565.1| ribosomal large subunit pseudouridine synthase D [Vibrio splendidus LGP32] Length = 324 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 31/264 (11%), Positives = 80/264 (30%), Gaps = 35/264 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + V+ + QR+ + +A SR ++ + +++V+G ++ + V+ + I + Sbjct: 9 DTVKSSQLGQRLDQAVAELFTDFSRSRIKEWLLDGKIQVDGEVITKPRTIVLGGEAIILQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + L + +V + + + L Sbjct: 69 AELADEERWEAQDIPLDIVYEDDDLLVINKPRDLVVHPGAGTPDGTILNALLFHYPQIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 RLD +T GL+++ L + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALAKRRITREYEAIAIGKMTAGGVVEKG 188 Query: 156 DKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K+ ++ + + + + L G+ +I+ + + Sbjct: 189 ISRHATKRTLMDVNELGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 L I+YG + G++ E++ Sbjct: 248 -LGDIAYGGRA--RIPKGASEELT 268 >gi|262340910|ref|YP_003283765.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase D) [Blattabacterium sp. (Blattella germanica) str. Bge] gi|262272247|gb|ACY40155.1| pseudouridylate synthase (ribosomal large subunit pseudouridine synthase D) [Blattabacterium sp. (Blattella germanica) str. Bge] Length = 342 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 29/257 (11%), Positives = 74/257 (28%), Gaps = 50/257 (19%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I +N R+ K + SR ++++ ++ VN ++++ + D +E+ Sbjct: 11 KIITNKNQKEIRIDKFLKNYIQNISRNQIQKWTTSGKILVNKNIVKK-NYKIKPLDFVEI 69 Query: 63 D--------------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 + + + + L + +V + + + Sbjct: 70 EISIPSVLDHLEYKNITAEKINLDILYEDEDVLVVNKPAGMVVHPGFGNETGTLIHGIKY 129 Query: 103 S---------IFSRVISVGRLDINTEGLLLLTNDGGLARVLELP---------------- 137 R V RLD +T GLL+ + + L Sbjct: 130 HLTNSNLNNFNLYRCGLVHRLDKDTSGLLVFAKNEYSQKHLFQQFYSRTIQRKYIALIWG 189 Query: 138 ---STQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + + + L ++ + + + +V+ ++ Sbjct: 190 NLIEEKGTITGFIGRDPKNRKKMTILKQENQEFNKGKFSVTHYKVLERFKYLTYVSCNIK 249 Query: 195 EGKNREIKKVFEFFNWK 211 GK +I+ F+ Sbjct: 250 TGKTHQIRAHFKHLGHP 266 >gi|218294781|ref|ZP_03495635.1| RNA-binding S4 domain protein [Thermus aquaticus Y51MC23] gi|218244689|gb|EED11213.1| RNA-binding S4 domain protein [Thermus aquaticus Y51MC23] Length = 209 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SRR+ +M+ + VNG ++ A V D I + Sbjct: 100 RLDNVVYRLGFAQSRRQARQMVRHGHITVNGRRVDLPAYRVKPGDEIAI 148 >gi|254423526|ref|ZP_05037244.1| photosystem II S4 domain protein [Synechococcus sp. PCC 7335] gi|196191015|gb|EDX85979.1| photosystem II S4 domain protein [Synechococcus sp. PCC 7335] Length = 259 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 2/65 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K + R+ +A AG SR ++ MI V+VN + +A+ + D + Sbjct: 172 PKKKEMTTVEASMRLD-ALASAGFGMSRSKMADMITGGDVRVNWKPVTQASQTLQPGDLV 230 Query: 61 EVDGV 65 + G Sbjct: 231 AIRGK 235 >gi|160932173|ref|ZP_02079564.1| hypothetical protein CLOLEP_01008 [Clostridium leptum DSM 753] gi|156868775|gb|EDO62147.1| hypothetical protein CLOLEP_01008 [Clostridium leptum DSM 753] Length = 200 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS RR+ +++ VNG + + V D IEV Sbjct: 90 RLDNVVYRLGFASTRRDARQLVNHGHFTVNGKRVNIPSYLVKPGDVIEV 138 >gi|238924093|ref|YP_002937609.1| pseudouridine synthase, RluA family [Eubacterium rectale ATCC 33656] gi|238875768|gb|ACR75475.1| pseudouridine synthase, RluA family [Eubacterium rectale ATCC 33656] gi|291524836|emb|CBK90423.1| ribosomal large subunit pseudouridine synthase D [Eubacterium rectale DSM 17629] Length = 312 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 74/249 (29%), Gaps = 38/249 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +D VQ +R+ K ++ SR +R++ + ++ VN ++A + + D + Sbjct: 3 RDTFEVQSEQEGERLDKYLSSIYPDISRSFFQRILKENQILVNDKP-QKANYRLKTDDIV 61 Query: 61 EV------------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 +V +PL + L + +V + + V + Sbjct: 62 DVTIPDAVQTPILPQDIPLDILYEDDDVLVVNKPKGMVVHPSAGHYSDTLVNAIMYHCKD 121 Query: 107 RVISVGRL----------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + + T L++ ND ++ E V +D Sbjct: 122 SLSGINGEIRPGIVHRIDMDTTGSLIVCKNDESHIKISEQIKDHSCNRIYVGIVCGNVKD 181 Query: 157 KLNLL----------KKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + +K + I + + G ++ L G+ +I+ Sbjct: 182 DEGTIEGAIGRNPNDRKKMAINEKNGKPAVTHYKVLERFGDYTYMQFKLETGRTHQIRVH 241 Query: 205 FEFFNWKVN 213 N + Sbjct: 242 MASINHPLL 250 >gi|72080790|ref|YP_287848.1| ribosomal large subunit pseudouridine synthase D [Mycoplasma hyopneumoniae 7448] Length = 289 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 29/240 (12%), Positives = 73/240 (30%), Gaps = 43/240 (17%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI------------- 60 R+ ++A+ SR+ + +I +++V +N L+ + V + I Sbjct: 1 MRIDILVAKLANLSRKVAQDLILEKKVLINNNLVLKKNQIVKTGQKIKIFNDYKRPKPQL 60 Query: 61 ---EVDGVPLRKAERTRLWLYHKPIGLV-------------------TTHSDPDGRSTVF 98 E+D + + + L K + + + R + Sbjct: 61 EPAEIDFEIIFQDQNMILINKPKNLVVHPGVGNWKNTLVNGLISHFDSLEQLDHIRPGIV 120 Query: 99 DNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 L + ++ V + + + + R + + ++ + + +D Sbjct: 121 HRLDKDTTGLLLVAKNAKAHSFFVNELANRQIKRFYKAIVIGKVLHKFMKINLPIGRDLK 180 Query: 159 NLLKKGIVIQGICYGDMQVTLD------TQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 N LKK I ++ Q + V L G+ +I+ + + Sbjct: 181 NPLKKTISFFNS--KPAITNVELIKHFNYQNQDFSLVKCQLETGRTHQIRLHLAHIGYPI 238 >gi|116629656|ref|YP_814828.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus gasseri ATCC 33323] gi|238854259|ref|ZP_04644603.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus gasseri 202-4] gi|311110701|ref|ZP_07712098.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus gasseri MV-22] gi|116095238|gb|ABJ60390.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus gasseri ATCC 33323] gi|238833070|gb|EEQ25363.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus gasseri 202-4] gi|311065855|gb|EFQ46195.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus gasseri MV-22] Length = 304 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 36/237 (15%), Positives = 73/237 (30%), Gaps = 36/237 (15%) Query: 10 NFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP-- 66 R+ KVIA SR +++ ++ + + VN E+ + V + D I++ P Sbjct: 10 EEEKGRLDKVIAEKLKDLSRTKIKELVNDKNILVNHK-AEKVSYKVQAGDSIDITVPPAK 68 Query: 67 ------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--------S 106 + + + + +V + + V L Sbjct: 69 PLSLEAQNLNLDIVYEDADVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHTHELADSPEGF 128 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD---------- 156 R V R+D +T GLL++ + LE + + + + Sbjct: 129 RPGIVHRIDKDTSGLLMVAKNDKARESLEKQLAEKINKREYLAIVHGNFETKNGVIDAPI 188 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 N K+ V T+ Q + V L G+ +I+ ++ Sbjct: 189 GRNPNNRKQMAVNPKGKAAVTHFTVLEQFKDYSLVKCILETGRTHQIRVHMKYIGHP 245 >gi|258515777|ref|YP_003191999.1| hemolysin A [Desulfotomaculum acetoxidans DSM 771] gi|257779482|gb|ACV63376.1| hemolysin A [Desulfotomaculum acetoxidans DSM 771] Length = 269 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ + R G SR + I + VN +++A V S +EV G L+ Sbjct: 6 ERLDNFLVREGFFPSREKARSAIMAGLIYVNDQRMDKAGTQVSSGVQVEVRGNALKY 62 >gi|289548515|ref|YP_003473503.1| ribosomal protein S4 [Thermocrinis albus DSM 14484] gi|289182132|gb|ADC89376.1| ribosomal protein S4 [Thermocrinis albus DSM 14484] Length = 209 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R GI +RR+ + +A + VNG + + V D IEV Sbjct: 99 RLDNVVYRLGIACTRRQARQFVAHGHILVNGKKVNIPSYLVEPGDVIEV 147 >gi|119486986|ref|ZP_01620858.1| Hemolysin A [Lyngbya sp. PCC 8106] gi|119455915|gb|EAW37049.1| Hemolysin A [Lyngbya sp. PCC 8106] Length = 300 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ + S R +R+I V VN ++++ + I+V Sbjct: 4 QRLDTLLIDRNLCSSRHIAQRLIRAGEVMVNQQVIDKPGTEIDLEAQIKV 53 >gi|303233180|ref|ZP_07319853.1| ribosomal protein S4 [Atopobium vaginae PB189-T1-4] gi|302480765|gb|EFL43852.1| ribosomal protein S4 [Atopobium vaginae PB189-T1-4] Length = 176 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ V+ R G A +R+E + + + VNG ++ + V + D I V+ Sbjct: 67 RLDNVVFRLGFARTRKEARQTVRHGHITVNGKRVDIPSYQVKAQDVIAVNPKA 119 >gi|225849728|ref|YP_002729962.1| hemolysin A [Persephonella marina EX-H1] gi|225646217|gb|ACO04403.1| hemolysin A [Persephonella marina EX-H1] Length = 272 Score = 54.4 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 1/56 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +R+ K++ G+ SR + +R+I V VN +++ + +I + Sbjct: 3 KKERIDKLLVERGLVESREKAQRLIMAGCVFVNDQRVDKPGTKIPVDANIFLKEKE 58 >gi|163747421|ref|ZP_02154773.1| ribosomal large subunit pseudouridine synthase D [Oceanibulbus indolifex HEL-45] gi|161379274|gb|EDQ03691.1| ribosomal large subunit pseudouridine synthase D [Oceanibulbus indolifex HEL-45] Length = 348 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 4/57 (7%) Query: 10 NFTPQRVSKVIAR----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + P R+ K +AR A SR + R+I + V V+G ++ V +++ Sbjct: 12 DSPPARLDKALARDVPEAANLSRTRLGRLIEEGAVTVDGAVVHDPRAKVAEGQVVQI 68 >gi|218781210|ref|YP_002432528.1| pseudouridine synthase, RluA family [Desulfatibacillum alkenivorans AK-01] gi|218762594|gb|ACL05060.1| pseudouridine synthase, RluA family [Desulfatibacillum alkenivorans AK-01] Length = 321 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 62/245 (25%), Gaps = 40/245 (16%) Query: 7 VQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 VQ QR+ + SR R+I Q V V+ +++ + + + + V Sbjct: 11 VQNKEQGQRLDAFVPVHCKNLSRNACARLIRQGLVTVD-KSVKKPSYVLKPGEMVSVTVP 69 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + +R + + P +V + V L Sbjct: 70 EPETADIVAQDMDLAILYEDRDIVAVNKPPGMVVHPAPGHSSNTLVNALLAHCKDLSGIG 129 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------------- 152 G L G + + L + + Sbjct: 130 GVQRPGIVHRLDKETSGVILAAKNDAAHAGLSEQLAQRRVEKFYLALAHGVIKEDTGVID 189 Query: 153 ----VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + +G + T+ + +V V ++ G+ +I+ Sbjct: 190 LPLARHPSDRKRMHVSTPAKGREALSL-WTVKERFLDATYVKVQIKTGRTHQIRVHLAAL 248 Query: 209 NWKVN 213 + V Sbjct: 249 HHPVI 253 >gi|84393596|ref|ZP_00992349.1| ribosomal large subunit pseudouridine synthase D [Vibrio splendidus 12B01] gi|84375805|gb|EAP92699.1| ribosomal large subunit pseudouridine synthase D [Vibrio splendidus 12B01] Length = 324 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 31/264 (11%), Positives = 80/264 (30%), Gaps = 35/264 (13%) Query: 5 NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + V+ + QR+ + +A SR ++ + +++V+G ++ + V+ + I + Sbjct: 9 DTVKSSQLGQRLDQAVAELFTDFSRSRIKEWLLDGKIQVDGEVITKPRTIVLGGEAIILQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + L + +V + + + L Sbjct: 69 AELADEERWEAQDIPLDIVYEDDDLLVINKPRDLVVHPGAGTPDGTILNALLFHYPQIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------- 155 RLD +T GL+++ L + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALAKRRITREYEAIAIGKMTAGGVVEKG 188 Query: 156 DKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K+ ++ + + + + L G+ +I+ + + Sbjct: 189 ISRHATKRTLMDVNELGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGPFQLGTLLAGSTREVS 237 L I+YG + G++ E++ Sbjct: 248 -LGDIAYGGRA--RIPKGASEELT 268 >gi|297170255|gb|ADI21292.1| pseudouridylate synthases, 23S RNA-specific [uncultured gamma proteobacterium HF0010_09F21] Length = 305 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 35/243 (14%), Positives = 76/243 (31%), Gaps = 35/243 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K NI + N R+ ++ SR V+++I Q V VN + +++ + D I Sbjct: 4 KTFNIDEANINK-RLDSFLSDILDDISRGLVQQLIEQGNVLVNDLEVKK-NYKLRLNDQI 61 Query: 61 EV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP---- 102 +V + P + + + V + + + L Sbjct: 62 QVILQFPEVIEDEPQNIPLDIVFENEDFYIINKQAGLTVHPGAGQKDNTLLNGLLHLNKK 121 Query: 103 -SIFSRVISVGRLDINTEGLLLLTNDGGLA------------RVLELPSTQWLRVYRVRF 149 SR V RLD T GL+++ + + Sbjct: 122 ACELSRCGIVHRLDKETSGLMVVAKNHSSQTILTNLIKDRAIERKYYALVHGNVISGGTI 181 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 +++ N L + +G + + + + + V L G+ +I+ + Sbjct: 182 DEPIERHPKNRLIFIVDQEGKESKT-HYLVKERYENFSLLDVKLETGRTHQIRVHLKHIG 240 Query: 210 WKV 212 + + Sbjct: 241 FPI 243 >gi|223938948|ref|ZP_03630834.1| hemolysin A [bacterium Ellin514] gi|223892375|gb|EEF58850.1| hemolysin A [bacterium Ellin514] Length = 252 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G+ SR + R I +V +N ++ + V D+I + Sbjct: 5 RLDQALVERGLCESREKARRAIMAGQVTINQQPAKKPSDRVKQGDNIAL 53 >gi|51474013|ref|YP_067770.1| pseudouridine synthase [Rickettsia typhi str. Wilmington] gi|51460325|gb|AAU04288.1| Pseudouridine synthase [Rickettsia typhi str. Wilmington] Length = 313 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 70/245 (28%), Gaps = 38/245 (15%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + + R+ K ++ SR +V++ I V++N +++ + V V D I Sbjct: 6 IPKELNNTRLDKALSSLLEKVSRNQVQKAIKNSCVQINDVIISDSDVLVKENDTILFSFK 65 Query: 63 DGVPLRK----------AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + L+ E L + +K G+ +T+ + L + +G Sbjct: 66 EPEELKITSANITLDIIYEDDDLIVINKAAGITVHPGAKHHDNTLVNALLHHTKNLSDIG 125 Query: 113 RLDIN--------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 + L++ A +L + +V R Sbjct: 126 SAERPGIVHRLDKETTGLMVVAKNNKAHMLLAKQIEQRQVIRKYKALVWGVINPLEGIIN 185 Query: 165 IVIQGICYGDMQVTLDTQKGSN----------------AWVTVGLREGKNREIKKVFEFF 208 I ++T+ G + V L G+ +I+ Sbjct: 186 NNIGRNRNNRKKMTILKYGGKKAVTHYKTLELFYGGTLSMVECKLSTGRTHQIRVQLSNL 245 Query: 209 NWKVN 213 V Sbjct: 246 KHSVV 250 >gi|52307928|gb|AAU38428.1| RluA protein [Mannheimia succiniciproducens MBEL55E] Length = 327 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 VQ + QR+ + +A SR ++ I + V +NG + V + +E+ Sbjct: 13 VQPHQMGQRLDQTLAELFPDYSRSRLKTWIEDELVLLNGKVANIPREKVYGGEQVEITVE 72 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + L + +V + + + L Sbjct: 73 IEDENRFEPQNIPLNIVYEDDDILVINKPKDFVVHPGAGNPNGTVLNALLYHYPQITEVP 132 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + + Sbjct: 133 RAGIVHRLDKDTTGLMVVAKTIPAQTQLVRALQKRKITREYEAIAFGIMTKGGTVDEPMS 192 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 193 RHPTKRTLMAVHPMGKPAVTHYRVMEHFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 250 >gi|113460513|ref|YP_718577.1| 23S rRNA pseudouridine synthase D [Haemophilus somnus 129PT] gi|112822556|gb|ABI24645.1| ribosomal large subunit pseudouridine synthase D [Haemophilus somnus 129PT] Length = 321 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 69/239 (28%), Gaps = 33/239 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +Q QR+ + +A SR ++ I VKVNG ++ A V + +E+ Sbjct: 7 IQPQHMGQRLDQTLAELFPDYSRSRLKTWIEGDLVKVNGEIINVARTKVYGGELVELCVE 66 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + L + +V + + + L V Sbjct: 67 IEEESRFEPENLPLNIVYEDEHILVINKPKDFVVHPGAGNQRGTVLNALLYHYPKIVEVP 126 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVD 154 RLD +T GL+++ L + + + + Sbjct: 127 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVQDLQKRKIIREYEAVAFGVMTQGGKVDQPMS 186 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + G + + + + + L G+ +I+ + + Sbjct: 187 RHPTKRTQMAVHPLGKPA-VTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHISHPLL 244 >gi|320093965|ref|ZP_08025793.1| ribosomal large subunit pseudouridine synthase D [Actinomyces sp. oral taxon 178 str. F0338] gi|319979099|gb|EFW10614.1| ribosomal large subunit pseudouridine synthase D [Actinomyces sp. oral taxon 178 str. F0338] Length = 304 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 31/234 (13%), Positives = 57/234 (24%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILL----------------ERAAVNV-- 54 +RV ++R SR + + AQ V +NG AV Sbjct: 15 GERVDAALSRMLGMSRSKCADLAAQGAVTLNGRTAGKSDRLGAADIIGIDMPDPAVKAVP 74 Query: 55 --------MSTDHIEVDGVPL-------RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 D + VD P+ E + G T P R + Sbjct: 75 VTGMDILYDDEDIVVVD-KPVGVAAHTGPGWEGPTVLGNLAAAGYRITTHGPPERQGIVH 133 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 L S + V + ++ + + + +V L + + Sbjct: 134 RLDVGTSGAMMVAKSELAYSVMKRAFKERTVTKVYHAVVAGHLDPASGTIDAPIGRHPSR 193 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + I G + L G+ +I+ Sbjct: 194 EWRMAV-IDGGKRAITHYDTLEMMAGACLAEIHLETGRTHQIRVHMAAVGHPCV 246 >gi|227873687|ref|ZP_03991921.1| hemolysin A [Oribacterium sinus F0268] gi|227840476|gb|EEJ50872.1| hemolysin A [Oribacterium sinus F0268] Length = 275 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 20/157 (12%), Positives = 40/157 (25%), Gaps = 1/157 (0%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ ++ G+ SR + +R I V VNG ++A + I V G L Sbjct: 4 KKERLDVLLVERGLMESREKAKRAIMAGLVFVNGEKEDKAGSSFPEEAEILVKGKALPYV 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L L + + + + + + Sbjct: 64 SRGGLKLEKALKSFPISLENRVCMDIGASTGGFTDCMLQNGAVEVYAVDVGHGQLDWKLR 123 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + Y +K + + Sbjct: 124 NDERVHSMEKCNIRYVEEEDILALGEKPSFFSIDVSF 160 >gi|223043737|ref|ZP_03613780.1| YlmH protein [Staphylococcus capitis SK14] gi|222442834|gb|EEE48936.1| YlmH protein [Staphylococcus capitis SK14] Length = 262 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 27/60 (45%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ V+ SR +++I ++RVKVN +++ + D + + G Sbjct: 176 KIQSTTVSAMRLDVVLKDMIHKSRNIAKQLIEKKRVKVNHTIIDTPDFQLEQNDLLSIQG 235 >gi|332359530|gb|EGJ37349.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK1056] Length = 226 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 117 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 173 >gi|284036309|ref|YP_003386239.1| pseudouridine synthase [Spirosoma linguale DSM 74] gi|283815602|gb|ADB37440.1| pseudouridine synthase, RluA family [Spirosoma linguale DSM 74] Length = 348 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 36/248 (14%), Positives = 75/248 (30%), Gaps = 41/248 (16%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +V + + R+ + + R A+R +++ I + V+VN +A+ + +D I V Sbjct: 19 RIVVDKGQSLLRIDRFLMDRLQNATRTKIQAGIDAESVRVNDKP-TKASYKIKPSDIITV 77 Query: 63 ---------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 D P + + L + +V + V + + Sbjct: 78 SLPHPPRETDLKPENIPINIVFEDDDLLVINKPAGMVVHPAHGNWDGTLVNALVYHFQNL 137 Query: 108 VIS---------VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 S V R+D +T GL+++ L + + Sbjct: 138 PTSRHGEVRPGLVHRIDKDTSGLMVIAKTEFAMTYLARQFFEHTIERTYNALTWGVPNPQ 197 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSN---------------AWVTVGLREGKNREIKK 203 G + + I +Q D + A V L G+ +I+ Sbjct: 198 IGTITGFIGRSIKDRKVQAIYDDESKGKWAVTHYTTLEDLGYVALVECKLETGRTHQIRA 257 Query: 204 VFEFFNWK 211 F+ Sbjct: 258 HFKHIGNP 265 >gi|261337851|ref|ZP_05965735.1| cytotoxin/hemolysin [Bifidobacterium gallicum DSM 20093] gi|270277318|gb|EFA23172.1| cytotoxin/hemolysin [Bifidobacterium gallicum DSM 20093] Length = 285 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + + R G+ SR +R+I + RV V+G + +++ V I VD Sbjct: 30 RLDQALVRRGLVQSRSRAQRLIDEGRVFVDGKCVSKSSSKVDGAADIRVD 79 >gi|269114816|ref|YP_003302579.1| ribosomal large subunit pseudouridine synthase C [Mycoplasma hominis] gi|268322441|emb|CAX37176.1| Ribosomal large subunit pseudouridine synthaseC [Mycoplasma hominis ATCC 23114] Length = 278 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 39/246 (15%), Positives = 83/246 (33%), Gaps = 34/246 (13%) Query: 5 NIVQENFTPQR-VSKVI---ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 N + R + K + SR +ER+ ++ +KVN I + V D I Sbjct: 3 NFKAKKDDEGRILFKYLVKVCDNVPISR--IERLFREKDIKVNNIRVSDKQYKVKEGDLI 60 Query: 61 EVDG------------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF-DNL 101 + G + + + + I + + + D + + + Sbjct: 61 SIYGLIETSKHIDNKANTNINFKVIYEDKNLLIIDKAPNIAMHSEENCLDDQVLKYLNFK 120 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG-----QVDQD 156 R S+GR+D T GL++ + E ++ ++Y+ + Sbjct: 121 KVSSFRPASIGRIDKKTSGLVVYAKNYKTLVEFENKQNKFDKIYQFVSDFDEDVLDITVR 180 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 +K +I +G T+ ++G+ + + GK +I+ + + L Sbjct: 181 LKKDIKNEKMIVDNNFGVKAQTIFYKEGNRKFAKII--TGKKHQIRATLAYLKTPI--LG 236 Query: 217 RISYGP 222 I YG Sbjct: 237 DIKYGG 242 >gi|158320638|ref|YP_001513145.1| hemolysin A [Alkaliphilus oremlandii OhILAs] gi|158140837|gb|ABW19149.1| hemolysin A [Alkaliphilus oremlandii OhILAs] Length = 268 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ V+ G SR + + I V V+ +++ V ++ V G + Sbjct: 5 ERLDVVLVEKGFFDSREKAKGAIMAGIVFVDNEKIDKPGTKVKKNGNVVVKGNLIPY 61 >gi|73541038|ref|YP_295558.1| ribosomal large subunit pseudouridine synthase D [Ralstonia eutropha JMP134] gi|72118451|gb|AAZ60714.1| ribosomal large subunit pseudouridine synthase D [Ralstonia eutropha JMP134] Length = 403 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 37/239 (15%), Positives = 67/239 (28%), Gaps = 39/239 (16%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 +R+ K++AR SR +++ I V+V+G + R V + IEV Sbjct: 68 GERLDKLLARHFSEFSRSRLQQWIESGAVRVDGEV-RRPRDAVQMGNRIEVQPQAAPESQ 126 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISV 111 + + L + +V + + + L R V Sbjct: 127 AFAPEDVALDVVYEDDALLVIDKPAGLVVHPAAGNWSGTVLNGLLHRDPTAAALPRAGIV 186 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-GI 170 RLD T GL+++ L + + I Sbjct: 187 HRLDKETSGLMVVARTLTAQTDLVRQLQARTVKRTYLALVWGRIYEEGTIDAPIGRDPRE 246 Query: 171 CYGDMQVTLDTQKGSN----------------AWVTVGLREGKNREIKKVFEFFNWKVN 213 V ++ K S + V L G+ +I+ FE + Sbjct: 247 RTRMAIVHTNSGKPSRTHFRTLATVPLGRSFVSMVRCQLETGRTHQIRVHFESIGHPLV 305 >gi|332877311|ref|ZP_08445059.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon 329 str. F0087] gi|332684694|gb|EGJ57543.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon 329 str. F0087] Length = 362 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 62/245 (25%), Gaps = 42/245 (17%) Query: 8 QENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI------ 60 P R+ K + SR ++R Q+ + VNG ++ + V D I Sbjct: 39 DSGQKPMRIDKFLMEHLYNTSRNRLQRAAEQEFILVNGRPVKS-SYKVKPLDEIVILLDR 97 Query: 61 -EVDGVPLRKAERTRLWLY--------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + D + + + +V + V + Sbjct: 98 PKYDNEIIAEDIPLDIVYEDEDLMVVDKPAGLVVHPGCGNYTGTLVNAIAWHLKDNPDYD 157 Query: 112 ---------GRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRVRF 149 R+D +T GLL++ + + R Sbjct: 158 PNDPTVGLVHRIDKDTSGLLVVAKNADAKTHLGKQFFNKTTKRLYNALVWGNFQEEEGRI 217 Query: 150 HGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 G + + + ++ + + + V L G+ +I+ + Sbjct: 218 EGNIARHPKDRMQMAVFPPDSEIGKHAVTHYRVLENFNYVTLVECRLETGRTHQIRAHMK 277 Query: 207 FFNWK 211 Sbjct: 278 HIGHP 282 >gi|302876506|ref|YP_003845139.1| 30S ribosomal protein S4 [Clostridium cellulovorans 743B] gi|307687178|ref|ZP_07629624.1| 30S ribosomal protein S4 [Clostridium cellulovorans 743B] gi|302579363|gb|ADL53375.1| ribosomal protein S4 [Clostridium cellulovorans 743B] Length = 206 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G SR E +++ VNG ++ + V + D I V Sbjct: 98 MRLDNVIYRLGYGNSRNEARQLVTHGHFLVNGKKVDIPSYVVKAGDVITV 147 >gi|205373291|ref|ZP_03226095.1| YlyB [Bacillus coahuilensis m4-4] Length = 301 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 33/245 (13%), Positives = 73/245 (29%), Gaps = 36/245 (14%) Query: 4 KNIVQENFTPQRVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ V + +R+ KV++ SR +V++ I V VN +R ++D I + Sbjct: 5 EHTVTQEQVGERIDKVVSTINSDWSRSQVQQWIKDGHVLVNMEQ-KRTNYKSQASDVITI 63 Query: 63 --------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 D + ++ + + +V + V + Sbjct: 64 EVPEAEVLDVEAEDLNLDVYYEDQDVIVVNKPKGMVVHPAPGHYSGTLVNGLMHHCKDLS 123 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 R V R+D +T GLL++ + L + + Sbjct: 124 GINGVMRPGIVHRIDKDTSGLLMVAKNDVAHEHLVNQLVEKSVTRKYMALVHGVIQHDYG 183 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTV-------GLRE-----GKNREIKKVFEFF 208 + + +D K + V L E G+ +I+ ++ Sbjct: 184 TIDAPIGRDSKDRQSMTIVDQGKHAVTHFEVKDRFEQYTLVECQLETGRTHQIRVHMKYI 243 Query: 209 NWKVN 213 + + Sbjct: 244 GFPLV 248 >gi|224542059|ref|ZP_03682598.1| hypothetical protein CATMIT_01233 [Catenibacterium mitsuokai DSM 15897] gi|224524992|gb|EEF94097.1| hypothetical protein CATMIT_01233 [Catenibacterium mitsuokai DSM 15897] Length = 276 Score = 54.0 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 27/203 (13%), Positives = 64/203 (31%), Gaps = 17/203 (8%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-----PLRKAERTRLWLYHKPI 82 R + + ++ + V+VNG + A + D +EV L + + + Sbjct: 22 RNDCKNLLKYKSVQVNGEVQTYHAFELHPGDEVEVGKKTNLPFELLYEDDDMIVINKPSG 81 Query: 83 GLVTTHSDPDGRSTVFDNLPSI---FSRVISVGRLDINTEGLLLLTNDGGLARVLELPST 139 + + ++ + + + V RLD +T G+L+ + L + L Sbjct: 82 LVSEETRNNKYQTAFYMVMEYCRKKRQQCYLVHRLDQDTSGVLMFVKNKKLYQELTHNWN 141 Query: 140 QWL----RVYRVRFHGQVDQDKLNLLKKGIVIQGICYG-----DMQVTLDTQKGSNAWVT 190 +++ V + + N L + ++ + Sbjct: 142 KYVKTRGYVAILEGQCRKSGTIKNHLVEDKQLKMRIAKEGQLAITHYKPLEVSKDYTMME 201 Query: 191 VGLREGKNREIKKVFEFFNWKVN 213 V L G+ +I+ N + Sbjct: 202 VFLDTGRKNQIRVHMASLNHPII 224 >gi|308176709|ref|YP_003916115.1| S4 domain-containing protein [Arthrobacter arilaitensis Re117] gi|307744172|emb|CBT75144.1| S4 domain-containing protein [Arthrobacter arilaitensis Re117] Length = 76 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 9/68 (13%) Query: 11 FTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ +++ A GI + MI+ V VNG + R + D + V+G Sbjct: 13 DESIRLGQLLKLASLAEDGI----HAKEMISDGIVTVNGQVDTRRGAQIRPGDVVCVNGE 68 Query: 66 PLRKAERT 73 ++ + Sbjct: 69 CVKVTAQQ 76 >gi|167758166|ref|ZP_02430293.1| hypothetical protein CLOSCI_00504 [Clostridium scindens ATCC 35704] gi|167664063|gb|EDS08193.1| hypothetical protein CLOSCI_00504 [Clostridium scindens ATCC 35704] Length = 251 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 23/50 (46%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V++ A SR ++ +I RV VNG L+ + D + V Sbjct: 174 SVRLDTVLSLAYPLSRSKITGLIEGARVFVNGKLVTSNGYRLKEGDILSV 223 >gi|308235716|ref|ZP_07666453.1| pseudouridylate synthase [Gardnerella vaginalis ATCC 14018] Length = 50 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 16/41 (39%), Positives = 25/41 (60%) Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +++F + V RL+R GP +LG L AGS R +S+ +R Sbjct: 2 RRIFGAVGYPVKRLVRTQIGPIKLGDLKAGSYRVLSQTEVR 42 >gi|123452968|ref|XP_001314542.1| ribosomal large subunit pseudouridine synthases [Trichomonas vaginalis G3] gi|121897072|gb|EAY02204.1| ribosomal large subunit pseudouridine synthases, putative [Trichomonas vaginalis G3] Length = 353 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 34/262 (12%), Positives = 70/262 (26%), Gaps = 31/262 (11%) Query: 25 IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---------VDGVP-LRKAERTR 74 +ASR E E I ++ VNG + + D I+ V P L+ E Sbjct: 63 VASREEYEEKIRNGKIIVNGRKIPV-DYRIGPLDSIKHICTRIEAPVFNKPLLKLGETDN 121 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL--LLTNDGGLAR 132 Y KP + +++ LP V + R+ Sbjct: 122 YVAYLKPASVTVNTVGGYFYNSMVKRLPPHLHVVHRLDRVTSGIIVFAKNKAAATNFNQY 181 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGD------MQVTLDTQKGSN 186 ++ ++ + + + L + L G Sbjct: 182 LVGEKVSKTYIARVIGRFPKGEIICDQPLGTDFNLHRTVVTPTGKPSKTIFKLLKTNGKE 241 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLG 246 + V G+ +I+ ++ + + + G REV K +++ L Sbjct: 242 SIVEAHPITGRTHQIRCHLQYLGYPIT------------NDEMYGGKREVYTKEMKDALK 289 Query: 247 PHLLEEAQVNLDAPIYSSETLV 268 ++ + Sbjct: 290 KAEKLGLWPCDYCQDKTNPRVE 311 >gi|159899422|ref|YP_001545669.1| RluA family pseudouridine synthase [Herpetosiphon aurantiacus ATCC 23779] gi|159892461|gb|ABX05541.1| pseudouridine synthase, RluA family [Herpetosiphon aurantiacus ATCC 23779] Length = 323 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 37/240 (15%), Positives = 76/240 (31%), Gaps = 37/240 (15%) Query: 9 ENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 E QR+ +++ A SR V+++I ++VNG + A++ V D IE+ Sbjct: 14 EAEAGQRLDRLVSANMPDLSRTYVQQLITDLHIRVNGRGAK-ASLPVQIGDQIEIFLPLA 72 Query: 63 -------DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 + +PL + L + +V + V L S Sbjct: 73 KPTDIVAEDLPLDVIYEDADVLLVNKAAGMVVHPAPGHTTGTLVNALLYRYPHLTTSGDL 132 Query: 114 LD-----------------INTEGLLLLTNDGG---LARVLELPSTQWLRVYRVRFHGQV 153 + + ++LT + + R + Sbjct: 133 RPGIVHRLDKETSGLLVIAKHDQARMMLTEQQMARRMHKKYLALVEGHWREPTGTIDAPI 192 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ N L+ ++ +G Y + G + V L G+ +I+ F + N + Sbjct: 193 GRNPNNRLRMMVMPEG-RYAVTHYQVLEVLGPYSLVRATLETGRTHQIRVHFSYRNRPIL 251 >gi|314933367|ref|ZP_07840732.1| YlmH protein [Staphylococcus caprae C87] gi|313653517|gb|EFS17274.1| YlmH protein [Staphylococcus caprae C87] Length = 262 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 27/60 (45%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ V+ SR +++I ++RVKVN +++ + D + + G Sbjct: 176 KIHSTTVSAMRLDVVLKDMIHKSRNIAKQLIEKKRVKVNHTIIDTPDFQLEQNDLLSIQG 235 >gi|163758760|ref|ZP_02165847.1| putative ribosomal large subunit pseudouridine synthase protein [Hoeflea phototrophica DFL-43] gi|162284050|gb|EDQ34334.1| putative ribosomal large subunit pseudouridine synthase protein [Hoeflea phototrophica DFL-43] Length = 339 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 2/50 (4%) Query: 15 RVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +A A SR V+ +I V VNG +A + D I + Sbjct: 22 RLDAWLAEALAPGLSRSRVKALIEAGAVSVNGTPARQAKHKIKPGDEISL 71 >gi|86605450|ref|YP_474213.1| RluA family pseudouridine synthase [Synechococcus sp. JA-3-3Ab] gi|86553992|gb|ABC98950.1| pseudouridine synthase, RluA family [Synechococcus sp. JA-3-3Ab] Length = 310 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 29/245 (11%), Positives = 56/245 (22%), Gaps = 37/245 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E R+ + +A SR ++++I Q +V +NG + + D IEV Sbjct: 8 TVTEKQQGLRLDRGLAEQLPELSRSRLQQLIRQGQVWLNGQPCLDKDRPLQAGDQIEVRI 67 Query: 63 --------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + V L Sbjct: 68 PPATPTPLQPERIPLDILYEDEDLLVINKPRGLVVHPAPGHASGTLVHALLAHCPRLSGI 127 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF--------------------- 149 G L G L + Q L+ Sbjct: 128 NGEQRPGIVHRLDKDTTGALVIAKHDQAHQHLQAQIQAKTARRIYLGVVFGRPAQSQGTI 187 Query: 150 -HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + G+ + L G+ +I+ Sbjct: 188 SAPIGRHPVDRQKMAVVPPGQGRAAVTHWQVLERLGNYTLMQFELETGRTHQIRVHAAHL 247 Query: 209 NWKVN 213 + Sbjct: 248 RLPIV 252 >gi|154245928|ref|YP_001416886.1| RluA family pseudouridine synthase [Xanthobacter autotrophicus Py2] gi|154160013|gb|ABS67229.1| pseudouridine synthase, RluA family [Xanthobacter autotrophicus Py2] Length = 377 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 40/294 (13%), Positives = 75/294 (25%), Gaps = 65/294 (22%) Query: 7 VQENFTPQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH-- 59 + +R+ +V+AR A SR ++R++ + RV V+G ++ AA V + D Sbjct: 35 IAAEDAGERLDRVLARRLALEAPELSRTRIQRLVTEGRVSVSGRVVGDAAGRVNAADVYT 94 Query: 60 -------------------IEVDGVPLRKAERTRLWLYHKPIGLVTTH------------ 88 I + L ++ + H G + Sbjct: 95 LFLPPPEAAEPVAENLPLTIVFEDAHLVVIDKPAGLVVHPAPGHASGTLVNALLYHCGDS 154 Query: 89 ------------SDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + T + + G LA V + Sbjct: 155 LSGIGGVRRPGIVHRIDKDTSGLLVVAKSDLAHKGLAAQFADHGRTGPLERAYLAFVWGV 214 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM---------------QVTLDT 181 P + H Q L I + + + Sbjct: 215 PEAHGSVDAPIDRHPSHRQKMAVRLSGRNAITHWEVQEAFVGHGRTHLRNKGQVKGEVKM 274 Query: 182 QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTRE 235 ++G + + L G+ +I+ + G TLL RE Sbjct: 275 EEGVASLIECRLETGRTHQIRVHMAHVGHPLLGDEVYGQGFRTKETLLPEDARE 328 >gi|295398656|ref|ZP_06808680.1| 30S ribosomal protein S4 [Aerococcus viridans ATCC 11563] gi|294973091|gb|EFG48894.1| 30S ribosomal protein S4 [Aerococcus viridans ATCC 11563] Length = 203 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ +++ + V+G ++ + V I V Sbjct: 93 QRLDNVVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSFRVQPGQVISV 142 >gi|119717276|ref|YP_924241.1| ribosomal large subunit pseudouridine synthase D [Nocardioides sp. JS614] gi|119537937|gb|ABL82554.1| ribosomal large subunit pseudouridine synthase D [Nocardioides sp. JS614] Length = 312 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 32/244 (13%), Positives = 61/244 (25%), Gaps = 39/244 (15%) Query: 7 VQENFTPQRVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHI----- 60 V E +RV +AR SR R E +IA V V+G + + + V+ + Sbjct: 12 VPEGLAGERVDAALARMFGLSRTRGAE-LIAAGNVLVDGAPVGK-SDRVLPGSTVAVTIP 69 Query: 61 -----------EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 V+G+ + + + + V G + V + F Sbjct: 70 VEADPLAVVPEVVEGIKILHDDDDIVVIDKPVGVAVHPSPGWSGPTVVGHLAGAGFRIST 129 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD------------- 156 S L + G + + L+ R Sbjct: 130 SGAPERQGIVQRLDVGTSGVMVICKSEHAYSVLKNAFRRRTVDKVYHALVQGHPDPLEGT 189 Query: 157 -------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 K V+ + + + + L G+ +I+ Sbjct: 190 IDAPIGRHPKADYKFAVMADGRHSVTHYETLEAHRFASLLEIHLETGRTHQIRVHMAALK 249 Query: 210 WKVN 213 Sbjct: 250 HPCV 253 >gi|291521873|emb|CBK80166.1| SSU ribosomal protein S4P [Coprococcus catus GD/7] Length = 197 Score = 54.0 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +I R G A +R+E +++ + V VNG L+ + V D +E+ Sbjct: 88 RLDNIIFRLGFARTRKEARQIVDHKHVSVNGKLVNIPSYQVKPGDVVEI 136 >gi|167951161|ref|ZP_02538235.1| RNA-binding S4 domain protein [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 106 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 20/106 (18%), Positives = 44/106 (41%), Gaps = 1/106 (0%) Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGT-LLAGSTREVSKKILREQLGPHLLEE 252 EG+ RE+++++E +V+RL R+ YG L + L G R ++ + + L L Sbjct: 1 MEGRQREVRRLWEAIGVQVSRLKRVRYGSVILESALKVGRWRALTHTEVNQLLEISGLPP 60 Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + A + + P + ++++ S + + Sbjct: 61 EKRQPPARAKHYRSDRQQAPRKQGQRAKSVGQLREQSMGDAQGNPR 106 >gi|161510965|ref|YP_089013.2| 23S rRNA pseudouridine synthase D [Mannheimia succiniciproducens MBEL55E] Length = 324 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 VQ + QR+ + +A SR ++ I + V +NG + V + +E+ Sbjct: 10 VQPHQMGQRLDQTLAELFPDYSRSRLKTWIEDELVLLNGKVANIPREKVYGGEQVEITVE 69 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + L + +V + + + L Sbjct: 70 IEDENRFEPQNIPLNIVYEDDDILVINKPKDFVVHPGAGNPNGTVLNALLYHYPQITEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + + Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTQLVRALQKRKITREYEAIAFGIMTKGGTVDEPMS 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHPTKRTLMAVHPMGKPAVTHYRVMEHFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|227544604|ref|ZP_03974653.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri CF48-3A] gi|300910266|ref|ZP_07127726.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri SD2112] gi|227185411|gb|EEI65482.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri CF48-3A] gi|300892914|gb|EFK86274.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus reuteri SD2112] Length = 303 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 25/232 (10%), Positives = 63/232 (27%), Gaps = 37/232 (15%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ K + SR +++ I V VNG ++ ++ DH+++ Sbjct: 16 RIDKQLGHHFDQFSRSQIQHWIEDGHVLVNGEQVK-PKYKLLVGDHVQIIPEEPQKIDLT 74 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI---------- 109 + + + + +V + V L I Sbjct: 75 PEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPNHTLVNALLYHSPLSTINGEFRPGIVH 134 Query: 110 ----------SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 V + D+ L R ++ + + + + Sbjct: 135 RIDKDTSGLLMVAKNDMAHRSLTAQLKAKTNKREYVALVHGVIKEDKGTIDAPLGRSLKD 194 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K+ +V+ + + + + V L G+ +I+ ++ Sbjct: 195 RKKQAVVV-DGRHAITHFNVLERFKNYTLVACQLETGRTHQIRVHMKYIGHP 245 >gi|332365060|gb|EGJ42825.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK355] Length = 245 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 136 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 192 >gi|319935762|ref|ZP_08010192.1| hypothetical protein HMPREF9488_01023 [Coprobacillus sp. 29_1] gi|319809311|gb|EFW05752.1| hypothetical protein HMPREF9488_01023 [Coprobacillus sp. 29_1] Length = 277 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 38/237 (16%), Positives = 70/237 (29%), Gaps = 27/237 (11%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQ-QRVKVNGI------LLERAAVNV 54 K + IV + R+ A SR+ ++I Q + VNG +L V Sbjct: 3 KRELIVTKENHQLRIDDF-AYQHHISRK-ALKVIKQCGDILVNGEHQTVRYVLNEGDYVV 60 Query: 55 ----MSTDHIEVDGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + I + VP + + L + ++ S Sbjct: 61 FIYPPEDNQIIPENVPLYIVYEDDFLLIVDKPKGMACFPTRSHPCQTLANALSYYYHSIE 120 Query: 109 -----ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------D 156 V RLD +T GL+++ + ++ R Y+ GQV+Q Sbjct: 121 LDSTVHFVNRLDKDTAGLMMIAKYREIHDMMCQNIQHIYRRYQAHVEGQVEQGVIDLPIH 180 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K + I+ + + V L G+ +I+ + Sbjct: 181 KDGQNMRRIIDENGKDSRTYYRCLEYSDGISRVECILETGRTHQIRVHMAAIGHPLI 237 >gi|294669553|ref|ZP_06734620.1| hypothetical protein NEIELOOT_01452 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308466|gb|EFE49709.1| hypothetical protein NEIELOOT_01452 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 372 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 28/229 (12%), Positives = 68/229 (29%), Gaps = 32/229 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLE---------RAAVNVMST------- 57 R+ +A+ SR + I + V VNG + + AV + + Sbjct: 40 RLDAALAKLLPDYSRSRLADWIKEGAVSVNGKPAKPKDKLIGGEKLAVQIRESNETLAFT 99 Query: 58 ------DHIEVDGVPLRKAERTRLWLYHKPIGLVTT--HSDPDGRSTVFDNLPSIFSRVI 109 D I D + + L ++ T + + + + + Sbjct: 100 PEAMDLDIIYEDDSVIVLNKPAGLVVHPAAGNWSGTLLNGLLAHCPALQNIPRAGIVHRL 159 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR-------VYRVRFHGQVDQDKLNLLK 162 + L + + ++ + R + + Q+ +D N +K Sbjct: 160 DKDTSGLMVVAKTLPAQNHLVQQLQTRTVKRIYRAVADGIVPFDGKIETQIGRDPHNRVK 219 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +V G V + + +++++ L G+ +I+ Sbjct: 220 MAVVKFGGKEAVTHVKVLERYQAHSYIECALETGRTHQIRVHMREAKHP 268 >gi|296140085|ref|YP_003647328.1| hemolysin A [Tsukamurella paurometabola DSM 20162] gi|296028219|gb|ADG78989.1| hemolysin A [Tsukamurella paurometabola DSM 20162] Length = 271 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G+A SR + +I RV VN + +AA + D + V Sbjct: 5 VRLDAELVRRGMARSREQARELIESGRVTVNKQVARKAANQIDPADPVHV 54 >gi|271964386|ref|YP_003338582.1| RluA family pseudouridine synthase [Streptosporangium roseum DSM 43021] gi|270507561|gb|ACZ85839.1| RluA family pseudouridine synthase [Streptosporangium roseum DSM 43021] Length = 309 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 23/244 (9%), Positives = 56/244 (22%), Gaps = 39/244 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIE--- 61 V + +R+ ++R SR +I V V+G + + V + + Sbjct: 9 VPDGLEGERLDAALSRLFGFSRTRAAELIVSGDVLVDGSPAAK-SDRVHAGAWLDVTLPP 67 Query: 62 -----------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 V G+ + + + + + G + + L + S Sbjct: 68 PPTAPMPVAEPVPGMKIVYEDDDIVVVNKPIGVAAHPTTGWTGPTVIGGLLGTGHRVATS 127 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 L G + + L+ L ++G Sbjct: 128 GAAERQGIVHRLDANTTGAMVVAKSEHAYSHLKRAFKERTVDKRYHALVQ-GHPDPLRGT 186 Query: 171 CYGDMQVTLDTQK---------------------GSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + + L G+ +I+ Sbjct: 187 VDAPIDRHPSGDGRFAVVAGGKESVTHYDTIEAFRAASLLDIKLETGRTHQIRVHMSALR 246 Query: 210 WKVN 213 Sbjct: 247 HPCV 250 >gi|212212777|ref|YP_002303713.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii CbuG_Q212] gi|212011187|gb|ACJ18568.1| ribosomal large subunit pseudouridine synthase D [Coxiella burnetii CbuG_Q212] Length = 327 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 73/239 (30%), Gaps = 31/239 (12%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I+ R+ +V+A+ SR +++ I VKV+GI +A V IE+ Sbjct: 13 KKIIPPELAGARLDQVLAKLFPDYSRSQLQNWIRGGHVKVDGIQKTKAREKVWENQFIEI 72 Query: 63 DGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + + + T L + +V + ++ + L S Sbjct: 73 EAQLEPNERWVPQPIPLDVIYEDETLLVINKPVGLIVHPGAGVRDQTLINALLHYDPSLS 132 Query: 109 ISVGRLDIN----TEGLLLLTNDGGLARVLELPSTQWLRVYRV------------RFHGQ 152 + I+ LLL + + + + ++ R R Sbjct: 133 VVPRAGIIHRLDKDTSGLLLIARTLASHHALIKAMKARQIVREYEAIVKGVLISGRTIEA 192 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V++ + + ++ + V L G+ +I+ + Sbjct: 193 PVGRHPIHRTRMAVVEFGRPAITHFRIIKRYRAHTHIRVQLETGRTHQIRVHMAHIHHP 251 >gi|325298577|ref|YP_004258494.1| pseudouridine synthase, RluA family [Bacteroides salanitronis DSM 18170] gi|324318130|gb|ADY36021.1| pseudouridine synthase, RluA family [Bacteroides salanitronis DSM 18170] Length = 360 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 63/245 (25%), Gaps = 41/245 (16%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V + P R+ K + + ASR ++ V NG ++ + V D + V Sbjct: 36 TVDKGQAPVRIDKYLFERIVNASRNRIQTAADNGYVMANGKPVKS-SYKVKPLDVLTVMM 94 Query: 63 -----------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +PL E L + +KP GLV + T+ + + V + Sbjct: 95 DRPRYENDIIPEDIPLDIVYEDDDLMVVNKPAGLVVHPGCGNYHGTLVNAIAWHLRNVPT 154 Query: 111 VGRLDIN-------------------------TEGLLLLTNDGGLARVLELPSTQWLRVY 145 D G+ + Sbjct: 155 YDPNDPQVGLVHRIDKDTSGLLVIAKTPDAKTHLGMQFYNKTTKREYNALVWGIIDEDEG 214 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + + + + + + G V L G+ +I+ Sbjct: 215 TIEGNIGRNPKDRMQMAVMSDPTQGKHAVTHYQVLERLGYVTLVKCVLETGRTHQIRVHM 274 Query: 206 EFFNW 210 + Sbjct: 275 KHIGH 279 >gi|146300375|ref|YP_001194966.1| RluA family pseudouridine synthase [Flavobacterium johnsoniae UW101] gi|146154793|gb|ABQ05647.1| ribosomal large subunit pseudouridine synthase D [Flavobacterium johnsoniae UW101] Length = 347 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 36/258 (13%), Positives = 75/258 (29%), Gaps = 40/258 (15%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 R+ K + A+R +++ + VN I ++ V D I + Sbjct: 31 RIDKYLMYLIPNATRNKIQNAATDGNIFVNDIPVKS-NYKVKPFDVITIMLSHPPFENHI 89 Query: 63 --DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-------- 111 + +PL E L L +K G+V + T+ + L F + Sbjct: 90 LPEDIPLNIVYEDDALLLINKEPGMVVHPGHGNYTGTLVNALAHHFDNLPMNSSERPGLV 149 Query: 112 GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRFHGQVDQDKL 158 R+D +T GLL++ L + G + + Sbjct: 150 HRIDKDTSGLLVVAKTEAAMTHLAKQFEAKTTEREYIALVWGNVAAESGTIEGNLARHLK 209 Query: 159 NLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + ++ + + + G ++ L G+ +I+ + + Sbjct: 210 DRMQMAVFADPEIGKPAITHYKVLERFGYVTLISCKLETGRTHQIRAHMKHIGHPLFNDE 269 Query: 217 RISYGPFQLGTLLAGSTR 234 R G L + Sbjct: 270 RYG-GHLILKGTTFTKYK 286 >gi|307154024|ref|YP_003889408.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7822] gi|306984252|gb|ADN16133.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7822] Length = 305 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 26/240 (10%), Positives = 61/240 (25%), Gaps = 44/240 (18%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--------------- 58 R+ +A+ SR ++ +I Q +++NG + V D Sbjct: 13 RLDVWLAQKIPDLSRSRLQNLIEQGNLRLNGKICTDKKTKVQQGDLLYLFIPPVEPLNLQ 72 Query: 59 --HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 I +D + + + + +V + + V L + G Sbjct: 73 PEEIPLD---VLYEDEQLIIINKPAGLVVHPAPGHEKGTLVNALLSHCSNLAGIGGVQRP 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------------- 155 L G L + Q L+ + + Sbjct: 130 GIVHRLDKDTTGALVIAKTDYAHQHLQAQLKAKTARREYLGVVYGVPKTGSGTINLPIGR 189 Query: 156 --DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + +G + + G+ + L G+ +I+ + Sbjct: 190 HPIERKKMAVVPLEKGGRVAITHWEIRERLGNYTLIHFRLETGRTHQIRVHSTAMGHPIV 249 >gi|315658522|ref|ZP_07911394.1| S4 domain-containing protein YlmH [Staphylococcus lugdunensis M23590] gi|315496851|gb|EFU85174.1| S4 domain-containing protein YlmH [Staphylococcus lugdunensis M23590] Length = 264 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 28/60 (46%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ V+ SR +++I ++RVKVN ++E + + D + + G Sbjct: 178 KIQHTTVSAMRLDVVLKDMIHKSRSIAKQLIEKKRVKVNHTIVEASDFQLEPNDLLSIQG 237 >gi|154504401|ref|ZP_02041139.1| hypothetical protein RUMGNA_01905 [Ruminococcus gnavus ATCC 29149] gi|153795330|gb|EDN77750.1| hypothetical protein RUMGNA_01905 [Ruminococcus gnavus ATCC 29149] Length = 262 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 15/52 (28%), Positives = 26/52 (50%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ A ASR ++ +I +V VNG L+ + + D I V G Sbjct: 185 SVRLDSLLSLAFSASRTKLSGLIEGAKVFVNGKLITTNSYQLKENDVISVRG 236 >gi|55980515|ref|YP_143812.1| hemolysin [Thermus thermophilus HB8] gi|55771928|dbj|BAD70369.1| hemolysin [Thermus thermophilus HB8] Length = 235 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 28/50 (56%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G+ SR + +R+I + +V+V G ++++ A V +E+ Sbjct: 1 MRLDRYLVERGLVESREKAKRLIQEGKVRVEGKVVQKPAHPVPEGARVEL 50 >gi|328544921|ref|YP_004305030.1| ribosomal RNA large subunit methyltransferase J [polymorphum gilvum SL003B-26A1] gi|326414663|gb|ADZ71726.1| Ribosomal RNA large subunit methyltransferase J [Polymorphum gilvum SL003B-26A1] Length = 247 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 12/55 (21%), Positives = 25/55 (45%), Gaps = 1/55 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +R+ + + G+A SR I + V V+G + ++ + V + I +D Sbjct: 2 SDKKRLDQRLVELGLAPSRARARDAILRGTVTVDGRIADKPGLAVGPSAAIAIDD 56 >gi|289551026|ref|YP_003471930.1| S4-like RNA binding domain-containing hypothetical protein [Staphylococcus lugdunensis HKU09-01] gi|289180558|gb|ADC87803.1| S4-like RNA binding domain-containing hypothetical protein [Staphylococcus lugdunensis HKU09-01] Length = 264 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 28/60 (46%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ V+ SR +++I ++RVKVN ++E + + D + + G Sbjct: 178 KIQHTTVSAMRLDVVLKDMIHKSRSIAKQLIEKKRVKVNHTIVEASDFQLEPNDLLSIQG 237 >gi|218247630|ref|YP_002373001.1| photosystem II S4 domain-containing protein [Cyanothece sp. PCC 8801] gi|257061035|ref|YP_003138923.1| photosystem II S4 domain protein [Cyanothece sp. PCC 8802] gi|218168108|gb|ACK66845.1| photosystem II S4 domain protein [Cyanothece sp. PCC 8801] gi|256591201|gb|ACV02088.1| photosystem II S4 domain protein [Cyanothece sp. PCC 8802] Length = 259 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 3/65 (4%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K K + R+ IA AG SR ++ I+ V+VN + +A+ NV S D I Sbjct: 173 KTKE-MNTVEASMRLD-AIASAGFGISRSKMAEAISAGDVRVNWKEITQASYNVQSGDLI 230 Query: 61 EVDGV 65 G Sbjct: 231 TFRGK 235 >gi|237756998|ref|ZP_04585455.1| hemolysin A [Sulfurihydrogenibium yellowstonense SS-5] gi|237690841|gb|EEP59992.1| hemolysin A [Sulfurihydrogenibium yellowstonense SS-5] Length = 268 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +R+ K++ G+ SR + + +I V VN +++ V + +I + Sbjct: 2 KAQKERIDKLLVDKGLVESREKAQVLIMSGVVFVNNQKIDKPGTKVPTDANIHIKEK 58 >gi|326773128|ref|ZP_08232411.1| cytotoxin/hemolysin [Actinomyces viscosus C505] gi|326636358|gb|EGE37261.1| cytotoxin/hemolysin [Actinomyces viscosus C505] Length = 290 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G+A SR +IA V ++G ++ + A V IE+ Sbjct: 5 IRIDSELVRRGLARSRTHAATLIADGHVTLDGEVVTKPARQVNPAQAIEI 54 >gi|210612739|ref|ZP_03289454.1| hypothetical protein CLONEX_01656 [Clostridium nexile DSM 1787] gi|210151432|gb|EEA82440.1| hypothetical protein CLONEX_01656 [Clostridium nexile DSM 1787] Length = 264 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ ++A A +SR ++ I +V VNG L+ + D I V G Sbjct: 189 RLDSLLALAFSSSRTKLVPYIENGKVFVNGKLITSNGYQIKQDDIISVRG 238 >gi|188996824|ref|YP_001931075.1| hemolysin A [Sulfurihydrogenibium sp. YO3AOP1] gi|188931891|gb|ACD66521.1| hemolysin A [Sulfurihydrogenibium sp. YO3AOP1] Length = 268 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 11/54 (20%), Positives = 25/54 (46%), Gaps = 1/54 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ K++ G+ SR + + +I V VN +++ V + +I + Sbjct: 2 KVQKERIDKLLVDKGLVESREKAQALIMSGVVFVNNQKIDKPGTKVPTDANIYI 55 >gi|188580214|ref|YP_001923659.1| pseudouridine synthase, RluA family [Methylobacterium populi BJ001] gi|179343712|gb|ACB79124.1| pseudouridine synthase, RluA family [Methylobacterium populi BJ001] Length = 345 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 29/59 (49%), Gaps = 1/59 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ E P+R+ +V+ARA SR ++ ++ V+ +G ++ A V + I Sbjct: 24 RSHVRDEGSVPERLDRVLARAFDDLSRARLQALVRDGLVQCDGAVVRDPARKVGAGSRI 82 >gi|154488635|ref|ZP_02029484.1| hypothetical protein BIFADO_01942 [Bifidobacterium adolescentis L2-32] gi|154082772|gb|EDN81817.1| hypothetical protein BIFADO_01942 [Bifidobacterium adolescentis L2-32] Length = 238 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 14/37 (37%), Positives = 22/37 (59%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 SR + +R+IA +V VNG+ + +A+ V D I D Sbjct: 9 SRSKAQRLIADGKVSVNGVTVTKASAKVGGDDVIAAD 45 >gi|284052184|ref|ZP_06382394.1| RNA-binding S4 domain-containing protein [Arthrospira platensis str. Paraca] gi|291568948|dbj|BAI91220.1| hypothetical protein [Arthrospira platensis NIES-39] Length = 72 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 13/61 (21%), Positives = 27/61 (44%), Gaps = 1/61 (1%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V+ ++ K + R+G+ S + + I V VNG + R ++ D + +G Sbjct: 2 VVKVTEQNIKLDKFLKRSGLVQSGGQAKAFIQSGYVMVNGEIETRRGRKLIEGDRVTFNG 61 Query: 65 V 65 Sbjct: 62 E 62 >gi|217967342|ref|YP_002352848.1| RNA-binding S4 domain protein [Dictyoglomus turgidum DSM 6724] gi|217336441|gb|ACK42234.1| RNA-binding S4 domain protein [Dictyoglomus turgidum DSM 6724] Length = 259 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 13/61 (21%), Positives = 25/61 (40%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K I++ + +R+ + A SR +++ I V VNG + + D + Sbjct: 170 KATRIIRTTESSKRLDSIGGAALGISRSKMQTYIKAGVVTVNGKKVADTHYELEEGDVVI 229 Query: 62 V 62 V Sbjct: 230 V 230 >gi|160941043|ref|ZP_02088381.1| hypothetical protein CLOBOL_05936 [Clostridium bolteae ATCC BAA-613] gi|158435992|gb|EDP13759.1| hypothetical protein CLOBOL_05936 [Clostridium bolteae ATCC BAA-613] Length = 197 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 29/73 (39%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G+ +R+E +++ + + VNG + + V + D IEV Sbjct: 88 RLDNVLFRMGLGRTRKEARQIVDHKHILVNGKPVNIPSYRVKAGDVIEVKEKYKSAQRYK 147 Query: 74 RLWLYHKPIGLVT 86 + + Sbjct: 148 DVLEVTGGRMVPA 160 >gi|24379037|ref|NP_720992.1| hypothetical protein SMU.556 [Streptococcus mutans UA159] gi|24376932|gb|AAN58298.1|AE014900_6 conserved hypothetical protein [Streptococcus mutans UA159] Length = 263 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 15/58 (25%), Positives = 30/58 (51%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R+ K+IA SRR+ ++I ++VK+N ++ + + + D I V G Sbjct: 178 MNVLVSSMRLDKIIAAVLKLSRRKANQLIESEKVKLNYLVQPKVSQLIDIGDLISVRG 235 >gi|110639847|ref|YP_680057.1| ribosomal large subunit pseudouridine synthase D [Cytophaga hutchinsonii ATCC 33406] gi|110282528|gb|ABG60714.1| ribosomal large subunit pseudouridine synthase D [Cytophaga hutchinsonii ATCC 33406] Length = 348 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 33/237 (13%), Positives = 69/237 (29%), Gaps = 41/237 (17%) Query: 14 QRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ K + +R A+R ++ I VKVN +A+ V D I + Sbjct: 34 MRIDKFLMSRIQYATRSRIQYGIEIDSVKVNDKS-TKASYKVRPGDVITISLPHPPREDV 92 Query: 63 ---DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRS------TVFDNLPSIFSRVISV 111 + +P + + L + KP +V + F+NLP+ + I Sbjct: 93 LIPEDIPLDIVYEDDQILIVNKKPGMVVHPAHGNWTGTLVNALAYHFENLPTHVNGKIRP 152 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-KLNLLKKGIVIQGI 170 G + + L + + Q+ R + + G Sbjct: 153 GLIHRIDKDTSGLLVIAKTDYAMTFMAKQFADHSIERTYYAICWGVPDPKSGTIKNYLGR 212 Query: 171 CYGDMQVTLDTQKGSNAWVTVG-----------------LREGKNREIKKVFEFFNW 210 D ++ + + + + L G+ +I+ + Sbjct: 213 STKDRKLVTTYENEEDGKLAITHYKTLAAYHYVALIQCNLETGRTHQIRAHMKSIGH 269 >gi|302035761|ref|YP_003796083.1| 23S rRNA pseudouridine synthase [Candidatus Nitrospira defluvii] gi|300603825|emb|CBK40157.1| 23S rRNA pseudouridine synthase [Candidatus Nitrospira defluvii] Length = 321 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 35/249 (14%), Positives = 70/249 (28%), Gaps = 42/249 (16%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 +V + +R+ +A SR ++R+I + R+ +NG + + + D I ++ Sbjct: 12 VVTGGESSKRIDVFLANRDPTFSRSALQRLIGEGRILINGQTIR-PSQKIKPGDRIRLEV 70 Query: 64 --GVPLRKAERTR-----------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------ 104 PL L L+ +V + V L Sbjct: 71 PRPEPLDLKPEAIPFDILHEDAELLVLHKPAGLVVHPAPGNWSGTLVNALLHHFATSGVT 130 Query: 105 ------FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R V RLD T G++++ R L K Sbjct: 131 PSHIGGKERPGLVHRLDKETSGVMVIAKTDQAHRALAAQFKLHTITRVYEALIWGVPKKG 190 Query: 159 NLLKKGIVIQGIC---------YGDMQVTLDTQKGSNA-----WVTVGLREGKNREIKKV 204 + L + + + D Q +V + R G+ +++ Sbjct: 191 HGLIELAIGRDTKERKKFSARTTKPKPSATDYQVEERYGKIAAYVRLFPRTGRTHQLRVH 250 Query: 205 FEFFNWKVN 213 + + Sbjct: 251 LTSIDHPIL 259 >gi|262195687|ref|YP_003266896.1| pseudouridine synthase [Haliangium ochraceum DSM 14365] gi|262079034|gb|ACY15003.1| pseudouridine synthase, RluA family [Haliangium ochraceum DSM 14365] Length = 322 Score = 53.6 bits (127), Expect = 4e-05, Method: Composition-based stats. Identities = 28/248 (11%), Positives = 60/248 (24%), Gaps = 41/248 (16%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------D 63 R+ + + +A SR +V+R+I + V+V+G + + + + +EV + Sbjct: 24 RLDQFLTACELALSRSQVKRLIDEGAVQVDGAEVRKPGFKLQGGEAVEVALPAPQPLAAE 83 Query: 64 GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + + + + +V + V L G L Sbjct: 84 PQAIPLDICYEDEHIIVVDKPAGLVVHPAPGHPDGTLVNALLAHCHDLSGIGGALRPGIV 143 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY------- 172 L G + + + + + I Sbjct: 144 HRLDKDTSGVMVATKTEIAHHAMVETFQAHRLERAYLAVVAPPPEPPRGTISTLHGRHPV 203 Query: 173 --GDMQVTLDTQKGSNAWVTVG-------------LREGKNREIKKVFEFFNWK----VN 213 + K + V L G+ +I+ V Sbjct: 204 HRKKFSGRVSRGKQAITQYRVERVFGRLAAEVRCQLETGRTHQIRVHLSEMGAPLIGDVL 263 Query: 214 RLIRISYG 221 R G Sbjct: 264 YGRRYRDG 271 >gi|298490610|ref|YP_003720787.1| RNA-binding S4 domain-containing protein ['Nostoc azollae' 0708] gi|298232528|gb|ADI63664.1| RNA-binding S4 domain protein ['Nostoc azollae' 0708] Length = 62 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ + + GI S + + MI VKVNG + R + TD + V G Sbjct: 2 IKLDQFLKLLGIGSTGGQAKLMIIDGDVKVNGTVETRRGRKLAPTDIVTVTGK 54 >gi|207724162|ref|YP_002254560.1| ribosomal large subunit pseudouridine synthase d protein [Ralstonia solanacearum MolK2] gi|206589372|emb|CAQ36334.1| ribosomal large subunit pseudouridine synthase d protein [Ralstonia solanacearum MolK2] Length = 370 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 40/245 (16%), Positives = 67/245 (27%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E +R+ K +A+ SR +++ I V+V G + V D IEV Sbjct: 55 IPETLHGERLDKALAKLLPDYSRSRLQQWIDAGAVRVGGAAVR-PRAAVCGGDRIEVVPQ 113 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 + + T L + +V + + + L Sbjct: 114 RAADENAFVAEPIDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPQAAGL 173 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------- 152 R V RLD T GL+++ L Sbjct: 174 PRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEAGTIDAPI 233 Query: 153 -VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 234 GRDPRDRTRMAIIETASGKPARTHFKTLDVIDLGRAQVSLVQCQLETGRTHQIRVHFESE 293 Query: 209 NWKVN 213 + Sbjct: 294 GHPLL 298 >gi|78222437|ref|YP_384184.1| hemolysin A [Geobacter metallireducens GS-15] gi|78193692|gb|ABB31459.1| Hemolysin A [Geobacter metallireducens GS-15] Length = 260 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R+ K++ G+ SR +I +V VN L ++A V I + G + Sbjct: 14 ERLDKLLVDRGLVQSRERARALIMAGQVVVNDHLADKAGTQVPLDADIRLKGEDIP 69 >gi|289579115|ref|YP_003477742.1| ribosomal protein S4 [Thermoanaerobacter italicus Ab9] gi|297545302|ref|YP_003677604.1| 30S ribosomal protein S4 [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|289528828|gb|ADD03180.1| ribosomal protein S4 [Thermoanaerobacter italicus Ab9] gi|296843077|gb|ADH61593.1| ribosomal protein S4 [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 206 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SRR+ ++++ ++VNG ++ + V D I V Sbjct: 99 RLDNVVYRLGFAVSRRQARQLVSHGHIEVNGKKVDIPSFLVKPGDVISV 147 >gi|262277120|ref|ZP_06054913.1| ribosomal large subunit pseudouridine synthase C [alpha proteobacterium HIMB114] gi|262224223|gb|EEY74682.1| ribosomal large subunit pseudouridine synthase C [alpha proteobacterium HIMB114] Length = 288 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 40/252 (15%), Positives = 82/252 (32%), Gaps = 51/252 (20%) Query: 1 MKD---KNIVQENFTPQRVSKVIA-------RAGIASRREVERMIAQQRVKVNGILLERA 50 MK ++ ++F RV + + ++ E+ + ++ + VN ++ Sbjct: 1 MKKPLKSFVINKDFEGSRVDRFLKKQFPNIPQSLF------EKNLRKKNITVNNKKVKNL 54 Query: 51 AVNVMSTDHIEV--------------------DGVPLRKA---ERTRLWLYHKPIGLVTT 87 + D + + D L+K E + +KP G + Sbjct: 55 -FKLEINDIVNIFTELKIENKINKKKQIFNINDYNELKKNFVFECEDYCVLNKPYGYASQ 113 Query: 88 HSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL------ARVLELPSTQW 141 S D L S V RLD +T GL+LL + ++ Sbjct: 114 DGSKVKLSV-IDILNSTKKNYYIVHRLDKDTSGLMLLAKNRFYAKKFSEMFKSREVKKKY 172 Query: 142 LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 L + + + G I+ Y + ++K + +++ + L G+ +I Sbjct: 173 LVIINGKIKKNKGEIHSKEKVNGKEIESKLY----FEVISKKNNFSYLEIDLITGRKHQI 228 Query: 202 KKVFEFFNWKVN 213 +K F V Sbjct: 229 RKQFSDIGHPVV 240 >gi|167464888|ref|ZP_02329977.1| putative cell adhesion protein (contact hemolysin TlyA-related) [Paenibacillus larvae subsp. larvae BRL-230010] gi|322382771|ref|ZP_08056615.1| methyltransferase-like protein with RNA binding domain [Paenibacillus larvae subsp. larvae B-3650] gi|321153240|gb|EFX45686.1| methyltransferase-like protein with RNA binding domain [Paenibacillus larvae subsp. larvae B-3650] Length = 278 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 1/55 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +R+ ++ G SR + + I V VN +++ + + I V G Sbjct: 2 SDKERIDVLLVEQGYYESREKAKAAIMAGLVFVNEESVDKPGIKICRKADIRVKG 56 >gi|309389907|gb|ADO77787.1| SSU ribosomal protein S4P [Halanaerobium praevalens DSM 2228] Length = 208 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 1/66 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G AS R E + + + VNG ++ + + D I+V + Sbjct: 99 RLDNVVYRMGFASSRNEARQFVLHGHITVNGRKVDIPSYQIDIDDEIKVKDSSRKSKRFK 158 Query: 74 RLWLYH 79 ++ Y+ Sbjct: 159 EIFEYN 164 >gi|296536195|ref|ZP_06898317.1| ribosomal large subunit pseudouridine synthase D [Roseomonas cervicalis ATCC 49957] gi|296263477|gb|EFH09980.1| ribosomal large subunit pseudouridine synthase D [Roseomonas cervicalis ATCC 49957] Length = 343 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 31/245 (12%), Positives = 66/245 (26%), Gaps = 42/245 (17%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 R+ + +A A G SR V+ +I V +G + + + V Sbjct: 37 RLDRFLAAAIGTLSRSRVKALIEAGHVTRDGQPAGDPSEAIRTGATYVVAPPAAQPATPQ 96 Query: 63 -----------DGVPLRKAERTRLWLYHKPIGLVT--------------THSDPDGRSTV 97 D + + L ++ P T + R + Sbjct: 97 AQDIPLTILFEDRHLIVLDKPAGLVVHPAPGNQDGTLVNALLAHAGEELTGIGGEKRPGI 156 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 L S V+ V + ++ L L R + V + Sbjct: 157 VHRLDKDTSGVMVVAKSEVAHTALSAAFASRDLERAYLALAWGVPAPASGEVDAPVGRHP 216 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNA-WVTVGLREGKNREIKKVFEFFNWKV---- 212 + + +V + + + + G++ + L G+ +I+ + Sbjct: 217 TDRKRMAVVARNGKHALTRYATERAWGTSCALLRCRLATGRTHQIRVHMAHIGHPLVGDP 276 Query: 213 NRLIR 217 L R Sbjct: 277 VYLRR 281 >gi|163856156|ref|YP_001630455.1| ribosomal large subunit pseudouridine synthase D [Bordetella petrii DSM 12804] gi|163259884|emb|CAP42185.1| ribosomal large subunit pseudouridine synthase D [Bordetella petrii] Length = 324 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 39/260 (15%), Positives = 75/260 (28%), Gaps = 45/260 (17%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ K++A SR ++ I V+VNG + V D + V P Sbjct: 34 RLDKILAALLDGHSRSRLQGWIEAGWVQVNGAPAKV-RQVVGPGDVLAVWEQPAPESLAF 92 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVGR 113 + + + + + + + L R V R Sbjct: 93 TPEPIAFAVVAESPDWIVVDKPAGLVTHPGAGNWSGTLLNGLLHRYPELARVARAGIVHR 152 Query: 114 LDINTEGLLLLTNDGGLARVLEL------PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 LD +T GL+++ + L +++ + D+ + + Sbjct: 153 LDKDTSGLMVVARNELAQTHLVRQLQARSMGREYIALAHGWLPVAGKVDRPIGRDARVPV 212 Query: 168 QGICYGDMQVTLDT-----------QKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLI 216 + + G V L G+ +I+ + L Sbjct: 213 RMSVERPIAPKPAITHYAPLRRGRAPDGPVTEVACRLETGRTHQIRVHLASLGHPL--LA 270 Query: 217 RISYGPFQLGTLLAGSTREV 236 YG G L AG+TR++ Sbjct: 271 DTLYG----GRLTAGATRQM 286 >gi|291544840|emb|CBL17949.1| hemolysin TlyA family protein [Ruminococcus sp. 18P13] Length = 261 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%) Query: 13 PQRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ + G+AS R + +I ++ VNG+ +A+ V +D I G Sbjct: 2 GMRLDSRLVTLGLASSRARAKELICGGQITVNGVPARKASAEVSDSDEILCTG 54 >gi|227821073|ref|YP_002825043.1| hemolysin-like protein [Sinorhizobium fredii NGR234] gi|227340072|gb|ACP24290.1| hemolysin-like protein [Sinorhizobium fredii NGR234] Length = 251 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 12/60 (20%), Positives = 25/60 (41%), Gaps = 1/60 (1%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R+ +++ G +ASR I + V V+G + + A + I +D Sbjct: 1 MSDNKHSTIRLDQLLLNKGLVASRARARDAIQRGTVMVDGRTVTKPATAFAANATITIDD 60 >gi|157738183|ref|YP_001490867.1| ribosomal large subunit pseudouridine synthase [Arcobacter butzleri RM4018] gi|315636326|ref|ZP_07891576.1| RNA pseudouridine synthase [Arcobacter butzleri JV22] gi|157700037|gb|ABV68197.1| ribosomal large subunit pseudouridine synthase [Arcobacter butzleri RM4018] gi|315479415|gb|EFU70098.1| RNA pseudouridine synthase [Arcobacter butzleri JV22] Length = 251 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 22/206 (10%), Positives = 59/206 (28%), Gaps = 17/206 (8%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILL--------ERAAVNVMSTDHIEVDGVPLRK 69 K++A S + + +I + VKV + + + ++V Sbjct: 10 KLLALQEKISNSKAKELIDKGVVKVGDKKVLIARGEIRTDTKFTIKEINKVKV------I 63 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 E + + KP L + + N + + + + + + Sbjct: 64 FEDKDILVVDKPAFLTADEVCKKFENAILLNRLDKETSGVMMFAKNEEFQKKAIKEFQAN 123 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL--DTQKGSNA 187 + + V + + K + K I + T+ +G+ + Sbjct: 124 RVYKEYVAIVEGKVVDEIEIDKPILTTKDRGMAKS-KIDVKRGKPAKSTVYPLLVEGNKS 182 Query: 188 WVTVGLREGKNREIKKVFEFFNWKVN 213 + V + G+ +I+ + Sbjct: 183 KIKVVIESGRTHQIRVHLNSVGLPII 208 >gi|331269447|ref|YP_004395939.1| hemolysin A [Clostridium botulinum BKT015925] gi|329125997|gb|AEB75942.1| hemolysin A [Clostridium botulinum BKT015925] Length = 270 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 15/77 (19%), Positives = 28/77 (36%), Gaps = 1/77 (1%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 N +R+ ++ I SR + + I + ++ VNG +++ V IE G + Sbjct: 2 SNVKSERLDVLLVEKNIFESREKAKIAIMEGKIFVNGQRVDKCGQKVKVDSGIEFKGEVM 61 Query: 68 RKAERTRLWLYHKPIGL 84 R L Sbjct: 62 PYVSRGGYKLEKSMKSF 78 >gi|260364018|ref|ZP_05776749.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus K5030] gi|308115630|gb|EFO53170.1| ribosomal large subunit pseudouridine synthase D [Vibrio parahaemolyticus K5030] Length = 325 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 70/249 (28%), Gaps = 33/249 (13%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 N V+++ QR+ + IA SR ++ +V+VNG ++ + VM + I + Sbjct: 9 NTVKDSQLGQRLDQAIAELFADFSRSRLKDGCWTGKVQVNGEVVTKPRTKVMGGEEITLQ 68 Query: 63 ----DGVPLRKAERT---------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 D + + + +V + + + L Sbjct: 69 AELEDEERWEAQDIPLDIVYEDDDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPDIAE 128 Query: 110 SV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 RLD +T GL+++ L + + + Sbjct: 129 VPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDQP 188 Query: 165 IVIQGIC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + L G+ +I+ + + Sbjct: 189 IGRHSTKRTLMAVAPLGKPAVTHYRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPL- 247 Query: 214 RLIRISYGP 222 L +YG Sbjct: 248 -LGDTAYGG 255 >gi|114570956|ref|YP_757636.1| ribosomal large subunit pseudouridine synthase D [Maricaulis maris MCS10] gi|114341418|gb|ABI66698.1| ribosomal large subunit pseudouridine synthase D [Maricaulis maris MCS10] Length = 335 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 12/56 (21%), Positives = 26/56 (46%), Gaps = 1/56 (1%) Query: 8 QENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 E QR+ + +A + SR ++ +I +V V+G+ + + V++ V Sbjct: 13 TEEDAGQRLDRWLAASVESLSRSRLKALIEAGQVAVDGVAVTDPSAKVLAGSEYTV 68 >gi|78777541|ref|YP_393856.1| hemolysin A [Sulfurimonas denitrificans DSM 1251] gi|78498081|gb|ABB44621.1| Hemolysin A [Sulfurimonas denitrificans DSM 1251] Length = 236 Score = 53.6 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + G SR + + +I + V VNG + +++ + S+D + V Sbjct: 3 RLDNYLVENGQCESRNKAQNIIKEGLVSVNGEQIIKSSYALKSSDKVVV 51 >gi|309810784|ref|ZP_07704590.1| ribosomal RNA large subunit methyltransferase J [Dermacoccus sp. Ellin185] gi|308435264|gb|EFP59090.1| ribosomal RNA large subunit methyltransferase J [Dermacoccus sp. Ellin185] Length = 272 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 13/54 (24%), Positives = 28/54 (51%), Gaps = 1/54 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ + G+ SR + + ++ RV V+G +A+ V T ++E++G Sbjct: 2 SGVRLDAALVARGLVRSRAQAKELLDAGRVLVDGKAEAKASTKVSDTQNVEIEG 55 >gi|126696992|ref|YP_001091878.1| rRNA methyltransferase [Prochlorococcus marinus str. MIT 9301] gi|126544035|gb|ABO18277.1| FtsJ cell division protein:S4 domain:Hemolysin A [Prochlorococcus marinus str. MIT 9301] Length = 270 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 10/54 (18%), Positives = 28/54 (51%), Gaps = 2/54 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVP 66 R+ + ++G+ +R++ + +I +V+ +NG + ++ V+ +D P Sbjct: 6 RLDLYLLKSGLCETRQKAQGLILAGKVRDINGKVWDKPGQQVLIGSEFFIDSEP 59 >gi|253682663|ref|ZP_04863460.1| ribosomal protein S4 [Clostridium botulinum D str. 1873] gi|253562375|gb|EES91827.1| ribosomal protein S4 [Clostridium botulinum D str. 1873] Length = 206 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E +++ VNG ++ A+ V + D I V Sbjct: 98 MRLDNVVYRLGFGSSRSEARQLVTHGHFLVNGKKVDIASFKVSAGDVITV 147 >gi|254526244|ref|ZP_05138296.1| FtsJ cell division protein:S4 domain:Hemolysin A [Prochlorococcus marinus str. MIT 9202] gi|221537668|gb|EEE40121.1| FtsJ cell division protein:S4 domain:Hemolysin A [Prochlorococcus marinus str. MIT 9202] Length = 270 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 10/54 (18%), Positives = 26/54 (48%), Gaps = 2/54 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVP 66 R+ + G+ +R++ + +I +V+ +NG + ++ V+ +D P Sbjct: 6 RLDLYLLNKGLCETRQKAQGLILAGKVRDINGKVFDKPGQQVLIGSEFFIDSEP 59 >gi|157414065|ref|YP_001484931.1| rRNA methylase [Prochlorococcus marinus str. MIT 9215] gi|157388640|gb|ABV51345.1| Predicted rRNA methylase [Prochlorococcus marinus str. MIT 9215] Length = 270 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 10/54 (18%), Positives = 26/54 (48%), Gaps = 2/54 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVP 66 R+ + G+ +R++ + +I +V+ +NG + ++ V+ +D P Sbjct: 6 RLDLYLLNKGLCETRQKAQGLILAGKVRDINGKVFDKPGQQVLIGSEFFIDSEP 59 >gi|327399496|ref|YP_004340365.1| 30S ribosomal protein S4 [Hippea maritima DSM 10411] gi|327182125|gb|AEA34306.1| ribosomal protein S4 [Hippea maritima DSM 10411] Length = 208 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 1/70 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R+G+AS RRE R++ ++VNG ++ + V D I V K E Sbjct: 99 RLDNVVYRSGMASSRREARRLVTHGHIRVNGHKVDIPSYLVRKGDVITVSDKMKAKEEFK 158 Query: 74 RLWLYHKPIG 83 R + + Sbjct: 159 RRFEENSRRM 168 >gi|296273828|ref|YP_003656459.1| hemolysin A [Arcobacter nitrofigilis DSM 7299] gi|296098002|gb|ADG93952.1| hemolysin A [Arcobacter nitrofigilis DSM 7299] Length = 240 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + +A SR + +I ++K++G ++ + + NV T +E+ Sbjct: 1 MRLDLFLTKAFDIQSRNKAHELIKANKIKIDGAIITKPSFNVEETHKVEI 50 >gi|121534815|ref|ZP_01666635.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans Nor1] gi|121306610|gb|EAX47532.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans Nor1] Length = 301 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 36/213 (16%), Positives = 68/213 (31%), Gaps = 31/213 (14%) Query: 29 REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GV-----------PLRKAERTRLW 76 R+++R Q +V +NG ++ V S D I +D G + + L Sbjct: 30 RKIKR---QGQVLINGHPVKSFQTPVSSGDEISIDYGDDSCLTPMKMPLHIVYEDDFLLI 86 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTNDGGLA 131 + LV SDP + L + S+ + RLD NT GL+ + + Sbjct: 87 VNKPAGLLVHPTSDPTEPTLAHGILYYLHSKGALGAFHPIHRLDRNTSGLVAIAKHPHIQ 146 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQVTLD 180 L + L+ + + N + K +V + Sbjct: 147 HALSGGGAKGLKRLYLAVVTGIPSSLMGRIDAPIGRHPNSIIKRVVRSDGQPAITLYRVL 206 Query: 181 TQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + V + L G+ +I+ + Sbjct: 207 STFSMASLVELELLTGRTHQIRVHLSHIGHPLL 239 >gi|320335497|ref|YP_004172208.1| 30S ribosomal protein S4 [Deinococcus maricopensis DSM 21211] gi|319756786|gb|ADV68543.1| ribosomal protein S4 [Deinococcus maricopensis DSM 21211] Length = 205 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R GIAS RR+ + +A + VNG LL+ + V D I V Sbjct: 96 RLDNVIFRLGIASTRRQARQFVAHGHILVNGKLLDVPSYRVKIGDVITV 144 >gi|170077579|ref|YP_001734217.1| 23S rRNA-specific pseudouridylate synthase [Synechococcus sp. PCC 7002] gi|169885248|gb|ACA98961.1| 23S rRNA-specific pseudouridylate synthase [Synechococcus sp. PCC 7002] Length = 308 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 67/238 (28%), Gaps = 37/238 (15%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 +R+ + +A+ SR ++R+I Q +V++N + + D + + Sbjct: 14 GERLDQWLAQQLPELSRSRLQRLIEQGQVQLNEAPCQSKKTKLKVGDRLILKIPAPATMA 73 Query: 64 ------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRV 108 + + + L + +V + V L R Sbjct: 74 LAPEAMDLDILFEDEHFLIVNKPAGMVVHPAPGNYTGTLVHGLLAHCGENLAGIGGVQRP 133 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLE--------LPSTQWLRVYRVRFHGQVDQDKLNL 160 V RLD +T G + + + L+ + R + Sbjct: 134 GIVHRLDKDTTGAIAIAKTDQAHQHLQAQIKAKTARREYMGIVYGCPRNDAAGTIEAPIA 193 Query: 161 LKKGIVIQ---GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 KG + + + G+ + + L G+ +I+ + Sbjct: 194 RHKGDRKKMAVDETGRPAVTHWEIMERLGNYSLLYYKLETGRTHQIRVHSAHMGNPII 251 >gi|167748456|ref|ZP_02420583.1| hypothetical protein ANACAC_03200 [Anaerostipes caccae DSM 14662] gi|317472011|ref|ZP_07931343.1| ribosomal protein S4 [Anaerostipes sp. 3_2_56FAA] gi|167652448|gb|EDR96577.1| hypothetical protein ANACAC_03200 [Anaerostipes caccae DSM 14662] gi|316900415|gb|EFV22397.1| ribosomal protein S4 [Anaerostipes sp. 3_2_56FAA] Length = 197 Score = 53.3 bits (126), Expect = 5e-05, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R+E +++ + V VNG + + V D IE+ Sbjct: 88 RLDNVLFRLGFGRTRKECRQIVDHKHVLVNGKTVNIPSYRVSVGDVIEI 136 >gi|313496998|gb|ADR58364.1| RluA family pseudouridine synthase [Pseudomonas putida BIRD-1] Length = 352 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 31/231 (13%), Positives = 62/231 (26%), Gaps = 30/231 (12%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLE-----RAAVNVMSTDHIEVDGVP 66 QR+ +V A+ SR + I + R+ V+G ++ + E G Sbjct: 49 GQRLDQVAAQLFAEYSRSRLTSWIKEGRLTVDGAVVRPRDLVHGGSLLTLEAEQEAQGEW 108 Query: 67 LR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GR 113 + + L + +V + + + L + V R Sbjct: 109 IAEDIELDIVYEDDHILVINKPAGLVVHPAAGHASGTLLNALLHHVPDIVNVPRAGIVHR 168 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC-- 171 LD +T GL+++ L + I G Sbjct: 169 LDKDTTGLMVVAKTLQAQTKLVEQMQARKVSRIYECIVIGVVTAGGKIDAPIGRHGGMRQ 228 Query: 172 -------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + S+ V V L G+ +I+ + + Sbjct: 229 RMAVTDGGKPAVSHYRVLKRFRSHTHVRVKLETGRTHQIRVHMAHVGFPLV 279 >gi|238924566|ref|YP_002938082.1| putative hemolysin [Eubacterium rectale ATCC 33656] gi|238876241|gb|ACR75948.1| probable hemolysin [Eubacterium rectale ATCC 33656] gi|291525239|emb|CBK90826.1| hemolysin TlyA family protein [Eubacterium rectale DSM 17629] gi|291529302|emb|CBK94888.1| hemolysin TlyA family protein [Eubacterium rectale M104/1] Length = 268 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 25/178 (14%), Positives = 52/178 (29%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ G+A SR + + MI + V VN ++A +IE+ G L+ R Sbjct: 3 ERLDVLLVNRGLAPSREKAKTMIMEGNVFVNNNREDKAGSTFPDDCNIEIHGKTLQYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T ++ G + + L + Sbjct: 63 GGLKLEKAMKHFDITMDGKVCMDIGAST-GGFTDCMLQNGAKKVYAVDVGYGQFAWKLRQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V + D+ + + G + L + Sbjct: 122 DERVVCMEKTNIRYVTPNDIDDELDFASVDVSFISLTKVLGPARALLKDGGEMVCLIK 179 >gi|167945138|ref|ZP_02532212.1| pseudouridine synthase [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 55 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 15/43 (34%), Positives = 26/43 (60%) Query: 194 REGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 REG+NR+++++ RL+R GP++LG L G R++ Sbjct: 1 REGRNRQVRRMTAAVGHPTLRLVRTEVGPWRLGNLQPGQWRKL 43 >gi|145631295|ref|ZP_01787067.1| SfhB [Haemophilus influenzae R3021] gi|144983080|gb|EDJ90580.1| SfhB [Haemophilus influenzae R3021] Length = 324 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 25/238 (10%), Positives = 56/238 (23%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 VQ +R+ + +A SR ++ I VK+N + V+ + IE+ Sbjct: 10 VQPEQMGERLDQTLAELFPEYSRSRLKTWIEADLVKLNDRIANIPREKVLGGERIEIIVE 69 Query: 63 -------------------DGVPLRKAERTRLWLYHKPIG---LVTTHSDPDGRSTVFDN 100 D + + L ++ V V Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVP 129 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 I R+ + + + ++ V D+ Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 161 LKKGIVIQGICY---GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 I + + + + + L G+ +I+ + Sbjct: 190 RHATKRILMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|253577876|ref|ZP_04855148.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251850194|gb|EES78152.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 250 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 16/59 (27%), Positives = 22/59 (37%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V R+ +I+ A SR + I +V VNG L+ D I V G Sbjct: 167 VSGTCASVRLDSLISLAFKTSRSSMVSYIEGGQVFVNGKLITSNGYEPKDGDIISVRGK 225 >gi|225848344|ref|YP_002728507.1| hemolysin A [Sulfurihydrogenibium azorense Az-Fu1] gi|225644150|gb|ACN99200.1| hemolysin A [Sulfurihydrogenibium azorense Az-Fu1] Length = 272 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 10/60 (16%), Positives = 26/60 (43%), Gaps = 1/60 (1%) Query: 8 QENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 Q +R+ K++ G+ +R + + +I V VN +++ + + +I + Sbjct: 5 QSTPKKERIDKLLVDKGLVETREKAQALIMSGVVFVNNQKIDKPGTKIPTDANIHIKEKI 64 >gi|169335052|ref|ZP_02862245.1| hypothetical protein ANASTE_01458 [Anaerofustis stercorihominis DSM 17244] gi|169257790|gb|EDS71756.1| hypothetical protein ANASTE_01458 [Anaerofustis stercorihominis DSM 17244] Length = 301 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 24/247 (9%), Positives = 73/247 (29%), Gaps = 37/247 (14%) Query: 3 DKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + IV E R K ++ SR ++++ + V +N ++ + +++ + ++ Sbjct: 4 KEFIVTEEKQNIRCDKFLSDKLEDFSRESLKKLFKEGEVFLNDEKVK-PSRKLIAGERVK 62 Query: 62 VD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V+ P + + + + +V + + V + + Sbjct: 63 VNLPEPEVLDVIAENIPINIVYEDEDVVIVDKPQGMVVHPANGNHSGTLVNALMYHVKDL 122 Query: 108 VISVG---------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 G + D L + + + R + + Sbjct: 123 SSINGVIRPGIVHRIDKDTSGLLIIAKNDNAHNHLAVQFKEHSINRRYKTICHGIIHENS 182 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + +DK+ + + + + ++ V L G+ +I+ + Sbjct: 183 GTIDAPIGRDKIKRKEMCVTQSNSKRAVTHFDVIKRYDKYTFLDVHLETGRTHQIRVHLK 242 Query: 207 FFNWKVN 213 + + V Sbjct: 243 YISHPVI 249 >gi|262382346|ref|ZP_06075483.1| RNA pseudouridylate synthase [Bacteroides sp. 2_1_33B] gi|262295224|gb|EEY83155.1| RNA pseudouridylate synthase [Bacteroides sp. 2_1_33B] Length = 304 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 35/214 (16%), Positives = 78/214 (36%), Gaps = 28/214 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTD---------HIEVDGVPLRK-AERTRLW 76 SR V+ ++++ ++ VNG + + + D +E + LR E L Sbjct: 42 SRSSVKGLLSRGQISVNGKVTRQFDAALNPNDTVGINYGRGKVEFNNPLLRIVWEDDDLI 101 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSI------FSRVISVGRLDINTEGLLLLTNDG-- 128 + +K GL++ +D T + L +++ + RLD +T G+++ + Sbjct: 102 VINKREGLLSVSTDRVKERTAYRLLSDYVKQSDPRNKIFVLHRLDRDTSGIMMFAKNQGV 161 Query: 129 --GLARVLELPSTQWLRVYRVRFHGQVDQD-------KLNLLKKGIVIQ-GICYGDMQVT 178 L TQ V + + D D + ++ + ++ + Sbjct: 162 KEQLQSNWSEMITQRTYVAVIEGRPEKDTDLIVSNLVENKNMQVYVTLEGDGKEAITRYR 221 Query: 179 LDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 L S + + + L G+ +I+ + V Sbjct: 222 LLQTNNSYSLLELELETGRKNQIRAQMQSIGHPV 255 >gi|260887335|ref|ZP_05898598.1| hemolysin A [Selenomonas sputigena ATCC 35185] gi|330838912|ref|YP_004413492.1| hemolysin A [Selenomonas sputigena ATCC 35185] gi|260862971|gb|EEX77471.1| hemolysin A [Selenomonas sputigena ATCC 35185] gi|329746676|gb|AEC00033.1| hemolysin A [Selenomonas sputigena ATCC 35185] Length = 271 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G+A SR MI + RV V+G +E+A V + + G + Sbjct: 4 ERLDVLLVERGLAASRERARTMIMEGRVLVDGKKVEKAGTGVKPEAELRLLGEEMPY 60 >gi|257466280|ref|ZP_05630591.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium gonidiaformans ATCC 25563] gi|315917437|ref|ZP_07913677.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium gonidiaformans ATCC 25563] gi|313691312|gb|EFS28147.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium gonidiaformans ATCC 25563] Length = 318 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 70/244 (28%), Gaps = 39/244 (15%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 E +R+ + A+R +E++I + V N ++ + + + I++ Sbjct: 14 EEDQGKRLDLFLKEQLPEATRSYLEKLITEGYVLCNEKVITKNGRKLKGKEVIQLAIPEE 73 Query: 63 -------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + +PL E L + +K +V + + T+ + L +S Sbjct: 74 EKMEIVAENIPLDIVYEDKYLLVVNKQANMVVHPALGNYSGTLVNALLYYCKENLSDMNG 133 Query: 115 DINTE-------------------------GLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 I L+ V + R Sbjct: 134 VIRPGIVHRLDKDTTGLIIVAKNNQVHSKLALMFQEKTIRKTYVAIVKGRFSEEKKEGRL 193 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D + K + + ++ V V + G+ +I+ ++ N Sbjct: 194 ETLITRDSKDRKKMTVSQIQGKKAISNYRVLLDGDKHSLVEVKIETGRTHQIRVHMKYLN 253 Query: 210 WKVN 213 + Sbjct: 254 HPIL 257 >gi|167767777|ref|ZP_02439830.1| hypothetical protein CLOSS21_02312 [Clostridium sp. SS2/1] gi|317497068|ref|ZP_07955395.1| ribosomal protein S4 [Lachnospiraceae bacterium 5_1_63FAA] gi|167710516|gb|EDS21095.1| hypothetical protein CLOSS21_02312 [Clostridium sp. SS2/1] gi|291558882|emb|CBL37682.1| SSU ribosomal protein S4P [butyrate-producing bacterium SSC/2] gi|316895613|gb|EFV17768.1| ribosomal protein S4 [Lachnospiraceae bacterium 5_1_63FAA] Length = 197 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 30/73 (41%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R+E +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVLFRLGYGRTRKECRQIVDHKHVLVNGKQVNIPSYQVKAGDVIEIKEKHRTSPRYK 147 Query: 74 RLWLYHKPIGLVT 86 + + + + Sbjct: 148 EILEVTEGRMIPS 160 >gi|15643228|ref|NP_228272.1| hypothetical protein TM0462 [Thermotoga maritima MSB8] gi|4980971|gb|AAD35547.1|AE001724_5 conserved hypothetical protein [Thermotoga maritima MSB8] Length = 311 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 71/245 (28%), Gaps = 41/245 (16%) Query: 7 VQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V++ R+ + + SR +++ I + +VKVNG + ++ + + + +EVD Sbjct: 6 VEKREEGWRLDQFLKEKTPSWISRSMIQKAIKEGKVKVNGQI-KKPSYKLKEGEIVEVDL 64 Query: 64 ----------GVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 + +R + + +V + V L Sbjct: 65 PEKPQEATVQPEEIELKVLYEDRDIIVIDKPGDMIVHPVPSKLSGTLVNALLHHCKDLQG 124 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 G+L L G + + Q L + L K +G Sbjct: 125 VGGKLRPGIVHRLDKETSGVIVVAKNDFAHQSLSKQFKDRKVKKTYILLVK-GKMKNDEG 183 Query: 170 ICYGDMQVT---------LDTQKGSNAWVTV--------GL-----REGKNREIKKVFEF 207 + + ++T K + V L + G+ +I+ + Sbjct: 184 VIDLPLARHPVLRIKMAVVETGKEAITEYRVLKRFDDVATLVLAFPKTGRTHQIRVHMKS 243 Query: 208 FNWKV 212 + Sbjct: 244 LGHPI 248 >gi|319942386|ref|ZP_08016700.1| pseudouridine synthase [Sutterella wadsworthensis 3_1_45B] gi|319804074|gb|EFW00982.1| pseudouridine synthase [Sutterella wadsworthensis 3_1_45B] Length = 363 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 34/245 (13%), Positives = 66/245 (26%), Gaps = 45/245 (18%) Query: 13 PQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---------- 61 +R+ KV+A SR + ++I VK+NG + + D IE Sbjct: 45 GERLDKVLAAHLPDVSRARLAKLIENGSVKLNGAVTTKIRAKATEGDEIELLEPPKLDEA 104 Query: 62 --------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRV 108 V+ + + + + + +V + + + L R Sbjct: 105 LAFEPQSFVEFEVI-YEDPSIIVVNKPAGLVVHPGAGNPDGTLLNGLLYHFPELKDVPRA 163 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ--------------VD 154 V RLD +T GL+++ L + D Sbjct: 164 GIVHRLDRDTTGLMVVARTLAAQTNLVRQLQERTVKREYWALTMGTAAEDFVVDVPIGRD 223 Query: 155 QDKLNLLKKGIVIQGICYGDMQV------TLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 K G+ + +WV L G+ +I+ Sbjct: 224 PKSRIRFKGFPGSTGVRAKPARTRARAVGWSSVDGIPASWVACRLDTGRTHQIRVHLTGE 283 Query: 209 NWKVN 213 + + Sbjct: 284 DLPLI 288 >gi|257452410|ref|ZP_05617709.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 3_1_5R] gi|317058953|ref|ZP_07923438.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 3_1_5R] gi|313684629|gb|EFS21464.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp. 3_1_5R] Length = 318 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 29/244 (11%), Positives = 70/244 (28%), Gaps = 39/244 (15%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 E +R+ + A+R +E++I + V N ++ + + + I++ Sbjct: 14 EEDQGKRLDLFLKEQLPEATRSYLEKLITEGYVLCNEKVITKNGKKLKGKEVIQLAIPEE 73 Query: 63 -------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + +PL E L + +K +V + + T+ + L +S Sbjct: 74 EEMEIVAENIPLDIVYEDKYLLVVNKQANMVVHPALGNYSGTLVNALLYYCKENLSDMNG 133 Query: 115 DINTE-------------------------GLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 I L+ V + R Sbjct: 134 VIRPGIVHRLDKDTTGLIIVAKNNQVHSKLALMFQEKTIRKTYVAIVKGRFSEERKEGRL 193 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D + K + + ++ V V + G+ +I+ ++ N Sbjct: 194 ETLITRDPKDRKKMTVSQIQGKKAISNYRVLLDGDKHSLVEVKIETGRTHQIRVHMKYLN 253 Query: 210 WKVN 213 + Sbjct: 254 HPIL 257 >gi|87308396|ref|ZP_01090537.1| probable beta-lactamase regulatory protein [Blastopirellula marina DSM 3645] gi|87288953|gb|EAQ80846.1| probable beta-lactamase regulatory protein [Blastopirellula marina DSM 3645] Length = 555 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 7/104 (6%), Positives = 13/104 (12%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + + R + + + + P Sbjct: 448 GMRDGDRPRPEGPPRDGGRPRPEGMRDGDRPRPEGPPRDGGRPRPEGMRDGDRPRPEGPP 507 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 M G P R Sbjct: 508 RDGGRPRPEGMRDGDRPRPEGPPRDGGRPRPEGPREGDAAPAPR 551 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 9/116 (7%), Positives = 21/116 (18%), Gaps = 2/116 (1%) Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL-SK 297 ++LR + ++ + + P+ R + Sbjct: 417 QMLRAHMDRIQRRLDELQRPPRRDGNRPRPDGMRDGDRPRPEGPPRDGGRPRPEGMRDGD 476 Query: 298 QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + P M G R R + Sbjct: 477 RPRPEGPPRDGGRPRPEGMRDGDRPRPEGPPRDGGRP-RPEGMRDGDRPRPEGPPR 531 Score = 47.9 bits (112), Expect = 0.002, Method: Composition-based stats. Identities = 9/110 (8%), Positives = 20/110 (18%), Gaps = 1/110 (0%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 ++GP E + + + R + + + + + Sbjct: 400 EVGPPRDEMIDLLREEMQMLRAHMDRIQRRLDELQRPPRRDGNRPRPDGMRDGDRPRPEG 459 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P M G R R + Sbjct: 460 PPRDGGRPRPEGMRDGDRPRPEGPPRDGGRP-RPEGMRDGDRPRPEGPPR 508 Score = 47.5 bits (111), Expect = 0.003, Method: Composition-based stats. Identities = 14/136 (10%), Positives = 28/136 (20%), Gaps = 11/136 (8%) Query: 227 TLLAGSTREVSKKILR-----EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDD 281 LL + + + R ++L + + + + P P Sbjct: 410 DLLREEMQMLRAHMDRIQRRLDELQRPPRRDGNRPRPDGMRDGDRPRPEGPPRDGGRPRP 469 Query: 282 FTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAK---GIHSSFLSDS-GQREENHRR 337 + + G + P R+ G G R Sbjct: 470 EGMRDGDRPRPEGPPRDGGRPRPEGMRDGDRPRPEGPPRDGGRPRPEGMRDGDRPRPEG- 528 Query: 338 SPSFPSKRSLRRTSAK 353 P R + Sbjct: 529 -PPRDGGRPRPEGPRE 543 Score = 47.1 bits (110), Expect = 0.004, Method: Composition-based stats. Identities = 9/122 (7%), Positives = 21/122 (17%), Gaps = 7/122 (5%) Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQ 298 + + L + E R + PD + + Sbjct: 406 DEMIDLLREEMQMLRAHMDRIQRRLDELQRPPRRDGNRPRPDGMRDGDRPRPEGPPRDGG 465 Query: 299 KKLATPVHRRNLASNVWMAK-GIHSSFL------SDSGQREENHRRSPSFPSKRSLRRTS 351 + + + + G + P R R Sbjct: 466 RPRPEGMRDGDRPRPEGPPRDGGRPRPEGMRDGDRPRPEGPPRDGGRPRPEGMRDGDRPR 525 Query: 352 AK 353 + Sbjct: 526 PE 527 Score = 44.8 bits (104), Expect = 0.023, Method: Composition-based stats. Identities = 12/115 (10%), Positives = 24/115 (20%), Gaps = 8/115 (6%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R+++ L EE Q+ L + + ++ + + Sbjct: 405 RDEMIDLLREEMQMLRAHMDRIQRRLDELQRPPRRDGNRPRPDGMRDGDRPRPEGPPRDG 464 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDS------GQREENHRRSPSFPSKRSLRRT 350 P + +G G R P R Sbjct: 465 GRPRPEGMRDGDRPRPEGPPRDGGRPRPEGMRDGDRPRPEG--PPRDGGRPRPEG 517 >gi|195952670|ref|YP_002120960.1| 30S ribosomal protein S4 [Hydrogenobaculum sp. Y04AAS1] gi|195932282|gb|ACG56982.1| RNA-binding S4 domain protein [Hydrogenobaculum sp. Y04AAS1] Length = 207 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R GI +RR+ + + + VNG ++ + V D IEV + + Sbjct: 99 RLDNVVYRLGIACTRRQARQFVVHGHIMVNGKKVDIPSYQVNVGDIIEVYSKDIPQI 155 >gi|331268441|ref|YP_004394933.1| 30S ribosomal protein S4 [Clostridium botulinum BKT015925] gi|329124991|gb|AEB74936.1| ribosomal protein S4 [Clostridium botulinum BKT015925] Length = 206 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E +++ VNG ++ A+ V + D I V Sbjct: 98 MRLDNVVYRLGFGSSRSEARQLVTHGHFLVNGKKVDIASFKVSAGDVITV 147 >gi|187776603|ref|ZP_02993076.1| hypothetical protein CLOSPO_00117 [Clostridium sporogenes ATCC 15579] gi|187775262|gb|EDU39064.1| hypothetical protein CLOSPO_00117 [Clostridium sporogenes ATCC 15579] Length = 206 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 1/69 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ V+ R G SR E +++ +NG ++ + V + D I V + Sbjct: 98 MRLDNVVFRLGYGNSRTEARQLVTHGHFLINGKKVDIPSYQVSANDVITVCDKSKATEKF 157 Query: 73 TRLWLYHKP 81 K Sbjct: 158 KTFAENPKT 166 >gi|302672285|ref|YP_003832245.1| RNA-binding S4 domain-containing protein [Butyrivibrio proteoclasticus B316] gi|302396758|gb|ADL35663.1| RNA-binding S4 domain-containing protein [Butyrivibrio proteoclasticus B316] Length = 271 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 10/59 (16%), Positives = 25/59 (42%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + +R+ ++A SR E +++I + V ++G ++ + V G Sbjct: 188 ISGSVASERIDAILAFVYHLSRSEAQKLIESESVFIDGRTAYSGGYDLKEGARVSVRGH 246 >gi|56696292|ref|YP_166649.1| ribosomal large subunit pseudouridine synthase D [Ruegeria pomeroyi DSS-3] gi|56678029|gb|AAV94695.1| ribosomal large subunit pseudouridine synthase D [Ruegeria pomeroyi DSS-3] Length = 342 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 4/54 (7%) Query: 13 PQRVSKVIAR----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 P R+ K ++R SR + R+I + V V+G ++ V+ + + Sbjct: 15 PPRLDKALSRDVPETAALSRTRLARLITEGAVSVDGQVVTDPKARVVEGAQVAI 68 >gi|268679994|ref|YP_003304425.1| hemolysin A [Sulfurospirillum deleyianum DSM 6946] gi|268618025|gb|ACZ12390.1| hemolysin A [Sulfurospirillum deleyianum DSM 6946] Length = 238 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 13/51 (25%), Positives = 25/51 (49%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + G A SR + +I + V VNG + +++ V D ++V+ Sbjct: 1 MRLDNYVFEKGFAQSRNKASELIKEGSVWVNGNVERKSSFEVCENDKVDVE 51 >gi|253700204|ref|YP_003021393.1| hemolysin A [Geobacter sp. M21] gi|251775054|gb|ACT17635.1| hemolysin A [Geobacter sp. M21] Length = 257 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T +R+ K++ G+A SR + +I +V V+ L ++A + V I + G PL Sbjct: 2 TKERLDKLVLERGLAPSRERAKALIMAGQVVVDDHLADKAGLMVSIEAEIRLKGEPLPY 60 >gi|118444316|ref|YP_878057.1| hemolysin A [Clostridium novyi NT] gi|118134772|gb|ABK61816.1| hemolysin A [Clostridium novyi NT] Length = 270 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 11/62 (17%), Positives = 26/62 (41%), Gaps = 1/62 (1%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 + +R+ ++ I SR + + I + ++ VNG +++ + IE G + Sbjct: 2 SSVKSERLDILLVEKNIFDSREKAKIAIMEGKIFVNGQRVDKCGQKIKVDSEIEFKGEVM 61 Query: 68 RK 69 Sbjct: 62 PY 63 >gi|170781652|ref|YP_001709984.1| hypothetical protein CMS_1246 [Clavibacter michiganensis subsp. sepedonicus] gi|169156220|emb|CAQ01362.1| conserved hypothetical protein [Clavibacter michiganensis subsp. sepedonicus] Length = 290 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ + G+A SR R+I V V+G + +A+ VM +EV G Sbjct: 25 RLDAALPALGLARSRTHAARLIVDGLVTVDGRGVVKASFRVMPGSVVEVAG 75 >gi|300312307|ref|YP_003776399.1| ribosomal large subunit pseudouridine synthase D [Herbaspirillum seropedicae SmR1] gi|300075092|gb|ADJ64491.1| ribosomal large subunit pseudouridine synthase D protein [Herbaspirillum seropedicae SmR1] Length = 370 Score = 53.3 bits (126), Expect = 6e-05, Method: Composition-based stats. Identities = 27/247 (10%), Positives = 66/247 (26%), Gaps = 43/247 (17%) Query: 7 VQENFTPQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + QR+ KV++ G+ SR +++ I V VNG + A + ++ + +EV Sbjct: 46 LDDEVIGQRLDKVLS--GLLPEFSRSRIQQWIEDGHVTVNGAPAK-AKMTMLGDELVEVA 102 Query: 64 GVPLRKAERT---------------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF--- 105 + + + L +V + + + L Sbjct: 103 PQSVPSDQPYGPEPMALDILHEDKALIVLNKPAGLVVHPAAGNWSGTLLNGLLHHCPALA 162 Query: 106 --------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 R+ + L D Q+L + + Sbjct: 163 KVPRAGIVHRLDKDTSGIMVVAKTLAAQTDLVRQLQARSMKRQYLALVWGLPQLSGTINA 222 Query: 158 LNLLKKGIVIQG-----ICYGDMQVTL------DTQKGSNAWVTVGLREGKNREIKKVFE 206 I+ + + + + + L G+ +I+ + Sbjct: 223 PMARHPRDRIKMAVSQSMRAKPAVTHYRRLATGEIDRKPVSLIHCRLETGRTHQIRVHLQ 282 Query: 207 FFNWKVN 213 + + Sbjct: 283 SLGFPLV 289 >gi|72161527|ref|YP_289184.1| ribosomal large subunit pseudouridine synthase D [Thermobifida fusca YX] gi|71915259|gb|AAZ55161.1| ribosomal large subunit pseudouridine synthase D [Thermobifida fusca YX] Length = 309 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 29/252 (11%), Positives = 62/252 (24%), Gaps = 41/252 (16%) Query: 1 MKDKNIVQ--ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M D + + R+ IAR SR +IA+ V V+G + + V + Sbjct: 1 MSDHRSMPVPDGLEGDRLDTAIARLFGLSRTRAAELIAEGNVLVDGAPAAK-SDRVNAGA 59 Query: 59 --HIEV--------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 I + G+ + + + + + G + V L Sbjct: 60 WLDITLPPPPNPPAPRPEPVPGMRIVYEDADIVVVDKPAGVVAHPTIGWSGPTVVDGLLA 119 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + + S L G + + L+ + L Sbjct: 120 AGVAVATSGAAERQGIVHRLDANTTGLMVVAKSEIAYSSLKRAFKERTVEKVYHALVQ-G 178 Query: 163 KGIVIQGICYGDMQ---------------------VTLDTQKGSNAWVTVGLREGKNREI 201 ++G + T + + + + L G+ +I Sbjct: 179 HPDPLRGTIDAPIDRHPSGDGRFAVVAGGRPSVTHYTTLEAFRAASLLEIDLETGRTHQI 238 Query: 202 KKVFEFFNWKVN 213 + Sbjct: 239 RVHMSAIRHPCV 250 >gi|56460992|ref|YP_156273.1| 30S ribosomal protein S4 [Idiomarina loihiensis L2TR] gi|61215388|sp|Q5QXV7|RS4_IDILO RecName: Full=30S ribosomal protein S4 gi|56180002|gb|AAV82724.1| Ribosomal protein S4 [Idiomarina loihiensis L2TR] Length = 206 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G AS R E ++++ + V VNG ++ + V D + V Sbjct: 96 QRLDNVVYRMGFASTRAEARQLVSHKAVVVNGQVVNIPSFKVRPEDVVSV 145 >gi|163849205|ref|YP_001637249.1| hemolysin A [Chloroflexus aurantiacus J-10-fl] gi|222527183|ref|YP_002571654.1| hemolysin A [Chloroflexus sp. Y-400-fl] gi|10198134|gb|AAG15202.1|AF288458_1 HlyA [Chloroflexus aurantiacus] gi|163670494|gb|ABY36860.1| hemolysin A [Chloroflexus aurantiacus J-10-fl] gi|222451062|gb|ACM55328.1| hemolysin A [Chloroflexus sp. Y-400-fl] Length = 260 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ +V+ G+A +R + +I +V VNG + +A + +EV Sbjct: 4 QRLDQVLVSRGLAETRARAQALIMAGQVLVNGQVQTKAGTLIADDASVEV 53 >gi|104779779|ref|YP_606277.1| 30S ribosomal protein S4 [Pseudomonas entomophila L48] gi|152112249|sp|Q1IFU2|RS4_PSEE4 RecName: Full=30S ribosomal protein S4 gi|95108766|emb|CAK13460.1| 30S ribosomal protein S4 [Pseudomonas entomophila L48] Length = 206 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ V+ R G S R E ++++ + + VNG + + V D + V L + Sbjct: 97 RLDNVVYRMGFGSTRSESRQLVSHKAISVNGKTVNIPSYQVRPGDVVSVREKSLNQ 152 >gi|319405172|emb|CBI78777.1| ribosomal large subunit pseudouridine synthase D [Bartonella sp. AR 15-3] Length = 333 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 26/262 (9%), Positives = 72/262 (27%), Gaps = 52/262 (19%) Query: 4 KNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 ++I EN QR+ + +A+ SR ++ +I + +K++G L++ + + S IE Sbjct: 3 QHITNENACGQRIDQWLAKQYKEELSRSRLQTLIREGYLKIDGQLIKEPKIKLKSNQIIE 62 Query: 62 V----------DGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + G L + + + +V + + V + Sbjct: 63 LTIPTPNDARPQGEALALDILFEDNHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCSDS 122 Query: 108 VISVGRLDIN--------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + +G + +++ LA + Sbjct: 123 LSGIGGIKRPGIVHRLDKDTSGVMVIAKNDLAHRNLNAQFADHGRTSALDRRYHAVIWGS 182 Query: 160 LLKKGIVIQGICYG----DMQVTLDTQKGSN------------------------AWVTV 191 + + I + ++ + ++ + + Sbjct: 183 PNRNIVTIDTFLARSSRDRTKRSVVHSEHAHARRAITHFSLLEKYGACNDATSLASLLEC 242 Query: 192 GLREGKNREIKKVFEFFNWKVN 213 L G+ +I+ + Sbjct: 243 RLETGRTHQIRVHMAHIGHPLI 264 >gi|313904924|ref|ZP_07838295.1| ribosomal protein S4 [Eubacterium cellulosolvens 6] gi|313470181|gb|EFR65512.1| ribosomal protein S4 [Eubacterium cellulosolvens 6] Length = 197 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R +A +R+E +++ + V VNG ++ + V D IE+ Sbjct: 87 MRLDNVIFRLALARTRKEARQIVDHKFVTVNGKVVNIPSYQVKPGDVIEI 136 >gi|254500895|ref|ZP_05113046.1| pseudouridine synthase, RluA family [Labrenzia alexandrii DFL-11] gi|222436966|gb|EEE43645.1| pseudouridine synthase, RluA family [Labrenzia alexandrii DFL-11] Length = 341 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 33/255 (12%), Positives = 69/255 (27%), Gaps = 47/255 (18%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD- 63 V +R+ V+A SR ++ +I V + G + V D I + Sbjct: 19 TVDPEDAGKRIDAVLASHLETLSRNRIQSLIKAGDVSIGGAKIGEPKYRVNEGDEITLHL 78 Query: 64 ---------GVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 G + + + + +V + + V + Sbjct: 79 PEPEDPDPKGEDIPLSVVFEDAHVIVIDKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSG 138 Query: 107 -----RVISVGRLDINTEGLLLLTN-----------------DGGLARVLELPSTQWLRV 144 R V R+D +T GLL++ G L R Sbjct: 139 IGGVKRPGIVHRIDKDTSGLLVVAKTDQAHQGLAAQFADHGRTGPLERAYSALVWGAPSS 198 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------NAWVTVGLREGKN 198 + + + + N K +V + + + G+ + + L G+ Sbjct: 199 LKGTIDANLARSQANRQKMAVVKTSGRHAITHWQVKERFGAADQPPLASLMECRLETGRT 258 Query: 199 REIKKVFEFFNWKVN 213 +I+ + Sbjct: 259 HQIRVHMAHIGHPLL 273 >gi|183222495|ref|YP_001840491.1| pseudouridine synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189912533|ref|YP_001964088.1| 23S RNA-specific pseudouridylate synthase [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167777209|gb|ABZ95510.1| Pseudouridylate synthase, 23S RNA-specific [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167780917|gb|ABZ99215.1| Pseudouridine synthase (Uracil hydrolyase) [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 312 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 31/257 (12%), Positives = 67/257 (26%), Gaps = 45/257 (17%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGI-ASRREVERMIAQQRVKVN---GILLERAAVNVM 55 M+ V E++ R+ + AG SR V++ I V N ++ + V Sbjct: 1 MQIFVTVSEDYDQSRLDVFLKDNAGDDLSRSTVQKWIDSGFVT-NKTKDQVVHKNGYKVA 59 Query: 56 STDHIEVD--------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 + VD +P+ E + ++ K + D S V L Sbjct: 60 LGEEFVVDVIARPPSRLEPIAMDIPVLYDEDEFMVIHKKAGIACHSGPGDDSPSLVNGLL 119 Query: 102 PSIFSRVISVGRLDINTEGLLLLTNDG-------------------------GLARVLEL 136 + + G L +G + Sbjct: 120 YQFKNLSGTGGERRPGIVHRLDKPTEGVLIIAKTDRAHAALSKLFQDRLVEKTYYAWVLQ 179 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + + + +++ + Y ++ + + +GL G Sbjct: 180 APVEAEGTINMPIGRHPVERVKMCVREDGRMAITHYKTEKIVQTQTGRKFSLMKLGLETG 239 Query: 197 KNREIKKVFEFFNWKVN 213 + +I+ V Sbjct: 240 RTHQIRVHMAKVGCPVV 256 >gi|148262954|ref|YP_001229660.1| RluA family pseudouridine synthase [Geobacter uraniireducens Rf4] gi|146396454|gb|ABQ25087.1| ribosomal large subunit pseudouridine synthase D [Geobacter uraniireducens Rf4] Length = 320 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 28/244 (11%), Positives = 69/244 (28%), Gaps = 37/244 (15%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I EN +R+ IAR+ +R +R+I ++ V+G ++ ++ + + + V Sbjct: 7 IFPENSEIERLDSFIARSVNGMTRATAQRLIEAGQITVDGHP-QKPSLKLKGGERLMVTI 65 Query: 65 V--------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + +R + + +V + G + V L Sbjct: 66 PPPVAAEPAAETIPLEILFEDRNLVVVNKAAGMVVHPGAGNSGGTLVNALLGHCTDLSGI 125 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV---------------------RF 149 G L + G L + Q L R Sbjct: 126 GGELRPGIVHRIDKDTSGVLVVAKSDAAHQSLAEQFKEHTIKRVYLALVYGAPKDDKGRL 185 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + ++ + + + + + + + L G+ +I+ Sbjct: 186 ESHIGRHPVDRKRMSGKAKHGKHAVTHWRVVGRYRGITLLRLRLETGRTHQIRVHLSEAG 245 Query: 210 WKVN 213 + + Sbjct: 246 YPLV 249 >gi|291550387|emb|CBL26649.1| Uncharacterized conserved protein, contains S4-like domain [Ruminococcus torques L2-14] Length = 266 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 28/63 (44%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 D ++ + R+ ++ A +SR ++ +I +V VNG L+ V D I Sbjct: 178 PDLQQIKGTVSSVRLDSLLPLAFSSSRSKLSGLIEGAKVFVNGKLITSNGYQVKEGDLIS 237 Query: 62 VDG 64 V G Sbjct: 238 VRG 240 >gi|15672980|ref|NP_267154.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. lactis Il1403] gi|281491492|ref|YP_003353472.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. lactis KF147] gi|12723945|gb|AAK05096.1|AE006334_2 pseudouridine synthase [Lactococcus lactis subsp. lactis Il1403] gi|281375210|gb|ADA64723.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. lactis KF147] gi|326406542|gb|ADZ63613.1| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis subsp. lactis CV56] Length = 301 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 28/240 (11%), Positives = 56/240 (23%), Gaps = 35/240 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 + E R+ K +A SR + +I +V VN + D IE + Sbjct: 6 INEENKGLRLDKALANQTEYSRSLLTELIKNDKVFVNSEAKKAKYKV-KVGDRIEFEVPE 64 Query: 64 -----------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 + + + + +V + + V + I G Sbjct: 65 AEVLDIVAEDLPLEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHIKDLSSING 124 Query: 113 RLDINTEGLLLLTNDGGLARVLELPST--------------------QWLRVYRVRFHGQ 152 + + G L + Sbjct: 125 VIRPGIVHRIDKDTSGLLMIAKNDKAHESLAAQLKDKTSKRRYLAIVHGEIANDKGTIEA 184 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 L KK V+ G + + + + L G+ +I+ + V Sbjct: 185 PIGRNLKDRKKQAVVSGGKPAVTHFEVLERFYGYTLIALRLETGRTHQIRVHMNYIGHPV 244 >gi|284161758|ref|YP_003400381.1| RNA-binding S4 domain protein [Archaeoglobus profundus DSM 5631] gi|284011755|gb|ADB57708.1| RNA-binding S4 domain protein [Archaeoglobus profundus DSM 5631] Length = 209 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 14/67 (20%), Positives = 31/67 (46%), Gaps = 5/67 (7%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ +++ G S R++ + I ++ V VNG ++ + + +V I V L++ + Sbjct: 1 MRLDRLLVIKGYFSSRQKAKEAIRRRFVIVNGKVVTKPSYDVDFDVEIRV----LQEEKP 56 Query: 73 TRLWLYH 79 W Sbjct: 57 KGYWKLK 63 >gi|91070167|gb|ABE11088.1| FtsJ cell division protein:S4 domain:Hemolysin A [uncultured Prochlorococcus marinus clone HF10-11D6] Length = 270 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 10/54 (18%), Positives = 26/54 (48%), Gaps = 2/54 (3%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVD 63 R+ + G+ +R++ + +I +V+ +NG +L++ V+ +D Sbjct: 3 KKTRLDLYLLNKGLCETRQKAQGLILAGKVRDINGKVLDKPGQQVLIGSEFFID 56 >gi|269123124|ref|YP_003305701.1| 30S ribosomal protein S4 [Streptobacillus moniliformis DSM 12112] gi|268314450|gb|ACZ00824.1| ribosomal protein S4 [Streptobacillus moniliformis DSM 12112] Length = 195 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G S RR+ ++++ + +NG ++ A+ V D I + Sbjct: 89 RLDNVIYRLGFGSTRRQARQIVSHGHILINGKRVDIASYRVKQGDVITL 137 >gi|332970080|gb|EGK09077.1| ribosomal large subunit pseudouridine synthase D [Kingella kingae ATCC 23330] Length = 371 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 68/238 (28%), Gaps = 32/238 (13%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILL---------ERAAVNVM 55 IV + R+ +A+ SR + I V+ NG E +V + Sbjct: 31 IVPNDLAGMRLDAALAKLLPDYSRSRITTWIKDGFVQCNGKTASPKEKLIGGEELSVQIQ 90 Query: 56 STDH-------------IEVDGVPLRKAERTRLWLYHKPIGLVTT--HSDPDGRSTVFDN 100 +D + D + + L ++ T + + Sbjct: 91 QSDENQAYEPEHMDLNIVFEDDTVIVLNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQV 150 Query: 101 LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR-------VYRVRFHGQV 153 + + + L + + ++ + R + + + Sbjct: 151 PRAGIVHRLDKDTSGLMVVAKTLPAQNSLVQQLQNRTVKRIYRAVADGIVPFDGKIETLI 210 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +D N LK +V G V + + +++++ L G+ +I+ + Sbjct: 211 GRDPHNRLKMAVVKFGGKEAVTHVKVLERYHAHSYIECSLETGRTHQIRVHMKEARHP 268 >gi|225024812|ref|ZP_03714004.1| hypothetical protein EIKCOROL_01699 [Eikenella corrodens ATCC 23834] gi|224942415|gb|EEG23624.1| hypothetical protein EIKCOROL_01699 [Eikenella corrodens ATCC 23834] Length = 140 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 31 RLDNVVYRMGFGSTRAEARQLVSHKAILVNGEVVNIPSFQVKAGDTVSVREKAKKQVRIQ 90 >gi|171778695|ref|ZP_02919791.1| hypothetical protein STRINF_00643 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171282652|gb|EDT48076.1| hypothetical protein STRINF_00643 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 261 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 18/63 (28%), Positives = 33/63 (52%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K+ + + + R+ KV+A SR + ++I+ ++VKVN L+R + + D I Sbjct: 171 KESHQLDIMVSSMRLDKVLATVLKLSRSQAIQLISAEKVKVNYQTLDRPSEMLQFGDLIS 230 Query: 62 VDG 64 V G Sbjct: 231 VRG 233 >gi|154173855|ref|YP_001407891.1| ribosomal large subunit pseudouridine synthase D [Campylobacter curvus 525.92] gi|112803415|gb|EAU00759.1| ribosomal large subunit pseudouridine synthase D [Campylobacter curvus 525.92] Length = 323 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 33/239 (13%), Positives = 64/239 (26%), Gaps = 36/239 (15%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ +A SR + +I V VN + ++ + D I V Sbjct: 6 QTQSSRLDVALASELKISRNQATNLIKNALVSVNSKPALKPSMQLNQNDEICVKFALPKE 65 Query: 63 -------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG--- 112 + E + + +KP +V + +T+ + L + ++ Sbjct: 66 KTNDYEANFEIPVIYEDEDILVLNKPPQIVVHQAPSVKEATLVEWLNQKGFMLSNLNGDL 125 Query: 113 ------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 + L + + L T + Sbjct: 126 RAGIVHRLDKGTSGAIVVAKNNAAHAALSAQLNDKSMGRIYLALTDLPLKQECIIDKPIG 185 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + N LK GIV G + L N + L G+ +I+ N + Sbjct: 186 RSPSNRLKMGIVTNGRHAKSAFLNLVQTDEVN-LIAAKLFTGRTHQIRAHLASINRHIL 243 >gi|296111936|ref|YP_003622318.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154] gi|295833468|gb|ADG41349.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154] Length = 308 Score = 52.9 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 72/247 (29%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M +K I+ R+ ++A+ SR + + + VN ++R + V D Sbjct: 1 MMEKTIINITTQVGRIDAILAKEDLQYSRTTLAEWLQNGHILVNNNKVKR-SYKVSVGDT 59 Query: 60 IEV------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + +P + + L + +V + + V L Sbjct: 60 ISIFPPEVASTEIIAEDIPLDIVYEDNDILVVNKPQGMVVHPAAGHSSGTLVNALLHHAP 119 Query: 106 SRVISVGRLDINTEG---------LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 I+ ++ + A +L + + R+Y G+ +D Sbjct: 120 LSTINGTFRPGIVHRIDRDTSGLLMVAKNDVAHKALSAQLKAHKNDRIYYALVRGEFSED 179 Query: 157 ----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K+ V G + + + V L G+ +I+ Sbjct: 180 SGTINAPIGRHPVDRKRQAVQVGGREAITHFEVVHRYVGFTLLKVRLETGRTHQIRVHLT 239 Query: 207 FFNWKVN 213 + + Sbjct: 240 YIGHPIV 246 >gi|298376939|ref|ZP_06986893.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_1_19] gi|298265923|gb|EFI07582.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 3_1_19] Length = 359 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 24/248 (9%), Positives = 55/248 (22%), Gaps = 41/248 (16%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-E 61 + + + + RV K + R A+R ++ + VN ++ V D + Sbjct: 34 RFVADKGQSLLRVDKFLVDRMMGATRNRIQLAAEAGCILVNDKPVKS-NYRVKPLDVVSV 92 Query: 62 VDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V P + + L + +V + V + Sbjct: 93 VMDRPRRELEIIPEDIPLNIVYEDDDLLVVNKPAGLVVHPGHGNYTGTLVNALAYYLKDD 152 Query: 108 VISVG------------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 + L + Sbjct: 153 PYYDPSDPRLGLVHRIDKDTSGLLVVAKRPEAKSNLSLQFFNKTTKRKYRALVWGIVQED 212 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 R+ + D + T+ + G + V L G+ +I+ Sbjct: 213 EGRIEGNIGRDPRDRMQMTVFPEGDQGKTAVTHYTVLERLGYVSLVECRLETGRTHQIRV 272 Query: 204 VFEFFNWK 211 ++ Sbjct: 273 HMKYIGHT 280 >gi|289423095|ref|ZP_06424910.1| hemolysin A [Peptostreptococcus anaerobius 653-L] gi|289156426|gb|EFD05076.1| hemolysin A [Peptostreptococcus anaerobius 653-L] Length = 292 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 1/56 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ ++ G ASR + R I V VN +++ V I V G + Sbjct: 4 RIDVLLVDFGYFASREQARRTIMAGNVFVNNQRVDKPGTAVKIDSEILVKGKQIPY 59 >gi|293390711|ref|ZP_06635045.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter actinomycetemcomitans D7S-1] gi|290951245|gb|EFE01364.1| ribosomal large subunit pseudouridine synthase D [Aggregatibacter actinomycetemcomitans D7S-1] Length = 324 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 60/239 (25%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 VQ + QR+ + +A SR ++ I + V VNG++ V + IE+ Sbjct: 9 TVQSHQMGQRLDQTLAELFPDYSRSCLKTWIEEDLVLVNGVVQNVPRSKVYGDEQIEITV 68 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + + + L Sbjct: 69 EIEDETRFEPENIPLNIVYEDDDILVINKPKDLVVHPGAGNPSGTVLNALLYHYPPIAEV 128 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 129 PRAGIVHRLDKDTTGLMVVAKTIPAQTQLVRDLQKRKITREYEAVACGIMTKGGMVDEPM 188 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 189 ARHPTKRTHMAVHPMGKPAVTHYRIMERFRDYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >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 = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 35/122 (28%), Positives = 53/122 (43%), Gaps = 2/122 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS-TDHIEVDGVPLRKAER 72 R+ K+I +R+E++R+ A ++V V+G + R NV S IEV G L E Sbjct: 1 MRLDKLIEEKLETTRKEMKRLFALKQVMVDGTVEFRQNRNVDSLLHRIEVAGEHLETNES 60 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L + F + VGRLD +T GLLL+T++G L Sbjct: 61 -YYLLNKPKKAVTAVSDPEKTTVIDLIASADRFQPLYPVGRLDRDTTGLLLITSNGQLGY 119 Query: 133 VL 134 + Sbjct: 120 EM 121 >gi|150390556|ref|YP_001320605.1| RluA family pseudouridine synthase [Alkaliphilus metalliredigens QYMF] gi|149950418|gb|ABR48946.1| pseudouridine synthase, RluA family [Alkaliphilus metalliredigens QYMF] Length = 310 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 31/241 (12%), Positives = 69/241 (28%), Gaps = 37/241 (15%) Query: 9 ENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGI--------------LLERAAVN 53 E R+ IA SR ++++I V V+G ++ Sbjct: 10 EEDEGVRLDIYIAEQYDDLSRSYIQKVIKDNGVTVDGRPEKNRYIVKVGQVIVVSLPEAK 69 Query: 54 -------------VMSTDHIEVDGVP----LRKAERTRLWLYHKPIGLVTT----HSDPD 92 V D + V P + A + + Sbjct: 70 ELEVTAQNIPLDIVYEDDDLLVVNKPQDMVVHPAPGNYENTMVNALLYHCKGKLSSINGI 129 Query: 93 GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ 152 R + + S ++ V + + + L D R S ++ R + Sbjct: 130 IRPGIVHRIDKDTSGLLMVAKNNHAHQFLSEQLKDHSTTRKYHGISVGTIKEERATINAP 189 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + + L K V+ G + + + G + ++ L G+ +I+ + + Sbjct: 190 IARHQTDRL-KMAVLAGGRNAVTHIQVLNRFGDHTYMEAQLETGRTHQIRVHLGYIGHPL 248 Query: 213 N 213 Sbjct: 249 L 249 >gi|238922856|ref|YP_002936369.1| 30S ribosomal protein S4 [Eubacterium rectale ATCC 33656] gi|259495279|sp|C4ZBU5|RS4_EUBR3 RecName: Full=30S ribosomal protein S4 gi|238874528|gb|ACR74235.1| 30S ribosomal protein S4 [Eubacterium rectale ATCC 33656] gi|291523756|emb|CBK89343.1| SSU ribosomal protein S4P [Eubacterium rectale DSM 17629] gi|291528778|emb|CBK94364.1| SSU ribosomal protein S4P [Eubacterium rectale M104/1] Length = 197 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A +R+E +++ + V VNG ++ + V + D IE+ Sbjct: 88 RIDNVIFRLGFARTRKEARQIVDHKFVTVNGKVVNIPSYLVKAGDVIEI 136 >gi|227497602|ref|ZP_03927823.1| possible pseudouridylate synthase [Actinomyces urogenitalis DSM 15434] gi|226832928|gb|EEH65311.1| possible pseudouridylate synthase [Actinomyces urogenitalis DSM 15434] Length = 304 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 31/236 (13%), Positives = 59/236 (25%), Gaps = 36/236 (15%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE----------- 61 +RV +AR SR +V + AQ V+++G +L ++ V + IE Sbjct: 12 GERVDAALARMTGLSRSKVSELCAQGGVRMDGAVLGKSDRLV-AGSLIEVDLPDPRPLGP 70 Query: 62 ----VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 VDG+ L + + + DG + S Sbjct: 71 APTPVDGMSLVYEDEDIVVVDKPAGIAAHPSMGWDGPDVLGALKAMHVQVATSGAAERQG 130 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------------K 157 L + G + + L+ Sbjct: 131 IVSRLDVGTSGAMIVAKGERAYSVLKRAFREHEVDKIYHALVQGHLDPSSGTIDAPIGRH 190 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K +I G + + + L G+ +I+ Sbjct: 191 PSREWKMAIIDGGRESVTHYDVIESMPAADLAEIHLETGRTHQIRVHMSAVGHPCV 246 >gi|150020881|ref|YP_001306235.1| RluA family pseudouridine synthase [Thermosipho melanesiensis BI429] gi|149793402|gb|ABR30850.1| pseudouridine synthase, RluA family [Thermosipho melanesiensis BI429] Length = 306 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 33/244 (13%), Positives = 75/244 (30%), Gaps = 38/244 (15%) Query: 7 VQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V R+ K I SR ++R I V VN ++ + + + D + Sbjct: 6 VTAREKGWRLDKFIQEKAPDWISRTYIQRAIKSGMVTVNNE-EKKPSYKLKNGDVVSFEL 64 Query: 63 --DGVPLR----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + E + + +K G+VT + T+ + L + Sbjct: 65 PEEPKKVEILPENLPLKIIYEDKDIIVVNKDPGVVTHPTPTFLSGTLVNALMYHCNDFQG 124 Query: 111 VG---------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 +G RLD +T G++++ + + L + + + K Sbjct: 125 IGGELRPGIVHRLDKDTSGVIVVAKNDKAHQSLSMQFKERKTEKTYIAIVSGEVKKNYGT 184 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTV-------GL-----REGKNREIKKVFEFFN 209 + + +D K + + V L + G+ +I+ ++ Sbjct: 185 IDVPLGRNPVVRTKIAPVDWGKNAITYFKVIKRFKNATLLLAFPKTGRTHQIRVHMKYIG 244 Query: 210 WKVN 213 + Sbjct: 245 HPLL 248 >gi|220928062|ref|YP_002504971.1| pseudouridine synthase [Clostridium cellulolyticum H10] gi|219998390|gb|ACL74991.1| pseudouridine synthase, RluA family [Clostridium cellulolyticum H10] Length = 304 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 33/250 (13%), Positives = 78/250 (31%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK+ I+ + R+ +A SR ++++ V NGI ++ V + D+ Sbjct: 1 MKE-FILNCDTDGVRIDSWLAGNLEDYSRSYIQKLCLDGNVWANGIQVKS-NYRVKTDDN 58 Query: 60 IEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V D P + ++ + + +V + V + Sbjct: 59 IKVNVPEAEILDVEPEDIPLDIVYEDKHIIVINKPKGMVVHPAVGNYTGTLVNALMKHCG 118 Query: 106 S---------RVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLR 143 R V R+D +T GLL++ L + Sbjct: 119 DSLSDINGVIRPGIVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKREYIALVDGIIY 178 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + ++ + K + + + + + ++ + L G+ +I+ Sbjct: 179 ENSGKIDAPIGRNPVERKKMCVNTENGRNAITHFKVLERFQNATYLELKLETGRTHQIRV 238 Query: 204 VFEFFNWKVN 213 + N + Sbjct: 239 HMAYINHPII 248 >gi|83745881|ref|ZP_00942938.1| Ribosomal large subunit pseudouridine synthase D [Ralstonia solanacearum UW551] gi|207743017|ref|YP_002259409.1| ribosomal large subunit pseudouridine synthase d protein [Ralstonia solanacearum IPO1609] gi|83727571|gb|EAP74692.1| Ribosomal large subunit pseudouridine synthase D [Ralstonia solanacearum UW551] gi|206594414|emb|CAQ61341.1| ribosomal large subunit pseudouridine synthase d protein [Ralstonia solanacearum IPO1609] Length = 370 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 40/245 (16%), Positives = 67/245 (27%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + E +R+ K +A+ SR +++ I V+V G + V D IEV Sbjct: 55 IPETLHGERLDKALAKLLPDYSRSRLQQWIDAGAVRVGGAAVR-PREAVCGGDRIEVVPQ 113 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 + + T L + +V + + + L Sbjct: 114 RAADENAFVAEPIDLDVVYEDDTLLVINKPAGLVVHPAAGNWSGTVLNGLLHRYPQAAGL 173 Query: 107 -RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ------------- 152 R V RLD T GL+++ L Sbjct: 174 PRAGIVHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWGETPEAGTIDAPI 233 Query: 153 -VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG---LREGKNREIKKVFEFF 208 D + G TLD A V++ L G+ +I+ FE Sbjct: 234 GRDPRDRTRMAIIETASGKPARTHFKTLDVIDLGRAQVSLVQCQLETGRTHQIRVHFESE 293 Query: 209 NWKVN 213 + Sbjct: 294 GHPLL 298 >gi|315194077|gb|EFU24470.1| hypothetical protein CGSSa00_05208 [Staphylococcus aureus subsp. aureus CGS00] Length = 268 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 182 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQG 241 >gi|313681945|ref|YP_004059683.1| hemolysin a [Sulfuricurvum kujiense DSM 16994] gi|313154805|gb|ADR33483.1| hemolysin A [Sulfuricurvum kujiense DSM 16994] Length = 236 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 9/55 (16%), Positives = 25/55 (45%), Gaps = 1/55 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ + G SR + +++I + V V G ++++ + +V + + + Sbjct: 1 MRLDSYLVEQGFVESRTKAQQLIKEHAVSVEGKIVDKVSFDVAEGMEVVLADTEI 55 >gi|302336354|ref|YP_003801561.1| SSU ribosomal protein S4P [Olsenella uli DSM 7084] gi|301320194|gb|ADK68681.1| SSU ribosomal protein S4P [Olsenella uli DSM 7084] Length = 197 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 4/70 (5%) Query: 1 MKDKNIVQENFTPQ---RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK I +N R+ V+ R G A +R+E + + + VNG ++ + V + Sbjct: 71 MKRDGIAGDNLMSILETRLDNVVFRLGFARTRKEARQTVRHGHITVNGRRVDIPSYQVKA 130 Query: 57 TDHIEVDGVP 66 D + V Sbjct: 131 GDVVAVAPKA 140 >gi|282910764|ref|ZP_06318567.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus WBG10049] gi|282325369|gb|EFB55678.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus WBG10049] Length = 268 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 182 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQG 241 >gi|282916441|ref|ZP_06324203.1| hypothetical protein SATG_01276 [Staphylococcus aureus subsp. aureus D139] gi|283770253|ref|ZP_06343145.1| YlmH [Staphylococcus aureus subsp. aureus H19] gi|282319881|gb|EFB50229.1| hypothetical protein SATG_01276 [Staphylococcus aureus subsp. aureus D139] gi|283460400|gb|EFC07490.1| YlmH [Staphylococcus aureus subsp. aureus H19] gi|298694482|gb|ADI97704.1| hypothetical protein SAOV_1192 [Staphylococcus aureus subsp. aureus ED133] gi|302332796|gb|ADL22989.1| S4 RNA binding domain protein [Staphylococcus aureus subsp. aureus JKD6159] Length = 268 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 182 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQG 241 >gi|258423765|ref|ZP_05686651.1| conserved hypothetical protein [Staphylococcus aureus A9635] gi|257845997|gb|EEV70025.1| conserved hypothetical protein [Staphylococcus aureus A9635] Length = 268 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 182 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQG 241 >gi|49483354|ref|YP_040578.1| hypothetical protein SAR1167 [Staphylococcus aureus subsp. aureus MRSA252] gi|257427905|ref|ZP_05604303.1| YlmH [Staphylococcus aureus subsp. aureus 65-1322] gi|257430538|ref|ZP_05606920.1| YlmH protein [Staphylococcus aureus subsp. aureus 68-397] gi|257433299|ref|ZP_05609657.1| YlmH protein [Staphylococcus aureus subsp. aureus E1410] gi|257436141|ref|ZP_05612188.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M876] gi|282903743|ref|ZP_06311631.1| YlmH protein [Staphylococcus aureus subsp. aureus C160] gi|282905507|ref|ZP_06313362.1| hypothetical protein SDAG_01131 [Staphylococcus aureus subsp. aureus Btn1260] gi|282913967|ref|ZP_06321754.1| YlmH protein [Staphylococcus aureus subsp. aureus M899] gi|282918889|ref|ZP_06326624.1| hypothetical protein SASG_00195 [Staphylococcus aureus subsp. aureus C427] gi|282924012|ref|ZP_06331688.1| hypothetical protein SARG_01553 [Staphylococcus aureus subsp. aureus C101] gi|293501000|ref|ZP_06666851.1| hypothetical protein SCAG_01530 [Staphylococcus aureus subsp. aureus 58-424] gi|293509958|ref|ZP_06668667.1| hypothetical protein SAZG_01859 [Staphylococcus aureus subsp. aureus M809] gi|293526547|ref|ZP_06671232.1| YlmH protein [Staphylococcus aureus subsp. aureus M1015] gi|297591365|ref|ZP_06950003.1| S4 domain-containing protein YlmH [Staphylococcus aureus subsp. aureus MN8] gi|4009496|gb|AAC95463.1| YlmH [Staphylococcus aureus] gi|49241483|emb|CAG40169.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus MRSA252] gi|257274746|gb|EEV06233.1| YlmH [Staphylococcus aureus subsp. aureus 65-1322] gi|257278666|gb|EEV09285.1| YlmH protein [Staphylococcus aureus subsp. aureus 68-397] gi|257281392|gb|EEV11529.1| YlmH protein [Staphylococcus aureus subsp. aureus E1410] gi|257284423|gb|EEV14543.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M876] gi|282313984|gb|EFB44376.1| hypothetical protein SARG_01553 [Staphylococcus aureus subsp. aureus C101] gi|282316699|gb|EFB47073.1| hypothetical protein SASG_00195 [Staphylococcus aureus subsp. aureus C427] gi|282322035|gb|EFB52359.1| YlmH protein [Staphylococcus aureus subsp. aureus M899] gi|282330799|gb|EFB60313.1| hypothetical protein SDAG_01131 [Staphylococcus aureus subsp. aureus Btn1260] gi|282595361|gb|EFC00325.1| YlmH protein [Staphylococcus aureus subsp. aureus C160] gi|290920619|gb|EFD97682.1| YlmH protein [Staphylococcus aureus subsp. aureus M1015] gi|291096005|gb|EFE26266.1| hypothetical protein SCAG_01530 [Staphylococcus aureus subsp. aureus 58-424] gi|291467408|gb|EFF09925.1| hypothetical protein SAZG_01859 [Staphylococcus aureus subsp. aureus M809] gi|297576251|gb|EFH94967.1| S4 domain-containing protein YlmH [Staphylococcus aureus subsp. aureus MN8] gi|312438432|gb|ADQ77503.1| S4 domain-containing protein YlmH [Staphylococcus aureus subsp. aureus TCH60] Length = 268 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 182 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQG 241 >gi|289548511|ref|YP_003473499.1| hemolysin A [Thermocrinis albus DSM 14484] gi|289182128|gb|ADC89372.1| hemolysin A [Thermocrinis albus DSM 14484] Length = 258 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + G+A +R + + +I V V+G ++++ + T+ +E+ Sbjct: 1 MRLDVYLVEKGLAPTREKAQALIMAGMVTVDGRVVDKPGFRLKGTEKVEL 50 >gi|46198486|ref|YP_004153.1| hemolysin [Thermus thermophilus HB27] gi|46196108|gb|AAS80526.1| hemolysin [Thermus thermophilus HB27] Length = 235 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 28/50 (56%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G+ SR + +R+I + +V+V G ++++ A V +E+ Sbjct: 1 MRLDRYLVERGLVESREKAKRLIQEGKVRVGGKVVQKPAHPVPEGAAVEL 50 >gi|295132692|ref|YP_003583368.1| ribosomal large subunit pseudouridine synthase D [Zunongwangia profunda SM-A87] gi|294980707|gb|ADF51172.1| ribosomal large subunit pseudouridine synthase D [Zunongwangia profunda SM-A87] Length = 352 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 33/248 (13%), Positives = 73/248 (29%), Gaps = 41/248 (16%) Query: 4 KNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 K I ++ P RV K + A+R ++++ + VN + +++ V + D ++V Sbjct: 24 KFIAEKGQNPLRVDKYLMNYIEKATRNKIQKAAKDGNIYVNDVPVKQ-NYKVKAGDVVQV 82 Query: 63 DGVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS- 106 + + T L + +V + + + + Sbjct: 83 MFEHPPYEFLLTPENIPLDIVYEDDTLLVVNKPAGMVVHPGHGNYSGTLINALVYHFENL 142 Query: 107 ------RVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRV 147 R V R+D +T GLL++ L + Sbjct: 143 PNNSSDRPGLVHRIDKDTSGLLVIAKTEHAMAHLSKQFFDKTSEREYIAIVWGNVEEDEG 202 Query: 148 RFHGQVDQDKLNLLKKGIV--IQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKK 203 G + + N L+ + + + + G V L G+ +I+ Sbjct: 203 TVEGNIGRHPKNRLQNTVYEGEDAEKGKPAVTHLKVLERFGYVTLVACKLETGRTHQIRV 262 Query: 204 VFEFFNWK 211 + Sbjct: 263 HMKHIGHT 270 >gi|325272032|ref|ZP_08138475.1| 30S ribosomal protein S4 [Pseudomonas sp. TJI-51] gi|324102836|gb|EGC00240.1| 30S ribosomal protein S4 [Pseudomonas sp. TJI-51] Length = 206 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ V+ R G S R E ++++ + + VNG + + V D + V L + Sbjct: 97 RLDNVVYRMGFGSTRSESRQLVSHKAISVNGKTVNIPSYQVRPGDVVAVREKSLSQ 152 >gi|283470402|emb|CAQ49613.1| RNA-binding S4 domain protein [Staphylococcus aureus subsp. aureus ST398] Length = 268 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 182 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQG 241 >gi|238061095|ref|ZP_04605804.1| 30S ribosomal protein S4 [Micromonospora sp. ATCC 39149] gi|237882906|gb|EEP71734.1| 30S ribosomal protein S4 [Micromonospora sp. ATCC 39149] Length = 208 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ RAG A SR +++ VNG ++ + V D IEV G Sbjct: 99 RLDNVVYRAGYAKSRDMARQLVKHGHFTVNGKKVDIPSYRVKEHDIIEVRGK 150 >gi|194039327|ref|XP_001926827.1| PREDICTED: zinc finger protein 318 [Sus scrofa] Length = 2282 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 19/112 (16%), Positives = 33/112 (29%), Gaps = 5/112 (4%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + H +E+ SS + + ++ + + Sbjct: 7 RSSVSSHRPKESGGGGPRTGRSSGSSSGPARRTSPPSSGSSSSRTPARRPRSPSGHRGRR 66 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQR-----EENHRRSPSFPSKRSLR 348 A+P R + +G +S G+R R SPS P R R Sbjct: 67 ASPSPPRGRRGSPSPPRGRRASPSPPRGRRVSPSPPRARRGSPSSPPPRGRR 118 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 18/108 (16%), Positives = 31/108 (28%), Gaps = 2/108 (1%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + V+ P S R + S +S + + ++ +P Sbjct: 3 RSGARSSVSSHRPKESGGGGPRTGRSSGSSSGPARRTSPPSSGSSSSRTPARRPRSPSGH 62 Query: 308 RNLASNVWMAKGIHSSFLSDSGQR--EENHRRSPSFPSKRSLRRTSAK 353 R ++ +G S G+R R PS RR S Sbjct: 63 RGRRASPSPPRGRRGSPSPPRGRRASPSPPRGRRVSPSPPRARRGSPS 110 Score = 45.9 bits (107), Expect = 0.009, Method: Composition-based stats. Identities = 15/115 (13%), Positives = 29/115 (25%), Gaps = 2/115 (1%) Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + R + SS T R + + + + Sbjct: 23 PRTGRSSGSSSGPARRTSPPSSGSSSSRTPARRPRSPSGHRGRRASPSPPRGRRGSPSPP 82 Query: 298 QKKLATPVHRRNLA--SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + A+P R + A+ S G+R + S R R+ Sbjct: 83 RGRRASPSPPRGRRVSPSPPRARRGSPSSPPPRGRRLFPPGSAGFRGSSRGDSRS 137 Score = 45.2 bits (105), Expect = 0.015, Method: Composition-based stats. Identities = 13/112 (11%), Positives = 23/112 (20%), Gaps = 5/112 (4%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN-----GLSKQKKLA 302 + + R S P R + + ++ Sbjct: 50 RTPARRPRSPSGHRGRRASPSPPRGRRGSPSPPRGRRASPSPPRGRRVSPSPPRARRGSP 109 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R + G S DS R S RR+ + Sbjct: 110 SSPPPRGRRLFPPGSAGFRGSSRGDSRSDFARDGRGDHPGDSGSRRRSPGLR 161 >gi|157363559|ref|YP_001470326.1| hemolysin A [Thermotoga lettingae TMO] gi|157314163|gb|ABV33262.1| hemolysin A [Thermotoga lettingae TMO] Length = 265 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 11/37 (29%), Positives = 17/37 (45%) Query: 26 ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ASR + +I RV VNG + + D I++ Sbjct: 16 ASRSQARDLIKLGRVVVNGKICRKPGTICFEEDEIKL 52 >gi|150009274|ref|YP_001304017.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides distasonis ATCC 8503] gi|255015880|ref|ZP_05288006.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 2_1_7] gi|256841839|ref|ZP_05547345.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides sp. D13] gi|262384161|ref|ZP_06077297.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 2_1_33B] gi|301311073|ref|ZP_07217002.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 20_3] gi|149937698|gb|ABR44395.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides distasonis ATCC 8503] gi|256736733|gb|EEU50061.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides sp. D13] gi|262295059|gb|EEY82991.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 2_1_33B] gi|300831136|gb|EFK61777.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp. 20_3] Length = 359 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 24/248 (9%), Positives = 55/248 (22%), Gaps = 41/248 (16%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE- 61 + + + + RV K + R A+R ++ + VN ++ V D + Sbjct: 34 RFVADKGQSLLRVDKFLVDRMMGATRNRIQLAAEAGCILVNDKPVKS-NYRVKPLDVVSI 92 Query: 62 VDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V P + + L + +V + V + Sbjct: 93 VMDRPRRELEIIPEDIPLNIVYEDDDLLVVNKPAGLVVHPGHGNYTGTLVNALAYYLKDD 152 Query: 108 VISVG------------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLR 143 + L + Sbjct: 153 PYYDPSDPRLGLVHRIDKDTSGLLVVAKRPEAKSNLSLQFFNKTTKRKYRALVWGIVQED 212 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 R+ + D + T+ + G + V L G+ +I+ Sbjct: 213 EGRIEGNIGRDPRDRMQMTVFPEGDQGKTAVTHYTVLERLGYVSLVECRLETGRTHQIRV 272 Query: 204 VFEFFNWK 211 ++ Sbjct: 273 HMKYIGHT 280 >gi|149202314|ref|ZP_01879287.1| Pseudouridine synthase, RluD [Roseovarius sp. TM1035] gi|149144412|gb|EDM32443.1| Pseudouridine synthase, RluD [Roseovarius sp. TM1035] Length = 342 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 4/54 (7%) Query: 13 PQRVSKVIAR----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 PQR+ K + R A + SR + R++ + V+VNG ++ A V + D IE+ Sbjct: 15 PQRLDKALVRDVPEAAVLSRTRLARLLEEGAVRVNGAVVSEAKARVQAGDLIEI 68 >gi|116620238|ref|YP_822394.1| hemolysin A [Candidatus Solibacter usitatus Ellin6076] gi|116223400|gb|ABJ82109.1| hemolysin A [Candidatus Solibacter usitatus Ellin6076] Length = 240 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 1/48 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 R+ ++I G+ SR + + +I V+VNG + V S IE Sbjct: 4 RLDRLIVDRGLVESREKAQALIMAGEVRVNGQKAAKPGQPVESDCKIE 51 >gi|325293793|ref|YP_004279657.1| ribosomal large subunit pseudouridine synthase D [Agrobacterium sp. H13-3] gi|325061646|gb|ADY65337.1| ribosomal large subunit pseudouridine synthase D [Agrobacterium sp. H13-3] Length = 340 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 34/250 (13%), Positives = 64/250 (25%), Gaps = 51/250 (20%) Query: 15 RVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------DGVP 66 R+ +A G SR ++ +I Q V +NG + V D +E+ D P Sbjct: 24 RIDVWLAGEVGGDLSRSRLKALIEQGAVLLNGTPVTEPKKKVHPHDRVEIVMPEPEDPEP 83 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RVI 109 + + + L +V + + V + R Sbjct: 84 KGEDIPLDVEYEDDDLIVLVKPAGLVVHPGAGNWTGTLVNALIYHCGDSLSGIGGVKRPG 143 Query: 110 SVGRLDINTEGLLLLTNDGGLARV-----LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 V RLD T G++++ + R + T L + + Sbjct: 144 IVHRLDKETSGVMVVAKNDNAHRHLAAQFADHGRTGPLERAYKAVVWGRPRTLRGTIDAA 203 Query: 165 IVIQGICYGDMQVTLDTQKGSN---------------------AWVTVGLREGKNREIKK 203 + DT + V L G+ +I+ Sbjct: 204 LGRGADRTKRAVKREDTDDAREAITHYEVMERFHEKADASCLASMVECRLETGRTHQIRV 263 Query: 204 VFEFFNWKVN 213 + Sbjct: 264 HMAHIGHPLI 273 >gi|258511739|ref|YP_003185173.1| hemolysin A [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478465|gb|ACV58784.1| hemolysin A [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 279 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ ++ AR ASR R I V+V+G+ ++ V H+EV+ Sbjct: 5 RLDLLLVARGLYASREAARRAIMAGLVRVDGVRADKPGFKVAEDAHVEVE 54 >gi|304393474|ref|ZP_07375402.1| ribosomal RNA large subunit methyltransferase J [Ahrensia sp. R2A130] gi|303294481|gb|EFL88853.1| ribosomal RNA large subunit methyltransferase J [Ahrensia sp. R2A130] Length = 250 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 27/59 (45%), Gaps = 1/59 (1%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ T R +++ G+A SR MI + V + G + + ++ IEVD Sbjct: 1 MSQSPTKLRADQLLVERGMAPSRSRAADMIKRGCVMIAGTPITKPGQSLAPDSTIEVDD 59 >gi|296269986|ref|YP_003652618.1| hemolysin A [Thermobispora bispora DSM 43833] gi|296092773|gb|ADG88725.1| hemolysin A [Thermobispora bispora DSM 43833] Length = 269 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 T R+ + + R G+A SR R+I RV V G + E+ A V + I V Sbjct: 2 TRVRLDRELVRRGLARSREHAARLIEAGRVYVRGSVAEKPATQVDTGAPIVV 53 >gi|168186171|ref|ZP_02620806.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum C str. Eklund] gi|169295643|gb|EDS77776.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum C str. Eklund] Length = 304 Score = 52.9 bits (125), Expect = 8e-05, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 66/248 (26%), Gaps = 35/248 (14%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGI------LLERAAV 52 MK K+ + E+ R+ I++ SR +++I ++ V VN L+ Sbjct: 1 MKIKDFLINESEVNSRLDVFISKCFEEKSRSYAQKLIEEKNVFVNNSSKKSNYKLKIGDY 60 Query: 53 ---NVMSTDHIEVDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 + + I + ++ + + + +V + + V L Sbjct: 61 VEIKIKEDEKINIKPEDIKLNIIYEDEDVIVIDKPQGMVVHPGAGNYSGTLVNGLLYHCD 120 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 S G + + G L + L + + Sbjct: 121 SLSSINGDVRPGIVHRIDKDTSGVLVVAKNDSAHIILSEQLKEHSMKREYIALVEGIIKN 180 Query: 156 ----------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 K V++ + + N V L G+ +I+ Sbjct: 181 DEGIIDAPLGRNPKDRIKRAVVRNGKSAVTHYNVLRRFNKNTLVKCILETGRTHQIRVHM 240 Query: 206 EFFNWKVN 213 N + Sbjct: 241 AHINHPLV 248 >gi|329117696|ref|ZP_08246413.1| ribosomal protein S4 [Streptococcus parauberis NCFD 2020] gi|326908101|gb|EGE55015.1| ribosomal protein S4 [Streptococcus parauberis NCFD 2020] Length = 203 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVDPGQVISV 142 >gi|325570254|ref|ZP_08146120.1| ribosomal large subunit pseudouridine synthase D [Enterococcus casseliflavus ATCC 12755] gi|325156737|gb|EGC68911.1| ribosomal large subunit pseudouridine synthase D [Enterococcus casseliflavus ATCC 12755] Length = 302 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 30/245 (12%), Positives = 65/245 (26%), Gaps = 37/245 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K ++ + RV KV+A SR +V++ + + V + G + A V + DH+ Sbjct: 3 KQIEVIIKEEKG-RVDKVLAERLPDHSRSQVQQWLKEDAVTLEGETVR-ANYKVKAGDHL 60 Query: 61 EVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 + P + + + +V + + V L + Sbjct: 61 VIQVPEPEVVGLEPENIPLTIVYQDADVAVINKPQGMVVHPSAGHPNGTLVNALLYHMDD 120 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ----------- 155 + + G L + + L Sbjct: 121 LSTINDVVRPGIVHRIDKDTSGLLMIAKNDQAHESLAKQLKDKTSLRKYVALVHGNISHE 180 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K VI+ T+ + V + L G+ +I+ + Sbjct: 181 KGTINAPIGRSKVNRKMQAVIENGKPAVTHFTVLERFDQFTLVELQLETGRTHQIRVHMQ 240 Query: 207 FFNWK 211 + + Sbjct: 241 YIGFP 245 >gi|300857220|ref|YP_003782204.1| 30S ribosomal protein S4 [Clostridium ljungdahlii DSM 13528] gi|300437335|gb|ADK17102.1| 30S ribosomal protein S4 [Clostridium ljungdahlii DSM 13528] Length = 206 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 1/68 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ VI R G SR E +++ VNG ++ + V D+I V + Sbjct: 99 RLDNVIYRLGYGQSRAEARQLVTHGHFLVNGRKVDIPSFKVSVNDNITVSDKSKSSEKFK 158 Query: 74 RLWLYHKP 81 K Sbjct: 159 TFAENPKT 166 >gi|255067434|ref|ZP_05319289.1| ribosomal protein S4 [Neisseria sicca ATCC 29256] gi|261364879|ref|ZP_05977762.1| ribosomal protein S4 [Neisseria mucosa ATCC 25996] gi|255048229|gb|EET43693.1| ribosomal protein S4 [Neisseria sicca ATCC 29256] gi|288566927|gb|EFC88487.1| ribosomal protein S4 [Neisseria mucosa ATCC 25996] Length = 206 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 156 >gi|94995345|ref|YP_603443.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS10750] gi|152112267|sp|Q1J462|RS4_STRPF RecName: Full=30S ribosomal protein S4 gi|94548853|gb|ABF38899.1| SSU ribosomal protein S4P [Streptococcus pyogenes MGAS10750] Length = 203 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVDPGQVISV 142 >gi|290580942|ref|YP_003485334.1| hypothetical protein SmuNN2025_1416 [Streptococcus mutans NN2025] gi|254997841|dbj|BAH88442.1| hypothetical protein [Streptococcus mutans NN2025] Length = 262 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 15/58 (25%), Positives = 30/58 (51%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R+ K+IA SRR+ ++I ++VK+N ++ + + + D I V G Sbjct: 177 MNVLVSSMRLDKIIAAVLKLSRRKANQLIESEKVKLNYLVQPKVSHLIDIGDLISVRG 234 >gi|254495736|ref|ZP_05108651.1| 30S ribosomal protein S4 [Legionella drancourtii LLAP12] gi|254355049|gb|EET13669.1| 30S ribosomal protein S4 [Legionella drancourtii LLAP12] Length = 206 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R E +++ + + VN ++ + V D + V Sbjct: 97 RLDNVVYRMGFASTRAEARQLVTHKAILVNDKVVNVPSFLVSPGDVVTV 145 >gi|229823967|ref|ZP_04450036.1| hypothetical protein GCWU000282_01271 [Catonella morbi ATCC 51271] gi|229786321|gb|EEP22435.1| hypothetical protein GCWU000282_01271 [Catonella morbi ATCC 51271] Length = 202 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 11/47 (23%), Positives = 23/47 (48%), Gaps = 1/47 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 R+ ++ R G A+ RR+ +++ V V+G ++ + V I Sbjct: 93 RLDNLVYRLGFATTRRQARQLVNHGHVTVDGKRVDIPSYLVTPGQVI 139 >gi|121534494|ref|ZP_01666317.1| hemolysin A [Thermosinus carboxydivorans Nor1] gi|121306987|gb|EAX47906.1| hemolysin A [Thermosinus carboxydivorans Nor1] Length = 268 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ + G+AS RE + I V+V+G +++A V I V G + Sbjct: 4 ERLDVLLVKRGLASSRERAKAWIMAGLVRVDGQRVDKAGAMVPLMADIVVTGDNIGY 60 >gi|296284607|ref|ZP_06862605.1| pseudouridine synthase D large subunit [Citromicrobium bathyomarinum JL354] Length = 314 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 13/45 (28%), Positives = 21/45 (46%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 P R+ K +A A SR ++ +IA +V V G + V + Sbjct: 14 PARLDKALADATDLSRERIKGLIADGQVSVGGKRATSPSAKVAAG 58 >gi|15675914|ref|NP_270088.1| 30S ribosomal protein S4 [Streptococcus pyogenes M1 GAS] gi|19747014|ref|NP_608150.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS8232] gi|21911369|ref|NP_665637.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS315] gi|28896741|ref|NP_803091.1| 30S ribosomal protein S4 [Streptococcus pyogenes SSI-1] gi|50915197|ref|YP_061169.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS10394] gi|71904527|ref|YP_281330.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS6180] gi|71911644|ref|YP_283194.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS5005] gi|94989474|ref|YP_597575.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS9429] gi|94991461|ref|YP_599561.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS10270] gi|94993361|ref|YP_601460.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS2096] gi|139474603|ref|YP_001129319.1| 30S ribosomal protein S4 [Streptococcus pyogenes str. Manfredo] gi|251783531|ref|YP_002997836.1| 30S ribosomal protein S4 [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|306826445|ref|ZP_07459757.1| 30S ribosomal protein S4 [Streptococcus pyogenes ATCC 10782] gi|54039513|sp|P66568|RS4_STRP3 RecName: Full=30S ribosomal protein S4 gi|54039514|sp|P66569|RS4_STRP8 RecName: Full=30S ribosomal protein S4 gi|54041965|sp|P66567|RS4_STRP1 RecName: Full=30S ribosomal protein S4 gi|61215413|sp|Q5X9C7|RS4_STRP6 RecName: Full=30S ribosomal protein S4 gi|90101729|sp|Q48QN5|RS4_STRPM RecName: Full=30S ribosomal protein S4 gi|152112264|sp|Q1J995|RS4_STRPB RecName: Full=30S ribosomal protein S4 gi|152112265|sp|Q1JJE2|RS4_STRPC RecName: Full=30S ribosomal protein S4 gi|152112266|sp|Q1JEE1|RS4_STRPD RecName: Full=30S ribosomal protein S4 gi|152112268|sp|A2RGZ8|RS4_STRPG RecName: Full=30S ribosomal protein S4 gi|13623152|gb|AAK34809.1| 30S ribosomal protein S4 [Streptococcus pyogenes M1 GAS] gi|19749271|gb|AAL98649.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS8232] gi|21905585|gb|AAM80440.1| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS315] gi|28811995|dbj|BAC64924.1| 30S ribosomal protein S4 [Streptococcus pyogenes SSI-1] gi|50904271|gb|AAT87986.1| SSU ribosomal protein S4P [Streptococcus pyogenes MGAS10394] gi|71803622|gb|AAX72975.1| SSU ribosomal protein S4P [Streptococcus pyogenes MGAS6180] gi|71854426|gb|AAZ52449.1| SSU ribosomal protein S4P [Streptococcus pyogenes MGAS5005] gi|94542982|gb|ABF33031.1| SSU ribosomal protein S4P [Streptococcus pyogenes MGAS9429] gi|94544969|gb|ABF35017.1| SSU ribosomal protein S4P [Streptococcus pyogenes MGAS10270] gi|94546869|gb|ABF36916.1| SSU ribosomal protein S4P [Streptococcus pyogenes MGAS2096] gi|134272850|emb|CAM31130.1| 30S ribosomal protein S4 [Streptococcus pyogenes str. Manfredo] gi|242392163|dbj|BAH82622.1| 30S ribosomal protein S4 [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|304431375|gb|EFM34372.1| 30S ribosomal protein S4 [Streptococcus pyogenes ATCC 10782] Length = 203 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVDPGQVISV 142 >gi|148545913|ref|YP_001266015.1| RluA family pseudouridine synthase [Pseudomonas putida F1] gi|148509971|gb|ABQ76831.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas putida F1] Length = 352 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 33/235 (14%), Positives = 64/235 (27%), Gaps = 38/235 (16%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTD------------- 58 QR+ +V A+ SR + I + R+ V+G ++ V Sbjct: 49 GQRLDQVAAQLFAEYSRSRLTSWIKEGRLTVDGAVVR-PRDLVHGGSLLALEAEQEAQGE 107 Query: 59 ----HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--- 111 IE+D + + L + +V + + + L + V Sbjct: 108 WIAEDIELD---IVYEDDHILVINKPAGLVVHPAAGHASGTLLNALLHHVPDIVNVPRAG 164 Query: 112 --GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 RLD +T GL+++ L + I G Sbjct: 165 IVHRLDKDTTGLMVVAKTLQAQTKLVEQMQARKVSRIYECIVIGVVTAGGKIDAPIGRHG 224 Query: 170 IC---------YGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + S+ V V L G+ +I+ + + Sbjct: 225 GMRQRMAVTDGGKPAVSHYRVLKRFRSHTHVRVKLETGRTHQIRVHMAHVGFPLV 279 >gi|323456406|gb|EGB12273.1| hypothetical protein AURANDRAFT_61319 [Aureococcus anophagefferens] Length = 221 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 25/48 (52%) Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 ++WV + + +GK +++K+ + RL+R G ++G + G Sbjct: 152 HSWVALTVLDGKYHQVRKMTAAVGFPTLRLVRARIGHLRVGAMRPGDV 199 >gi|254412697|ref|ZP_05026470.1| S4 domain protein [Microcoleus chthonoplastes PCC 7420] gi|196180432|gb|EDX75423.1| S4 domain protein [Microcoleus chthonoplastes PCC 7420] Length = 68 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 1/60 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + ++ + + G+AS E + MI V VNGI+ R ++ D + V G Sbjct: 1 MTNPIQSIKLDQFLKWVGVASTGGEAKLMIQDGDVTVNGIIETRRGRKLVEGDLVSVQGE 60 >gi|241206033|ref|YP_002977129.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240859923|gb|ACS57590.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 341 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 32/287 (11%), Positives = 79/287 (27%), Gaps = 53/287 (18%) Query: 3 DKNIVQENFTPQ-RVSKVI-ARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 ++ ++ + + + R+ + A+ G SR ++ +I +V + G + V + D Sbjct: 11 NRKVLTADESAEGRLDAWLTAQVGEEFSRSRIKALIKDGQVFLRGEPVTDPQRKVRTGDS 70 Query: 60 IEV----------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E+ G + + + + +V + + V + Sbjct: 71 FELTLPEPEDPTPQGEDIPLDILHEDDDVIVISKPSGLVVHPGAGNWTGTLVNALIHHCS 130 Query: 106 SRVISVGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + + +G + T +++ ND + + + R + V Sbjct: 131 NTLSGIGGVRRPGIVHRLDKDTTGVMVVAKNDIAHRHLSLQFADHGRTMPLERAYQAVVW 190 Query: 156 DKLNLLKKGI-----VIQGICYGDMQVTLDTQKGSN---------------------AWV 189 + L + G D+Q + V Sbjct: 191 GRPRSLSGMVDAPLGRATGDRTRRAVKRPDSQDADEAITHYQVVERFHEKPDATAFASLV 250 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L G+ +I+ + G LL R++ Sbjct: 251 ECRLETGRTHQIRVHMAHIGHPLLGDTVYGAGFKTKANLLPEEIRKI 297 >gi|160944264|ref|ZP_02091493.1| hypothetical protein FAEPRAM212_01773 [Faecalibacterium prausnitzii M21/2] gi|158444446|gb|EDP21450.1| hypothetical protein FAEPRAM212_01773 [Faecalibacterium prausnitzii M21/2] Length = 71 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 13/65 (20%), Positives = 28/65 (43%), Gaps = 1/65 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ ++ AG+ + E + ++ VKVNG + + D IE+DG + Sbjct: 7 HTEFIKLDALLKFAGLCETGGEAKELVQGGAVKVNGEVCTMRGKKCRAGDVIELDGQSVE 66 Query: 69 KAERT 73 + Sbjct: 67 IGQGQ 71 >gi|167031523|ref|YP_001666754.1| 30S ribosomal protein S4 [Pseudomonas putida GB-1] gi|189045393|sp|B0KK90|RS4_PSEPG RecName: Full=30S ribosomal protein S4 gi|166858011|gb|ABY96418.1| ribosomal protein S4 [Pseudomonas putida GB-1] Length = 206 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ V+ R G S R E ++++ + + VNG + + V D + V L + Sbjct: 97 RLDNVVYRMGFGSTRSESRQLVSHKAISVNGKTVNIPSYQVRPGDVVAVREKSLAQ 152 >gi|18308985|ref|NP_560919.1| S4 domain protein [Clostridium perfringens str. 13] gi|110799682|ref|YP_694478.1| S4 domain-containing protein [Clostridium perfringens ATCC 13124] gi|110802524|ref|YP_697354.1| S4 domain-containing protein [Clostridium perfringens SM101] gi|168212006|ref|ZP_02637631.1| S4 domain protein [Clostridium perfringens B str. ATCC 3626] gi|168215269|ref|ZP_02640894.1| S4 domain protein [Clostridium perfringens CPE str. F4969] gi|168218304|ref|ZP_02643929.1| S4 domain protein [Clostridium perfringens NCTC 8239] gi|182627058|ref|ZP_02954783.1| S4 domain protein YaaA [Clostridium perfringens D str. JGS1721] gi|18143660|dbj|BAB79709.1| conserved hypothetical protein [Clostridium perfringens str. 13] gi|110674329|gb|ABG83316.1| S4 domain protein [Clostridium perfringens ATCC 13124] gi|110683025|gb|ABG86395.1| S4 domain protein [Clostridium perfringens SM101] gi|170710067|gb|EDT22249.1| S4 domain protein [Clostridium perfringens B str. ATCC 3626] gi|170713333|gb|EDT25515.1| S4 domain protein [Clostridium perfringens CPE str. F4969] gi|177907584|gb|EDT70223.1| S4 domain protein YaaA [Clostridium perfringens D str. JGS1721] gi|182379687|gb|EDT77166.1| S4 domain protein [Clostridium perfringens NCTC 8239] Length = 68 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 8/73 (10%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M++ I N ++ + G + S E + I V VNG + + + Sbjct: 1 MQEVKI---NTEFIKLDSFLKWCGAVSLGS--EAKMFIMDGEVLVNGEVCTQRGKKLRVD 55 Query: 58 DHIEVDGVPLRKA 70 D +E +G + Sbjct: 56 DTVEFNGEIYKLI 68 >gi|322391286|ref|ZP_08064757.1| 30S ribosomal protein S4 [Streptococcus peroris ATCC 700780] gi|321145890|gb|EFX41280.1| 30S ribosomal protein S4 [Streptococcus peroris ATCC 700780] Length = 203 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 150 >gi|77411416|ref|ZP_00787762.1| ylmH protein [Streptococcus agalactiae CJB111] gi|77162502|gb|EAO73467.1| ylmH protein [Streptococcus agalactiae CJB111] Length = 262 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 32/63 (50%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + + R+ K++A SR++ ++I +VKVN ++ R + ++ D I Sbjct: 172 QDIQKLTVIASSLRLDKILATILKISRKQSTKLIEADKVKVNYAIVNRVSEQLVEGDLIS 231 Query: 62 VDG 64 V G Sbjct: 232 VRG 234 >gi|319956455|ref|YP_004167718.1| pseudouridine synthase [Nitratifractor salsuginis DSM 16511] gi|319418859|gb|ADV45969.1| pseudouridine synthase [Nitratifractor salsuginis DSM 16511] Length = 243 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 21/199 (10%), Positives = 56/199 (28%), Gaps = 4/199 (2%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD---GVPLRKAERTR 74 K++A S ++ + +I + V V + A + ++ V + + Sbjct: 6 KLLAAQEGISNKKAKELIDRGLVYVGDQKVRIARAEMPEETKFRIEEPADVKIIYQDEQV 65 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVL 134 + + + + + L S V+ + R + + + + + Sbjct: 66 VAVNKPAFIDSYEIEEAIEGAQLLHRLDRDTSGVLLLARDEAFAKKAIEAFRQRKVHKEY 125 Query: 135 ELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + K K G +V D +G + V + + Sbjct: 126 VAWVEGVVVEPFEIDLPIHTIKKGKAFSKIDKKLGKPALT-KVWPDEVQGKKSKVRIEIE 184 Query: 195 EGKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 185 TGRTHQIRVHLAHVGHPIV 203 >gi|281411684|ref|YP_003345763.1| pseudouridine synthase, RluA family [Thermotoga naphthophila RKU-10] gi|281372787|gb|ADA66349.1| pseudouridine synthase, RluA family [Thermotoga naphthophila RKU-10] Length = 311 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 13/59 (22%), Positives = 30/59 (50%), Gaps = 3/59 (5%) Query: 7 VQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V++ R+ + + SR +++ I + +VKVNG + ++ + + + +EVD Sbjct: 6 VEKREEGWRLDQFLKEKTPSWISRSMIQKAIKEGKVKVNGQI-KKPSYKLKEGEIVEVD 63 >gi|16125573|ref|NP_420137.1| hemolysin A [Caulobacter crescentus CB15] gi|13422669|gb|AAK23305.1| hemolysin A [Caulobacter crescentus CB15] Length = 243 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 1/47 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 R+ +++ G+ SR + I RV V G ++ + + V + Sbjct: 5 RIDQLLVDRGVFDSRAKARAAIEAGRVSVAGRVVAKPSEQVDDNAEV 51 >gi|288929438|ref|ZP_06423283.1| ribosomal large subunit pseudouridine synthase D [Prevotella sp. oral taxon 317 str. F0108] gi|288329540|gb|EFC68126.1| ribosomal large subunit pseudouridine synthase D [Prevotella sp. oral taxon 317 str. F0108] Length = 349 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 37/249 (14%), Positives = 75/249 (30%), Gaps = 42/249 (16%) Query: 4 KNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +V P R+ + + +SR +++ V VN ++ V D I + Sbjct: 23 RIVVDRGQVPVRIDRFMTERLQHSSRNRIQKAADAGFVHVNERPVKS-NYKVRPGDVITL 81 Query: 63 -------------DGVPLRK-AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 + +PL E L + +KP G+V + T+ + + + Sbjct: 82 MLDRPHHDTTIEAEDIPLDVVYEDDALMVINKPAGMVVHPGAGNFHGTLINAVAWHLRNM 141 Query: 109 ISV----------GRLDINTEGLLLLTNDGG-------------LARVLELPSTQWLRVY 145 S R+D +T GLL++ R Sbjct: 142 PSFDANDPEVGLVHRIDKDTSGLLVVAKTPEAKRKLGLQFFNKTTHRSYNALVWANFAED 201 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICY-GDM--QVTLDTQKGSNAWVTVGLREGKNREIK 202 R G + +D + L+ + + + G +V L G+ +I+ Sbjct: 202 EGRIEGNIGRDPRDRLRMAVFPPDSETGKPAVTHYRVLERFGYVTFVECILETGRTHQIR 261 Query: 203 KVFEFFNWK 211 + Sbjct: 262 AHMKHIGHP 270 >gi|295676473|ref|YP_003604997.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1002] gi|295436316|gb|ADG15486.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1002] Length = 416 Score = 52.5 bits (124), Expect = 9e-05, Method: Composition-based stats. Identities = 36/251 (14%), Positives = 67/251 (26%), Gaps = 40/251 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +V +R+ KV+A+ SR ++ I QRV+V+G + V I Sbjct: 67 PRRVVVPNELAGERLDKVLAKVFPEFSRSRLQSWIEAQRVRVDGKPAK-IRQPVPLGATI 125 Query: 61 E-----------VDGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E P + + T + + +V + + + L Sbjct: 126 ELVPDLLPEQLAFTPEPVPLEIVYEDDTLVVINKPAGMVVHPAAGNWSGTVLNGLLHRYG 185 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 R V RLD T GL+++ L R + Sbjct: 186 ETAAGLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPDEG 245 Query: 160 LLKKGIVIQ-----------GICYGDMQVTL------DTQKGSNAWVTVGLREGKNREIK 202 + I G + Q+ + L G+ +I+ Sbjct: 246 TIDAPIGRDPRERTRMAVVTGAAGKPARTHFRRVASAIWQRQPVTAIHCDLETGRTHQIR 305 Query: 203 KVFEFFNWKVN 213 + Sbjct: 306 VHCAHIGHPLL 316 >gi|197335573|ref|YP_002155322.1| ribosomal large subunit pseudouridine synthase D [Vibrio fischeri MJ11] gi|197317063|gb|ACH66510.1| ribosomal large subunit pseudouridine synthase D [Vibrio fischeri MJ11] Length = 324 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V+E+ QR+ + A SR ++ + + VNG ++ +A + VM + I V Sbjct: 10 TVKESQLGQRLDQAAAELFSDFSRSRIKEWLLAGNMTVNGEVVTKARLKVMGGEEITVKA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + + + L + Sbjct: 70 ELEDEERWLAQDISLDIVYEDDDLLVINKPRDFVVHPGAGTPDGTVLNALLFHYPNIAEV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRKITREYEAVVVGRMTAGGMIEKPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N V + + + + + L G+ +I+ + + Sbjct: 190 GRHPNKRTLMAVHELGKDAVTHYRVAEHFRIHTRIRLRLETGRTHQIRVHMSYLQHPLV 248 >gi|251796324|ref|YP_003011055.1| hemolysin A [Paenibacillus sp. JDR-2] gi|247543950|gb|ACT00969.1| hemolysin A [Paenibacillus sp. JDR-2] Length = 278 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G SR + + + V VN +++ + V I+V G Sbjct: 7 ERIDVLLVERGFYESREKAKAAVMAGLVLVNNEPVDKGGMKVPREAEIKVKGAIHPY 63 >gi|296125314|ref|YP_003632566.1| pseudouridine synthase [Brachyspira murdochii DSM 12563] gi|296017130|gb|ADG70367.1| pseudouridine synthase [Brachyspira murdochii DSM 12563] Length = 336 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 65/242 (26%), Gaps = 37/242 (15%) Query: 5 NIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--- 60 I + R+ K + SR + + +I Q V +NG ++ + D I Sbjct: 25 RIEENIDDSIRLDKYMGDRFSYYSRNKWQDLIGQGLVLLNGKKVK-YTRTINKGDEIEYH 83 Query: 61 -------EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 EVD + L + +KP L S +T+ + + + I++ Sbjct: 84 IIGMKEPEVDKNVTIIYDDGDLIIANKPANLPVIPSGKYYHNTLHTIVKQMLNCNINMLN 143 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRV-------------------------R 148 ++ + G + + Sbjct: 144 RIDRETSGCVVMSRGHETASKFCAMIARRKNTKKKIKKTYIAVVENAKNIEDNFIVEGYM 203 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + I+G Y + G A V L G+ +I+ Sbjct: 204 LESGHEYYRRFQTLHKENIEGSKYSKTAFKTIKRLGDYAIVMARLYTGRMHQIRVHLYSK 263 Query: 209 NW 210 N Sbjct: 264 NL 265 >gi|169343468|ref|ZP_02864468.1| S4 domain protein [Clostridium perfringens C str. JGS1495] gi|169298420|gb|EDS80509.1| S4 domain protein [Clostridium perfringens C str. JGS1495] Length = 68 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 8/73 (10%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M++ I N ++ + G + S E + I V VNG + + + Sbjct: 1 MQEVKI---NTEFIKLDSFLKWCGAVSLGS--EAKIFIMNGEVLVNGEVCTQRGKKLRVD 55 Query: 58 DHIEVDGVPLRKA 70 D +E +G + Sbjct: 56 DTVEFNGEIYKLI 68 >gi|94992201|ref|YP_600300.1| ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS2096] gi|94545709|gb|ABF35756.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus pyogenes MGAS2096] Length = 64 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + QR+ K +A SR + I Q V VNG ++A V + D I + Sbjct: 3 INVITSGQRLDKALADLSPLSRGQANDQIKQGLVLVNGQQ-KKAKYTVQAGDVICFE 58 >gi|15900029|ref|NP_344633.1| 30S ribosomal protein S4 [Streptococcus pneumoniae TIGR4] gi|15902122|ref|NP_357672.1| 30S ribosomal protein S4 [Streptococcus pneumoniae R6] gi|111656925|ref|ZP_01407747.1| hypothetical protein SpneT_02001834 [Streptococcus pneumoniae TIGR4] gi|116516581|ref|YP_815552.1| 30S ribosomal protein S4 [Streptococcus pneumoniae D39] gi|148985431|ref|ZP_01818636.1| ribosomal protein S4 [Streptococcus pneumoniae SP3-BS71] gi|148987815|ref|ZP_01819278.1| ribosomal protein S4 [Streptococcus pneumoniae SP6-BS73] gi|148993925|ref|ZP_01823308.1| 30S ribosomal protein S4 [Streptococcus pneumoniae SP9-BS68] gi|148996492|ref|ZP_01824210.1| ribosomal protein S4 [Streptococcus pneumoniae SP11-BS70] gi|149001831|ref|ZP_01826804.1| ribosomal protein S4 [Streptococcus pneumoniae SP14-BS69] gi|149007938|ref|ZP_01831516.1| ribosomal protein S4 [Streptococcus pneumoniae SP18-BS74] gi|149010947|ref|ZP_01832252.1| ribosomal protein S4 [Streptococcus pneumoniae SP19-BS75] gi|149017758|ref|ZP_01834217.1| ribosomal protein S4 [Streptococcus pneumoniae SP23-BS72] gi|168483611|ref|ZP_02708563.1| ribosomal protein S4 [Streptococcus pneumoniae CDC1873-00] gi|168486664|ref|ZP_02711172.1| ribosomal protein S4 [Streptococcus pneumoniae CDC1087-00] gi|168489443|ref|ZP_02713642.1| ribosomal protein S4 [Streptococcus pneumoniae SP195] gi|168492605|ref|ZP_02716748.1| ribosomal protein S4 [Streptococcus pneumoniae CDC0288-04] gi|168493783|ref|ZP_02717926.1| ribosomal protein S4 [Streptococcus pneumoniae CDC3059-06] gi|168577080|ref|ZP_02722909.1| ribosomal protein S4 [Streptococcus pneumoniae MLV-016] gi|169832653|ref|YP_001693607.1| 30S ribosomal protein S4 [Streptococcus pneumoniae Hungary19A-6] gi|182683053|ref|YP_001834800.1| 30S ribosomal protein S4 [Streptococcus pneumoniae CGSP14] gi|194398306|ref|YP_002036801.1| 30S ribosomal protein S4 [Streptococcus pneumoniae G54] gi|221231025|ref|YP_002510177.1| 30S ribosomal protein S4 [Streptococcus pneumoniae ATCC 700669] gi|225853713|ref|YP_002735225.1| 30S ribosomal protein S4 [Streptococcus pneumoniae JJA] gi|225855868|ref|YP_002737379.1| 30S ribosomal protein S4 [Streptococcus pneumoniae P1031] gi|225857950|ref|YP_002739460.1| 30S ribosomal protein S4 [Streptococcus pneumoniae 70585] gi|225860120|ref|YP_002741629.1| 30S ribosomal protein S4 [Streptococcus pneumoniae Taiwan19F-14] gi|237649598|ref|ZP_04523850.1| 30S ribosomal protein S4 [Streptococcus pneumoniae CCRI 1974] gi|237821538|ref|ZP_04597383.1| 30S ribosomal protein S4 [Streptococcus pneumoniae CCRI 1974M2] gi|270291733|ref|ZP_06197949.1| ribosomal protein S4 [Streptococcus sp. M143] gi|289166998|ref|YP_003445265.1| 30S ribosomal protein S4 [Streptococcus mitis B6] gi|293364636|ref|ZP_06611357.1| 30S ribosomal protein S4 [Streptococcus oralis ATCC 35037] gi|298230010|ref|ZP_06963691.1| 30S ribosomal protein S4 [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254521|ref|ZP_06978107.1| 30S ribosomal protein S4 [Streptococcus pneumoniae str. Canada MDR_19A] gi|298501873|ref|YP_003723813.1| 30S ribosomal protein S4 [Streptococcus pneumoniae TCH8431/19A] gi|303254819|ref|ZP_07340919.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS455] gi|303259128|ref|ZP_07345106.1| 30S ribosomal protein S4 [Streptococcus pneumoniae SP-BS293] gi|303260885|ref|ZP_07346834.1| 30S ribosomal protein S4 [Streptococcus pneumoniae SP14-BS292] gi|303263212|ref|ZP_07349135.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS397] gi|303267315|ref|ZP_07353176.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS457] gi|303269590|ref|ZP_07355351.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS458] gi|306826273|ref|ZP_07459607.1| 30S ribosomal protein S4 [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|306828536|ref|ZP_07461731.1| 30S ribosomal protein S4 [Streptococcus mitis ATCC 6249] gi|307066759|ref|YP_003875725.1| hypothetical protein SPAP_0129 [Streptococcus pneumoniae AP200] gi|307126310|ref|YP_003878341.1| 30S ribosomal protein S4 [Streptococcus pneumoniae 670-6B] gi|307702893|ref|ZP_07639841.1| ribosomal protein S4 [Streptococcus oralis ATCC 35037] gi|307705409|ref|ZP_07642267.1| ribosomal protein S4 [Streptococcus mitis SK597] gi|307707985|ref|ZP_07644460.1| ribosomal protein S4 [Streptococcus mitis NCTC 12261] gi|307710135|ref|ZP_07646579.1| ribosomal protein S4 [Streptococcus mitis SK564] gi|307711286|ref|ZP_07647707.1| ribosomal protein S4 [Streptococcus mitis SK321] gi|315612070|ref|ZP_07886987.1| 30S ribosomal protein S4 [Streptococcus sanguinis ATCC 49296] gi|322376030|ref|ZP_08050540.1| ribosomal protein S4 [Streptococcus sp. C300] gi|322378050|ref|ZP_08052537.1| ribosomal protein S4 [Streptococcus sp. M334] gi|322386473|ref|ZP_08060100.1| 30S ribosomal protein S4 [Streptococcus cristatus ATCC 51100] gi|331265518|ref|YP_004325148.1| 30S ribosomal protein S4 [Streptococcus oralis Uo5] gi|54039512|sp|P66566|RS4_STRR6 RecName: Full=30S ribosomal protein S4 gi|54041964|sp|P66565|RS4_STRPN RecName: Full=30S ribosomal protein S4 gi|122279509|sp|Q04MZ3|RS4_STRP2 RecName: Full=30S ribosomal protein S4 gi|226695082|sp|B5E5W8|RS4_STRP4 RecName: Full=30S ribosomal protein S4 gi|226695083|sp|B1I7Y6|RS4_STRPI RecName: Full=30S ribosomal protein S4 gi|226695084|sp|B2IRG4|RS4_STRPS RecName: Full=30S ribosomal protein S4 gi|254764612|sp|C1C9Y5|RS4_STRP7 RecName: Full=30S ribosomal protein S4 gi|254764613|sp|B8ZJX3|RS4_STRPJ RecName: Full=30S ribosomal protein S4 gi|254764615|sp|C1CBQ4|RS4_STRZJ RecName: Full=30S ribosomal protein S4 gi|254764616|sp|C1CHZ1|RS4_STRZP RecName: Full=30S ribosomal protein S4 gi|254764617|sp|C1CNV7|RS4_STRZT RecName: Full=30S ribosomal protein S4 gi|14971552|gb|AAK74273.1| ribosomal protein S4 [Streptococcus pneumoniae TIGR4] gi|15457613|gb|AAK98882.1| 30S Ribosomal protein S4 [Streptococcus pneumoniae R6] gi|116077157|gb|ABJ54877.1| ribosomal protein S4 [Streptococcus pneumoniae D39] gi|147757067|gb|EDK64106.1| ribosomal protein S4 [Streptococcus pneumoniae SP11-BS70] gi|147760289|gb|EDK67278.1| ribosomal protein S4 [Streptococcus pneumoniae SP14-BS69] gi|147760561|gb|EDK67536.1| ribosomal protein S4 [Streptococcus pneumoniae SP18-BS74] gi|147764583|gb|EDK71513.1| ribosomal protein S4 [Streptococcus pneumoniae SP19-BS75] gi|147922389|gb|EDK73509.1| ribosomal protein S4 [Streptococcus pneumoniae SP3-BS71] gi|147926279|gb|EDK77352.1| ribosomal protein S4 [Streptococcus pneumoniae SP6-BS73] gi|147927632|gb|EDK78658.1| 30S ribosomal protein S4 [Streptococcus pneumoniae SP9-BS68] gi|147931322|gb|EDK82300.1| ribosomal protein S4 [Streptococcus pneumoniae SP23-BS72] gi|168995155|gb|ACA35767.1| ribosomal protein S4 [Streptococcus pneumoniae Hungary19A-6] gi|172043018|gb|EDT51064.1| ribosomal protein S4 [Streptococcus pneumoniae CDC1873-00] gi|182628387|gb|ACB89335.1| 30S ribosomal protein S4 [Streptococcus pneumoniae CGSP14] gi|183570308|gb|EDT90836.1| ribosomal protein S4 [Streptococcus pneumoniae CDC1087-00] gi|183572140|gb|EDT92668.1| ribosomal protein S4 [Streptococcus pneumoniae SP195] gi|183573248|gb|EDT93776.1| ribosomal protein S4 [Streptococcus pneumoniae CDC0288-04] gi|183576019|gb|EDT96547.1| ribosomal protein S4 [Streptococcus pneumoniae CDC3059-06] gi|183577316|gb|EDT97844.1| ribosomal protein S4 [Streptococcus pneumoniae MLV-016] gi|194357973|gb|ACF56421.1| 30S ribosomal protein S4 [Streptococcus pneumoniae G54] gi|220673485|emb|CAR67956.1| 30S ribosomal protein S4 [Streptococcus pneumoniae ATCC 700669] gi|225720035|gb|ACO15889.1| ribosomal protein S4 [Streptococcus pneumoniae 70585] gi|225723223|gb|ACO19076.1| ribosomal protein S4 [Streptococcus pneumoniae JJA] gi|225724355|gb|ACO20207.1| ribosomal protein S4 [Streptococcus pneumoniae P1031] gi|225727282|gb|ACO23133.1| ribosomal protein S4 [Streptococcus pneumoniae Taiwan19F-14] gi|270279818|gb|EFA25659.1| ribosomal protein S4 [Streptococcus sp. M143] gi|288906563|emb|CBJ21396.1| 30S ribosomal protein S4 [Streptococcus mitis B6] gi|291316894|gb|EFE57326.1| 30S ribosomal protein S4 [Streptococcus oralis ATCC 35037] gi|298237468|gb|ADI68599.1| 30S ribosomal protein S4 [Streptococcus pneumoniae TCH8431/19A] gi|301793388|emb|CBW35753.1| 30S ribosomal protein S4 [Streptococcus pneumoniae INV104] gi|301799257|emb|CBW31777.1| 30S ribosomal protein S4 [Streptococcus pneumoniae OXC141] gi|301801046|emb|CBW33713.1| 30S ribosomal protein S4 [Streptococcus pneumoniae INV200] gi|302598256|gb|EFL65302.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS455] gi|302637722|gb|EFL68208.1| 30S ribosomal protein S4 [Streptococcus pneumoniae SP14-BS292] gi|302639546|gb|EFL70003.1| 30S ribosomal protein S4 [Streptococcus pneumoniae SP-BS293] gi|302640864|gb|EFL71250.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS458] gi|302643166|gb|EFL73452.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS457] gi|302646985|gb|EFL77209.1| 30S ribosomal protein S4 [Streptococcus pneumoniae BS397] gi|304429335|gb|EFM32420.1| 30S ribosomal protein S4 [Streptococcus mitis ATCC 6249] gi|304431549|gb|EFM34531.1| 30S ribosomal protein S4 [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|306408296|gb|ADM83723.1| hypothetical protein SPAP_0129 [Streptococcus pneumoniae AP200] gi|306483372|gb|ADM90241.1| ribosomal protein S4 [Streptococcus pneumoniae 670-6B] gi|307616050|gb|EFN95248.1| ribosomal protein S4 [Streptococcus mitis NCTC 12261] gi|307616937|gb|EFN96116.1| ribosomal protein S4 [Streptococcus mitis SK321] gi|307619115|gb|EFN98247.1| ribosomal protein S4 [Streptococcus mitis SK564] gi|307621040|gb|EFO00119.1| ribosomal protein S4 [Streptococcus mitis SK597] gi|307623573|gb|EFO02562.1| ribosomal protein S4 [Streptococcus oralis ATCC 35037] gi|315315872|gb|EFU63907.1| 30S ribosomal protein S4 [Streptococcus sanguinis ATCC 49296] gi|321269392|gb|EFX52325.1| 30S ribosomal protein S4 [Streptococcus cristatus ATCC 51100] gi|321278980|gb|EFX56023.1| ribosomal protein S4 [Streptococcus sp. C300] gi|321281032|gb|EFX58045.1| ribosomal protein S4 [Streptococcus sp. M334] gi|326682190|emb|CBY99806.1| 30S ribosomal protein S4 [Streptococcus oralis Uo5] gi|327390493|gb|EGE88833.1| ribosomal protein S4 [Streptococcus pneumoniae GA04375] gi|332075747|gb|EGI86214.1| ribosomal protein S4 [Streptococcus pneumoniae GA17570] gi|332076539|gb|EGI87001.1| ribosomal protein S4 [Streptococcus pneumoniae GA17545] gi|332077392|gb|EGI87853.1| ribosomal protein S4 [Streptococcus pneumoniae GA41301] gi|332202009|gb|EGJ16078.1| ribosomal protein S4 [Streptococcus pneumoniae GA41317] gi|332204104|gb|EGJ18169.1| ribosomal protein S4 [Streptococcus pneumoniae GA47901] gi|332205115|gb|EGJ19178.1| ribosomal protein S4 [Streptococcus pneumoniae GA47368] Length = 203 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 150 >gi|322387048|ref|ZP_08060660.1| 30S ribosomal protein S4 [Streptococcus infantis ATCC 700779] gi|321142132|gb|EFX37625.1| 30S ribosomal protein S4 [Streptococcus infantis ATCC 700779] Length = 203 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 150 >gi|295100786|emb|CBK98331.1| Uncharacterized conserved protein, contains S4-like domain [Faecalibacterium prausnitzii L2-6] Length = 273 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 14/63 (22%), Positives = 27/63 (42%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ + + R+ V+A SR ++A RV++N + + A V +D V Sbjct: 187 ERRLQTATVSSLRLDAVLAAMLRCSRGMAAELVAAGRVEINHLPVSSAHAPVYESDVFTV 246 Query: 63 DGV 65 G Sbjct: 247 RGK 249 >gi|295427677|ref|ZP_06820309.1| hypothetical protein SIAG_00197 [Staphylococcus aureus subsp. aureus EMRSA16] gi|295128035|gb|EFG57669.1| hypothetical protein SIAG_00197 [Staphylococcus aureus subsp. aureus EMRSA16] Length = 259 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 173 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQG 232 >gi|168207734|ref|ZP_02633739.1| S4 domain protein [Clostridium perfringens E str. JGS1987] gi|170660936|gb|EDT13619.1| S4 domain protein [Clostridium perfringens E str. JGS1987] Length = 68 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 8/73 (10%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMST 57 M++ I N ++ + G + S E + I V VNG + + + Sbjct: 1 MQEVKI---NTEFIKLDSFLKWCGAVSLGS--EAKMFIMNGEVLVNGEVCTQRGKKLRVD 55 Query: 58 DHIEVDGVPLRKA 70 D +E +G + Sbjct: 56 DTVEFNGEIYKLI 68 >gi|88607282|ref|YP_504969.1| ribosomal large subunit pseudouridine synthase A [Anaplasma phagocytophilum HZ] gi|88598345|gb|ABD43815.1| ribosomal large subunit pseudouridine synthase, RluA family [Anaplasma phagocytophilum HZ] Length = 324 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 30/268 (11%), Positives = 76/268 (28%), Gaps = 43/268 (16%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVK------VNGI---------LLERAA----VNVM 55 R+ +I+ + SR + + +I+ V +N + ++ Sbjct: 17 RLDVLISASLNISRSKAQCIISDGGVTLLDTPVLNNSHLTNTGDVYTVTVPDTPQSTSID 76 Query: 56 STD----HIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS- 110 HI + + ++ H G + + L ++ + Sbjct: 77 PNHDIPLHIIYEDEHIIVIDKAPNIAVHPGHGTKNDTLAHALLAHCGNALCAVGNSHRPG 136 Query: 111 -VGRLDINTEGLLLLTN-------------DGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + RLD +T GL+++ + + +D Sbjct: 137 IIHRLDKDTSGLMVIAKTEKAYLVLSQALEEKKFRKEYLALIWGVPTTKHCFIQTNLDVK 196 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + + + + + + + ++ G+ + L G+ +I+ V Sbjct: 197 RSDKTMMEVTLSRGKHANTEYIIEKTFGNVASLARCILHTGRTHQIRVHMSHIGHSVVG- 255 Query: 216 IRISYGPFQLGTLLAG--STREVSKKIL 241 YG +L G R ++ L Sbjct: 256 -DQKYGKNNKKSLRCGIPEVRNFKRQAL 282 >gi|89895611|ref|YP_519098.1| hypothetical protein DSY2865 [Desulfitobacterium hafniense Y51] gi|89335059|dbj|BAE84654.1| hypothetical protein [Desulfitobacterium hafniense Y51] Length = 300 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 32/222 (14%), Positives = 60/222 (27%), Gaps = 36/222 (16%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------DGVPLR--KAER 72 SR ++ +I + + VNG +A V + D I V + +PL + Sbjct: 22 SRSFIQGLIEEGHILVNGA-ARKANYKVRAMDQITVVIPPPRELKVEAENIPLEVLYEDE 80 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN--------------- 117 L + +V ++ V L + G L Sbjct: 81 DVLVVNKPQGMVVHPAPGAWTKTMVNALLYHCRNLSGINGVLRPGIVHRIDKDTSGLLVV 140 Query: 118 ------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 +GL +AR + V +D + K +V Q Sbjct: 141 AKNDLAHQGLAEQIKAHSMARRYLAIVHGVVFEPSGTVDAPVGRDPADRKKMAVVFQNAK 200 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + L G+ +I+ + V Sbjct: 201 EAVTHYEVLERFRDFTLLEARLETGRTHQIRVHMAYLKHPVL 242 >gi|254459281|ref|ZP_05072702.1| ribosomal large subunit pseudouridine synthase, RluA family [Campylobacterales bacterium GD 1] gi|207083894|gb|EDZ61185.1| ribosomal large subunit pseudouridine synthase, RluA family [Campylobacterales bacterium GD 1] Length = 325 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 28/241 (11%), Positives = 61/241 (25%), Gaps = 38/241 (15%) Query: 11 FTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------- 63 P+R+ +A +R ++ +I + V V+ L+ R V + S +I+V+ Sbjct: 10 DNPERLDIFLASEIGQTRSQIASLIKHKCVFVDEKLVTRPGVKLKSGQNIKVEFPEAKES 69 Query: 64 -------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 V + + L + V + V G Sbjct: 70 PALDIDFNVEILYEDDDVLVINKPSGVTVHPAPSVKEATLVDWLKHKGIRLSNISGEERH 129 Query: 117 NTEGLLLLTNDGGLARVLELPSTQWLRVY---------------RVRFHGQVDQDKLNLL 161 L G + + ++L ++ Sbjct: 130 GIVHRLDKGTSGTMVVAKNNEAHEFLSEQLQDKSMGRYYLAVLNPPLKDEITTIEQNIGR 189 Query: 162 KKGIVIQGICY-----GDMQVTL----DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 ++ C + + +V L G+ +I+ E N + Sbjct: 190 SAHNRLKMTCTDAGKSKYAKTMFKVLSLSNDEKQQFVACKLFTGRTHQIRVHLESINRHI 249 Query: 213 N 213 Sbjct: 250 I 250 >gi|154509032|ref|ZP_02044674.1| hypothetical protein ACTODO_01549 [Actinomyces odontolyticus ATCC 17982] gi|153798666|gb|EDN81086.1| hypothetical protein ACTODO_01549 [Actinomyces odontolyticus ATCC 17982] Length = 301 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 31/234 (13%), Positives = 58/234 (24%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGI--------------------------L 46 +RV +AR SR + + V VNG+ Sbjct: 10 GERVDAALARMLGLSRSRCAELAGEGHVLVNGVAAGKSDRLGALDIIEVTIPEPESKPTP 69 Query: 47 LERAAVNVMSTDHIEVDGVPL-------RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 + A+ D + VD P+ E + + G T P R + Sbjct: 70 VTDMAILYDDEDIVVVD-KPVGVAAHTGPGWEGPTVLGNLEAAGYRITSYGPPERQGIVH 128 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 L S + V + ++ + + + +V L + + Sbjct: 129 RLDVGTSGAMMVAKSELAYTVMKRAFKERTIEKVYHAVVAGHLDPASGTIDAPIGRHPSR 188 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + I G V L G+ +I+ Sbjct: 189 EWRMAV-IDGGKRAVTHYDTLELMAGAQLTEVHLETGRTHQIRVHMAAVGHPCV 241 >gi|312863483|ref|ZP_07723721.1| putative ribosomal protein S4 [Streptococcus vestibularis F0396] gi|311101019|gb|EFQ59224.1| putative ribosomal protein S4 [Streptococcus vestibularis F0396] Length = 129 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 24 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYCVTPGQVISVREKSLKVR 80 >gi|187250787|ref|YP_001875269.1| pseudouridine synthase [Elusimicrobium minutum Pei191] gi|186970947|gb|ACC97932.1| Pseudouridine synthase [Elusimicrobium minutum Pei191] Length = 299 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 16/116 (13%), Positives = 40/116 (34%), Gaps = 2/116 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M +K + + T R+ ++ SR ++ +I Q +V VNG + A + D+ Sbjct: 1 MSNKETLTFSGTSARLDLFLSENKPDYSRGLIQNLIKQGKVTVNGK-ERKPAWPLAEGDN 59 Query: 60 IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 +E++ + + + + + + + +G Sbjct: 60 VEIEWPSVENKTGLKDLIIFEDKNMFVINKPSGMLVHPQSPVWEENPAAAFIGEET 115 >gi|313637033|gb|EFS02602.1| S4 domain-containing protein [Listeria seeligeri FSL S4-171] Length = 259 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/55 (23%), Positives = 25/55 (45%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ +I+ A SR++ ++++ VKVN +E D + V G Sbjct: 179 TVSSMRLDVIISNAHHISRQKAKQLVVAGLVKVNWKTVENPDFECEQEDVLSVRG 233 >gi|26987219|ref|NP_742644.1| 30S ribosomal protein S4 [Pseudomonas putida KT2440] gi|148545763|ref|YP_001265865.1| 30S ribosomal protein S4 [Pseudomonas putida F1] gi|37999419|sp|Q88QL2|RS4_PSEPK RecName: Full=30S ribosomal protein S4 gi|172048431|sp|A5VXS1|RS4_PSEP1 RecName: Full=30S ribosomal protein S4 gi|24981858|gb|AAN66108.1|AE016239_3 ribosomal protein S4 [Pseudomonas putida KT2440] gi|148509821|gb|ABQ76681.1| SSU ribosomal protein S4P [Pseudomonas putida F1] gi|313496843|gb|ADR58209.1| RpsD [Pseudomonas putida BIRD-1] Length = 206 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V D + V Sbjct: 97 RLDNVVYRMGFGSTRSESRQLVSHKAISVNGKTVNIPSYQVRPGDVVAV 145 >gi|196228479|ref|ZP_03127346.1| ribosomal protein S4 [Chthoniobacter flavus Ellin428] gi|196227882|gb|EDY22385.1| ribosomal protein S4 [Chthoniobacter flavus Ellin428] Length = 203 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ VI R G A SR ++++ V+VNG ++ ++ NV + D I + P Sbjct: 94 RLDNVIYRLGFANSRSAARQLVSHGHVQVNGRKVDVSSFNVKAGDAITIKDKP 146 >gi|157150371|ref|YP_001451346.1| 30S ribosomal protein S4 [Streptococcus gordonii str. Challis substr. CH1] gi|262283690|ref|ZP_06061455.1| ribosomal protein S4 [Streptococcus sp. 2_1_36FAA] gi|172045598|sp|A8AZY6|RS4_STRGC RecName: Full=30S ribosomal protein S4 gi|157075165|gb|ABV09848.1| ribosomal protein S4 [Streptococcus gordonii str. Challis substr. CH1] gi|262260747|gb|EEY79448.1| ribosomal protein S4 [Streptococcus sp. 2_1_36FAA] Length = 203 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 150 >gi|148261702|ref|YP_001235829.1| RluA family pseudouridine synthase [Acidiphilium cryptum JF-5] gi|146403383|gb|ABQ31910.1| ribosomal large subunit pseudouridine synthase D [Acidiphilium cryptum JF-5] Length = 332 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 1/56 (1%) Query: 8 QENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 E +R+ + +A R SR ++ +I V +G ++ + V V Sbjct: 17 TEADGGERLDRFLASRLSEMSRSRLKALIEAGTVTCDGAVIRLPSAAVRPGAIYTV 72 >gi|56808368|ref|ZP_00366123.1| COG0522: Ribosomal protein S4 and related proteins [Streptococcus pyogenes M49 591] Length = 203 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVDPGQVISV 142 >gi|49473932|ref|YP_031974.1| ribosomal large subunit pseudouridine synthase D [Bartonella quintana str. Toulouse] gi|49239435|emb|CAF25784.1| Ribosomal large subunit pseudouridine synthase D [Bartonella quintana str. Toulouse] Length = 334 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 36/265 (13%), Positives = 82/265 (30%), Gaps = 52/265 (19%) Query: 1 MKDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M + I E QR+ + + + SR ++ +I + +K++G L+ + Sbjct: 1 MVTQQITDEGALGQRLDQWLTKQYHSALSRSRLQALIREGYLKIDGQLIHEPKTKLKPNQ 60 Query: 59 HIEVD----------GVPLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 IE+ G ++ E + + +K GLV + + T+ + L Sbjct: 61 MIELTIPILRDAKPSGEAIKLDILFEDDHVIVINKQAGLVVHPGNGNLTGTLVNALIYHC 120 Query: 106 SRVIS----------VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ--- 152 +S V RLD NT G++++ + + L + R + Sbjct: 121 GDSLSGIGGVKRPGIVHRLDKNTSGIMVVAKNDLAHKNLSAQFSDHGRTSALDRRYHALI 180 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN------------------------AW 188 N+ K + + + + + + + Sbjct: 181 WGSPNRNVWKIDAPLGRSPHNRTKQAVIYSQNPHARHAVTHFSLLEKYGICSDKTSFASL 240 Query: 189 VTVGLREGKNREIKKVFEFFNWKVN 213 + L G+ +I+ + Sbjct: 241 LECRLETGRTHQIRVHMAHIGHPLV 265 >gi|313632501|gb|EFR99511.1| S4 domain-containing protein [Listeria seeligeri FSL N1-067] Length = 258 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/55 (23%), Positives = 25/55 (45%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ +I+ A SR++ ++++ VKVN +E D + V G Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVVAGLVKVNWKTVENPDFECEQEDVLSVRG 232 >gi|225850762|ref|YP_002730996.1| 30S ribosomal protein S4 [Persephonella marina EX-H1] gi|254764604|sp|C0QQQ0|RS4_PERMH RecName: Full=30S ribosomal protein S4 gi|225645002|gb|ACO03188.1| ribosomal protein S4 [Persephonella marina EX-H1] Length = 205 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR+ +++ VNG ++ + V D IE+ Sbjct: 96 RLDNVVYRLGFAKTRRQARQLVRHGHFLVNGRKVDIPSYRVDPGDIIEL 144 >gi|152112269|sp|A3CRA2|RS4_STRSV RecName: Full=30S ribosomal protein S4 gi|324991900|gb|EGC23823.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK405] gi|324996210|gb|EGC28120.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK678] gi|327458525|gb|EGF04875.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK1] gi|327490386|gb|EGF22172.1| 30S ribosomal protein S4 [Streptococcus sanguinis SK1058] Length = 203 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISVREKSLKVP 150 >gi|258611701|ref|ZP_05711611.1| ribosomal protein S4 [Listeria monocytogenes FSL R2-503] gi|258605525|gb|EEW18133.1| ribosomal protein S4 [Listeria monocytogenes FSL R2-503] Length = 170 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 62 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 111 >gi|313143038|ref|ZP_07805231.1| hemolysin [Helicobacter cinaedi CCUG 18818] gi|313128069|gb|EFR45686.1| hemolysin [Helicobacter cinaedi CCUG 18818] Length = 234 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 23/166 (13%), Positives = 50/166 (30%), Gaps = 7/166 (4%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVT 86 SR + + I VKVNG ++++ + + D + VD L + Y + + Sbjct: 7 SRTKAKEAIESGCVKVNGAVVKKGSFLLEKDDEVGVDSKDLLLSRA----GYKLRGFIES 62 Query: 87 THSDPDGRSTVFDNLPSIFSRVISVGRLDINTE---GLLLLTNDGGLARVLELPSTQWLR 143 + +I + G + E ++ + G + + + Sbjct: 63 LVQKGLWDRAYLFHKKAIDIGASTGGFTQVLLESGIDSVVCVDVGKNQLHTSILQDERVS 122 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 V+ ++ L V Y M+ W+ Sbjct: 123 VFEECDIRDFSDEREFDLMVCDVSFISLYKLMESFERLNVKEYIWL 168 >gi|254486310|ref|ZP_05099515.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp. GAI101] gi|214043179|gb|EEB83817.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp. GAI101] Length = 344 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 6/56 (10%) Query: 13 PQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 P R+ K +AR A + SR + R+IA V+V+GI++ + I VD Sbjct: 15 PPRLDKALARDVPEDANL-SRTRLGRLIADGSVQVDGIVVTDPRARIFEGQEITVD 69 >gi|209965021|ref|YP_002297936.1| ribosomal large subunit pseudouridine synthase D, putative [Rhodospirillum centenum SW] gi|209958487|gb|ACI99123.1| ribosomal large subunit pseudouridine synthase D, putative [Rhodospirillum centenum SW] Length = 364 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 33/241 (13%), Positives = 67/241 (27%), Gaps = 40/241 (16%) Query: 13 PQRVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------- 62 R+ KV++ A SR + +I Q V G ++ A+ V +EV Sbjct: 56 GDRLDKVLSDALGGAGLSRSRLRSLIDQGCVSSGGETIDDASRRVKPGQIVEVLVPAAEP 115 Query: 63 --------------DGVPLRKAERTRLWLYHK---------------PIGLVTTHSDPDG 93 + L ++ + H G + Sbjct: 116 AVPLPQAIPLAIVHEDEDLLVIDKAAEMVVHPAAGNPDGTLVNALLAHCGDRLSGIGGVR 175 Query: 94 RSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 R + L S ++ + D +GL D L+R G + Sbjct: 176 RPGIVHRLDKGTSGLLVAAKTDRAHQGLTAQFADRSLSRTYLAVVWGVPAAREGVIEGNI 235 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKG-SNAWVTVGLREGKNREIKKVFEFFNWKV 212 + + + ++ +G + + G + V L G+ +I+ + Sbjct: 236 GRHPGDRKRMAVLSRGGKPAVTRYRVVRSFGLLASLVECKLLTGRTHQIRVHMAHVGHPL 295 Query: 213 N 213 Sbjct: 296 V 296 >gi|13473214|ref|NP_104781.1| pseudouridine synthase [Mesorhizobium loti MAFF303099] gi|14023962|dbj|BAB50567.1| pseudouridine synthase [Mesorhizobium loti MAFF303099] Length = 329 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 35/259 (13%), Positives = 69/259 (26%), Gaps = 51/259 (19%) Query: 6 IVQENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 +V + QR+ + +A + SR V+ +I Q V V+G + + + + + + Sbjct: 3 VVGADAAGQRLDQWLAASLGPDMSRSRVQMLIRQGAVSVDGKPADETKRKMSAGESVSIA 62 Query: 63 ---------DGVPLR---KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 G + E L + +KP GLV + T+ + L +S Sbjct: 63 MPEPEPAAPQGEAIALDVLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLS 122 Query: 111 --VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN--------- 159 G L G + + + L D ++ Sbjct: 123 GIGGVRRPGIVHRLDKETSGVMVVAKTDRAHKALSEAFADHGRTGDLERAYLALVWGIPQ 182 Query: 160 ------------------LLKKGIVIQGICYGDMQVTLDTQKGSN-------AWVTVGLR 194 + + + G N + V L Sbjct: 183 RPTGTVDAPLGRAADRVRRAVVPEGRDDARHAVTHFAVQERFGENQQEFATASLVECRLE 242 Query: 195 EGKNREIKKVFEFFNWKVN 213 G+ +I+ V Sbjct: 243 TGRTHQIRVHMAHIGHPVI 261 >gi|326405195|ref|YP_004285277.1| ribosomal large subunit pseudouridine synthase D [Acidiphilium multivorum AIU301] gi|325052057|dbj|BAJ82395.1| ribosomal large subunit pseudouridine synthase D [Acidiphilium multivorum AIU301] Length = 332 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 1/56 (1%) Query: 8 QENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 E +R+ + +A R SR ++ +I V +G ++ + V V Sbjct: 17 TEADGGERLDRFLASRLSEMSRSRLKALIEAGTVTCDGAVIRLPSAAVRPGAIYTV 72 >gi|308233884|ref|ZP_07664621.1| 30S ribosomal protein S4 [Atopobium vaginae DSM 15829] gi|328943591|ref|ZP_08241056.1| 30S ribosomal protein S4 [Atopobium vaginae DSM 15829] gi|327491560|gb|EGF23334.1| 30S ribosomal protein S4 [Atopobium vaginae DSM 15829] Length = 197 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 4/66 (6%) Query: 1 MKDKNIVQENFTP---QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMS 56 MK + I +N R+ V+ R G A +R+E + I + VNG ++ + V + Sbjct: 71 MKAEGITGDNLMSLLETRLDNVVFRLGFARTRKESRQTIRHGHITVNGKRVDIPSYQVKA 130 Query: 57 TDHIEV 62 D I V Sbjct: 131 DDVIAV 136 >gi|209525207|ref|ZP_03273750.1| RNA-binding S4 domain protein [Arthrospira maxima CS-328] gi|209494392|gb|EDZ94704.1| RNA-binding S4 domain protein [Arthrospira maxima CS-328] Length = 72 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 12/61 (19%), Positives = 26/61 (42%), Gaps = 1/61 (1%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V+ ++ K + +G+ S + + I V VNG + R ++ D + +G Sbjct: 2 VVKVTEQNIKLDKFLKLSGLVESGGQAKAFIQSGYVMVNGQIETRRGRKLIEGDRVTFNG 61 Query: 65 V 65 Sbjct: 62 E 62 >gi|257875741|ref|ZP_05655394.1| pseudouridylate synthase [Enterococcus casseliflavus EC20] gi|257809907|gb|EEV38727.1| pseudouridylate synthase [Enterococcus casseliflavus EC20] Length = 302 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 38/245 (15%), Positives = 77/245 (31%), Gaps = 37/245 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K ++ + RV KV+A SR ++++ + + V + G + A V + DH+ Sbjct: 3 KQIEVIIKEEKG-RVDKVLAERLPNHSRSQIQQWLKEDAVTLMGETVR-ANYKVKAGDHL 60 Query: 61 --------EVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 VD P + + + +V + + V L + Sbjct: 61 IIQVPEPEVVDLQPENIPLTIVYQDADVAVINKPQGMVVHPSAGHPNGTLVNALLYHMDD 120 Query: 107 --------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R V R+D +T GLL++ + L + + Sbjct: 121 LSTINDVVRPGIVHRIDKDTSGLLMIAKNDQAHESLAKQLKDKTSLRKYVALVHGTISHE 180 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV-------GLRE-----GKNREIKKVFE 206 + + MQ ++ K + TV L E G+ +I+ + Sbjct: 181 KGTINAPIGRSKVNRKMQAVIENGKPAVTHFTVLERFEQFTLVELQLETGRTHQIRVHMQ 240 Query: 207 FFNWK 211 + + Sbjct: 241 YIGFP 245 >gi|209560256|ref|YP_002286728.1| 30S ribosomal protein S4 [Streptococcus pyogenes NZ131] gi|226695085|sp|B5XJ99|RS4_STRPZ RecName: Full=30S ribosomal protein S4 gi|209541457|gb|ACI62033.1| SSU ribosomal protein S4p (S9e) [Streptococcus pyogenes NZ131] Length = 203 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVDPGQVISV 142 >gi|59711171|ref|YP_203947.1| 23S rRNA pseudouridine synthase D [Vibrio fischeri ES114] gi|59479272|gb|AAW85059.1| 23S rRNA pseudouridine synthase [Vibrio fischeri ES114] Length = 324 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 30/239 (12%), Positives = 66/239 (27%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V+E+ QR+ + A SR ++ + + VNG ++ +A + VM + I V Sbjct: 10 TVKESQLGQRLDQAAAELFSDFSRSRIKEWLLAGNMTVNGEVVTKARLKVMGGEEITVKA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + L + +V + + + L + Sbjct: 70 ELEDEERWLAQDIPLDIVYEDDDLLVINKPRDFVVHPGAGTPDGTVLNALLFHYPNIAEV 129 Query: 111 V-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------- 155 RLD +T GL+++ L + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRKITREYEAVVVGRMTAGGMIEKPI 189 Query: 156 -DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N V + + + + + L G+ +I+ + + Sbjct: 190 GRHPNKRTLMAVHELGKDAVTHYRVAEHFRIHTRIRLRLETGRTHQIRVHMSYLQHPLV 248 >gi|254416092|ref|ZP_05029847.1| photosystem II S4 domain protein [Microcoleus chthonoplastes PCC 7420] gi|196177025|gb|EDX72034.1| photosystem II S4 domain protein [Microcoleus chthonoplastes PCC 7420] Length = 259 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 2/65 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K + R+ IA AG SR ++ +I V+VN + +A+ +V D I Sbjct: 172 PKKKEMTTVEASMRLD-AIASAGFGTSRSKMADLIGAGDVRVNWKEVSQASYSVKPGDLI 230 Query: 61 EVDGV 65 + G Sbjct: 231 AIRGK 235 >gi|313885082|ref|ZP_07818834.1| ribosomal protein S4 [Eremococcus coleocola ACS-139-V-Col8] gi|312619773|gb|EFR31210.1| ribosomal protein S4 [Eremococcus coleocola ACS-139-V-Col8] Length = 201 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 1/47 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 R+ ++ R G AS RR+ +++A + V+G ++ + V I Sbjct: 92 RLDNLVYRLGYASTRRQARQLVAHGHITVDGQRVDIPSYLVKPEQVI 138 >gi|260461536|ref|ZP_05809783.1| pseudouridine synthase, RluA family [Mesorhizobium opportunistum WSM2075] gi|259032606|gb|EEW33870.1| pseudouridine synthase, RluA family [Mesorhizobium opportunistum WSM2075] Length = 334 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 26/257 (10%), Positives = 64/257 (24%), Gaps = 55/257 (21%) Query: 10 NFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----- 62 + QR+ + +A + SR V+ +I Q V +NG ++ ++ + + V Sbjct: 12 DAAGQRLDQWLAASLGPDMSRSRVQMLIRQGAVSINGKPVDETKRKMLPGESVSVAMPEP 71 Query: 63 -----DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 G + + + + +V + + V + + +G Sbjct: 72 EPAEPQGENIALDVLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGG 131 Query: 114 LDIN-------------------------------------TEGLLLLTNDGGLARVLEL 136 + L G+ + Sbjct: 132 VRRPGIVHRLDKETSGVMVVAKTDRAHKALSEAFADHGLTGDLERAYLALVWGIPQRPTG 191 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 L R V + + + + + + + + V L G Sbjct: 192 TVDAPLGRAADRVRRAVVPEGRDDARHAVTHFAVQERFGEKQQEFATA--SLVECRLETG 249 Query: 197 KNREIKKVFEFFNWKVN 213 + +I+ V Sbjct: 250 RTHQIRVHMAHIGHPVI 266 >gi|237748962|ref|ZP_04579442.1| ribosomal large subunit pseudouridine synthase D [Oxalobacter formigenes OXCC13] gi|229380324|gb|EEO30415.1| ribosomal large subunit pseudouridine synthase D [Oxalobacter formigenes OXCC13] Length = 342 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 36/248 (14%), Positives = 67/248 (27%), Gaps = 39/248 (15%) Query: 4 KNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + ++ QR+ K++A R SR ++R I + VNG + A V+ + I V Sbjct: 30 RFVLSLKDGGQRLDKLVAGRLSQYSRSRLQRWIEDGHITVNGEKAQ-AKQTVIGDEEICV 88 Query: 63 DGV---------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-- 105 P+ + L + +V + + + L Sbjct: 89 IPQLAEEDLAFTPEAVDFPVVFEDNAILVVNKPASLVVHPAAGNWSGTLLNGLLYRDPKS 148 Query: 106 ---SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------- 155 R V RLD T G++++ L D Sbjct: 149 ATVPRAGIVHRLDKETSGVMVVAKTIEAQTDLVRQLQARTVKREYLALVWGDTPQSGTID 208 Query: 156 ----DKLNLLKKGIVIQGICYGDMQVTL------DTQKGSNAWVTVGLREGKNREIKKVF 205 K VI + + V L G+ +I+ Sbjct: 209 EPIGRHPRDRVKMAVIHTQSGKPAVTHFRKIAEGVCNNMNVSLVKCRLETGRTHQIRVHL 268 Query: 206 EFFNWKVN 213 + + + Sbjct: 269 QSIGFPLV 276 >gi|116253506|ref|YP_769344.1| ribosomal large subunit pseudouridine synthase D [Rhizobium leguminosarum bv. viciae 3841] gi|115258154|emb|CAK09255.1| putative ribosomal large subunit pseudouridine synthase D [Rhizobium leguminosarum bv. viciae 3841] Length = 341 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 33/287 (11%), Positives = 78/287 (27%), Gaps = 53/287 (18%) Query: 3 DKNIVQENFTPQ-RVSKVI-ARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 ++ ++ + T + R+ + A+ G SR ++ +I +V + G + V + D Sbjct: 11 NRKVLTADETAEGRLDAWLTAQVGEEFSRSRIKALIKDGQVLLRGEPVTDPQRKVRTGDS 70 Query: 60 IEV----------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E+ G + + + + +V + + V + Sbjct: 71 FELTLPEPEDPTPQGEDIPLDILHEDDDVIVISKPSGLVVHPGAGNWTGTLVNALIHHCS 130 Query: 106 SRVISVGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + +G + T +++ ND + + + R + + Sbjct: 131 DTLSGIGGVRRPGIVHRLDKDTTGVMVVAKNDIAHRHLSLQFADHGRTMPLERAYQAIVW 190 Query: 156 DKLNLLKKGI-----VIQGICYGDMQVTLDTQKGSN---------------------AWV 189 + L + G D+Q + V Sbjct: 191 GRPRTLSGTVDAPLGRATGDRTRRAVKRPDSQDADEAITHYQVIERFHEKPDATAFASLV 250 Query: 190 TVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L G+ +I+ + G LL R+V Sbjct: 251 ECRLETGRTHQIRVHMAHIGHPLLGDTVYGAGFKTKANLLPEEIRKV 297 >gi|94968282|ref|YP_590330.1| SSU ribosomal protein S4P [Candidatus Koribacter versatilis Ellin345] gi|152060923|sp|Q1IS94|RS4_ACIBL RecName: Full=30S ribosomal protein S4 gi|94550332|gb|ABF40256.1| SSU ribosomal protein S4P [Candidatus Koribacter versatilis Ellin345] Length = 209 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS RR+ +++ + VNG + + V D I V Sbjct: 100 RLDNVVYRLGFASARRQARQLVRHGHIAVNGKKVNIPSYQVSVKDEIAV 148 >gi|15837777|ref|NP_298465.1| 30S ribosomal protein S4 [Xylella fastidiosa 9a5c] gi|26399518|sp|Q9PE53|RS4_XYLFA RecName: Full=30S ribosomal protein S4 gi|9106141|gb|AAF83985.1|AE003951_10 30S ribosomal protein S4 [Xylella fastidiosa 9a5c] Length = 208 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 1/66 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ VI R G A +R ++++ +RV VNG L+ + +V D + + + Sbjct: 98 RLDNVIYRMGFAVTRPAARQLVSHRRVLVNGKLVNLPSYHVKPGDVVALSQRAQKYLCVQ 157 Query: 74 RLWLYH 79 Sbjct: 158 ESLTIK 163 >gi|148269598|ref|YP_001244058.1| RluA family pseudouridine synthase [Thermotoga petrophila RKU-1] gi|147735142|gb|ABQ46482.1| ribosomal large subunit pseudouridine synthase D [Thermotoga petrophila RKU-1] Length = 311 Score = 52.5 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 13/59 (22%), Positives = 30/59 (50%), Gaps = 3/59 (5%) Query: 7 VQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 V++ R+ + + SR +++ I + +VKVNG + ++ + + + +EVD Sbjct: 6 VEKREEGWRLDQFLKEKTPSWISRSLIQKAIKEGKVKVNGQI-KKPSYKLKEGEIVEVD 63 >gi|289435369|ref|YP_003465241.1| S4 domain protein [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|289171613|emb|CBH28159.1| S4 domain protein [Listeria seeligeri serovar 1/2b str. SLCC3954] Length = 258 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/55 (23%), Positives = 25/55 (45%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ +I+ A SR++ ++++ VKVN +E D + V G Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVVAGLVKVNWKTVENPDFECEQEDVLSVRG 232 >gi|170723882|ref|YP_001751570.1| 30S ribosomal protein S4 [Pseudomonas putida W619] gi|226699108|sp|B1JAI8|RS4_PSEPW RecName: Full=30S ribosomal protein S4 gi|169761885|gb|ACA75201.1| ribosomal protein S4 [Pseudomonas putida W619] Length = 206 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V D + V Sbjct: 97 RLDNVVYRMGFGSTRSESRQLVSHKAISVNGKTVNIPSYQVRPGDVVAV 145 >gi|320531524|ref|ZP_08032476.1| ribosomal RNA large subunit methyltransferase J [Actinomyces sp. oral taxon 171 str. F0337] gi|320136263|gb|EFW28259.1| ribosomal RNA large subunit methyltransferase J [Actinomyces sp. oral taxon 171 str. F0337] Length = 290 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G+A SR +I V ++G ++ + A V IE+ Sbjct: 5 IRIDSELVRRGLARSRTHAATLITDGHVTLDGQVVTKPARQVDPAQAIEI 54 >gi|302539523|ref|ZP_07291865.1| modular polyketide synthase [Streptomyces sp. C] gi|302448418|gb|EFL20234.1| modular polyketide synthase [Streptomyces sp. C] Length = 4478 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 10/129 (7%), Positives = 16/129 (12%), Gaps = 4/129 (3%) Query: 230 AGSTREVS--KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK 287 G R + R+ E + R Sbjct: 3806 PGRLRPTTALPGTARQSPQWGPWAENAACRRLAPSVARCAQTARTPATRSARPARRGAGP 3865 Query: 288 NSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIH--SSFLSDSGQREENHRRSPSFPSKR 345 + G P + P R Sbjct: 3866 ARRTQPGRRPPGSRPGPDRDGPDRGPAGRTRARRLHPQARRSRRGHPPQAPHRPGAHPDR 3925 Query: 346 SLRRTSAKK 354 R + Sbjct: 3926 LGPRPRHVR 3934 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/132 (9%), Positives = 23/132 (17%), Gaps = 12/132 (9%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 R ++ + R + P Sbjct: 3835 RRLAPSVARCAQTARTPATRSARPARRGAGPARRTQPGRRPPGSRPGPDRDGPDRGPAGR 3894 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ--REENHRR----------SPSF 341 +++ RR G H L + R R Sbjct: 3895 TRARRLHPQARRSRRGHPPQAPHRPGAHPDRLGPRPRHVRPRTGRTLLPGTGTGLAGRHR 3954 Query: 342 PSKRSLRRTSAK 353 ++ + RR Sbjct: 3955 TAQPARRRDRPA 3966 Score = 45.6 bits (106), Expect = 0.011, Method: Composition-based stats. Identities = 13/109 (11%), Positives = 27/109 (24%), Gaps = 2/109 (1%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 H + + +N++ + + A Sbjct: 3791 HGQPRPGQLRGRQRLPGRLRPTTALPGTARQSPQWGPWAENAACRRLAPSVARCAQTART 3850 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF--PSKRSLRRTSAKK 354 S +G + + G+R R P P + RT A++ Sbjct: 3851 PATRSARPARRGAGPARRTQPGRRPPGSRPGPDRDGPDRGPAGRTRARR 3899 Score = 43.6 bits (101), Expect = 0.041, Method: Composition-based stats. Identities = 12/124 (9%), Positives = 24/124 (19%), Gaps = 19/124 (15%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 RP + PD + + + + +++ + P Sbjct: 3856 ARPARRGAGPARRTQPGRRPPGSRPGPDRDGPDRGPAGRTRARRLHPQARRSRRGHPPQA 3915 Query: 308 RNLASNVWMAKGIHSSFLSDSGQR------------------EENHRRSPSF-PSKRSLR 348 + G + R R P+ P R Sbjct: 3916 PHRPGAHPDRLGPRPRHVRPRTGRTLLPGTGTGLAGRHRTAQPARRRDRPAALPDARLRP 3975 Query: 349 RTSA 352 A Sbjct: 3976 PQPA 3979 >gi|32266018|ref|NP_860050.1| hypothetical protein HH0519 [Helicobacter hepaticus ATCC 51449] gi|32262067|gb|AAP77116.1| conserved hypothetical protein [Helicobacter hepaticus ATCC 51449] Length = 241 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 21/176 (11%), Positives = 59/176 (33%), Gaps = 2/176 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 QR+ + + ++SR + + I V+VNG ++ ++++ + S+D +++D L Sbjct: 2 QRLDIYL-KTLLSSRTKAQEAIESGCVRVNGKVVYKSSLPLKSSDEVDIDTQGLLLGRAG 60 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 + + + + L+ ++ + + G Sbjct: 61 YKLRGFFEELVCKGLWEEGYLVGKRALDIGSSTGGFAQVLLNFGVSEIVCV-DVGKNQLH 119 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + +RV+ + + + + V Y M+ W+ Sbjct: 120 QNMRDDERVRVFEECDVREFEPCEYFDIVVCDVSFISLYKLMESFERLVSAECIWL 175 >gi|317969027|ref|ZP_07970417.1| RNA-binding S4 [Synechococcus sp. CB0205] Length = 260 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 2/52 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V A AG+ SR ++ I V+VN ++ + + D + +DG Sbjct: 187 RLDAV-ASAGLGVSRSKMADWIRAGAVRVNWSVITSPSRELKQGDRVRLDGR 237 >gi|325273287|ref|ZP_08139564.1| RluA family pseudouridine synthase [Pseudomonas sp. TJI-51] gi|324101572|gb|EGB99141.1| RluA family pseudouridine synthase [Pseudomonas sp. TJI-51] Length = 320 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 25/235 (10%), Positives = 60/235 (25%), Gaps = 38/235 (16%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLE-----RAAVN------------- 53 QR+ +V A+ SR + I + R+ V+G ++ Sbjct: 17 GQRLDQVAAQLFAEYSRSRLTSWIKEGRLTVDGAVVRPRDLVHGGSQLALQAEQEAQGEW 76 Query: 54 ---------VMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 V DHI V + K + ++ + + + Sbjct: 77 VAEDIELDIVYEDDHIMV----INKPAGLVVHPAAGHASGTLLNALLHHVPDIVNVPRAG 132 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH------GQVDQDKL 158 + + L + ++ ++ + Sbjct: 133 IVHRLDKDTTGLMVVAKTLQAQTKLVEQMQARKVSRIYECIVIGVVTAGGKIDAPIGRHG 192 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + ++ V G + + S+ V V L G+ +I+ + + Sbjct: 193 GMRQRMAVTDGGKPAVSHYRVLKRFRSHTHVRVKLETGRTHQIRVHMAHVGFPLV 247 >gi|255017199|ref|ZP_05289325.1| 30S ribosomal protein S4 [Listeria monocytogenes FSL F2-515] Length = 152 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 44 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 93 >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 = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 33/168 (19%), Positives = 66/168 (39%), Gaps = 3/168 (1%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 +RV +++R G +R ++ + V+G + ++ + VDG L + Sbjct: 40 ERVDALLSRLGYCTRSTARAFASRHEIVVDGTRVRGVDAKARAS-TLRVDGEALDHPDGV 98 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTV--FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + ++ + + + + ++GRLD +T GLLLLT+DG L Sbjct: 99 LVAMHKPRGTVCSHDEREGANVYELLPERWRRRKPSIETIGRLDKDTSGLLLLTDDGALN 158 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 L P + YRVR G + + + + G + + + Sbjct: 159 HALTSPKKDVGKWYRVRTDGPIPRACVEVFASGELTLSGEEKSCKPAM 206 >gi|268608473|ref|ZP_06142200.1| hemolysin A [Ruminococcus flavefaciens FD-1] Length = 261 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 1/48 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 R+ + GIA SR+ + MI+ V VNGI ++A+ NV +D IE Sbjct: 3 RLDAEMVARGIARSRQTAKEMISAGSVTVNGITAKKASDNVTESDVIE 50 >gi|319939621|ref|ZP_08013980.1| S4 domain-containing protein [Streptococcus anginosus 1_2_62CV] gi|319811210|gb|EFW07516.1| S4 domain-containing protein [Streptococcus anginosus 1_2_62CV] Length = 263 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 18/53 (33%), Positives = 30/53 (56%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ KV+A + SR R+IA ++VKVN L+ + +++ D I V G Sbjct: 183 SSMRLDKVVAASFHLSRSIAARLIATKQVKVNYSTLDNPSHHLLLNDLISVRG 235 >gi|293192338|ref|ZP_06609449.1| ribosomal large subunit pseudouridine synthase D [Actinomyces odontolyticus F0309] gi|292820253|gb|EFF79247.1| ribosomal large subunit pseudouridine synthase D [Actinomyces odontolyticus F0309] Length = 301 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 31/234 (13%), Positives = 57/234 (24%), Gaps = 35/234 (14%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGI--------------------------L 46 +RV +AR SR + V VNG+ Sbjct: 10 GERVDAALARMLGLSRSRCAELAGDGHVLVNGVAAGKSDRLGALDIIEVTIPEPESKPTP 69 Query: 47 LERAAVNVMSTDHIEVDGVPL-------RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 + A+ D + VD P+ E + + G T P R + Sbjct: 70 VTDMAILYDDEDIVVVD-KPVGVAAHTGPGWEGPTVLGNLEAAGYRITSYGPPERQGIVH 128 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 L S + V + ++ + + + +V L + + Sbjct: 129 RLDVGTSGAMMVAKSELAYTVMKRAFKERTIEKVYHAVVAGHLDPASGTIDAPIGRHPSR 188 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + I G V L G+ +I+ Sbjct: 189 EWRMAV-IDGGKRAVTHYDTLELMAGAQLTEVHLETGRTHQIRVHMAAVGHPCV 241 >gi|83648828|ref|YP_437263.1| ribosomal protein S4 [Hahella chejuensis KCTC 2396] gi|123530606|sp|Q2S936|RS4_HAHCH RecName: Full=30S ribosomal protein S4 gi|83636871|gb|ABC32838.1| ribosomal protein S4 [Hahella chejuensis KCTC 2396] Length = 206 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V D + + Sbjct: 97 RLDNVVYRMGFGSTRSEARQLVSHKAILVNGKAVNIPSYQVKPGDVVSI 145 >gi|148264094|ref|YP_001230800.1| hemolysin A [Geobacter uraniireducens Rf4] gi|146397594|gb|ABQ26227.1| hemolysin A [Geobacter uraniireducens Rf4] Length = 250 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 1/54 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 +R+ K++ G+A SR + +I +V V+ L ++A V I + G Sbjct: 4 ERLDKILLDRGLAQSRERAKALIMAGQVVVDDHLADKAGQMVALEAEIRLKGEV 57 >gi|237797456|ref|ZP_04585917.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. oryzae str. 1_6] gi|331020306|gb|EGI00363.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. oryzae str. 1_6] Length = 151 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VNG + + V + D + + Sbjct: 42 RLDNVVYRMGFGSTRAESRQLVSHKSVSVNGKTVNVPSYQVRAGDVVAI 90 >gi|225574732|ref|ZP_03783342.1| hypothetical protein RUMHYD_02809 [Blautia hydrogenotrophica DSM 10507] gi|225038061|gb|EEG48307.1| hypothetical protein RUMHYD_02809 [Blautia hydrogenotrophica DSM 10507] Length = 197 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RRE +++ + + VNG ++ + V + D IE+ Sbjct: 88 RLDNIVFRMGFARTRREARQIVDHKHITVNGKVVNIPSYLVKAGDVIEI 136 >gi|206900201|ref|YP_002250765.1| hemolysin A [Dictyoglomus thermophilum H-6-12] gi|206739304|gb|ACI18362.1| hemolysin A [Dictyoglomus thermophilum H-6-12] Length = 271 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ + G SR + + I VKVNG ++ + + + IE+ Sbjct: 3 EKERLDVLLVKRGFFESREKAKAAIIAGVVKVNGNIVTKPDLKIPVDSLIEI 54 >gi|154249375|ref|YP_001410200.1| hemolysin A [Fervidobacterium nodosum Rt17-B1] gi|154153311|gb|ABS60543.1| hemolysin A [Fervidobacterium nodosum Rt17-B1] Length = 263 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 10/49 (20%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ G SR + ++MI V ++G + + + S I + Sbjct: 7 RLDQLLILKGFVESRTKAQQMIENGLVLLDGKVCTKPSKKCHSDSKIII 55 >gi|253731810|ref|ZP_04865975.1| ribosomal protein S4e [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253724460|gb|EES93189.1| ribosomal protein S4e [Staphylococcus aureus subsp. aureus USA300_TCH959] Length = 268 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%) Query: 3 DKNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++N E+ T R+ VI SR +++I ++RVKVN +++ A + + D I Sbjct: 178 NENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLI 237 Query: 61 EVDG 64 + G Sbjct: 238 SIQG 241 >gi|225387211|ref|ZP_03756975.1| hypothetical protein CLOSTASPAR_00963 [Clostridium asparagiforme DSM 15981] gi|225046690|gb|EEG56936.1| hypothetical protein CLOSTASPAR_00963 [Clostridium asparagiforme DSM 15981] Length = 159 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 29/73 (39%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G+ +R+E +++ + V VNG + + V + D IE+ Sbjct: 50 RLDNVLFRMGLGRTRKETRQIVDHKHVLVNGKPVNIPSYRVKTGDVIEIKEKYKSAQRYK 109 Query: 74 RLWLYHKPIGLVT 86 + + Sbjct: 110 DILEVTGGRMVPA 122 >gi|221234322|ref|YP_002516758.1| rRNA methylase [Caulobacter crescentus NA1000] gi|220963494|gb|ACL94850.1| predicted rRNA methylase [Caulobacter crescentus NA1000] Length = 266 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 1/47 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 R+ +++ G+ SR + I RV V G ++ + + V + Sbjct: 28 RIDQLLVDRGVFDSRAKARAAIEAGRVSVAGRVVAKPSEQVDDNAEV 74 >gi|152981261|ref|YP_001353083.1| ribosomal large subunit pseudouridine synthase D [Janthinobacterium sp. Marseille] gi|151281338|gb|ABR89748.1| ribosomal large subunit pseudouridine synthase D [Janthinobacterium sp. Marseille] Length = 342 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 67/242 (27%), Gaps = 39/242 (16%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R+ KV++ SR +++ I V V+G + A + V + + + Sbjct: 42 LNPDVCGVRLDKVLSTLVPQYSRSRLQQWIDGGHVSVDGEVAR-AKMTVYGDEKVVIYPQ 100 Query: 66 P---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 P + + L + +V + + + L + Sbjct: 101 PAPEDEAFKPEAMDLAIVHEDAEMLVINKPAGLVVHPAAGNWSGTLLNGLLHYLPSISGV 160 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK--- 162 R V RLD +T GL+++ L + + Sbjct: 161 PRAGIVHRLDKDTSGLMVVAKTLIAHTDLVRQLQARTVKREYLALVWGTPNITGKIDASI 220 Query: 163 --------KGIVIQGICYGDMQVTLD-----TQKGSNAWVTVG-LREGKNREIKKVFEFF 208 K V + + G + + L G+ +I+ + Sbjct: 221 GRHARDRIKMAVSENLTAKPAVTHFQRLATGMLDGRPVSLMLCRLETGRTHQIRVHMQSI 280 Query: 209 NW 210 + Sbjct: 281 GF 282 >gi|148267683|ref|YP_001246626.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus subsp. aureus JH9] gi|150393741|ref|YP_001316416.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus subsp. aureus JH1] gi|253314955|ref|ZP_04838168.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|255005978|ref|ZP_05144579.2| RNA-binding S4 domain-containing protein [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257795753|ref|ZP_05644732.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9781] gi|258415977|ref|ZP_05682247.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9763] gi|258419724|ref|ZP_05682691.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9719] gi|258438766|ref|ZP_05689919.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9299] gi|258444528|ref|ZP_05692857.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8115] gi|258447639|ref|ZP_05695783.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A6300] gi|258454860|ref|ZP_05702824.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A5937] gi|269202806|ref|YP_003282075.1| RNA-binding S4 domain protein [Staphylococcus aureus subsp. aureus ED98] gi|282892677|ref|ZP_06300912.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8117] gi|282929236|ref|ZP_06336811.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A10102] gi|295407129|ref|ZP_06816930.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8819] gi|296276133|ref|ZP_06858640.1| RNA-binding S4 domain protein [Staphylococcus aureus subsp. aureus MR1] gi|297245985|ref|ZP_06929844.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8796] gi|147740752|gb|ABQ49050.1| RNA-binding S4 domain protein [Staphylococcus aureus subsp. aureus JH9] gi|149946193|gb|ABR52129.1| RNA-binding S4 domain protein [Staphylococcus aureus subsp. aureus JH1] gi|257789725|gb|EEV28065.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9781] gi|257839313|gb|EEV63787.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9763] gi|257844309|gb|EEV68691.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9719] gi|257848025|gb|EEV72018.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A9299] gi|257850021|gb|EEV73974.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8115] gi|257853830|gb|EEV76789.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A6300] gi|257863243|gb|EEV86007.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A5937] gi|262075096|gb|ACY11069.1| RNA-binding S4 domain protein [Staphylococcus aureus subsp. aureus ED98] gi|282589195|gb|EFB94292.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A10102] gi|282764674|gb|EFC04799.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8117] gi|294967982|gb|EFG44010.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8819] gi|297177149|gb|EFH36403.1| RNA-binding S4 domain-containing protein [Staphylococcus aureus A8796] gi|312829585|emb|CBX34427.1| S4 domain protein [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315130982|gb|EFT86966.1| RNA-binding S4 domain protein [Staphylococcus aureus subsp. aureus CGS03] gi|329727412|gb|EGG63868.1| S4 domain protein [Staphylococcus aureus subsp. aureus 21172] Length = 268 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%) Query: 3 DKNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++N E+ T R+ VI SR +++I ++RVKVN +++ A + + D I Sbjct: 178 NENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLI 237 Query: 61 EVDG 64 + G Sbjct: 238 SIQG 241 >gi|21282803|ref|NP_645891.1| hypothetical protein MW1074 [Staphylococcus aureus subsp. aureus MW2] gi|49486031|ref|YP_043252.1| hypothetical protein SAS1125 [Staphylococcus aureus subsp. aureus MSSA476] gi|87159985|ref|YP_493782.1| hypothetical protein SAUSA300_1085 [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88194897|ref|YP_499697.1| hypothetical protein SAOUHSC_01156 [Staphylococcus aureus subsp. aureus NCTC 8325] gi|161509365|ref|YP_001575024.1| hypothetical protein USA300HOU_1128 [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221140637|ref|ZP_03565130.1| hypothetical protein SauraJ_03241 [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253733570|ref|ZP_04867735.1| ribosomal protein S4e [Staphylococcus aureus subsp. aureus TCH130] gi|258451889|ref|ZP_05699910.1| conserved hypothetical protein [Staphylococcus aureus A5948] gi|282919972|ref|ZP_06327701.1| conserved hypothetical protein [Staphylococcus aureus A9765] gi|284024115|ref|ZP_06378513.1| hypothetical protein Saura13_05969 [Staphylococcus aureus subsp. aureus 132] gi|294848184|ref|ZP_06788931.1| hypothetical protein SKAG_00243 [Staphylococcus aureus A9754] gi|297208167|ref|ZP_06924597.1| S4 domain-containing protein YlmH [Staphylococcus aureus subsp. aureus ATCC 51811] gi|300912245|ref|ZP_07129688.1| S4 domain-containing protein YlmH [Staphylococcus aureus subsp. aureus TCH70] gi|21204241|dbj|BAB94939.1| MW1074 [Staphylococcus aureus subsp. aureus MW2] gi|49244474|emb|CAG42902.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus MSSA476] gi|87125959|gb|ABD20473.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87202455|gb|ABD30265.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus NCTC 8325] gi|160368174|gb|ABX29145.1| hypothetical protein USA300HOU_1128 [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253728440|gb|EES97169.1| ribosomal protein S4e [Staphylococcus aureus subsp. aureus TCH130] gi|257860497|gb|EEV83324.1| conserved hypothetical protein [Staphylococcus aureus A5948] gi|282594688|gb|EFB99672.1| conserved hypothetical protein [Staphylococcus aureus A9765] gi|294824984|gb|EFG41406.1| hypothetical protein SKAG_00243 [Staphylococcus aureus A9754] gi|296886906|gb|EFH25809.1| S4 domain-containing protein YlmH [Staphylococcus aureus subsp. aureus ATCC 51811] gi|300886491|gb|EFK81693.1| S4 domain-containing protein YlmH [Staphylococcus aureus subsp. aureus TCH70] gi|302751014|gb|ADL65191.1| S4 RNA binding domain protein [Staphylococcus aureus subsp. aureus str. JKD6008] gi|315196921|gb|EFU27264.1| hypothetical protein CGSSa01_04105 [Staphylococcus aureus subsp. aureus CGS01] gi|320140994|gb|EFW32841.1| S4 domain protein [Staphylococcus aureus subsp. aureus MRSA131] gi|320143050|gb|EFW34840.1| S4 domain protein [Staphylococcus aureus subsp. aureus MRSA177] gi|329313859|gb|AEB88272.1| MW1074 protein [Staphylococcus aureus subsp. aureus T0131] gi|329725026|gb|EGG61522.1| S4 domain protein [Staphylococcus aureus subsp. aureus 21189] gi|329728857|gb|EGG65278.1| S4 domain protein [Staphylococcus aureus subsp. aureus 21193] Length = 268 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%) Query: 3 DKNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++N E+ T R+ VI SR +++I ++RVKVN +++ A + + D I Sbjct: 178 NENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLI 237 Query: 61 EVDG 64 + G Sbjct: 238 SIQG 241 >gi|170288274|ref|YP_001738512.1| RluA family pseudouridine synthase [Thermotoga sp. RQ2] gi|170175777|gb|ACB08829.1| pseudouridine synthase, RluA family [Thermotoga sp. RQ2] Length = 311 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 24/244 (9%), Positives = 66/244 (27%), Gaps = 39/244 (15%) Query: 7 VQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V++ R+ + + SR +++ I + +VKVNG + ++ + + + +EVD Sbjct: 6 VEKREEGWRLDQFLKEKTPSWISRSLIQKAIKEGKVKVNGQI-KKPSYKLKEGEIVEVDL 64 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 + + + + P ++ ++ L Sbjct: 65 PEKPQEATVQPEEIELKVLYEDRDIVVIDKPGDMIVHPVPSKLSGTLVNALLHHCKDLQG 124 Query: 125 TNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK------GIVIQGICYGDMQVT 178 ++ + V V + Q K I++ + Sbjct: 125 VGGKLRPGIVHRLDKETSGVIVVAKNDFAHQSLSKQFKDRKVKKTYILLVKGRVKSDEGV 184 Query: 179 LDTQKGSNAWVTVG----------LRE--------------------GKNREIKKVFEFF 208 +D + + + + E G+ +I+ + Sbjct: 185 IDLPLARHPVLRIKMAVVETGKEAITEYRVLKRFDDVATLVLAFPKTGRTHQIRVHMKSL 244 Query: 209 NWKV 212 + Sbjct: 245 GHPI 248 >gi|156740575|ref|YP_001430704.1| hemolysin A [Roseiflexus castenholzii DSM 13941] gi|156231903|gb|ABU56686.1| hemolysin A [Roseiflexus castenholzii DSM 13941] Length = 272 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 1/54 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ + G+A +R + +I V+VNG+ + V IEV G Sbjct: 3 KKVRLDQLLVQRGLAETRARAQALILAGEVRVNGVTRHKGGELVPDDAEIEVIG 56 >gi|295103716|emb|CBL01260.1| Uncharacterized conserved protein [Faecalibacterium prausnitzii SL3/3] Length = 71 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/65 (20%), Positives = 28/65 (43%), Gaps = 1/65 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ ++ AG+ + E + ++ VKVNG + + D IE+DG + Sbjct: 7 HTEFIKLDALLKFAGLCETGGEAKELVQGGAVKVNGEVCTMRGKKCRAGDIIELDGQSVE 66 Query: 69 KAERT 73 + Sbjct: 67 IGQGQ 71 >gi|302382935|ref|YP_003818758.1| hemolysin A [Brevundimonas subvibrioides ATCC 15264] gi|302193563|gb|ADL01135.1| hemolysin A [Brevundimonas subvibrioides ATCC 15264] Length = 241 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ G+ SR + I V V+GI++ AA + V Sbjct: 1 MRLDQLLVSKGLIDSRARAKAAIQAGGVTVDGIVVTNAARAFDDDAIVTV 50 >gi|239906997|ref|YP_002953738.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA kinase [Desulfovibrio magneticus RS-1] gi|239796863|dbj|BAH75852.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA kinase [Desulfovibrio magneticus RS-1] Length = 554 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 30/243 (12%), Positives = 61/243 (25%), Gaps = 40/243 (16%) Query: 10 NFTPQRVSKV----IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + R+ +A SR +V I V+G + + + + + + + Sbjct: 22 DAAGTRLDAFWSARLASE-DISRAKVRAAIEAGLALVDGEICRKPGLKLRGGEALTLRLP 80 Query: 63 ---------DGV-PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 DG L + L L + S + V L G Sbjct: 81 ETPSEAKAEDGELKLLYLDGDVLVLNKPAGLTIHPASSQPDGTLVNRLLHHFPDMRAMAG 140 Query: 113 RLDINTEGLLLLTN--------------------DGGLARVLELPSTQWLRVYRVRFHGQ 152 L T+ + +A+ Sbjct: 141 DRPGIVHRLDKDTSGLLLVAQTESARLALAADFAERRVAKTYLALVHGRPERSDGVIELP 200 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDT--QKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V +D + K +V +G L G+ + + V + G+ +I+ Sbjct: 201 VGRDPKHPTKMAVVAKGGREAKSSWKLAWTAPDGTASLLEVAIATGRTHQIRVHMAAMGH 260 Query: 211 KVN 213 + Sbjct: 261 PIV 263 >gi|149916264|ref|ZP_01904785.1| NAD(P) transhydrogenase subunit alpha [Roseobacter sp. AzwK-3b] gi|149809924|gb|EDM69775.1| NAD(P) transhydrogenase subunit alpha [Roseobacter sp. AzwK-3b] Length = 348 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 6/55 (10%) Query: 13 PQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 P R+ K ++R A + SR + R+IA+ V VNG + + D I + Sbjct: 15 PPRLDKALSRDVPEDAAL-SRTRLARLIAEGAVSVNGTPVTDPKSRISEGDSIAI 68 >gi|320458888|dbj|BAJ69509.1| conserved hypothetical protein [Bifidobacterium longum subsp. infantis ATCC 15697] Length = 257 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/63 (20%), Positives = 29/63 (46%), Gaps = 2/63 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 K + R+ ++ +G+ SR + +R+I V+V+G + + + V + + Sbjct: 2 TKQHIDSATPLDRLDMMLVASGLVESRAKAQRLIKAGHVRVDGETITKPSFMVKAGHSEL 61 Query: 61 EVD 63 VD Sbjct: 62 AVD 64 >gi|297181969|gb|ADI18145.1| predicted rRNA methylase [uncultured Verrucomicrobiales bacterium HF0200_39L05] Length = 301 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/63 (19%), Positives = 27/63 (42%), Gaps = 1/63 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + + R+ + G+ SR + +R + + VNG +A+ V +D Sbjct: 45 MEKNQLTPKPKKLARLDLALVERGLCESREKAKRAVMAGQALVNGQRAAKASDKVKPSDE 104 Query: 60 IEV 62 + + Sbjct: 105 VTL 107 >gi|298675322|ref|YP_003727072.1| RNA-binding S4 domain-containing protein [Methanohalobium evestigatum Z-7303] gi|298288310|gb|ADI74276.1| RNA-binding S4 domain protein [Methanohalobium evestigatum Z-7303] Length = 220 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 28/51 (54%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + G SR + IA +VK++G ++++A+ +V + ++V+ Sbjct: 1 MRLDVYLVENGYFTSRGRSKTAIASGKVKIDGRIVKKASKDVKPENKVQVE 51 >gi|213692730|ref|YP_002323316.1| hemolysin A [Bifidobacterium longum subsp. infantis ATCC 15697] gi|213524191|gb|ACJ52938.1| hemolysin A [Bifidobacterium longum subsp. infantis ATCC 15697] Length = 276 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/63 (20%), Positives = 29/63 (46%), Gaps = 2/63 (3%) Query: 3 DKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHI 60 K + R+ ++ +G+ SR + +R+I V+V+G + + + V + + Sbjct: 21 TKQHIDSATPLDRLDMMLVASGLVESRAKAQRLIKAGHVRVDGETITKPSFMVKAGHSEL 80 Query: 61 EVD 63 VD Sbjct: 81 AVD 83 >gi|332653020|ref|ZP_08418765.1| hemolysin A [Ruminococcaceae bacterium D16] gi|332518166|gb|EGJ47769.1| hemolysin A [Ruminococcaceae bacterium D16] Length = 270 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 1/72 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + G+A SR++ + +I +V V+ +++A V I+V G LR R Sbjct: 6 RLDVAMVERGLAESRQKAQAIIMAGQVYVDDQKVDKAGAPVKEEQVIQVRGKTLRYVSRG 65 Query: 74 RLWLYHKPIGLV 85 L L Sbjct: 66 GLKLEKAMACWP 77 >gi|290968312|ref|ZP_06559854.1| ribosomal RNA large subunit methyltransferase J [Megasphaera genomosp. type_1 str. 28L] gi|290781671|gb|EFD94257.1| ribosomal RNA large subunit methyltransferase J [Megasphaera genomosp. type_1 str. 28L] Length = 265 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 1/60 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 + +R+ ++ G+A SR + + I V V +++A I V G + Sbjct: 2 QSKERLDILLTERGLAESREKAKAAIMAGLVFVENRRVDKAGTKFSEDVRITVKGNAVPY 61 >gi|227499566|ref|ZP_03929673.1| conserved hypothetical protein [Anaerococcus tetradius ATCC 35098] gi|227218325|gb|EEI83579.1| conserved hypothetical protein [Anaerococcus tetradius ATCC 35098] Length = 255 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 22/48 (45%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +I++ SR + +I + VKV+ ++ + V I V Sbjct: 180 RLDNIISQILNCSRSRAKVLITGRMVKVDHQIIVDPSYQVSEASLISV 227 >gi|148825561|ref|YP_001290314.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae PittEE] gi|148715721|gb|ABQ97931.1| SfhB [Haemophilus influenzae PittEE] Length = 324 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 63/239 (26%), Gaps = 33/239 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRIANIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVD 154 RLD +T GL+++ L + +D Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMD 189 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + G + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPA-VTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|187477717|ref|YP_785741.1| ribosomal large subunit pseudouridine synthase D [Bordetella avium 197N] gi|115422303|emb|CAJ48827.1| ribosomal large subunit pseudouridine synthase D [Bordetella avium 197N] Length = 320 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 37/252 (14%), Positives = 68/252 (26%), Gaps = 42/252 (16%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ KV+A SR ++ I V VNG + V D + V P Sbjct: 29 RLDKVLAGLMPGHSRSRLQGWIEAGHVLVNGQAAKV-RQPVGPGDVLTVWEQPAPESLAF 87 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-----RVISVGR 113 + + + + + + + + L R V R Sbjct: 88 SPEPVDFDVIDSSSDWIVVNKPAGLVTHPGAGNWTGTLLNGLLHRFPELSRVARAGIVHR 147 Query: 114 LDINTEGLLLLTNDGGLARVLEL------PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 LD +T GL+++ + L ++L + G D+ + + Sbjct: 148 LDKDTSGLMVVARNELAQTHLVRQLQARSMGREYLALAHGWLAGAGTVDRPIGRDARVPV 207 Query: 168 QGIC-----YGDMQVTLDTQKGSN-------AWVTVGLREGKNREIKKVFEFFNWKVNRL 215 + Q+ V L G+ +I+ + L Sbjct: 208 RMSVERPIAAKPAITHYLPQRRGEAQEGERVTEVICRLETGRTHQIRVHLASLGHPL--L 265 Query: 216 IRISYGPFQLGT 227 YG L Sbjct: 266 ADTIYGGRALAG 277 >gi|329737381|gb|EGG73635.1| putative pseudouridine synthase B, ribosomal large subunit [Staphylococcus epidermidis VCU028] Length = 49 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 15/39 (38%), Positives = 24/39 (61%) Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILR 242 +FE+F +VN+L RI +GP L L AG R ++ ++ Sbjct: 1 MFEYFGHQVNKLTRIQFGPIDLKGLNAGEGRVLTPHEVK 39 >gi|295396961|ref|ZP_06807083.1| ribosomal large subunit pseudouridine synthase D [Aerococcus viridans ATCC 11563] gi|294974814|gb|EFG50519.1| ribosomal large subunit pseudouridine synthase D [Aerococcus viridans ATCC 11563] Length = 322 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 33/258 (12%), Positives = 72/258 (27%), Gaps = 46/258 (17%) Query: 2 KDKNIVQENFTPQ---RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVM-- 55 ++K + +T + R+ + + SR +++ I + V VNG + + + V Sbjct: 8 EEKTVFNYTYTGEDGLRLDQFVTNQFTDESRTTIKKWIKDKLVTVNGKVAKASQSLVNGD 67 Query: 56 ----------------------------STDHIEVDGVP--------LRKAERTR---LW 76 D I V P + T L Sbjct: 68 LIGVEKPAPAEAEEFKPVAEKMALDIVFEDDDILVVNKPANLVVHPSVNHPTNTLVNGLL 127 Query: 77 LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLEL 136 + + G R + L + ++ V + E L + + R+ Sbjct: 128 YHVQENGSQLAVGRESFRPGIVHRLDKDTTGLLVVAKSQAALENLTKQVANHQMTRIYAG 187 Query: 137 PSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREG 196 + + + + + L K + + T+ + V L G Sbjct: 188 LVYGEIFEAGGTIDAPIRRHEKDRL-KFETNEAGRHAVTHFTVKHRYVGYTLVNFQLETG 246 Query: 197 KNREIKKVFEFFNWKVNR 214 + +I+ F N + Sbjct: 247 RTHQIRVHANFINHPIVD 264 >gi|301024188|ref|ZP_07187895.1| pseudouridine synthase, RluA family [Escherichia coli MS 196-1] gi|312973162|ref|ZP_07787335.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 1827-70] gi|299880530|gb|EFI88741.1| pseudouridine synthase, RluA family [Escherichia coli MS 196-1] gi|310333104|gb|EFQ00318.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 1827-70] gi|315615335|gb|EFU95969.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 3431] Length = 300 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 25/217 (11%), Positives = 56/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG + ++ V+ + + ++ + + Sbjct: 6 SRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 + + +V + + + L R V RLD +T GL+++ Sbjct: 66 DIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L + V Sbjct: 126 VPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|206890097|ref|YP_002249221.1| ribosomal protein S4 [Thermodesulfovibrio yellowstonii DSM 11347] gi|226695094|sp|B5YG23|RS4_THEYD RecName: Full=30S ribosomal protein S4 gi|206742035|gb|ACI21092.1| ribosomal protein S4 [Thermodesulfovibrio yellowstonii DSM 11347] Length = 208 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A +RR+ +++ VNG ++ + V D IE+ Sbjct: 99 RLDNVIYRMGFAMNRRQARQLVRHGYFTVNGKKVDIPSYLVRPGDIIEI 147 >gi|160938272|ref|ZP_02085627.1| hypothetical protein CLOBOL_03168 [Clostridium bolteae ATCC BAA-613] gi|158438645|gb|EDP16402.1| hypothetical protein CLOBOL_03168 [Clostridium bolteae ATCC BAA-613] Length = 310 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 25/180 (13%), Positives = 55/180 (30%), Gaps = 2/180 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ ++ + +A SR + + +I V VNG ++A + T IEV G L+ Sbjct: 2 KKERLDVLMVQRNLAESREKAKALIMSGIVYVNGQKEDKAGTSFEETVQIEVRGNTLKYV 61 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L L + ++ G + + + L Sbjct: 62 SRGGLKLEKAMSRFGVQLAGKVCMDVGAST-GGFTDCMLQNGAVKVYAVDVGHGQLAWKL 120 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V D+ + + + G ++ L + + Sbjct: 121 RNDDRVICMEKTNIRYVTPEDIGDRIEFASIDVSFISLTKVLGPVKQLLTDEGQVVCLIK 180 >gi|298370567|ref|ZP_06981882.1| ribosomal protein S4 [Neisseria sp. oral taxon 014 str. F0314] gi|298281177|gb|EFI22667.1| ribosomal protein S4 [Neisseria sp. oral taxon 014 str. F0314] Length = 206 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D I V ++ Sbjct: 97 RLDNVVYRLGFGSTRAEARQLVSHKAITVNGQVVNIPSYQVKAGDIIAVREKAKKQVRIQ 156 >gi|255527584|ref|ZP_05394448.1| S4 domain protein YaaA [Clostridium carboxidivorans P7] gi|296186782|ref|ZP_06855183.1| S4 domain protein YaaA [Clostridium carboxidivorans P7] gi|255508717|gb|EET85093.1| S4 domain protein YaaA [Clostridium carboxidivorans P7] gi|296048496|gb|EFG87929.1| S4 domain protein YaaA [Clostridium carboxidivorans P7] Length = 68 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 8/68 (11%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMST 57 MK+ I N ++ + G + S E + I VKVN + R + Sbjct: 1 MKEIEI---NTDIIKLDSFLKWCGAVSLGS--EAKMFIQDGLVKVNNEIEVRRGKKLTKG 55 Query: 58 DHIEVDGV 65 D IE DG Sbjct: 56 DIIEFDGE 63 >gi|13357999|ref|NP_078273.1| hemolysin [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|168281604|ref|ZP_02689271.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|168307749|ref|ZP_02690424.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|170762432|ref|YP_001752522.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|11279182|pir||C82891 hemolysin UU436 [imported] - Ureaplasma urealyticum gi|6899427|gb|AAF30848.1|AE002140_7 hemolysin [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|168828009|gb|ACA33271.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|171902941|gb|EDT49230.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|182676028|gb|EDT87933.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 14 str. ATCC 33697] Length = 247 Score = 52.1 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ + +R + +I + RV VN + + + V TD +E+ Sbjct: 3 QRLDHYLKNTNQCETRSKAIDLIKRGRVFVNNFQVLKPSFLVKQTDSVEI 52 >gi|292670719|ref|ZP_06604145.1| hemolysin A [Selenomonas noxia ATCC 43541] gi|292647665|gb|EFF65637.1| hemolysin A [Selenomonas noxia ATCC 43541] Length = 269 Score = 51.7 bits (122), Expect = 1e-04, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G A SR +R+I +V V+ +++A V + V G L Sbjct: 2 KKERLDLLLVARGFAASRERAKRLIMAGQVLVDEQRVDKAGTTVSPLSSLRVVGEDLPY 60 >gi|326203544|ref|ZP_08193408.1| pseudouridine synthase, RluA family [Clostridium papyrosolvens DSM 2782] gi|325986364|gb|EGD47196.1| pseudouridine synthase, RluA family [Clostridium papyrosolvens DSM 2782] Length = 304 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 34/250 (13%), Positives = 77/250 (30%), Gaps = 39/250 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 MK+ I++ + R+ +A SR ++++ + VN + ++ V D+ Sbjct: 1 MKE-FILECDTDGVRIDSWLAGNLEDYSRSYIQKLCLDGNIWVN-EVQAKSNYKVKPGDN 58 Query: 60 IEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I+V D P + ++ + + +V + V + Sbjct: 59 IKVSVPDAEILDVEPEDIPLDIVYEDKHIIVINKPKGMVVHPAVGNYSGTLVNALMKHCG 118 Query: 106 S---------RVISVGRLDINTEGLLLLTNDGGLARVLELP-------------STQWLR 143 R V R+D +T GLL++ L + Sbjct: 119 DSLSDINGVIRPGIVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKREYIALVDGIIY 178 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 + + + + K + Q + + S +V + L G+ +I+ Sbjct: 179 ENSGKIDAPIGRHPVERKKMSVNTQNGRNAITHFKVLERFPSATYVQLKLETGRTHQIRV 238 Query: 204 VFEFFNWKVN 213 + N + Sbjct: 239 HMSYINHPII 248 >gi|163816004|ref|ZP_02207374.1| hypothetical protein COPEUT_02184 [Coprococcus eutactus ATCC 27759] gi|158448814|gb|EDP25809.1| hypothetical protein COPEUT_02184 [Coprococcus eutactus ATCC 27759] Length = 214 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 1/63 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +I R G A +RRE +++ + V VNG + + +V D IE+ Sbjct: 105 RLDNIIFRLGFARTRREARQIVDHKHVLVNGKCVNIPSYSVKPGDKIEIREKSKSLQRYK 164 Query: 74 RLW 76 + Sbjct: 165 DIM 167 >gi|119773378|ref|YP_926118.1| 30S ribosomal protein S4 [Shewanella amazonensis SB2B] gi|152112259|sp|A1S242|RS4_SHEAM RecName: Full=30S ribosomal protein S4 gi|119765878|gb|ABL98448.1| SSU ribosomal protein S4P [Shewanella amazonensis SB2B] Length = 206 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKSVMVNGRVVNIPSFKVSANDVVSI 145 >gi|288906416|ref|YP_003431638.1| Ribosomal protein S4 [Streptococcus gallolyticus UCN34] gi|306832453|ref|ZP_07465605.1| 30S ribosomal protein S4 [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325979478|ref|YP_004289194.1| 30S ribosomal protein S4 [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|288733142|emb|CBI14723.1| Ribosomal protein S4 [Streptococcus gallolyticus UCN34] gi|304425353|gb|EFM28473.1| 30S ribosomal protein S4 [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325179406|emb|CBZ49450.1| 30S ribosomal protein S4 [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|159039806|ref|YP_001539059.1| RNA-binding S4 domain-containing protein [Salinispora arenicola CNS-205] gi|157918641|gb|ABW00069.1| RNA-binding S4 domain protein [Salinispora arenicola CNS-205] Length = 208 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ RAG A SR +++ VNG ++ + V D +EV G Sbjct: 99 RLDNVVYRAGYAKSRDMARQLVKHGHFTVNGRKVDIPSYRVKEHDIVEVRGK 150 >gi|320333612|ref|YP_004170323.1| RluA family pseudouridine synthase [Deinococcus maricopensis DSM 21211] gi|319754901|gb|ADV66658.1| pseudouridine synthase, RluA family [Deinococcus maricopensis DSM 21211] Length = 323 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 16/54 (29%), Positives = 29/54 (53%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 TP R+ V+A +SR +V I RV+VNG + ++++ + + + VD Sbjct: 10 TATPGRLDAVLAGLADSSRSQVSAWIDAGRVRVNGQVTTKSSLKLRGGETLIVD 63 >gi|86132824|ref|ZP_01051415.1| pseudouridine synthase, RluA family [Dokdonia donghaensis MED134] gi|85816530|gb|EAQ37717.1| pseudouridine synthase, RluA family [Dokdonia donghaensis MED134] Length = 347 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 33/267 (12%), Positives = 73/267 (27%), Gaps = 42/267 (15%) Query: 8 QENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + P RV K + A+R ++++ ++VN ++++ V + D + Sbjct: 25 SKGQEPLRVDKFLMNFVENATRNKIQKAAKNGSIQVNNKVVKQ-NYKVKAGDVVRAMFEH 83 Query: 67 ---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----- 106 + + L + +V + + + I + Sbjct: 84 PPHEFLLTPEDIPLDIIYEDDDLLVVNKPAGMVVHPGHGNYSGTLINALIHHIDNLPNNS 143 Query: 107 --RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY-------------RVRFHG 151 R V R+D +T GLL++ L G Sbjct: 144 SERPGLVHRIDKDTSGLLVVAKTEHAMTHLSKQFFNKTTEREYVAIVWGNVVDDEGTIEG 203 Query: 152 QVDQDKLNLLKKGIVIQGICY--GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + N L+ + + + G V L G+ +I+ ++ Sbjct: 204 NIGRHPKNRLQNTVFKDDEEEQGKPAVTHYKVLERLGYVTQVACKLETGRTHQIRVHMKY 263 Query: 208 FNWKVNRLIRISYGPFQLGTLLAGSTR 234 + R G L + Sbjct: 264 IGHTLFNDERYG-GNAILKGTSFTKYK 289 >gi|85058561|ref|YP_454263.1| 23S rRNA pseudouridine synthase D [Sodalis glossinidius str. 'morsitans'] gi|84779081|dbj|BAE73858.1| ribosomal large subunit pseudouridine synthase D [Sodalis glossinidius str. 'morsitans'] Length = 326 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 25/239 (10%), Positives = 58/239 (24%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 V E+ QR+ + +A SR ++ I V+VN + ++ + +E+ Sbjct: 10 TVSESQLGQRLDQALAELFPDYSRSRIKAWILDGLVRVNRRVTAVPKEKMLGGESVEIQA 69 Query: 63 --------------------DGVPLRKAERTRLWLYHKPIG---LVTTHSDPDGRSTVFD 99 D L + L ++ V V Sbjct: 70 FIEEAPRWEAQAIPLNIVYEDDDILVINKPRDLVVHPGAGNADGTVLNALLHYFPPIVDV 129 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 I R+ + + + + ++ V + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQAREITREYEAVAIGTMTAGGTLEQPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ N + Sbjct: 190 ARHATKRTHMAVHPMGKPAVTNYRIMEHFRAHTRLRLRLETGRTHQIRVHMAHINHPLV 248 >gi|163783136|ref|ZP_02178130.1| 30S ribosomal protein S4 [Hydrogenivirga sp. 128-5-R1-1] gi|159881470|gb|EDP74980.1| 30S ribosomal protein S4 [Hydrogenivirga sp. 128-5-R1-1] Length = 211 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A+ RR+ +++A + VNG ++ V D IEV Sbjct: 99 RLDNVVYRLGFATTRRQARQLVAHGHILVNGRKVDIPHYEVEPGDIIEV 147 >gi|304321305|ref|YP_003854948.1| Hemolysin HlyA [Parvularcula bermudensis HTCC2503] gi|303300207|gb|ADM09806.1| Hemolysin HlyA [Parvularcula bermudensis HTCC2503] Length = 243 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ + AG SR +++I V VNG+ + +A ++ TD +E G Sbjct: 1 MRLDSYLVEAGHVRSRERAKKVIGDGYVWVNGVQVRKAGRSLQPTDRVEFRGE 53 >gi|300722272|ref|YP_003711556.1| pseudouridine synthase [Xenorhabdus nematophila ATCC 19061] gi|297628773|emb|CBJ89351.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA) [Xenorhabdus nematophila ATCC 19061] Length = 325 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 24/239 (10%), Positives = 64/239 (26%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 IV + QR+ + +A SR ++ I +V+VNG L+ + ++ + I +D Sbjct: 10 IVAGSQLGQRLDQALAELFPDYSRSRIKEWILDNKVQVNGKLINKPKEKMLGGEDISIDA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + + L + +V + + + L Sbjct: 70 IIEEDARWEPQDIELNVVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLYRYPKIADV 129 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--- 156 R+ + + + L + ++ + + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQLREITREYEAIALGCMTAGGMVEEPI 189 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + ++ + + L G+ +I+ + Sbjct: 190 SRHPTKRTHMAVHPMGKPAITHYRVLEHFRAHTRLRLRLETGRTHQIRVHMAHIKHPLV 248 >gi|154483650|ref|ZP_02026098.1| hypothetical protein EUBVEN_01354 [Eubacterium ventriosum ATCC 27560] gi|149735560|gb|EDM51446.1| hypothetical protein EUBVEN_01354 [Eubacterium ventriosum ATCC 27560] Length = 275 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 22/178 (12%), Positives = 50/178 (28%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + G+A SR + + +I V V+ ++A +IEV G L+ R Sbjct: 3 ERLDVLLVKRGLAPSREKAKAIIMSGIVFVDNEREDKAGTTFDEKVNIEVRGKTLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L ++ G + + + + L + Sbjct: 63 GGLKLEKAMDVFGVKIEGKTCMDVGAST-GGFTDCMLQNGAVKVYSVDVGHGQLAWKLVQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + V D + + ++ L + Sbjct: 122 DDRVICMDRTNIRYVTPDQIDDVLDFASIDVSFISLTKVLLPVKNLLKENGQIVCLIK 179 >gi|169831190|ref|YP_001717172.1| hemolysin A [Candidatus Desulforudis audaxviator MP104C] gi|169638034|gb|ACA59540.1| hemolysin A [Candidatus Desulforudis audaxviator MP104C] Length = 274 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 1/55 (1%) Query: 11 FTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +R+ ++ G SR I V VNG+ +++ + IEV G Sbjct: 2 SRKERLDILLHSRGCFPSRERARSAIMAGVVFVNGVRVDKPGTKLDPHADIEVRG 56 >gi|292669832|ref|ZP_06603258.1| 30S ribosomal protein S4 [Selenomonas noxia ATCC 43541] gi|292648629|gb|EFF66601.1| 30S ribosomal protein S4 [Selenomonas noxia ATCC 43541] Length = 197 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +++ VNG ++ + V D IEV Sbjct: 88 RLDNVVFRLGLANTRRQARQLVRHGHFTVNGKRVDIPSALVREGDVIEV 136 >gi|120553676|ref|YP_958027.1| ribosomal protein S4 [Marinobacter aquaeolei VT8] gi|152060959|sp|A1TYM1|RS4_MARAV RecName: Full=30S ribosomal protein S4 gi|120323525|gb|ABM17840.1| SSU ribosomal protein S4P [Marinobacter aquaeolei VT8] Length = 206 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VN + + V D + V Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAVLVNDKPVNIPSYQVKPGDVVSV 145 >gi|312898764|ref|ZP_07758153.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis F0359] gi|310620195|gb|EFQ03766.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis F0359] Length = 291 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 38/242 (15%), Positives = 76/242 (31%), Gaps = 42/242 (17%) Query: 27 SRREVERMIAQQRVKV-NGILL---------ERAAVNVMSTDHIEVDGVPLR-KAERTRL 75 SRR+ I + + NG+ + V + D IE + +PL E L Sbjct: 28 SRRK----IKNNGICLQNGVPASMKDLVHQGDSLEVILQPKDTIEAEDIPLSVAYEDDYL 83 Query: 76 WLYHKPIGLVTTHSDPDGRST------VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + +KP G++ + + T + + V RLD NT GL L+ + Sbjct: 84 IVVNKPPGMLMHQTSSERFGTLANAIMYYYKVHGYDHDYHPVHRLDRNTSGLCLIAKESY 143 Query: 130 LARVLELPSTQW----------LRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 + + + + + + + K + T Sbjct: 144 VQHLFDKNRLFYARTYTALAQGRFPAMLATVHTPIGRDPDSIIKRNTREDGKEAHSDFTR 203 Query: 180 DTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKK 239 + + + L G+ +I+ + + G L GS R ++++ Sbjct: 204 LAVCDDFSLIRITLHTGRTHQIRVHSAYLGHPL-------IG----DDLYGGSRRFLNRQ 252 Query: 240 IL 241 L Sbjct: 253 AL 254 >gi|288818043|ref|YP_003432390.1| ribosomal protein S4 [Hydrogenobacter thermophilus TK-6] gi|288787442|dbj|BAI69189.1| ribosomal protein S4 [Hydrogenobacter thermophilus TK-6] gi|308751644|gb|ADO45127.1| ribosomal protein S4 [Hydrogenobacter thermophilus TK-6] Length = 209 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +MIA + VNG ++ + V D IE+ Sbjct: 99 RLDNVVYRLGMAVTRRQARQMIAHGHILVNGKKVDIPSYRVQVGDIIEL 147 >gi|89093551|ref|ZP_01166499.1| pseudouridine synthase [Oceanospirillum sp. MED92] gi|89082241|gb|EAR61465.1| pseudouridine synthase [Oceanospirillum sp. MED92] Length = 322 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 68/238 (28%), Gaps = 32/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN--------VMST 57 V ++ +R+ + +A+ SR ++ I + VNG + ++ + + Sbjct: 11 VTDDLVGKRLDQAVAQLFPDYSRSRLQGWIKDGSLTVNGEV-KKPREKLLGGEAIAIDAN 69 Query: 58 DHIEVDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + D P + + L + +V + + L Sbjct: 70 LEVIEDHKPQNIPLDIVYEDEHILVINKPAGLVVHPAVGHRDGTLLNALLYHCPDIAQVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ-----------VDQ 155 RLD++T GL+++ L + Sbjct: 130 RAGIVHRLDMDTTGLMVVAKTIAAQTELVEQLQERSMGREYEAVVNGVMTGGGVVDEPMG 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +K V+ + + S+ + + L G+ +I+ N+ + Sbjct: 190 RHSKNRQKMAVVGVGKEAVTHYRVLKKLRSHTHIRLKLETGRTHQIRVHMSHINYPLV 247 >gi|312958894|ref|ZP_07773413.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas fluorescens WH6] gi|311286664|gb|EFQ65226.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas fluorescens WH6] Length = 320 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 31/236 (13%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G ++ V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGAVIR-PRDIVHGGAILELTAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L I + Sbjct: 75 EWVAQDIELD---IVYEDDDILVINKPAGLVVHPAAGHADGTLLNALLHHIPDIINVPRC 131 Query: 114 LDINTEG----------------LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVVAGGKINAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINFPLV 247 >gi|297180028|gb|ADI16253.1| pseudouridylate synthases, 23S RNA-specific [uncultured bacterium HF0010_16H03] Length = 309 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 38/232 (16%), Positives = 74/232 (31%), Gaps = 34/232 (14%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------G 64 QR+ K SR ++++ I + R+ VNG L + +V D IE++ Sbjct: 12 QRLDKAATELFDEYSRTQIKKWILEGRILVNGDL-SKPRDSVHENDEIEINPTKERKVSW 70 Query: 65 VPLRKAERTR------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 P T + + P ++ S + + R V R Sbjct: 71 EPQNINFETYHECEDFIIINKPPGLIMHPGSGCYDGTLANGLINKYPDLENLPRCGIVHR 130 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR------------FHGQVDQDKLNLL 161 LD +T G+LL+ + G + + + +DK N Sbjct: 131 LDKDTSGVLLVARNEGFRNYFIQLMQERRVTKKYTAIVVGSTLGSFSIEDPIGRDKSNRT 190 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K + G T + G+ + + + + G+ +I+ + Sbjct: 191 KMSVRPDGKEALTFVKTSERI-GNYSILDIAIETGRTHQIRVHLLSKKLPII 241 >gi|227506077|ref|ZP_03936126.1| S4 domain protein [Corynebacterium striatum ATCC 6940] gi|227197359|gb|EEI77407.1| S4 domain protein [Corynebacterium striatum ATCC 6940] Length = 95 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 10/35 (28%), Positives = 19/35 (54%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 E + +IAQ V+VNG ++ + + D + + G Sbjct: 28 EAKELIAQGEVQVNGEVVTQRGATLHPGDEVSIAG 62 >gi|194039345|ref|XP_001926979.1| PREDICTED: zinc finger protein 318 [Sus scrofa] Length = 2282 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 19/112 (16%), Positives = 33/112 (29%), Gaps = 5/112 (4%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + H +E+ SS + + ++ + + Sbjct: 7 RSSVFSHRPKESGGGGPRTGRSSGSSSGPARRTSPPSSGSSSSRTPARRPRSPSGHRGRR 66 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQR-----EENHRRSPSFPSKRSLR 348 A+P R + +G +S G+R R SPS P R R Sbjct: 67 ASPSPPRGRRGSPSPPRGRRASPSPPRGRRVSPSPPRARRGSPSSPPPRGRR 118 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 18/108 (16%), Positives = 30/108 (27%), Gaps = 2/108 (1%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + V P S R + S +S + + ++ +P Sbjct: 3 RSGARSSVFSHRPKESGGGGPRTGRSSGSSSGPARRTSPPSSGSSSSRTPARRPRSPSGH 62 Query: 308 RNLASNVWMAKGIHSSFLSDSGQR--EENHRRSPSFPSKRSLRRTSAK 353 R ++ +G S G+R R PS RR S Sbjct: 63 RGRRASPSPPRGRRGSPSPPRGRRASPSPPRGRRVSPSPPRARRGSPS 110 Score = 45.9 bits (107), Expect = 0.009, Method: Composition-based stats. Identities = 15/115 (13%), Positives = 29/115 (25%), Gaps = 2/115 (1%) Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 + R + SS T R + + + + Sbjct: 23 PRTGRSSGSSSGPARRTSPPSSGSSSSRTPARRPRSPSGHRGRRASPSPPRGRRGSPSPP 82 Query: 298 QKKLATPVHRRNLA--SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + A+P R + A+ S G+R + S R R+ Sbjct: 83 RGRRASPSPPRGRRVSPSPPRARRGSPSSPPPRGRRLFPPGSAGFRGSSRGDSRS 137 Score = 45.2 bits (105), Expect = 0.015, Method: Composition-based stats. Identities = 13/112 (11%), Positives = 23/112 (20%), Gaps = 5/112 (4%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN-----GLSKQKKLA 302 + + R S P R + + ++ Sbjct: 50 RTPARRPRSPSGHRGRRASPSPPRGRRGSPSPPRGRRASPSPPRGRRVSPSPPRARRGSP 109 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R + G S DS R S RR+ + Sbjct: 110 SSPPPRGRRLFPPGSAGFRGSSRGDSRSDFARDGRGDHPGDSGSRRRSPGLR 161 >gi|330686325|gb|EGG97930.1| S4 domain protein [Staphylococcus epidermidis VCU121] Length = 243 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 27/60 (45%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ V+ SR +++I ++RVKVN +++ + D + + G Sbjct: 157 KIQSSTVSALRLDVVLKDMIHKSRSIAKQLIEKKRVKVNHTIIDSPDFQLEMNDLLSIQG 216 >gi|257126747|ref|YP_003164861.1| 30S ribosomal protein S4 [Leptotrichia buccalis C-1013-b] gi|260891350|ref|ZP_05902613.1| ribosomal protein S4 [Leptotrichia hofstadii F0254] gi|257050686|gb|ACV39870.1| ribosomal protein S4 [Leptotrichia buccalis C-1013-b] gi|260858733|gb|EEX73233.1| ribosomal protein S4 [Leptotrichia hofstadii F0254] Length = 195 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G +RR+ ++++ + +NG + A+ V D I V Sbjct: 89 RLDNVIYRLGFGATRRQARQIVSHGHILINGKRVNIASYRVKQGDVITV 137 >gi|331701254|ref|YP_004398213.1| 30S ribosomal protein S4 [Lactobacillus buchneri NRRL B-30929] gi|329128597|gb|AEB73150.1| ribosomal protein S4 [Lactobacillus buchneri NRRL B-30929] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ R G+A+ RR+ +++ + V+G ++ + V I V Sbjct: 93 ERLDNMVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSYEVQPGQVISV 142 >gi|297171518|gb|ADI22517.1| predicted rRNA methylase [uncultured verrucomicrobium HF0500_08N17] Length = 257 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/63 (19%), Positives = 27/63 (42%), Gaps = 1/63 (1%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M+ + + R+ + G+ SR + +R + + VNG +A+ V +D Sbjct: 1 MEKNQLTPKPAKLARLDLALVERGLCESREKAKRAVMAGQALVNGQRAAKASDKVKPSDE 60 Query: 60 IEV 62 + + Sbjct: 61 VTL 63 >gi|57651761|ref|YP_186067.1| YlmH protein [Staphylococcus aureus subsp. aureus COL] gi|57285947|gb|AAW38041.1| YlmH protein [Staphylococcus aureus subsp. aureus COL] Length = 259 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%) Query: 3 DKNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++N E+ T R+ VI SR +++I ++RVKVN +++ A + + D I Sbjct: 169 NENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLI 228 Query: 61 EVDG 64 + G Sbjct: 229 SIQG 232 >gi|317471813|ref|ZP_07931150.1| hemolysin TlyA family protein [Anaerostipes sp. 3_2_56FAA] gi|316900704|gb|EFV22681.1| hemolysin TlyA family protein [Anaerostipes sp. 3_2_56FAA] Length = 271 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 26/177 (14%), Positives = 54/177 (30%), Gaps = 3/177 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + G+A SR + + +I V V+G ++A V IE+ G L+ R Sbjct: 3 ERLDVLLVKKGLAASREKAKAIIMSGVVFVDGQREDKAGTMVKEELPIEIKGKTLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +D ++ G + + + D GL Sbjct: 63 GGLKLEKAMKQFNIQLTDRVCMDVGAST-GGFTHCMLLNGAKKVYSVDVGHGQLDWGLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + V + + I + + G + Sbjct: 122 DERVVCMERTNMRYVTPEDIEEPAGFVSIDVSF-ISLTKILPAVYGILEKGGEVTAL 177 >gi|209548167|ref|YP_002280084.1| hemolysin A [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209533923|gb|ACI53858.1| hemolysin A [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 248 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + QR+ +++ G ASR + + V++ G ++ +A + IE+D Sbjct: 2 SDQNSQRLDQLLVSRGLFASRSRARDAVQRGTVRIAGQVVTKAGALIGDDAAIEIDD 58 >gi|91762258|ref|ZP_01264223.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1002] gi|91718060|gb|EAS84710.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1002] Length = 326 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 39/254 (15%), Positives = 85/254 (33%), Gaps = 43/254 (16%) Query: 2 KDKN-IVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 K+ N IV E+ R+ I R + SR ++ +I ++++K+N ++ + V+S D Sbjct: 3 KNINLIVGEDENNLRLDVFINKRENLISRSRIKNLILKEKLKINDQIINSPSKKVLSGDE 62 Query: 60 IE-------------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 I + E L + +KP G++ + T+ + L Sbjct: 63 INLQIPEPKEASLKPYNFKLQIVYEDDDLLIINKPAGIIMHPGAGNYDETIVNALMHYNK 122 Query: 107 RVISV----------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLR 143 +S R+D +T GL+++ + L LR Sbjct: 123 DSLSTIGDELRPGIVHRIDKDTSGLIVIAKNNETHENLSHQFSEHTITRVYQLLIWGKLR 182 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGIC-----YGDMQVTLDTQKGSNAWVTVGLREGKN 198 + + + N + Y +++ + + + + V L G+ Sbjct: 183 PSSGKIDTFITRSSKNRQMMEVSNSKGKRAITNYKTIEIFENDKTPTLSLVECRLETGRT 242 Query: 199 REIKKVFEFFNWKV 212 +I+ + Sbjct: 243 HQIRVHMTHMGNSI 256 >gi|323440963|gb|EGA98670.1| YlmH protein [Staphylococcus aureus O11] gi|323442280|gb|EGA99910.1| YlmH protein [Staphylococcus aureus O46] Length = 268 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ VI SR +++I ++RVKVN +++ A + + D I + G Sbjct: 182 KIESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSANFQLQANDLISIQG 241 >gi|227496317|ref|ZP_03926613.1| hemolysin A [Actinomyces urogenitalis DSM 15434] gi|226834155|gb|EEH66538.1| hemolysin A [Actinomyces urogenitalis DSM 15434] Length = 287 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G+A SR +++ V ++G ++ + A V IEV Sbjct: 5 IRIDSELVRRGLARSRTHAAQLVTDGHVTLDGAVVTKPARQVNPAQAIEV 54 >gi|154496189|ref|ZP_02034885.1| hypothetical protein BACCAP_00473 [Bacteroides capillosus ATCC 29799] gi|150274744|gb|EDN01808.1| hypothetical protein BACCAP_00473 [Bacteroides capillosus ATCC 29799] Length = 304 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 65/238 (27%), Gaps = 38/238 (15%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH--------IEVD 63 +RV + ++R SR ++++ + V + G+ +++ D +EVD Sbjct: 12 GERVDQFLSRQLPQLSRSAAQKLLEEGAVTLKGLPVKK-NYKTAEGDELVLSLPDPVEVD 70 Query: 64 GVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---------- 107 VP + + + + +V + + V L Sbjct: 71 VVPQDIPLDVVYEDGDVIVINKPVGMVVHPAAGHPDGTLVNALLYHCGKSLSGINGELRP 130 Query: 108 ------------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 +I + D L D L R E + + + + Sbjct: 131 GIVHRIDRDTSGLIIAAKSDFAHLALAEQLQDHSLYREYEAVAVGGFKEDEGTVRAPIAR 190 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K + T+ + + L G+ +I+ + Sbjct: 191 HPTDRKKMAVNFLQGREAVTHYTVLERFSGCTHLQCRLETGRTHQIRVHMAHIGHPLL 248 >gi|110004584|emb|CAK98921.1| probable pseudouridine synthase d protein [Spiroplasma citri] Length = 306 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 70/243 (28%), Gaps = 41/243 (16%) Query: 11 FTPQRVSKVIA-----RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-- 63 + R+ K++ SR +++ +I Q++V+VNG ++ A DH+ ++ Sbjct: 9 SSSARIDKILTDYFKTNTTPFSRTKIQELIKQEKVQVNGQVVR-ANYVSQIGDHVIIEFP 67 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + V L + Sbjct: 68 SAKASELTPLAIPLTILYEDSYLMVIDKPNNLVVHPAPGHQNDTLVNALLARGVQWSTAS 127 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLR---------------------VYRVRFH 150 G + G L L+ R + Sbjct: 128 GEQRPGIVHRIDRQTTGTLIIAKNDVVHHQLQQQIQTKQLQRRYLALVHGQIIENRAKID 187 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +D N K + + + + + ++ L G+ +I+ ++ N Sbjct: 188 APIGRDPNNRKKMVVTAKNSKKALTNIVVIERFNDYTYIECELESGRTHQIRAHLKYINH 247 Query: 211 KVN 213 + Sbjct: 248 PIV 250 >gi|126454036|ref|YP_001068009.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1106a] gi|167847640|ref|ZP_02473148.1| 30S ribosomal protein S4 [Burkholderia pseudomallei B7210] gi|242314939|ref|ZP_04813955.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1106b] gi|171855208|sp|A3P088|RS4_BURP0 RecName: Full=30S ribosomal protein S4 gi|126227678|gb|ABN91218.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1106a] gi|242138178|gb|EES24580.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1106b] Length = 207 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + V VNGI+ + V + D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAVTVNGIVANIPSQQVKAGDVVAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|296875556|ref|ZP_06899628.1| 30S ribosomal protein S4 [Streptococcus parasanguinis ATCC 15912] gi|312866896|ref|ZP_07727109.1| ribosomal protein S4 [Streptococcus parasanguinis F0405] gi|296433480|gb|EFH19255.1| 30S ribosomal protein S4 [Streptococcus parasanguinis ATCC 15912] gi|311097679|gb|EFQ55910.1| ribosomal protein S4 [Streptococcus parasanguinis F0405] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|290955821|ref|YP_003487003.1| hypothetical protein SCAB_12741 [Streptomyces scabiei 87.22] gi|260645347|emb|CBG68433.1| RarA (conservon) homolog [Streptomyces scabiei 87.22] Length = 688 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 14/113 (12%), Positives = 28/113 (24%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 +R P ++ A + ++ DRP R + ++ + Sbjct: 388 VRHPDTPRHVQAAPAQRYSGSGPADGPAADRPAADQPDRTATGRPSPAQPARPAGTRPEP 447 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P AS S G+ H P ++ + Sbjct: 448 GHRPAPGPARASVPRQQGPGRSGGQQTPGRGGGGHVPLPVRGARGERPNPAEA 500 Score = 42.9 bits (99), Expect = 0.079, Method: Composition-based stats. Identities = 15/105 (14%), Positives = 25/105 (23%), Gaps = 2/105 (1%) Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 LG + Q R P + P +G + P Sbjct: 360 LGNEPGDLPQTRPQTHAQPQPPTGRSTPVRHPDTPRHVQAAPAQRYSGSGPADGPAADRP 419 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + + +G R E R P++ S+ R Sbjct: 420 AADQPDRTATGRPSPAQP--ARPAGTRPEPGHRPAPGPARASVPR 462 >gi|221195455|ref|ZP_03568510.1| ribosomal protein S4 [Atopobium rimae ATCC 49626] gi|221184642|gb|EEE17034.1| ribosomal protein S4 [Atopobium rimae ATCC 49626] Length = 197 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +R+E + + + VNG ++ + + D I V Sbjct: 88 RLDNVVFRLGFARTRKEARQTVRHGHITVNGQRVDIPSYRIKKGDVIAV 136 >gi|319946013|ref|ZP_08020262.1| 30S ribosomal protein S4 [Streptococcus australis ATCC 700641] gi|322390490|ref|ZP_08064008.1| 30S ribosomal protein S4 [Streptococcus parasanguinis ATCC 903] gi|319747821|gb|EFW00066.1| 30S ribosomal protein S4 [Streptococcus australis ATCC 700641] gi|321142764|gb|EFX38224.1| 30S ribosomal protein S4 [Streptococcus parasanguinis ATCC 903] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|299134311|ref|ZP_07027504.1| pseudouridine synthase, RluA family [Afipia sp. 1NLS2] gi|298591058|gb|EFI51260.1| pseudouridine synthase, RluA family [Afipia sp. 1NLS2] Length = 347 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 69/248 (27%), Gaps = 46/248 (18%) Query: 12 TPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-------- 62 QR+ +V+A SR ++ +I V + G ++ A V + + I V Sbjct: 31 QSQRLDRVLAEQVEDLSRTRLKALIVAGHVSIGGAPVQDPAYQVKADETIIVEVPPAVAP 90 Query: 63 --DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 +G + + L L +V + + + V + + + +G + Sbjct: 91 EPEGENIPLNIVYEDDDLLVLNKPKGLVVHPAAGHETGTLVNALIAHCGTSLSGIGGVKR 150 Query: 117 N----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 T +++ ND + + R + + I Sbjct: 151 PGIVHRLDKDTTGLMVVAKNDRAHQSLTAQFADHGRTGALRRGYMAFVWGAPSRSHGTID 210 Query: 167 IQGICYGDMQVTLDTQKGSNAWVT---------------------VGLREGKNREIKKVF 205 + + + ++G VT L G+ +I+ Sbjct: 211 QPIDRHPFAREKMAVRQGGRHAVTHWEMLESFEGRDGKPLAALLACQLETGRTHQIRVHL 270 Query: 206 EFFNWKVN 213 + Sbjct: 271 GHAGHPLI 278 >gi|206896167|ref|YP_002246897.1| heat shock protein 15 [Coprothermobacter proteolyticus DSM 5265] gi|206738784|gb|ACI17862.1| heat shock protein 15 [Coprothermobacter proteolyticus DSM 5265] Length = 82 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 2/51 (3%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ K + +GI RR +R+I VK+NG L ++ + V D IEVD Sbjct: 1 MRLDKFLKESGIIKRRTLAQRIIQAGYVKINGKLAKQ-SDPVKVDDMIEVD 50 >gi|312130058|ref|YP_003997398.1| ribosomal large subunit pseudouridine synthase d [Leadbetterella byssophila DSM 17132] gi|311906604|gb|ADQ17045.1| ribosomal large subunit pseudouridine synthase D [Leadbetterella byssophila DSM 17132] Length = 347 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 31/247 (12%), Positives = 71/247 (28%), Gaps = 42/247 (17%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V + R+ K ++ SR ++ I VKVNG ++ + V D I + Sbjct: 25 VVDSGQSMMRLDKYLSHHLKNISRNRIQNAIDTDSVKVNGSSVKS-SYKVKPFDDISISI 83 Query: 65 VP----------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 V + + L + +V + V + + Sbjct: 84 VRSSRIPKEVIPQNIPLDIVYEDDDVLLVNKAQEMVVHPGHGNPDGTLVNALVYHFGNLP 143 Query: 109 IS---------VGRLDINTEGLLLLTND-------------GGLARVLELPSTQWLRVYR 146 + V R+D T GLL++ + R + + Sbjct: 144 SARDGEIRPGLVHRIDKGTSGLLVIAKNEYALQFLAKQFADHTTERTYYALIWGEPKEPK 203 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKV 204 + + + + + +G + + K + + L G+ +I+ Sbjct: 204 GTINAHIGRGFKDRRISDVFPEGEYGKEAITHYEVLKSLRYVSLIKCNLETGRTHQIRAH 263 Query: 205 FEFFNWK 211 ++ Sbjct: 264 MKYLGHP 270 >gi|22538271|ref|NP_689122.1| 30S ribosomal protein S4 [Streptococcus agalactiae 2603V/R] gi|25012131|ref|NP_736526.1| 30S ribosomal protein S4 [Streptococcus agalactiae NEM316] gi|76787020|ref|YP_330685.1| 30S ribosomal protein S4 [Streptococcus agalactiae A909] gi|76799096|ref|ZP_00781286.1| ribosomal protein S4 [Streptococcus agalactiae 18RS21] gi|77406884|ref|ZP_00783910.1| ribosomal protein S4 [Streptococcus agalactiae H36B] gi|77408905|ref|ZP_00785630.1| ribosomal protein S4 [Streptococcus agalactiae COH1] gi|77410869|ref|ZP_00787226.1| ribosomal protein S4 [Streptococcus agalactiae CJB111] gi|77413207|ref|ZP_00789405.1| ribosomal protein S4 [Streptococcus agalactiae 515] gi|41017840|sp|Q8DWS6|RS4_STRA5 RecName: Full=30S ribosomal protein S4 gi|41017841|sp|Q8E2M6|RS4_STRA3 RecName: Full=30S ribosomal protein S4 gi|90101728|sp|Q3JYG8|RS4_STRA1 RecName: Full=30S ribosomal protein S4 gi|22535185|gb|AAN00995.1|AE014288_13 ribosomal protein S4 [Streptococcus agalactiae 2603V/R] gi|24413675|emb|CAD47755.1| 30S ribosomal protein S4 [Streptococcus agalactiae NEM316] gi|76562077|gb|ABA44661.1| ribosomal protein S4 [Streptococcus agalactiae A909] gi|76585564|gb|EAO62132.1| ribosomal protein S4 [Streptococcus agalactiae 18RS21] gi|77160747|gb|EAO71860.1| ribosomal protein S4 [Streptococcus agalactiae 515] gi|77163087|gb|EAO74041.1| ribosomal protein S4 [Streptococcus agalactiae CJB111] gi|77172496|gb|EAO75640.1| ribosomal protein S4 [Streptococcus agalactiae COH1] gi|77174516|gb|EAO77359.1| ribosomal protein S4 [Streptococcus agalactiae H36B] gi|319746120|gb|EFV98393.1| 30S ribosomal protein S4 [Streptococcus agalactiae ATCC 13813] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|157164896|ref|YP_001467348.1| P-protein [Campylobacter concisus 13826] gi|112801995|gb|EAT99339.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Campylobacter concisus 13826] Length = 323 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 42/248 (16%), Positives = 81/248 (32%), Gaps = 40/248 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M N++ + R+ V+A+ SR + +I V VN + + + + D I Sbjct: 1 MVKFNVLNSS----RLDVVVAKELQISRNQALNLIKDSLVSVNLKPVSKPSFLLSENDEI 56 Query: 61 EVDGVPLRKAERTR--------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 V+ P ++ + L + +KP +V + +T+ + L Sbjct: 57 CVNFAPKKEVQNEYEVNFDIPIIYEDDDLIVLNKPPQIVVHQAPSVKEATLVEWLNKKGF 116 Query: 107 R---------VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------------VY 145 V RLD T G +++ + L + Sbjct: 117 MLSNLNGDVRAGIVHRLDKGTSGAIVVAKNNFAHAKLSEQLSDKSMGRIYLALTDLPLKE 176 Query: 146 RVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVF 205 + + ++ N LKK IV V L ++ G N + L G+ +I+ Sbjct: 177 DIIIDKPIGRNPNNRLKKAIVADAKFAKSAFVNLLSEGGVN-LIAAKLFTGRTHQIRVHL 235 Query: 206 EFFNWKVN 213 N + Sbjct: 236 ASINRHIL 243 >gi|313895093|ref|ZP_07828650.1| ribosomal protein S4 [Selenomonas sp. oral taxon 137 str. F0430] gi|320529822|ref|ZP_08030899.1| ribosomal protein S4 [Selenomonas artemidis F0399] gi|312975988|gb|EFR41446.1| ribosomal protein S4 [Selenomonas sp. oral taxon 137 str. F0430] gi|320137840|gb|EFW29745.1| ribosomal protein S4 [Selenomonas artemidis F0399] Length = 197 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +++ VNG ++ + V D IEV Sbjct: 88 RIDNVVFRLGLANTRRQARQLVRHGHFTVNGKRVDIPSALVHEGDVIEV 136 >gi|261367775|ref|ZP_05980658.1| ribosomal protein S4 [Subdoligranulum variabile DSM 15176] gi|282570573|gb|EFB76108.1| ribosomal protein S4 [Subdoligranulum variabile DSM 15176] Length = 200 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR+ ++++ VNG + + V D IEV Sbjct: 90 RLDNVVYRLGFAKTRRDARQLVSHNHFTVNGKRVNIPSYLVKPGDVIEV 138 >gi|197119031|ref|YP_002139458.1| rRNA methyltransferase, YqxC-like [Geobacter bemidjiensis Bem] gi|197088391|gb|ACH39662.1| rRNA methyltransferase, YqxC-related, putative [Geobacter bemidjiensis Bem] Length = 257 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 T +R+ K++ G+A SR + +I +V V+ L ++A + V I + G PL Sbjct: 2 TKERLDKLVLERGLAPSRERAKALIMAGQVVVDDHLADKAGLMVPVEAEIRLKGEPLPY 60 >gi|323167770|gb|EFZ53465.1| ribosomal large subunit pseudouridine synthase D [Shigella sonnei 53G] gi|323173090|gb|EFZ58721.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli LT-68] gi|333001156|gb|EGK20726.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri K-272] gi|333015794|gb|EGK35131.1| ribosomal large subunit pseudouridine synthase D [Shigella flexneri K-227] Length = 300 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 25/217 (11%), Positives = 56/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG + ++ V+ + + ++ + + Sbjct: 6 SRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 + + +V + + + L R V RLD +T GL+++ Sbjct: 66 DIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L + V Sbjct: 126 VPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|126729199|ref|ZP_01745013.1| putative Pseudouridine synthase, Rlu [Sagittula stellata E-37] gi|126710189|gb|EBA09241.1| putative Pseudouridine synthase, Rlu [Sagittula stellata E-37] Length = 342 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 4/66 (6%) Query: 1 MKDKNIVQENFTPQRVSKVIAR----AGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 M +V PQR+ K +AR A SR + R+IA+ V +G LL V Sbjct: 1 MDRLRVVIAADPPQRLDKALARDVPEAAALSRTRLGRLIAEGAVTRDGALLTDPKAKVAE 60 Query: 57 TDHIEV 62 D +E+ Sbjct: 61 GDVLEI 66 >gi|39995193|ref|NP_951144.1| ribosomal large subunit pseudouridine synthase D [Geobacter sulfurreducens PCA] gi|39981955|gb|AAR33417.1| ribosomal large subunit pseudouridine synthase D [Geobacter sulfurreducens PCA] gi|298504197|gb|ADI82920.1| ribosomal large subunit pseudouridine synthase D [Geobacter sulfurreducens KN400] Length = 322 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 34/243 (13%), Positives = 74/243 (30%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVM---------- 55 V +R+ + +AR+ +R +R+I + RV V+ L E+ ++ + Sbjct: 12 VPTEGEAERLDQFVARSVQGITRSAAQRLIEEGRVTVDDRL-EKPSLKLRGGERVVVTVP 70 Query: 56 -------------------STDHIEVD---GVPLRK---AERTRLWLYHKPIGLVTTHSD 90 D + VD G+ + L + Sbjct: 71 PPAPAVPEAEEIPLVVLHEDGDVVVVDKPAGMVVHPAAGNPGGTLVNALLAHCTDLSGIG 130 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 + R + + S V+ V + D E L +D + RV R + R Sbjct: 131 GEIRPGIVHRIDKDTSGVLVVAKSDRAHESLSRQFHDHTVKRVYLALVYGSPREDKGRIE 190 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 G + + + K + + + + + + L G+ +I+ + Sbjct: 191 GAIGRHPTDRKKMSGAARHGKHAVTHWRVAARFTGVTLLRLRLETGRTHQIRVHMAEAGF 250 Query: 211 KVN 213 + Sbjct: 251 PLV 253 >gi|28210692|ref|NP_781636.1| ribosomal large subunit pseudouridine synthase D [Clostridium tetani E88] gi|28203130|gb|AAO35573.1| ribosomal large subunit pseudouridine synthase D [Clostridium tetani E88] Length = 320 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 35/276 (12%), Positives = 77/276 (27%), Gaps = 62/276 (22%) Query: 10 NFTPQRVSKVIARAGIASRR--------EVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 N + QR+ K + R+ + + I + VK+NG ++ ++ D +E Sbjct: 8 NESGQRMDKFL-------RKMLTDVPLGAIYKSIRKGDVKINGKKVKE-KYSLNLGDIVE 59 Query: 62 V-----------DGVPLR--------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 + D + ++ + + KP LV + + L Sbjct: 60 IRDIKTNAEKHNDFKAIEGANELKVTYEDQNMIIVEKKPGVLVHSDKKNSDPTLTDYVLS 119 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 ++ + V +I D A ++ + + DK Sbjct: 120 YLYDKGDYVPEEEITFTPASCNRLDRNTAGIIIFGKNYESLKDLNQMIRERHVDKYYQAL 179 Query: 163 KGIVIQGICYGD-------------------------MQVTLDTQKGSNAWVTVGLREGK 197 I+ Y M+V G+ + + + L G+ Sbjct: 180 VCGKIKDGLYKAHIVKDEKSNKSYIHKEPKKNSKEIEMEVKTIQTCGTYSLLEIQLITGR 239 Query: 198 NREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGST 233 + +I+ + YG +L + Sbjct: 240 SHQIRAHLSSLGNPIVGDK--KYGSKKLNSFFYNKY 273 >gi|54296389|ref|YP_122758.1| 30S ribosomal protein S4 [Legionella pneumophila str. Paris] gi|61215409|sp|Q5X835|RS4_LEGPA RecName: Full=30S ribosomal protein S4 gi|53750174|emb|CAH11566.1| 30S ribosomal subunit protein S4 [Legionella pneumophila str. Paris] Length = 206 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R E +++A + + VN ++ + V D I V Sbjct: 97 RLDNVVYRMGFASTRAEARQLVAHKAILVNDKVVNVPSFLVNPGDTISV 145 >gi|116511114|ref|YP_808330.1| 30S ribosomal protein S4 [Lactococcus lactis subsp. cremoris SK11] gi|125623168|ref|YP_001031651.1| 30S ribosomal protein S4 [Lactococcus lactis subsp. cremoris MG1363] gi|122940375|sp|Q032G4|RS4_LACLS RecName: Full=30S ribosomal protein S4 gi|152060956|sp|A2RI10|RS4_LACLM RecName: Full=30S ribosomal protein S4 gi|116106768|gb|ABJ71908.1| SSU ribosomal protein S4P [Lactococcus lactis subsp. cremoris SK11] gi|124491976|emb|CAL96903.1| 30S ribosomal protein S4 [Lactococcus lactis subsp. cremoris MG1363] gi|300069915|gb|ADJ59315.1| 30S ribosomal protein S4 [Lactococcus lactis subsp. cremoris NZ9000] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 93 QRLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSFRVQPGQVISV 142 >gi|323159115|gb|EFZ45108.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli E128010] gi|323177278|gb|EFZ62866.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli 1180] Length = 300 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 25/217 (11%), Positives = 56/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG + ++ V+ + + ++ + + Sbjct: 6 SRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 + + +V + + + L R V RLD +T GL+++ Sbjct: 66 DIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L + V Sbjct: 126 VPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|320547679|ref|ZP_08041964.1| 30S ribosomal protein S4 [Streptococcus equinus ATCC 9812] gi|320447754|gb|EFW88512.1| 30S ribosomal protein S4 [Streptococcus equinus ATCC 9812] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|306834567|ref|ZP_07467680.1| 30S ribosomal protein S4 [Streptococcus bovis ATCC 700338] gi|304423369|gb|EFM26522.1| 30S ribosomal protein S4 [Streptococcus bovis ATCC 700338] Length = 203 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|229845163|ref|ZP_04465297.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 6P18H1] gi|229811874|gb|EEP47569.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 6P18H1] Length = 324 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRIANIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|167746997|ref|ZP_02419124.1| hypothetical protein ANACAC_01709 [Anaerostipes caccae DSM 14662] gi|167653957|gb|EDR98086.1| hypothetical protein ANACAC_01709 [Anaerostipes caccae DSM 14662] Length = 271 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 26/178 (14%), Positives = 55/178 (30%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + G+A SR + + +I V V+G ++A V IE+ G L+ R Sbjct: 3 ERLDVLLVKKGLAASREKAKAIIMSGVVFVDGQREDKAGTMVKEELPIEIKGKTLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +D ++ G + + + D GL Sbjct: 63 GGLKLEKAMKQFNIQLTDRVCMDVGAST-GGFTHCMLLNGAKKVYSVDVGHGQLDWGLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V + + + + L+ A + Sbjct: 122 DERVVCMERTNMRYVTPEDIEEPAGFVSIDVSFISLTKILPAVYGILENGGEVTALIK 179 >gi|145633599|ref|ZP_01789327.1| SfhB [Haemophilus influenzae 3655] gi|229847288|ref|ZP_04467391.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 7P49H1] gi|144985805|gb|EDJ92419.1| SfhB [Haemophilus influenzae 3655] gi|229809831|gb|EEP45554.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 7P49H1] Length = 324 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRIANIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|296274039|ref|YP_003656670.1| pseudouridine synthase [Arcobacter nitrofigilis DSM 7299] gi|296098213|gb|ADG94163.1| pseudouridine synthase [Arcobacter nitrofigilis DSM 7299] Length = 249 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 22/200 (11%), Positives = 64/200 (32%), Gaps = 4/200 (2%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV-PLRKAERTRLW 76 KV+A+ S + + +I + VKV + A ++ V V P++ + Sbjct: 8 KVLAKQENISNSKAKDLIDKGLVKVGDKKVLIARGDISENTKFIVKEVAPIKVIFQDDDI 67 Query: 77 LYHKPIGLVTTHSDPDGRSTV---FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L +T ++ + T+ + N+ Sbjct: 68 LAVDKPAFLTADEVSRKFPNYLLLNRLDKETSGVMLFAKNEEFQTKAIREFKNNNVYKEY 127 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGL 193 + + + + V ++ + + + ++ V +G+ + + V + Sbjct: 128 VAVVEGKVIDEIVVDKPILTIKNNKGVARSKVDMKKGKSAKTTVYPMLVEGNKSKIKVVI 187 Query: 194 REGKNREIKKVFEFFNWKVN 213 G+ +I+ + ++ + Sbjct: 188 DTGRTHQIRVHLNYIDYPII 207 >gi|229588326|ref|YP_002870445.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas fluorescens SBW25] gi|229360192|emb|CAY47049.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas fluorescens SBW25] Length = 320 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 30/236 (12%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G ++ V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGAVIR-PRDIVHGGAILELTAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L + + Sbjct: 75 EWVAQDIELD---IVYEDDDILVINKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRC 131 Query: 114 LDINTEG----------------LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVVAGGKINAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINFPLV 247 >gi|239618238|ref|YP_002941560.1| ribosomal protein S4 [Kosmotoga olearia TBF 19.5.1] gi|259495284|sp|C5CGH5|RS4_KOSOT RecName: Full=30S ribosomal protein S4 gi|239507069|gb|ACR80556.1| ribosomal protein S4 [Kosmotoga olearia TBF 19.5.1] Length = 208 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R++ ++++ V VNG + +A+ +V D IE+ Sbjct: 99 RLDNVVYRMGFASSRKQARQLVSHGHVLVNGRKVNKASYSVRPGDIIEI 147 >gi|148827314|ref|YP_001292067.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae PittGG] gi|148718556|gb|ABQ99683.1| SfhB [Haemophilus influenzae PittGG] Length = 324 Score = 51.7 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRIANIPREKVLGGEKIEITVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEPENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|317498471|ref|ZP_07956765.1| S4 domain-containing protein [Lachnospiraceae bacterium 5_1_63FAA] gi|316894164|gb|EFV16352.1| S4 domain-containing protein [Lachnospiraceae bacterium 5_1_63FAA] Length = 251 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/52 (25%), Positives = 24/52 (46%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ ++++A SR E+++ Q+V NG + + D I V G Sbjct: 174 SMRLDVLVSQAFSLSRNISEKLLKSQKVFHNGKMCLSGGQKIKQGDIISVRG 225 >gi|167765520|ref|ZP_02437584.1| hypothetical protein CLOSS21_00014 [Clostridium sp. SS2/1] gi|167712705|gb|EDS23284.1| hypothetical protein CLOSS21_00014 [Clostridium sp. SS2/1] gi|291558988|emb|CBL37788.1| Uncharacterized conserved protein, contains S4-like domain [butyrate-producing bacterium SSC/2] Length = 251 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/52 (25%), Positives = 24/52 (46%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ ++++A SR E+++ Q+V NG + + D I V G Sbjct: 174 SMRLDVLVSQAFSLSRNISEKLLKSQKVFHNGKMCLSGGQKIKQGDIISVRG 225 >gi|160894729|ref|ZP_02075504.1| hypothetical protein CLOL250_02280 [Clostridium sp. L2-50] gi|156863663|gb|EDO57094.1| hypothetical protein CLOL250_02280 [Clostridium sp. L2-50] Length = 197 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A +RRE +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVIFRLGFARTRREARQIVDHKHVLVNGKSVNIPSYQVKAGDKIEI 136 >gi|77919474|ref|YP_357289.1| pseudouridylate synthase, 23S RNA-specific [Pelobacter carbinolicus DSM 2380] gi|77545557|gb|ABA89119.1| pseudouridylate synthase, 23S RNA-specific [Pelobacter carbinolicus DSM 2380] Length = 301 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 32/242 (13%), Positives = 66/242 (27%), Gaps = 35/242 (14%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ + +A A SR ++I V +NG + R++ V +EV Sbjct: 1 MRLDQYLASAIPDFSRSFARKIIDLGGVHLNGRRMRRSSFPVPGHAAVEVYLDHRDLDIF 60 Query: 63 --DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 D + +R + + P + L + + + Sbjct: 61 ALDDEHILLRDRYLVVVNKPPGINSQPTPARYKGTLYEALLRLLDDPYNKGRKPSLGMVQ 120 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------------DKLNL 160 L G + + + + L Q + Sbjct: 121 RLDRDTSGVMIFSIHARAHKSLSDIFAARRVQKHYLALVAGCMQAPQGEFRSLLARQHRT 180 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISY 220 V +G + + + G + V + G++ +I+ F + L I Y Sbjct: 181 NLMKSVARGGKEAVTRYRVIEKFGDAELLEVEIPTGRSHQIRVHFAEAGHPL--LGDIRY 238 Query: 221 GP 222 G Sbjct: 239 GG 240 >gi|323188383|gb|EFZ73674.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli RN587/1] Length = 300 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 25/217 (11%), Positives = 56/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG + ++ V+ + + ++ + + Sbjct: 6 SRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 + + +V + + + L R V RLD +T GL+++ Sbjct: 66 DIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L + V Sbjct: 126 VPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|224825454|ref|ZP_03698559.1| pseudouridine synthase, RluA family [Lutiella nitroferrum 2002] gi|224602375|gb|EEG08553.1| pseudouridine synthase, RluA family [Lutiella nitroferrum 2002] Length = 362 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 29/232 (12%), Positives = 68/232 (29%), Gaps = 34/232 (14%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV------ 65 +R+ +A+ SR + + + V ++G ++ +HIEV Sbjct: 33 GERLDAALAKLLPDYSRSRLTQWVKDGHVLLDGKPAA-PKTKLLGGEHIEVAVQQTEEQL 91 Query: 66 ---------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV----- 111 P+ + + + +V + + + L + Sbjct: 92 AYHPEAIELPIVYEDDHIIIINKPAGLVVHPAAGNWTGTLLNGLLHHCPALTHVPRAGIV 151 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLN 159 RLD T GL+++ L + + + +D N Sbjct: 152 HRLDKETSGLMVVAKTIPAQTELVRQMQARSVKRIYRAIADGVVPFDGKIETLIGRDPHN 211 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 ++ +V G V + S++++ L G+ +I+ Sbjct: 212 RMRMAVVKFGGKQAITHVRVLATFPSHSYIECRLETGRTHQIRVHMREARHP 263 >gi|306820734|ref|ZP_07454361.1| hemolysin A [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304551233|gb|EFM39197.1| hemolysin A [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 266 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 27/212 (12%), Positives = 65/212 (30%), Gaps = 21/212 (9%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G ASR + + I V ++ IL+++ NV I + + R Sbjct: 4 RLDVLLVEKGMFASREKAKSNIMAGNVFIDNILVDKVGTNVDENAVITIKSDAIPYVGRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + ++ G + + + D L Sbjct: 64 GLKLEKALKEFDLSVDCKICMDIGAST-GGFTDCMLQNGASKVYSIDVGYGQLDYKLRIN 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG- 192 ++ + ++ D+ ++ + I + ++ L + V Sbjct: 123 EKVVCMERTNFRYLKKEQIFDEIDFAVIDVSFISLKIIFPKLKEFL------SKEFEVVS 176 Query: 193 -L--------RE-GKNREIKKVFEFFNWKVNR 214 + E GKN ++ + + +V + Sbjct: 177 LIKPQFESQRHEVGKNGIVRDI--SVHQRVIK 206 >gi|168206128|ref|ZP_02632133.1| hemolysin A [Clostridium perfringens E str. JGS1987] gi|170662441|gb|EDT15124.1| hemolysin A [Clostridium perfringens E str. JGS1987] Length = 271 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 1/64 (1%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ +R+ ++ GIA SR + +R I V + +++A V + +I G Sbjct: 1 MAEKKEKKERLDVLLVEQGIAESREKAKRYIMAGMVFIGEKRVDKAGEKVPVSSNIIFRG 60 Query: 65 VPLR 68 L Sbjct: 61 ERLP 64 >gi|167971562|ref|ZP_02553839.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 6 str. ATCC 27818] gi|186700951|gb|EDU19233.1| ribosomal RNA large subunit methyltransferase J [Ureaplasma parvum serovar 6 str. ATCC 27818] Length = 247 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ + +R + +I + RV VN + + + V TD +E+ Sbjct: 3 QRLDHYLKNTNQCETRSKAIDLIKRGRVFVNNFEVLKPSFLVKQTDSVEI 52 >gi|163804148|ref|ZP_02197919.1| 30S ribosomal protein S4 [Vibrio sp. AND4] gi|159172034|gb|EDP57005.1| 30S ribosomal protein S4 [Vibrio sp. AND4] Length = 143 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 34 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVSI 82 >gi|52840598|ref|YP_094397.1| 30S ribosomal protein S4 [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|54293345|ref|YP_125760.1| 30S ribosomal protein S4 [Legionella pneumophila str. Lens] gi|148361031|ref|YP_001252238.1| 30S ribosomal protein S4 [Legionella pneumophila str. Corby] gi|296105901|ref|YP_003617601.1| small subunit ribosomal protein S4 [Legionella pneumophila 2300/99 Alcoy] gi|61215402|sp|Q5WZI8|RS4_LEGPL RecName: Full=30S ribosomal protein S4 gi|61215429|sp|Q5ZYL9|RS4_LEGPH RecName: Full=30S ribosomal protein S4 gi|172047874|sp|A5IHP2|RS4_LEGPC RecName: Full=30S ribosomal protein S4 gi|52627709|gb|AAU26450.1| 30S ribosomal protein S4 [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|53753177|emb|CAH14624.1| 30S ribosomal subunit protein S4 [Legionella pneumophila str. Lens] gi|148282804|gb|ABQ56892.1| 30S ribosomal protein S4 [Legionella pneumophila str. Corby] gi|295647802|gb|ADG23649.1| small subunit ribosomal protein S4 [Legionella pneumophila 2300/99 Alcoy] gi|307609161|emb|CBW98617.1| 30S ribosomal subunit protein S4 [Legionella pneumophila 130b] Length = 206 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R E +++A + + VN ++ + V D + V Sbjct: 97 RLDNVVYRMGFASTRAEARQLVAHKAILVNDKVVNVPSFLVNPGDTVSV 145 >gi|255534470|ref|YP_003094841.1| Ribosomal large subunit pseudouridine synthase D [Flavobacteriaceae bacterium 3519-10] gi|255340666|gb|ACU06779.1| Ribosomal large subunit pseudouridine synthase D [Flavobacteriaceae bacterium 3519-10] Length = 352 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 33/271 (12%), Positives = 73/271 (26%), Gaps = 47/271 (17%) Query: 6 IVQENFTPQRVSKVI----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 V P R+ K + + +R ++ + V VNG +++ V D I Sbjct: 33 TVDRGQQPLRIDKFLHIFRQNS---TRNKISQSCRAGNVVVNGTAVKQ-NYRVKPGDRIS 88 Query: 62 V-------------DGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN------ 100 V +P + + + + P +V + + Sbjct: 89 VLLSRPPRENVIIPQDIPLNIVYEDDDLVVVDKDPGMVVHPGHGNWDGTLINALAFHFEK 148 Query: 101 -----------LPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 L + S + E L R + ++ + Sbjct: 149 NGVKSDLDRVGLVHRIDKDTSGLLVIAKNEYALSYLAKQFFDRKTKRLYWAFVWGNLDQE 208 Query: 150 HGQVDQDKLNLLKKGIVI---QGI---CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 +G + + LK + + + + + + WV L G+ +I+ Sbjct: 209 NGTITGNIGRHLKNRMQMAVFEDGSLGKHAVTHYKVVERFKYMTWVECKLETGRTHQIRA 268 Query: 204 VFEFFNWKVNRLIRISYGPFQLGTLLAGSTR 234 F+ + R G L + + Sbjct: 269 HFKHIGHTLFNDERYE-GNQILKGVNMPKYK 298 >gi|83590353|ref|YP_430362.1| hemolysin A [Moorella thermoacetica ATCC 39073] gi|83573267|gb|ABC19819.1| hemolysin A [Moorella thermoacetica ATCC 39073] Length = 271 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ R G+ SR + I V VN + +++ V T I + G L Sbjct: 4 ERLDLLLVRRGLYPSREQARTAIMAGEVLVNDVPVDKPGAAVPDTATIRLLGQHLPY 60 >gi|323136929|ref|ZP_08072009.1| pseudouridine synthase, RluA family [Methylocystis sp. ATCC 49242] gi|322397690|gb|EFY00212.1| pseudouridine synthase, RluA family [Methylocystis sp. ATCC 49242] Length = 339 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/54 (20%), Positives = 23/54 (42%), Gaps = 5/54 (9%) Query: 15 RVSKVIARA-----GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + +A SR ++ +I RV + G + A + + D + +D Sbjct: 28 RLDRFLAERPEIVDAHLSRSRIKALIESGRVSLRGAAIRDPAKKLAAGDAVSLD 81 >gi|255659722|ref|ZP_05405131.1| ribosomal large subunit pseudouridine synthase D [Mitsuokella multacida DSM 20544] gi|260848296|gb|EEX68303.1| ribosomal large subunit pseudouridine synthase D [Mitsuokella multacida DSM 20544] Length = 308 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 31/250 (12%), Positives = 71/250 (28%), Gaps = 38/250 (15%) Query: 1 MKDK-NIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M D + + +R+ + + R SR V+++IA+ + V+G + +A + + + Sbjct: 1 MSDSTKVYTADQDGERLDRFLTRMEPTLSRAHVQKVIAEGQALVSGRV-RKANYKLQAGE 59 Query: 59 HIEV---DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 + + P+ + + + +V + + V L Sbjct: 60 KVTFHLPEAKPVEILPEDIPLDILYEDSDIIVINKARGMVVHPATGIYTGTLVNALLYHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGL---------------------ARVLELPSTQWLR 143 G + L G + R+ +R Sbjct: 120 KDLSGINGEIRPGIVHRLDKDTSGVMVAAKNDAAHLDLAEQIRTKAAHRIYRAIVCGNIR 179 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKK 203 G + + + K IV + + + G+ V L G+ +I+ Sbjct: 180 EEAGVIKGDIGRHPTDRKKMAIVHEHGKPAVTHFRVLERFGAYTLVECRLETGRTHQIRV 239 Query: 204 VFEFFNWKVN 213 V Sbjct: 240 HMASIGHPVL 249 >gi|225620833|ref|YP_002722091.1| Pseudouridylate synthase [Brachyspira hyodysenteriae WA1] gi|225215653|gb|ACN84387.1| Pseudouridylate synthase [Brachyspira hyodysenteriae WA1] Length = 329 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 35/250 (14%), Positives = 79/250 (31%), Gaps = 42/250 (16%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K I+ E+ +R+ I+ +R +V+ + + VN ++ + ++ D+I Sbjct: 30 KKSFIITEDDIGKRLDTFISEKLNITRSQVKNYLTS--IIVNDA-EKKLSYSLKLNDNII 86 Query: 62 VDG-----------VPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 +D P+ E L + +KP G+ S + T+ + L Sbjct: 87 IDSDNIFKEKTDTANPIPENIDLDILYEDKYLLVINKPAGMSVHCSPSEMSGTLVNALLY 146 Query: 104 IFSRVISVGR------LDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ----- 152 VG + + L G A ++ Q+ + + Sbjct: 147 KIKDFDFVGNKERAGIIHRLDKDTSGLMIIGKNANIVSSIQEQFKNRTIKKIYHAIVVGV 206 Query: 153 ----------VDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 KK V + + + + S+ + + L+ G+ +I+ Sbjct: 207 LKDNYIEINLPIGRHHVYRKKMTVREDGKEALTHIKVLKRFNSHTLIEINLKTGRTHQIR 266 Query: 203 KVFEFFNWKV 212 + + V Sbjct: 267 VHSSYKGFPV 276 >gi|222153413|ref|YP_002562590.1| hypothetical protein SUB1286 [Streptococcus uberis 0140J] gi|222114226|emb|CAR42803.1| conserved hypothetical protein [Streptococcus uberis 0140J] Length = 263 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/63 (20%), Positives = 36/63 (57%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K+++++ + R+ ++IA SR + +++ ++VKVN ++ +++ ++ D + Sbjct: 173 KEESLIDITLSSLRIDRLIASVLKLSRSQAIKLVESEKVKVNYRIITKSSDSIAIGDLVS 232 Query: 62 VDG 64 V G Sbjct: 233 VRG 235 >gi|171778571|ref|ZP_02919698.1| hypothetical protein STRINF_00550 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171282794|gb|EDT48218.1| hypothetical protein STRINF_00550 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 203 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|154174170|ref|YP_001409132.1| 30S ribosomal protein S4 [Campylobacter curvus 525.92] gi|171769259|sp|A7H0Z0|RS4_CAMC5 RecName: Full=30S ribosomal protein S4 gi|112802255|gb|EAT99599.1| ribosomal protein S4 [Campylobacter curvus 525.92] Length = 208 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V +EV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKRVDIPSYRVEPGSKVEV 147 >gi|34558398|ref|NP_908213.1| putative ribosomal pseudouridine synthase [Wolinella succinogenes DSM 1740] gi|34484117|emb|CAE11113.1| PUTATIVE RIBOSOMAL PSEUDOURIDINE SYNTHASE [Wolinella succinogenes] Length = 244 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 24/204 (11%), Positives = 58/204 (28%), Gaps = 12/204 (5%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLER------AAVNVMSTDHIEVDGVPLRKAE 71 K+++ S RE + +I + V V G+ ++ I+ P + Sbjct: 6 KLLSHQQRISHREAKILIDRGMVSVGGMKVKIARGLFPLGTKFS----IQEAPKPKILMQ 61 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 L KP + + + + + L + V L A Sbjct: 62 DENLLAIDKPPFIASEELLKEHKEKGWTLLHRLDKETSGVILLVQEGSEFQKSAKAEFKA 121 Query: 132 RVLELPSTQWL--RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 + + + + R + K + + ++ +G + Sbjct: 122 QKVYKEYVAIVEGMIPEEREITKPILTTKGHFAKSKISKEGESAYTKIEPLAYEGKQTQL 181 Query: 190 TVGLREGKNREIKKVFEFFNWKVN 213 V ++ G+ +I+ N + Sbjct: 182 KVIIKTGRTHQIRVHLASINHPII 205 >gi|295093660|emb|CBK82751.1| SSU ribosomal protein S4P [Coprococcus sp. ART55/1] Length = 197 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 1/63 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ +I R G A +RRE +++ + V VNG + + +V D IE+ Sbjct: 88 RLDNIIFRLGFARTRREARQIVDHKHVLVNGKCVNIPSYSVKPGDKIEIREKSKSLQRYK 147 Query: 74 RLW 76 + Sbjct: 148 DIM 150 >gi|255261883|ref|ZP_05341225.1| ribosomal large subunit pseudouridine synthase D [Thalassiobium sp. R2A62] gi|255104218|gb|EET46892.1| ribosomal large subunit pseudouridine synthase D [Thalassiobium sp. R2A62] Length = 341 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 8/63 (12%) Query: 5 NIVQENFTPQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 I+ + P+R+ K IAR A + SR + +++A V +NG +L V D Sbjct: 9 RIMPDP--PKRLDKAIARDVPADASL-SRSRIAKLLASGDVALNGAVLTDPRAKVAEDDE 65 Query: 60 IEV 62 I V Sbjct: 66 ITV 68 >gi|307720212|ref|YP_003891352.1| 30S ribosomal protein S4P [Sulfurimonas autotrophica DSM 16294] gi|306978305|gb|ADN08340.1| SSU ribosomal protein S4P [Sulfurimonas autotrophica DSM 16294] Length = 208 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G AS RR +++ + V+G L+ + V IEV Sbjct: 98 QRLDNVVYRMGFASTRRFARQLVTHGHILVDGKKLDIPSYRVKPGQKIEV 147 >gi|295090871|emb|CBK76978.1| hemolysin TlyA family protein [Clostridium cf. saccharolyticum K10] Length = 269 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 24/164 (14%), Positives = 51/164 (31%), Gaps = 2/164 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + G+A SR + + +I V V+G ++A T +EV G LR R Sbjct: 3 ERLDVLLVKNGLAESREKAKAIIMSGIVYVDGQKEDKAGTTFEETAKLEVRGATLRYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L S ++ G + + + L Sbjct: 63 GGLKLEKAMTHFGVELSGKVCMDVGAST-GGFTDCMLQNGAVKVYAVDVGHGQLAWKLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + + + V + + + + G ++ Sbjct: 122 DPRVVCMEKTNIRYVTPEDIEEPVEFASIDVSFISLTKVLGPVK 165 >gi|258654197|ref|YP_003203353.1| hemolysin A [Nakamurella multipartita DSM 44233] gi|258557422|gb|ACV80364.1| hemolysin A [Nakamurella multipartita DSM 44233] Length = 272 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + R G A SR E IA RV V G + + + V + V L + Sbjct: 5 RLDAELVRRGHARSRAEAAEFIAAGRVLVAGQVATKPSTAVDPAVALLVRDADLDPRWAS 64 Query: 74 R 74 R Sbjct: 65 R 65 >gi|294931461|ref|XP_002779886.1| Ribosomal large subunit pseudouridine synthase B, putative [Perkinsus marinus ATCC 50983] gi|239889604|gb|EER11681.1| Ribosomal large subunit pseudouridine synthase B, putative [Perkinsus marinus ATCC 50983] Length = 182 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 8/38 (21%), Positives = 15/38 (39%) Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQ 224 + V + G+NR +++ V L R G + Sbjct: 145 SMVRITTTCGRNRVVRRTLCALGHPVLLLHREEIGGIK 182 >gi|289209305|ref|YP_003461371.1| ribosomal protein S4 [Thioalkalivibrio sp. K90mix] gi|288944936|gb|ADC72635.1| ribosomal protein S4 [Thioalkalivibrio sp. K90mix] Length = 206 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + V VNG ++ AA V +D + + ++ Sbjct: 97 RLDNVVYRMGFGSTRSEARQLVSHRAVLVNGQVVNIAAYQVQPSDVVSIREKARKQVRIQ 156 Query: 74 RLWLYHKPIGLVT 86 + G + Sbjct: 157 DSMTLAEQSGFPS 169 >gi|134095125|ref|YP_001100200.1| pseudouridine synthase [Herminiimonas arsenicoxydans] gi|133739028|emb|CAL62076.1| Ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Herminiimonas arsenicoxydans] Length = 318 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 30/236 (12%), Positives = 64/236 (27%), Gaps = 39/236 (16%) Query: 13 PQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ KV++ SR +++ I V V+G + A + V + + + P Sbjct: 24 GVRLDKVLSTLVPQYSRSRLQQWIDAGHVSVDGEIAR-AKMTVYGDEKVVIYPQPAPEDE 82 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISV 111 + + L + +V + + + L + R V Sbjct: 83 AFKPEAMDLNIAYEDAAILVIDKPAGLVVHPAAGNWSGTLLNGLLHYLPAIAGVPRAGIV 142 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-----------KLNL 160 RLD +T GL+++ L + Sbjct: 143 HRLDKDTSGLMVVAKTLVAHTDLVRQLQARTVKREYLALVWGTPNVSGKVDTSIGRHSRD 202 Query: 161 LKKGIVIQGICYGDMQVTLD-----TQKGSNAWVTVG-LREGKNREIKKVFEFFNW 210 K V + + G + + L G+ +I+ + + Sbjct: 203 RVKMAVSENLTAKPALTHFQRLATGMLDGRPVSLMMCQLETGRTHQIRVHMQSIGF 258 >gi|320185010|gb|EFW59792.1| Ribosomal large subunit pseudouridine synthase D [Shigella flexneri CDC 796-83] gi|332091934|gb|EGI97012.1| ribosomal large subunit pseudouridine synthase D [Shigella boydii 3594-74] Length = 300 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 25/217 (11%), Positives = 56/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG + ++ V+ + + ++ + + Sbjct: 6 SRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 + + +V + + + L R V RLD +T GL+++ Sbjct: 66 DIIVINKPRDLVVHPGAGNLDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L + V Sbjct: 126 VPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|332655117|ref|ZP_08420858.1| ribosomal protein S4 [Ruminococcaceae bacterium D16] gi|332515977|gb|EGJ45586.1| ribosomal protein S4 [Ruminococcaceae bacterium D16] Length = 200 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 1/63 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G A +RRE +++ VNG ++ + V D IEV + Sbjct: 90 RLDNVVYRLGFAMTRREARQLVTHGHFTVNGQRVDIPSFLVKVGDVIEVREKSRSSVKFK 149 Query: 74 RLW 76 RL Sbjct: 150 RLL 152 >gi|291545451|emb|CBL18559.1| hemolysin TlyA family protein [Ruminococcus sp. SR1/5] Length = 269 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 25/164 (15%), Positives = 48/164 (29%), Gaps = 2/164 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ G+A SR + + I V VNG ++A T +EV G L R Sbjct: 4 RLDIMMVEQGLAPSREKAKAYIMAGEVYVNGQKEDKAGSMFAETAKLEVRGKTLPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T D ++ G + + + + D L Sbjct: 64 GLKLEKAMKNFGVTLKDKVCMDVGAST-GGFTDCMLQNGAVKVYSIDVGYGQLDWKLRND 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + + + V + + + ++ Sbjct: 123 PRVVCMEKTNIRYVVPEDLEGPAAFSSIDVSFISLTKVLLPVRN 166 >gi|225388187|ref|ZP_03757911.1| hypothetical protein CLOSTASPAR_01922 [Clostridium asparagiforme DSM 15981] gi|225045745|gb|EEG55991.1| hypothetical protein CLOSTASPAR_01922 [Clostridium asparagiforme DSM 15981] Length = 271 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 24/164 (14%), Positives = 51/164 (31%), Gaps = 2/164 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + +A SR + + +I V V+G ++A IEV G L+ R Sbjct: 3 ERLDVLLVQRNLAPSREKAKALIMSGIVYVDGQKEDKAGTQFDEAAAIEVRGSTLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + ++ G + + + + D L Sbjct: 63 GGLKLEKAMTHFGVEPAGKVCMDVGAST-GGFTDCMLQNGAVKVYSVDVGHGQLDWKLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + + + V D L + + G ++ Sbjct: 122 DERVVCMEKTNIRYVTPSDIADPIALASIDVSFISLTKVLGPVR 165 >gi|293400620|ref|ZP_06644765.1| ribosomal RNA large subunit methyltransferase J [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305646|gb|EFE46890.1| ribosomal RNA large subunit methyltransferase J [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 261 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVS-KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K++ SR + MI + V+VNG + +++ + D I + Sbjct: 3 MRLDQKIVVMRRDLSRSRAQDMIKEGLVQVNGQTITKSSYAITEEDEIVI 52 >gi|312795803|ref|YP_004028725.1| SSU ribosomal protein S4P [Burkholderia rhizoxinica HKI 454] gi|312167578|emb|CBW74581.1| SSU ribosomal protein S4P [Burkholderia rhizoxinica HKI 454] Length = 207 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + ++ V + D + V Sbjct: 98 RLDTVVYRMGFGSTRAEARQLVSHKAITVNGQVANIPSLQVKAGDVVAV 146 >gi|283797526|ref|ZP_06346679.1| hemolysin A [Clostridium sp. M62/1] gi|291074895|gb|EFE12259.1| hemolysin A [Clostridium sp. M62/1] Length = 269 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 24/164 (14%), Positives = 51/164 (31%), Gaps = 2/164 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + G+A SR + + +I V V+G ++A T +EV G LR R Sbjct: 3 ERLDVLLVKNGLAESREKAKAIIMSGIVYVDGQKEDKAGTTFEETAKLEVRGATLRYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L S ++ G + + + L Sbjct: 63 GGLKLEKAMTHFGVELSGKVCMDVGAST-GGFTDCMLQNGAVKVYAVDVGHGQLAWKLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQ 176 + + + V + + + + G ++ Sbjct: 122 DPRVVCMEKTNIRYVTPEDIEEPVEFASIDVSFISLTKVLGPVK 165 >gi|22299000|ref|NP_682247.1| hemolysin-like protein [Thermosynechococcus elongatus BP-1] gi|22295182|dbj|BAC09009.1| hemolysin-like protein [Thermosynechococcus elongatus BP-1] Length = 262 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 1/58 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 QR+ ++ + SR++ +R I V VN I +++ V I+V P Sbjct: 2 TPRKQRLDSLLVERHLCESRQQAQRWIRAGAVHVNHIPIDKPGTLVAVDATIQVKAKP 59 >gi|157164972|ref|YP_001467696.1| 30S ribosomal protein S4 [Campylobacter concisus 13826] gi|171855075|sp|A7ZFY8|RS4_CAMC1 RecName: Full=30S ribosomal protein S4 gi|112800789|gb|EAT98133.1| ribosomal protein S4 [Campylobacter concisus 13826] Length = 208 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V +EV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKRVDIPSYRVEPGSKVEV 147 >gi|322688777|ref|YP_004208511.1| hypothetical protein BLIF_0590 [Bifidobacterium longum subsp. infantis 157F] gi|320460113|dbj|BAJ70733.1| conserved hypothetical protein [Bifidobacterium longum subsp. infantis 157F] Length = 257 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 27/51 (52%), Gaps = 2/51 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 R+ ++ +G+ SR + +R+I V+V+G + + + V + + VD Sbjct: 14 RLDMMLVASGLVESRAKAQRLIKAGHVRVDGETITKPSFMVKAGHSELAVD 64 >gi|296453816|ref|YP_003660959.1| hemolysin A [Bifidobacterium longum subsp. longum JDM301] gi|296183247|gb|ADH00129.1| hemolysin A [Bifidobacterium longum subsp. longum JDM301] Length = 257 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 27/51 (52%), Gaps = 2/51 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 R+ ++ +G+ SR + +R+I V+V+G + + + V + + VD Sbjct: 14 RLDMMLVASGLVESRAKAQRLIKAGHVRVDGETITKPSFMVKAGHSELAVD 64 >gi|227546214|ref|ZP_03976263.1| hemolysin A [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239622217|ref|ZP_04665248.1| conserved hypothetical protein [Bifidobacterium longum subsp. infantis CCUG 52486] gi|312133063|ref|YP_004000402.1| rRNA methylase [Bifidobacterium longum subsp. longum BBMN68] gi|317481833|ref|ZP_07940861.1| hemolysin TlyA family protein [Bifidobacterium sp. 12_1_47BFAA] gi|322690767|ref|YP_004220337.1| hypothetical protein BLLJ_0577 [Bifidobacterium longum subsp. longum JCM 1217] gi|227213195|gb|EEI81067.1| hemolysin A [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239514214|gb|EEQ54081.1| conserved hypothetical protein [Bifidobacterium longum subsp. infantis CCUG 52486] gi|291517152|emb|CBK70768.1| hemolysin TlyA family protein [Bifidobacterium longum subsp. longum F8] gi|311774055|gb|ADQ03543.1| Putative rRNA methylase [Bifidobacterium longum subsp. longum BBMN68] gi|316916770|gb|EFV38164.1| hemolysin TlyA family protein [Bifidobacterium sp. 12_1_47BFAA] gi|320455623|dbj|BAJ66245.1| conserved hypothetical protein [Bifidobacterium longum subsp. longum JCM 1217] Length = 257 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 27/51 (52%), Gaps = 2/51 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 R+ ++ +G+ SR + +R+I V+V+G + + + V + + VD Sbjct: 14 RLDMMLVASGLVESRAKAQRLIKAGHVRVDGETITKPSFMVKAGHSELAVD 64 >gi|172035830|ref|YP_001802331.1| hemolysin A [Cyanothece sp. ATCC 51142] gi|171697284|gb|ACB50265.1| hemolysin A [Cyanothece sp. ATCC 51142] Length = 270 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ + S R++ +R I VKVN ++++ + T IE+ P Sbjct: 5 RLDLLLVERNLCSSRQQAQRCIRAGEVKVNQRIIDKPGTEIEITADIELKQKP 57 >gi|118588308|ref|ZP_01545717.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine synthase:Pseudouridine synthase, Rlu:Pseudouridine [Stappia aggregata IAM 12614] gi|118439014|gb|EAV45646.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine synthase:Pseudouridine synthase, Rlu:Pseudouridine [Stappia aggregata IAM 12614] Length = 341 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 30/248 (12%), Positives = 66/248 (26%), Gaps = 47/248 (18%) Query: 13 PQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------DGV 65 +R+ V+A A SR ++ +I V V G + V D + + D Sbjct: 26 GKRLDAVLATHLEALSRNRIQSLIKSGDVTVGGAKIVEPKYRVNEGDALTLTLPQAEDPE 85 Query: 66 P--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG----- 112 P + + + + +V + + V + + +G Sbjct: 86 PKGEDIPVTVVFEDEHLIVVDKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVKRP 145 Query: 113 -----------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 + D +GL D G LE + + G ++ Sbjct: 146 GIVHRIDKDTSGLLVVAKTDQAHKGLAAQFADHGRTGPLERAYSALVWGAPSGLKGTINA 205 Query: 156 DKLNLLKKGIVIQGICY---GDMQVTLDTQKGSN-------AWVTVGLREGKNREIKKVF 205 + I + + ++ N + + L G+ +I+ Sbjct: 206 NLARSQANRQKIAVVKTSGRQAITHWQVKERFGNAEQPALASLLECRLETGRTHQIRVHM 265 Query: 206 EFFNWKVN 213 + Sbjct: 266 AHIGHPLI 273 >gi|23465615|ref|NP_696218.1| hemolysin-like protein [Bifidobacterium longum NCC2705] gi|23326286|gb|AAN24854.1| hemolysin-like protein with S4 domain found in bacteria and plants [Bifidobacterium longum NCC2705] Length = 280 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 27/51 (52%), Gaps = 2/51 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 R+ ++ +G+ SR + +R+I V+V+G + + + V + + VD Sbjct: 37 RLDMMLVASGLVESRAKAQRLIKAGHVRVDGETITKPSFMVKAGHSELAVD 87 >gi|46191091|ref|ZP_00206673.1| COG1189: Predicted rRNA methylase [Bifidobacterium longum DJO10A] gi|189439661|ref|YP_001954742.1| putative rRNA methylase [Bifidobacterium longum DJO10A] gi|189428096|gb|ACD98244.1| Putative rRNA methylase [Bifidobacterium longum DJO10A] Length = 257 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 27/51 (52%), Gaps = 2/51 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST-DHIEVD 63 R+ ++ +G+ SR + +R+I V+V+G + + + V + + VD Sbjct: 14 RLDMMLVASGLVESRAKAQRLIKAGHVRVDGETITKPSFMVKAGHSELAVD 64 >gi|310779500|ref|YP_003967833.1| hemolysin A [Ilyobacter polytropus DSM 2926] gi|309748823|gb|ADO83485.1| hemolysin A [Ilyobacter polytropus DSM 2926] Length = 268 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/59 (18%), Positives = 24/59 (40%), Gaps = 3/59 (5%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAV--NVMSTDHIEVDGVPLRK 69 +R+ ++ G +R + +R I V V+ +E+ + I + G L+ Sbjct: 3 ERLDVLLVEQGFFETREKAKRAIMAGIVIVDDKKIEKPGTQIKIDKEPKIRIKGQVLKY 61 >gi|307579486|gb|ADN63455.1| 30S ribosomal protein S4 [Xylella fastidiosa subsp. fastidiosa GB514] Length = 115 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 1/66 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ VI R G A +R ++++ + V VNG ++ + +V D + + + Sbjct: 5 RLDNVIYRMGFAVTRPAARQLVSHRSVLVNGKMVNLPSYHVKPGDVVALSQRAQKYLCVQ 64 Query: 74 RLWLYH 79 Sbjct: 65 ESLTIK 70 >gi|227510162|ref|ZP_03940211.1| 30S ribosomal protein S4 [Lactobacillus brevis subsp. gravesensis ATCC 27305] gi|227190367|gb|EEI70434.1| 30S ribosomal protein S4 [Lactobacillus brevis subsp. gravesensis ATCC 27305] Length = 231 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 10/49 (20%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A+ RR+ +++ + V+G ++ + V + V Sbjct: 122 RLDNIVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSYEVKPGQVVSV 170 >gi|218767826|ref|YP_002342338.1| putative ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis Z2491] gi|34395831|sp|Q9JVB6|RLUD_NEIMA RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|121051834|emb|CAM08140.1| putative ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis Z2491] Length = 374 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 28/230 (12%), Positives = 66/230 (28%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL---- 114 + + T + + +V + + + L Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 115 -------------DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLL 161 + + L+ + + + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVWQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|310642769|ref|YP_003947527.1| 30S ribosomal protein s4 [Paenibacillus polymyxa SC2] gi|309247719|gb|ADO57286.1| 30S ribosomal protein S4 [Paenibacillus polymyxa SC2] Length = 199 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 R+ ++ R G A SR +++A V VNG ++ A+ V D I Sbjct: 92 RLDNLVFRLGFANSRAGARQLVAHGHVTVNGKKVDIASYQVSPGDVI 138 >gi|284802475|ref|YP_003414340.1| hypothetical protein LM5578_2231 [Listeria monocytogenes 08-5578] gi|284995617|ref|YP_003417385.1| hypothetical protein LM5923_2182 [Listeria monocytogenes 08-5923] gi|284058037|gb|ADB68978.1| hypothetical protein LM5578_2231 [Listeria monocytogenes 08-5578] gi|284061084|gb|ADB72023.1| hypothetical protein LM5923_2182 [Listeria monocytogenes 08-5923] Length = 259 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 179 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 228 >gi|290892174|ref|ZP_06555170.1| S4 domain-containing protein [Listeria monocytogenes FSL J2-071] gi|290558297|gb|EFD91815.1| S4 domain-containing protein [Listeria monocytogenes FSL J2-071] Length = 258 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|217963827|ref|YP_002349505.1| S4 domain protein [Listeria monocytogenes HCC23] gi|217333097|gb|ACK38891.1| S4 domain protein [Listeria monocytogenes HCC23] gi|307571602|emb|CAR84781.1| RNA-binding S4 domain protein [Listeria monocytogenes L99] Length = 259 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 179 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 228 >gi|254854035|ref|ZP_05243383.1| S4 domain-containing protein [Listeria monocytogenes FSL R2-503] gi|300765463|ref|ZP_07075444.1| hypothetical protein LMHG_12332 [Listeria monocytogenes FSL N1-017] gi|258607427|gb|EEW20035.1| S4 domain-containing protein [Listeria monocytogenes FSL R2-503] gi|300513774|gb|EFK40840.1| hypothetical protein LMHG_12332 [Listeria monocytogenes FSL N1-017] Length = 258 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|116873458|ref|YP_850239.1| S4 domain-containing protein [Listeria welshimeri serovar 6b str. SLCC5334] gi|116742336|emb|CAK21460.1| S4 domain protein [Listeria welshimeri serovar 6b str. SLCC5334] Length = 258 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|16804067|ref|NP_465552.1| hypothetical protein lmo2028 [Listeria monocytogenes EGD-e] gi|224501171|ref|ZP_03669478.1| hypothetical protein LmonFR_01400 [Listeria monocytogenes FSL R2-561] gi|254827084|ref|ZP_05231771.1| S4 domain-containing protein [Listeria monocytogenes FSL N3-165] gi|254831730|ref|ZP_05236385.1| hypothetical protein Lmon1_10263 [Listeria monocytogenes 10403S] gi|255016669|ref|ZP_05288795.1| hypothetical protein LmonF_00281 [Listeria monocytogenes FSL F2-515] gi|255026556|ref|ZP_05298542.1| hypothetical protein LmonocytFSL_09855 [Listeria monocytogenes FSL J2-003] gi|16411498|emb|CAD00106.1| lmo2028 [Listeria monocytogenes EGD-e] gi|258599467|gb|EEW12792.1| S4 domain-containing protein [Listeria monocytogenes FSL N3-165] Length = 258 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|16801200|ref|NP_471468.1| hypothetical protein lin2134 [Listeria innocua Clip11262] gi|16414648|emb|CAC97364.1| lin2134 [Listeria innocua Clip11262] Length = 258 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|220931498|ref|YP_002508406.1| hemolysin A [Halothermothrix orenii H 168] gi|219992808|gb|ACL69411.1| hemolysin A [Halothermothrix orenii H 168] Length = 272 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ G +R +R I V VNG L +A V I V Sbjct: 6 RLDILLTDKGFFETRSRAKRAIMAGDVLVNGQLETKAGTRVSEDVKIRVKNKI 58 >gi|47097617|ref|ZP_00235141.1| S4 domain protein [Listeria monocytogenes str. 1/2a F6854] gi|254899274|ref|ZP_05259198.1| S4 domain protein [Listeria monocytogenes J0161] gi|254912587|ref|ZP_05262599.1| S4 domain-containing protein [Listeria monocytogenes J2818] gi|254936913|ref|ZP_05268610.1| S4 domain-containing protein [Listeria monocytogenes F6900] gi|47014004|gb|EAL05013.1| S4 domain protein [Listeria monocytogenes str. 1/2a F6854] gi|258609513|gb|EEW22121.1| S4 domain-containing protein [Listeria monocytogenes F6900] gi|293590578|gb|EFF98912.1| S4 domain-containing protein [Listeria monocytogenes J2818] Length = 258 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|46908264|ref|YP_014653.1| S4 domain-containing protein [Listeria monocytogenes serotype 4b str. F2365] gi|47094010|ref|ZP_00231742.1| S4 domain protein [Listeria monocytogenes str. 4b H7858] gi|224498521|ref|ZP_03666870.1| S4 domain protein [Listeria monocytogenes Finland 1988] gi|254826216|ref|ZP_05231217.1| S4 domain-containing protein [Listeria monocytogenes FSL J1-194] gi|254933456|ref|ZP_05266815.1| S4 domain-containing protein [Listeria monocytogenes HPB2262] gi|254992791|ref|ZP_05274981.1| S4 domain protein [Listeria monocytogenes FSL J2-064] gi|255522100|ref|ZP_05389337.1| S4 domain protein [Listeria monocytogenes FSL J1-175] gi|46881535|gb|AAT04830.1| S4 domain protein [Listeria monocytogenes serotype 4b str. F2365] gi|47017615|gb|EAL08416.1| S4 domain protein [Listeria monocytogenes str. 4b H7858] gi|293585017|gb|EFF97049.1| S4 domain-containing protein [Listeria monocytogenes HPB2262] gi|293595457|gb|EFG03218.1| S4 domain-containing protein [Listeria monocytogenes FSL J1-194] gi|328466091|gb|EGF37261.1| S4 domain protein [Listeria monocytogenes 1816] gi|328472677|gb|EGF43535.1| S4 domain protein [Listeria monocytogenes 220] gi|332312478|gb|EGJ25573.1| S4 domain protein [Listeria monocytogenes str. Scott A] Length = 258 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNAHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|330995872|ref|ZP_08319768.1| pseudouridine synthase, RluA family [Paraprevotella xylaniphila YIT 11841] gi|329574403|gb|EGG55974.1| pseudouridine synthase, RluA family [Paraprevotella xylaniphila YIT 11841] Length = 363 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 28/245 (11%), Positives = 63/245 (25%), Gaps = 42/245 (17%) Query: 8 QENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI------ 60 P R+ K + SR ++R Q+ + VNG ++ + V D I Sbjct: 40 DSGQKPMRIDKFLMEHLYNTSRNRLQRAAEQEFILVNGRPVKS-SYKVKPLDEIVILLDR 98 Query: 61 -EVDGVPLRKAERTRLWLY--------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + + +V + V + Sbjct: 99 PKYENEIIPEDIPLDIVYEDEDLMVVDKPAGLVVHPGCGNYTGTLVNAIAWHLKDNPDYD 158 Query: 112 ---------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRVYRVRF 149 R+D +T GLL++ + L + R Sbjct: 159 PNDPTVGLVHRIDKDTSGLLVVAKNADAKTHLGRQFFNKTTQRLYNALVWGSFQDEEGRI 218 Query: 150 HGQVDQDKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 G + + + ++ + + + V L G+ +I+ + Sbjct: 219 EGNIARHPKDRMQMAVFPPDSGIGKHAVTHYRVLENFNYVTLVECRLETGRTHQIRAHMK 278 Query: 207 FFNWK 211 Sbjct: 279 HIGHP 283 >gi|322420039|ref|YP_004199262.1| hemolysin A [Geobacter sp. M18] gi|320126426|gb|ADW13986.1| hemolysin A [Geobacter sp. M18] Length = 256 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ K++ G+A SR + +I +V V+ L ++A + V I + G PL Sbjct: 4 ERLDKLVLERGLAPSRERAKALIMAGQVVVDDHLADKAGLMVPLEAEIRLKGEPLPY 60 >gi|166031850|ref|ZP_02234679.1| hypothetical protein DORFOR_01551 [Dorea formicigenerans ATCC 27755] gi|166028303|gb|EDR47060.1| hypothetical protein DORFOR_01551 [Dorea formicigenerans ATCC 27755] Length = 251 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 15/52 (28%), Positives = 24/52 (46%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ V++ A SR ++ I +V VNG L+ ++ D I V G Sbjct: 174 SVRLDTVLSVAYPLSRSKLTTYIEAAKVFVNGKLITNNGYHLNEGDLISVRG 225 >gi|126733181|ref|ZP_01748928.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp. CCS2] gi|126716047|gb|EBA12911.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp. CCS2] Length = 341 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 10/57 (17%) Query: 13 PQRVSKVI-------ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 P R+ K + A SR + ++IA+ V V+G ++ + +EV Sbjct: 15 PPRLDKALGRDVPDDASL---SRSRLAKLIAEGAVSVDGAVVTDPRHRIAEGSVVEV 68 >gi|150397811|ref|YP_001328278.1| RluA family pseudouridine synthase [Sinorhizobium medicae WSM419] gi|150029326|gb|ABR61443.1| pseudouridine synthase, RluA family [Sinorhizobium medicae WSM419] Length = 343 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 31/250 (12%), Positives = 65/250 (26%), Gaps = 51/250 (20%) Query: 15 RVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---------- 62 R+ + A G SR ++ +I Q V VN + + + V D ++ Sbjct: 24 RLDAFLTEALGGEFSRNRIKGLIEQGAVSVNALTVTESKRKVHPGDTFQIALPEPEDPEP 83 Query: 63 DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RVI 109 G + ++ + L +V + + V + R Sbjct: 84 KGEAITLDVLYEDQDLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCGDSLSGIGGVKRPG 143 Query: 110 SVGRLDINTEGLLLLTNDGGLARV-----LELPSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 V RLD +T G++++ + R + L + + Sbjct: 144 IVHRLDKDTSGVMVVAKNDAAHRHLSDQFADHGRNGPLERAYRAVVWGRPRQLKGTIDAP 203 Query: 165 IVIQGICYGDMQVTLDTQKGSN---------------------AWVTVGLREGKNREIKK 203 + G D+ + V L G+ +I+ Sbjct: 204 LGRAGDRTKRAVKRDDSDDAREAITHYEVVDRYHEKPDGTSLASAVECHLETGRTHQIRV 263 Query: 204 VFEFFNWKVN 213 + Sbjct: 264 HMAHIGHPLI 273 >gi|310828534|ref|YP_003960891.1| hemolysin A [Eubacterium limosum KIST612] gi|308740268|gb|ADO37928.1| hemolysin A [Eubacterium limosum KIST612] Length = 283 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 4/62 (6%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVN--VMST-DHIEVDGVPL 67 +R K + G SR + ++ I V V G + ++A V IE+ G P+ Sbjct: 2 KKERFDKYLVDHGFFDSREKAKKAIMAGLVMVGGQVKDKAGDQLAVDLDPSVIEIKGNPI 61 Query: 68 RK 69 Sbjct: 62 PY 63 >gi|18310800|ref|NP_562734.1| hemolysin A [Clostridium perfringens str. 13] gi|18145481|dbj|BAB81524.1| probable hemolysin [Clostridium perfringens str. 13] Length = 271 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 1/64 (1%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ +R+ ++ GIA SR + +R I V + +++A V + +I G Sbjct: 1 MAEKKEKKERLDVLLVEQGIAESREKAKRYIMAGMVFIGEKRVDKAGEKVPVSSNIIFRG 60 Query: 65 VPLR 68 L Sbjct: 61 EKLP 64 >gi|308069706|ref|YP_003871311.1| 30S ribosomal protein S4 [Paenibacillus polymyxa E681] gi|305858985|gb|ADM70773.1| 30S ribosomal protein S4 [Paenibacillus polymyxa E681] Length = 199 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 R+ ++ R G A SR +++A V VNG ++ A+ V D I Sbjct: 92 RLDNLVFRLGFANSRAGARQLVAHGHVTVNGKKVDIASYQVSPGDVI 138 >gi|301500949|ref|YP_003795414.1| ribosomal protein S4 [Alveolata sp. CCMP3155] gi|300069495|gb|ADJ66602.1| ribosomal protein S4 [Chromerida sp. RM11] Length = 207 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + G A S R ++I V VNG ++ D I + Sbjct: 84 MRLDSFLFQVGFAVSIRSSRQLIRHGHVFVNGRVVSLPGYRCKQGDLICI 133 >gi|312865798|ref|ZP_07726020.1| ribosomal protein S4 [Streptococcus downei F0415] gi|311098673|gb|EFQ56895.1| ribosomal protein S4 [Streptococcus downei F0415] Length = 203 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVTPGQVISV 142 >gi|306845066|ref|ZP_07477646.1| hemolysin A [Brucella sp. BO1] gi|306274481|gb|EFM56276.1| hemolysin A [Brucella sp. BO1] Length = 253 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVARDATLAVDD 61 >gi|239636332|ref|ZP_04677334.1| YlmH protein [Staphylococcus warneri L37603] gi|239597687|gb|EEQ80182.1| YlmH protein [Staphylococcus warneri L37603] Length = 243 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 27/60 (45%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ V+ SR +++I ++RVKVN +++ + D + + G Sbjct: 157 KIHSSTVSALRLDVVLKDMIHKSRSIAKQLIEKKRVKVNHTIIDSPDFQLEMNDLLSIQG 216 >gi|15889714|ref|NP_355395.1| ribosomal large subunit pseudouridine synthase D [Agrobacterium tumefaciens str. C58] gi|15157624|gb|AAK88180.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Agrobacterium tumefaciens str. C58] Length = 340 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 10/36 (27%), Positives = 17/36 (47%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 SR ++ +I Q V +NG + V D +E+ Sbjct: 38 SRSRLKALIEQGAVLLNGQPVTEPKKKVHPGDRVEI 73 >gi|320106660|ref|YP_004182250.1| hemolysin A [Terriglobus saanensis SP1PR4] gi|319925181|gb|ADV82256.1| hemolysin A [Terriglobus saanensis SP1PR4] Length = 266 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%) Query: 15 RVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ K++ RA + SR + +I RV VN +++ + I + G +R Sbjct: 6 RLDKLMVDRALVPSRERAQALILAGRVLVNEQKIQKPGTPIAEESVIRLLGEDMRY 61 >gi|304436639|ref|ZP_07396608.1| hemolysin A [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304370335|gb|EFM23991.1| hemolysin A [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 268 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G+A SR +R+I +V VN +++A V + + V G L Sbjct: 2 KKERLDVLLTVQGLAPSRERAKRLIMAGQVLVNEQRVDKAGATVPADAVLRVVGEDLPY 60 >gi|268610501|ref|ZP_06144228.1| S4 domain-containing protein [Ruminococcus flavefaciens FD-1] Length = 69 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/68 (17%), Positives = 27/68 (39%), Gaps = 3/68 (4%) Query: 1 MKDKNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M +K + F ++ ++ + + + E + I V VNG + + D Sbjct: 1 MAEKIKISTEF--IKLDALLKFASLVGTGGEAKARIQDGEVLVNGEVCTMRGKKIRPGDT 58 Query: 60 IEVDGVPL 67 + +DG + Sbjct: 59 VSIDGNEV 66 >gi|126666789|ref|ZP_01737766.1| ribosomal protein S4 [Marinobacter sp. ELB17] gi|126628834|gb|EAZ99454.1| ribosomal protein S4 [Marinobacter sp. ELB17] Length = 206 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V R G S R E ++++ + + VN ++ + V D + V Sbjct: 97 RLDNVAYRMGFGSTRAECRQLVSHKAILVNDKVVNIPSYQVKPGDVVSV 145 >gi|315651408|ref|ZP_07904433.1| ribosomal protein S4e [Eubacterium saburreum DSM 3986] gi|315486367|gb|EFU76724.1| ribosomal protein S4e [Eubacterium saburreum DSM 3986] Length = 249 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 16/64 (25%), Positives = 25/64 (39%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + + N +R+ VI SR +V I RV +N ++ V + D I Sbjct: 160 VNRSEYKKINIPSERLDSVIGSIYNISRSKVNMYIDAGRVFINSKQCLSHSMKVKNGDII 219 Query: 61 EVDG 64 V G Sbjct: 220 TVRG 223 >gi|163850438|ref|YP_001638481.1| RluA family pseudouridine synthase [Methylobacterium extorquens PA1] gi|163662043|gb|ABY29410.1| pseudouridine synthase, RluA family [Methylobacterium extorquens PA1] Length = 343 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 1/56 (1%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ E P+R+ +V+AR SR ++ ++ + V+ +GI++ A V + I Sbjct: 25 VLDEGTVPERLDRVLARVFDDLSRARLQGLVREGLVRCDGIVVRDPARKVGAGCRI 80 >gi|313683416|ref|YP_004061154.1| SSU ribosomal protein s4p [Sulfuricurvum kujiense DSM 16994] gi|313156276|gb|ADR34954.1| SSU ribosomal protein S4P [Sulfuricurvum kujiense DSM 16994] Length = 208 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 QR+ V+ R G A+ RR +++ V V+G ++ + V +E+ Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVNHGHVLVDGKRVDIPSYRVKPGQKVEIHEK 150 >gi|307944601|ref|ZP_07659941.1| ribosomal large subunit pseudouridine synthase D [Roseibium sp. TrichSKD4] gi|307772350|gb|EFO31571.1| ribosomal large subunit pseudouridine synthase D [Roseibium sp. TrichSKD4] Length = 341 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 1/57 (1%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 V + +R+ V+A + SR ++ +I V V+G + V + + Sbjct: 20 VDADDHGKRLDAVLAGQIASLSRNRIQTLIKGGEVTVDGRKIVEPKHRVNEGQTLTL 76 >gi|220904866|ref|YP_002480178.1| pseudouridine synthase, RluA family [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|219869165|gb|ACL49500.1| pseudouridine synthase, RluA family [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 525 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 27/238 (11%), Positives = 59/238 (24%), Gaps = 37/238 (15%) Query: 13 PQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------- 63 +R+ +++ A SR +++++ V+G+ +R A + + +D Sbjct: 14 GKRLDRILGATVPELSRAALQKVVQAGCCTVDGLPEKRPAAKMRMGQTVTLDLPEHPDRL 73 Query: 64 ----GVP-LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINT 118 G L + + V ++ V L G+ Sbjct: 74 QPEEGHLELLWQDDHLVVCNKPAGLTVHPCPSCPEQTLVQRLLGRFPQLSRLEGQRPGIV 133 Query: 119 EGL---------------------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 L L L S + R Sbjct: 134 HRLDKDTSGLLVVALTEADCLALAAAFAERQVHKEYLALVSGLPPLEGQCREPLGRHPTA 193 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQ--KGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + QG + GS + + V + G+ +I+ + + Sbjct: 194 KIKMAVVPEDQGGRNAFTEWRRLWNTDDGSVSLLAVRIHTGRTHQIRVHMTHLGYPLL 251 >gi|154249790|ref|YP_001410615.1| 30S ribosomal protein S4 [Fervidobacterium nodosum Rt17-B1] gi|171769361|sp|A7HM25|RS4_FERNB RecName: Full=30S ribosomal protein S4 gi|154153726|gb|ABS60958.1| RNA-binding S4 domain protein [Fervidobacterium nodosum Rt17-B1] Length = 209 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR ++++ V VNG ++ + V D I + Sbjct: 99 RLDNVVYRLGFAINRRAARQLVSHGHVLVNGKKVDIPSYQVRPGDVISI 147 >gi|328542559|ref|YP_004302668.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D [polymorphum gilvum SL003B-26A1] gi|326412305|gb|ADZ69368.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D [Polymorphum gilvum SL003B-26A1] Length = 346 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 42/251 (16%), Positives = 71/251 (28%), Gaps = 47/251 (18%) Query: 10 NFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 +R+ V+A SR V+ +I V V+G + V + + Sbjct: 28 EDAGKRLDAVLAAHLADLSRTRVQALIRSGEVTVDGGKIVEPKYRVNEGATLALGLPEPE 87 Query: 63 ----DGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS----- 110 G + E L + KP GLV + T+ + L +S Sbjct: 88 EAEPKGEDIPLVVVYEDDDLIVIDKPAGLVVHPGAGNWTGTLVNALIRHCGDSLSGIGGV 147 Query: 111 -----VGRLDINTEGLLLLTND-----------------GGLARVLELPSTQWLRVYRVR 148 V RLD T GLL++ G L R R Sbjct: 148 RRPGIVHRLDKETSGLLVVAKTDAAHKGLSEQFADHGRSGPLERAYAALVWGAPATLRGT 207 Query: 149 FHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS------NAWVTVGLREGKNREIK 202 + + N K +V G + + + G + + L G+ +I+ Sbjct: 208 VDANLARSDANRQKISVVRNGGRHAVTHWQVLERFGPADQPAVASLLECRLETGRTHQIR 267 Query: 203 KVFEFFNWKVN 213 + Sbjct: 268 VHMAHIGHPLI 278 >gi|302670348|ref|YP_003830308.1| hemolysin TlyA family protein [Butyrivibrio proteoclasticus B316] gi|302394821|gb|ADL33726.1| hemolysin TlyA family protein [Butyrivibrio proteoclasticus B316] Length = 300 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 22/182 (12%), Positives = 47/182 (25%), Gaps = 4/182 (2%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDH--IEVDGVPLR 68 +R+ ++ G+A SR + + +I V VNG ++ + +EV G L Sbjct: 4 DKERLDVLLVNRGLAPSREKAKTLIMAGEVFVNGQREDKPGTTFEESKITSLEVRGDTLP 63 Query: 69 KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 R L L + + ++ G + + + D Sbjct: 64 YVSRGGLKLEKAVNNFGFSLENKICMDIGAST-GGFTDCMLQNGATKVYSVDVGHGQLDW 122 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 L + + + D + + L Sbjct: 123 KLRSDPRVVCMEKTNFRYMVRDDIADDLDFASCDVSFISLTKILLPARRLLKDGGQMVCL 182 Query: 189 VT 190 + Sbjct: 183 IK 184 >gi|15672266|ref|NP_266440.1| 30S ribosomal protein S4 [Lactococcus lactis subsp. lactis Il1403] gi|281490826|ref|YP_003352806.1| 50S ribosomal protein S4P [Lactococcus lactis subsp. lactis KF147] gi|26399484|sp|Q9CIS2|RS4_LACLA RecName: Full=30S ribosomal protein S4 gi|12723147|gb|AAK04382.1|AE006266_1 30S ribosomal protein S4 [Lactococcus lactis subsp. lactis Il1403] gi|281374584|gb|ADA64104.1| SSU ribosomal protein S4P [Lactococcus lactis subsp. lactis KF147] gi|326405863|gb|ADZ62934.1| 30S ribosomal protein S4 [Lactococcus lactis subsp. lactis CV56] Length = 203 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 93 QRLDNVVFRLGLATTRRQARQFVNHGHILVDGKRVDIPSFRVQPGQVISV 142 >gi|218528997|ref|YP_002419813.1| pseudouridine synthase [Methylobacterium chloromethanicum CM4] gi|218521300|gb|ACK81885.1| pseudouridine synthase, RluA family [Methylobacterium chloromethanicum CM4] Length = 343 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 1/56 (1%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ E P+R+ +V+AR SR ++ ++ + V+ +GI++ A V + I Sbjct: 25 VLDEGTVPERLDRVLARVFDDLSRARLQGLVREGLVRCDGIVVRDPARKVGAGCRI 80 >gi|15894757|ref|NP_348106.1| 30S ribosomal protein S4 [Clostridium acetobutylicum ATCC 824] gi|26399604|sp|Q97J08|RS4B_CLOAB RecName: Full=Putative 30S ribosomal protein S4 B gi|15024424|gb|AAK79446.1|AE007659_1 Ribosomal protein S4 [Clostridium acetobutylicum ATCC 824] gi|325508895|gb|ADZ20531.1| 30S ribosomal protein S4 [Clostridium acetobutylicum EA 2018] Length = 192 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 2/62 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K ++I+ ++ R+ ++ R G S RE +M++ + VNG ++ + V D + Sbjct: 72 KSEDILVQSLER-RLDNLVYRLGFGSTLREARQMVSHGHILVNGQKVDIPSYKVNIGDEV 130 Query: 61 EV 62 + Sbjct: 131 SL 132 >gi|225849518|ref|YP_002729683.1| 30S ribosomal protein S4 [Sulfurihydrogenibium azorense Az-Fu1] gi|225644198|gb|ACN99248.1| ribosomal protein S4 [Sulfurihydrogenibium azorense Az-Fu1] Length = 204 Score = 51.3 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +R++ +++ VNG ++ + V + D IEV Sbjct: 95 RLDNVVYRLGFAKTRQQARQLVKHGHFTVNGKKVDIPSYRVDAGDIIEV 143 >gi|332704325|ref|ZP_08424413.1| Dephospho-CoA kinase [Desulfovibrio africanus str. Walvis Bay] gi|332554474|gb|EGJ51518.1| Dephospho-CoA kinase [Desulfovibrio africanus str. Walvis Bay] Length = 556 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 24/243 (9%), Positives = 58/243 (23%), Gaps = 40/243 (16%) Query: 9 ENFTPQRVSKVIARA-GIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 N +R+ + G SR V+ I VNG + ++ + +++ + G Sbjct: 17 PNAAGKRLDVFLGEQVGDGFSRGRVQEWIKIGLASVNGKPWTKPSLRLRGGENVCLLGRA 76 Query: 67 -------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 + + L L + V L Sbjct: 77 EGNCLTPEQGDLAVLYRDDWLLVLNKPAGLTTHPAPSCPEGTLVHRLLHHFPELAALDSE 136 Query: 114 LDINTEGLLLLTN-------------------DGGLARVLELPSTQWLRVYRVRFHGQVD 154 L T+ + L R + Sbjct: 137 RPGIVHRLDKDTSGLLVVALTERARLALAEDFAERRVDKVYLALVHGRPQDRGDIDLPMG 196 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDT----QKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + ++ +G + + + G + + V + G+ +I+ Sbjct: 197 RHPTHKTRMAVLKKGG--RPARSAYEMLWSSRDGRFSLLRVRIFTGRTHQIRVHLAAIGH 254 Query: 211 KVN 213 + Sbjct: 255 PII 257 >gi|240145669|ref|ZP_04744270.1| hemolysin A [Roseburia intestinalis L1-82] gi|257202227|gb|EEV00512.1| hemolysin A [Roseburia intestinalis L1-82] Length = 270 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 24/178 (13%), Positives = 51/178 (28%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ G+A SR + + MI + V V ++A + IE+ G L+ R Sbjct: 3 ERLDLLLVNRGLAPSREKAKTMIMEGNVFVENEREDKAGSMFDTEAKIEIKGNTLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L +D ++ G + + + L + Sbjct: 63 GGLKLEKAMTHFDIELNDKVCMDIRAST-GGFTDCMLQNGAKKVYSVDVGYGQFAWKLRQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V D + + G + L + Sbjct: 122 DPRVVCMEKTNIRYVTPQDIDDVLDFASVDVSFISLTKVLGPARELLADGGEMVCLIK 179 >gi|251780039|ref|ZP_04822959.1| hemolysin A [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|243084354|gb|EES50244.1| hemolysin A [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 269 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 22/146 (15%), Positives = 46/146 (31%), Gaps = 2/146 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ GI SR + + I + +V V+G +++A V +IE G L+ Sbjct: 3 EKKERLDILLVEKGIITSRDKAKACIMEGKVFVDGQRVDKAGEKVSVIANIEYKGAKLKY 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L + D ++ G + + + Sbjct: 63 VSRGGLKLEKAMKSYDISLEDKVCMDIGAST-GGFTDCMLQNGAKKVYSVDVGYGQFAWK 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQ 155 L + + + V + Sbjct: 122 LRTDERVVCMERTNIRYVTLEDIGEP 147 >gi|161615592|ref|YP_001589557.1| 23S rRNA pseudouridine synthase D [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|161364956|gb|ABX68724.1| hypothetical protein SPAB_03373 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] Length = 300 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 28/217 (12%), Positives = 55/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG L ++ V+ + + +D + + Sbjct: 6 SRSRIKEWILNQRVLVNGQLCDKPKEKVLGGERVAIDAEIDEEIRFEAQDIPLDIVYEDD 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 L + +V + + + L R V RLD +T GL+++ Sbjct: 66 DILVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L V Sbjct: 126 VPAQTRLVESLQLREITREYEAVAIGHMTAGGTVNEPISRHPTKRTHMSVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|281205328|gb|EFA79520.1| proteasome component region PCI domain-containing protein [Polysphondylium pallidum PN500] Length = 1051 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 15/112 (13%), Positives = 24/112 (21%), Gaps = 2/112 (1%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE E + + R E + ++ G ++ Sbjct: 897 REPRRDEPREGGWRDAPRDAPRD--VPRRDEPRREEGGWRDGPRRDEPRREEGGWREGPR 954 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P G D +REE R R R + Sbjct: 955 DGPRDGPRRDEPRREEGGWRDGPRRDEPKREEGGWRDGPRDGPRDGPRDGQR 1006 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 12/109 (11%), Positives = 20/109 (18%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P + + + R + + G + P Sbjct: 859 APRDAPRDAPRDAPRDAPRDAPRDAPRDAPRRDDGPWGREPRRDEPREGGWRDAPRDAPR 918 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 G D +REE R R R + Sbjct: 919 DVPRRDEPRREEGGWRDGPRRDEPRREEGGWREGPRDGPRDGPRRDEPR 967 Score = 45.2 bits (105), Expect = 0.018, Method: Composition-based stats. Identities = 8/107 (7%), Positives = 22/107 (20%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 E + + R D +++ + ++ P R Sbjct: 838 RREEPRRDEPREGGWRDAPRDAPRDAPRDAPRDAPRDAPRDAPRDAPRDAPRRDDGPWGR 897 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + + R + RR ++ Sbjct: 898 EPRRDEPREGGWRDAPRDAPRDVPRRDEPRREEGGWRDGPRRDEPRR 944 Score = 44.4 bits (103), Expect = 0.026, Method: Composition-based stats. Identities = 10/119 (8%), Positives = 20/119 (16%), Gaps = 4/119 (3%) Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 VS K E + E + + Sbjct: 776 VSPKE--ENWRGRDEPRRDESWGREPRRDEPREGGWGREPRRDEPREGGWGRRDEPRRDD 833 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + P A + + R + R R + ++ Sbjct: 834 GPWGRREEPRRDEPREGGWRDAP--RDAPRDAPRDAPRDAPRDAPRDAPRDAPRDAPRR 890 Score = 44.0 bits (102), Expect = 0.035, Method: Composition-based stats. Identities = 9/105 (8%), Positives = 16/105 (15%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P + + ++ G + Sbjct: 883 APRDAPRRDDGPWGREPRRDEPREGGWRDAPRDAPRDVPRRDEPRREEGGWRDGPRRDEP 942 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 R G D +REE R + Sbjct: 943 RREEGGWREGPRDGPRDGPRRDEPRREEGGWRDGPRRDEPKREEG 987 Score = 42.9 bits (99), Expect = 0.076, Method: Composition-based stats. Identities = 19/131 (14%), Positives = 33/131 (25%), Gaps = 15/131 (11%) Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNII---------------SEVPDDF 282 +K +RE LE+ + A S+ R+R + Sbjct: 731 EKRIREAEEAARLEKERQEALANETYSQRKERERREKAAADAAAGVSPKEENWRGRDEPR 790 Query: 283 TRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP 342 + ++ R W + G+REE R P Sbjct: 791 RDESWGREPRRDEPREGGWGREPRRDEPREGGWGRRDEPRRDDGPWGRREEPRRDEPREG 850 Query: 343 SKRSLRRTSAK 353 R R + + Sbjct: 851 GWRDAPRDAPR 861 Score = 42.5 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 18/124 (14%), Positives = 28/124 (22%), Gaps = 3/124 (2%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE + RE E + + R + P D R Sbjct: 808 GWGREPRRDEPREGGWGRRDEPRRDDGPWGRREEPRRDEPREGGWRDAPRDAPRDAPRD- 866 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + P A + RE R +P + RR Sbjct: 867 APRDAPRDAPRDAPRDAPRDAPRRDDGPWGREPRRDEP--REGGWRDAPRDAPRDVPRRD 924 Query: 351 SAKK 354 ++ Sbjct: 925 EPRR 928 >gi|116250744|ref|YP_766582.1| FtsJ cell division/haemolysin-like protein [Rhizobium leguminosarum bv. viciae 3841] gi|115255392|emb|CAK06467.1| putative FtsJ cell division/haemolysin-like protein [Rhizobium leguminosarum bv. viciae 3841] Length = 248 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + QR+ +++ G ASR + + V++ G ++ +A + IE+D Sbjct: 2 SDQNTQRLDQLLVSLGLFASRSRARDAVQRGTVRIGGQVVTKAGALFSADAAIEIDD 58 >gi|225016757|ref|ZP_03705949.1| hypothetical protein CLOSTMETH_00669 [Clostridium methylpentosum DSM 5476] gi|224950425|gb|EEG31634.1| hypothetical protein CLOSTMETH_00669 [Clostridium methylpentosum DSM 5476] Length = 75 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/71 (18%), Positives = 28/71 (39%), Gaps = 10/71 (14%) Query: 1 MKDKNIVQENFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 MK +++ ++ +++ A+ G + ++A+ V VNG + Sbjct: 1 MKTESV-TIRTEFIKLDQLLKFTGAAQTGG----HAKELVAEGVVTVNGEPCLMRGKKIR 55 Query: 56 STDHIEVDGVP 66 D + VDG Sbjct: 56 PGDRVSVDGQI 66 >gi|168214392|ref|ZP_02640017.1| hemolysin A [Clostridium perfringens CPE str. F4969] gi|169343538|ref|ZP_02864537.1| hemolysin A [Clostridium perfringens C str. JGS1495] gi|169298098|gb|EDS80188.1| hemolysin A [Clostridium perfringens C str. JGS1495] gi|170714133|gb|EDT26315.1| hemolysin A [Clostridium perfringens CPE str. F4969] Length = 271 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 1/64 (1%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ +R+ ++ GIA SR + +R I V + +++A V + +I G Sbjct: 1 MAEKKEKKERLDVLLVEQGIAESREKAKRYIMAGMVFIGEKRVDKAGEKVPVSSNIIFRG 60 Query: 65 VPLR 68 L Sbjct: 61 EKLP 64 >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 = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 17/89 (19%), Positives = 37/89 (41%), Gaps = 1/89 (1%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 R+SK+++ + + SR + + +I +KVN ++ + + I+V P++ T+ Sbjct: 14 RLSKILSLSSVTSRNKAQELIKNGDIKVNNQVVNQNVF-IDVNSKIQVKDKPIQVDICTK 72 Query: 75 LWLYHKPIGLVTTHSDPDGRSTVFDNLPS 103 LW +KP + Sbjct: 73 LWGIYKPKHIFCNTEKDYTYEEKIHFNKM 101 Score = 41.7 bits (96), Expect = 0.19, Method: Composition-based stats. Identities = 36/161 (22%), Positives = 66/161 (40%), Gaps = 2/161 (1%) Query: 71 ERTRLWLYHK--PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDG 128 + T + Y+K I +I + L+ +EGLLLLTNDG Sbjct: 187 KHTNIITYNKLNMNIYDYIKKQNMLYEKKNHVTNYIPEHLIIINSLNSGSEGLLLLTNDG 246 Query: 129 GLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAW 188 A+ L+ L Y ++ + DK+ LL+KG I + + + K ++ W Sbjct: 247 DFAKNLKDIQNNILTTYLIKVQEDLCIDKIKLLRKGCFINNQHIYPVNIEIIKSKHTSKW 306 Query: 189 VTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLL 229 + E + + +F +N + + R S+GP++ + Sbjct: 307 IKFTYVEKSHNYLLYLFSKYNITIRKCKRFSFGPYKYTDIN 347 >gi|297625817|ref|YP_003687580.1| 30S ribosomal protein S4 [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296921582|emb|CBL56136.1| 30S ribosomal protein S4 [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 201 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ RAG AS RR+ +M++ + VNG + + V D I+V Sbjct: 92 RLDNVVYRAGFASTRRQARQMVSHGHILVNGKKVNIPSFRVAPLDIIDV 140 >gi|238021276|ref|ZP_04601702.1| hypothetical protein GCWU000324_01175 [Kingella oralis ATCC 51147] gi|237868256|gb|EEP69262.1| hypothetical protein GCWU000324_01175 [Kingella oralis ATCC 51147] Length = 371 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 33/230 (14%), Positives = 70/230 (30%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ +A+ SR + I V NG ++ + + V+ P Sbjct: 38 RLDAALAKMLPDYSRSRIAGWIKDGEVLCNGQPA-SPKTKLIGGEQLAVNIQPSQETQAY 96 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-----IFSRVISVGR 113 + + + L L +V + + + L R V R Sbjct: 97 TPEAMPLDIVYEDDSVLVLNKPAGLVVHPAAGNWTGTLLNGLLAHASELSQVPRAGIVHR 156 Query: 114 LDINTEGLLLLTNDGGLARV------------LELPSTQWLRVYRVRFHGQVDQDKLNLL 161 LD +T GL+++ + + + + Q+ +D N L Sbjct: 157 LDKDTSGLMVVAKTLPAQNHLVQQLQSRSVKRIYRAIADGIVPFDGKIETQIGRDPHNRL 216 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ Sbjct: 217 KMAVVKFGGKEAITHVKVLERYQAHSYIECSLETGRTHQIRVHLREARHP 266 >gi|110800396|ref|YP_696501.1| hemolysin A [Clostridium perfringens ATCC 13124] gi|110803042|ref|YP_699101.1| hemolysin A [Clostridium perfringens SM101] gi|168210819|ref|ZP_02636444.1| hemolysin A [Clostridium perfringens B str. ATCC 3626] gi|168215446|ref|ZP_02641071.1| hemolysin A [Clostridium perfringens NCTC 8239] gi|182625677|ref|ZP_02953446.1| hemolysin A [Clostridium perfringens D str. JGS1721] gi|110675043|gb|ABG84030.1| hemolysin A [Clostridium perfringens ATCC 13124] gi|110683543|gb|ABG86913.1| hemolysin A [Clostridium perfringens SM101] gi|170711111|gb|EDT23293.1| hemolysin A [Clostridium perfringens B str. ATCC 3626] gi|177909079|gb|EDT71554.1| hemolysin A [Clostridium perfringens D str. JGS1721] gi|182382420|gb|EDT79899.1| hemolysin A [Clostridium perfringens NCTC 8239] Length = 271 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 1/64 (1%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ +R+ ++ GIA SR + +R I V + +++A V + +I G Sbjct: 1 MAEKKEKKERLDVLLVEQGIAESREKAKRYIMAGMVFIGEKRVDKAGEKVPVSSNIIFRG 60 Query: 65 VPLR 68 L Sbjct: 61 EKLP 64 >gi|15617094|ref|NP_240307.1| 30S ribosomal protein S4 [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219681846|ref|YP_002468232.1| 30S ribosomal protein S4 [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|219682401|ref|YP_002468785.1| 30S ribosomal protein S4 [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|257471551|ref|ZP_05635550.1| 30S ribosomal protein S4 [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] gi|11387058|sp|P57567|RS4_BUCAI RecName: Full=30S ribosomal protein S4 gi|254764574|sp|B8D9S3|RS4_BUCA5 RecName: Full=30S ribosomal protein S4 gi|254764575|sp|B8D825|RS4_BUCAT RecName: Full=30S ribosomal protein S4 gi|25294492|pir||A84988 30S ribosomal protein S4 [imported] - Buchnera sp. (strain APS) gi|10039159|dbj|BAB13193.1| 30S ribosomal protein S4 [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219622134|gb|ACL30290.1| 30S ribosomal protein S4 [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|219624689|gb|ACL30844.1| 30S ribosomal protein S4 [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|311086222|gb|ADP66304.1| 30S ribosomal protein S4 [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] gi|311086799|gb|ADP66880.1| 30S ribosomal protein S4 [Buchnera aphidicola str. TLW03 (Acyrthosiphon pisum)] gi|311087386|gb|ADP67466.1| 30S ribosomal protein S4 [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] gi|311087883|gb|ADP67962.1| 30S ribosomal protein S4 [Buchnera aphidicola str. JF98 (Acyrthosiphon pisum)] Length = 206 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ R G +R E ++I + + VN ++ A+ V D I + Sbjct: 97 RLDNVVYRMGFGCTRSESRQLINHKSIMVNNKVVNIASYQVSPNDQISIRNK 148 >gi|323483273|ref|ZP_08088663.1| hypothetical protein HMPREF9474_00412 [Clostridium symbiosum WAL-14163] gi|323691228|ref|ZP_08105504.1| ribosomal protein S4 [Clostridium symbiosum WAL-14673] gi|323403371|gb|EGA95679.1| hypothetical protein HMPREF9474_00412 [Clostridium symbiosum WAL-14163] gi|323504747|gb|EGB20533.1| ribosomal protein S4 [Clostridium symbiosum WAL-14673] Length = 197 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R+E +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVLFRMGFGRTRKETRQIVDHKHVLVNGKPVNIPSYRVKAGDTIEI 136 >gi|262048764|ref|ZP_06021646.1| hypothetical protein SAD30_1594 [Staphylococcus aureus D30] gi|262051690|ref|ZP_06023909.1| hypothetical protein SA930_1517 [Staphylococcus aureus 930918-3] gi|259160425|gb|EEW45450.1| hypothetical protein SA930_1517 [Staphylococcus aureus 930918-3] gi|259163220|gb|EEW47780.1| hypothetical protein SAD30_1594 [Staphylococcus aureus D30] Length = 212 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%) Query: 3 DKNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++N E+ T R+ VI SR +++I ++RVKVN +++ A + + D I Sbjct: 122 NENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLI 181 Query: 61 EVDG 64 + G Sbjct: 182 SIQG 185 >gi|254559695|ref|YP_003066790.1| ribosomal large subunit pseudouridine synthase D [Methylobacterium extorquens DM4] gi|254266973|emb|CAX22773.1| ribosomal large subunit pseudouridine synthase D (Pseudouridylate synthase) (Uracil hydrolyase) [Methylobacterium extorquens DM4] Length = 330 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 1/56 (1%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ E P+R+ +V+AR SR ++ ++ + V+ +GI++ A V + I Sbjct: 12 VLDEGTVPERLDRVLARVFDDLSRARLQGLVREGLVRCDGIVVRDPARKVGAGSRI 67 >gi|188996123|ref|YP_001930374.1| pseudouridine synthase, RluA family [Sulfurihydrogenibium sp. YO3AOP1] gi|188931190|gb|ACD65820.1| pseudouridine synthase, RluA family [Sulfurihydrogenibium sp. YO3AOP1] Length = 318 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 26/243 (10%), Positives = 63/243 (25%), Gaps = 38/243 (15%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V+E F+ +R+ + +A SR + +I + V ++ + +++ V + + Sbjct: 9 VEEEFSNKRLDQFLALVYPEYSRSFYQNLIENRFVLLDNNPVRKSSTKVKTGQEFTIIIP 68 Query: 66 --------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + +Y P +V + V L + Sbjct: 69 PPEPLEIEPENIPLEIYYEDEDLAVVYKPPGMVVHPSVGHTSGTLVNALLYHFKNVSQYQ 128 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 G+ L G L + + L+ Sbjct: 129 GKERAGIVHRLDKDTAGLLIVAKSEFAHKELQKMFQDREIDKKYKAIVSGIVKKDHGLID 188 Query: 157 --KLNLLKKGIVIQGICYGDMQVTLDT------QKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + + +K + V + L G+ +I+ F Sbjct: 189 LPIGRSIYNRQKMGTVATNPKDALTEYWVEKRFEKHNLTLVDIKLHTGRTHQIRVHFSAI 248 Query: 209 NWK 211 Sbjct: 249 GHP 251 >gi|315221952|ref|ZP_07863863.1| S4 domain protein [Streptococcus anginosus F0211] gi|315188918|gb|EFU22622.1| S4 domain protein [Streptococcus anginosus F0211] Length = 263 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 18/53 (33%), Positives = 31/53 (58%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ KV+A + SR R+IA ++VKVN +L+ + +++ D I V G Sbjct: 183 SSMRLDKVVAASFHLSRSIAARLIATKQVKVNYSMLDNPSHHLLLNDLISVRG 235 >gi|291320720|ref|YP_003515985.1| ribosomal large subunit pseudouridine synthase C [Mycoplasma agalactiae] gi|290753056|emb|CBH41032.1| Ribosomal large subunit pseudouridine synthaseC [Mycoplasma agalactiae] Length = 284 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 37/241 (15%), Positives = 79/241 (32%), Gaps = 37/241 (15%) Query: 4 KNIVQENFTPQRVSKVIARA------GIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 K I Q + +++ K I+ G R + R+ Q+ +KVN + + V + Sbjct: 3 KFIAQSSDNGRKLIKYISSLFKKLPEG---R--IYRLFRQKSIKVNNKRIADSNYVVKTG 57 Query: 58 DHIEVDGVP-----------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD- 99 D I + G+ + + L + K +V S+ Sbjct: 58 DEIIIYGIKDEPSFVIYDNSWKLDSDIVYEDDNILLINKKAGTIVHGDSNCLDNQVFSYL 117 Query: 100 -NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 + R VGRLD T GL++ + L + ++Y ++ + + Sbjct: 118 KFKQNSAFRPSHVGRLDKWTSGLIMYAKNYPALAELNRKTEFLDKIYVLKSDYNPHDEIV 177 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNA-------WVTVGLREGKNREIKKVFEFFNWK 211 ++ +Q + K + + L G+ +I+ E+ + Sbjct: 178 SVYVHHDELQQKMVATKNMQHPDDKMAKTRFFKKDNKLYAQLFTGRKHQIRATLEYLEYP 237 Query: 212 V 212 + Sbjct: 238 I 238 >gi|85713166|ref|ZP_01044198.1| 30S ribosomal protein S4 [Idiomarina baltica OS145] gi|85693036|gb|EAQ31002.1| 30S ribosomal protein S4 [Idiomarina baltica OS145] Length = 206 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G AS R E ++++ + V VNG ++ + V D + V Sbjct: 96 QRLDNVVYRMGFASTRAEARQLVSHKAVVVNGQVVNIPSFMVRPEDVVSV 145 >gi|315221587|ref|ZP_07863507.1| ribosomal protein S4 [Streptococcus anginosus F0211] gi|315189421|gb|EFU23116.1| ribosomal protein S4 [Streptococcus anginosus F0211] Length = 227 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 118 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVSVGQVISVREKSLKVP 174 >gi|293376582|ref|ZP_06622810.1| ribosomal RNA large subunit methyltransferase J [Turicibacter sanguinis PC909] gi|325839398|ref|ZP_08166837.1| ribosomal RNA large subunit methyltransferase J [Turicibacter sp. HGF1] gi|292644808|gb|EFF62890.1| ribosomal RNA large subunit methyltransferase J [Turicibacter sanguinis PC909] gi|325490518|gb|EGC92834.1| ribosomal RNA large subunit methyltransferase J [Turicibacter sp. HGF1] Length = 268 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ + G SR +R I V V+ +++ V +I V G Sbjct: 2 KKERIDVLLTQLGYFNSRETAKRAIMAGLVLVDQQRIDKPGEKVPVESNITVKGNVCPY 60 >gi|326382558|ref|ZP_08204249.1| cell division protein FtsW [Gordonia neofelifaecis NRRL B-59395] gi|326198677|gb|EGD55860.1| cell division protein FtsW [Gordonia neofelifaecis NRRL B-59395] Length = 595 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 12/108 (11%), Positives = 19/108 (17%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G L R P ++ S + TP Sbjct: 480 GLSRLLRLPRPEAYRSARQPDRRRASSATSGRRPAPVRGPSAGGRREAPRSWATRPRTPA 539 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R G R + P+ R + + Sbjct: 540 ADRPRRGRWSGESSSGEIHYPARGARPNRSWQESRAPAPHERPRRAGR 587 Score = 37.1 bits (84), Expect = 4.0, Method: Composition-based stats. Identities = 13/88 (14%), Positives = 24/88 (27%), Gaps = 5/88 (5%) Query: 267 LVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLS 326 R P+ ++ + + + + P RR ++ Sbjct: 462 AARHEPDAVAALAGPAPKGLSRLLRLPRPEAYRSARQPDRRRASSATSGRRPA--PVRGP 519 Query: 327 DSGQREENHR---RSPSFPSKRSLRRTS 351 +G R E R P P+ RR Sbjct: 520 SAGGRREAPRSWATRPRTPAADRPRRGR 547 >gi|15924181|ref|NP_371715.1| YlmH [Staphylococcus aureus subsp. aureus Mu50] gi|15926774|ref|NP_374307.1| hypothetical protein SA1034 [Staphylococcus aureus subsp. aureus N315] gi|156979512|ref|YP_001441771.1| hypothetical protein SAHV_1181 [Staphylococcus aureus subsp. aureus Mu3] gi|13700990|dbj|BAB42286.1| SA1034 [Staphylococcus aureus subsp. aureus N315] gi|14246961|dbj|BAB57353.1| YlmH [Staphylococcus aureus subsp. aureus Mu50] gi|156721647|dbj|BAF78064.1| hypothetical protein [Staphylococcus aureus subsp. aureus Mu3] gi|285816873|gb|ADC37360.1| hypothetical protein, contains S4-like RNA binding domain [Staphylococcus aureus 04-02981] Length = 212 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%) Query: 3 DKNIVQENFT--PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++N E+ T R+ VI SR +++I ++RVKVN +++ A + + D I Sbjct: 122 NENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLI 181 Query: 61 EVDG 64 + G Sbjct: 182 SIQG 185 >gi|331001804|ref|ZP_08325326.1| hypothetical protein HMPREF0491_00188 [Lachnospiraceae oral taxon 107 str. F0167] gi|330412778|gb|EGG92161.1| hypothetical protein HMPREF0491_00188 [Lachnospiraceae oral taxon 107 str. F0167] Length = 249 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 3/64 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +++K I N + +R+ +I SR +V I +V +N + + D I Sbjct: 163 LENKRI---NISSERLDSIIGSIYNISRSKVNLYIDAGKVFINSKQCFSHSAKIKDGDII 219 Query: 61 EVDG 64 V G Sbjct: 220 TVRG 223 >gi|296314698|ref|ZP_06864639.1| ribosomal large subunit pseudouridine synthase D [Neisseria polysaccharea ATCC 43768] gi|296838532|gb|EFH22470.1| ribosomal large subunit pseudouridine synthase D [Neisseria polysaccharea ATCC 43768] Length = 374 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIREGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 MPEPMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|254670508|emb|CBA06264.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis alpha153] Length = 373 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 58 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 116 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 117 VPEPMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 176 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 177 LDKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 236 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 237 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 286 >gi|188589502|ref|YP_001921546.1| hemolysin A [Clostridium botulinum E3 str. Alaska E43] gi|188499783|gb|ACD52919.1| hemolysin A [Clostridium botulinum E3 str. Alaska E43] Length = 269 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 22/146 (15%), Positives = 46/146 (31%), Gaps = 2/146 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ GI SR + + I + +V V+G +++A V +IE G L+ Sbjct: 3 EKKERLDILLVEKGIITSRDKAKACIMEGKVFVDGQRVDKAGEKVSVIANIEYKGAKLKY 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L + D ++ G + + + Sbjct: 63 VSRGGLKLEKAMKSYDISLEDKVCMDIGAST-GGFTDCMLQNGAKKVYSVDVGYGQFAWK 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQ 155 L + + + V + Sbjct: 122 LRTDERVVCMERTNIRYVTLEDIGEP 147 >gi|109897338|ref|YP_660593.1| 30S ribosomal protein S4 [Pseudoalteromonas atlantica T6c] gi|332307746|ref|YP_004435597.1| ribosomal protein S4 [Glaciecola agarilytica 4H-3-7+YE-5] gi|122972198|sp|Q15X49|RS4_PSEA6 RecName: Full=30S ribosomal protein S4 gi|109699619|gb|ABG39539.1| SSU ribosomal protein S4P [Pseudoalteromonas atlantica T6c] gi|332175075|gb|AEE24329.1| ribosomal protein S4 [Glaciecola agarilytica 4H-3-7+YE-5] Length = 206 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G AS R E ++++ + + VNG ++ + NV + D + V Sbjct: 96 QRLDNVVYRIGFASTRSEARQLVSHKAILVNGQVVNVPSFNVSADDVVSV 145 >gi|296132888|ref|YP_003640135.1| translation initiation factor IF-2 [Thermincola sp. JR] gi|296031466|gb|ADG82234.1| translation initiation factor IF-2 [Thermincola potens JR] Length = 837 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/115 (11%), Positives = 29/115 (25%), Gaps = 2/115 (1%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKN 293 ++V ++++ + Q P RP + P + + + Sbjct: 68 KKVDAAAIKDR-ENQGNQRPQPVGQKPAGQGPRPAGQRPPGQAARPAGQRPAGQRPAGQR 126 Query: 294 GLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + + A G + +GQR P+ R Sbjct: 127 PAGQGPRSAGQRPA-GQRPAGQRPAGQRPAGQRPAGQRPPGQAARPAGQGPRPAG 180 Score = 46.7 bits (109), Expect = 0.006, Method: Composition-based stats. Identities = 11/115 (9%), Positives = 34/115 (29%), Gaps = 1/115 (0%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ + LE+ +V + + ++ + +E P + G + + Sbjct: 29 IQVKNHMSALEDEEVAKVRAAAAGKKEKNEQTDTAAEAPKKVDAAAIKDRENQGNQRPQP 88 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR-RTSAKK 354 + + G + + + P+ RS R + ++ Sbjct: 89 VGQKPAGQGPRPAGQRPPGQAARPAGQRPAGQRPAGQRPAGQGPRSAGQRPAGQR 143 Score = 44.4 bits (103), Expect = 0.027, Method: Composition-based stats. Identities = 11/117 (9%), Positives = 27/117 (23%), Gaps = 4/117 (3%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 +E+ + + + + + Q+ + Sbjct: 54 KEKNEQTDTAAEAPKKVDAAAIKDRENQGNQRPQPVGQKPAGQGPRPAGQRPPGQAARPA 113 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS----KRSLRRTSAKK 354 + A +G S+ +GQR R + P+ A + Sbjct: 114 GQRPAGQRPAGQRPAGQGPRSAGQRPAGQRPAGQRPAGQRPAGQRPAGQRPPGQAAR 170 >gi|293376356|ref|ZP_06622593.1| ribosomal protein S4 [Turicibacter sanguinis PC909] gi|292645045|gb|EFF63118.1| ribosomal protein S4 [Turicibacter sanguinis PC909] Length = 169 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 10/49 (20%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR+ +++ + V+G ++ + +V I + Sbjct: 62 RLDNLVYRLGLAATRRQARQLVNHGHITVDGKRVDIPSYSVKPGQTISL 110 >gi|239996313|ref|ZP_04716837.1| 30S ribosomal protein S4 [Alteromonas macleodii ATCC 27126] gi|332142182|ref|YP_004427920.1| 30S ribosomal protein S4 [Alteromonas macleodii str. 'Deep ecotype'] gi|226697796|sp|B4RT52|RS4_ALTMD RecName: Full=30S ribosomal protein S4 gi|327552204|gb|AEA98922.1| 30S ribosomal protein S4 [Alteromonas macleodii str. 'Deep ecotype'] Length = 206 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G AS R E ++++ + + VNG ++ + NV + D + V Sbjct: 96 QRLDNVVYRMGFASTRAEARQLVSHKAIMVNGQVVNIPSFNVSAEDVVSV 145 >gi|323526134|ref|YP_004228287.1| RluA family pseudouridine synthase [Burkholderia sp. CCGE1001] gi|323383136|gb|ADX55227.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1001] Length = 426 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 68/247 (27%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 +V + +R+ KV+AR SR ++ I +RV+++G + V IE Sbjct: 69 VVPDELAGERLDKVLARVFPEFSRNRLQSWIEAERVRIDGKPAK-IRQPVPLGATIELVP 127 Query: 62 --------VDGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 P + + T + + +V + + + L Sbjct: 128 DLLPEQLAFTPEPVPLDIVYEDDTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAA 187 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R V RLD T GL+++ L R + + + Sbjct: 188 GLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPEEGTIDA 247 Query: 164 GIVIQ-----------GICYGDMQVTL------DTQKGSNAWVTVGLREGKNREIKKVFE 206 I G + Q+ + L G+ +I+ Sbjct: 248 PIGRDPRERTRMAVVTGASGKPARTHFRRVDTALWQRQPVTAIHCDLETGRTHQIRVHCA 307 Query: 207 FFNWKVN 213 + Sbjct: 308 HIGHPLL 314 >gi|239627500|ref|ZP_04670531.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239517646|gb|EEQ57512.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 278 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 24/165 (14%), Positives = 51/165 (30%), Gaps = 2/165 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + +A SR + + +I V VNG ++A + + IEV G LR R Sbjct: 7 ERLDVLMVQKNLAESREKAKALIMSGIVYVNGQKEDKAGTSFDTAAQIEVRGSTLRYVSR 66 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L ++ G + + + + L Sbjct: 67 GGLKLEKAMSHFGVELEGKVCMDVGAST-GGFTDCMLQNGAVKVYSVDVGHGQLAWKLRN 125 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + + + V D+ + + G ++ Sbjct: 126 DERVVCMEKTNIRYVLPGDIGDRIMFASIDVSFISLTKVLGPVKN 170 >gi|218778690|ref|YP_002430008.1| hemolysin A [Desulfatibacillum alkenivorans AK-01] gi|218760074|gb|ACL02540.1| hemolysin A [Desulfatibacillum alkenivorans AK-01] Length = 245 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 1/55 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 QR+ +I G+A SR + +I +V V+ + ++A + +I V G Sbjct: 3 KKQRLDTLITELGLAPSRTRAQALILSGQVLVDDVPQDKAGAMISPEANITVRGQ 57 >gi|254718615|ref|ZP_05180426.1| Cell division protein FtsJ [Brucella sp. 83/13] gi|265983592|ref|ZP_06096327.1| hemolysin A [Brucella sp. 83/13] gi|306839867|ref|ZP_07472665.1| hemolysin A [Brucella sp. NF 2653] gi|264662184|gb|EEZ32445.1| hemolysin A [Brucella sp. 83/13] gi|306405053|gb|EFM61334.1| hemolysin A [Brucella sp. NF 2653] Length = 253 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V S + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVASDAALAVDD 61 >gi|329907623|ref|ZP_08274693.1| SSU ribosomal protein S4p (S9e) [Oxalobacteraceae bacterium IMCC9480] gi|327546928|gb|EGF31837.1| SSU ribosomal protein S4p (S9e) [Oxalobacteraceae bacterium IMCC9480] Length = 139 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G S R E ++++ + VNGI++ A+ V + D I V Sbjct: 30 RLDNVIYRMGFGSTRAEARQLVSHKAFTVNGIVVNIASYQVKAGDVIVV 78 >gi|153008568|ref|YP_001369783.1| RluA family pseudouridine synthase [Ochrobactrum anthropi ATCC 49188] gi|151560456|gb|ABS13954.1| pseudouridine synthase, RluA family [Ochrobactrum anthropi ATCC 49188] Length = 334 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 32/258 (12%), Positives = 72/258 (27%), Gaps = 52/258 (20%) Query: 8 QENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + T +R+ + +A A SR V+ +IA+ V ++G A + I + Sbjct: 7 DSDATGKRLDQWLAAALGPELSRSRVQSLIAEGHVTIDGAPAREAKQKLREGMTIAIVLP 66 Query: 63 DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------ 105 + P + + + + +V + + V + Sbjct: 67 EPEPAEPIAENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCGDSLSGI 126 Query: 106 ---SRVISVGRLDINTEGLLLLTNDGGLARV------LELPSTQWLRVYRVRFHGQVDQD 156 R V RLD +T G++++ + R + R Y G ++ Sbjct: 127 GGIRRPGIVHRLDKDTSGVMVVAKNDRSHRHLSEQFADHGRTGDLERAYLALVWGMTERP 186 Query: 157 KLNLLKKGIVIQGICYGDMQVTLDTQKGSN---------------------AWVTVGLRE 195 + + V + + + + V L Sbjct: 187 QGFIDAHLGRSHRDRTKQAVVNEEREDARHAITHYVTVEKFAPLEDATALASLVECRLET 246 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 247 GRTHQIRVHMAHIGHPLV 264 >gi|167957398|ref|ZP_02544472.1| ribosomal large subunit pseudouridine synthase, RluD subfamily protein [candidate division TM7 single-cell isolate TM7c] Length = 379 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 31/260 (11%), Positives = 80/260 (30%), Gaps = 42/260 (16%) Query: 2 KDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 KD +++ +R+ ++ G SR ++MI +V V+G + + A V ++ Sbjct: 101 KDCYLLESKSDKKRLDILLVEKVGKESRSTYQKMITAGQVLVDGKIAKNAKQLVGIESNV 160 Query: 61 EVDGV-----PLRKA---ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 +++ P++ E + + +KP G++T ++ + + Sbjct: 161 KIESKQQKFTPIKYETIYEDNDIIVINKPAGMLTHAKGAIAEEFTAADIVKPITNYKADT 220 Query: 113 RLD------INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 +LL A V + + + + Sbjct: 221 NRPGIIHRLDRNTSGVLLMVKNSDAASKIQKQFSQRTVKKTYYAIVCGIPYQHKALIDLP 280 Query: 167 IQGICYGDMQVTLD---------------TQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 I+ + K + + + + + G+ +++ ++ N Sbjct: 281 IERNPSRPSTFRVGVNGKSAQTSYEVERSIIKKNISLIKLQPKTGRTHQLRVHMQYLNTP 340 Query: 212 VNRLIRISYGPFQLGTLLAG 231 + LG L+ G Sbjct: 341 I------------LGDLVYG 348 >gi|314936647|ref|ZP_07843994.1| YlmH protein [Staphylococcus hominis subsp. hominis C80] gi|313655266|gb|EFS19011.1| YlmH protein [Staphylococcus hominis subsp. hominis C80] Length = 224 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 NI + R+ V+ SR +++I ++RVKVN L++ + + D + + G Sbjct: 138 NIHHSTVSALRLDVVLKEMIRKSRSIAKQLIEKKRVKVNHTLIDSPDFQLQNNDLLSIQG 197 >gi|228475066|ref|ZP_04059794.1| YlmH protein [Staphylococcus hominis SK119] gi|228271051|gb|EEK12439.1| YlmH protein [Staphylococcus hominis SK119] Length = 224 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 29/60 (48%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 NI + R+ V+ SR +++I ++RVKVN L++ + + D + + G Sbjct: 138 NIHHSTVSALRLDVVLKEMIRKSRSIAKQLIEKKRVKVNHTLIDSPDFQLQNNDLLSIQG 197 >gi|170692348|ref|ZP_02883511.1| pseudouridine synthase, RluA family [Burkholderia graminis C4D1M] gi|170142778|gb|EDT10943.1| pseudouridine synthase, RluA family [Burkholderia graminis C4D1M] Length = 450 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 68/247 (27%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 +V + +R+ KV+AR SR ++ I +RV+++G + V IE Sbjct: 69 VVPDELAGERLDKVLARLFPEFSRNRLQSWIEAERVRIDGKPAK-IRQPVPLGATIELVP 127 Query: 62 --------VDGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 P + + T + + +V + + + L Sbjct: 128 DLLPEQLAFTPEPVPLEIVYEDDTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAA 187 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R V RLD T GL+++ L R + + + Sbjct: 188 GLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPEEGTIDA 247 Query: 164 GIVIQ-----------GICYGDMQVTL------DTQKGSNAWVTVGLREGKNREIKKVFE 206 I G + Q+ + L G+ +I+ Sbjct: 248 PIGRDPRERTRMAVVTGASGKPARTHFRRVDTAIWQRQPVTAIHCDLETGRTHQIRVHCA 307 Query: 207 FFNWKVN 213 + Sbjct: 308 HIGHPLL 314 >gi|304393319|ref|ZP_07375247.1| ribosomal large subunit pseudouridine synthase D [Ahrensia sp. R2A130] gi|303294326|gb|EFL88698.1| ribosomal large subunit pseudouridine synthase D [Ahrensia sp. R2A130] Length = 365 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 34/261 (13%), Positives = 75/261 (28%), Gaps = 53/261 (20%) Query: 6 IVQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 IV +RV K I+ SR V+ ++ Q V +NG L + + + D + Sbjct: 39 IVSHVDDGKRVDKFISANAPDDLSRARVQALVRQGNVTINGELPRGTSTKISNGDVVRFL 98 Query: 63 -----DGVP--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI----- 104 D +P + + + L +V + V L Sbjct: 99 MPPPEDAIPQPENIPLDILHEDDDLIVLIKPAGMVVHPAPGNWSGTLVNALLHHCDGNLS 158 Query: 105 ----FSRVISVGRLDINTEGLLLLTNDGGLARVLELP-----------------STQWLR 143 R V RLD +T G++++ L+ + Sbjct: 159 GIGGVKRPGIVHRLDKDTSGVMVVAKSYRAHIDLQEQFADHGRTGPLERAYWALAWGAPP 218 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQG-----------ICYGDMQVTLDTQKGSNAWVTVG 192 + + + + +++ +V +G + + + + + Sbjct: 219 RMKGKVDTLIGRHPTRRVQRAVVEEGAPDAKHAITHYEVVKRFEDAERSGEAMASLIECK 278 Query: 193 LREGKNREIKKVFEFFNWKVN 213 L G+ +I+ + Sbjct: 279 LETGRTHQIRVHLTHLGNPLL 299 >gi|261392924|emb|CAX50509.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D; rRNA pseudouridylate synthase D) [Neisseria meningitidis 8013] Length = 374 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|73974842|ref|XP_539199.2| PREDICTED: similar to tigger transposable element derived 5 [Canis familiaris] Length = 847 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/113 (11%), Positives = 31/113 (27%) Query: 241 LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 ++ + P L E P+ D R + + + S++ Sbjct: 113 IQRPVQPPRLREPFHVARRYRAHPSEAGLPAPSARHYPRRDPARSEPRAPLAHPTSRRGC 172 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + ++ +G + +G R+P+ P R + Sbjct: 173 PRSGRRAQDTGKAAGRDQGGRPPAGAAAGSGRPRGPRAPARPGAAQTARGPPR 225 >gi|332199691|gb|EGJ13766.1| hypothetical protein SPAR69_1602 [Streptococcus pneumoniae GA41317] Length = 256 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 188 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 235 >gi|332073997|gb|EGI84475.1| hypothetical protein SPAR68_1670 [Streptococcus pneumoniae GA41301] Length = 252 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|332072491|gb|EGI82974.1| hypothetical protein SPAR50_1662 [Streptococcus pneumoniae GA17570] gi|332200221|gb|EGJ14294.1| hypothetical protein SPAR93_1698 [Streptococcus pneumoniae GA47368] gi|332201088|gb|EGJ15159.1| hypothetical protein SPAR120_1594 [Streptococcus pneumoniae GA47901] Length = 252 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|307127872|ref|YP_003879903.1| YlmH protein [Streptococcus pneumoniae 670-6B] gi|306484934|gb|ADM91803.1| YlmH protein [Streptococcus pneumoniae 670-6B] gi|332072830|gb|EGI83311.1| hypothetical protein SPAR148_1591 [Streptococcus pneumoniae GA17545] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|303255983|ref|ZP_07342011.1| hypothetical protein CGSSpBS455_10815 [Streptococcus pneumoniae BS455] gi|302597042|gb|EFL64160.1| hypothetical protein CGSSpBS455_10815 [Streptococcus pneumoniae BS455] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|237650668|ref|ZP_04524920.1| YlmH protein [Streptococcus pneumoniae CCRI 1974] gi|237822427|ref|ZP_04598272.1| YlmH protein [Streptococcus pneumoniae CCRI 1974M2] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|225861490|ref|YP_002742999.1| YlmH protein [Streptococcus pneumoniae Taiwan19F-14] gi|225726507|gb|ACO22358.1| YlmH protein [Streptococcus pneumoniae Taiwan19F-14] gi|327389848|gb|EGE88193.1| hypothetical protein SPAR5_1539 [Streptococcus pneumoniae GA04375] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|168491455|ref|ZP_02715598.1| YlmH protein [Streptococcus pneumoniae CDC0288-04] gi|225857278|ref|YP_002738789.1| YlmH protein [Streptococcus pneumoniae P1031] gi|183574265|gb|EDT94793.1| YlmH protein [Streptococcus pneumoniae CDC0288-04] gi|225724661|gb|ACO20513.1| YlmH protein [Streptococcus pneumoniae P1031] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|149001946|ref|ZP_01826900.1| YlmH protein [Streptococcus pneumoniae SP14-BS69] gi|147759755|gb|EDK66745.1| YlmH protein [Streptococcus pneumoniae SP14-BS69] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|116516882|ref|YP_816931.1| YlmH protein [Streptococcus pneumoniae D39] gi|149021244|ref|ZP_01835490.1| YlmH protein [Streptococcus pneumoniae SP23-BS72] gi|168493563|ref|ZP_02717706.1| YlmH protein [Streptococcus pneumoniae CDC3059-06] gi|225855092|ref|YP_002736604.1| YlmH protein [Streptococcus pneumoniae JJA] gi|225859417|ref|YP_002740927.1| YlmH protein [Streptococcus pneumoniae 70585] gi|116077458|gb|ABJ55178.1| YlmH protein [Streptococcus pneumoniae D39] gi|147930345|gb|EDK81329.1| YlmH protein [Streptococcus pneumoniae SP23-BS72] gi|183576486|gb|EDT97014.1| YlmH protein [Streptococcus pneumoniae CDC3059-06] gi|225720470|gb|ACO16324.1| YlmH protein [Streptococcus pneumoniae 70585] gi|225724266|gb|ACO20119.1| YlmH protein [Streptococcus pneumoniae JJA] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|15903549|ref|NP_359099.1| hypothetical protein spr1506 [Streptococcus pneumoniae R6] gi|15459167|gb|AAL00310.1| Conserved hypothetical protein [Streptococcus pneumoniae R6] Length = 283 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 206 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 253 >gi|15901497|ref|NP_346101.1| ylmH protein [Streptococcus pneumoniae TIGR4] gi|111658558|ref|ZP_01409221.1| hypothetical protein SpneT_02000314 [Streptococcus pneumoniae TIGR4] gi|148984099|ref|ZP_01817394.1| ylmH protein [Streptococcus pneumoniae SP3-BS71] gi|148988709|ref|ZP_01820142.1| ylmH protein [Streptococcus pneumoniae SP6-BS73] gi|148993766|ref|ZP_01823193.1| ylmH protein [Streptococcus pneumoniae SP9-BS68] gi|148997713|ref|ZP_01825277.1| ylmH protein [Streptococcus pneumoniae SP11-BS70] gi|149006731|ref|ZP_01830417.1| ylmH protein [Streptococcus pneumoniae SP18-BS74] gi|149011476|ref|ZP_01832723.1| ylmH protein [Streptococcus pneumoniae SP19-BS75] gi|168483468|ref|ZP_02708420.1| YlmH protein [Streptococcus pneumoniae CDC1873-00] gi|168486969|ref|ZP_02711477.1| YlmH protein [Streptococcus pneumoniae CDC1087-00] gi|168488624|ref|ZP_02712823.1| YlmH protein [Streptococcus pneumoniae SP195] gi|168575149|ref|ZP_02721112.1| YlmH protein [Streptococcus pneumoniae MLV-016] gi|182684604|ref|YP_001836351.1| ylmH protein [Streptococcus pneumoniae CGSP14] gi|194398742|ref|YP_002038276.1| YlmH protein [Streptococcus pneumoniae G54] gi|221232399|ref|YP_002511552.1| hypothetical protein SPN23F_16630 [Streptococcus pneumoniae ATCC 700669] gi|298230127|ref|ZP_06963808.1| hypothetical protein SpneCMD_05606 [Streptococcus pneumoniae str. Canada MDR_19F] gi|298254434|ref|ZP_06978020.1| hypothetical protein SpneCM_02315 [Streptococcus pneumoniae str. Canada MDR_19A] gi|298503406|ref|YP_003725346.1| ribosomal protein S4e [Streptococcus pneumoniae TCH8431/19A] gi|303258591|ref|ZP_07344571.1| ylmH protein [Streptococcus pneumoniae SP-BS293] gi|303262678|ref|ZP_07348618.1| ylmH protein [Streptococcus pneumoniae SP14-BS292] gi|303263618|ref|ZP_07349540.1| ylmH protein [Streptococcus pneumoniae BS397] gi|303266379|ref|ZP_07352268.1| ylmH protein [Streptococcus pneumoniae BS457] gi|303268252|ref|ZP_07354050.1| ylmH protein [Streptococcus pneumoniae BS458] gi|307068287|ref|YP_003877253.1| hypothetical protein SPAP_1667 [Streptococcus pneumoniae AP200] gi|4009474|gb|AAC95444.1| YlmH [Streptococcus pneumoniae G54] gi|14973153|gb|AAK75741.1| ylmH protein [Streptococcus pneumoniae TIGR4] gi|147756212|gb|EDK63254.1| ylmH protein [Streptococcus pneumoniae SP11-BS70] gi|147761646|gb|EDK68610.1| ylmH protein [Streptococcus pneumoniae SP18-BS74] gi|147764466|gb|EDK71397.1| ylmH protein [Streptococcus pneumoniae SP19-BS75] gi|147923388|gb|EDK74501.1| ylmH protein [Streptococcus pneumoniae SP3-BS71] gi|147925910|gb|EDK76985.1| ylmH protein [Streptococcus pneumoniae SP6-BS73] gi|147927722|gb|EDK78746.1| ylmH protein [Streptococcus pneumoniae SP9-BS68] gi|172043115|gb|EDT51161.1| YlmH protein [Streptococcus pneumoniae CDC1873-00] gi|182629938|gb|ACB90886.1| ylmH protein [Streptococcus pneumoniae CGSP14] gi|183570103|gb|EDT90631.1| YlmH protein [Streptococcus pneumoniae CDC1087-00] gi|183572630|gb|EDT93158.1| YlmH protein [Streptococcus pneumoniae SP195] gi|183578732|gb|EDT99260.1| YlmH protein [Streptococcus pneumoniae MLV-016] gi|194358409|gb|ACF56857.1| YlmH protein [Streptococcus pneumoniae G54] gi|220674860|emb|CAR69435.1| conserved hypothetical protein [Streptococcus pneumoniae ATCC 700669] gi|298239001|gb|ADI70132.1| ribosomal protein S4e [Streptococcus pneumoniae TCH8431/19A] gi|301794643|emb|CBW37094.1| conserved hypothetical protein [Streptococcus pneumoniae INV104] gi|301800473|emb|CBW33112.1| conserved hypothetical protein [Streptococcus pneumoniae OXC141] gi|301802364|emb|CBW35118.1| conserved hypothetical protein [Streptococcus pneumoniae INV200] gi|302636234|gb|EFL66729.1| ylmH protein [Streptococcus pneumoniae SP14-BS292] gi|302640092|gb|EFL70547.1| ylmH protein [Streptococcus pneumoniae SP-BS293] gi|302642203|gb|EFL72552.1| ylmH protein [Streptococcus pneumoniae BS458] gi|302644079|gb|EFL74337.1| ylmH protein [Streptococcus pneumoniae BS457] gi|302646656|gb|EFL76881.1| ylmH protein [Streptococcus pneumoniae BS397] gi|306409824|gb|ADM85251.1| hypothetical protein SPAP_1667 [Streptococcus pneumoniae AP200] Length = 261 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYTVQVGDLISV 231 >gi|328950026|ref|YP_004367361.1| pseudouridine synthase, RluA family [Marinithermus hydrothermalis DSM 14884] gi|328450350|gb|AEB11251.1| pseudouridine synthase, RluA family [Marinithermus hydrothermalis DSM 14884] Length = 318 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 20/239 (8%), Positives = 59/239 (24%), Gaps = 35/239 (14%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVM-------------- 55 + R+ + +A ASR + + IA V+V+G+ + + + Sbjct: 9 SAEGVRLDQAVAERTGASRAKAQAWIAAGYVRVDGVPVTKPGKRLKGETVEVVAPPDPPP 68 Query: 56 ------STDHIEVDGV-PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 I + + + + + P T + + Sbjct: 69 RVAPEQRDLEILYEDEDMVVVNKPPGMATHPAPGLTSGTLVNALMGRYAQAAVEGEPPEQ 128 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + G + + G + + + + + + + + + I Sbjct: 129 VRPGIVHRLDRDTSGVIVVGRHDAAVRRLADAFKNRFVFKRYVAITVGQPPEMTLVAPIG 188 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGL--------------REGKNREIKKVFEFFNWKVN 213 ++ + A L G+ +I+ + + Sbjct: 189 RHPVERHKMHVSGVNARYAETDFSLLATVDGHALVDARPHTGRTHQIRVHLKHLYAPIL 247 >gi|218441671|ref|YP_002380000.1| photosystem II S4 domain protein [Cyanothece sp. PCC 7424] gi|218174399|gb|ACK73132.1| photosystem II S4 domain protein [Cyanothece sp. PCC 7424] Length = 259 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 2/65 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K + R+ IA AG SR ++ I+ V+VN + + N+ S D I Sbjct: 172 PKKKEMTTVEASMRLD-AIASAGFGMSRSKMAEAISSGDVRVNWKEITSTSHNIQSGDLI 230 Query: 61 EVDGV 65 V G Sbjct: 231 SVRGK 235 >gi|240137515|ref|YP_002961986.1| ribosomal large subunit pseudouridine synthase D (Pseudouridylate synthase) (Uracil hydrolyase) [Methylobacterium extorquens AM1] gi|240007483|gb|ACS38709.1| ribosomal large subunit pseudouridine synthase D (Pseudouridylate synthase) (Uracil hydrolyase) [Methylobacterium extorquens AM1] Length = 330 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 30/56 (53%), Gaps = 1/56 (1%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 ++ E P+R+ +V+AR SR ++ ++ + V+ +GI++ A V + I Sbjct: 12 VLDEGTVPERLDRVLARVFDDLSRARLQGLVREGLVRCDGIVVRDPARKVGAGCRI 67 >gi|270292377|ref|ZP_06198588.1| YlmH protein [Streptococcus sp. M143] gi|270278356|gb|EFA24202.1| YlmH protein [Streptococcus sp. M143] Length = 262 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/48 (27%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ A SR++ ++I ++ V+VN +E+ V D I V Sbjct: 185 RLDALLSSALKLSRKQAGQLIEKKSVQVNYHPIEKLDYLVAVGDLISV 232 >gi|239832765|ref|ZP_04681094.1| pseudouridine synthase, RluA family [Ochrobactrum intermedium LMG 3301] gi|239825032|gb|EEQ96600.1| pseudouridine synthase, RluA family [Ochrobactrum intermedium LMG 3301] Length = 402 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 34/258 (13%), Positives = 73/258 (28%), Gaps = 52/258 (20%) Query: 8 QENFTPQRVSKVIARAGI--ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + T +R+ + +A A SR V+ +IA+ V ++G+ + I V Sbjct: 75 DSDATGKRLDQWLAAALGPDLSRSRVQSLIAEGHVTIDGVPARETKQKLREGMTIAVVLP 134 Query: 63 DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF------ 105 + P + + + + +V + + V + Sbjct: 135 EPEPAEPIAENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCGDSLSGI 194 Query: 106 ---SRVISVGRLDINTEGLLLLTNDGGLARVLELP--------------------STQWL 142 R V RLD +T G++++ + R L T+ Sbjct: 195 GGIRRPGIVHRLDKDTSGVMVVAKNDLSHRHLSEQFADHGRTGDLERAYLALVWGMTERP 254 Query: 143 RVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-------AWVTVGLRE 195 + Y G+ +D+ + + G + V L Sbjct: 255 QGYIDAHLGRSHRDRTKQAVVNEERDDARHAITHYATVEKFGPREDATALASLVECRLET 314 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 315 GRTHQIRVHMAHIGHPLV 332 >gi|260587701|ref|ZP_05853614.1| RNA-binding S4 [Blautia hansenii DSM 20583] gi|331084008|ref|ZP_08333115.1| hypothetical protein HMPREF0992_02039 [Lachnospiraceae bacterium 6_1_63FAA] gi|260541966|gb|EEX22535.1| RNA-binding S4 [Blautia hansenii DSM 20583] gi|330402370|gb|EGG81940.1| hypothetical protein HMPREF0992_02039 [Lachnospiraceae bacterium 6_1_63FAA] Length = 250 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 22/64 (34%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + R+ VI A SR + I +V +NG + + D + Sbjct: 162 PKREEISGTVASPRLDSVIGLAFRTSRSSMISYIESGKVFINGKSVVSNGYVLKEGDIVS 221 Query: 62 VDGV 65 V G Sbjct: 222 VRGK 225 >gi|254418198|ref|ZP_05031922.1| hemolysin A [Brevundimonas sp. BAL3] gi|196184375|gb|EDX79351.1| hemolysin A [Brevundimonas sp. BAL3] Length = 241 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 2/73 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-EVDGVPLRKAE 71 R+ +++ G+A SR + I V V+G + + V + I VD Sbjct: 1 MRLDQLLVTRGLAESRARAKAAIEAGGVTVDGTPAKSGSQTVGANAEIGYVDAHRWVGRG 60 Query: 72 RTRLWLYHKPIGL 84 +L + Sbjct: 61 ALKLDHALTVWPV 73 >gi|187923831|ref|YP_001895473.1| pseudouridine synthase [Burkholderia phytofirmans PsJN] gi|187715025|gb|ACD16249.1| pseudouridine synthase, RluA family [Burkholderia phytofirmans PsJN] Length = 431 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 37/247 (14%), Positives = 69/247 (27%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 +V + +R+ KV+AR SR ++ I +RV+++G + V IE Sbjct: 69 VVPDELAGERLDKVLARVFPEFSRNRLQSWIEAERVRIDGKPAK-IRQPVPLGATIELVP 127 Query: 62 --------VDGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 P + + T + + +V + + + L Sbjct: 128 DLLPEQLAFTPEPVPLEIVYEDDTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAA 187 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R V RLD T GL+++ L R + + + Sbjct: 188 GLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPEEGTIDA 247 Query: 164 GIVIQ-GICYGDMQVTLDTQKGSNAWVT-----------VG-----LREGKNREIKKVFE 206 I VT + K + V L G+ +I+ Sbjct: 248 PIGRDPRERTRMAVVTSASGKPARTHFRRVDSAIWQRQPVTAIHCDLETGRTHQIRVHCA 307 Query: 207 FFNWKVN 213 + Sbjct: 308 HIGHPLL 314 >gi|108563155|ref|YP_627471.1| hypothetical protein HPAG1_0730 [Helicobacter pylori HPAG1] gi|107836928|gb|ABF84797.1| pseudouridine synthase D [Helicobacter pylori HPAG1] Length = 327 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 45/310 (14%), Positives = 92/310 (29%), Gaps = 53/310 (17%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE------------- 61 R+ + +A+ S+ +V +I + V +++ + + D I Sbjct: 13 RIDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPQITPKPLKK 72 Query: 62 -VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RVISV 111 +D E L + +KP LV + T+ D L R V Sbjct: 73 GLDLEIEVIFEDEDLLVLNKPPNLVVHKAPSVKEPTLVDWLEFKNYELSNLGLKERYGIV 132 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------VRFHGQVDQDKLNLLKKG 164 RLD +T G +++ + L + ++ + Sbjct: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLARNPN 192 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVG-----------LREGKNREIKKVFEFFNWKVN 213 ++ I + S + L G+ +I+ Sbjct: 193 NRLKMIALKAAKKEKIRYSKSEFTSLLTSQNGMDLIGAKLFTGRTHQIRAHL-------E 245 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPN 273 L R G L G + + K+ +R L +L+E + + L++D Sbjct: 246 YLNRHIIG----DNLY-GLNQALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLE 300 Query: 274 IISEVPDDFT 283 + +V D + Sbjct: 301 YLKKVFDKES 310 >gi|325202501|gb|ADY97955.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis M01-240149] gi|325207748|gb|ADZ03200.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis NZ-05/33] Length = 374 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLSAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|257067034|ref|YP_003153290.1| 30S ribosomal protein S4 [Anaerococcus prevotii DSM 20548] gi|256798914|gb|ACV29569.1| ribosomal protein S4 [Anaerococcus prevotii DSM 20548] Length = 197 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R+G+A +RRE +++ + VNG ++ + V D IEV Sbjct: 88 RLDNIAFRSGLARTRREARQIVTHGHLTVNGKQVDIPSYKVSEGDVIEV 136 >gi|148559255|ref|YP_001258457.1| hemolysin A [Brucella ovis ATCC 25840] gi|148370512|gb|ABQ60491.1| hemolysin A [Brucella ovis ATCC 25840] Length = 253 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V+ + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVVRDAALAVDD 61 >gi|115522842|ref|YP_779753.1| RluA family pseudouridine synthase [Rhodopseudomonas palustris BisA53] gi|115516789|gb|ABJ04773.1| ribosomal large subunit pseudouridine synthase D [Rhodopseudomonas palustris BisA53] Length = 327 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 40/247 (16%), Positives = 73/247 (29%), Gaps = 48/247 (19%) Query: 14 QRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 R+ +V+A RA SR ++ +I RV + L A +V + D I +D Sbjct: 13 VRLDRVLALRAPELSRSRLKALILAGRVAIGETPLCDPAYHVGAGDTITIDVPPAIAAEP 72 Query: 64 -GVPLRKAERT----RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---------SRVI 109 G P+ + + +V + + + V + R Sbjct: 73 AGEPIALDIVHEDDDIIVIDKPRGLVVHPAAGHETGTLVNALIAHCGASLSGIGGVRRPG 132 Query: 110 SVGRLDINTEGLLLLTND-----------------GGLARVLELPSTQWLRVYRVRFHGQ 152 V RLD +T GL++ + G L R Sbjct: 133 IVHRLDKDTTGLMVAAKNDRAHQSLSAQFADHGRTGALRRGYYAFVWGVPNRPHGTIDAP 192 Query: 153 VDQDKLNLLKKGIVIQGICYGDMQVTLDT------QKGSNAWVTVGLREGKNREIKKVFE 206 +D+ N +K V +G + K + + L G+ +I+ Sbjct: 193 IDRHPHNR-EKMAVREGGRDAITHWEVLETFAGRSGKPVASLIACQLETGRTHQIRVHLA 251 Query: 207 FFNWKVN 213 + Sbjct: 252 HIGHPLL 258 >gi|329902613|ref|ZP_08273174.1| Ribosomal large subunit pseudouridine synthase D [Oxalobacteraceae bacterium IMCC9480] gi|327548721|gb|EGF33364.1| Ribosomal large subunit pseudouridine synthase D [Oxalobacteraceae bacterium IMCC9480] Length = 355 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 32/236 (13%), Positives = 70/236 (29%), Gaps = 39/236 (16%) Query: 13 PQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ KV+AR SR +++ I V V+G + + V +HI V Sbjct: 48 GDRLDKVVARLVPQFSRSRMQQWIDDGFVTVDGKVGRT-RMTVYGDEHIVVLPQAAPEDT 106 Query: 67 ----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISV 111 + + + + +V S + + L R V Sbjct: 107 AFAPEEMALNIVYEDEAIIVVNKPAGLVVHPGSGNWSGTLLNGLLHYWPALIGVPRAGIV 166 Query: 112 GRLDINTEGLLLLTNDGGLARVLELP------STQWLRVYRVRFHGQVDQD-----KLNL 160 RLD +T GL+++ + L ++ + + D Sbjct: 167 HRLDKDTSGLMVVAKTLEVHTDLVRQLAARTVKREYFALVWGTPNLSGTIDASMGRHPRD 226 Query: 161 LKKGIVIQGICYGDMQVTLDTQK------GSNAWVTVGLREGKNREIKKVFEFFNW 210 + V++ + + + + + L G+ +I+ + + Sbjct: 227 RIRMAVLESMSAKPAITHFERIESGLLDRRPVSLMRCRLETGRTHQIRVHMQSIGF 282 >gi|325206453|gb|ADZ01906.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis M04-240196] Length = 374 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLSAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|302527747|ref|ZP_07280089.1| predicted protein [Streptomyces sp. AA4] gi|302436642|gb|EFL08458.1| predicted protein [Streptomyces sp. AA4] Length = 368 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 14/110 (12%), Positives = 30/110 (27%), Gaps = 4/110 (3%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNS-SQKNGLSKQKKL 301 + LG +E ++ + R + + G + Sbjct: 262 QPLGTGAPRRQNSQPMPQPRPAEAPPQNHAQPPARGAQPPARPVRAPQPRPAGPPHGRAA 321 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 +P R + + + D R P+ P +R+ RR + Sbjct: 322 GSPPPRPSNQAPAGPPPEVSPG---DRPSRRTPGASRPTPPGRRNARRNA 368 Score = 43.6 bits (101), Expect = 0.047, Method: Composition-based stats. Identities = 6/105 (5%), Positives = 13/105 (12%), Gaps = 2/105 (1%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 P + + R + + + + P Sbjct: 230 ARDAVPPARRIGPPEAPDASGRPVRPPRRQNSQPLGTGAPRRQNSQPMPQPRPAEAPPQN 289 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R + S A Sbjct: 290 HAQPPARGAQPPARPVRAPQP--RPAGPPHGRAAGSPPPRPSNQA 332 Score = 40.2 bits (92), Expect = 0.57, Method: Composition-based stats. Identities = 11/112 (9%), Positives = 22/112 (19%), Gaps = 2/112 (1%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRP--NIISEVPDDFTRMKKNSSQKNGLSKQKK 300 E+ G E S R + + + + Sbjct: 203 EEPGEARPEPDGAAPRGRAGSLPPRPGARDAVPPARRIGPPEAPDASGRPVRPPRRQNSQ 262 Query: 301 LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R S + + Q + P+ P + R + Sbjct: 263 PLGTGAPRRQNSQPMPQPRPAEAPPQNHAQPPARGAQPPARPVRAPQPRPAG 314 >gi|18311359|ref|NP_563293.1| 30S ribosomal protein S4 [Clostridium perfringens str. 13] gi|110801306|ref|YP_697066.1| 30S ribosomal protein S4 [Clostridium perfringens ATCC 13124] gi|168215204|ref|ZP_02640829.1| ribosomal protein S4 [Clostridium perfringens CPE str. F4969] gi|168216659|ref|ZP_02642284.1| ribosomal protein S4 [Clostridium perfringens NCTC 8239] gi|182626935|ref|ZP_02954668.1| ribosomal protein S4 [Clostridium perfringens D str. JGS1721] gi|26399584|sp|Q8XHV0|RS4A_CLOPE RecName: Full=30S ribosomal protein S4 A gi|123049591|sp|Q0TMS4|RS4A_CLOP1 RecName: Full=30S ribosomal protein S4 A gi|18146043|dbj|BAB82083.1| 30S ribosomal protein S4 [Clostridium perfringens str. 13] gi|110675953|gb|ABG84940.1| 30S ribosomal protein S4 [Clostridium perfringens ATCC 13124] gi|170713408|gb|EDT25590.1| ribosomal protein S4 [Clostridium perfringens CPE str. F4969] gi|177907725|gb|EDT70340.1| ribosomal protein S4 [Clostridium perfringens D str. JGS1721] gi|182381248|gb|EDT78727.1| ribosomal protein S4 [Clostridium perfringens NCTC 8239] Length = 206 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G SR E +++ VNG ++ A+ V D I V Sbjct: 98 MRLDNVVYRLGYGASRTEARQLVNHGHFLVNGKKVDIASFKVSVNDVITV 147 >gi|302387565|ref|YP_003823387.1| hemolysin A [Clostridium saccharolyticum WM1] gi|302198193|gb|ADL05764.1| hemolysin A [Clostridium saccharolyticum WM1] Length = 288 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 25/178 (14%), Positives = 54/178 (30%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + G+A SR + + +I V V+G ++A +IEV G LR R Sbjct: 3 ERLDVLLVKLGLAESREKAKAVIMSGIVYVDGEKEDKAGTTFEENANIEVRGNTLRYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + ++ G + + L Sbjct: 63 GGLKLEKAMTQFGLSLEGRVCMDVGSST-GGFTDCMLQNGAAKVYAVDVGHGQLAWKLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V D + + + + G ++ L + + Sbjct: 122 DKRVVCMEKTNIRYVTPEDLADPIEFSSIDVSFISLTKVLGPVKALLTDEGEVVCLIK 179 >gi|269124017|ref|YP_003306594.1| RNA-binding S4 domain-containing protein [Streptobacillus moniliformis DSM 12112] gi|268315343|gb|ACZ01717.1| RNA-binding S4 domain protein [Streptobacillus moniliformis DSM 12112] Length = 245 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 11/76 (14%), Positives = 25/76 (32%), Gaps = 2/76 (2%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--DGVPLRKAER 72 R+ I+ SR + ++I V+++ + + + D + + G L E Sbjct: 170 RLDNFISAITNLSRNKANQLIESGLVQIDYEICKEKDRKIYQNDILSIRKYGKYLISEEL 229 Query: 73 TRLWLYHKPIGLVTTH 88 K + Sbjct: 230 EYSKKGKKRWIIKKYD 245 >gi|110801849|ref|YP_699635.1| 30S ribosomal protein S4 [Clostridium perfringens SM101] gi|122956505|sp|Q0SQH2|RS4A_CLOPS RecName: Full=30S ribosomal protein S4 A gi|110682350|gb|ABG85720.1| 30S ribosomal protein S4 [Clostridium perfringens SM101] Length = 206 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G SR E +++ VNG ++ A+ V D I V Sbjct: 98 MRLDNVVYRLGYGASRTEARQLVNHGHFLVNGKKVDIASFKVSVNDVITV 147 >gi|167757067|ref|ZP_02429194.1| hypothetical protein CLORAM_02616 [Clostridium ramosum DSM 1402] gi|167703242|gb|EDS17821.1| hypothetical protein CLORAM_02616 [Clostridium ramosum DSM 1402] Length = 279 Score = 50.9 bits (120), Expect = 3e-04, Method: Composition-based stats. Identities = 34/209 (16%), Positives = 69/209 (33%), Gaps = 24/209 (11%) Query: 29 REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR------KAERTRLWLYHKPI 82 + V+ ++ ++V VNG ++ + ++ D I VD P E L + +KP Sbjct: 23 KNVKNLLKFKQVSVNGQVISQFDYSLKRDDEIVVDRNPNNNSSLDIIYEDRELIVINKPA 82 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFS------RVISVGRLDINTEGLLLLT------NDGGL 130 GL++ + T + + RV V RLD T G+LL N Sbjct: 83 GLLSMAGGNEKEKTAYHLVGEYLKSKNKNARVFIVHRLDKETSGVLLFAKNEIIKNKLQN 142 Query: 131 ARVLELPSTQWLRVYRVRFHGQVD------QDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 + +L + + + + + + + Sbjct: 143 NWNDIVYKRGYLAIIEGKLKKKHGTIKNHLDESKTQMVYIANNGKGKLAITNYKVLKESR 202 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N+ + V L G+ +I+ + + Sbjct: 203 YNSLIEVFLETGRKNQIRVHMQSLGHSIV 231 >gi|325069012|ref|ZP_08127685.1| hemolysin A [Actinomyces oris K20] Length = 86 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G+A SR +IA V ++G ++ + A V IE+ Sbjct: 5 IRIDSELVRRGLARSRTHAATLIADGHVTLDGEVVTKPARQVNPAQAIEI 54 >gi|289644379|ref|ZP_06476461.1| delta-aminolevulinic acid dehydratase [Frankia symbiont of Datisca glomerata] gi|289505817|gb|EFD26834.1| delta-aminolevulinic acid dehydratase [Frankia symbiont of Datisca glomerata] Length = 986 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 17/139 (12%), Positives = 27/139 (19%), Gaps = 18/139 (12%) Query: 228 LLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM-- 285 L G R R+ G + + P+ R Sbjct: 485 LAPGRHRH------RDPGGRPEGPRLERRRRHRVPHGTGRAAASPDPGGAQGRPGGRGGV 538 Query: 286 --------KKNSSQKNGLSKQKKLATPVHR--RNLASNVWMAKGIHSSFLSDSGQREENH 335 ++ + P R R A G Sbjct: 539 HLLLDRAQPGRDRRQAARDHGDRGDRPADRGHRGRAGPAGRRPGDRGVDPVAGAGAGRLR 598 Query: 336 RRSPSFPSKRSLRRTSAKK 354 RR+P + R A + Sbjct: 599 RRAPGGTGQGRPARGPAAQ 617 >gi|225018395|ref|ZP_03707587.1| hypothetical protein CLOSTMETH_02342 [Clostridium methylpentosum DSM 5476] gi|224948813|gb|EEG30022.1| hypothetical protein CLOSTMETH_02342 [Clostridium methylpentosum DSM 5476] Length = 308 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 66/243 (27%), Gaps = 38/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 V+ +R+ K + +R ++++I ++V+ G L + + + + I V Sbjct: 9 VEPEQAGERLDKFLPTVLPGYTRSALQKLIEGEQVRCEGEPLNK-KHKLRAGETISVTIP 67 Query: 63 DGVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D PL + L + +V + + V L + + Sbjct: 68 DPEPLDVLPEEIPLDILYEDSDLLVVNKPKHMVVHPAAGNYTGTLVNALLHHCRGSLSGI 127 Query: 112 G----------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF 149 + D GL + R E Sbjct: 128 NGVIRPGIVHRIDKDTSGLLIVAKNDQAHVGLAAQIKEHSFDRTYEAVVYGKFVESTGTV 187 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + K + + + + G + + L G+ +I+ Sbjct: 188 DKPIGRSEKDRKKMCVTTKNSKPAVTHYEVLGEYGQFTHLRLRLETGRTHQIRVHMASIG 247 Query: 210 WKV 212 V Sbjct: 248 HPV 250 >gi|71083312|ref|YP_266031.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1062] gi|71062425|gb|AAZ21428.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1062] Length = 326 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 39/254 (15%), Positives = 85/254 (33%), Gaps = 43/254 (16%) Query: 2 KDKN-IVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 K+ N IV E+ R+ I R + SR ++ +I ++++K+N ++ + V+S D Sbjct: 3 KNINLIVGEDENNLRLDVFINKRENLISRTRIKNLILKEKLKINDQIINSPSKKVLSGDE 62 Query: 60 IE-------------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 I + E L + +KP G++ + T+ + L Sbjct: 63 INLQIPEPKEASLKPYNFKLQIVYEDDDLLIINKPAGIIMHPGAGNYDETIVNALMHYNK 122 Query: 107 RVISV----------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLR 143 +S R+D +T GL+++ + L LR Sbjct: 123 DSLSTIGDELRPGIVHRIDKDTSGLIVIAKNNETHENLSHQFSEHTITRVYQLLIWGKLR 182 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGIC-----YGDMQVTLDTQKGSNAWVTVGLREGKN 198 + + + N + Y +++ + + + + V L G+ Sbjct: 183 PSSGKIDTFITRSSKNRQMMEVSNSKGKRAITNYKTIEIFENDKTPTLSLVECRLETGRT 242 Query: 199 REIKKVFEFFNWKV 212 +I+ + Sbjct: 243 HQIRVHMTHMGNSI 256 >gi|308388890|gb|ADO31210.1| putative ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis alpha710] gi|325136074|gb|EGC58684.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis M0579] gi|325139918|gb|EGC62448.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis CU385] Length = 374 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLTHSYIECSLETGRTHQIRVHMREANHP 268 >gi|302874813|ref|YP_003843446.1| hemolysin A [Clostridium cellulovorans 743B] gi|302577670|gb|ADL51682.1| hemolysin A [Clostridium cellulovorans 743B] Length = 269 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 1/77 (1%) Query: 10 NFTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + +R+ ++ G+ S RE I + + VNG +L++A + IE G + Sbjct: 2 SKEKERLDVLLVEKGLFSSREKARAAIMSRDILVNGQILDKAGEKIDVNSEIEYKGQEMP 61 Query: 69 KAERTRLWLYHKPIGLV 85 R L Sbjct: 62 YVSRGGYKLEKAMKNFP 78 >gi|257064364|ref|YP_003144036.1| hemolysin A [Slackia heliotrinireducens DSM 20476] gi|256792017|gb|ACV22687.1| hemolysin A [Slackia heliotrinireducens DSM 20476] Length = 267 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 1/52 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ + G+ SR + + IA V VNG + +A++ V D IEV G Sbjct: 1 MRLDVALVERGLEPSRAKAKASIAAGLVFVNGRNVTKASLGVDDGDAIEVQG 52 >gi|222153933|ref|YP_002563110.1| 30S ribosomal protein S4 [Streptococcus uberis 0140J] gi|254764614|sp|B9DWC7|RS4_STRU0 RecName: Full=30S ribosomal protein S4 gi|222114746|emb|CAR43894.1| 30S ribosomal protein S4 [Streptococcus uberis 0140J] Length = 203 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVEPGQVISV 142 >gi|168205206|ref|ZP_02631211.1| ribosomal protein S4 [Clostridium perfringens E str. JGS1987] gi|169347013|ref|ZP_02865955.1| ribosomal protein S4 [Clostridium perfringens C str. JGS1495] gi|169296696|gb|EDS78825.1| ribosomal protein S4 [Clostridium perfringens C str. JGS1495] gi|170663240|gb|EDT15923.1| ribosomal protein S4 [Clostridium perfringens E str. JGS1987] Length = 206 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G SR E +++ VNG ++ A+ V D + V Sbjct: 98 MRLDNVVYRLGYGASRTEARQLVNHGHFLVNGKKVDIASFKVSVNDVVTV 147 >gi|242373477|ref|ZP_04819051.1| ribosomal protein S4e [Staphylococcus epidermidis M23864:W1] gi|242348840|gb|EES40442.1| ribosomal protein S4e [Staphylococcus epidermidis M23864:W1] Length = 259 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 27/60 (45%) Query: 5 NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I + R+ V+ SR +++I ++RVKVN +++ + D + + G Sbjct: 173 KIQSATVSALRLDVVLKDMIRKSRNIAKQLIEKKRVKVNHTIVDTPDFQLEKNDLLSIQG 232 >gi|89093809|ref|ZP_01166755.1| hypothetical protein MED92_04904 [Oceanospirillum sp. MED92] gi|89081939|gb|EAR61165.1| hypothetical protein MED92_04904 [Oceanospirillum sp. MED92] Length = 313 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 32/217 (14%), Positives = 68/217 (31%), Gaps = 33/217 (15%) Query: 30 EVERMIAQQRVKVNGILLER---------AAVNVMSTDHIEVDGVPLRKAERTRLWLYHK 80 +V+R +A V++NG + +++ +VD E L +K Sbjct: 33 QVDRWLAAGMVRLNGQPIIEDCVCGKGDRLELDIPDHQEAQVDDNWQLVWESDELMAINK 92 Query: 81 PIGLVTTHSDPDGRSTVFDNLPSIFSRVISV--GRLDINTEGLLLLTNDGGLARVLELPS 138 P L + + + T+ + + RLD T GL+LL + R + Sbjct: 93 PPLLPVSRTTRNLYMTLISLVRRQTPYPDAQLLHRLDTETSGLILLAKNREADRKWKPQL 152 Query: 139 TQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ-----------------GICY---GDMQVT 178 + +R + + +LL + + + Y + Sbjct: 153 AKLIRRKVYQAWVHGSPNWDHLLMECELSEKAGSDIRSQVYVVEPQSDSQYLKPRPSKTE 212 Query: 179 LDTQK--GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + GS + + L G+ +I+ + Sbjct: 213 FLVLQRAGSKSLIQCELFTGRKHQIRAQLAHLGHPII 249 >gi|319781137|ref|YP_004140613.1| pseudouridine synthase, RluA family [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317167025|gb|ADV10563.1| pseudouridine synthase, RluA family [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 346 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 29/261 (11%), Positives = 66/261 (25%), Gaps = 55/261 (21%) Query: 6 IVQENFTPQRVSKVIA-RAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 + + QR+ + +A R G SR V+ +I Q V V+G L++ + + + V Sbjct: 20 VADADAAGQRLDQWLAARLGPDMSRSRVQMLIRQGAVSVDGKLIDETKRKMAPGESVSVT 79 Query: 63 ---------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 G + + + + +V + + V + + Sbjct: 80 MPEPEPAEPQGENIALDVLYEDDELIVINKPAGLVVHPGAGNWTGTLVNALIHHCGDSLS 139 Query: 110 SVGRLDIN-------------------------------------TEGLLLLTNDGGLAR 132 +G + L G+ + Sbjct: 140 GIGGVRRPGIVHRLDKETSGVMVVAKTDRAHKSLSEAFADHGLTGDLERAYLALVWGIPQ 199 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 L R V + + + + + + + + V Sbjct: 200 RPTGRVDAPLGRAADRVRRAVVPEGRDDARHAVTHFAVQERFGESQQEFATA--SMVECR 257 Query: 193 LREGKNREIKKVFEFFNWKVN 213 L G+ +I+ V Sbjct: 258 LETGRTHQIRVHMAHIGHPVI 278 >gi|307824793|ref|ZP_07655016.1| pseudouridine synthase, RluA family [Methylobacter tundripaludum SV96] gi|307734151|gb|EFO05005.1| pseudouridine synthase, RluA family [Methylobacter tundripaludum SV96] Length = 314 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 35/232 (15%), Positives = 74/232 (31%), Gaps = 32/232 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP----- 66 R+ +V+A SR +++ + RV+VNG+ L+ ++ + I +D Sbjct: 14 GMRLDQVLAELFADYSRSKLQSWVKSGRVQVNGLTLK-PRDKLVGGETIALDAEAEIVIT 72 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI-----FSRVISVG 112 + + + L + +V + + L R V Sbjct: 73 AEPEPIPLEIIFEDESLLIVNKPAGLVVHPAIGNWNGTLLNALLNHDSSLETLPRAGIVH 132 Query: 113 RLDINTEGLLLLTNDGGLAR------VLELPSTQWLRVYRVRFHGQVDQD-----KLNLL 161 R+D T GLL++ + ++L + R R D Sbjct: 133 RIDKETSGLLMVAKTLQAHNSLTQQLQDRDITREYLAITRGRMTAGGTVDEPIGRHPTDR 192 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K+ V + + + + + V V L G+ +I+ + + Sbjct: 193 KRYAVRENGKHAVTHYRVGQRFTRHTLVQVKLETGRTHQIRVHMAHIRFPLL 244 >gi|261377888|ref|ZP_05982461.1| ribosomal large subunit pseudouridine synthase D [Neisseria cinerea ATCC 14685] gi|269145743|gb|EEZ72161.1| ribosomal large subunit pseudouridine synthase D [Neisseria cinerea ATCC 14685] Length = 374 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIREGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWSGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLQAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|15676602|ref|NP_273746.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis MC58] gi|34395832|sp|Q9K0B0|RLUD_NEIMB RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|7225933|gb|AAF41121.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis MC58] gi|316983681|gb|EFV62662.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis H44/76] gi|325200611|gb|ADY96066.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis H44/76] Length = 374 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLTHSYIECSLETGRTHQIRVHMREANHP 268 >gi|319410076|emb|CBY90410.1| K06180 ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis WUE 2594] Length = 392 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 58 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 116 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 117 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 176 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 177 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 236 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 237 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 286 >gi|313889497|ref|ZP_07823143.1| ribosomal protein S4 [Streptococcus pseudoporcinus SPIN 20026] gi|332523161|ref|ZP_08399413.1| ribosomal protein S4 [Streptococcus porcinus str. Jelinkova 176] gi|313122109|gb|EFR45202.1| ribosomal protein S4 [Streptococcus pseudoporcinus SPIN 20026] gi|332314425|gb|EGJ27410.1| ribosomal protein S4 [Streptococcus porcinus str. Jelinkova 176] Length = 203 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVEPGQVISV 142 >gi|134294468|ref|YP_001118203.1| 30S ribosomal protein S4 [Burkholderia vietnamiensis G4] gi|134137625|gb|ABO53368.1| SSU ribosomal protein S4P [Burkholderia vietnamiensis G4] Length = 213 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG++ + V + D I + ++A Sbjct: 104 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGVVANVPSQQVKAGDVIAIREKAKKQARII 163 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 164 EALSLAEQGGMPS 176 >gi|312863735|ref|ZP_07723973.1| S4 domain protein [Streptococcus vestibularis F0396] gi|311101271|gb|EFQ59476.1| S4 domain protein [Streptococcus vestibularis F0396] Length = 230 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 3/67 (4%) Query: 1 MKDKNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 + +K ++F + R+ V+A SR ++IA +VK+N +E+A + Sbjct: 134 ISNKEKYSQSFVLLSSMRLDNVLATVLKISRSNALKLIASGKVKLNYRQIEKADQTISIG 193 Query: 58 DHIEVDG 64 D I V G Sbjct: 194 DMISVRG 200 >gi|258543843|ref|ZP_05704077.1| 30S ribosomal protein S4 [Cardiobacterium hominis ATCC 15826] gi|258520932|gb|EEV89791.1| 30S ribosomal protein S4 [Cardiobacterium hominis ATCC 15826] Length = 159 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G +R E ++++ ++VNG + A+ V + D + V Sbjct: 49 QRLDNVVYRMGYGATRAEARQLVSHGAIEVNGKRVTIASYQVRAEDVVAV 98 >gi|88704352|ref|ZP_01102066.1| 30S ribosomal protein S4 [Congregibacter litoralis KT71] gi|88701403|gb|EAQ98508.1| 30S ribosomal protein S4 [Congregibacter litoralis KT71] Length = 206 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E +++A + + VNG ++ A+ V + D + + Sbjct: 97 RLDNVVYRIGFGSTRSEARQLVAHKAILVNGKVVNIASYKVKAGDVVSL 145 >gi|261364920|ref|ZP_05977803.1| ribosomal large subunit pseudouridine synthase D [Neisseria mucosa ATCC 25996] gi|288566705|gb|EFC88265.1| ribosomal large subunit pseudouridine synthase D [Neisseria mucosa ATCC 25996] Length = 374 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 29/229 (12%), Positives = 65/229 (28%), Gaps = 32/229 (13%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILL---------ERAAVNVMST------- 57 R+ V+A+ SR + I + V VN E +V V + Sbjct: 40 RLDAVLAKLMPDYSRSRLTSWIKEGAVIVNDKPAQPKDKMIGGESISVTVRPSEENLAFK 99 Query: 58 ------DHIEVDGVPLRKAERTRLWLYHKPIGLV---------TTHSDPDGRSTVFDNLP 102 D + D + + L ++ + Sbjct: 100 PEAMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHRL 159 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + + V + + L+ + + + + + Q+ +D N LK Sbjct: 160 DKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRLK 219 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +V G V + + +++++ L G+ +I+ N Sbjct: 220 MAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|325203791|gb|ADY99244.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis M01-240355] Length = 374 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLSAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|225076419|ref|ZP_03719618.1| hypothetical protein NEIFLAOT_01464 [Neisseria flavescens NRL30031/H210] gi|224952267|gb|EEG33476.1| hypothetical protein NEIFLAOT_01464 [Neisseria flavescens NRL30031/H210] Length = 173 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 64 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 123 >gi|158320443|ref|YP_001512950.1| RNA-binding S4 domain-containing protein [Alkaliphilus oremlandii OhILAs] gi|158140642|gb|ABW18954.1| RNA-binding S4 domain protein [Alkaliphilus oremlandii OhILAs] Length = 262 Score = 50.6 bits (119), Expect = 3e-04, Method: Composition-based stats. Identities = 16/56 (28%), Positives = 30/56 (53%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 N + R+ +++ A SR E + +I+++RV VN ++A +V + I V G Sbjct: 182 NVSSLRLDAILSLAYKISRSEAQELISKERVSVNWKNTTKSAQDVTEGNIISVKGK 237 >gi|322517030|ref|ZP_08069918.1| S4 domain-containing protein YlmH [Streptococcus vestibularis ATCC 49124] gi|322124398|gb|EFX95898.1| S4 domain-containing protein YlmH [Streptococcus vestibularis ATCC 49124] Length = 230 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 16/53 (30%), Positives = 26/53 (49%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ V+A SR ++IA +VK+N +E+A + D I V G Sbjct: 148 SSMRLDNVLATVLKISRSNALKLIASGKVKLNYRQIEKADQTISIGDMISVRG 200 >gi|325127790|gb|EGC50698.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis N1568] Length = 374 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLTHSYIECSLETGRTHQIRVHMREANHP 268 >gi|319744574|gb|EFV96927.1| S4 domain-containing protein YlmH [Streptococcus agalactiae ATCC 13813] Length = 262 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 31/63 (49%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + + R+ K++A SR + ++I +VKVN ++ R + ++ D I Sbjct: 172 QDIQKLTVIASSLRLDKILATILKISRTQSTKLIEADKVKVNYAIVNRVSEQLVEGDLIS 231 Query: 62 VDG 64 V G Sbjct: 232 VRG 234 >gi|158321656|ref|YP_001514163.1| RNA-binding S4 domain-containing protein [Alkaliphilus oremlandii OhILAs] gi|158141855|gb|ABW20167.1| RNA-binding S4 domain protein [Alkaliphilus oremlandii OhILAs] Length = 80 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV +NG + + + V D IE+ Sbjct: 1 MRLDKYLKNSRIIKRRTVAKEACEGGRVSINGKVAK-PSTEVALGDIIEI 49 >gi|28212155|ref|NP_783099.1| 30S ribosomal protein S4 [Clostridium tetani E88] gi|41017837|sp|Q890Q9|RS4_CLOTE RecName: Full=30S ribosomal protein S4 gi|28204599|gb|AAO37036.1| SSU ribosomal protein S4P [Clostridium tetani E88] Length = 206 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G SR+E +++ VNG + + NV D I V Sbjct: 98 MRLDNVVYRLGYGDSRKESRQLVTHGHFLVNGKKVNIPSFNVSVNDVITV 147 >gi|25010599|ref|NP_734994.1| hypothetical protein gbs0530 [Streptococcus agalactiae NEM316] gi|77408402|ref|ZP_00785142.1| ylmH protein [Streptococcus agalactiae COH1] gi|77414693|ref|ZP_00790826.1| ylmH protein [Streptococcus agalactiae 515] gi|23094952|emb|CAD46174.1| Unknown [Streptococcus agalactiae NEM316] gi|77159253|gb|EAO70431.1| ylmH protein [Streptococcus agalactiae 515] gi|77173005|gb|EAO76134.1| ylmH protein [Streptococcus agalactiae COH1] Length = 262 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 31/63 (49%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + + R+ K++A SR + ++I +VKVN ++ R + ++ D I Sbjct: 172 QDIQKLTVIASSLRLDKILATILKISRTQSTKLIEADKVKVNYAIVNRVSEQLVEGDLIS 231 Query: 62 VDG 64 V G Sbjct: 232 VRG 234 >gi|315924845|ref|ZP_07921062.1| hemolysin A [Pseudoramibacter alactolyticus ATCC 23263] gi|315621744|gb|EFV01708.1| hemolysin A [Pseudoramibacter alactolyticus ATCC 23263] Length = 290 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 12/59 (20%), Positives = 25/59 (42%), Gaps = 4/59 (6%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVM---STDHIEVDGVPLR 68 +R+ K++ + G +R ++ I V+V+G +A V + V G + Sbjct: 6 ERLDKMLVKLGFFDTRERAKKAIMAGLVRVDGRAHTKAGDQVSVTLEKHQVTVKGDAIP 64 >gi|328542021|ref|YP_004302130.1| Helicase conserved C-terminal domain protein [polymorphum gilvum SL003B-26A1] gi|326411771|gb|ADZ68834.1| Helicase conserved C-terminal domain protein [Polymorphum gilvum SL003B-26A1] Length = 1004 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/117 (11%), Positives = 30/117 (25%), Gaps = 1/117 (0%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 L P + + +S T+V + ++ + Sbjct: 866 DASELAAADEPTASGQPEPQAQGETEASTTVVIEIWRPGRPERPGRSQGDGEQRGERKGR 925 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRR-SPSFPSKRSLRRTSA 352 K+ P ++ + S +REE P+ ++ RR Sbjct: 926 GDKRPHGPRRGKDTQGGEHRKEADQRHKSSGPDRREERRNAGKPAGQRDKAPRRDKP 982 >gi|304387998|ref|ZP_07370170.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis ATCC 13091] gi|304337997|gb|EFM04135.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis ATCC 13091] Length = 374 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLTHSYIECSLETGRTHQIRVHMREANHP 268 >gi|254804587|ref|YP_003082808.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis alpha14] gi|254668128|emb|CBA04722.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis alpha14] Length = 374 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIIYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVQHLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|83720741|ref|YP_443547.1| 30S ribosomal protein S4 [Burkholderia thailandensis E264] gi|167582598|ref|ZP_02375472.1| 30S ribosomal protein S4 [Burkholderia thailandensis TXDOH] gi|167620712|ref|ZP_02389343.1| 30S ribosomal protein S4 [Burkholderia thailandensis Bt4] gi|257137667|ref|ZP_05585929.1| 30S ribosomal protein S4 [Burkholderia thailandensis E264] gi|123536225|sp|Q2SU52|RS4_BURTA RecName: Full=30S ribosomal protein S4 gi|83654566|gb|ABC38629.1| ribosomal protein S4 [Burkholderia thailandensis E264] Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNGI+ + V + D I + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGIVANIPSQQVKAGDVISIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|308063222|gb|ADO05109.1| hemolysin [Helicobacter pylori Sat464] Length = 235 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 10/50 (20%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + SR + + ++ + +V VN +++ + + V D IE+ Sbjct: 1 MRLDHALFNQHLVGSREKAKALVLKNQVLVNKMVVSKPSFMVKEGDKIEL 50 >gi|284799892|ref|ZP_05985156.2| ribosomal protein S4 [Neisseria subflava NJ9703] gi|284796551|gb|EFC51898.1| ribosomal protein S4 [Neisseria subflava NJ9703] Length = 173 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 64 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 123 >gi|255659528|ref|ZP_05404937.1| ribosomal protein S4 [Mitsuokella multacida DSM 20544] gi|260848081|gb|EEX68088.1| ribosomal protein S4 [Mitsuokella multacida DSM 20544] Length = 197 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +++ VNG ++ + V + D I V Sbjct: 88 RLDNVVYRLGLANTRRQARQLVRHGHFTVNGKRVDIPSALVNAGDVIAV 136 >gi|32266901|ref|NP_860933.1| 30S ribosomal protein S4 [Helicobacter hepaticus ATCC 51449] gi|41017829|sp|Q7VGC0|RS4_HELHP RecName: Full=30S ribosomal protein S4 gi|32262953|gb|AAP77999.1| ribosomal protein S4 [Helicobacter hepaticus ATCC 51449] Length = 208 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V IEV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKRVDIPSYMVKPGQKIEV 147 >gi|209522216|ref|ZP_03270853.1| pseudouridine synthase, RluA family [Burkholderia sp. H160] gi|209497345|gb|EDZ97563.1| pseudouridine synthase, RluA family [Burkholderia sp. H160] Length = 419 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 34/251 (13%), Positives = 69/251 (27%), Gaps = 40/251 (15%) Query: 2 KDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + +V + +R+ KV+A+ SR ++ I +RV+V+G + V I Sbjct: 67 PRRVVVPDELAGERLDKVVAKVFPEFSRSRLQSWIEAERVRVDGKPAK-IRQPVPLGATI 125 Query: 61 EVDGVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 E++ + + T + + +V + + + L Sbjct: 126 ELEPDLLPEQLAFTPEPVPLDIVYEDDTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYG 185 Query: 106 ------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 R V RLD T GL+++ L R + Sbjct: 186 EAAAGLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPDEG 245 Query: 160 LLKKGIVIQ-----------GICYGDMQVTL------DTQKGSNAWVTVGLREGKNREIK 202 + I G + Q+ + L G+ +I+ Sbjct: 246 TIDAPIGRDPRERTRMAVVTGAAGKPARTHFRRVTSAIWQRQPVTAIHCDLETGRTHQIR 305 Query: 203 KVFEFFNWKVN 213 + Sbjct: 306 VHCAHIGHPLL 316 >gi|241203351|ref|YP_002974447.1| hemolysin A [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240857241|gb|ACS54908.1| hemolysin A [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 248 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 9 ENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + QR+ +++ G ASR + + VK+ G ++ +A + IE+D Sbjct: 2 SDQNTQRLDQLLVSLGLFASRSRARDAVQRGTVKIGGQVVTKAGALFGADAAIEIDD 58 >gi|297583620|ref|YP_003699400.1| 30S ribosomal protein S4 [Bacillus selenitireducens MLS10] gi|297142077|gb|ADH98834.1| ribosomal protein S4 [Bacillus selenitireducens MLS10] Length = 200 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR+ +++ V V+G ++ + V I + Sbjct: 93 RLDNLVYRLGLARTRRQARQLVNHGHVTVDGKRVDIPSYRVAPGQSISL 141 >gi|157823950|ref|NP_997554.2| zinc finger protein 318 isoform 1 [Mus musculus] gi|168983992|emb|CAQ11965.1| zinc finger protein 318 [Mus musculus] Length = 2237 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/109 (12%), Positives = 27/109 (24%), Gaps = 2/109 (1%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 GP + S ++ + + + + +P Sbjct: 22 GPPPGRPVGASSGPTRRPSSPPPPSCSSLRLPARRHRSPSGHRGRWASPSPPRGRRGSPS 81 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQR--EENHRRSPSFPSKRSLRRTSA 352 R ++ +G +S G+R R PS RR Sbjct: 82 PPRGRRASPSPTRGRRASPSPPRGRRGSPSPPRARRGSPSPPRSRRHYP 130 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 17/108 (15%), Positives = 29/108 (26%), Gaps = 4/108 (3%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + P+ +S R + + +G + A+P Sbjct: 16 KDGSASGPPPGRPVGASSGPTRRPSSPPPPSCSSLRLPARRHRSPSGHR--GRWASPSPP 73 Query: 308 RNLASNVWMAKGIHSSFLSDSGQR--EENHRRSPSFPSKRSLRRTSAK 353 R + +G +S G+R R PS RR S Sbjct: 74 RGRRGSPSPPRGRRASPSPTRGRRASPSPPRGRRGSPSPPRARRGSPS 121 >gi|313668816|ref|YP_004049100.1| ribosomal large subunit pseudouridine synthase D [Neisseria lactamica ST-640] gi|313006278|emb|CBN87741.1| putative ribosomal large subunit pseudouridine synthase D [Neisseria lactamica 020-06] Length = 374 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIREGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSAEYSAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 APEPMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWSGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|186477562|ref|YP_001859032.1| 30S ribosomal protein S4 [Burkholderia phymatum STM815] gi|226697817|sp|B2JI40|RS4_BURP8 RecName: Full=30S ribosomal protein S4 gi|184194021|gb|ACC71986.1| ribosomal protein S4 [Burkholderia phymatum STM815] Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG++ ++ V + D I V Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGVVANIPSLQVKAGDVIAV 146 >gi|95929105|ref|ZP_01311850.1| Pseudouridine synthase, RluD [Desulfuromonas acetoxidans DSM 684] gi|95135006|gb|EAT16660.1| Pseudouridine synthase, RluD [Desulfuromonas acetoxidans DSM 684] Length = 350 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 32/245 (13%), Positives = 82/245 (33%), Gaps = 39/245 (15%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 ++ +R+ + + R +R ++++++ V+VN ++ A + + + V Sbjct: 9 IEPGQAAERLDRFLTRQLPELTRSQLKKLVDDGLVRVNDQTVK-AGAKLRGGETVCVTLP 67 Query: 63 ---------DGVPLR-KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS------ 106 + +PL E + L + +K G+V + T+ + L Sbjct: 68 QAQSVETLPEDLPLTVLYEDSDLIVINKAAGMVVHPAAGHSSGTLVNALLYHCHDLSGVG 127 Query: 107 ---RVISVGRLDINTEGLLLLTNDGGLARV-------------LELPSTQWLRVYRVRFH 150 R V RLD +T G+++ T + ++ R Sbjct: 128 GELRPGIVHRLDKDTSGVMVATKNDVTHNHLAAQFKDHSIQRRYVALVHGQVQNARGTID 187 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFF 208 + + + K +G + + ++ + + + L G+ +I+ Sbjct: 188 APIGRHPTHRKKMTSKGRGGRRAVTHWKVLRRYDADRLSLLEMRLETGRTHQIRVHLSEM 247 Query: 209 NWKVN 213 N + Sbjct: 248 NLPLV 252 >gi|125975412|ref|YP_001039322.1| SSU ribosomal protein S4P [Clostridium thermocellum ATCC 27405] gi|256005301|ref|ZP_05430267.1| ribosomal protein S4 [Clostridium thermocellum DSM 2360] gi|281419374|ref|ZP_06250389.1| ribosomal protein S4 [Clostridium thermocellum JW20] gi|152060944|sp|A3DJK0|RS4_CLOTH RecName: Full=30S ribosomal protein S4 gi|125715637|gb|ABN54129.1| SSU ribosomal protein S4P [Clostridium thermocellum ATCC 27405] gi|255990737|gb|EEU00853.1| ribosomal protein S4 [Clostridium thermocellum DSM 2360] gi|281406994|gb|EFB37257.1| ribosomal protein S4 [Clostridium thermocellum JW20] gi|316939528|gb|ADU73562.1| ribosomal protein S4 [Clostridium thermocellum DSM 1313] Length = 208 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A SRRE +++ VNG ++ + V D I V Sbjct: 99 RLDNVVYRMGLAVSRREARQLVRHGHFTVNGKRVDIPSYLVKVGDVIAV 147 >gi|329893623|ref|ZP_08269757.1| SSU ribosomal protein S4p (S9e) [gamma proteobacterium IMCC3088] gi|328923550|gb|EGG30862.1| SSU ribosomal protein S4p (S9e) [gamma proteobacterium IMCC3088] Length = 206 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R E ++++ + V VNG ++ + V D + V Sbjct: 97 RLDNVVYRMGFASTRAEARQLVSHKGVLVNGSVVNVPSYQVQPGDVVAV 145 >gi|325197923|gb|ADY93379.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis G2136] Length = 374 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 71/230 (30%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWRGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + ++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLPHSYIECSLETGRTHQIRVHMREANHP 268 >gi|322392783|ref|ZP_08066241.1| S4 domain-containing protein YlmH [Streptococcus peroris ATCC 700780] gi|321144361|gb|EFX39764.1| S4 domain-containing protein YlmH [Streptococcus peroris ATCC 700780] Length = 261 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 18/90 (20%), Positives = 37/90 (41%), Gaps = 5/90 (5%) Query: 1 MKDKNIVQENF---TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 +K K+ QE + R+ ++ SR + ++ ++ V+VN ++E+ V Sbjct: 167 IKSKDGYQEREVLVSSLRLDSFLSSILKLSRSQTSNLVEKKLVQVNYHIVEKLDYQVKVG 226 Query: 58 DHIEVD--GVPLRKAERTRLWLYHKPIGLV 85 D I V G + E + K + + Sbjct: 227 DLISVRRFGRIILLKENGQTKKDKKKVTIQ 256 >gi|320160994|ref|YP_004174218.1| putative hemolysin [Anaerolinea thermophila UNI-1] gi|319994847|dbj|BAJ63618.1| putative hemolysin [Anaerolinea thermophila UNI-1] Length = 272 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 12/58 (20%), Positives = 28/58 (48%), Gaps = 3/58 (5%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST 57 M + I+ + R+ ++ + G+A SR +R+I R++V+ ++ + V Sbjct: 1 MDNDKII--DMAKVRLDILLVQRGLAESRTVAQRLILAGRIRVSNEIVTEPSRRVEED 56 >gi|303326647|ref|ZP_07357089.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA kinase [Desulfovibrio sp. 3_1_syn3] gi|302862635|gb|EFL85567.1| ribosomal large subunit pseudouridine synthase D/dephospho-CoA kinase [Desulfovibrio sp. 3_1_syn3] Length = 524 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 35/332 (10%), Positives = 76/332 (22%), Gaps = 52/332 (15%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 + + +R+ +V+ A SR +++ + R V+G+ + R + + Sbjct: 8 ITADTAGRRLDRVLRDAAPGLSRAALQKAVLAGRCLVDGLPVSRPDAKTRPGQRVLLELP 67 Query: 63 ---------DGVP-LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 +G L + + + V + V L G Sbjct: 68 PTENALSPEEGHLELLWQDESLVVCNKPAGLTVHPCPSCPEHTLVQRLLGRFPQLGRLEG 127 Query: 113 RLDINTEGL---------------------LLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 L L L S R Sbjct: 128 LRPGIVHRLDKDTSGLLLVALTEPARLALSAAFARREVHKEYLALVSGLPPEQGECREPL 187 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIKKVFEFFN 209 + +G + + V + G+ +I+ Sbjct: 188 GRHPTAKIKMAVLPETRGGKPAHTTWKRLWNTPDQRVSLLAVRIHTGRTHQIRVHLAHLG 247 Query: 210 WKVNRLIRISYGPFQLGTLL-AGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLV 268 + L RE++ R+ L L + + ++ + Sbjct: 248 HPLLG-----------DKLYAPAPVRELAP---RQMLHAWHLAFSHPDSGEEMHFACPPP 293 Query: 269 RDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK 300 D P R+ + +G S + Sbjct: 294 DDLPQAALAACRRMRRLIVTGNPGSGKSALTR 325 >gi|315640101|ref|ZP_07895224.1| 30S ribosomal protein S4 [Enterococcus italicus DSM 15952] gi|315484148|gb|EFU74621.1| 30S ribosomal protein S4 [Enterococcus italicus DSM 15952] Length = 203 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ +++ + V+G ++ + +V I V Sbjct: 93 QRLDNVVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSYHVDLGQVIGV 142 >gi|172044373|sp|A4JAR5|RS4_BURVG RecName: Full=30S ribosomal protein S4 Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG++ + V + D I + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGVVANVPSQQVKAGDVIAIREKAKKQARII 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|34499616|ref|NP_903831.1| 30S ribosomal protein S4 [Chromobacterium violaceum ATCC 12472] gi|41017823|sp|Q7NQH6|RS4_CHRVO RecName: Full=30S ribosomal protein S4 gi|34105467|gb|AAQ61822.1| 30S ribosomal protein S4 [Chromobacterium violaceum ATCC 12472] Length = 206 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++A Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSYQVKAGDVVSVREKAKKQARIV 156 Query: 74 RLWLYHKPIGLVT 86 + G + Sbjct: 157 EGLALAEQGGFPS 169 >gi|330719419|ref|ZP_08314019.1| 30S ribosomal protein S4 [Leuconostoc fallax KCTC 3537] Length = 203 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 QR+ ++ R G A SR + +++ + V+G ++ + +V+ I V Sbjct: 93 QRLDSLVFRLGFATSRAQARQLVNHGHILVDGKRVDIPSYHVVPGQEISVRDK 145 >gi|323156250|gb|EFZ42409.1| ribosomal large subunit pseudouridine synthase D [Escherichia coli EPECa14] Length = 300 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 25/217 (11%), Positives = 56/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG + ++ V+ + + ++ + + Sbjct: 6 SRSRIKEWILDQRVLVNGKVCDKPKEKVLGGELVAINAEIEEEARFEPQDIPLDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 + + +V + + + L R V RLD +T GL+++ Sbjct: 66 DIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L + V Sbjct: 126 VPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHTRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|302389469|ref|YP_003825290.1| pseudouridine synthase, RluA family [Thermosediminibacter oceani DSM 16646] gi|302200097|gb|ADL07667.1| pseudouridine synthase, RluA family [Thermosediminibacter oceani DSM 16646] Length = 291 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 34/235 (14%), Positives = 77/235 (32%), Gaps = 28/235 (11%) Query: 4 KNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 K +V E V + + G +SR + R+ ++ +NG+ + D IEVD Sbjct: 2 KFVVDETSQGLTVGEFLKANGFSSRT-IRRLKLGGKILINGVPAYT-NTRISCNDVIEVD 59 Query: 64 -----GVP-------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---- 107 G+ + + + L +P +V + + + + + Sbjct: 60 LTEKSGIVPSPVPINILYEDDHIIVLNKQPGVVVHPTAFHYNDTIANGVIYYLNQKGKKG 119 Query: 108 -VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD---------K 157 V RLD +T G+L++ + +++ R V + + + Sbjct: 120 GFHPVNRLDRDTTGVLIIALSQHMHNLIQTHGRMKKRYIAVVEGVVKENEGVIVEPIARR 179 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 L + V + + + + + + G+ +I+ F V Sbjct: 180 EGSLIERCVSEKGQKAITRFKVVKRLKDLTVLDIEPVTGRTHQIRVHLSFKGHPV 234 >gi|294501546|ref|YP_003565246.1| ribosomal protein S4 [Bacillus megaterium QM B1551] gi|295706894|ref|YP_003599969.1| 30S ribosomal protein S4 [Bacillus megaterium DSM 319] gi|294351483|gb|ADE71812.1| ribosomal protein S4 [Bacillus megaterium QM B1551] gi|294804553|gb|ADF41619.1| 30S ribosomal protein S4 [Bacillus megaterium DSM 319] Length = 200 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR+ +++ V V+G ++ + V I V Sbjct: 93 RLDNLVYRMGLARTRRQARQLVNHGHVLVDGKRVDIPSYRVQPGQVIGV 141 >gi|255065280|ref|ZP_05317135.1| ribosomal large subunit pseudouridine synthase D [Neisseria sicca ATCC 29256] gi|255050701|gb|EET46165.1| ribosomal large subunit pseudouridine synthase D [Neisseria sicca ATCC 29256] Length = 374 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 30/229 (13%), Positives = 61/229 (26%), Gaps = 32/229 (13%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILL--------------------ERAAVN 53 R+ V+A+ SR + I + V VN E A Sbjct: 40 RLDAVLAKLMPDYSRSRLTSWIKEGAVIVNDKPAQPKDKMIGGESISVTVLPSEENLAFK 99 Query: 54 --------VMSTDHIEVDGVP---LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLP 102 V D + V P + L + Sbjct: 100 PEAMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHRL 159 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + + V + + L+ + + + + + Q+ +D N LK Sbjct: 160 DKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRLK 219 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +V G V + + +++++ L G+ +I+ N Sbjct: 220 MAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|182677345|ref|YP_001831491.1| RluA family pseudouridine synthase [Beijerinckia indica subsp. indica ATCC 9039] gi|182633228|gb|ACB94002.1| pseudouridine synthase, RluA family [Beijerinckia indica subsp. indica ATCC 9039] Length = 346 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 5/62 (8%) Query: 6 IVQENFTPQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +V QR+ + +A A SR ++ +I Q V V+G A+ +V + I Sbjct: 19 VVGAEEAGQRLDRFLAERTETGAAFLSRMRIKTLIEQGHVSVDGEARLTASASVRAGQII 78 Query: 61 EV 62 E+ Sbjct: 79 EL 80 >gi|110635475|ref|YP_675683.1| ribosomal large subunit pseudouridine synthase D [Mesorhizobium sp. BNC1] gi|110286459|gb|ABG64518.1| ribosomal large subunit pseudouridine synthase D [Chelativorans sp. BNC1] Length = 343 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 2/52 (3%) Query: 8 QENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMST 57 E R+ + +A A SR ++ +I + V +NG + V + Sbjct: 18 DEKAEGNRLDQWLAARLAPDFSRSRIQALIREGAVTLNGRTVAEPKRKVAAG 69 >gi|78357275|ref|YP_388724.1| 30S ribosomal protein S4 [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|90101689|sp|Q30Z67|RS4_DESDG RecName: Full=30S ribosomal protein S4 gi|78219680|gb|ABB39029.1| SSU ribosomal protein S4P [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 208 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A SR + +M+ VNG ++ V D IEV Sbjct: 99 RLDNVIYRLGFANSRSQARQMVRHGIFTVNGRKATIPSIQVKVGDVIEV 147 >gi|295136359|ref|YP_003587035.1| RNA pseudouridylate synthase [Zunongwangia profunda SM-A87] gi|294984374|gb|ADF54839.1| RNA pseudouridylate synthase [Zunongwangia profunda SM-A87] Length = 288 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 28/237 (11%), Positives = 75/237 (31%), Gaps = 29/237 (12%) Query: 1 MKDKNIVQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 +K+ +IV + R+ + A I +R V++ I +Q++ V+G + + ++ Sbjct: 3 IKEIHIVPQLSEKIRLQEYAASIFTSITTRSAVKKAIKKQQILVDGEIGQT-GDWILEGQ 61 Query: 59 HIEVDGVPLRKAERTRLWL---------------YHKPIGLVTTHSDPDGRSTVFDNLPS 103 IE+ L+ ++ +++ + + ++ + NL + Sbjct: 62 QIEL----LQPQKQQKVFELRLEVIYEDDHIAVINKPAGYPTSGNYHKTIKNALPFNLQA 117 Query: 104 IFSRVI-----SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 RLD T G+LL L + + Sbjct: 118 SKEIDKLEIPQPAHRLDNPTSGILLCAKTNKALIELNRQFQDKEIQKTYIAIVEGCFPEE 177 Query: 159 NLLKKGIVIQGICYGDMQ--VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + ++ T+ + + + G+ +I+ + + Sbjct: 178 QQIFNDEIEEKQATTAVKLLGTIMFKSAKLSLLEAKPLTGRTHQIRIHLAKNGFPIL 234 >gi|195970192|ref|NP_384985.2| hypothetical protein SMc00973 [Sinorhizobium meliloti 1021] gi|307304209|ref|ZP_07583961.1| hemolysin A [Sinorhizobium meliloti BL225C] gi|307320514|ref|ZP_07599929.1| hemolysin A [Sinorhizobium meliloti AK83] gi|187904153|emb|CAC45451.2| Probable hemolysin [Sinorhizobium meliloti 1021] gi|306893790|gb|EFN24561.1| hemolysin A [Sinorhizobium meliloti AK83] gi|306902677|gb|EFN33270.1| hemolysin A [Sinorhizobium meliloti BL225C] Length = 251 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 26/60 (43%), Gaps = 1/60 (1%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + Q+ R+ +++ G +ASR I + VKV+G + + A + +D Sbjct: 1 MSQDTQMTIRLDQLLLNRGLVASRARARDAIQRGTVKVDGRTVTKPASTFAQGVTLTIDD 60 >gi|172059366|ref|YP_001807018.1| 30S ribosomal protein S4 [Burkholderia ambifaria MC40-6] gi|226697813|sp|B1YRQ4|RS4_BURA4 RecName: Full=30S ribosomal protein S4 gi|171991883|gb|ACB62802.1| ribosomal protein S4 [Burkholderia ambifaria MC40-6] Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG++ + V + D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGVVANVPSQQVKAGDVVAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|20808633|ref|NP_623804.1| 30S ribosomal protein S4 [Thermoanaerobacter tengcongensis MB4] gi|26399396|sp|Q8R7Y1|RS4_THETN RecName: Full=30S ribosomal protein S4 gi|20517267|gb|AAM25408.1| Ribosomal protein S4 and related proteins [Thermoanaerobacter tengcongensis MB4] Length = 206 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SR + ++++ ++VNG ++ + V D I V Sbjct: 99 RLDNVVYRLGFAVSRAQARQLVSHGHIEVNGKKVDIPSYLVKPGDVISV 147 >gi|167838187|ref|ZP_02465046.1| 30S ribosomal protein S4 [Burkholderia thailandensis MSMB43] Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNGI+ + V + D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGIVANIPSQQVKAGDVVSIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|160872393|ref|ZP_02062525.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Rickettsiella grylli] gi|159121192|gb|EDP46530.1| ribosomal large subunit pseudouridine synthase D (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) [Rickettsiella grylli] Length = 325 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 32/240 (13%), Positives = 73/240 (30%), Gaps = 33/240 (13%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 IV E+ +R+ +++++ A SR +++ I +RV V+ +R + I Sbjct: 13 IVPEDLAEKRLDQILSQLFPAYSRTRLQQWIHDKRVLVDNE-FKRPRDKIKPGAKITIVA 71 Query: 62 -----VDGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPS-----IF 105 +D + + + + +V + ++ V L Sbjct: 72 NLHEAIDWEAENLPLDIIFEDDALVVINKPAGLVVHPGAGNRHKTLVNALLHHLPALKKL 131 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF----------HGQVDQ 155 R + RLD +T GLL++ L Sbjct: 132 PRAGIIQRLDKDTSGLLIIPKILNAHTQLVKQLQARTMKREYTAIIQGLLIAGGSINAPI 191 Query: 156 DKLNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + L+K + + + + + + V L G+ +I+ + + Sbjct: 192 GRHPKLRKKMAVTENHGKPAVSHYRVIERFNHHTLINVQLETGRTHQIRVHMAHIHHPLV 251 >gi|332362883|gb|EGJ40676.1| S4 domain-containing protein YlmH [Streptococcus sanguinis SK49] Length = 261 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/48 (29%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K++A SR + ++I+ + VKVN + + ++ V D I V Sbjct: 184 RLDKLVASTFKLSRSQAAQLISGKHVKVNYAVNDNPSLQVGLEDLISV 231 >gi|325694117|gb|EGD36035.1| S4 domain-containing protein YlmH [Streptococcus sanguinis SK150] Length = 261 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/48 (29%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K++A SR + ++I+ + VKVN + + ++ V D I V Sbjct: 184 RLDKLVASTFKLSRSQAAQLISGKHVKVNYAVNDNPSLQVGLEDLISV 231 >gi|238926866|ref|ZP_04658626.1| hemolysin A [Selenomonas flueggei ATCC 43531] gi|238885398|gb|EEQ49036.1| hemolysin A [Selenomonas flueggei ATCC 43531] Length = 268 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G+A SR +R+I +V VN +++A V + + V G L Sbjct: 2 KKERLDVLLTVQGLAPSRERAKRLIMAGQVLVNEQRVDKAGATVPADAALRVAGEDLPY 60 >gi|223042001|ref|ZP_03612184.1| 23S rRNA pseudouridine synthase D [Actinobacillus minor 202] gi|223017199|gb|EEF15628.1| 23S rRNA pseudouridine synthase D [Actinobacillus minor 202] Length = 325 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 26/230 (11%), Positives = 63/230 (27%), Gaps = 31/230 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ + +A+ SR ++ I +V VNG ++ +A V + IE+ Sbjct: 19 RLDQALAQLFPDYSRSRLKVWIENDQVWVNGKIVNKAREKVFGGELIEIQAEVEEEVRFE 78 Query: 67 -------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GRL 114 + + + + +V + + + L RL Sbjct: 79 PQNIPLNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLYHYPPIAEVPRAGIVHRL 138 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVY-----------RVRFHGQVDQDKLNLLKK 163 D +T GL+++ + L + + + Sbjct: 139 DKDTTGLMVVAKNIPAQTHLVTALQKRRITREYEAIASGIMTQGGKVDEPMARHPTKRTA 198 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + Sbjct: 199 MAVHPMGKPAVTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 248 >gi|150395716|ref|YP_001326183.1| hemolysin A [Sinorhizobium medicae WSM419] gi|150027231|gb|ABR59348.1| hemolysin A [Sinorhizobium medicae WSM419] Length = 251 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 12/60 (20%), Positives = 26/60 (43%), Gaps = 1/60 (1%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + Q+ R+ +++ G +ASR I + VKV+G + + + + +D Sbjct: 1 MSQDTQMTIRLDQLLLNRGLVASRARARDAIQRGTVKVDGRTVTKPSSTFAEGVTLAIDD 60 >gi|116618468|ref|YP_818839.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] gi|116097315|gb|ABJ62466.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] Length = 312 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 45/247 (18%), Positives = 80/247 (32%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M +K ++ RV V++ SR + + + VN ++R + V+S D Sbjct: 1 MANKILIHITDQAGRVDAVLSKENLSYSRTTLSNWLVDGTILVNNHKVKR-SYKVVSGDT 59 Query: 60 IEV------------DGVPLRKAERTRL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + +PL + +V + + V L Sbjct: 60 ISITPPETQETKIEAENIPLDIIYEDDDIIVVNKPQGMVVHPAAGHSSGTLVNALLHHSP 119 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLARVLELP--STQWLRVYRVRFHGQVDQD 156 R V R+D +T GLL++ + R L S + RVY G+ +D Sbjct: 120 LSTINGEFRPGIVHRIDRDTSGLLMVAKNDKAHRSLSEQLKSHKNQRVYYALVRGEFTED 179 Query: 157 ----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI+G + + + V L G+ +I+ Sbjct: 180 SGTIEAPIGRHKIDRKKQAVIEGGREAVTHFRVLKRYVGYTLLKVSLETGRTHQIRVHMS 239 Query: 207 FFNWKVN 213 + V Sbjct: 240 YIGHPVV 246 >gi|23015589|ref|ZP_00055361.1| COG0564: Pseudouridylate synthases, 23S RNA-specific [Magnetospirillum magnetotacticum MS-1] Length = 327 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 26/246 (10%), Positives = 60/246 (24%), Gaps = 39/246 (15%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V+ R+ + +A R SR ++ +I RV ++ + A++ V V+ Sbjct: 14 VEPEEAATRLDRWLAARLPELSRTRIKALIEDGRVSLDATTISDASLRVKPGQCFTVEVP 73 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----- 106 P + + + + +V + V L Sbjct: 74 PDAPAEPEAQDIALSVVYEDEDLIVIDKPAGMVVHPAPGNPDETLVNALLAHCGESLAGI 133 Query: 107 ---------RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I + + G A+ E + + Sbjct: 134 GGVKRPGIVHRIDKDTSGLLVAAKTDAAHRGLAAQFAEHSLERAYWALVWGTPSPRQGEI 193 Query: 158 LNLLKKGIVIQGICY------GDM----QVTLDTQKGSNAWVTVGLREGKNREIKKVFEF 207 + + + +V G+ + V L G+ +I+ Sbjct: 194 EGNIGRNPNDRKKMAVVKSGGKPALTRYRVLKSFAGGAVSLVECRLATGRTHQIRVHMTA 253 Query: 208 FNWKVN 213 + Sbjct: 254 QGHPLI 259 >gi|225377098|ref|ZP_03754319.1| hypothetical protein ROSEINA2194_02743 [Roseburia inulinivorans DSM 16841] gi|225211003|gb|EEG93357.1| hypothetical protein ROSEINA2194_02743 [Roseburia inulinivorans DSM 16841] Length = 267 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 25/178 (14%), Positives = 54/178 (30%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ G+A SR + + MI + V V+ ++A +IEV G L+ R Sbjct: 3 ERLDILLVNKGLAPSREKAKAMIMEGNVFVDNNREDKAGSTFDVNANIEVKGNTLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T ++ G + + + L + Sbjct: 63 GGLKLEKAMTHFGITLEGKVCMDIGAST-GGFTDCMLQNGAVKVYAVDVGYGQFAWKLRQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V+ D+ + + G + L+ + Sbjct: 122 DERVVCMEKTNIRYVKPEDIADRLDFASVDVSFISLTKVLGPARELLNDNGEMVCLIK 179 >gi|146283956|ref|YP_001174109.1| pseudouridine synthase [Pseudomonas stutzeri A1501] gi|145572161|gb|ABP81267.1| pseudouridine synthase [Pseudomonas stutzeri A1501] gi|327482283|gb|AEA85593.1| pseudouridine synthase [Pseudomonas stutzeri DSM 4166] Length = 324 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 25/232 (10%), Positives = 63/232 (27%), Gaps = 32/232 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------DGV 65 QR+ +V A+ SR + I + V+G +L V + +E+ G Sbjct: 21 GQRLDQVAAQLFSEHSRSRLAAWIKDGLLTVDGAVLR-PRDTVHAGAVLELSAEQQAQGE 79 Query: 66 P--------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----------R 107 + + L + +V + + + L + Sbjct: 80 WVAQDIPLDIVYEDDQILVIDKPAGLVVHPAAGHADGTLLNALLHHVPDLINVPRAGIVH 139 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR------VYRVRFHGQVDQDKLNLL 161 + + L + ++ ++ + Sbjct: 140 RLDKDTTGLMVVAKTLQAQTRLVEQLQARSVSRIYEAIVIGVIITGGTVDAPIGRHGQQR 199 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ + + Sbjct: 200 QRMAVVEGGKPAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMTHLGYPLV 251 >gi|254253495|ref|ZP_04946813.1| Ribosomal protein S4 [Burkholderia dolosa AUO158] gi|124896104|gb|EAY69984.1| Ribosomal protein S4 [Burkholderia dolosa AUO158] Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNGI+ + V + D I + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGIVANIPSQQVKAGDVIAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 ESLSLAEQGGMPS 170 >gi|330722391|gb|EGH00239.1| SSU ribosomal protein S4p (S9e) [gamma proteobacterium IMCC2047] Length = 206 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG + + + + D + V Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKSITVNGETVNVPSYKIKAGDVVAV 145 >gi|291456443|ref|ZP_06595833.1| ribosomal RNA large subunit methyltransferase J [Bifidobacterium breve DSM 20213] gi|291381720|gb|EFE89238.1| ribosomal RNA large subunit methyltransferase J [Bifidobacterium breve DSM 20213] Length = 248 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 26/51 (50%), Gaps = 2/51 (3%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD-HIEVD 63 R+ ++ A + SR + +R+I V+V+G + + + V + + VD Sbjct: 5 RLDMMLVASDLVESRSKAQRLIKAGHVRVDGETITKPSFMVKAGHCELAVD 55 >gi|261380320|ref|ZP_05984893.1| ribosomal large subunit pseudouridine synthase D [Neisseria subflava NJ9703] gi|284796836|gb|EFC52183.1| ribosomal large subunit pseudouridine synthase D [Neisseria subflava NJ9703] Length = 374 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 31/229 (13%), Positives = 65/229 (28%), Gaps = 32/229 (13%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILL---------ERAAVNVMST------- 57 R+ V+A+ SR + I + V VN E AV V + Sbjct: 40 RLDAVLAKLMPDYSRSRLSSWIKEGAVIVNDKPAQPKDKMIGGELIAVTVRPSEENLAFT 99 Query: 58 ------DHIEVDGVPLRKAERTRLWLYHKPIGLV---------TTHSDPDGRSTVFDNLP 102 D I D + + L ++ + Sbjct: 100 PEPMDLDIIYEDDTVIVINKPAGLVVHPAAGNWSGTLLNGLLAHCPELSQVPRAGIVHRL 159 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + + V + + L+ + + + + + Q+ +D N LK Sbjct: 160 DKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAIANGIVPFDGKIETQIGRDPHNRLK 219 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +V G V + + +++++ L G+ +I+ N Sbjct: 220 MAVVKFGGKPAITHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|149194782|ref|ZP_01871877.1| Pseudouridine synthase, RluD [Caminibacter mediatlanticus TB-2] gi|149135205|gb|EDM23686.1| Pseudouridine synthase, RluD [Caminibacter mediatlanticus TB-2] Length = 293 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 30/208 (14%), Positives = 59/208 (28%), Gaps = 28/208 (13%) Query: 29 REVERMIAQQRVKVNGILLERAAVN-------------------VMSTDHIEVDGVPLRK 69 RE +R I + RV +NG + + + + TDH + P Sbjct: 28 REAKRAIDRGRVSINGKRVTQKSFKASGILKCIVFEPNGYGLKPIFETDHFAIFDKPSGV 87 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 A + K + + + V VI+ + N Sbjct: 88 AIHPKKLANTKSLLDDVRLLYGNDANLVHRLDKETSGLVIASKNKFAESILKQAFQNKEI 147 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC----YGDMQVTLDTQKGS 185 + L L + ++ V++D+ +K I +G ++ G Sbjct: 148 QKKYLALIKGHLDKEITIKKPIAVNKDENIKVKVIISDEGKESITLVKPIKKI-----GK 202 Query: 186 NAWVTVGLREGKNREIKKVFEFFNWKVN 213 N V G+ +I+ + Sbjct: 203 NTLVECIPLTGRQHQIRIHLYSIGHPIV 230 >gi|269303280|gb|ACZ33380.1| RNA pseudouridine synthase family protein [Chlamydophila pneumoniae LPCoLN] Length = 283 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 31/232 (13%), Positives = 63/232 (27%), Gaps = 15/232 (6%) Query: 15 RVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------DGVPL 67 R+S + ++ S++E+ I Q R +VNG + + V D + + P Sbjct: 13 RLSSFLRSQLPNHSKQEILASIRQHRCRVNGFIERFESYKVQPGDRVSLSLIPSTKQQPS 72 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 E +Y KP L T R L S + +G+ L+ L Sbjct: 73 ILWEDDYSIIYEKPPHLTTEQMAHMTRFFTVHRLDKGTSGCLLMGKSKQAATELMKLFKQ 132 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL---LKKGIVIQGICYGDMQVTLDTQKG 184 + + + + + ++ Sbjct: 133 RKIHKQYMALVFGHPKKKFGTVKSYTAPVYRRCGAVIFGAASPSQGKLTITEWSVLDSYK 192 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 + + G+ +I+ + + YGP R + Sbjct: 193 RYSLMLCKPITGRTHQIRLQMGLLGHPIVG--DVDYGP---KEQPPQIFRPL 239 >gi|49079326|gb|AAT49880.1| PA4239 [synthetic construct] Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V + D + V Sbjct: 97 RLDNVVYRMGFGSTRSESRQLVSHKAITVNGQTVNIPSYQVKAGDVVAV 145 >gi|15599435|ref|NP_252929.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa PAO1] gi|107103755|ref|ZP_01367673.1| hypothetical protein PaerPA_01004826 [Pseudomonas aeruginosa PACS2] gi|116052274|ref|YP_788880.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa UCBPP-PA14] gi|218889432|ref|YP_002438296.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa LESB58] gi|254237103|ref|ZP_04930426.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa C3719] gi|254242910|ref|ZP_04936232.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa 2192] gi|296387204|ref|ZP_06876703.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa PAb1] gi|313111393|ref|ZP_07797198.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa 39016] gi|12230936|sp|O52759|RS4_PSEAE RecName: Full=30S ribosomal protein S4 gi|122261423|sp|Q02T56|RS4_PSEAB RecName: Full=30S ribosomal protein S4 gi|226699107|sp|B7V667|RS4_PSEA8 RecName: Full=30S ribosomal protein S4 gi|9950456|gb|AAG07627.1|AE004841_5 30S ribosomal protein S4 [Pseudomonas aeruginosa PAO1] gi|115587495|gb|ABJ13510.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa UCBPP-PA14] gi|126169034|gb|EAZ54545.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa C3719] gi|126196288|gb|EAZ60351.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa 2192] gi|218769655|emb|CAW25415.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa LESB58] gi|310883700|gb|EFQ42294.1| 30S ribosomal protein S4 [Pseudomonas aeruginosa 39016] Length = 206 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V + D + V Sbjct: 97 RLDNVVYRMGFGSTRSESRQLVSHKAITVNGQTVNIPSYQVKAGDVVAV 145 >gi|296313389|ref|ZP_06863330.1| ribosomal protein S4 [Neisseria polysaccharea ATCC 43768] gi|296840099|gb|EFH24037.1| ribosomal protein S4 [Neisseria polysaccharea ATCC 43768] Length = 206 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIAVNGQVVNIPSFQVKAGDVVSVREKAKKQVRIQ 156 >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 = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 20/102 (19%), Positives = 40/102 (39%), Gaps = 7/102 (6%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH---IEVDGV 65 + T R+SK+++ + + SR + + +I +V + + + D IE+DG Sbjct: 8 KRSTLLRLSKILSLSAVTSRGKAQELIKNGKV----KVNNQVVRQNVVVDINSAIELDGK 63 Query: 66 PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 P+ T+LW +KP + + L Sbjct: 64 PILVDVTTKLWGIYKPKHVFCSSETNYEYEEKKQALKIAPPH 105 Score = 42.5 bits (98), Expect = 0.10, Method: Composition-based stats. Identities = 34/136 (25%), Positives = 64/136 (47%), Gaps = 1/136 (0%) Query: 96 TVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ 155 T + I +I V L ++EGL+LLTNDG AR L+ + Y V+ ++ Sbjct: 212 TKNNIANDIPEHLIVVNSLSASSEGLVLLTNDGDFARNLKGIENNIITSYIVKVKEELTN 271 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSN-AWVTVGLREGKNREIKKVFEFFNWKVNR 214 +K+ L++KG + + + V + Q S+ W+ + E + + +F + + + Sbjct: 272 EKIKLIEKGCNVGDVHIRPLDVHVIKQHSSSPKWIKLTYVEKSHTYLNLLFSKYGLTIRK 331 Query: 215 LIRISYGPFQLGTLLA 230 R S+GP++ L Sbjct: 332 CKRFSFGPYKASDLSE 347 >gi|167856725|ref|ZP_02479400.1| putative large adhesin [Haemophilus parasuis 29755] gi|167852151|gb|EDS23490.1| putative large adhesin [Haemophilus parasuis 29755] Length = 654 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 20/112 (17%), Positives = 30/112 (26%), Gaps = 1/112 (0%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + + GP + Q A + + E D R + + G + Sbjct: 463 KGEQGPTGPQGPQGIAGAQGPKGDKGDPGQAGPKGEKGDTGPRGETGPAGPVGPRGETGP 522 Query: 302 ATPVHRRNLASNVWM-AKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 A PV R A G R E P+ P + R A Sbjct: 523 AGPVGPRGEAGPAGATGPQGPKGDNGSPGARGEKGEPGPAGPVGPAGPRGPA 574 >gi|156089455|ref|XP_001612134.1| hypothetical protein [Babesia bovis T2Bo] gi|154799388|gb|EDO08566.1| hypothetical protein BBOV_III010100 [Babesia bovis] Length = 329 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 13/36 (36%), Positives = 21/36 (58%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLER 49 R+S+ AR GI SR +R+I + V +NG ++ Sbjct: 3 IRISQFCARVGICSRGAAKRLIKKGHVLLNGTAVKS 38 >gi|107024278|ref|YP_622605.1| 30S ribosomal protein S4 [Burkholderia cenocepacia AU 1054] gi|116688397|ref|YP_834020.1| 30S ribosomal protein S4 [Burkholderia cenocepacia HI2424] gi|170731707|ref|YP_001763654.1| 30S ribosomal protein S4 [Burkholderia cenocepacia MC0-3] gi|206558666|ref|YP_002229426.1| 30S ribosomal protein S4 [Burkholderia cenocepacia J2315] gi|254246578|ref|ZP_04939899.1| Ribosomal protein S4 [Burkholderia cenocepacia PC184] gi|123371103|sp|Q1BRX3|RS4_BURCA RecName: Full=30S ribosomal protein S4 gi|152060938|sp|A0K3Q0|RS4_BURCH RecName: Full=30S ribosomal protein S4 gi|226697814|sp|B1JU47|RS4_BURCC RecName: Full=30S ribosomal protein S4 gi|226697815|sp|B4E5E5|RS4_BURCJ RecName: Full=30S ribosomal protein S4 gi|105894467|gb|ABF77632.1| SSU ribosomal protein S4P [Burkholderia cenocepacia AU 1054] gi|116646486|gb|ABK07127.1| SSU ribosomal protein S4P [Burkholderia cenocepacia HI2424] gi|124871354|gb|EAY63070.1| Ribosomal protein S4 [Burkholderia cenocepacia PC184] gi|169814949|gb|ACA89532.1| ribosomal protein S4 [Burkholderia cenocepacia MC0-3] gi|198034703|emb|CAR50570.1| 30S ribosomal protein S4 [Burkholderia cenocepacia J2315] Length = 207 Score = 50.6 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG++ + V + D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGVVANVPSQQVKAGDVVAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|223984454|ref|ZP_03634588.1| hypothetical protein HOLDEFILI_01882 [Holdemania filiformis DSM 12042] gi|223963578|gb|EEF67956.1| hypothetical protein HOLDEFILI_01882 [Holdemania filiformis DSM 12042] Length = 211 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RR +++ + VNG ++ + V +EV Sbjct: 104 RLDNIVYRMGFARTRRAARQLVNHGHILVNGKKVDIPSFTVKPGSTVEV 152 >gi|182418834|ref|ZP_02950099.1| ribosomal protein S4 [Clostridium butyricum 5521] gi|237666637|ref|ZP_04526622.1| ribosomal protein S4 [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377331|gb|EDT74892.1| ribosomal protein S4 [Clostridium butyricum 5521] gi|237657836|gb|EEP55391.1| ribosomal protein S4 [Clostridium butyricum E4 str. BoNT E BL5262] Length = 206 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G SR E +++ VNG ++ + +V + D I V Sbjct: 98 MRLDNVVYRLGYGASRNEARQLVTHGHFLVNGKKVDICSYSVSANDVITV 147 >gi|163782710|ref|ZP_02177706.1| hemolysin [Hydrogenivirga sp. 128-5-R1-1] gi|159881831|gb|EDP75339.1| hemolysin [Hydrogenivirga sp. 128-5-R1-1] Length = 256 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K++ G + SR + + +I +V V G +++ + + +EV Sbjct: 2 VRLDKLLFERGLVDSREKAQALIMAGQVFVEGRRVDKPGTRLKGDERVEV 51 >gi|332798233|ref|YP_004459732.1| 30S ribosomal protein S4 [Tepidanaerobacter sp. Re1] gi|332695968|gb|AEE90425.1| ribosomal protein S4 [Tepidanaerobacter sp. Re1] Length = 208 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R + +++ V+VNG + + V D + + Sbjct: 99 RLDNVVFRMGFASSRPQARQLVRYGHVQVNGKRVTIPSYQVKEKDVVAI 147 >gi|241760159|ref|ZP_04758257.1| ribosomal large subunit pseudouridine synthase D [Neisseria flavescens SK114] gi|241319613|gb|EER56043.1| ribosomal large subunit pseudouridine synthase D [Neisseria flavescens SK114] Length = 374 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 32/229 (13%), Positives = 65/229 (28%), Gaps = 32/229 (13%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILL---------ERAAVNVMST------- 57 R+ V+A+ SR + I + V VN E AV V + Sbjct: 40 RLDAVLAKLMPDYSRSRLSSWIKEGAVIVNDKPAQPKDKMIGGELIAVTVRPSEENLAFT 99 Query: 58 ------DHIEVDGVPLRKAERTRLWLYHKPIGLV---------TTHSDPDGRSTVFDNLP 102 D I D + + L ++ + Sbjct: 100 PEPMDLDIIYEDDAVIVINKPAGLVVHPAAGNWSGTLLNGLLAHCPELSQVPRAGIVHRL 159 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + + V + + L+ + + + + + Q+ +D N LK Sbjct: 160 DKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRLK 219 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +V G V + + S++++ L G+ +I+ N Sbjct: 220 MAVVKFGGKPAITHVKVLERYLSHSYIECSLETGRTHQIRVHMREANHP 268 >gi|146320632|ref|YP_001200343.1| YlyB [Streptococcus suis 98HAH33] gi|145691438|gb|ABP91943.1| YlyB [Streptococcus suis 98HAH33] Length = 243 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 1/50 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K ++ SR I +V VNG ++A +V D + Sbjct: 9 GIRLDKALSDLTDLSRSVANEQIKAGQVLVNGQP-KKAKYSVQVGDVLTY 57 >gi|68537164|ref|YP_251869.1| putative penicillin-binding protein 1 [Corynebacterium jeikeium K411] gi|68264763|emb|CAI38251.1| putative penicillin-binding protein 1 [Corynebacterium jeikeium K411] Length = 901 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 7/108 (6%), Positives = 18/108 (16%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + + + + + + K K A P Sbjct: 25 GQRKPGQPGRPRQGQSGKPGQPGQPGRRRAANGNPAHAKPTRGRPAQGQSGKPGKPAKPG 84 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + R + +K + Sbjct: 85 QPGKRRAANGKPAQGRPVQGRSAQGRPAQGKPVQRRGTKPVKSGGPRR 132 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 8/98 (8%), Positives = 18/98 (18%), Gaps = 2/98 (2%) Query: 259 APIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAK 318 R + + K + + K P + Sbjct: 1 MSSDKPSKNPFSRDGAGNSGAGRGGQRKPGQPGRPRQGQSGKPGQPGQPGRRRAANGNPA 60 Query: 319 GIHSSFLSDSGQR--EENHRRSPSFPSKRSLRRTSAKK 354 + + + + P P KR + Sbjct: 61 HAKPTRGRPAQGQSGKPGKPAKPGQPGKRRAANGKPAQ 98 Score = 36.3 bits (82), Expect = 7.8, Method: Composition-based stats. Identities = 8/104 (7%), Positives = 15/104 (14%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P + + + + Q + PV Sbjct: 58 NPAHAKPTRGRPAQGQSGKPGKPAKPGQPGKRRAANGKPAQGRPVQGRSAQGRPAQGKPV 117 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 RR ++ P R Sbjct: 118 QRRGTKPVKSGGPRRAAAAAGAGAGAAGAAASQRKRPQNNGQNR 161 >gi|53720796|ref|YP_109782.1| 30S ribosomal protein S4 [Burkholderia pseudomallei K96243] gi|53723829|ref|YP_104141.1| 30S ribosomal protein S4 [Burkholderia mallei ATCC 23344] gi|67640848|ref|ZP_00439641.1| 30S ribosomal protein S4 [Burkholderia mallei GB8 horse 4] gi|76811379|ref|YP_335115.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1710b] gi|121601043|ref|YP_994431.1| 30S ribosomal protein S4 [Burkholderia mallei SAVP1] gi|124384949|ref|YP_001027920.1| 30S ribosomal protein S4 [Burkholderia mallei NCTC 10229] gi|126439277|ref|YP_001060725.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 668] gi|126448998|ref|YP_001083015.1| 30S ribosomal protein S4 [Burkholderia mallei NCTC 10247] gi|134283223|ref|ZP_01769924.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 305] gi|167001674|ref|ZP_02267466.1| 30S ribosomal protein S4 [Burkholderia mallei PRL-20] gi|167721552|ref|ZP_02404788.1| 30S ribosomal protein S4 [Burkholderia pseudomallei DM98] gi|167740526|ref|ZP_02413300.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 14] gi|167817731|ref|ZP_02449411.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 91] gi|167826128|ref|ZP_02457599.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 9] gi|167896212|ref|ZP_02483614.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 7894] gi|167904594|ref|ZP_02491799.1| 30S ribosomal protein S4 [Burkholderia pseudomallei NCTC 13177] gi|167912859|ref|ZP_02499950.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 112] gi|167920818|ref|ZP_02507909.1| 30S ribosomal protein S4 [Burkholderia pseudomallei BCC215] gi|226198240|ref|ZP_03793811.1| 30S ribosomal protein S4 [Burkholderia pseudomallei Pakistan 9] gi|237814120|ref|YP_002898571.1| ribosomal protein S4 [Burkholderia pseudomallei MSHR346] gi|254175265|ref|ZP_04881926.1| 30S ribosomal protein S4 [Burkholderia mallei ATCC 10399] gi|254180364|ref|ZP_04886962.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1655] gi|254190327|ref|ZP_04896835.1| 30S ribosomal protein S4 [Burkholderia pseudomallei Pasteur 52237] gi|254198547|ref|ZP_04904968.1| 30S ribosomal protein S4 [Burkholderia pseudomallei S13] gi|254201214|ref|ZP_04907578.1| 30S ribosomal protein S4 [Burkholderia mallei FMH] gi|254206555|ref|ZP_04912906.1| 30S ribosomal protein S4 [Burkholderia mallei JHU] gi|254260076|ref|ZP_04951130.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1710a] gi|254300601|ref|ZP_04968046.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 406e] gi|61215450|sp|Q62GN0|RS4_BURMA RecName: Full=30S ribosomal protein S4 gi|61215463|sp|Q63Q36|RS4_BURPS RecName: Full=30S ribosomal protein S4 gi|90101678|sp|Q3JMT8|RS4_BURP1 RecName: Full=30S ribosomal protein S4 gi|171769469|sp|A1V878|RS4_BURMS RecName: Full=30S ribosomal protein S4 gi|171769829|sp|A2S7K1|RS4_BURM9 RecName: Full=30S ribosomal protein S4 gi|171855085|sp|A3MRX9|RS4_BURM7 RecName: Full=30S ribosomal protein S4 gi|171855116|sp|A3NEF4|RS4_BURP6 RecName: Full=30S ribosomal protein S4 gi|52211210|emb|CAH37199.1| 30S ribosomal protein S4 [Burkholderia pseudomallei K96243] gi|52427252|gb|AAU47845.1| ribosomal protein S4 [Burkholderia mallei ATCC 23344] gi|76580832|gb|ABA50307.1| ribosomal protein S4 [Burkholderia pseudomallei 1710b] gi|121229853|gb|ABM52371.1| 30S ribosomal protein S4 [Burkholderia mallei SAVP1] gi|124292969|gb|ABN02238.1| 30S ribosomal protein S4 [Burkholderia mallei NCTC 10229] gi|126218770|gb|ABN82276.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 668] gi|126241868|gb|ABO04961.1| 30S ribosomal protein S4 [Burkholderia mallei NCTC 10247] gi|134245418|gb|EBA45511.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 305] gi|147747108|gb|EDK54184.1| 30S ribosomal protein S4 [Burkholderia mallei FMH] gi|147752097|gb|EDK59163.1| 30S ribosomal protein S4 [Burkholderia mallei JHU] gi|157810528|gb|EDO87698.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 406e] gi|157938003|gb|EDO93673.1| 30S ribosomal protein S4 [Burkholderia pseudomallei Pasteur 52237] gi|160696310|gb|EDP86280.1| 30S ribosomal protein S4 [Burkholderia mallei ATCC 10399] gi|169655287|gb|EDS87980.1| 30S ribosomal protein S4 [Burkholderia pseudomallei S13] gi|184210903|gb|EDU07946.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1655] gi|225929760|gb|EEH25776.1| 30S ribosomal protein S4 [Burkholderia pseudomallei Pakistan 9] gi|237504346|gb|ACQ96664.1| ribosomal protein S4 [Burkholderia pseudomallei MSHR346] gi|238521643|gb|EEP85093.1| 30S ribosomal protein S4 [Burkholderia mallei GB8 horse 4] gi|243062571|gb|EES44757.1| 30S ribosomal protein S4 [Burkholderia mallei PRL-20] gi|254218765|gb|EET08149.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 1710a] Length = 207 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNGI+ + V + D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGIVANIPSQQVKAGDVVAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|329946512|ref|ZP_08294028.1| ribosomal RNA large subunit methyltransferase J [Actinomyces sp. oral taxon 170 str. F0386] gi|328527143|gb|EGF54148.1| ribosomal RNA large subunit methyltransferase J [Actinomyces sp. oral taxon 170 str. F0386] Length = 290 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G+A SR +I V ++G+++ + A V IE+ Sbjct: 5 IRIDSELVRRGLARSRTHAATLITDGHVTLDGVVVTKPARQVNPAQAIEI 54 >gi|315283065|ref|ZP_07871338.1| S4 domain-containing protein [Listeria marthii FSL S4-120] gi|313613292|gb|EFR87163.1| S4 domain-containing protein [Listeria marthii FSL S4-120] Length = 163 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 83 TVSSMRLDVIISNAHHISRQKAKQLVVAGLVKVNWKTVENPDFECEEEDV 132 >gi|313679572|ref|YP_004057311.1| ribosomal large subunit pseudouridine synthase d [Oceanithermus profundus DSM 14977] gi|313152287|gb|ADR36138.1| ribosomal large subunit pseudouridine synthase D [Oceanithermus profundus DSM 14977] Length = 306 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 24/237 (10%), Positives = 65/237 (27%), Gaps = 38/237 (16%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN---------------- 53 +R+ + +ARA SR + I+ V+V G ++ + A Sbjct: 8 EAEGERLDQALARALGVSRARAQAWISAGHVRVAGEVVTKPARRLAGERVEVEVPPEPPA 67 Query: 54 -VMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR---VI 109 V + D + V+ + + + + + + V L + Sbjct: 68 RVEAED-LTVE---ILYEDEDMVVVNKPAGMVTHPAPGVTRGTLVNALLGRWVEPGGEPV 123 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVD--------------Q 155 G + + + L + + + + + + + + Sbjct: 124 RPGIVHRLDKETSGVIVVARHEAALRRLADAFKQRFVFKRYVALTEGVPANTTVIAPIGR 183 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 ++ K Y + + A V G+ +I+ + + + Sbjct: 184 HPVHRFKMHTGGIKARYAETDFEVVATAEGRALVEARPHTGRTHQIRVHLKHLHTPI 240 >gi|289578295|ref|YP_003476922.1| hemolysin A [Thermoanaerobacter italicus Ab9] gi|289528008|gb|ADD02360.1| hemolysin A [Thermoanaerobacter italicus Ab9] Length = 266 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 11 FTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ + G S RE + I V V+G +E+A V IEV Sbjct: 3 SKKERLDVLLVQKGFFSSREKAKASIMAGEVYVDGKKIEKAGEFVNIDSSIEV 55 >gi|253996250|ref|YP_003048314.1| RluA family pseudouridine synthase [Methylotenera mobilis JLW8] gi|253982929|gb|ACT47787.1| pseudouridine synthase, RluA family [Methylotenera mobilis JLW8] Length = 368 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 27/224 (12%), Positives = 58/224 (25%), Gaps = 35/224 (15%) Query: 16 VSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------- 66 + +++ SR ++ I V V+G A V + + VD Sbjct: 30 LQRLLPEH---SRSRLQSWIKSGLVTVDGK-ASTAKTKVWGGEKVSVDVQVKPESRAFIA 85 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV-----ISVGRLD 115 + + L + +V + + + L V RLD Sbjct: 86 QDIPLDIVYEDDHILVVNKPAGMVVHPAAGNWDGTLLNALLFHAPQLHDVPRAGIVHRLD 145 Query: 116 INTEGLLLLTNDGGLARVLELPST----QWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 T GLL++ L + V + L + + Sbjct: 146 KETSGLLVVAKTLNAQTHLVRQLQARTVKREYRAIVWGQLWRNGVVDQPLGRDPRSRTKM 205 Query: 172 Y-----GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + + ++ L G+ +I+ + Sbjct: 206 AINRMGKPAITRYEILERFSVQTYLRCNLETGRTHQIRVHMQHL 249 >gi|209550662|ref|YP_002282579.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii WSM2304] gi|209536418|gb|ACI56353.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 341 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 12/63 (19%), Positives = 29/63 (46%), Gaps = 3/63 (4%) Query: 3 DKNIVQENFTPQ-RVSKVI-ARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 ++ ++ + T + R+ + A+ G SR ++ +I +V + G + V + D Sbjct: 11 NRKVLTADETAEGRLDAWLTAQVGEEFSRSRIKALIKDGQVSLRGEPVTDPQRKVRNGDS 70 Query: 60 IEV 62 E+ Sbjct: 71 FEI 73 >gi|295695962|ref|YP_003589200.1| pseudouridine synthase, RluA family [Bacillus tusciae DSM 2912] gi|295411564|gb|ADG06056.1| pseudouridine synthase, RluA family [Bacillus tusciae DSM 2912] Length = 308 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 68/243 (27%), Gaps = 36/243 (14%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V +R+ + +A R SR +++ I + RV+V G +A+ V + + V+ Sbjct: 14 VVDPEEAGERLDRFLAERLADTSRSQIQGWIDEGRVRV-GERPVKASHRVRPGEDVLVEP 72 Query: 65 V--------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + + + +V + V L Sbjct: 73 PEPEPLELVPEPIPLKIVFEDEDVVVVDKPRGLVVHPAPGHSRGTLVHGLLAHCGRLSRL 132 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------- 155 G L + G L + L + Sbjct: 133 GGSLRPGIVHRIDRDTSGLLVAAKTDLAYMGLAKQFHDHTVDREYLALVHGVVPHDHGTV 192 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 +L ++ V++G + + + + L G+ +I+ EF + Sbjct: 193 DAPVGRHPHLRQQMAVVRGGRPAVTHFIVIERFARATLLRLRLETGRTHQIRVHMEFIGF 252 Query: 211 KVN 213 V Sbjct: 253 PVI 255 >gi|282849742|ref|ZP_06259126.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC 17745] gi|282580679|gb|EFB86078.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC 17745] Length = 289 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 35/228 (15%), Positives = 68/228 (29%), Gaps = 33/228 (14%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNV-MSTDHIEVD-------GVPLR 68 SK + S R+++ M ++RVKVN + V D + ++ GV + Sbjct: 17 SKYVKERFSLSSRDIQMMFRKKRVKVNSRVAHS--QRVLKKGDVLTLELPQDKDYGVDVE 74 Query: 69 KAERTRLWL--------------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 + T L+ H + R + Sbjct: 75 QGPITVLYEDAHTLVVNKAPFMLVHPAGQTKSCTLSNYVAGYYAKKNVVHKVRPVHRLDR 134 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------LKKGIVI 167 D + L T + EL + + R+Y G++D D + + + Sbjct: 135 DTSGCILFGKTKEAQQYYTDELQAGRIDRIYTGLVEGRIDADGMVDAPIGVDPVFDNRRV 194 Query: 168 QGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + T+ +G N + L G+ +I+ E + Sbjct: 195 IDEFGQPAQTEYTVLGYEGDNTLLRFKLLTGRTHQIRVHMEHIGHPIV 242 >gi|297544575|ref|YP_003676877.1| hemolysin A [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296842350|gb|ADH60866.1| hemolysin A [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 266 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 11 FTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ + G S RE + I V V+G +E+A V IEV Sbjct: 3 SKKERLDVLLVQKGFFSSREKAKASIMAGEVYVDGKKIEKAGEFVNIDSSIEV 55 >gi|254693218|ref|ZP_05155046.1| Cell division protein FtsJ [Brucella abortus bv. 3 str. Tulya] gi|261213461|ref|ZP_05927742.1| hemolysin A [Brucella abortus bv. 3 str. Tulya] gi|260915068|gb|EEX81929.1| hemolysin A [Brucella abortus bv. 3 str. Tulya] Length = 253 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V+ + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVVRDAALAVDD 61 >gi|224373704|ref|YP_002608076.1| 30S ribosomal protein S4 [Nautilia profundicola AmH] gi|254764602|sp|B9L6T8|RS4_NAUPA RecName: Full=30S ribosomal protein S4 gi|223590010|gb|ACM93746.1| ribosomal protein S4 [Nautilia profundicola AmH] Length = 208 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS RR +++ + VNG + + V D IE+ Sbjct: 99 RLDNVVYRMGFASTRRFARQLVTHGHILVNGKKVNIPSYLVKEGDRIEI 147 >gi|306842278|ref|ZP_07474940.1| hemolysin A [Brucella sp. BO2] gi|306287586|gb|EFM59037.1| hemolysin A [Brucella sp. BO2] Length = 253 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVARDAALAVDD 61 >gi|294155753|ref|YP_003560137.1| ribosomal large subunit pseudouridylate synthase C [Mycoplasma crocodyli MP145] gi|291600008|gb|ADE19504.1| ribosomal large subunit pseudouridylate synthase C [Mycoplasma crocodyli MP145] Length = 280 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 29/251 (11%), Positives = 66/251 (26%), Gaps = 43/251 (17%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG-----------------VPLRK 69 SR +E++ ++ +KVNGI + + D IE+ G + + Sbjct: 29 SR--IEKLFRKKDIKVNGIRTNQKDYTIAFNDQIEIYGLIDIKKEEAPLISSFSFKKIYE 86 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 + I + ++ + D + + + S S ++L Sbjct: 87 DNNILIIDKPNGIEVHSSPNCLDNQVLAYLKFKQVDSFKPSHVGRLDKETSGIMLYAKNY 146 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV 189 A + + + ++ K L + K S Sbjct: 147 QALKYLNDNMENIIKTYTFKSDFNEESKDVELYLYKDEDKKRMAASFTKVPYSKLSKTHF 206 Query: 190 TV-------GLREGKNREIKKVFEFFNWKV-------------NRLIRISYGPFQLGTLL 229 + L G+ +I+ + L + QL Sbjct: 207 YLESNKKYATLSSGRKHQIRVSLMKLGKPIYGDFKYGGKKAGRLMLHCLQIKFQQL---- 262 Query: 230 AGSTREVSKKI 240 G + +++ Sbjct: 263 EGEFKYLNELE 273 >gi|154498042|ref|ZP_02036420.1| hypothetical protein BACCAP_02023 [Bacteroides capillosus ATCC 29799] gi|150273032|gb|EDN00189.1| hypothetical protein BACCAP_02023 [Bacteroides capillosus ATCC 29799] Length = 268 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 1/56 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ ++ G+ SR++ + +I +V V G +++A T IEV G L Sbjct: 5 RLDVLLCERGLMESRQKAQAVIMAGQVYVGGQKVDKAGAQTEETAEIEVRGKTLAY 60 >gi|70732611|ref|YP_262374.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas fluorescens Pf-5] gi|68346910|gb|AAY94516.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas fluorescens Pf-5] Length = 353 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 30/236 (12%), Positives = 62/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G ++ V Sbjct: 50 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGAVIR-PRDIVHGGSILELTAEQEAQG 107 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L I + Sbjct: 108 EWIAQDIELD---IVYEDDDILVINKPAGLVVHPAAGHADGTLLNALLHHIPDIINVPRA 164 Query: 114 LDINTEG----------------LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+ + V Sbjct: 165 GIVHRLDKDTTGLMVVAKTIQAQTQLVAQLQSRSVSRIYECIVIGVVTAGGKINAPIGRH 224 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 225 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINFPLV 280 >gi|121997625|ref|YP_001002412.1| ribosomal protein S4 [Halorhodospira halophila SL1] gi|152060952|sp|A1WV98|RS4_HALHL RecName: Full=30S ribosomal protein S4 gi|121589030|gb|ABM61610.1| SSU ribosomal protein S4P [Halorhodospira halophila SL1] Length = 207 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 27/73 (36%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V R G S R E +++ + V VNG ++ + V D + V + Sbjct: 98 RLDNVCYRMGFGSTRAEARQLVNHRGVLVNGRVVNIPSYQVQPGDTVSVKEKAKSQLRIQ 157 Query: 74 RLWLYHKPIGLVT 86 + G + Sbjct: 158 AALELAQQNGWAS 170 >gi|315639612|ref|ZP_07894752.1| S4 domain-containing protein YlmH [Enterococcus italicus DSM 15952] gi|315484573|gb|EFU75029.1| S4 domain-containing protein YlmH [Enterococcus italicus DSM 15952] Length = 260 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 26/56 (46%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ VIA SR+ +++I +VKVN + +R + D + + G Sbjct: 178 TTVSSMRLDTVIANVFSISRQRSKQLIEAGKVKVNWRVAQRPDFMLELLDIVSIRG 233 >gi|284051997|ref|ZP_06382207.1| hemolysin A [Arthrospira platensis str. Paraca] gi|291568827|dbj|BAI91099.1| hemolysin-like protein [Arthrospira platensis NIES-39] Length = 278 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 9/54 (16%) Query: 14 QRVS-----KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ + ++ SR++ +R+I V VN ++++ V + I+V Sbjct: 3 QRLDTLLVDRHLSE----SRQQAQRLIRAGEVMVNRQVVDKPGTEVDISATIDV 52 >gi|227891072|ref|ZP_04008877.1| 30S ribosomal protein S4 [Lactobacillus salivarius ATCC 11741] gi|227866946|gb|EEJ74367.1| 30S ribosomal protein S4 [Lactobacillus salivarius ATCC 11741] Length = 201 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+AS RR+ +++ + V+G ++ + V I + Sbjct: 94 RLDNVVYRLGLASTRRQARQLVNHGHITVDGKRVDIPSYEVEPGQVISL 142 >gi|118474712|ref|YP_891268.1| 30S ribosomal protein S4 [Campylobacter fetus subsp. fetus 82-40] gi|152060940|sp|A0RM35|RS4_CAMFF RecName: Full=30S ribosomal protein S4 gi|118413938|gb|ABK82358.1| ribosomal protein S4 [Campylobacter fetus subsp. fetus 82-40] Length = 208 Score = 50.2 bits (118), Expect = 4e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V + + IEV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKKVDIPSYRVTAGEKIEV 147 >gi|261400076|ref|ZP_05986201.1| ribosomal protein S4 [Neisseria lactamica ATCC 23970] gi|313667465|ref|YP_004047749.1| 30S ribosomal protein S4 [Neisseria lactamica ST-640] gi|269210301|gb|EEZ76756.1| ribosomal protein S4 [Neisseria lactamica ATCC 23970] gi|309379135|emb|CBX22266.1| 30S ribosomal protein S4 [Neisseria lactamica Y92-1009] gi|313004927|emb|CBN86353.1| 30S ribosomal protein S4 [Neisseria lactamica 020-06] Length = 206 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIAVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 156 >gi|127511116|ref|YP_001092313.1| 30S ribosomal protein S4 [Shewanella loihica PV-4] gi|152112260|sp|A3Q9A6|RS4_SHELP RecName: Full=30S ribosomal protein S4 gi|126636411|gb|ABO22054.1| SSU ribosomal protein S4P [Shewanella loihica PV-4] Length = 206 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D I V Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKSIMVNGRVVNIPSFKVSANDVISV 145 >gi|115443574|ref|YP_778593.1| 30S ribosomal protein S4 [Bigelowiella natans] gi|122233787|sp|Q06J34|RR4_BIGNA RecName: Full=30S ribosomal protein S4, chloroplastic gi|110810219|gb|ABG91425.1| 30S ribosomal protein S4 [Bigelowiella natans] Length = 194 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/59 (22%), Positives = 26/59 (44%), Gaps = 7/59 (11%) Query: 14 QRVSKVIARAGI----ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 R+ ++ R G AS ++I+ + VNG ++ N +D I ++ L+ Sbjct: 84 MRLDTLLYRTGFVPTVAS---ARQLISHGHINVNGKKVDIPGFNCSISDKIVINKEILK 139 >gi|225076527|ref|ZP_03719726.1| hypothetical protein NEIFLAOT_01575 [Neisseria flavescens NRL30031/H210] gi|224952206|gb|EEG33415.1| hypothetical protein NEIFLAOT_01575 [Neisseria flavescens NRL30031/H210] Length = 374 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 31/229 (13%), Positives = 65/229 (28%), Gaps = 32/229 (13%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILL---------ERAAVNVMST------- 57 R+ V+A+ SR + I + V VN E AV V + Sbjct: 40 RLDAVLAKLMPDYSRSRLSSWIKEGAVIVNDKPAQPKDKMIGGELIAVTVRPSEENLAFT 99 Query: 58 ------DHIEVDGVPLRKAERTRLWLYHKPIGLV---------TTHSDPDGRSTVFDNLP 102 D I D + + L ++ + Sbjct: 100 PEPMDLDIIYEDDTVIVINKPAGLVVHPAAGNWSGTLLNGLLAHCSELSQVPRAGIVHRL 159 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + + V + + L+ + + + + + Q+ +D N LK Sbjct: 160 DKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRLK 219 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +V G V + + +++++ L G+ +I+ N Sbjct: 220 MAVVKFGGKPAITHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|166030419|ref|ZP_02233248.1| hypothetical protein DORFOR_00080 [Dorea formicigenerans ATCC 27755] gi|166029777|gb|EDR48534.1| hypothetical protein DORFOR_00080 [Dorea formicigenerans ATCC 27755] Length = 270 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 21/178 (11%), Positives = 51/178 (28%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + +A SR + + +I V V+ ++ IEV G L R Sbjct: 3 ERLDVLLVKRNLAASREKAKAIIMSGNVYVDNQKEDKPGTTFPEESKIEVRGHTLPYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + ++ G + + + D L + Sbjct: 63 GGLKLEKAMKEFQVSVEGKVCTDVGSST-GGFTDCMLQNGAVKVFAIDVGHGQLDWKLRQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V + + + + ++ L + A + Sbjct: 122 DERVVCMEKTNIRYVTPEDIGEPVDFSSIDVSFISLTKVLMPIRDYLTDKGQIVALIK 179 >gi|145596407|ref|YP_001160704.1| ribosomal protein S4 [Salinispora tropica CNB-440] gi|145305744|gb|ABP56326.1| SSU ribosomal protein S4P [Salinispora tropica CNB-440] Length = 208 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ RAG A SR +++ VNG ++ + V D +EV G Sbjct: 99 RLDNVVYRAGYAKSRDMARQLVKHGHFVVNGKKVDIPSYRVKEHDIVEVRGK 150 >gi|78064949|ref|YP_367718.1| 30S ribosomal protein S4 [Burkholderia sp. 383] gi|90101679|sp|Q39KE2|RS4_BURS3 RecName: Full=30S ribosomal protein S4 gi|77965694|gb|ABB07074.1| SSU ribosomal protein S4P [Burkholderia sp. 383] Length = 207 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG++ + V S D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGVVANVPSQQVKSGDVVAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|218135254|ref|ZP_03464058.1| hypothetical protein BACPEC_03159 [Bacteroides pectinophilus ATCC 43243] gi|217990639|gb|EEC56650.1| hypothetical protein BACPEC_03159 [Bacteroides pectinophilus ATCC 43243] Length = 197 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A +R+E +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVIFRMGFARTRKEARQIVDHKHVLVNGKRVNIPSYLVKAGDVIEI 136 >gi|154505142|ref|ZP_02041880.1| hypothetical protein RUMGNA_02655 [Ruminococcus gnavus ATCC 29149] gi|153794621|gb|EDN77041.1| hypothetical protein RUMGNA_02655 [Ruminococcus gnavus ATCC 29149] Length = 181 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 1/65 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G A +R+E +++ + V VNG + + V + D IE+ Sbjct: 72 RLDNVMFRMGFARTRKEARQIVDHKHVLVNGKQVNIPSYLVKAGDVIEIKEKHKDCQRYK 131 Query: 74 RLWLY 78 + Sbjct: 132 DILEV 136 >gi|115350347|ref|YP_772186.1| 30S ribosomal protein S4 [Burkholderia ambifaria AMMD] gi|115280335|gb|ABI85852.1| SSU ribosomal protein S4P [Burkholderia ambifaria AMMD] Length = 213 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG++ + V + D + + ++A Sbjct: 104 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGVVANVPSQQVKAGDIVAIREKAKKQARIV 163 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 164 EALSLAEQGGMPS 176 >gi|307705383|ref|ZP_07642242.1| S4 domain protein [Streptococcus mitis SK597] gi|307621046|gb|EFO00124.1| S4 domain protein [Streptococcus mitis SK597] Length = 261 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 26/48 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + ++I ++ V+VN +++++ V D I V Sbjct: 184 RLDVLLSNVLKLSRNQANQLIEKKLVQVNYHVVDKSDYIVQVGDLISV 231 >gi|299137850|ref|ZP_07031031.1| hemolysin A [Acidobacterium sp. MP5ACTX8] gi|298600491|gb|EFI56648.1| hemolysin A [Acidobacterium sp. MP5ACTX8] Length = 252 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 11/48 (22%), Positives = 23/48 (47%), Gaps = 1/48 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 R+ K++ G+A SR + +I RV V +++ +V + + Sbjct: 4 RLDKLLVDRGLAASRERAQALILAGRVLVEEQRVDKPGTSVEAEAVVR 51 >gi|261337488|ref|ZP_05965372.1| ribosomal large subunit pseudouridine synthase D [Bifidobacterium gallicum DSM 20093] gi|270277883|gb|EFA23737.1| ribosomal large subunit pseudouridine synthase D [Bifidobacterium gallicum DSM 20093] Length = 313 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 26/237 (10%), Positives = 61/237 (25%), Gaps = 40/237 (16%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 +R +A+ SR + ++A +V G +++AAV + D IE+D Sbjct: 14 GKRFDVALAKMTGLSRAKAAELVASGSARVLGRDVDKAAVLL-EGDMIEIDEHDPEPVAE 72 Query: 64 ----GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE 119 + + + + + G + + L Sbjct: 73 PIATDMAIVYEDDDVVVVDKPVGVAAHASVGWTGPTVLGSLLDRGVHITSYGAAGRQGIV 132 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICY------- 172 L + G + + + +R + L +G + + Sbjct: 133 SRLDVGTSGLMLVCKSELAYKEMRRQFSEHEVVKTYE---ALVQGNLQEDKATIDAPIGR 189 Query: 173 --------------GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + G + L G+ +I+ F + Sbjct: 190 AKVSDFRFCITPAGKPAITHWDVLERFGEATLARINLETGRTHQIRVHFSSIGHPLV 246 >gi|254468445|ref|ZP_05081851.1| ribosomal protein S4 [beta proteobacterium KB13] gi|207087255|gb|EDZ64538.1| ribosomal protein S4 [beta proteobacterium KB13] Length = 209 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R GI SR E +++ + VNG + + V D + V Sbjct: 100 RLDNVVYRMGIGVSRSESRQLVRHNSITVNGNRVNIPSYQVKPGDQVAV 148 >gi|83955695|ref|ZP_00964275.1| ribosomal large subunit pseudouridine synthase D [Sulfitobacter sp. NAS-14.1] gi|83839989|gb|EAP79165.1| ribosomal large subunit pseudouridine synthase D [Sulfitobacter sp. NAS-14.1] Length = 344 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 6/59 (10%) Query: 10 NFTPQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + P R+ K +AR A + SR + R++ Q V+V+G ++ + I VD Sbjct: 12 DSPPPRLDKALARDVPEDANL-SRTRLGRLLEQGAVQVDGTVVTDPRSRAEAGQQITVD 69 >gi|326201959|ref|ZP_08191829.1| hemolysin A [Clostridium papyrosolvens DSM 2782] gi|325987754|gb|EGD48580.1| hemolysin A [Clostridium papyrosolvens DSM 2782] Length = 270 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ G+ SR + + I V +NGI ++ V IE+ Sbjct: 2 EKERLDVLLVNKGLFESREKCKSAIMAGLVWINGIREDKPGTKVPVECEIEI 53 >gi|254673628|emb|CBA09173.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis alpha275] Length = 374 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 71/230 (30%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + ++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLIHSYIECSLETGRTHQIRVHMREANHP 268 >gi|187250461|ref|YP_001874943.1| putative rRNA methylase [Elusimicrobium minutum Pei191] gi|186970621|gb|ACC97606.1| putative rRNA methylase [Elusimicrobium minutum Pei191] Length = 258 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 1/58 (1%) Query: 6 IVQENFTPQRVS-KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ N R+ ++IA+ SR + I V VNG + A + D I + Sbjct: 1 MMTSNPKKPRLDMELIAQGFFKSRTRAQASIMAGEVLVNGTVEYGADRKIKPEDIITL 58 >gi|86141165|ref|ZP_01059711.1| 30S ribosomal protein S4 [Leeuwenhoekiella blandensis MED217] gi|85831724|gb|EAQ50179.1| 30S ribosomal protein S4 [Leeuwenhoekiella blandensis MED217] Length = 201 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R GIA SRR ++++ + + VNG L+ + + + D + V Sbjct: 94 RLDNVVFRMGIAPSRRAARQLVSHRHITVNGELVNIPSYQLKAGDVVAV 142 >gi|90962052|ref|YP_535968.1| 30S ribosomal protein S4 [Lactobacillus salivarius UCC118] gi|301300890|ref|ZP_07207062.1| ribosomal protein S4 [Lactobacillus salivarius ACS-116-V-Col5a] gi|122448841|sp|Q1WT66|RS4_LACS1 RecName: Full=30S ribosomal protein S4 gi|90821246|gb|ABD99885.1| SSU ribosomal protein S4P [Lactobacillus salivarius UCC118] gi|300214749|gb|ADJ79165.1| 30S ribosomal protein S4 [Lactobacillus salivarius CECT 5713] gi|300851489|gb|EFK79201.1| ribosomal protein S4 [Lactobacillus salivarius ACS-116-V-Col5a] Length = 201 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+AS RR+ +++ + V+G ++ + V I + Sbjct: 94 RLDNVVYRLGLASTRRQARQLVNHGHITVDGKRVDIPSYEVEPGQVISL 142 >gi|222823138|ref|YP_002574711.1| 30S ribosomal protein S4 [Campylobacter lari RM2100] gi|254764576|sp|B9KEH5|RS4_CAMLR RecName: Full=30S ribosomal protein S4 gi|222538359|gb|ACM63460.1| 30S ribosomal protein S4 [Campylobacter lari RM2100] Length = 208 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V + IEV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKRVDIPSYRVEAGQKIEV 147 >gi|296331117|ref|ZP_06873591.1| factor involved in shape determination, RNA-binding fold protein [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305674272|ref|YP_003865944.1| shape determination protein [Bacillus subtilis subsp. spizizenii str. W23] gi|296151761|gb|EFG92636.1| factor involved in shape determination, RNA-binding fold protein [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305412516|gb|ADM37635.1| factor involved in shape determination, RNA-binding fold protein [Bacillus subtilis subsp. spizizenii str. W23] Length = 257 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 16/62 (25%), Positives = 28/62 (45%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D I + + R+ V A SR++ + ++ VKVN ++E + V D + V Sbjct: 170 DVEIRDDTVSSLRLDAVCASMSRQSRQKSQTLVKNGLVKVNWKVVEDPSYMVAEGDMLSV 229 Query: 63 DG 64 G Sbjct: 230 RG 231 >gi|259503648|ref|ZP_05746550.1| 30S ribosomal protein S4 [Lactobacillus antri DSM 16041] gi|259168367|gb|EEW52862.1| 30S ribosomal protein S4 [Lactobacillus antri DSM 16041] Length = 142 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A+ RR+ +++ + V+G ++ + V I V Sbjct: 35 RLDNMVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSYEVDVNQVIAV 83 >gi|255076295|ref|XP_002501822.1| predicted protein [Micromonas sp. RCC299] gi|226517086|gb|ACO63080.1| predicted protein [Micromonas sp. RCC299] Length = 246 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKV-IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ IA SR V+ IAQ +V VNG + +A + I + Sbjct: 9 RLDELTIAEYPEYSRNVVQSWIAQGKVLVNGQPVTKAGTKLRPDVKIVI 57 >gi|146329810|ref|YP_001210128.1| 30S ribosomal protein S4 [Dichelobacter nodosus VCS1703A] gi|172047329|sp|A5EX95|RS4_DICNV RecName: Full=30S ribosomal protein S4 gi|146233280|gb|ABQ14258.1| 30S ribosomal protein S4 [Dichelobacter nodosus VCS1703A] Length = 206 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G S R E ++++ ++VNG + A+ V + D + V Sbjct: 96 QRLDNVVYRMGYGSTRAEARQLVSHGAIEVNGQRVTIASYQVQAEDIVSV 145 >gi|83941136|ref|ZP_00953598.1| ribosomal large subunit pseudouridine synthase D [Sulfitobacter sp. EE-36] gi|83846956|gb|EAP84831.1| ribosomal large subunit pseudouridine synthase D [Sulfitobacter sp. EE-36] Length = 344 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 6/59 (10%) Query: 10 NFTPQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + P R+ K +AR A + SR + R++ Q V+V+G ++ + I VD Sbjct: 12 DSPPPRLDKALARDVPEDANL-SRTRLGRLLEQGAVQVDGTVVTDPRSRAEAGQQITVD 69 >gi|331268344|ref|YP_004394836.1| S4 domain-containing protein [Clostridium botulinum BKT015925] gi|329124894|gb|AEB74839.1| S4 domain protein [Clostridium botulinum BKT015925] Length = 93 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV +NG + + + + D IEV Sbjct: 5 MRLDKYLKVSRIIKRRTVAKEACESGRVFINGKVAK-PSSEINEDDIIEV 53 >gi|110004829|emb|CAK99162.1| probable ribosomal 23s rrna methyltransferase protein [Spiroplasma citri] Length = 269 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/57 (21%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ +++ +A SR + + MI V V+ + + V I++ G L+ Sbjct: 3 IRLDQLMVNNNLAPSREKAKAMILANNVLVDNVPALKPGELVKLDSIIKLRGERLKY 59 >gi|325203287|gb|ADY98740.1| ribosomal protein S4 [Neisseria meningitidis M01-240355] Length = 206 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSFQVKAGDVVSVREKAKKQVRIQ 156 >gi|256090913|ref|XP_002581414.1| ribosomal pseudouridine synthase [Schistosoma mansoni] gi|238667306|emb|CAZ37653.1| ribosomal pseudouridine synthase, putative [Schistosoma mansoni] Length = 165 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 24/140 (17%), Positives = 40/140 (28%), Gaps = 15/140 (10%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--------DGVP 66 R+ K +A SR + I Q+RV VNG ++A V D I D Sbjct: 7 RLDKALADLTPLSRSQANDQIKQKRVLVNGSP-KKAKYIVQVGDCISYHIPEESSLDYQA 65 Query: 67 ------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 + + + +V + + V L + G + Sbjct: 66 QDIPLDIVYQDDVLAIINKPQGMVVHPSAGHSTGTLVNALLYHVKDLSSINGVIRPGIVH 125 Query: 121 LLLLTNDGGLARVLELPSTQ 140 + G L + Q Sbjct: 126 RIDKDTSGLLMVAKTDKAHQ 145 >gi|167587747|ref|ZP_02380135.1| 30S ribosomal protein S4 [Burkholderia ubonensis Bu] Length = 207 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNGI+ + V + D I + Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGIVANVPSQQVKAGDVIAI 146 >gi|118444469|ref|YP_877122.1| S4 domain-containing protein [Clostridium novyi NT] gi|118134925|gb|ABK61969.1| S4 domain protein [Clostridium novyi NT] Length = 89 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV +N + + + V D IEV Sbjct: 1 MRLDKYLKVSRIIKRRTIAKEACESGRVFINDKVAK-PSTEVNENDIIEV 49 >gi|157165235|ref|YP_001466990.1| RNA pseudouridine synthase family protein [Campylobacter concisus 13826] gi|112800923|gb|EAT98267.1| hypothetical RNA pseudouridine synthase aq_1758 (RNA-uridine isomerase) (RNA pseudouridylate synthase) [Campylobacter concisus 13826] Length = 252 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 26/198 (13%), Positives = 59/198 (29%), Gaps = 3/198 (1%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLRKAERTRL 75 K++A+ S E + +I V G + A + ++ P E L Sbjct: 8 KILAKQKNISNNEAKELIDSGLVYAKGQKVMIARALMSENTKFSIEEMPKPSVIFEDENL 67 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP + + + + L S V+ + + D + + ++ Sbjct: 68 IAINKPAAITSEKISQIYKFPLLHRLDKDTSGVLLLVKNDEFASLAINEFKKMKVEKIYV 127 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + V + N I + +++ G V V ++ Sbjct: 128 AAVRGIMSEEVVVNEPILTIKNKNGAFSKIS-KDGKEAISEISPLMVVGKKTLVKVVIKT 186 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ N + Sbjct: 187 GRTHQIRVHLASLNLPIV 204 >gi|17987780|ref|NP_540414.1| hemolysin [Brucella melitensis bv. 1 str. 16M] gi|225851973|ref|YP_002732206.1| hemolysin A [Brucella melitensis ATCC 23457] gi|256044154|ref|ZP_05447061.1| hemolysin A [Brucella melitensis bv. 1 str. Rev.1] gi|256112957|ref|ZP_05453865.1| hemolysin A [Brucella melitensis bv. 3 str. Ether] gi|256264519|ref|ZP_05467051.1| cell division protein FtsJ [Brucella melitensis bv. 2 str. 63/9] gi|260563511|ref|ZP_05833997.1| cell division protein FtsJ [Brucella melitensis bv. 1 str. 16M] gi|265990566|ref|ZP_06103123.1| hemolysin A [Brucella melitensis bv. 1 str. Rev.1] gi|265994396|ref|ZP_06106953.1| hemolysin A [Brucella melitensis bv. 3 str. Ether] gi|17983504|gb|AAL52678.1| hemolysin [Brucella melitensis bv. 1 str. 16M] gi|225640338|gb|ACO00252.1| hemolysin A [Brucella melitensis ATCC 23457] gi|260153527|gb|EEW88619.1| cell division protein FtsJ [Brucella melitensis bv. 1 str. 16M] gi|262765509|gb|EEZ11298.1| hemolysin A [Brucella melitensis bv. 3 str. Ether] gi|263001350|gb|EEZ13925.1| hemolysin A [Brucella melitensis bv. 1 str. Rev.1] gi|263094852|gb|EEZ18590.1| cell division protein FtsJ [Brucella melitensis bv. 2 str. 63/9] gi|326408469|gb|ADZ65534.1| hemolysin A [Brucella melitensis M28] gi|326538186|gb|ADZ86401.1| hemolysin A [Brucella melitensis M5-90] Length = 253 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V+ + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVVRDAALAVDD 61 >gi|332982681|ref|YP_004464122.1| 30S ribosomal protein S4P [Mahella australiensis 50-1 BON] gi|332700359|gb|AEE97300.1| SSU ribosomal protein S4P [Mahella australiensis 50-1 BON] Length = 206 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ + R G A SR + +++ + VNG + + +V D I V G Sbjct: 98 RLDNTVYRIGFADSRAQARQLVRHGHITVNGRKVNIPSYSVKPGDIIAVKG 148 >gi|313891514|ref|ZP_07825127.1| pseudouridine synthase, RluA family [Dialister microaerophilus UPII 345-E] gi|313120091|gb|EFR43270.1| pseudouridine synthase, RluA family [Dialister microaerophilus UPII 345-E] Length = 307 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 25/245 (10%), Positives = 66/245 (26%), Gaps = 40/245 (16%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQ-RVKVNGILLERAAVNVMSTDHIEVDGV 65 V E R+ + + +R EV++ I + + + ++ ++ + I+ Sbjct: 8 VDEKQDGMRLDQFLKEVSGLTRSEVQKWIKEGYAISLPNRMVRS-NYHISDKEKIQFSWE 66 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + +V + + V L ++ V Sbjct: 67 EKKEIELIPQKIKLDILYEDEHIIVINKSRGMVVHPGAGNIDNTLVNALLYHCGESLLKV 126 Query: 112 G-RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 G + L G + V + + ++ + L + G Sbjct: 127 GEKTRPGIVHRLDKDTSGVMVAVKSDIAYEKVKNEIATHEAKRTYLTLVH-GQMEGPDGK 185 Query: 171 CYGD--------MQVTLDTQKGSN--------------AWVTVGLREGKNREIKKVFEFF 208 M+ + + G N + + L G+ +I+ + Sbjct: 186 IDLPLGRSLKDRMKWDVQPKTGKNAITHFHVLEFMTKYSLLECKLETGRTHQIRVHMSYI 245 Query: 209 NWKVN 213 V Sbjct: 246 GHPVI 250 >gi|187933335|ref|YP_001886589.1| hemolysin A [Clostridium botulinum B str. Eklund 17B] gi|187721488|gb|ACD22709.1| hemolysin A [Clostridium botulinum B str. Eklund 17B] Length = 269 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 22/146 (15%), Positives = 45/146 (30%), Gaps = 2/146 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ GI SR + I + +V V+G +++A V +IE G L+ Sbjct: 3 EKKERLDILLVEKGIITSRDRAKACIMEGKVFVDGQRVDKAGEKVSIIANIEYKGAKLKY 62 Query: 70 AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGG 129 R L L + D ++ G + + + Sbjct: 63 VSRGGLKLEKAMKSYDISLEDKVCMDIGAST-GGFTDCMLQNGAQKVYSVDVGYGQFAWK 121 Query: 130 LARVLELPSTQWLRVYRVRFHGQVDQ 155 L + + + V + Sbjct: 122 LRTDERVVCMERTNIRYVTLEDIGEP 147 >gi|325133782|gb|EGC56438.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis M13399] Length = 356 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 22 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 80 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 81 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 140 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 141 LDKETSGLMVVAKTLSAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 200 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 201 KMAVVKFGGKPAVTHVKVLERYLTHSYIECSLETGRTHQIRVHMREANHP 250 >gi|295099742|emb|CBK88831.1| SSU ribosomal protein S4P [Eubacterium cylindroides T2-87] Length = 202 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RR +++ + VNG ++ + V IEV Sbjct: 93 RLDNLVYRMGFARTRRGARQLVNHGHILVNGKKVDIPSYQVKPGTVIEV 141 >gi|319638102|ref|ZP_07992866.1| ribosomal large subunit pseudouridine synthase D [Neisseria mucosa C102] gi|317400747|gb|EFV81404.1| ribosomal large subunit pseudouridine synthase D [Neisseria mucosa C102] Length = 374 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 31/229 (13%), Positives = 65/229 (28%), Gaps = 32/229 (13%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILL---------ERAAVNVMST------- 57 R+ V+A+ SR + I + V VN E AV V + Sbjct: 40 RLDAVLAKLMPDYSRSRLSSWIKEGAVIVNDKPAQPKDKMIGGELIAVTVRPSEENLAFT 99 Query: 58 ------DHIEVDGVPLRKAERTRLWLYHKPIGLV---------TTHSDPDGRSTVFDNLP 102 D I D + + L ++ + Sbjct: 100 PEPMDLDIIYEDDTVIVINKPAGLVVHPASGNWSGTLLNGLLAHCPELSQVPRAGIVHRL 159 Query: 103 SIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLK 162 + + V + + L+ + + + + + Q+ +D N LK Sbjct: 160 DKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAIANGIVPFDGKIETQIGRDPHNRLK 219 Query: 163 KGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 +V G V + + +++++ L G+ +I+ N Sbjct: 220 MAVVKFGGKPAITHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|315303380|ref|ZP_07873992.1| ribosomal protein S4 [Listeria ivanovii FSL F6-596] gi|313628248|gb|EFR96769.1| ribosomal protein S4 [Listeria ivanovii FSL F6-596] Length = 200 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 92 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 141 >gi|295098920|emb|CBK88009.1| tyrosyl-tRNA synthetase [Eubacterium cylindroides T2-87] Length = 412 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 2/61 (3%) Query: 20 IARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDH-IEVDGVPLRKAERTRLWL 77 + +GIAS RRE I + VNG + + +H + V + + + + Sbjct: 349 LVESGIASSRREAREWIKGNSIMVNGTKITDPDYMMTPDNHCVCVKNYSIIRRGKKNYYC 408 Query: 78 Y 78 Sbjct: 409 L 409 >gi|160915114|ref|ZP_02077327.1| hypothetical protein EUBDOL_01122 [Eubacterium dolichum DSM 3991] gi|158432913|gb|EDP11202.1| hypothetical protein EUBDOL_01122 [Eubacterium dolichum DSM 3991] Length = 260 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 9/55 (16%), Positives = 21/55 (38%), Gaps = 1/55 (1%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ + + G + R + I + V V+G + + + + + V L Sbjct: 1 MRIDQYLVEKGYFTTRTRAQDAIKKGCVSVDGKTIMKNSFVIEEGKEVTVFQEEL 55 >gi|150015071|ref|YP_001307325.1| 30S ribosomal protein S4 [Clostridium beijerinckii NCIMB 8052] gi|189045374|sp|A6LPT9|RS4_CLOB8 RecName: Full=30S ribosomal protein S4 gi|149901536|gb|ABR32369.1| ribosomal protein S4 [Clostridium beijerinckii NCIMB 8052] Length = 206 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 1/69 (1%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ ++ R G S R E +++ VNG ++ + +V D I V + Sbjct: 98 MRLDNIVYRLGYGSSRNEARQLVTHGHFLVNGKKVDICSYHVSVNDVITVCEKSRSSEKF 157 Query: 73 TRLWLYHKP 81 K Sbjct: 158 KTFVENPKT 166 >gi|303287646|ref|XP_003063112.1| predicted protein [Micromonas pusilla CCMP1545] gi|226455748|gb|EEH53051.1| predicted protein [Micromonas pusilla CCMP1545] Length = 417 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 26/136 (19%), Positives = 41/136 (30%), Gaps = 21/136 (15%) Query: 9 ENFTPQRVSKVIARA-------GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 TP R+ IA G +R V I V VNG++ +A+ V D I Sbjct: 81 PKPTPARLDAYIATHAPPSEGGGGITRARVVASIKAGLVDVNGVVARKASERVSPGDVIR 140 Query: 62 VDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V P ++ + L + +V + V L Sbjct: 141 VALKPTPPTEAAPEDIPLDVKYEDEHVLVVNKPAGMVVHPAPGHSSGTLVNAVLFRCGCP 200 Query: 108 VISVGRLDINTEGLLL 123 + V + NT + Sbjct: 201 AMRVASGNANTADGVA 216 >gi|295658597|ref|XP_002789859.1| conserved hypothetical protein [Paracoccidioides brasiliensis Pb01] gi|226283003|gb|EEH38569.1| conserved hypothetical protein [Paracoccidioides brasiliensis Pb01] Length = 453 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 1/54 (1%) Query: 15 RVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ I RA AS R+ + + V VNG ++ + D +VD + Sbjct: 168 RLDVAIFRAMFASSTRQARQFVLHGSVTVNGKKMKHPGYLLNPGDLFQVDPERV 221 >gi|194099938|ref|YP_002003076.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae NCCP11945] gi|193935228|gb|ACF31052.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae NCCP11945] gi|316985689|gb|EFV64635.1| ribosomal protein S4 [Neisseria meningitidis H44/76] gi|317165390|gb|ADV08931.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae TCDC-NG08107] Length = 196 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 87 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSFQVKAGDVVSVREKAKKQVRIQ 146 >gi|161869644|ref|YP_001598812.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis 053442] gi|161595197|gb|ABX72857.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis 053442] Length = 392 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 58 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 116 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 117 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 176 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 177 LDKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 236 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 237 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 286 >gi|320168624|gb|EFW45523.1| RNA pseudouridylate synthase domain-containing protein 2 [Capsaspora owczarzaki ATCC 30864] Length = 515 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 25/210 (11%), Positives = 61/210 (29%), Gaps = 33/210 (15%) Query: 32 ERMIAQQRVKVNGILLERAAVNVMSTDH----------------IEVDGVPLRKAERTRL 75 ++ I RV VNG ++ + + +D I V + + + + Sbjct: 144 DQAIRDGRVTVNGKVVA-PSYIIQDSDVLVHTAHRHEPPVTAAPIRV----IAETDDLVV 198 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 I + +S ++ RLD T G+L++ + A + Sbjct: 199 IDKPASIPVHVAGRFNVHTVISIMKSEMGYSNLLGCHRLDRLTSGVLVMAKNRAAAAAVT 258 Query: 136 LPSTQWLRVYRVRF--------HGQVDQDKLNLLKKGIVIQGICY--GDMQVTLDTQK-- 183 T+ + L + G+ + ++ Sbjct: 259 RLITEREVEKFYICRVTGVFPQEQVTCTEPLLSFCPKFGLNGVDPSGKPAETVFVREQTN 318 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 G + V + G+ +I+ ++ + + Sbjct: 319 GVISIVKCFPKTGRAHQIRVHLQYLGYPIE 348 >gi|168187044|ref|ZP_02621679.1| S4 domain protein [Clostridium botulinum C str. Eklund] gi|169295080|gb|EDS77213.1| S4 domain protein [Clostridium botulinum C str. Eklund] Length = 88 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV +N + + + V D IEV Sbjct: 1 MRLDKYLKVSRIIKRRTIAKEACESGRVFINDKVAK-PSTEVNENDIIEV 49 >gi|309378792|emb|CBX22618.1| unnamed protein product [Neisseria lactamica Y92-1009] Length = 374 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 37/230 (16%), Positives = 73/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ +HI V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKP-SQPKDKMIGGEHIRVSIRPSAEYSAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 APEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|240047580|ref|YP_002960968.1| Pseudouridine synthase [Mycoplasma conjunctivae HRC/581] gi|239985152|emb|CAT05162.1| Pseudouridine synthase [Mycoplasma conjunctivae] Length = 306 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 66/243 (27%), Gaps = 43/243 (17%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----------- 60 R+ V+A+ SR+ +I VKV+ ++ + + I Sbjct: 14 EKTRIDLVVAKHLNVSRKISRYLIEANSVKVDNKVVNKVNFLLREGQFISILNNYQEPQL 73 Query: 61 -----EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI---------FS 106 +VD + + + + +V + ++ V L Sbjct: 74 KVEAQKVDFEIV-YQDNDIIVINKPKNLVVHPGNGNWDKTLVNGLLHEFATNLSDVNGEI 132 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIV 166 R V RLD +T GLLL+ + + L + + + Sbjct: 133 RPGIVHRLDKDTSGLLLVAKNNQAHKYLAKQLENHEIERKYIAIVVGKIPHTKMRINLPI 192 Query: 167 IQGICYGDMQ-----------------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + T + + V L G+ +I+ Sbjct: 193 GRDNQNRTKKVVSSFNSKNAITNVELINTFVYKNEHFSIVKCILETGRTHQIRVHLSHIG 252 Query: 210 WKV 212 + + Sbjct: 253 YPI 255 >gi|206895668|ref|YP_002247308.1| ribosomal protein S4 [Coprothermobacter proteolyticus DSM 5265] gi|206738285|gb|ACI17363.1| ribosomal protein S4 [Coprothermobacter proteolyticus DSM 5265] Length = 210 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ V+ R G AS + + V VNG ++ + V D I +D Sbjct: 101 RLDAVVQRMGFASSIKMARNWVRHGHVMVNGKRVDIPSYLVKPGDRITLD 150 >gi|170700719|ref|ZP_02891714.1| ribosomal protein S4 [Burkholderia ambifaria IOP40-10] gi|171318373|ref|ZP_02907531.1| ribosomal protein S4 [Burkholderia ambifaria MEX-5] gi|152060939|sp|Q0BJ21|RS4_BURCM RecName: Full=30S ribosomal protein S4 gi|170134389|gb|EDT02722.1| ribosomal protein S4 [Burkholderia ambifaria IOP40-10] gi|171096451|gb|EDT41350.1| ribosomal protein S4 [Burkholderia ambifaria MEX-5] Length = 207 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG++ + V + D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGVVANVPSQQVKAGDIVAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|258511645|ref|YP_003185079.1| pseudouridine synthase, RluA family [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257478371|gb|ACV58690.1| pseudouridine synthase, RluA family [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 333 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 36/241 (14%), Positives = 68/241 (28%), Gaps = 34/241 (14%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 +V + +R+S V++ SRR + R+I VNG + +V V D + + Sbjct: 1 MVPSDLAGRRLSAVLSGRLGMSRRMLRRIIQAGGFYVNGEPVY-LSVTVQDGDRVTWERP 59 Query: 66 -------------PLRKAERTRLWLYHKPIGLVTTHSDPDGRS---TVFDNLPSIFSRVI 109 + + + + L S L Sbjct: 60 EEEVAVEPENIPLEICYEDDDVIVVNKPAGMLTHPSPHERRGSLLAAAAHYLRDRGGVPH 119 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQ--WLRVYRVRFHGQVDQDKLNLLKKGIVI 167 +V RLD T G +L+ L+ Q R Y + + L + Sbjct: 120 AVHRLDKYTSGAVLIAKHAHAHHQLDRALRQGLVDRRYVAIVYAPEGCETGRWLTFVDGL 179 Query: 168 QGICYGDMQVTLDTQKGSNAWVT---------------VGLREGKNREIKKVFEFFNWKV 212 + + + + VT + L G+ +I+ F + Sbjct: 180 APNPHRPSRRIVVPPDRGDRAVTHALPLVQAGPLALVALVLETGRTHQIRAQMAFHGMPL 239 Query: 213 N 213 Sbjct: 240 V 240 >gi|297567257|ref|YP_003686229.1| 30S ribosomal protein S4 [Meiothermus silvanus DSM 9946] gi|296851706|gb|ADH64721.1| ribosomal protein S4 [Meiothermus silvanus DSM 9946] Length = 205 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ V+ R GIAS RR+ + + + VNG + A V D I V Sbjct: 96 RLDNVVFRLGIASTRRQARQFVRHGHILVNGKRVNIAGYRVKQGDTIAVSKKA 148 >gi|227494617|ref|ZP_03924933.1| hemolysin A [Actinomyces coleocanis DSM 15436] gi|226831799|gb|EEH64182.1| hemolysin A [Actinomyces coleocanis DSM 15436] Length = 306 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 11/37 (29%), Positives = 19/37 (51%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 SR + + MI VK++G ++ + A + I VD Sbjct: 19 SRTKAQEMIQAGYVKLDGEVVYKPARQMDPAQAIVVD 55 >gi|225873051|ref|YP_002754510.1| ribosomal protein S4 [Acidobacterium capsulatum ATCC 51196] gi|254764560|sp|C1F615|RS4_ACIC5 RecName: Full=30S ribosomal protein S4 gi|225792033|gb|ACO32123.1| ribosomal protein S4 [Acidobacterium capsulatum ATCC 51196] Length = 209 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G A SRR+ +++ V+VNG + + V D I++ Sbjct: 100 RLDNIAFRLGFATSRRQARQIVRHGHVEVNGRKVNIPSFQVKVGDEIKI 148 >gi|170016575|ref|YP_001727494.1| ribosomal protein S4 [Leuconostoc citreum KM20] gi|226699084|sp|B1MWZ8|RS4_LEUCK RecName: Full=30S ribosomal protein S4 gi|169803432|gb|ACA82050.1| Ribosomal protein S4 [Leuconostoc citreum KM20] Length = 203 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 QR+ ++ R G A+ R++ +++ + V+G ++ + NV + V Sbjct: 93 QRLDSLVYRLGFATTRQQARQLVNHGHIMVDGKRVDIPSYNVTPGQVVSVRDK 145 >gi|118497849|ref|YP_898899.1| ribosomal large subunit pseudouridine synthase D [Francisella tularensis subsp. novicida U112] gi|254374659|ref|ZP_04990140.1| hypothetical protein FTDG_00834 [Francisella novicida GA99-3548] gi|118423755|gb|ABK90145.1| ribosomal large subunit pseudouridine synthase D [Francisella novicida U112] gi|151572378|gb|EDN38032.1| hypothetical protein FTDG_00834 [Francisella novicida GA99-3548] Length = 332 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 32/240 (13%), Positives = 68/240 (28%), Gaps = 34/240 (14%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ +R+ VI SR ++++ + + + VNG + V+ + +E++ Sbjct: 15 IMHPKDAGKRIDVVINEQFEQFSRAQIQKWLKEGSITVNGR-ATKPKHIVLGDEEVEINI 73 Query: 65 VPLRKAERTRLWLY--------------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI- 109 L E + +V + + L + Sbjct: 74 ELLPTNEWIAEDINLKIIFEDDDIIVIDKPVNMIVHPGAGNPTGTVSNALLHRYKDQDKL 133 Query: 110 ----SVGRLDINTEGLLLLTNDGGLARVLELP------------STQWLRVYRVRFHGQV 153 V RLD +T GL++ L + + + + Sbjct: 134 PRAGIVHRLDKDTSGLMVAAKSSIAYHNLVQQLAERKVSRKYLAIVEGEIYQQGTINQPI 193 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +D N K I +G T + L G+ +I+ + + Sbjct: 194 GRDPTNRTKMAINYRGKEA-ITHYTPIEVYDGFTLIECQLETGRTHQIRVHMKSIKHPLV 252 >gi|16800706|ref|NP_470974.1| 30S ribosomal protein S4 [Listeria innocua Clip11262] gi|226224197|ref|YP_002758304.1| ribosomal protein S4 [Listeria monocytogenes Clip81459] gi|26399441|sp|Q92BB2|RS4_LISIN RecName: Full=30S ribosomal protein S4 gi|259495285|sp|C1KVP3|RS4_LISMC RecName: Full=30S ribosomal protein S4 gi|16414125|emb|CAC96869.1| ribosomal protein S4 [Listeria innocua Clip11262] gi|225876659|emb|CAS05368.1| ribosomal protein S4 [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|313618704|gb|EFR90630.1| ribosomal protein S4 [Listeria innocua FSL S4-378] Length = 200 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 92 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 141 >gi|293363350|ref|ZP_06610172.1| pseudouridine synthase, RluA family [Mycoplasma alligatoris A21JP2] gi|292553019|gb|EFF41770.1| pseudouridine synthase, RluA family [Mycoplasma alligatoris A21JP2] Length = 280 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 30/260 (11%), Positives = 70/260 (26%), Gaps = 44/260 (16%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG------------- 64 K + SR VE++ ++ +K+NG + + D IE+ G Sbjct: 21 KYL-NNVPLSR--VEKLFRKKDIKINGQRTNQKDYIIAFNDVIEIYGLIDTKKEEAPLLT 77 Query: 65 ----VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVF-DNLPSIFSRVISVGRLDINTE 119 + + + I + + + D + + + +GRLD T Sbjct: 78 SFSFKKIYEDANVLIIDKPNGIEVHSAPNCLDNQVLAYLKYKQVDSFKPSHIGRLDKETS 137 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTL 179 G++L + + L + Y + + ++ L + Sbjct: 138 GIMLYAKNYQALKYLNDYMENIKKTYTFKSDFNDESKEVELFLYKDEEKKRMAASFTKVP 197 Query: 180 DTQKGSNAWV------TVGLREGKNREIKKVFEFFNWKV-------------NRLIRISY 220 ++ L G+ +I+ + L + Sbjct: 198 YSKLSKTHLYTESNKKYATLFSGRKHQIRVTLMKLGKPIYGDFKYGGKKAARLMLHCLQI 257 Query: 221 GPFQLGTLLAGSTREVSKKI 240 L G + ++ Sbjct: 258 KFVGL----EGEYKYLNDLE 273 >gi|254563644|ref|YP_003070739.1| hemolysin [Methylobacterium extorquens DM4] gi|254270922|emb|CAX26927.1| hemolysin [Methylobacterium extorquens DM4] Length = 250 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 3/53 (5%) Query: 12 TPQRV--SKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 T +R+ + + G SR + I V +G L+ R + V + IE Sbjct: 2 TGERLRADRFLVERGHFRSRAQARAAIEAGLVSADGRLVTRPSDLVEPSARIE 54 >gi|240141133|ref|YP_002965613.1| hemolysin [Methylobacterium extorquens AM1] gi|240011110|gb|ACS42336.1| hemolysin [Methylobacterium extorquens AM1] Length = 250 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 3/53 (5%) Query: 12 TPQRV--SKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 T +R+ + + G SR + I V +G L+ R + V + IE Sbjct: 2 TGERLRADRFLVERGHFRSRAQARAAIEAGLVSADGRLVTRPSDLVEPSARIE 54 >gi|225025927|ref|ZP_03715119.1| hypothetical protein EUBHAL_00163 [Eubacterium hallii DSM 3353] gi|224956713|gb|EEG37922.1| hypothetical protein EUBHAL_00163 [Eubacterium hallii DSM 3353] Length = 274 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 27/180 (15%), Positives = 52/180 (28%), Gaps = 4/180 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMST--DHIEVDGVPLRKA 70 QR+ ++ G A SR + + MI V VNG ++A IE+ G LR Sbjct: 3 QRLDVLLVEQGHAASREKAKAMIMSGVVFVNGQREDKAGSTFDEKAAATIEIHGSTLRYV 62 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L L + D ++ G + + + + D L Sbjct: 63 SRGGLKLEKAVEQFGFSLKDKTCMDVGAST-GGFTDCMLQNGAVKVFSVDVGRGQLDWKL 121 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V+ + + + ++ L + Sbjct: 122 RNDERVVCMEKTNMRYVKPEDIGELADFISIDVSFISLTKILPPVKACLKEDGQVVCLIK 181 >gi|218281549|ref|ZP_03487978.1| hypothetical protein EUBIFOR_00543 [Eubacterium biforme DSM 3989] gi|218217338|gb|EEC90876.1| hypothetical protein EUBIFOR_00543 [Eubacterium biforme DSM 3989] Length = 202 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RR +++ V V+G ++ + V IE+ Sbjct: 93 RLDNIVYRMGFARTRRASRQLVNHGHVLVDGKKVDIPSFQVKPGQVIEI 141 >gi|254518736|ref|ZP_05130792.1| hemolysin A [Clostridium sp. 7_2_43FAA] gi|226912485|gb|EEH97686.1| hemolysin A [Clostridium sp. 7_2_43FAA] Length = 269 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 19/175 (10%), Positives = 47/175 (26%), Gaps = 3/175 (1%) Query: 12 TPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 +R+ ++ GI + RE + I ++ V+G +++A + I G + Sbjct: 4 KKERLDILLVEKGIFTSRERAKTSIMAGKIFVDGQRVDKAGEKINVDADIIFKGQEIPYV 63 Query: 71 ERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGL 130 R L L D ++ + + + L Sbjct: 64 SRGGLKLEKAIKEFGVNLKDKVCMDIGAST-GGFTDCMLQNDAKKVFSIDVGYGQFAWKL 122 Query: 131 ARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS 185 + + + V + + + ++L + G Sbjct: 123 RTDSRVVCMERTNIRYVTPEDLGELTDFASIDVSFISL-KKIMPATLSLLNESGE 176 >gi|160942871|ref|ZP_02090110.1| hypothetical protein FAEPRAM212_00347 [Faecalibacterium prausnitzii M21/2] gi|158445772|gb|EDP22775.1| hypothetical protein FAEPRAM212_00347 [Faecalibacterium prausnitzii M21/2] gi|295103949|emb|CBL01493.1| SSU ribosomal protein S4P [Faecalibacterium prausnitzii SL3/3] Length = 200 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR+ ++++ VNG + + V + D IEV Sbjct: 90 RLDNVVFRLGFAQTRRDARQLVSHAHFTVNGKKVNIPSYQVKAGDVIEV 138 >gi|116873025|ref|YP_849806.1| 30S ribosomal protein S4 [Listeria welshimeri serovar 6b str. SLCC5334] gi|289434877|ref|YP_003464749.1| ribosomal protein S4 [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|123466377|sp|A0AJ45|RS4_LISW6 RecName: Full=30S ribosomal protein S4 gi|116741903|emb|CAK21027.1| 30S ribosomal protein S4 [Listeria welshimeri serovar 6b str. SLCC5334] gi|289171121|emb|CBH27663.1| ribosomal protein S4 [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|313633056|gb|EFR99970.1| ribosomal protein S4 [Listeria seeligeri FSL N1-067] gi|313638010|gb|EFS03298.1| ribosomal protein S4 [Listeria seeligeri FSL S4-171] Length = 200 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 92 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 141 >gi|332671318|ref|YP_004454326.1| transcription termination factor Rho [Cellulomonas fimi ATCC 484] gi|332340356|gb|AEE46939.1| transcription termination factor Rho [Cellulomonas fimi ATCC 484] Length = 724 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/117 (11%), Positives = 35/117 (29%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + + R P E + + + S R+ + R ++ Sbjct: 135 TDREPRADREPRAEREPRADSEPRTDSEPRAGRESRTDREPRTEREPRAEREPRADREPR 194 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 ++ +R + + + L+ + R++ R + +RS R + Sbjct: 195 ADREPRRDEEQRPRQDALAGLEAALDARLAPAEARDDRAARGDAQAERRSRRAGRGQ 251 Score = 42.1 bits (97), Expect = 0.13, Method: Composition-based stats. Identities = 7/115 (6%), Positives = 27/115 (23%), Gaps = 1/115 (0%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE-VPDDFTRMKKNSSQKNGL 295 + + R + P E + + + ++ + + + + Sbjct: 171 TDREPRTEREPRAEREPRADREPRADREPRRDEEQRPRQDALAGLEAALDARLAPAEARD 230 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + + RR+ + + QR + + + Sbjct: 231 DRAARGDAQAERRSRRAGRGQGAPEEPRRGDEPVQRPQPEQAGRGQGAPAPQAEG 285 >gi|325529703|gb|EGD06566.1| 30S ribosomal protein S4 [Burkholderia sp. TJI49] Length = 207 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNGI+ + V + D I + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGIVANVPSQQVKAGDVIAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|302144209|emb|CBI23336.3| unnamed protein product [Vitis vinifera] Length = 300 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 14/62 (22%), Positives = 27/62 (43%), Gaps = 8/62 (12%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +K K + E +R + SR ++ I Q +V V+G ++ +A V + Sbjct: 56 LKKKRRLDEVC-LERFQQY-------SRTFIQSWILQGKVFVDGKVVNKAGTPVSDKAVV 107 Query: 61 EV 62 E+ Sbjct: 108 EI 109 >gi|15676094|ref|NP_273225.1| 30S ribosomal protein S4 [Neisseria meningitidis MC58] gi|59802136|ref|YP_208848.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae FA 1090] gi|121634041|ref|YP_974286.1| 30S ribosomal protein S4 [Neisseria meningitidis FAM18] gi|161870895|ref|YP_001600070.1| 30S ribosomal protein S4 [Neisseria meningitidis 053442] gi|218767143|ref|YP_002341655.1| 30S ribosomal protein S4 [Neisseria meningitidis Z2491] gi|239997950|ref|ZP_04717874.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae 35/02] gi|240015072|ref|ZP_04721985.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae DGI18] gi|240017521|ref|ZP_04724061.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae FA6140] gi|240081664|ref|ZP_04726207.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae FA19] gi|240113942|ref|ZP_04728432.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae MS11] gi|240116676|ref|ZP_04730738.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID18] gi|240118898|ref|ZP_04732960.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID1] gi|240122144|ref|ZP_04735106.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID24-1] gi|240124436|ref|ZP_04737392.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID332] gi|240124695|ref|ZP_04737581.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae SK-92-679] gi|240129112|ref|ZP_04741773.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae SK-93-1035] gi|254494697|ref|ZP_05107868.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae 1291] gi|254805789|ref|YP_003084010.1| 30S ribosomal protein S4 [Neisseria meningitidis alpha14] gi|260439565|ref|ZP_05793381.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae DGI2] gi|268593800|ref|ZP_06127967.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae 35/02] gi|268597761|ref|ZP_06131928.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae FA19] gi|268600006|ref|ZP_06134173.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae MS11] gi|268602343|ref|ZP_06136510.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID18] gi|268604607|ref|ZP_06138774.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID1] gi|268683064|ref|ZP_06149926.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID332] gi|268683269|ref|ZP_06150131.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae SK-92-679] gi|268687494|ref|ZP_06154356.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae SK-93-1035] gi|291042801|ref|ZP_06568542.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae DGI2] gi|293398178|ref|ZP_06642383.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae F62] gi|304388967|ref|ZP_07371014.1| 30S ribosomal protein S4 [Neisseria meningitidis ATCC 13091] gi|54039509|sp|P66561|RS4_NEIMB RecName: Full=30S ribosomal protein S4 gi|54041962|sp|P66560|RS4_NEIMA RecName: Full=30S ribosomal protein S4 gi|75507306|sp|Q5F5V1|RS4_NEIG1 RecName: Full=30S ribosomal protein S4 gi|152112237|sp|A1KRJ8|RS4_NEIMF RecName: Full=30S ribosomal protein S4 gi|189045388|sp|A9M3U1|RS4_NEIM0 RecName: Full=30S ribosomal protein S4 gi|7225385|gb|AAF40624.1| 30S ribosomal protein S4 [Neisseria meningitidis MC58] gi|59719031|gb|AAW90436.1| putative 30S ribosomal protein S4 [Neisseria gonorrhoeae FA 1090] gi|120865747|emb|CAM09476.1| 30S ribosomal protein S4 [Neisseria meningitidis FAM18] gi|121051151|emb|CAM07422.1| 30S ribosomal protein S4 [Neisseria meningitidis Z2491] gi|161596448|gb|ABX74108.1| 30S ribosomal protein S4 [Neisseria meningitidis 053442] gi|226513737|gb|EEH63082.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae 1291] gi|254669331|emb|CBA08372.1| 30S ribosomal protein S4 [Neisseria meningitidis alpha14] gi|254670762|emb|CBA07036.1| 30S ribosomal protein S4 [Neisseria meningitidis alpha153] gi|254672692|emb|CBA06587.1| 30S ribosomal protein S4 [Neisseria meningitidis alpha275] gi|261391703|emb|CAX49152.1| 30S ribosomal protein S4 [Neisseria meningitidis 8013] gi|268547189|gb|EEZ42607.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae 35/02] gi|268551549|gb|EEZ46568.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae FA19] gi|268584137|gb|EEZ48813.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae MS11] gi|268586474|gb|EEZ51150.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID18] gi|268588738|gb|EEZ53414.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID1] gi|268623348|gb|EEZ55748.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae PID332] gi|268623553|gb|EEZ55953.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae SK-92-679] gi|268627778|gb|EEZ60178.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae SK-93-1035] gi|291013235|gb|EFE05201.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae DGI2] gi|291611441|gb|EFF40511.1| 30S ribosomal protein S4 [Neisseria gonorrhoeae F62] gi|304337101|gb|EFM03288.1| 30S ribosomal protein S4 [Neisseria meningitidis ATCC 13091] gi|308388383|gb|ADO30703.1| 30S ribosomal protein S4 [Neisseria meningitidis alpha710] gi|319411349|emb|CBY91760.1| 30S ribosomal protein S4 [Neisseria meningitidis WUE 2594] gi|325129086|gb|EGC51935.1| ribosomal protein S4 [Neisseria meningitidis N1568] gi|325131057|gb|EGC53781.1| ribosomal protein S4 [Neisseria meningitidis OX99.30304] gi|325133079|gb|EGC55751.1| ribosomal protein S4 [Neisseria meningitidis M6190] gi|325135173|gb|EGC57799.1| ribosomal protein S4 [Neisseria meningitidis M13399] gi|325137225|gb|EGC59820.1| ribosomal protein S4 [Neisseria meningitidis M0579] gi|325139057|gb|EGC61603.1| ribosomal protein S4 [Neisseria meningitidis ES14902] gi|325141180|gb|EGC63680.1| ribosomal protein S4 [Neisseria meningitidis CU385] gi|325143257|gb|EGC65596.1| ribosomal protein S4 [Neisseria meningitidis 961-5945] gi|325145364|gb|EGC67641.1| ribosomal protein S4 [Neisseria meningitidis M01-240013] gi|325197454|gb|ADY92910.1| ribosomal protein S4 [Neisseria meningitidis G2136] gi|325199380|gb|ADY94835.1| ribosomal protein S4 [Neisseria meningitidis H44/76] gi|325202998|gb|ADY98452.1| ribosomal protein S4 [Neisseria meningitidis M01-240149] gi|325205260|gb|ADZ00713.1| ribosomal protein S4 [Neisseria meningitidis M04-240196] gi|325207204|gb|ADZ02656.1| ribosomal protein S4 [Neisseria meningitidis NZ-05/33] Length = 206 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSFQVKAGDVVSVREKAKKQVRIQ 156 >gi|322437152|ref|YP_004219364.1| pseudouridine synthase, RluA family [Acidobacterium sp. MP5ACTX9] gi|321164879|gb|ADW70584.1| pseudouridine synthase, RluA family [Acidobacterium sp. MP5ACTX9] Length = 371 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 2/55 (3%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ +A+A SR V+ +I +VKV+G + + A + + IE++G P Sbjct: 58 GMRLDAYLAQALPDISRARVQILIEAGQVKVDGAVPK-AKAKLKGGETIEIEGQP 111 >gi|237735862|ref|ZP_04566343.1| RNA pseudouridylate synthase [Mollicutes bacterium D7] gi|229381607|gb|EEO31698.1| RNA pseudouridylate synthase [Coprobacillus sp. D7] Length = 294 Score = 50.2 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 34/209 (16%), Positives = 69/209 (33%), Gaps = 24/209 (11%) Query: 29 REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR------KAERTRLWLYHKPI 82 + V+ ++ ++V VNG ++ + ++ D I VD P E L + +KP Sbjct: 38 KNVKNLLKFKQVSVNGQVISQFDYSLKRDDEIVVDRNPNNNSSLDIIYEDRELIVINKPA 97 Query: 83 GLVTTHSDPDGRSTVFDNLPSIFS------RVISVGRLDINTEGLLLLT------NDGGL 130 GL++ + T + + RV V RLD T G+LL N Sbjct: 98 GLLSMAGGNEKEKTAYHLVGEYLKSKNKNARVFIVHRLDKETSGVLLFAKNEIIKNKLQN 157 Query: 131 ARVLELPSTQWLRVYRVRFHGQVD------QDKLNLLKKGIVIQGICYGDMQVTLDTQKG 184 + +L + + + + + + + Sbjct: 158 NWNDIVYKRGYLAIIEGKLKKKHGTIKNHLDESKTQMVYIANNGKGKLAITNYKVLKESR 217 Query: 185 SNAWVTVGLREGKNREIKKVFEFFNWKVN 213 N+ + V L G+ +I+ + + Sbjct: 218 YNSLIEVFLETGRKNQIRVHMQSLGHSIV 246 >gi|326790852|ref|YP_004308673.1| hemolysin A [Clostridium lentocellum DSM 5427] gi|326541616|gb|ADZ83475.1| hemolysin A [Clostridium lentocellum DSM 5427] Length = 295 Score = 50.2 bits (118), Expect = 6e-04, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +R+ +IA +A SR + I V VNG ++ + V + IEV Sbjct: 30 DSKERLDVLIAERQLAESRERAKAYIMAGVVFVNGQREDKPGLKVKRSSTIEV 82 >gi|239623374|ref|ZP_04666405.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA] gi|239522340|gb|EEQ62206.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA] Length = 197 Score = 50.2 bits (118), Expect = 6e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+ +R+E +++ + + VNG + + V + D IEV Sbjct: 88 RLDNVLFRMGLGRTRKETRQIVDHKHILVNGKPVNIPSYQVKAGDVIEV 136 >gi|56964109|ref|YP_175840.1| hypothetical protein ABC2344 [Bacillus clausii KSM-K16] gi|56910352|dbj|BAD64879.1| conserved hypothetical protein [Bacillus clausii KSM-K16] Length = 253 Score = 50.2 bits (118), Expect = 6e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 24/50 (48%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ SR + +I + VKVN ++E + V D + V G Sbjct: 178 RLDALLSALYGLSRAKAADLIGKGLVKVNWKVVEHPSFRVAIGDDLSVRG 227 >gi|15896457|ref|NP_349806.1| hypothetical protein CA_C3210 [Clostridium acetobutylicum ATCC 824] gi|15026281|gb|AAK81146.1|AE007816_10 Predicted RNA-binding protein, YABO B.subtilis ortholog [Clostridium acetobutylicum ATCC 824] gi|325510615|gb|ADZ22251.1| RNA-binding protein [Clostridium acetobutylicum EA 2018] Length = 84 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV +NG + + +V D IE+ Sbjct: 1 MRLDKYLKVSRIIKRRTVAKEACESGRVSINGKVAK-PGTDVEEDDIIEI 49 >gi|296269405|ref|YP_003652037.1| peptidoglycan glycosyltransferase [Thermobispora bispora DSM 43833] gi|296092192|gb|ADG88144.1| Peptidoglycan glycosyltransferase [Thermobispora bispora DSM 43833] Length = 1057 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 9/107 (8%), Positives = 23/107 (21%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 RP+ P + ++ + Sbjct: 848 RPARSRDARSQPARSRDPRSRPARPHGTRSKPARSQDARSQPARSRDPRSRPARPHGTRS 907 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + S ++ S R ++ R + + + R K+ Sbjct: 908 KPARSQDARSQPARSRDPRSRPARPQDTRSRQARAPRTTGPRAGTKR 954 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 8/97 (8%), Positives = 21/97 (21%) Query: 257 LDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWM 316 R P + ++ +G + + + S Sbjct: 837 AHPARSHDTRSRPARSRDARSQPARSRDPRSRPARPHGTRSKPARSQDARSQPARSRDPR 896 Query: 317 AKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 ++ R ++ R P+ R + Sbjct: 897 SRPARPHGTRSKPARSQDARSQPARSRDPRSRPARPQ 933 Score = 46.3 bits (108), Expect = 0.006, Method: Composition-based stats. Identities = 9/114 (7%), Positives = 22/114 (19%), Gaps = 7/114 (6%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 R + P + ++ + Sbjct: 818 RRAVPRSTAAPRAGSHGTRAHPARSHDTRSRPARSRDARSQPARSRDPRSRPARPHGTRS 877 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF-------PSKRSLRRTSAKK 354 + S ++ S R R P+ P++ R+ + Sbjct: 878 KPARSQDARSQPARSRDPRSRPARPHGTRSKPARSQDARSQPARSRDPRSRPAR 931 Score = 45.6 bits (106), Expect = 0.011, Method: Composition-based stats. Identities = 11/113 (9%), Positives = 25/113 (22%), Gaps = 2/113 (1%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 G + + S S + + A Sbjct: 872 PHGTRSKPARSQDARSQPARSRDPRSRPARPHGTRSKPARSQDARSQPARSRDPRSRPAR 931 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSG--QREENHRRSPSFPSKRSLRRTSAKK 354 P R+ + G + R ++ R + + + RT + + Sbjct: 932 PQDTRSRQARAPRTTGPRAGTKRTRPQHGRSQHARSQRARSQRAAAPRTPSPR 984 Score = 42.9 bits (99), Expect = 0.082, Method: Composition-based stats. Identities = 16/113 (14%), Positives = 30/113 (26%), Gaps = 4/113 (3%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + A DA R R R + + S++ Sbjct: 763 RTPQRAERPQRAGAASDARRGGPSATARPRHAAGRPAHRASGRQRALWTAPPAASRRAVP 822 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R + H + D+ R R + S P++ R+ + Sbjct: 823 RSTAAPRAGSHGTR----AHPARSHDTRSRPARSRDARSQPARSRDPRSRPAR 871 Score = 42.5 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 10/113 (8%), Positives = 24/113 (21%), Gaps = 2/113 (1%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + ++++ R S + + + Sbjct: 790 RPRHAAGRPAHRASGRQRALWTAPPAASRRAVPRSTAAPRAGSHGTRAHPARSHDTRSRP 849 Query: 302 ATPVHRRNL--ASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 A R+ S ++ R ++ R P+ R Sbjct: 850 ARSRDARSQPARSRDPRSRPARPHGTRSKPARSQDARSQPARSRDPRSRPARP 902 Score = 41.3 bits (95), Expect = 0.21, Method: Composition-based stats. Identities = 15/112 (13%), Positives = 26/112 (23%), Gaps = 10/112 (8%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + S+ P P D + + + G K P H Sbjct: 901 RPHGTRSKPARSQDARSQPARSRDPRSRPARPQDTRSRQARAPRTTGPRAGTKRTRPQHG 960 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHR----------RSPSFPSKRSLRR 349 R+ + A+ ++ R P+ PS R Sbjct: 961 RSQHARSQRARSQRAAAPRTPSPRPTASPGGHRATGAPAPGPAVPSGARPPR 1012 Score = 40.9 bits (94), Expect = 0.29, Method: Composition-based stats. Identities = 14/117 (11%), Positives = 26/117 (22%), Gaps = 12/117 (10%) Query: 250 LEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR-- 307 A + + + + P R S+ A P Sbjct: 785 PSATARPRHAAGRPAHRASGRQRALWTAPPAASRRAVPRSTAAPRAGSHGTRAHPARSHD 844 Query: 308 ---RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSF-------PSKRSLRRTSAKK 354 R S ++ S R R P+ P++ R+ + Sbjct: 845 TRSRPARSRDARSQPARSRDPRSRPARPHGTRSKPARSQDARSQPARSRDPRSRPAR 901 Score = 38.6 bits (88), Expect = 1.6, Method: Composition-based stats. Identities = 8/108 (7%), Positives = 24/108 (22%), Gaps = 1/108 (0%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P ++ + ++ + R ++ SQ+ + Sbjct: 928 RPARPQDTRSRQARAPRTTGPRAGTKRTRPQHGRSQHARSQRARSQRAAAPRTPSPRPTA 987 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREEN-HRRSPSFPSKRSLRRTSA 352 + A G + +R +P+ + Sbjct: 988 SPGGHRATGAPAPGPAVPSGARPPRRTGGAGDGTPAARPGDPAPAGTP 1035 >gi|261400385|ref|ZP_05986510.1| ribosomal large subunit pseudouridine synthase D [Neisseria lactamica ATCC 23970] gi|269209820|gb|EEZ76275.1| ribosomal large subunit pseudouridine synthase D [Neisseria lactamica ATCC 23970] Length = 374 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIREGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWSGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVQQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 268 >gi|23501338|ref|NP_697465.1| hemolysin A [Brucella suis 1330] gi|62289422|ref|YP_221215.1| hemolysin A [Brucella abortus bv. 1 str. 9-941] gi|82699349|ref|YP_413923.1| cell division protein FtsJ [Brucella melitensis biovar Abortus 2308] gi|161618409|ref|YP_001592296.1| hemolysin A [Brucella canis ATCC 23365] gi|189023673|ref|YP_001934441.1| Cell division protein FtsJ [Brucella abortus S19] gi|225626945|ref|ZP_03784984.1| hemolysin A [Brucella ceti str. Cudo] gi|237814910|ref|ZP_04593908.1| hemolysin A [Brucella abortus str. 2308 A] gi|254688735|ref|ZP_05151989.1| Cell division protein FtsJ [Brucella abortus bv. 6 str. 870] gi|254696863|ref|ZP_05158691.1| Cell division protein FtsJ [Brucella abortus bv. 2 str. 86/8/59] gi|254701242|ref|ZP_05163070.1| Cell division protein FtsJ [Brucella suis bv. 5 str. 513] gi|254703789|ref|ZP_05165617.1| Cell division protein FtsJ [Brucella suis bv. 3 str. 686] gi|254707834|ref|ZP_05169662.1| Cell division protein FtsJ [Brucella pinnipedialis M163/99/10] gi|254709585|ref|ZP_05171396.1| Cell division protein FtsJ [Brucella pinnipedialis B2/94] gi|254729768|ref|ZP_05188346.1| Cell division protein FtsJ [Brucella abortus bv. 4 str. 292] gi|256031077|ref|ZP_05444691.1| Cell division protein FtsJ [Brucella pinnipedialis M292/94/1] gi|256060571|ref|ZP_05450739.1| Cell division protein FtsJ [Brucella neotomae 5K33] gi|256159141|ref|ZP_05456962.1| Cell division protein FtsJ [Brucella ceti M490/95/1] gi|256254480|ref|ZP_05460016.1| Cell division protein FtsJ [Brucella ceti B1/94] gi|256256982|ref|ZP_05462518.1| Cell division protein FtsJ [Brucella abortus bv. 9 str. C68] gi|256368892|ref|YP_003106398.1| hemolysin A [Brucella microti CCM 4915] gi|260168208|ref|ZP_05755019.1| hemolysin A [Brucella sp. F5/99] gi|260545826|ref|ZP_05821567.1| cell division protein FtsJ [Brucella abortus NCTC 8038] gi|260566958|ref|ZP_05837428.1| cell division protein FtsJ [Brucella suis bv. 4 str. 40] gi|260754214|ref|ZP_05866562.1| hemolysin A [Brucella abortus bv. 6 str. 870] gi|260757434|ref|ZP_05869782.1| hemolysin A [Brucella abortus bv. 4 str. 292] gi|260761259|ref|ZP_05873602.1| hemolysin A [Brucella abortus bv. 2 str. 86/8/59] gi|260883239|ref|ZP_05894853.1| hemolysin A [Brucella abortus bv. 9 str. C68] gi|261221653|ref|ZP_05935934.1| hemolysin A [Brucella ceti B1/94] gi|261315321|ref|ZP_05954518.1| hemolysin A [Brucella pinnipedialis M163/99/10] gi|261317113|ref|ZP_05956310.1| hemolysin A [Brucella pinnipedialis B2/94] gi|261324566|ref|ZP_05963763.1| hemolysin A [Brucella neotomae 5K33] gi|261751781|ref|ZP_05995490.1| hemolysin A [Brucella suis bv. 5 str. 513] gi|261754436|ref|ZP_05998145.1| hemolysin A [Brucella suis bv. 3 str. 686] gi|261757669|ref|ZP_06001378.1| cell division protein FtsJ [Brucella sp. F5/99] gi|265988150|ref|ZP_06100707.1| hemolysin A [Brucella pinnipedialis M292/94/1] gi|265997615|ref|ZP_06110172.1| hemolysin A [Brucella ceti M490/95/1] gi|294851815|ref|ZP_06792488.1| hemolysin [Brucella sp. NVSL 07-0026] gi|297247835|ref|ZP_06931553.1| hemolysin [Brucella abortus bv. 5 str. B3196] gi|23347229|gb|AAN29380.1| hemolysin A [Brucella suis 1330] gi|62195554|gb|AAX73854.1| TlyA, hemolysin A [Brucella abortus bv. 1 str. 9-941] gi|82615450|emb|CAJ10419.1| Cell division protein FtsJ:RNA-binding S4:Hemolysin A [Brucella melitensis biovar Abortus 2308] gi|161335220|gb|ABX61525.1| hemolysin A [Brucella canis ATCC 23365] gi|189019245|gb|ACD71967.1| Cell division protein FtsJ [Brucella abortus S19] gi|225618602|gb|EEH15645.1| hemolysin A [Brucella ceti str. Cudo] gi|237789747|gb|EEP63957.1| hemolysin A [Brucella abortus str. 2308 A] gi|255999050|gb|ACU47449.1| hemolysin A [Brucella microti CCM 4915] gi|260097233|gb|EEW81108.1| cell division protein FtsJ [Brucella abortus NCTC 8038] gi|260156476|gb|EEW91556.1| cell division protein FtsJ [Brucella suis bv. 4 str. 40] gi|260667752|gb|EEX54692.1| hemolysin A [Brucella abortus bv. 4 str. 292] gi|260671691|gb|EEX58512.1| hemolysin A [Brucella abortus bv. 2 str. 86/8/59] gi|260674322|gb|EEX61143.1| hemolysin A [Brucella abortus bv. 6 str. 870] gi|260872767|gb|EEX79836.1| hemolysin A [Brucella abortus bv. 9 str. C68] gi|260920237|gb|EEX86890.1| hemolysin A [Brucella ceti B1/94] gi|261296336|gb|EEX99832.1| hemolysin A [Brucella pinnipedialis B2/94] gi|261300546|gb|EEY04043.1| hemolysin A [Brucella neotomae 5K33] gi|261304347|gb|EEY07844.1| hemolysin A [Brucella pinnipedialis M163/99/10] gi|261737653|gb|EEY25649.1| cell division protein FtsJ [Brucella sp. F5/99] gi|261741534|gb|EEY29460.1| hemolysin A [Brucella suis bv. 5 str. 513] gi|261744189|gb|EEY32115.1| hemolysin A [Brucella suis bv. 3 str. 686] gi|262552083|gb|EEZ08073.1| hemolysin A [Brucella ceti M490/95/1] gi|264660347|gb|EEZ30608.1| hemolysin A [Brucella pinnipedialis M292/94/1] gi|294820404|gb|EFG37403.1| hemolysin [Brucella sp. NVSL 07-0026] gi|297175004|gb|EFH34351.1| hemolysin [Brucella abortus bv. 5 str. B3196] Length = 253 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V+ + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVVRDAALAVDD 61 >gi|332977573|gb|EGK14343.1| hemolysin A [Desmospora sp. 8437] Length = 64 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 11/52 (21%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +R+ V+ G +R++ +R + V+V+G ++ + +EV G Sbjct: 4 ERLDLVLVNKGYFPTRQQAQRAVMAGLVRVDGERADKPGTRIPPEATVEVAG 55 >gi|329122166|ref|ZP_08250773.1| ribosomal large subunit pseudouridine synthase D [Dialister micraerophilus DSM 19965] gi|327466804|gb|EGF12327.1| ribosomal large subunit pseudouridine synthase D [Dialister micraerophilus DSM 19965] Length = 307 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 25/245 (10%), Positives = 66/245 (26%), Gaps = 40/245 (16%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQ-RVKVNGILLERAAVNVMSTDHIEVDGV 65 V E R+ + + +R EV++ I + + + ++ ++ + I+ Sbjct: 8 VDEKQDGMRLDQFLKEVSGLTRSEVQKWIKEGYAISLPNRMVRS-NYHISDKEKIQFSWE 66 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + +V + + V L ++ V Sbjct: 67 EKKEIELIPQKIKLDILYEDEHIIVINKSRGMVVHPGAGNIDNTLVNALLYHCGESLLKV 126 Query: 112 G-RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 G + L G + V + + ++ + L + G Sbjct: 127 GEKTRPGIVHRLDKDTSGVMVAVKSDIAYEKVKNEIATHEAKRTYLTLVH-GQMEGPDGK 185 Query: 171 CYGD--------MQVTLDTQKGSN--------------AWVTVGLREGKNREIKKVFEFF 208 M+ + + G N + + L G+ +I+ + Sbjct: 186 IDLPLGRSLKDRMKWDVQPKTGKNAITHFHVLEFMPKYSLLECKLETGRTHQIRVHMSYI 245 Query: 209 NWKVN 213 V Sbjct: 246 GHPVI 250 >gi|121634501|ref|YP_974746.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis FAM18] gi|120866207|emb|CAM09947.1| putative ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis FAM18] gi|325131843|gb|EGC54543.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis M6190] gi|325137893|gb|EGC60468.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis ES14902] Length = 374 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWRGTLLNGLLAHCPELSQVPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAVVKFGGKPAVTHVKVLERYLTHSYIECSLETGRTHQIRVHMREANHP 268 >gi|92112578|ref|YP_572506.1| SSU ribosomal protein S4P [Chromohalobacter salexigens DSM 3043] gi|122420778|sp|Q1R0F1|RS4_CHRSD RecName: Full=30S ribosomal protein S4 gi|91795668|gb|ABE57807.1| SSU ribosomal protein S4P [Chromohalobacter salexigens DSM 3043] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + A+ V D + V Sbjct: 97 RLDNVVYRMGFGSTRSEARQLVSHKAIAVNGRTVNVASYQVKPGDVVSV 145 >gi|150390272|ref|YP_001320321.1| hemolysin A [Alkaliphilus metalliredigens QYMF] gi|149950134|gb|ABR48662.1| hemolysin A [Alkaliphilus metalliredigens QYMF] Length = 267 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 11/59 (18%), Positives = 22/59 (37%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ + G SR + I V V+ ++++ V I++ G P+ Sbjct: 3 KKVRIDLRLVEEGYFDSRERAKSSIMAGVVLVDQQVIDKPGTKVDEDLPIKIKGNPIPY 61 >gi|297562525|ref|YP_003681499.1| translation initiation factor IF-2 [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296846973|gb|ADH68993.1| translation initiation factor IF-2 [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 1012 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 11/118 (9%), Positives = 24/118 (20%), Gaps = 6/118 (5%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKK- 300 R+ P + A + P + ++ K + Sbjct: 58 RKGSAPRPGPRPAADNGAAPKPGPAPKPGPRPSPAPKPSPQSEAAPRANAPKPGPKAPRG 117 Query: 301 -----LATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A ++G G R + +R P + + Sbjct: 118 EAGARPGGAPKPGAPAGPGGRSEGGRPEGGRPEGGRPDRAQRGGDRPERGERPERGDR 175 Score = 42.9 bits (99), Expect = 0.070, Method: Composition-based stats. Identities = 6/107 (5%), Positives = 14/107 (13%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 +L + + + S + + Sbjct: 45 RLQEAFNNGSDGGRKGSAPRPGPRPAADNGAAPKPGPAPKPGPRPSPAPKPSPQSEAAPR 104 Query: 304 PVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRT 350 + G G RS + Sbjct: 105 ANAPKPGPKAPRGEAGARPGGAPKPGAPAGPGGRSEGGRPEGGRPEG 151 Score = 39.4 bits (90), Expect = 0.79, Method: Composition-based stats. Identities = 10/83 (12%), Positives = 17/83 (20%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P EA +AP + + P + G + + Sbjct: 94 KPSPQSEAAPRANAPKPGPKAPRGEAGARPGGAPKPGAPAGPGGRSEGGRPEGGRPEGGR 153 Query: 306 HRRNLASNVWMAKGIHSSFLSDS 328 R +G S Sbjct: 154 PDRAQRGGDRPERGERPERGDRS 176 >gi|254373204|ref|ZP_04988693.1| hypothetical protein FTCG_00787 [Francisella tularensis subsp. novicida GA99-3549] gi|151570931|gb|EDN36585.1| hypothetical protein FTCG_00787 [Francisella novicida GA99-3549] Length = 332 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 32/240 (13%), Positives = 68/240 (28%), Gaps = 34/240 (14%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ +R+ VI SR ++++ + + + VNG + V+ + +E++ Sbjct: 15 IMHPKDAGKRIDVVINEQFEQFSRAQIQKWLKEGSITVNGR-ATKPKHIVLGDEEVEINI 73 Query: 65 VPLRKAERTRLWLY--------------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI- 109 L E + +V + + L + Sbjct: 74 ELLPTNEWIAEDINLKIIFEDDDIIVIDKPVNMIVHPGAGNPTGTVSNALLHRYKDQDKL 133 Query: 110 ----SVGRLDINTEGLLLLTNDGGLARVLELP------------STQWLRVYRVRFHGQV 153 V RLD +T GL++ L + + + + Sbjct: 134 PRAGIVHRLDKDTSGLMVAAKSSIAYHNLVQQLAERKVSRKYLAIVEGEIYQQGTINQPI 193 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 +D N K I +G T + L G+ +I+ + + Sbjct: 194 GRDPTNRTKMAINYRGKEA-ITHYTPIEVYDGFTLIECQLETGRTHQIRVHMKSIKHPLV 252 >gi|312899123|ref|ZP_07758501.1| ribosomal RNA large subunit methyltransferase J [Megasphaera micronuciformis F0359] gi|310619790|gb|EFQ03372.1| ribosomal RNA large subunit methyltransferase J [Megasphaera micronuciformis F0359] Length = 267 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G SR + + + V V +++A + + I V G PL Sbjct: 3 EKERLDVLLTERGFFESREKAKAAVMAGLVFVKDRRVDKAGTKIEIHEEITVKGNPLPY 61 >gi|307265157|ref|ZP_07546716.1| hemolysin A [Thermoanaerobacter wiegelii Rt8.B1] gi|326390209|ref|ZP_08211770.1| hemolysin A [Thermoanaerobacter ethanolicus JW 200] gi|306919779|gb|EFN49994.1| hemolysin A [Thermoanaerobacter wiegelii Rt8.B1] gi|325993857|gb|EGD52288.1| hemolysin A [Thermoanaerobacter ethanolicus JW 200] Length = 264 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 11 FTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ + G S RE + I V V+G +E+A V IEV Sbjct: 3 SKKERLDVLLVQKGFFSSREKAKASIMAGEVYVDGKRIEKAGEFVNIDSSIEV 55 >gi|241759655|ref|ZP_04757756.1| ribosomal protein S4 [Neisseria flavescens SK114] gi|241320027|gb|EER56408.1| ribosomal protein S4 [Neisseria flavescens SK114] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIIVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 156 >gi|332088103|gb|EGI93228.1| ribosomal large subunit pseudouridine synthase D [Shigella boydii 5216-82] Length = 300 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 25/217 (11%), Positives = 56/217 (25%), Gaps = 30/217 (13%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP--------------LRKAER 72 SR ++ I QRV VNG + ++ V+ + + ++ + + Sbjct: 6 SRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDE 65 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDINTEGLLLLTND 127 + + +V + + + L R V RLD +T GL+++ Sbjct: 66 DIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKT 125 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQ-----------DKLNLLKKGIVIQGICYGDMQ 176 L + V Sbjct: 126 VPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKRTHMAVHPMGKPAVTH 185 Query: 177 VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ + Sbjct: 186 YRIMEHFRVHMRLRLRLETGRTHQIRVHMAHITHPLV 222 >gi|302869943|ref|YP_003838580.1| 30S ribosomal protein S4 [Micromonospora aurantiaca ATCC 27029] gi|315501404|ref|YP_004080291.1| ribosomal protein s4 [Micromonospora sp. L5] gi|302572802|gb|ADL49004.1| ribosomal protein S4 [Micromonospora aurantiaca ATCC 27029] gi|315408023|gb|ADU06140.1| ribosomal protein S4 [Micromonospora sp. L5] Length = 208 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ RAG A SR +++ VNG ++ + V D IEV Sbjct: 99 RLDNVVYRAGYAKSRDMARQLVKHGHFTVNGKKVDIPSYRVKEHDIIEV 147 >gi|325143909|gb|EGC66219.1| ribosomal large subunit pseudouridine synthase D [Neisseria meningitidis M01-240013] Length = 356 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 22 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 80 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 81 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 140 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 141 LDKETSGLMVVAKTLSAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 200 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K +V G V + + +++++ L G+ +I+ N Sbjct: 201 KMAVVKFGGKPAVTHVKVLERYLAHSYIECSLETGRTHQIRVHMREANHP 250 >gi|254467985|ref|ZP_05081391.1| ribosomal large subunit pseudouridine synthase C [beta proteobacterium KB13] gi|207086795|gb|EDZ64078.1| ribosomal large subunit pseudouridine synthase C [beta proteobacterium KB13] Length = 306 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 38/265 (14%), Positives = 77/265 (29%), Gaps = 41/265 (15%) Query: 1 MKDKNI----VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVM 55 M++K I + E+ QR+ + + + + ++I V+VN ++ + Sbjct: 1 MQNKQIQHIDIDESSEDQRIDNFLFKTFKDVPKNHIFKIIRNGEVRVNKKRVKTL-YKLK 59 Query: 56 STDHIEV---------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDN 100 D + + + P E L + +KP GL + Sbjct: 60 INDVVRIPPIEFIEKKEKKPSDNFKPHIIYEDEWLLVVNKPSGLAVHGGSGIDFGLIEHM 119 Query: 101 LPSIFSRVISV--GRLDINTEGLLLLTNDG-----GLARVLELPSTQWLRVYRVRFHGQV 153 R+D NT G++++ + V Sbjct: 120 RHIKPEYKFLELVHRIDKNTSGVIVIAKKRSALRSMQELFRNKKIKKNYLVAVKGNWDSK 179 Query: 154 DQDKLNLLKKGIVIQG-----------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIK 202 ++ L+K +G L Q + ++ + G+ +I+ Sbjct: 180 KKEVSLRLEKKQTSEGHHVNVVEDPLRGKLSKSIFYLVKQMQKQSLLSAQIITGRTHQIR 239 Query: 203 KVFEFFNWKVNRLIRISYGPFQLGT 227 F + V L YG F L Sbjct: 240 VQLAFLGFPV--LGDDKYGDFALNK 262 >gi|187935054|ref|YP_001884501.1| 30S ribosomal protein S4 [Clostridium botulinum B str. Eklund 17B] gi|188590506|ref|YP_001919700.1| 30S ribosomal protein S4 [Clostridium botulinum E3 str. Alaska E43] gi|251777686|ref|ZP_04820606.1| 30S ribosomal protein S4 [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|226697826|sp|B2UYD8|RS4_CLOBA RecName: Full=30S ribosomal protein S4 gi|226697827|sp|B2TIK3|RS4_CLOBB RecName: Full=30S ribosomal protein S4 gi|187723207|gb|ACD24428.1| 30S ribosomal protein S4 [Clostridium botulinum B str. Eklund 17B] gi|188500787|gb|ACD53923.1| 30S ribosomal protein S4 [Clostridium botulinum E3 str. Alaska E43] gi|243082001|gb|EES47891.1| 30S ribosomal protein S4 [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 1/69 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ V+ R G SR E +++ VNG ++ + +V D I V + Sbjct: 98 MRLDNVVYRLGYGASRNEARQLVTHGHFLVNGKKVDICSYHVSMNDVITVCEKSRSSEKF 157 Query: 73 TRLWLYHKP 81 K Sbjct: 158 KTFVENPKT 166 >gi|87302222|ref|ZP_01085047.1| tRNA/rRNA methyltransferase (SpoU):RNA methyltransferase TrmH [Synechococcus sp. WH 5701] gi|87283147|gb|EAQ75103.1| tRNA/rRNA methyltransferase (SpoU):RNA methyltransferase TrmH [Synechococcus sp. WH 5701] Length = 547 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 12/119 (10%), Positives = 26/119 (21%), Gaps = 4/119 (3%) Query: 232 STREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK--KNS 289 R R+ E+ + R + D R + Sbjct: 37 EWR--GSSEGRDGREDRPRRESVQRPQGEGRPAGRPTRVIGARPAARRFDDQRPGAGRRP 94 Query: 290 SQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 + +++ R+ +G SF + R + R + Sbjct: 95 EGRFEGRPERRPEGRPEGRSEGRPEGRDQGRRPSFGAPRFSRPDGDRPRFQPGRPPARP 153 Score = 42.9 bits (99), Expect = 0.080, Method: Composition-based stats. Identities = 11/108 (10%), Positives = 24/108 (22%), Gaps = 1/108 (0%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 P ++ V+ + + + ++ Sbjct: 35 RPEWRGSSEGRDGREDRPRRESVQRPQGEGRPAGRPTRVIGARPAARRFDDQRPGAGRRP 94 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R +G S+ + R PSF + R R + Sbjct: 95 EGRFEGRPERRPEG-RPEGRSEGRPEGRDQGRRPSFGAPRFSRPDGDR 141 Score = 40.2 bits (92), Expect = 0.55, Method: Composition-based stats. Identities = 12/109 (11%), Positives = 26/109 (23%) Query: 245 LGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATP 304 + + S +P+ ++ + + +++ + P Sbjct: 1 MSQRFERRKPKGAGSGDRPSGGARGGKPSRFGGPRPEWRGSSEGRDGREDRPRRESVQRP 60 Query: 305 VHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A G + QR RR R RR + Sbjct: 61 QGEGRPAGRPTRVIGARPAARRFDDQRPGAGRRPEGRFEGRPERRPEGR 109 Score = 39.8 bits (91), Expect = 0.63, Method: Composition-based stats. Identities = 14/122 (11%), Positives = 26/122 (21%), Gaps = 4/122 (3%) Query: 234 REVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM--KKNSSQ 291 RE + RE + E + + R + + + Sbjct: 48 REDRPR--RESVQRPQGEGRPAGRPTRVIGARPAARRFDDQRPGAGRRPEGRFEGRPERR 105 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 G + + P R + A + PS S+ Sbjct: 106 PEGRPEGRSEGRPEGRDQGRRPSFGAPRFSRPDGDRPRFQPGRPPARPSRFSEPEAPGPE 165 Query: 352 AK 353 A Sbjct: 166 AS 167 Score = 38.2 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 12/114 (10%), Positives = 22/114 (19%), Gaps = 4/114 (3%) Query: 240 ILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQK 299 R+ G + S R SE D + S + + + Sbjct: 6 ERRKPKGAGSGDRPSGGARGGKPSRFGGPRPEWRGSSEGRDGREDRPRRESVQRPQGEGR 65 Query: 300 KLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 P +G+R E ++ Sbjct: 66 PAGRPTRVIGARPAARRFDDQRPG----AGRRPEGRFEGRPERRPEGRPEGRSE 115 Score = 37.9 bits (86), Expect = 2.3, Method: Composition-based stats. Identities = 11/80 (13%), Positives = 19/80 (23%), Gaps = 5/80 (6%) Query: 280 DDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQR-----EEN 334 F R K + R W D +R + Sbjct: 3 QRFERRKPKGAGSGDRPSGGARGGKPSRFGGPRPEWRGSSEGRDGREDRPRRESVQRPQG 62 Query: 335 HRRSPSFPSKRSLRRTSAKK 354 R P++ R +A++ Sbjct: 63 EGRPAGRPTRVIGARPAARR 82 Score = 36.7 bits (83), Expect = 5.7, Method: Composition-based stats. Identities = 3/104 (2%), Positives = 16/104 (15%), Gaps = 2/104 (1%) Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + + + + + + P Sbjct: 1 MSQRFERRKPKGAGSGDRPSGGARGGKPSRFGGPRPEWRGSSEGRDGREDRPRRESVQRP 60 Query: 313 NVWMAKGIHSSF--LSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + + R + +R + ++ Sbjct: 61 QGEGRPAGRPTRVIGARPAARRFDDQRPGAGRRPEGRFEGRPER 104 >gi|322389018|ref|ZP_08062588.1| S4 domain-containing protein YlmH [Streptococcus parasanguinis ATCC 903] gi|321144323|gb|EFX39731.1| S4 domain-containing protein YlmH [Streptococcus parasanguinis ATCC 903] Length = 263 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 15/48 (31%), Positives = 22/48 (45%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ KVIA SR + ++I+ VKVN + V D + V Sbjct: 185 RLDKVIAGTFKLSRSQASQLISSGLVKVNYATTSNVSYAVGLNDLVSV 232 >gi|312867091|ref|ZP_07727301.1| S4 domain protein [Streptococcus parasanguinis F0405] gi|311097220|gb|EFQ55454.1| S4 domain protein [Streptococcus parasanguinis F0405] Length = 263 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 15/48 (31%), Positives = 22/48 (45%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ KVIA SR + ++I+ VKVN + V D + V Sbjct: 185 RLDKVIAGTFKLSRSQASQLISSGLVKVNYATTSNVSYAVGLNDLVSV 232 >gi|296876953|ref|ZP_06900997.1| S4 domain-containing protein YlmH [Streptococcus parasanguinis ATCC 15912] gi|296431988|gb|EFH17791.1| S4 domain-containing protein YlmH [Streptococcus parasanguinis ATCC 15912] Length = 263 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 15/48 (31%), Positives = 22/48 (45%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ KVIA SR + ++I+ VKVN + V D + V Sbjct: 185 RLDKVIAGTFKLSRSQASQLISSGLVKVNYATTSNVSYAVGLNDLVSV 232 >gi|325977748|ref|YP_004287464.1| hypothetical protein SGGBAA2069_c05480 [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|325177676|emb|CBZ47720.1| conserved hypothetical protein [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 263 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 18/63 (28%), Positives = 32/63 (50%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 KD + + R+ KV+A SR + ++I +VK+N +++RA+ + D I Sbjct: 173 KDSRQLDIMVSSMRMDKVLATVLKLSRSQAVQLIETDKVKLNYQIVDRASEMLQVGDLIS 232 Query: 62 VDG 64 V G Sbjct: 233 VRG 235 >gi|324998566|ref|ZP_08119678.1| hemolysin A [Pseudonocardia sp. P1] Length = 274 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 13/61 (21%) Query: 15 RVS-----KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----DGV 65 R+ + +AR SR + +IA RV VNG+ +AA V + V DG Sbjct: 7 RLDAELVRRRLAR----SRGQAAELIAAGRVSVNGMPAGKAATVVDRDAPVVVRPDDDGE 62 Query: 66 P 66 P Sbjct: 63 P 63 >gi|311693294|gb|ADP96167.1| 30S ribosomal protein S4 [marine bacterium HP15] Length = 167 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VN + + V D + V Sbjct: 58 RLDNVVYRMGFGSTRAEARQLVSHKAILVNDKTVNIPSYQVRPGDVVSV 106 >gi|308048015|ref|YP_003911581.1| 30S ribosomal protein S4P [Ferrimonas balearica DSM 9799] gi|307630205|gb|ADN74507.1| SSU ribosomal protein S4P [Ferrimonas balearica DSM 9799] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 1/56 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ V+ R G +R E ++++ + +KVNG ++ + +V D I V ++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAIKVNGRVVNIPSFSVSPNDVIAVREKAQKQ 152 >gi|306830850|ref|ZP_07464012.1| S4 domain-containing protein YlmH [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|304426873|gb|EFM29983.1| S4 domain-containing protein YlmH [Streptococcus gallolyticus subsp. gallolyticus TX20005] Length = 263 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 18/63 (28%), Positives = 32/63 (50%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 KD + + R+ KV+A SR + ++I +VK+N +++RA+ + D I Sbjct: 173 KDSRQLDIMVSSMRMDKVLATVLKLSRSQAVQLIETDKVKLNYQIVDRASEMLQVGDLIS 232 Query: 62 VDG 64 V G Sbjct: 233 VRG 235 >gi|288904818|ref|YP_003430040.1| hypothetical protein GALLO_0607 [Streptococcus gallolyticus UCN34] gi|288731544|emb|CBI13099.1| conserved hypothetical protein [Streptococcus gallolyticus UCN34] Length = 261 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 18/63 (28%), Positives = 32/63 (50%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 KD + + R+ KV+A SR + ++I +VK+N +++RA+ + D I Sbjct: 171 KDSRQLDIMVSSMRMDKVLATVLKLSRSQAVQLIETDKVKLNYQIVDRASEMLQVGDLIS 230 Query: 62 VDG 64 V G Sbjct: 231 VRG 233 >gi|161523454|ref|YP_001578466.1| 30S ribosomal protein S4 [Burkholderia multivorans ATCC 17616] gi|189351773|ref|YP_001947401.1| 30S ribosomal protein S4 [Burkholderia multivorans ATCC 17616] gi|221201590|ref|ZP_03574628.1| 30S ribosomal protein S4 [Burkholderia multivorans CGD2M] gi|221207335|ref|ZP_03580345.1| 30S ribosomal protein S4 [Burkholderia multivorans CGD2] gi|221213473|ref|ZP_03586448.1| 30S ribosomal protein S4 [Burkholderia multivorans CGD1] gi|226697816|sp|A9ADL8|RS4_BURM1 RecName: Full=30S ribosomal protein S4 gi|160340883|gb|ABX13969.1| ribosomal protein S4 [Burkholderia multivorans ATCC 17616] gi|189335795|dbj|BAG44865.1| small subunit ribosomal protein S4 [Burkholderia multivorans ATCC 17616] gi|221166925|gb|EED99396.1| 30S ribosomal protein S4 [Burkholderia multivorans CGD1] gi|221172923|gb|EEE05360.1| 30S ribosomal protein S4 [Burkholderia multivorans CGD2] gi|221178406|gb|EEE10815.1| 30S ribosomal protein S4 [Burkholderia multivorans CGD2M] Length = 207 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNGI+ + V + D I + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKSITVNGIVANVPSQQVKAGDVIAIREKAKKQARII 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|126697569|ref|YP_001086466.1| putative RNA-binding mediating protein [Clostridium difficile 630] gi|255102902|ref|ZP_05331879.1| putative RNA-binding mediating protein [Clostridium difficile QCD-63q42] gi|255308722|ref|ZP_05352893.1| putative RNA-binding mediating protein [Clostridium difficile ATCC 43255] gi|255657641|ref|ZP_05403050.1| putative RNA-binding mediating protein [Clostridium difficile QCD-23m63] gi|296452678|ref|ZP_06894369.1| S4 domain protein YaaA [Clostridium difficile NAP08] gi|296880069|ref|ZP_06904038.1| S4 domain protein YaaA [Clostridium difficile NAP07] gi|115249006|emb|CAJ66817.1| putative RNA-binding mediating protein [Clostridium difficile] gi|296258460|gb|EFH05364.1| S4 domain protein YaaA [Clostridium difficile NAP08] gi|296428936|gb|EFH14814.1| S4 domain protein YaaA [Clostridium difficile NAP07] Length = 68 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 11/64 (17%), Positives = 25/64 (39%), Gaps = 9/64 (14%) Query: 10 NFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ + + A G + +I + V VN + R + S D +E++G Sbjct: 7 ESEYIKLDQFLKLAEIASTGG----HAKFLIQEGLVTVNDEIELRRGKKIKSGDIVEIEG 62 Query: 65 VPLR 68 ++ Sbjct: 63 TKIK 66 >gi|73662889|ref|YP_301670.1| hypothetical protein SSP1580 [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|72495404|dbj|BAE18725.1| conserved hypothetical protein [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 212 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 29/57 (50%) Query: 8 QENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + + R+ V+ SR +++I ++RVKVN +++ A + S D + + G Sbjct: 129 ETTVSGLRLDVVLKEMVRKSRSIAKQLIDKKRVKVNHTVIDAADFQLDSGDLLSIQG 185 >gi|319639573|ref|ZP_07994320.1| 30S ribosomal protein S4 [Neisseria mucosa C102] gi|317399144|gb|EFV79818.1| 30S ribosomal protein S4 [Neisseria mucosa C102] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 156 >gi|81428454|ref|YP_395454.1| 30S ribosomal protein S4 [Lactobacillus sakei subsp. sakei 23K] gi|90101691|sp|Q38XD6|RS4_LACSS RecName: Full=30S ribosomal protein S4 gi|78610096|emb|CAI55145.1| 30S Ribosomal protein S4 [Lactobacillus sakei subsp. sakei 23K] Length = 201 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+AS R + +++ V V+G ++ + V I + Sbjct: 93 QRLDNIVYRLGLASTRAQARQLVNHGHVTVDGKRVDIPSYEVKPGQEISI 142 >gi|53728774|ref|ZP_00135229.2| COG0564: Pseudouridylate synthases, 23S RNA-specific [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|126208592|ref|YP_001053817.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae L20] gi|165976548|ref|YP_001652141.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|190150449|ref|YP_001968974.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|303253303|ref|ZP_07339452.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|307246037|ref|ZP_07528119.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307248145|ref|ZP_07530173.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307250378|ref|ZP_07532326.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|307255019|ref|ZP_07536837.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307257175|ref|ZP_07538947.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|307259455|ref|ZP_07541180.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|307261604|ref|ZP_07543272.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|126097384|gb|ABN74212.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 5b str. L20] gi|165876649|gb|ABY69697.1| pseudouridine synthase [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|189915580|gb|ACE61832.1| ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|302647985|gb|EFL78192.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|306852972|gb|EFM85195.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306855322|gb|EFM87497.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306857588|gb|EFM89696.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306861892|gb|EFM93868.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306864337|gb|EFM96248.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306866391|gb|EFM98254.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306868727|gb|EFN00536.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 12 str. 1096] Length = 325 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 26/232 (11%), Positives = 62/232 (26%), Gaps = 31/232 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----------E 61 R+ + +A+ SR ++ I VKVNGI++ +A V + + Sbjct: 17 GCRLDQALAQLFPDYSRSRIKVWIESDLVKVNGIVVNKAREKVFGGEQVEIQAEIEEEIR 76 Query: 62 VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 + + + + + +V + + + L Sbjct: 77 FEPQDIPLNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLHYYPPIAEVPRAGIVH 136 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQDKLNLL 161 RLD +T GL+++ + L + + Sbjct: 137 RLDKDTTGLMVVAKNIPAQTHLVTALQKRRITREYEAVASGVMTQGGKVDEPMARHPTKR 196 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + Sbjct: 197 TAMAVHPMGKPAVTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 248 >gi|294792627|ref|ZP_06757774.1| ribosomal large subunit pseudouridine synthase, RluA family [Veillonella sp. 6_1_27] gi|294456526|gb|EFG24889.1| ribosomal large subunit pseudouridine synthase, RluA family [Veillonella sp. 6_1_27] Length = 300 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 34/227 (14%), Positives = 67/227 (29%), Gaps = 31/227 (13%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------GVPLRK 69 SK + S R+++ M ++RVKVN + + D + ++ GV + K Sbjct: 29 SKYVKERFSLSSRDIQMMFRKKRVKVNSRVAHS-QRALKKGDVLTLELPQDKDYGVDVEK 87 Query: 70 AERTRLWL--------------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 T L+ H + R + D Sbjct: 88 GPITVLYEDAHTLVVNKDPFMLVHPAGQTKSCTLSNYVAGYYAKKNVVHKVRPVHRLDRD 147 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------LKKGIVIQ 168 + L T + EL + + R+Y G++D D + + + Sbjct: 148 TSGCILFGKTKEAQQYYTDELQAGRIDRIYTGLVEGRIDADGMVDAPIGVDPVFDNRRVI 207 Query: 169 GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +G N + L G+ +I+ E + Sbjct: 208 DEFGQPAQTEYIVLNHEGDNTLLRFKLLTGRTHQIRVHMEHIGHPIV 254 >gi|269127123|ref|YP_003300493.1| pseudouridine synthase, RluA family [Thermomonospora curvata DSM 43183] gi|268312081|gb|ACY98455.1| pseudouridine synthase, RluA family [Thermomonospora curvata DSM 43183] Length = 309 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 26/244 (10%), Positives = 58/244 (23%), Gaps = 39/244 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST--DHIE--- 61 V E +RV +AR SR +IA V V+G + + + + + Sbjct: 9 VPEGLDGERVDAALARLFGLSRSRAAELIAAGDVLVDGRTVVK-SDRLHGGGWLEVTLPP 67 Query: 62 -----------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 V G+ + + + + +G + + L + + S Sbjct: 68 PPAPPRPVAEPVPGMTILYEDEHIVVVSKPVGVAAHPTIGWNGPTVLGGLLGAGHTVATS 127 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 L G + + L+ L ++G Sbjct: 128 GAAERQGIVHRLDANTTGAMVVAKSEIAYSRLKRAFKERRVDKRYHALVQ-GHPDPLRGT 186 Query: 171 CYGDMQVTLDTQK---------------------GSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + + L G+ +I+ Sbjct: 187 IDAPIDRHPSGDGRFAVVAGGRPSITHYDTLEAFRAASLLEIDLETGRTHQIRVHMSAVR 246 Query: 210 WKVN 213 Sbjct: 247 HPCV 250 >gi|224827041|ref|ZP_03700138.1| ribosomal protein S4 [Lutiella nitroferrum 2002] gi|224600707|gb|EEG06893.1| ribosomal protein S4 [Lutiella nitroferrum 2002] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 32/73 (43%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG ++ + V + D + + ++A Sbjct: 97 RLDNVVYRMGFGSTRAEARQLVSHKAIVVNGQVVNIPSFQVKAGDVVAIREKAKKQARIV 156 Query: 74 RLWLYHKPIGLVT 86 + G + Sbjct: 157 EGLALAEQGGFPS 169 >gi|206900643|ref|YP_002251260.1| hypothetical protein DICTH_1441 [Dictyoglomus thermophilum H-6-12] gi|206739746|gb|ACI18804.1| conserved domain protein [Dictyoglomus thermophilum H-6-12] Length = 71 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 12/37 (32%), Positives = 20/37 (54%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 + + +I RVKVNG + + + + D +EVDG Sbjct: 28 QAKNLILAGRVKVNGEIELHRSRKLKNGDVVEVDGEK 64 >gi|300780071|ref|ZP_07089927.1| S4 domain protein [Corynebacterium genitalium ATCC 33030] gi|300534181|gb|EFK55240.1| S4 domain protein [Corynebacterium genitalium ATCC 33030] Length = 90 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 9/38 (23%), Positives = 18/38 (47%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E + +IA V VNG ++ ++ D + + G + Sbjct: 22 EAKELIATGEVAVNGEVVTSRGFSLDDGDEVSLPGHTI 59 >gi|291044392|ref|ZP_06570101.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae DGI2] gi|291011286|gb|EFE03282.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae DGI2] Length = 392 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 71/230 (30%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 58 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 116 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 117 VPEPMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 176 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 177 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 236 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K V G V + + +++++ L G+ +I+ N Sbjct: 237 KMAAVKFGGKPAVTHVKVLERYLAHSYIECSLGTGRTHQIRVHMREANHP 286 >gi|254712999|ref|ZP_05174810.1| Cell division protein FtsJ [Brucella ceti M644/93/1] gi|254716647|ref|ZP_05178458.1| Cell division protein FtsJ [Brucella ceti M13/05/1] gi|261218448|ref|ZP_05932729.1| hemolysin A [Brucella ceti M13/05/1] gi|261320702|ref|ZP_05959899.1| hemolysin A [Brucella ceti M644/93/1] gi|260923537|gb|EEX90105.1| hemolysin A [Brucella ceti M13/05/1] gi|261293392|gb|EEX96888.1| hemolysin A [Brucella ceti M644/93/1] Length = 240 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ +++ G A+R I + VKV+G + + V+ + VD Sbjct: 11 RLDQLLVERGFFATRSRARDAIQRGTVKVDGRPITKPGQMVVRDAALAVDD 61 >gi|217424827|ref|ZP_03456324.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 576] gi|217392283|gb|EEC32308.1| 30S ribosomal protein S4 [Burkholderia pseudomallei 576] Length = 207 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNGI+ + V + D + + ++A Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGIVANIPSQQVRAGDVVAIREKAKKQARIV 157 Query: 74 RLWLYHKPIGLVT 86 + G+ + Sbjct: 158 EALSLAEQGGMPS 170 >gi|170077101|ref|YP_001733739.1| hemolysin A [Synechococcus sp. PCC 7002] gi|169884770|gb|ACA98483.1| hemolysin A [Synechococcus sp. PCC 7002] Length = 285 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 1/54 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 QR+ ++ + SR++ +R+I VKV ++++ V + IEV P Sbjct: 4 QRLDLLLVERKLCESRQQAQRVIRAGEVKVKQQIVDKPGTLVPADVDIEVQAKP 57 >gi|307543849|ref|YP_003896328.1| 30S ribosomal protein S4 [Halomonas elongata DSM 2581] gi|307215873|emb|CBV41143.1| 30S ribosomal protein S4 [Halomonas elongata DSM 2581] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + A+ V D + V Sbjct: 97 RLDNVVYRMGFGSTRSEARQLVSHKAIAVNGRTVNVASYQVKPGDVVSV 145 >gi|209886260|ref|YP_002290117.1| ribosomal large subunit pseudouridine synthase D [Oligotropha carboxidovorans OM5] gi|209874456|gb|ACI94252.1| ribosomal large subunit pseudouridine synthase D [Oligotropha carboxidovorans OM5] Length = 366 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 13/63 (20%), Positives = 26/63 (41%), Gaps = 7/63 (11%) Query: 12 TPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE------VDG 64 QR+ +++A SR ++ +I V + ++ A V + + I VD Sbjct: 50 KSQRLDRLLAEQIDDLSRTRLKALILAGHVSLGDTVVRDPAYQVKAGEAITIEVPPAVDP 109 Query: 65 VPL 67 P+ Sbjct: 110 EPV 112 >gi|332995248|gb|AEF05303.1| 30S ribosomal protein S4 [Alteromonas sp. SN2] Length = 206 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R E ++++ + + VNG ++ + NV + D + V Sbjct: 97 RLDNVVYRMGFASTRAEARQLVSHKAIMVNGQVVNIPSFNVSAEDVVSV 145 >gi|295109996|emb|CBL23949.1| Uncharacterized conserved protein, contains S4-like domain [Ruminococcus obeum A2-162] Length = 250 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 22/60 (36%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + R+ +I A +SR + I +V VNG L+ D + V G Sbjct: 166 TISGTCASVRLDTLIGLAFQSSRSSMVSFIEGGQVFVNGKLITSNGYEPKDGDIVSVRGK 225 >gi|295394748|ref|ZP_06804963.1| ribosomal large subunit pseudouridine synthase D [Brevibacterium mcbrellneri ATCC 49030] gi|294972344|gb|EFG48204.1| ribosomal large subunit pseudouridine synthase D [Brevibacterium mcbrellneri ATCC 49030] Length = 308 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 28/243 (11%), Positives = 62/243 (25%), Gaps = 37/243 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 M+ +V E +RV ++R SR M V+V+G+ + + ++ V + I Sbjct: 1 MERSILVPEGLEGERVDTALSRLLGLSRSVAAGMAESGDVEVDGVKVPK-SMRVTTGARI 59 Query: 61 EVD----------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 +V G+ + + + + + G + + + Sbjct: 60 DVTMPKPKEPLSIVAEPVPGMNVIYDDDAFVVVDKPVGVAAHAAAGWSGPTVIGGLAAAG 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------- 156 + S L + G + + L+ Sbjct: 120 YQIATSGAAERQGIVHRLDVGTSGVMVVAKGEHAYSVLKRAFKNRTVDKTYHALVQGLPD 179 Query: 157 ------------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 V + + S + V V L G+ +I+ Sbjct: 180 PVVGTIEAPIGRHPRKDGLYAVRTDGKHAVTHYEVLEAYRSASLVEVKLETGRTHQIRVH 239 Query: 205 FEF 207 Sbjct: 240 MSA 242 >gi|261838022|gb|ACX97788.1| pseudouridine synthase D [Helicobacter pylori 51] Length = 327 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 42/293 (14%), Positives = 83/293 (28%), Gaps = 53/293 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI-------------- 60 R+ + +A+ S+ +V +I + V +++ + + D I Sbjct: 13 RIDEFLAKELQISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKIAPKPLKK 72 Query: 61 EVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---------RVISV 111 E+D E L + +KP LV + T+ D L R V Sbjct: 73 ELDLEIEVIFEDKDLLVLNKPPNLVVHKAPSVKEPTLVDWLEFKNYELSNLGLKERYGIV 132 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR-------VRFHGQVDQDKLNLLKKG 164 RLD +T G +++ + L ++ + Sbjct: 133 HRLDKDTSGGIVIAKNNFTHVHLSEQLKTKTMGRYYIALLSTPLKEEKMSVECYLTRNPN 192 Query: 165 IVIQGICYGDMQVTLDTQKGSNAWVTVG-----------LREGKNREIKKVFEFFNWKVN 213 ++ I + S + L G+ +I+ Sbjct: 193 NRLKMIALKAAKKEKSRYSKSEFTSLLTSQNHLNLIGAKLFTGRTHQIRAHL-------E 245 Query: 214 RLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSET 266 L R G L G + + K+ +R L +L+E + + Sbjct: 246 YLNRHIIG----DNLY-GLNQALPKEEIRIMLHAYLIEFKHPRSEQKLRFKVP 293 >gi|240013591|ref|ZP_04720504.1| RluD [Neisseria gonorrhoeae DGI18] gi|240117408|ref|ZP_04731470.1| RluD [Neisseria gonorrhoeae PID1] gi|240120661|ref|ZP_04733623.1| RluD [Neisseria gonorrhoeae PID24-1] gi|268603103|ref|ZP_06137270.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae PID1] gi|268587234|gb|EEZ51910.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae PID1] gi|317163748|gb|ADV07289.1| RluD [Neisseria gonorrhoeae TCDC-NG08107] Length = 374 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 71/230 (30%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAAVKFGGKPAVTHVKVLERYLAHSYIECSLGTGRTHQIRVHMREANHP 268 >gi|269128486|ref|YP_003301856.1| 30S ribosomal protein S4 [Thermomonospora curvata DSM 43183] gi|268313444|gb|ACY99818.1| ribosomal protein S4 [Thermomonospora curvata DSM 43183] Length = 209 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ RAG A SR ++I KVNG ++ + V D IEV Sbjct: 99 RLDNVVYRAGFAKSRDMARQLIRHGHFKVNGRKVDIPSFLVSENDVIEVKPK 150 >gi|160901794|ref|YP_001567375.1| RluA family pseudouridine synthase [Petrotoga mobilis SJ95] gi|160359438|gb|ABX31052.1| pseudouridine synthase, RluA family [Petrotoga mobilis SJ95] Length = 303 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 33/246 (13%), Positives = 75/246 (30%), Gaps = 41/246 (16%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRR---EVE-----RMIAQQRVKVNGILLERAAV 52 M+ + V E R+ I R+ E++ +I + VKVN +++ Sbjct: 1 MEKETTVNEKNYYSRLDTFI-------RKNYPEIKLGAIYGLIRKGFVKVNEKRVKKNNY 53 Query: 53 NVMSTD--HIEVDGVPLR-------------------KAERTRLWLYHKPIGLVTTHSDP 91 + D I +D L E L + +KP + Sbjct: 54 ILEIGDNVKIILDENKLEELSRPTQPSLKARPVSFDIIYEDKDLLVINKPAKVSVHPGSK 113 Query: 92 DGRSTVFDNLPSIFSRVISVGRLDINTE----GLLLLTNDGGLARVLELPSTQWLRVYRV 147 + +T+ + + + + +++ N + +L ++ R Y + Sbjct: 114 EEMATIIEGVMHYSRGEFEPHLVHRLDKLTSGVMVVAKNKQTARELTQLIKSRETRKYYL 173 Query: 148 RFHGQVDQDKLNLLKKGIVIQGICYGD-MQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 K L + + ++ D + V + L G+ +I+ F Sbjct: 174 TLLVGNLNKKSGELVSTVYGKTAQLKFNLKKKFDLFGELYSLVEIELYTGRKHQIRVQFA 233 Query: 207 FFNWKV 212 + + Sbjct: 234 DLGFPI 239 >gi|162533081|ref|YP_001621404.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. tomato str. DC3000] gi|213971041|ref|ZP_03399161.1| Ribosomal large subunit pseudouridine synthase D(Pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. tomato T1] gi|301384235|ref|ZP_07232653.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. tomato Max13] gi|302059468|ref|ZP_07251009.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. tomato K40] gi|302134990|ref|ZP_07260980.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. tomato NCPPB 1108] gi|118201618|gb|ABK79681.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. tomato str. DC3000] gi|213924149|gb|EEB57724.1| Ribosomal large subunit pseudouridine synthase D(Pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. tomato T1] gi|330878989|gb|EGH13138.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. morsprunorum str. M302280PT] gi|330966362|gb|EGH66622.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. actinidiae str. M302091] gi|331018389|gb|EGH98445.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 320 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 32/236 (13%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G +L V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGGVLR-PRDIVHGGAVLELIAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L + V Sbjct: 75 EWVAQDIELD---IIYEDDQILVINKPAGLVVHPAAGHADGTLLNALLHHVPDIVNVPRA 131 Query: 114 LDINTEGL----------------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVTAGGKIDAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHVNYPLV 247 >gi|59800728|ref|YP_207440.1| RluD [Neisseria gonorrhoeae FA 1090] gi|240016030|ref|ZP_04722570.1| RluD [Neisseria gonorrhoeae FA6140] gi|240080171|ref|ZP_04724714.1| RluD [Neisseria gonorrhoeae FA19] gi|240115125|ref|ZP_04729187.1| RluD [Neisseria gonorrhoeae PID18] gi|240122965|ref|ZP_04735921.1| RluD [Neisseria gonorrhoeae PID332] gi|240125216|ref|ZP_04738102.1| RluD [Neisseria gonorrhoeae SK-92-679] gi|240127670|ref|ZP_04740331.1| RluD [Neisseria gonorrhoeae SK-93-1035] gi|260441058|ref|ZP_05794874.1| RluD [Neisseria gonorrhoeae DGI2] gi|268596320|ref|ZP_06130487.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae FA19] gi|268600798|ref|ZP_06134965.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae PID18] gi|268681584|ref|ZP_06148446.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae PID332] gi|268683812|ref|ZP_06150674.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae SK-92-679] gi|268686054|ref|ZP_06152916.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae SK-93-1035] gi|293399573|ref|ZP_06643726.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae F62] gi|59717623|gb|AAW89028.1| putative ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae FA 1090] gi|268550108|gb|EEZ45127.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae FA19] gi|268584929|gb|EEZ49605.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae PID18] gi|268621868|gb|EEZ54268.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae PID332] gi|268624096|gb|EEZ56496.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae SK-92-679] gi|268626338|gb|EEZ58738.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae SK-93-1035] gi|291610142|gb|EFF39264.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae F62] Length = 374 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 71/230 (30%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAAVKFGGKPAVTHVKVLERYLAHSYIECSLGTGRTHQIRVHMREANHP 268 >gi|320093495|ref|ZP_08025392.1| cytotoxin/hemolysin [Actinomyces sp. oral taxon 178 str. F0338] gi|319979540|gb|EFW11005.1| cytotoxin/hemolysin [Actinomyces sp. oral taxon 178 str. F0338] Length = 277 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R GIA SR + +I RV+++G ++ + A + + V Sbjct: 5 RLDSELVRRGIARSRGHAQELIESGRVRLDGEVVLKPARQMNPAQAVVV 53 >gi|319957378|ref|YP_004168641.1| hemolysin a [Nitratifractor salsuginis DSM 16511] gi|319419782|gb|ADV46892.1| hemolysin A [Nitratifractor salsuginis DSM 16511] Length = 239 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 1/54 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ + G+ SR + I + RV ++G + ++ A V I + G P+ Sbjct: 3 RLDTALVERGLFESRNKAAEAIRKGRVFLDGHVQKKPAFKVGEETEITLQGGPV 56 >gi|88857987|ref|ZP_01132629.1| pseudouridine synthase [Pseudoalteromonas tunicata D2] gi|88819604|gb|EAR29417.1| pseudouridine synthase [Pseudoalteromonas tunicata D2] Length = 325 Score = 49.8 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 19/233 (8%), Positives = 60/233 (25%), Gaps = 32/233 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----EVDGVP- 66 +R+ +++A SR ++ I V++NG + + + + ++ Sbjct: 17 GKRLDQILADLFPEYSRSRIKTWILDDMVQINGEIKNIPKEKLFGEEQVVISATIEPQRE 76 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----------R 107 + + L + +V + + + L Sbjct: 77 YEAQNIALNIVYEDDDILVINKPAGLVVHPGAGNADGTVLNALLHHCPEIANVPRAGIVH 136 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH----GQVDQDKLNLLKK 163 + + + +A + + G +D+ K Sbjct: 137 RLDKDTTGLMVVAKTIPAQTRLVANLQARYNFTREYEAICTGTMTAGGMIDKPIGRHATK 196 Query: 164 GIVIQGICY-GDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + S+ + + L G+ +I+ + + Sbjct: 197 RTHMDVTITGKPAVTHFRVAEKFRSHTRLRLRLETGRTHQIRVHMSYLTHPLV 249 >gi|322372692|ref|ZP_08047228.1| YlmH protein [Streptococcus sp. C150] gi|321277734|gb|EFX54803.1| YlmH protein [Streptococcus sp. C150] Length = 267 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 26/53 (49%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ V+A SR ++I+ +VK+N +E+A + D I V G Sbjct: 184 SSMRLDNVLATVLNLSRSRALKLISSGKVKLNYRQVEKADQLITIGDMISVRG 236 >gi|85704967|ref|ZP_01036067.1| ribosomal large subunit pseudouridine synthase D [Roseovarius sp. 217] gi|85670289|gb|EAQ25150.1| ribosomal large subunit pseudouridine synthase D [Roseovarius sp. 217] Length = 342 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 6/55 (10%) Query: 13 PQRVSKVIAR-----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 PQR+ K ++R A + SR + R++ + V+VNG ++ A V + D IE+ Sbjct: 15 PQRLDKALSRDVPEEATL-SRTRLARLLEEGAVQVNGAVMRDAKARVTAGDLIEI 68 >gi|257792535|ref|YP_003183141.1| 30S ribosomal protein S4 [Eggerthella lenta DSM 2243] gi|257476432|gb|ACV56752.1| ribosomal protein S4 [Eggerthella lenta DSM 2243] Length = 208 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ V+ R G A SR E + + + VNG ++ + V D + V Sbjct: 99 RLDNVVYRLGFAKSRAEARQQVRHGHITVNGRRVDIPSFRVKPGDLVAVAPKA 151 >gi|317490401|ref|ZP_07948885.1| ribosomal protein S4 [Eggerthella sp. 1_3_56FAA] gi|325833388|ref|ZP_08165837.1| ribosomal protein S4 [Eggerthella sp. HGA1] gi|316910536|gb|EFV32161.1| ribosomal protein S4 [Eggerthella sp. 1_3_56FAA] gi|325485312|gb|EGC87781.1| ribosomal protein S4 [Eggerthella sp. HGA1] Length = 208 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ V+ R G A SR E + + + VNG ++ + V D + V Sbjct: 99 RLDNVVYRLGFAKSRAEARQQVRHGHITVNGRRVDIPSFRVKPGDLVAVAPKA 151 >gi|226356866|ref|YP_002786606.1| 30S ribosomal protein S4 [Deinococcus deserti VCD115] gi|259495272|sp|C1CXD5|RS4_DEIDV RecName: Full=30S ribosomal protein S4 gi|226318856|gb|ACO46852.1| putative 30S ribosomal protein S4 [Deinococcus deserti VCD115] Length = 206 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS RR+ + + + VNG ++ + V D I V Sbjct: 97 RLDNVVFRMGFASTRRQARQFVGHGHILVNGKKVDIPSYRVKIGDEISV 145 >gi|88861470|ref|ZP_01136096.1| 30S ribosomal protein S4 [Pseudoalteromonas tunicata D2] gi|88816518|gb|EAR26347.1| 30S ribosomal protein S4 [Pseudoalteromonas tunicata D2] Length = 206 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 28/50 (56%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G AS R E ++++ + V VNG ++ + + + D + + Sbjct: 96 QRLDNVVYRMGFASTRAEARQLVSHKSVMVNGSVVNIPSYRITADDVVVI 145 >gi|47093459|ref|ZP_00231223.1| ribosomal protein S4 [Listeria monocytogenes str. 4b H7858] gi|47096809|ref|ZP_00234391.1| ribosomal protein S4 [Listeria monocytogenes str. 1/2a F6854] gi|217964250|ref|YP_002349928.1| ribosomal protein S4 [Listeria monocytogenes HCC23] gi|224499177|ref|ZP_03667526.1| 30S ribosomal protein S4 [Listeria monocytogenes Finland 1988] gi|224501464|ref|ZP_03669771.1| 30S ribosomal protein S4 [Listeria monocytogenes FSL R2-561] gi|254824345|ref|ZP_05229346.1| ribosomal protein S4 [Listeria monocytogenes FSL J1-194] gi|254828169|ref|ZP_05232856.1| ribosomal protein S4 [Listeria monocytogenes FSL N3-165] gi|254831997|ref|ZP_05236652.1| 30S ribosomal protein S4 [Listeria monocytogenes 10403S] gi|254898237|ref|ZP_05258161.1| 30S ribosomal protein S4 [Listeria monocytogenes J0161] gi|254912270|ref|ZP_05262282.1| ribosomal protein S4 [Listeria monocytogenes J2818] gi|254931536|ref|ZP_05264895.1| ribosomal protein S4 [Listeria monocytogenes HPB2262] gi|254936597|ref|ZP_05268294.1| ribosomal protein S4 [Listeria monocytogenes F6900] gi|254993888|ref|ZP_05276078.1| 30S ribosomal protein S4 [Listeria monocytogenes FSL J2-064] gi|255026363|ref|ZP_05298349.1| 30S ribosomal protein S4 [Listeria monocytogenes FSL J2-003] gi|255522552|ref|ZP_05389789.1| 30S ribosomal protein S4 [Listeria monocytogenes FSL J1-175] gi|284801988|ref|YP_003413853.1| 30S ribosomal protein S4 [Listeria monocytogenes 08-5578] gi|284995130|ref|YP_003416898.1| 30S ribosomal protein S4 [Listeria monocytogenes 08-5923] gi|290893191|ref|ZP_06556178.1| ribosomal protein S4 [Listeria monocytogenes FSL J2-071] gi|300765979|ref|ZP_07075950.1| ribosomal protein S4 [Listeria monocytogenes FSL N1-017] gi|315282534|ref|ZP_07870925.1| ribosomal protein S4 [Listeria marthii FSL S4-120] gi|254764594|sp|B8DHE5|RS4_LISMH RecName: Full=30S ribosomal protein S4 gi|47014842|gb|EAL05793.1| ribosomal protein S4 [Listeria monocytogenes str. 1/2a F6854] gi|47018187|gb|EAL08956.1| ribosomal protein S4 [Listeria monocytogenes str. 4b H7858] gi|217333520|gb|ACK39314.1| ribosomal protein S4 [Listeria monocytogenes HCC23] gi|258600556|gb|EEW13881.1| ribosomal protein S4 [Listeria monocytogenes FSL N3-165] gi|258609194|gb|EEW21802.1| ribosomal protein S4 [Listeria monocytogenes F6900] gi|284057550|gb|ADB68491.1| 30S ribosomal protein S4 [Listeria monocytogenes 08-5578] gi|284060597|gb|ADB71536.1| 30S ribosomal protein S4 [Listeria monocytogenes 08-5923] gi|290557173|gb|EFD90700.1| ribosomal protein S4 [Listeria monocytogenes FSL J2-071] gi|293583091|gb|EFF95123.1| ribosomal protein S4 [Listeria monocytogenes HPB2262] gi|293590249|gb|EFF98583.1| ribosomal protein S4 [Listeria monocytogenes J2818] gi|293593579|gb|EFG01340.1| ribosomal protein S4 [Listeria monocytogenes FSL J1-194] gi|300513297|gb|EFK40373.1| ribosomal protein S4 [Listeria monocytogenes FSL N1-017] gi|307571182|emb|CAR84361.1| ribosomal protein S4 [Listeria monocytogenes L99] gi|313608550|gb|EFR84435.1| ribosomal protein S4 [Listeria monocytogenes FSL F2-208] gi|313613822|gb|EFR87575.1| ribosomal protein S4 [Listeria marthii FSL S4-120] gi|313623582|gb|EFR93757.1| ribosomal protein S4 [Listeria innocua FSL J1-023] gi|328464963|gb|EGF36242.1| 30S ribosomal protein S4 [Listeria monocytogenes 1816] gi|328474830|gb|EGF45634.1| 30S ribosomal protein S4 [Listeria monocytogenes 220] gi|332312038|gb|EGJ25133.1| 30S ribosomal protein S4 [Listeria monocytogenes str. Scott A] Length = 200 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 92 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 141 >gi|303250129|ref|ZP_07336331.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307252760|ref|ZP_07534651.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|302651192|gb|EFL81346.1| 23S rRNA pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306859792|gb|EFM91814.1| Ribosomal large subunit pseudouridine synthase D [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 325 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 26/232 (11%), Positives = 62/232 (26%), Gaps = 31/232 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----------E 61 R+ + +A+ SR ++ I VKVNGI++ +A V + + Sbjct: 17 GCRLDQALAQLFPDYSRSRIKVWIESDLVKVNGIVVNKAREKVFGGEQVEIQAEIEEEIR 76 Query: 62 VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----G 112 + + + + + +V + + + L Sbjct: 77 FEPQDIPLNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLHYYPPIAEVPRAGIVH 136 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQDKLNLL 161 RLD +T GL+++ + L + + Sbjct: 137 RLDKDTTGLMVVAKNIPAQTHLVTALQKRRITREYEAVASGVMTQGGKVDEPMARHPTKR 196 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + Sbjct: 197 TAMAVHPMGKPAVTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 248 >gi|282859371|ref|ZP_06268479.1| pseudouridine synthase, RluA family [Prevotella bivia JCVIHMP010] gi|282587856|gb|EFB93053.1| pseudouridine synthase, RluA family [Prevotella bivia JCVIHMP010] Length = 297 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 33/252 (13%), Positives = 76/252 (30%), Gaps = 34/252 (13%) Query: 1 MKDK--NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+DK +V ++ P ++ ++A G ++ +V+ + + +KVNG ++ + + D Sbjct: 9 MQDKYDRMVVKDEKPL-LAWLLANVGE-TKSKVKATLKNRGIKVNGKIVTQFDHQLKIGD 66 Query: 59 HIEVDG------------VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 I + + + + + + I + V D+ Sbjct: 67 KIAISKSKKNDQFKSRYVKLVYEDKYLVVVEKNVGILSMGAGHASLNVKKVLDDYFHKTK 126 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRF----------------H 150 + + + L + +L W + R Sbjct: 127 QNCTAHVVHRLDRDTSGLMIYAKDMQTEQLLEHDWHNIVYDRRYIAVLSGEMADDEGTIA 186 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + +K + V G Y + +++ V L G+ +I+ Sbjct: 187 NWLKDNKSYITYSSPVDNGGKYAVTHFFTIDRTVNHSLVEFKLETGRKNQIRVHAADMGH 246 Query: 211 KVNRLIRISYGP 222 V I YG Sbjct: 247 PVCG--DIKYGN 256 >gi|295689031|ref|YP_003592724.1| hemolysin A [Caulobacter segnis ATCC 21756] gi|295430934|gb|ADG10106.1| hemolysin A [Caulobacter segnis ATCC 21756] Length = 243 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/78 (17%), Positives = 28/78 (35%), Gaps = 8/78 (10%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE-------VDGVP 66 R+ +++ G+ SR + I RV V G ++ + + ++ I V Sbjct: 5 RIDQLLVERGVFDSRAKARAAIEAGRVAVAGRVVAKPSESIDEDAEIVAAAAHPWVGRGA 64 Query: 67 LRKAERTRLWLYHKPIGL 84 L+ LW + Sbjct: 65 LKLVHALDLWPIPVEGRI 82 >gi|257440241|ref|ZP_05615996.1| ribosomal protein S4 [Faecalibacterium prausnitzii A2-165] gi|257197275|gb|EEU95559.1| ribosomal protein S4 [Faecalibacterium prausnitzii A2-165] Length = 200 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR+ ++++ VNG + + V + D IEV Sbjct: 90 RLDNVVFRLGFAQTRRDARQLVSHAHFTVNGKKVNIPSYQVKAGDVIEV 138 >gi|254517498|ref|ZP_05129554.1| ribosomal protein S4 [Clostridium sp. 7_2_43FAA] gi|226911247|gb|EEH96448.1| ribosomal protein S4 [Clostridium sp. 7_2_43FAA] Length = 206 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/69 (20%), Positives = 23/69 (33%), Gaps = 1/69 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ V+ R G SR E +++ VN ++ + V D I V + Sbjct: 98 MRLDNVVYRLGYGASRAEARQLVNHGHFLVNDKKVDIPSYRVSVNDEITVTEKSRGTEKF 157 Query: 73 TRLWLYHKP 81 K Sbjct: 158 KTFIENPKT 166 >gi|94502329|ref|ZP_01308802.1| ribosomal large subunit pseudouridine synthase D [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] gi|94451116|gb|EAT14068.1| ribosomal large subunit pseudouridine synthase D [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] Length = 338 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 22/238 (9%), Positives = 64/238 (26%), Gaps = 41/238 (17%) Query: 14 QRVS---KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVP- 66 R+ K I +R ++++I + V VN IL+++ V D IE+ +G Sbjct: 38 IRIDTYLKFILHKK--NRNFIQKIIEKGFVYVNNILIKK-NYIVKINDVIEIFLPEGKKN 94 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD-- 115 + + + + + +V + + + + ++ Sbjct: 95 IIPENLKINIFYEDEYVIIINKQSGLVVHPGKGNESMTLINGLHFYFLKKKNIYNKIPIL 154 Query: 116 -INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----- 169 + + + + + ++ KG +I Sbjct: 155 VHRIDKGTSGLILVAKDKNILEKIYKQFYINHIKRKYITLVWGYIKNNKGTIICNIGRSL 214 Query: 170 --------------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ ++ + Sbjct: 215 KNRIYMNVFPNGIYGKFSITHYKVLERFKYVTLLKCTLETGRTHQIRVHLKYIGHPIL 272 >gi|224542365|ref|ZP_03682904.1| hypothetical protein CATMIT_01544 [Catenibacterium mitsuokai DSM 15897] gi|224524747|gb|EEF93852.1| hypothetical protein CATMIT_01544 [Catenibacterium mitsuokai DSM 15897] Length = 90 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRREVERMI-AQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + + I RVKVNG + + A V D IEV Sbjct: 1 MRLDKFLKLSRIIKRRTLSKEISEASRVKVNGKVAK-PATKVKIGDEIEV 49 >gi|161833681|ref|YP_001597877.1| ribosomal large subunit pseudouridine synthase D [Candidatus Sulcia muelleri GWSS] gi|152206171|gb|ABS30481.1| ribosomal large subunit pseudouridine synthase D [Candidatus Sulcia muelleri GWSS] Length = 337 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 22/238 (9%), Positives = 64/238 (26%), Gaps = 41/238 (17%) Query: 14 QRVS---KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVP- 66 R+ K I +R ++++I + V VN IL+++ V D IE+ +G Sbjct: 37 IRIDTYLKFILHKK--NRNFIQKIIEKGFVYVNNILIKK-NYIVKINDVIEIFLPEGKKN 93 Query: 67 ---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD-- 115 + + + + + +V + + + + ++ Sbjct: 94 IIPENLKINIFYEDEYVIIINKQSGLVVHPGKGNESMTLINGLHFYFLKKKNIYNKIPIL 153 Query: 116 -INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----- 169 + + + + + ++ KG +I Sbjct: 154 VHRIDKGTSGLILVAKDKNILEKIYKQFYINHIKRKYITLVWGYIKNNKGTIICNIGRSL 213 Query: 170 --------------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + + L G+ +I+ ++ + Sbjct: 214 KNRIYMNVFPNGIYGKFSITHYKVLERFKYVTLLKCTLETGRTHQIRVHLKYIGHPIL 271 >gi|86605518|ref|YP_474281.1| S4 domain-containing protein [Synechococcus sp. JA-3-3Ab] gi|86554060|gb|ABC99018.1| S4 domain protein [Synechococcus sp. JA-3-3Ab] Length = 93 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 10/59 (16%), Positives = 25/59 (42%), Gaps = 7/59 (11%) Query: 14 QRVSKVIARAGI----ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 ++ + + G+ + +++I +V+VNG + R + D + V G + Sbjct: 18 IKLDQFLKLTGVVPTGG---QAKQLIQAGQVRVNGEVETRRGRKLRLGDEVAVAGQVWQ 73 >gi|126173882|ref|YP_001050031.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS155] gi|153000162|ref|YP_001365843.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS185] gi|160874789|ref|YP_001554105.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS195] gi|217973870|ref|YP_002358621.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS223] gi|304409753|ref|ZP_07391373.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS183] gi|307304109|ref|ZP_07583862.1| RNA-binding S4 domain-containing protein [Shewanella baltica BA175] gi|125997087|gb|ABN61162.1| RNA-binding S4 domain protein [Shewanella baltica OS155] gi|151364780|gb|ABS07780.1| RNA-binding S4 domain protein [Shewanella baltica OS185] gi|160860311|gb|ABX48845.1| RNA-binding S4 domain protein [Shewanella baltica OS195] gi|217499005|gb|ACK47198.1| RNA-binding S4 domain protein [Shewanella baltica OS223] gi|304352271|gb|EFM16669.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS183] gi|306913007|gb|EFN43430.1| RNA-binding S4 domain-containing protein [Shewanella baltica BA175] gi|315267027|gb|ADT93880.1| RNA-binding S4 domain-containing protein [Shewanella baltica OS678] Length = 76 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 4/51 (7%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 ++ AG E + I + +V VNG + R +++ D + +G ++ Sbjct: 27 MSNAGG----EAKHFIEEGQVTVNGEVETRKRKKIIAGDIVSFNGESVQII 73 >gi|309389171|gb|ADO77051.1| hemolysin A [Halanaerobium praevalens DSM 2228] Length = 275 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 12/38 (31%), Positives = 17/38 (44%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 SR + +R I V VNG ++A + IE G Sbjct: 19 SRSQAKRAIMAGLVFVNGQREDKAGTQIDPAAEIEYKG 56 >gi|260654973|ref|ZP_05860461.1| hemolysin A [Jonquetella anthropi E3_33 E1] gi|260630288|gb|EEX48482.1| hemolysin A [Jonquetella anthropi E3_33 E1] Length = 269 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 1/60 (1%) Query: 7 VQENFTPQRVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + P R+ + + R AS E +I+ V V G ++ V T ++V G Sbjct: 1 MSKADRPVRLDRRLVREHFASTDEEARLLISSGLVLVEGRAVDSPDCQVKPTASVKVIGQ 60 >gi|149926150|ref|ZP_01914412.1| ribosomal large subunit pseudouridine synthase D [Limnobacter sp. MED105] gi|149824968|gb|EDM84180.1| ribosomal large subunit pseudouridine synthase D [Limnobacter sp. MED105] Length = 388 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 36/243 (14%), Positives = 70/243 (28%), Gaps = 41/243 (16%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 R+ KVIA SR ++ + ++RV VNG+ + V D IE+ Sbjct: 30 RLDKVIAELFPQYSRSRLQGWLKEERVLVNGVAAAKGNQKVQGMDRIELSPGVLAHMQAL 89 Query: 63 ---DGVP-LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV-----GR 113 D + + + +V + + + R Sbjct: 90 IPEDMNLDIVARTNEYTVVNKQAGLVVHPAPGHWTGTLMNGLYHLDPELIHVPRAGIVHR 149 Query: 114 LDINTEGLLLLTNDGGLARVLELP------------STQWLRVYRVRFHGQVDQDKLNLL 161 LD +T GL+++ L + + + +D N L Sbjct: 150 LDADTTGLMVVARTQETQVKLVQMLQARIVKRVYLAMVWGRISSPLTVNNPLGRDPRNRL 209 Query: 162 KKGIVIQGIC--YGDMQVTLDTQKGSNAWVTVG-LREGKNREIKKVFEFFNW-----KVN 213 + +V G V + V L G+ +I+ + + V Sbjct: 210 RMAVVDHGKPAVTHFTPVAFGELLEVPVTLMVCRLETGRTHQIRVHAQHAGFALVADPVY 269 Query: 214 RLI 216 ++ Sbjct: 270 KIK 272 >gi|254516934|ref|ZP_05128992.1| ribosomal protein S4 [gamma proteobacterium NOR5-3] gi|219674439|gb|EED30807.1| ribosomal protein S4 [gamma proteobacterium NOR5-3] Length = 154 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E +++A + + VNG ++ A+ V + D + + Sbjct: 45 RLDNVVYRIGFGSTRSESRQLVAHKAILVNGKVVNIASYKVKAGDVVSL 93 >gi|332283691|ref|YP_004415602.1| ribosomal large subunit pseudouridine synthase D [Pusillimonas sp. T7-7] gi|330427644|gb|AEC18978.1| ribosomal large subunit pseudouridine synthase D [Pusillimonas sp. T7-7] Length = 319 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 6/53 (11%) Query: 13 PQRVSKVIARA-GIASRREVERMIAQQRVKVNGIL--LERAAVNVMSTDHIEV 62 P+R+ KVIAR SR ++ I V VNG +++ A D + V Sbjct: 27 PERLDKVIARLIPEHSRSRLQGWIEAGHVLVNGQPGRVKQMA---NPGDKLVV 76 >gi|326771685|ref|ZP_08230970.1| ribosomal large subunit pseudouridine synthase D [Actinomyces viscosus C505] gi|326637818|gb|EGE38719.1| ribosomal large subunit pseudouridine synthase D [Actinomyces viscosus C505] Length = 306 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 58/242 (23%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 V + F +RV +AR SR VE + V+ G L + + + + + +EVD Sbjct: 8 VPDGFDGERVDAALARMTGLSRSRVEDLCEAGEVRRGGETLAK-SSRLRAGELLEVDLPD 66 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 G+ L + + + DG + S Sbjct: 67 PRPVEPVATPVEGMELLYEDEDIVVVDKPAGVAAHPSMGWDGPDVLGALKAMHVQVATSG 126 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 L + G + + L+ Sbjct: 127 AAERQGIVSRLDVGTSGVMIVAKGERAYSVLKRAFREHTVDKVYHALVQGHLDPSSGTID 186 Query: 157 -----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + K +I+G + + L G+ +I+ Sbjct: 187 APIGRHPSREWKMAIIEGGRESITHYDVIEAMPGACLAEIHLETGRTHQIRVHMAAVGHP 246 Query: 212 VN 213 Sbjct: 247 CV 248 >gi|268608720|ref|ZP_06142447.1| hypothetical protein RflaF_04377 [Ruminococcus flavefaciens FD-1] Length = 446 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 26/234 (11%), Positives = 53/234 (22%), Gaps = 26/234 (11%) Query: 1 MKDKNIVQENFTPQRVSKVI-ARAGIASRREVERM--IAQQRVKVNGILLERAAVNVMST 57 MK+ + E P + + G+ S+R + ++ I + +G + V Sbjct: 1 MKELKLTVETDAPVTLQNFLIGEKGV-SKRLLTKLKRIDGG-ITRDGKTVRSIDT-VNKG 57 Query: 58 DHIEV---DGVPLRKAERT----------RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 D I + D L + V G + Sbjct: 58 DVIVLRFGDDSFLEPNPDLDVPAVYESDGVIVFNKPSGMPVHPSIKHQGDTLGNKFAAMF 117 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------DK 157 L + LA + + V + Sbjct: 118 PDLTFRAVNRLDRDTSGLCVVAKNALAANALQGRCEKVYYAAVTGEIPETGTIDAPIARE 177 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + V + G + + L G+ +I+ F + Sbjct: 178 RESIIIRCVREDGQRAVTHYRRIAYNGRYSLAEIHLETGRTHQIRVHFSYIGHP 231 >gi|227549559|ref|ZP_03979608.1| RNA-binding S4 domain protein [Corynebacterium lipophiloflavum DSM 44291] gi|227078323|gb|EEI16286.1| RNA-binding S4 domain protein [Corynebacterium lipophiloflavum DSM 44291] Length = 95 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 11/60 (18%), Positives = 25/60 (41%), Gaps = 9/60 (15%) Query: 10 NFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + ++ + + A +G + + +IA V VNG ++ ++ D + V G Sbjct: 8 SSDSIKLGQFLKLANLAESGG----QAKELIASGEVAVNGEVVTSRGHSLGDADVVSVAG 63 >gi|91783470|ref|YP_558676.1| ribosomal large subunit pseudouridine synthase D [Burkholderia xenovorans LB400] gi|91687424|gb|ABE30624.1| ribosomal large subunit pseudouridine synthase D [Burkholderia xenovorans LB400] Length = 438 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 37/247 (14%), Positives = 68/247 (27%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 +V + +R+ KV+AR SR ++ I +RV+++G + V IE Sbjct: 69 VVPDELAGERLDKVLARVFPEFSRNRLQSWIEAERVRIDGKPAK-IRQPVPLGATIELVP 127 Query: 62 --------VDGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 P+ + T + + +V + + + L Sbjct: 128 DLLPEQLAFTPEPVPLEIIYEDDTLVVINKPAGMVVHPAAGNWSGTLLNGLLYRYGDAAA 187 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R V RLD T GL+++ L R + + + Sbjct: 188 GLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPEEGTIDA 247 Query: 164 GIVIQ-GICYGDMQVTLDTQKGSNAWVT-----------VG-----LREGKNREIKKVFE 206 I VT K + V L G+ +I+ Sbjct: 248 PIGRDPRERTRMAVVTSAAGKPARTHFRRVDSAIWERQPVTAIHCDLETGRTHQIRVHCA 307 Query: 207 FFNWKVN 213 + Sbjct: 308 HIGHPLL 314 >gi|15615110|ref|NP_243413.1| hypothetical protein BH2547 [Bacillus halodurans C-125] gi|10175167|dbj|BAB06266.1| BH2547 [Bacillus halodurans C-125] Length = 258 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 18/50 (36%), Positives = 27/50 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ VI SR + ++ + RVKVN L+E A+ + + DHI V G Sbjct: 182 RLDAVIGEMLSLSRAKAAELVEKGRVKVNWKLVESGALTLQAGDHISVRG 231 >gi|293192340|ref|ZP_06609451.1| S4 domain protein [Actinomyces odontolyticus F0309] gi|292820255|gb|EFF79249.1| S4 domain protein [Actinomyces odontolyticus F0309] Length = 76 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 10/34 (29%), Positives = 17/34 (50%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + +I V VNG + R ++ + D +EVD Sbjct: 29 QARELIQAGDVTVNGEVETRRGHHLSAGDIVEVD 62 >gi|293400755|ref|ZP_06644900.1| ribosomal protein S4 [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305781|gb|EFE47025.1| ribosomal protein S4 [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 200 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RR +++ + VNG ++ + V IEV Sbjct: 93 RLDNLVYRLGFARTRRAARQLVNHGHILVNGKKVDIPSFIVKPGTTIEV 141 >gi|209525994|ref|ZP_03274527.1| hemolysin A [Arthrospira maxima CS-328] gi|209493520|gb|EDZ93842.1| hemolysin A [Arthrospira maxima CS-328] Length = 278 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 9/54 (16%) Query: 14 QRVS-----KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ + ++ SR++ +R+I V VN ++++ V + I+V Sbjct: 3 QRLDTLLVDRHLSD----SRQQAQRLIRAGEVMVNRQVVDKPGTEVDISATIDV 52 >gi|296157780|ref|ZP_06840614.1| pseudouridine synthase, RluA family [Burkholderia sp. Ch1-1] gi|295892026|gb|EFG71810.1| pseudouridine synthase, RluA family [Burkholderia sp. Ch1-1] Length = 431 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 37/247 (14%), Positives = 69/247 (27%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 +V + +R+ KV+AR SR ++ I +RV+++G + V IE Sbjct: 69 VVPDELAGERLDKVLARVFPEFSRNRLQSWIEAERVRIDGKPAK-IRQPVPLGATIELVP 127 Query: 62 --------VDGVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 P + + T + + +V + + + L Sbjct: 128 DLLPEQLAFTPEPVPLAIVYEDDTLVVINKPAGMVVHPAAGNWSGTLLNGLLYRYGDAAA 187 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R V RLD T GL+++ L R + + + Sbjct: 188 GLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPEEGTIDA 247 Query: 164 GIVIQ-GICYGDMQVTLDTQKGSNAWVT-----------VG-----LREGKNREIKKVFE 206 I VT + K + V L G+ +I+ Sbjct: 248 PIGRDPRERTRMAVVTSASGKPARTHFRRVDSAIWERQPVTAIHCDLETGRTHQIRVHCA 307 Query: 207 FFNWKVN 213 + Sbjct: 308 HIGHPLL 314 >gi|257866598|ref|ZP_05646251.1| ribosomal protein S4 [Enterococcus casseliflavus EC30] gi|257872886|ref|ZP_05652539.1| ribosomal protein S4 [Enterococcus casseliflavus EC10] gi|257876202|ref|ZP_05655855.1| ribosomal protein S4 [Enterococcus casseliflavus EC20] gi|325567299|ref|ZP_08143966.1| 30S ribosomal protein S4 [Enterococcus casseliflavus ATCC 12755] gi|257800556|gb|EEV29584.1| ribosomal protein S4 [Enterococcus casseliflavus EC30] gi|257807050|gb|EEV35872.1| ribosomal protein S4 [Enterococcus casseliflavus EC10] gi|257810368|gb|EEV39188.1| ribosomal protein S4 [Enterococcus casseliflavus EC20] gi|325158732|gb|EGC70878.1| 30S ribosomal protein S4 [Enterococcus casseliflavus ATCC 12755] Length = 203 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ +++ V V+G ++ + +V I V Sbjct: 93 QRLDNVVYRLGLATTRRQARQLVNHGHVLVDGKRVDIPSYHVEVGQVISV 142 >gi|154498912|ref|ZP_02037290.1| hypothetical protein BACCAP_02904 [Bacteroides capillosus ATCC 29799] gi|150271752|gb|EDM98978.1| hypothetical protein BACCAP_02904 [Bacteroides capillosus ATCC 29799] Length = 200 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + R G A +RRE +++ VNG ++ + V + D IEV Sbjct: 90 RLDNAVYRLGFANTRREARQLVNHGHFTVNGQRVDIPSYLVKAGDVIEV 138 >gi|295108285|emb|CBL22238.1| hemolysin TlyA family protein [Ruminococcus obeum A2-162] Length = 269 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 22/164 (13%), Positives = 47/164 (28%), Gaps = 2/164 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ +A SR + + I V V+G ++A T IEV G L R Sbjct: 4 RLDLLMMERALAPSREKAKAYIMAGNVYVDGQKEDKAGTMFQETVKIEVRGNTLPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L ++ G + + + + D L Sbjct: 64 GLKLEKAMNHFGVELDGKVCMDVGAST-GGFTDCMLQNGAVKVYSIDVGYGQLDWKLRND 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + + + V + + + + + ++ Sbjct: 123 PRVVCMEKTNIRYVLPEDIQEPAQFSSIDVSFISLTKVLLPVRN 166 >gi|302875571|ref|YP_003844204.1| pseudouridine synthase, RluA family [Clostridium cellulovorans 743B] gi|307690100|ref|ZP_07632546.1| pseudouridine synthase, RluA family protein [Clostridium cellulovorans 743B] gi|302578428|gb|ADL52440.1| pseudouridine synthase, RluA family [Clostridium cellulovorans 743B] Length = 298 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 28/246 (11%), Positives = 71/246 (28%), Gaps = 36/246 (14%) Query: 1 MKDKNIVQ--ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M++K + ++ + + S R + + N +++ + + D Sbjct: 1 MENKITFNITKEDEGMKIKEFLKLKNNFSSRFCRASALAKNIFANNKVIK-LNYVLKAGD 59 Query: 59 HIEV--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 IEV D P + + + L P +V + + L Sbjct: 60 VIEVKLNKEESQDIEPENIPLKVAYEDSDIIVLNKPPFIVVHPTKNYPYGTLANGLLYYF 119 Query: 105 FSRVISV-----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 + + RLD+NT GL+++ + L+ + + + Sbjct: 120 KEKGENCIVRLVSRLDMNTSGLIIVAKNQFSHMSLQRDMNKEEFKKQYLAIVHGKMEADF 179 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAW-------------VTVGLREGKNREIKKVFE 206 + I ++ +D + + + + L G+ +I+ Sbjct: 180 G-TIDLPIYKEEDEPIKRIIDDRGQRSITHYKVIETYSNAQLLKLTLETGRTHQIRVHLS 238 Query: 207 FFNWKV 212 + Sbjct: 239 HLGCPI 244 >gi|121999014|ref|YP_001003801.1| RluA family pseudouridine synthase [Halorhodospira halophila SL1] gi|121590419|gb|ABM62999.1| ribosomal large subunit pseudouridine synthase D [Halorhodospira halophila SL1] Length = 313 Score = 49.8 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 39/238 (16%), Positives = 70/238 (29%), Gaps = 32/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 V E QR+ +V+A SR +++ I + V+G + R V + + I VD Sbjct: 10 VPEGLAGQRLDRVLAALFPDYSRSRLQQWIRAGWITVDGAV-RRPRDPVHAGEQISVDAE 68 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----S 106 P L + L + +V + G + V L Sbjct: 69 PEPETPLAPEPIPLRLLYEDDHLLVVDKPAGLVVHPGAGNPGGTLVNALLHYDPGLEALP 128 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL-----------RVYRVRFHGQVDQ 155 R V RLD T G+L++ L R Sbjct: 129 RAGIVHRLDKETSGVLVVARTYAAHHALVAQLQARTVGRGYQAVVVGRPTAGGRVDAPIA 188 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 K+ V++ + + ++ + V L G+ +I+ + Sbjct: 189 RHPRDRKRMAVVETGRPAVTHYRVAERFTAHTLLDVELETGRTHQIRVHMAHCRLPLV 246 >gi|313112851|ref|ZP_07798497.1| ribosomal protein S4 [Faecalibacterium cf. prausnitzii KLE1255] gi|310624756|gb|EFQ08065.1| ribosomal protein S4 [Faecalibacterium cf. prausnitzii KLE1255] Length = 200 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR+ ++++ VNG + + V + D IEV Sbjct: 90 RLDNVVFRLGFAQTRRDARQLVSHAHFTVNGKKVNIPSYQVKAGDVIEV 138 >gi|289425824|ref|ZP_06427578.1| S4 domain protein [Propionibacterium acnes SK187] gi|289426790|ref|ZP_06428518.1| S4 domain protein [Propionibacterium acnes J165] gi|289153767|gb|EFD02474.1| S4 domain protein [Propionibacterium acnes SK187] gi|289160116|gb|EFD08292.1| S4 domain protein [Propionibacterium acnes J165] gi|332675009|gb|AEE71825.1| RNA-binding S4 domain-containing protein [Propionibacterium acnes 266] Length = 76 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 9/58 (15%) Query: 10 NFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + R+ + + A G + +IA V VNG + R + D + V Sbjct: 3 DDQMIRLGQYLKFANLAETGG----QARELIASGMVSVNGEVETRRGRQLHPGDEVTV 56 >gi|153810471|ref|ZP_01963139.1| hypothetical protein RUMOBE_00852 [Ruminococcus obeum ATCC 29174] gi|149833650|gb|EDM88731.1| hypothetical protein RUMOBE_00852 [Ruminococcus obeum ATCC 29174] Length = 269 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 22/164 (13%), Positives = 48/164 (29%), Gaps = 2/164 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ +A SR + + I V V+G ++A T IEV G L R Sbjct: 4 RLDLLMVERALAPSREKAKAYIMSGDVYVDGQKEDKAGTMFKETVKIEVRGNTLPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L + ++ G + + + + D L Sbjct: 64 GLKLEKAMNNFGVSLDGKVCMDVGAST-GGFTDCMLQNGAVKVYSIDVGYGQLDWKLRND 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 + + + V + + + + + ++ Sbjct: 123 PRVVCMEKTNIRYVLPENLQEPAQFSSIDVSFISLTKVLLPVRN 166 >gi|332678564|gb|AEE87693.1| Ribosomal large subunit pseudouridine synthase D [Francisella cf. novicida Fx1] Length = 332 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 29/239 (12%), Positives = 67/239 (28%), Gaps = 32/239 (13%) Query: 6 IVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 I+ +R+ VI SR ++++ + + + VNG + V+ + +E++ Sbjct: 15 IMHPKDAGKRIDVVINEQFEQFSRAQIQKWLKEGSITVNGR-ATKPKHIVLGDEEVEINI 73 Query: 65 VPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLL 124 L E + K I D + + + L + L Sbjct: 74 ELLPTNEWIAEDINLKIIFEDDDIIVIDKPVNMIVHPGAGNPTGTVSNALLHRYKDQDKL 133 Query: 125 TNDGGLA---------RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM 175 G + V S + + + +V + L +++ I +G + Sbjct: 134 PRAGIVHRLDKDTSGLMVAAKSSIAYHNLVQQLAERKVSRKYLAIVEGEIYQEGTINQPI 193 Query: 176 ---------------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 T + L G+ +I+ + + Sbjct: 194 GRDPTNRTKMAINYRGKEAITHYTPIEVYDGFTLIECQLETGRTHQIRVHMKSIKHPLV 252 >gi|315125002|ref|YP_004067006.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni ICDCCJ07001] gi|315018724|gb|ADT66817.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni ICDCCJ07001] Length = 208 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ V VNG ++ + V + IE+ Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHVLVNGKRVDIPSFRVEAGAKIEI 147 >gi|302390984|ref|YP_003826804.1| 30S ribosomal protein S4P [Acetohalobium arabaticum DSM 5501] gi|302203061|gb|ADL11739.1| SSU ribosomal protein S4P [Acetohalobium arabaticum DSM 5501] Length = 208 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 1/51 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ ++ R G A SR E +++ VNG ++ + V D +EV Sbjct: 99 RLDNIVYRLGFAASRNEARQLVRHGHFLVNGERVDIPSYLVEEGDEVEVKD 149 >gi|226323202|ref|ZP_03798720.1| hypothetical protein COPCOM_00974 [Coprococcus comes ATCC 27758] gi|225208392|gb|EEG90746.1| hypothetical protein COPCOM_00974 [Coprococcus comes ATCC 27758] Length = 277 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 25/178 (14%), Positives = 57/178 (32%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + +AS RE + +I V V+G ++A + IEV G L R Sbjct: 3 ERLDVLLVKRNLASSREKAKAIIMSGNVFVDGQREDKAGTSFSEEVQIEVRGHALPYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + + V + ++ G + + + D L + Sbjct: 63 GGLKLEKAMKNFDV-SMEGKVCTDVGSSTGGFTDCMLQNGAVKVFAIDVGHGQLDWKLRQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V+ + + + + ++ L A + Sbjct: 122 DERVVCMEKTNIRYVQPEDLGEPIDFSSIDVSFISLTKVLLPIRNYLKENGEIVALIK 179 >gi|194098000|ref|YP_002001048.1| RluD [Neisseria gonorrhoeae NCCP11945] gi|239998466|ref|ZP_04718390.1| RluD [Neisseria gonorrhoeae 35/02] gi|240112385|ref|ZP_04726875.1| RluD [Neisseria gonorrhoeae MS11] gi|254493184|ref|ZP_05106355.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae 1291] gi|268594325|ref|ZP_06128492.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae 35/02] gi|268598444|ref|ZP_06132611.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae MS11] gi|193933290|gb|ACF29114.1| RluD [Neisseria gonorrhoeae NCCP11945] gi|226512224|gb|EEH61569.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae 1291] gi|268547714|gb|EEZ43132.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae 35/02] gi|268582575|gb|EEZ47251.1| ribosomal large subunit pseudouridine synthase D [Neisseria gonorrhoeae MS11] Length = 374 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 36/230 (15%), Positives = 71/230 (30%), Gaps = 34/230 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ V+A+ SR + I + V VN + ++ + I V P Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGR 113 + + T + + +V + + + L R V R Sbjct: 99 VPEPMDLDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELSQIPRAGIVHR 158 Query: 114 LDINTEGLLLLTNDGGLARVLELPSTQWLRV------------YRVRFHGQVDQDKLNLL 161 LD T GL+++ L + + + Q+ +D N L Sbjct: 159 LDKETSGLMVVAKTLPAQNSLVRQLQERTVKRIYRAVANGIVPFDGKIETQIGRDPHNRL 218 Query: 162 KKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 K V G V + + +++++ L G+ +I+ N Sbjct: 219 KMAAVKFGGKPAVTHVKVLERYLAHSYIECSLGTGRTHQIRVHMREANHP 268 >gi|134103275|ref|YP_001108936.1| PE-PGRS family protein [Saccharopolyspora erythraea NRRL 2338] gi|133915898|emb|CAM06011.1| PE-PGRS family protein [Saccharopolyspora erythraea NRRL 2338] Length = 1984 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 9/106 (8%), Positives = 16/106 (15%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 AP + R + Q P Sbjct: 721 AQRPHPPRRGGAPEAPGVPVQRGDAPGRRPAGPGRGPEAPEGPRAEAPRPQTPGHRPDGP 780 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R + + P P + R + + Sbjct: 781 RPDFHRPGGPVPNSPRPDAPRPNTPHPNGPRPDAPRPEASRPGAPR 826 Score = 47.1 bits (110), Expect = 0.005, Method: Composition-based stats. Identities = 13/110 (11%), Positives = 25/110 (22%), Gaps = 3/110 (2%) Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 P + A + T R + ++ P R + + + Sbjct: 692 PRGRGPERPGAPAGPRAGATPSRPQAGPDAQRPHPPRRGGAPEAPGVPVQRGDAPGRRPA 751 Query: 307 RRNLASNVWMAKGIHSSFLSDSGQREENHRR---SPSFPSKRSLRRTSAK 353 + G R + R P P S R + + Sbjct: 752 GPGRGPEAPEGPRAEAPRPQTPGHRPDGPRPDFHRPGGPVPNSPRPDAPR 801 Score = 45.6 bits (106), Expect = 0.011, Method: Composition-based stats. Identities = 7/112 (6%), Positives = 22/112 (19%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 + P ++P + PN + + + +G + Sbjct: 778 DGPRPDFHRPGGPVPNSPRPDAPRPNTPHPNGPRPDAPRPEASRPGAPRPDGTRPEALRP 837 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + R + + + R+ + Sbjct: 838 GTPQANAPRPDAPRPDAPRPGAPRTDASRPDGPHPNRPEGLRPDGPRSDGPR 889 Score = 45.2 bits (105), Expect = 0.015, Method: Composition-based stats. Identities = 8/86 (9%), Positives = 19/86 (22%), Gaps = 4/86 (4%) Query: 272 PNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQ- 330 P P + ++ G + R + ++ Sbjct: 679 PGAAGRAPAGPDSPRGRGPERPGAPAGPRAGATPSRPQAGPDAQRPHPPRRGGAPEAPGV 738 Query: 331 ---REENHRRSPSFPSKRSLRRTSAK 353 R + R P+ P + + Sbjct: 739 PVQRGDAPGRRPAGPGRGPEAPEGPR 764 Score = 44.8 bits (104), Expect = 0.018, Method: Composition-based stats. Identities = 12/109 (11%), Positives = 21/109 (19%), Gaps = 2/109 (1%) Query: 247 PHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVH 306 RP P+ + + + + P Sbjct: 725 HPPRRGGAPEAPGVPVQRGDAPGRRPAGPGRGPEAPEGPRAEAPRPQTPGHRPDGPRPDF 784 Query: 307 RRNLAS--NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 R N + +G R + R S P T + Sbjct: 785 HRPGGPVPNSPRPDAPRPNTPHPNGPRPDAPRPEASRPGAPRPDGTRPE 833 Score = 44.0 bits (102), Expect = 0.039, Method: Composition-based stats. Identities = 14/94 (14%), Positives = 21/94 (22%), Gaps = 3/94 (3%) Query: 263 SSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHS 322 S R S R + + G + + A P +R A Sbjct: 678 SPGAAGRAPAGPDSPRGRGPERPGAPAGPRAGATPSRPQAGPDAQRPHPPRRGGAPEAPG 737 Query: 323 ---SFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 G+R R P P + Sbjct: 738 VPVQRGDAPGRRPAGPGRGPEAPEGPRAEAPRPQ 771 Score = 42.5 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 11/114 (9%), Positives = 19/114 (16%), Gaps = 4/114 (3%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E E + RP + N+ NG Sbjct: 758 EAPEGPRAEAPRPQTPGHRPDGPRPDFHRPGGPVPNSPRPDAPRPNTPHPNGPRPDAPRP 817 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKR----SLRRTSA 352 + + + + R + R P S Sbjct: 818 EASRPGAPRPDGTRPEALRPGTPQANAPRPDAPRPDAPRPGAPRTDASRPDGPH 871 Score = 41.7 bits (96), Expect = 0.17, Method: Composition-based stats. Identities = 10/107 (9%), Positives = 18/107 (16%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 GP + + + + + + + P Sbjct: 809 GPRPDAPRPEASRPGAPRPDGTRPEALRPGTPQANAPRPDAPRPDAPRPGAPRTDASRPD 868 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 G S R + R S P L Sbjct: 869 GPHPNRPEGLRPDGPRSDGPRPEVIRPDGPRPDASRPDAPRLDGPRP 915 Score = 40.9 bits (94), Expect = 0.29, Method: Composition-based stats. Identities = 11/111 (9%), Positives = 16/111 (14%), Gaps = 5/111 (4%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + P E R P Sbjct: 741 QRGDAPGRRPAGPGRGPEAPEGPRAEAPRPQTPGHRPDGPRPDFHRPGGPVPNSPRPDAP 800 Query: 308 RN--LASNVWMAKGIHSSFLSDSGQREENHRR---SPSFPSKRSLRRTSAK 353 R N R + R P P + R + + Sbjct: 801 RPNTPHPNGPRPDAPRPEASRPGAPRPDGTRPEALRPGTPQANAPRPDAPR 851 Score = 38.2 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 5/106 (4%), Positives = 11/106 (10%), Gaps = 4/106 (3%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 + LR Sbjct: 831 RPEALRPGTPQANAPRPDAPRPDAPRPGAPRTDASRPDGPHPNRPEGLRPDGPRSDGPRP 890 Query: 297 KQKKLATPVHRRNLASNVW----MAKGIHSSFLSDSGQREENHRRS 338 + + P + + R + R Sbjct: 891 EVIRPDGPRPDASRPDAPRLDGPRPDAPRPDGPHPAVSRPDAPNRR 936 >gi|22299704|ref|NP_682951.1| hypothetical protein tlr2161 [Thermosynechococcus elongatus BP-1] gi|22295888|dbj|BAC09713.1| tlr2161 [Thermosynechococcus elongatus BP-1] Length = 243 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 2/65 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + + R+ V A AG SR ++ I+Q V+VN ++++ + D I Sbjct: 156 PQRKSLSTVEASLRLDAV-ASAGFGVSRSKMSEWISQGLVRVNWQVVQQPRYLLKVNDLI 214 Query: 61 EVDGV 65 + G Sbjct: 215 AIRGK 219 >gi|86152218|ref|ZP_01070429.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 260.94] gi|86153129|ref|ZP_01071334.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni HB93-13] gi|121612243|ref|YP_001001237.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 81-176] gi|153952009|ref|YP_001398874.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. doylei 269.97] gi|157415814|ref|YP_001483070.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 81116] gi|167006130|ref|ZP_02271888.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 81-176] gi|283956978|ref|ZP_06374450.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 1336] gi|152060941|sp|A1W1J6|RS4_CAMJJ RecName: Full=30S ribosomal protein S4 gi|171769457|sp|A7H5U4|RS4_CAMJD RecName: Full=30S ribosomal protein S4 gi|172047193|sp|A8FNQ6|RS4_CAMJ8 RecName: Full=30S ribosomal protein S4 gi|85840707|gb|EAQ57958.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 260.94] gi|85844014|gb|EAQ61224.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni HB93-13] gi|87249805|gb|EAQ72764.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 81-176] gi|152939455|gb|ABS44196.1| ribosomal protein S4 [Campylobacter jejuni subsp. doylei 269.97] gi|157386778|gb|ABV53093.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 81116] gi|283791479|gb|EFC30276.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 1336] gi|307748451|gb|ADN91721.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni M1] gi|315931273|gb|EFV10243.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 327] Length = 208 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ V VNG ++ + V + IE+ Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHVLVNGKRVDIPSFRVEAGAKIEI 147 >gi|323144988|ref|ZP_08079548.1| ribosomal protein S4 [Succinatimonas hippei YIT 12066] gi|322415267|gb|EFY06041.1| ribosomal protein S4 [Succinatimonas hippei YIT 12066] Length = 207 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VN ++ + V +D I V Sbjct: 97 RLDNVVYRMGFGSTRMEARQLVSHKAITVNDHVVNIPSYQVQPSDVIAV 145 >gi|256420955|ref|YP_003121608.1| pseudouridine synthase, RluA family [Chitinophaga pinensis DSM 2588] gi|256035863|gb|ACU59407.1| pseudouridine synthase, RluA family [Chitinophaga pinensis DSM 2588] Length = 356 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 34/248 (13%), Positives = 66/248 (26%), Gaps = 44/248 (17%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 I + P RV K + +R ++++ V VN ++ V + D I V Sbjct: 28 IADKGQEPLRVDKFLMNRVEGATRNKIQQACDNGMVIVNDKPVKS-NYKVKAHDRIVVYS 86 Query: 63 -----DGVPLR-------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + + E L + +K G+V + T+ + L + Sbjct: 87 NKNPENTQVIPEELPLNIIYEDEDLMIINKLPGMVVHPGCGNYTGTLVNGLAWYLGDHTT 146 Query: 111 V-------------GRLDINTEGLLLLTNDGGLARVLELP-------------STQWLRV 144 R+D NT GLL++ L Sbjct: 147 TPAPEPSIPRFGLVHRIDKNTSGLLVVAKSEKAMNDLAKQFFDHTVQRRYLALVWGDFEE 206 Query: 145 YRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSN--AWVTVGLREGKNREIK 202 V + + +G + + N + L G+ +I+ Sbjct: 207 DEGTIEAHVGRHQRFRKIMDAYPEGEYGKEAITHYKVLERFNYVTLIECRLETGRTHQIR 266 Query: 203 KVFEFFNW 210 + Sbjct: 267 VHMQHIGH 274 >gi|89076300|ref|ZP_01162641.1| 30S ribosomal protein S4 [Photobacterium sp. SKA34] gi|90581702|ref|ZP_01237490.1| 30S ribosomal protein S4 [Vibrio angustum S14] gi|330447013|ref|ZP_08310663.1| ribosomal protein S4 [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|89048004|gb|EAR53593.1| 30S ribosomal protein S4 [Photobacterium sp. SKA34] gi|90437117|gb|EAS62320.1| 30S ribosomal protein S4 [Vibrio angustum S14] gi|328491204|dbj|GAA05160.1| ribosomal protein S4 [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 206 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGQVVNVPSFKVAANDVVSI 145 >gi|330977498|gb|EGH77444.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 320 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 31/236 (13%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G +L V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGGVLR-PRDIVHGGAVLELIAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L + + Sbjct: 75 EWVAQDIELD---IIYEDDQILVINKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRA 131 Query: 114 LDINTEGL----------------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVTAGGKIDAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINYPLV 247 >gi|309778473|ref|ZP_07673375.1| ribosomal protein S4 [Erysipelotrichaceae bacterium 3_1_53] gi|308913769|gb|EFP59607.1| ribosomal protein S4 [Erysipelotrichaceae bacterium 3_1_53] Length = 200 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +I R G A +RR +++ + VNG ++ + +EV Sbjct: 93 RLDNLIYRMGFARTRRAARQLVNHGHILVNGKKVDIPSFIAKPGMVVEV 141 >gi|227431875|ref|ZP_03913898.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] gi|227352342|gb|EEJ42545.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] Length = 312 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 44/247 (17%), Positives = 79/247 (31%), Gaps = 35/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M +K ++ RV V++ SR + + + VN ++R + V+S D Sbjct: 1 MANKILIHITDQAGRVDAVLSKENLSYSRTTLSNWLVDGTILVNNHKVKR-SYKVVSGDT 59 Query: 60 IEV------------DGVPLRKAERTRL--WLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + + +PL + +V + + V L Sbjct: 60 ISITPPETQETKIEAENIPLDIIYEDDDIIVVNKPQGMVVHPAAGHSSGTLVNALLHHSP 119 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLARVLELP--STQWLRVYRVRFHGQVDQD 156 R V R+D +T GLL++ + L S + RVY G+ +D Sbjct: 120 LSTINGEFRPGIVHRIDRDTSGLLMVAKNDKAHHSLSEQLKSHKNQRVYYALVRGEFTED 179 Query: 157 ----------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 KK VI+G + + + V L G+ +I+ Sbjct: 180 SGTIEAPIGRHKIDRKKQAVIEGGREAVTHFRVLKRYVGYTLLKVNLETGRTHQIRVHMS 239 Query: 207 FFNWKVN 213 + V Sbjct: 240 YIGHPVV 246 >gi|227824343|ref|ZP_03989175.1| pseudouridine synthase [Acidaminococcus sp. D21] gi|226904842|gb|EEH90760.1| pseudouridine synthase [Acidaminococcus sp. D21] Length = 311 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 33/240 (13%), Positives = 68/240 (28%), Gaps = 36/240 (15%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------ 62 E R +A SR ++ + + V G ++ A+ V D V Sbjct: 15 EKDQGLRADCYLADVLDLSRSSLQHDMEKGLVTKEGKPVK-ASYKVKLGDVFTVVIPPAV 73 Query: 63 ----DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS-------- 106 + P+ + + + +V + + V L Sbjct: 74 SLEAEPEPIPLAILYEDEDVIVVNKPRGMVVHPAAGNYTGTLVNALLYHCKDLSGINGVV 133 Query: 107 RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY-------------RVRFHGQV 153 R V RLD +T G+++ + L R + Sbjct: 134 RPGIVHRLDKDTSGVMVCAKNDRAHLSLSQQIKDKEAKRTYIAVVRGNIKDDRGHIETLI 193 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 D+D + ++ +V G + + G V L+ G+ +I+ + + Sbjct: 194 DRDPKDRMRMAVVPSGGRLAVTDYEVLERYGRFTVVRCRLQTGRTHQIRVHMTYLGHPLV 253 >gi|171060594|ref|YP_001792943.1| 30S ribosomal protein S4 [Leptothrix cholodnii SP-6] gi|226699083|sp|B1Y7N0|RS4_LEPCP RecName: Full=30S ribosomal protein S4 gi|170778039|gb|ACB36178.1| ribosomal protein S4 [Leptothrix cholodnii SP-6] Length = 207 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VNG + + V + D I V Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAVTVNGQSVNIPSYLVKAGDVISV 146 >gi|315304053|ref|ZP_07874473.1| S4 domain-containing protein [Listeria ivanovii FSL F6-596] gi|313627577|gb|EFR96290.1| S4 domain-containing protein [Listeria ivanovii FSL F6-596] Length = 258 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 22/50 (44%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ A SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISSAHHISRQKAKQLVVAGLVKVNWKTVENPDFECEEEDV 227 >gi|149193898|ref|ZP_01870996.1| Hemolysin A [Caminibacter mediatlanticus TB-2] gi|149135851|gb|EDM24329.1| Hemolysin A [Caminibacter mediatlanticus TB-2] Length = 238 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 16/183 (8%), Positives = 58/183 (31%), Gaps = 5/183 (2%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 R+ + + + + +R + + +I ++VKVN ++++ + + D IE+ + Sbjct: 1 MRLDEALVKRDLVETRSKAKELIKNEKVKVNDKIIKKPSFEIKDNDKIEI---LQKVYVS 57 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 W + V + + G + + + Sbjct: 58 RAAWKLKNYLNKYNISFKEKSVLDVGASTGGFSEVSLEKGAKKVVCVDVGSNQLHPKIKE 117 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDK-LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV 191 +++ + + + +++ + D + I + + + V + Sbjct: 118 NMKVENFENTDIRDFKYNEKFDIVVSDVSFISLLKIIDVIDKFAKSDIILLFKPQFEVGI 177 Query: 192 GLR 194 ++ Sbjct: 178 EVK 180 >gi|94968074|ref|YP_590122.1| hemolysin A [Candidatus Koribacter versatilis Ellin345] gi|94550124|gb|ABF40048.1| hemolysin A [Candidatus Koribacter versatilis Ellin345] Length = 252 Score = 49.4 bits (116), Expect = 7e-04, Method: Composition-based stats. Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 1/57 (1%) Query: 14 QRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ K++ RA + SR + MI RV VN +E+A NV I + G LR Sbjct: 3 VRLDKLLVERALVPSRERAQAMILAGRVLVNEQKVEKAGANVEDDSAIRLLGDDLRY 59 >gi|302185255|ref|ZP_07261928.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. syringae 642] Length = 320 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 31/236 (13%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G +L V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGGVLR-PRDIVHGGAVLELVAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L + + Sbjct: 75 EWVAQDIELD---IIYEDDQILVINKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRA 131 Query: 114 LDINTEGL----------------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVTAGGKIDAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINYPLV 247 >gi|255994615|ref|ZP_05427750.1| hemolysin A [Eubacterium saphenum ATCC 49989] gi|255993328|gb|EEU03417.1| hemolysin A [Eubacterium saphenum ATCC 49989] Length = 272 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 R+ K++ G SR + ++ I+ V+V G + ++A V S I + L Sbjct: 1 MRIDKLLVEEGYYESREKAQQAISAGEVEVEGKICLKSASQVSSKARINIRNDRLPY 57 >gi|156310431|ref|XP_001617741.1| hypothetical protein NEMVEDRAFT_v1g156832 [Nematostella vectensis] gi|156195585|gb|EDO25641.1| predicted protein [Nematostella vectensis] Length = 207 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V D + V Sbjct: 98 RLDNVVYRMGFGSTRSEARQLVSHKAITVNGQSVNIPSYMVKVGDVVAV 146 >gi|71735208|ref|YP_273032.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. phaseolicola 1448A] gi|257481618|ref|ZP_05635659.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. tabaci ATCC 11528] gi|289626965|ref|ZP_06459919.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289651379|ref|ZP_06482722.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. aesculi str. 2250] gi|298485413|ref|ZP_07003502.1| Ribosomal large subunit pseudouridine synthase D [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|71555761|gb|AAZ34972.1| Ribosomal large subunit pseudouridine synthase D(Pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. phaseolicola 1448A] gi|298160063|gb|EFI01095.1| Ribosomal large subunit pseudouridine synthase D [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|320326249|gb|EFW82303.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. glycinea str. B076] gi|320330673|gb|EFW86650.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. glycinea str. race 4] gi|330869191|gb|EGH03900.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330891573|gb|EGH24234.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. mori str. 301020] gi|330901397|gb|EGH32816.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. japonica str. M301072PT] gi|330954255|gb|EGH54515.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae Cit 7] gi|330971944|gb|EGH72010.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. aceris str. M302273PT] gi|331008769|gb|EGH88825.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 320 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 31/236 (13%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G +L V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGGVLR-PRDIVHGGAVLELIAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L + + Sbjct: 75 EWVAQDIELD---IIYEDDQILVINKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRA 131 Query: 114 LDINTEGL----------------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVTAGGKIDAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINYPLV 247 >gi|297170431|gb|ADI21463.1| pseudouridylate synthases, 23S RNA-specific [uncultured gamma proteobacterium HF0070_10G19] Length = 312 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 33/251 (13%), Positives = 65/251 (25%), Gaps = 45/251 (17%) Query: 1 MKDKNIVQENFTPQRVS----KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 +KDK V E R+ K + R SR +++ I V++N + ++S Sbjct: 2 IKDKFFVDETMHGTRLDIAITKYLGRK--YSRNQIKNFILGGCVQINDENCK-PKDKLVS 58 Query: 57 TDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI 116 D IE + W+ K V ++ NL G L Sbjct: 59 GDEIEFNFN----DYHDSSWMPEKIDFNVIDETNDYIIVEKSPNLIMHPGAGNEQGTLAN 114 Query: 117 NTEGLLLLTNDGGLARVLEL------------PSTQWLRVYRVRFHGQVDQDKLNLLKKG 164 ++ + ++ F + + L KG Sbjct: 115 GLLFRFPELAKLPRCGIVHRLDKDTSGLLVVAKTNEFRNHIVSEFQNRNVKKYYYALIKG 174 Query: 165 IVIQ----GICYGDMQVTLDTQKGSN------------------AWVTVGLREGKNREIK 202 ++ + + V V + G+ +I+ Sbjct: 175 NILGQIIINEPILRDKSNRIRMTVDQAGREATSIVKNIETFDFYSLVEVEILTGRTHQIR 234 Query: 203 KVFEFFNWKVN 213 +F + Sbjct: 235 VHMDFNKTPII 245 >gi|312884679|ref|ZP_07744380.1| 30S ribosomal protein S4 [Vibrio caribbenthicus ATCC BAA-2122] gi|309367592|gb|EFP95143.1| 30S ribosomal protein S4 [Vibrio caribbenthicus ATCC BAA-2122] Length = 206 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVSI 145 >gi|257468836|ref|ZP_05632930.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium ulcerans ATCC 49185] Length = 342 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 26/242 (10%), Positives = 72/242 (29%), Gaps = 36/242 (14%) Query: 8 QENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 EN +R+ + A+R ++++I V++ G + ++ + T+ I V+ Sbjct: 42 DENDKGKRIDSFLNEVIDDATRSYIQKIIDGGYVEITGKKVTKSGNKLKGTETITVNIPE 101 Query: 64 GVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 L ++ + + P +V + V L I G Sbjct: 102 DEILDVIPENIPLNIIYEDKDIVVINKAPDMVVHPAHGNYNGTLVNALLYHIKDLSTING 161 Query: 113 RLDINTEGLLLLTNDGGLA------------RVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + L G + + + + + + + + ++ Sbjct: 162 VIRPGIVHRLDKDTSGVIVVAKNDEAHSTLSDMFKEKTLEKTYICIAKGIFKDKSGRIET 221 Query: 161 LKKGIVIQGICYGDMQ---------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 L + + ++ + + V V + G+ +I+ ++ N Sbjct: 222 LIGRDSRDRKKMAVVDINGKNAISNYEILDEEKNFSLVKVRIETGRTHQIRVHMKYLNHP 281 Query: 212 VN 213 + Sbjct: 282 IL 283 >gi|227501160|ref|ZP_03931209.1| ribosomal protein S4 [Anaerococcus tetradius ATCC 35098] gi|227216745|gb|EEI82146.1| ribosomal protein S4 [Anaerococcus tetradius ATCC 35098] Length = 197 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V R+G+A +RRE +++ + VNG+ ++ + V D IEV Sbjct: 88 RLDNVAFRSGLARTRREARQIVTHGHLTVNGVQVDIPSYKVSEGDVIEV 136 >gi|148654435|ref|YP_001274640.1| RluA family pseudouridine synthase [Roseiflexus sp. RS-1] gi|148566545|gb|ABQ88690.1| ribosomal large subunit pseudouridine synthase D [Roseiflexus sp. RS-1] Length = 316 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 27/243 (11%), Positives = 65/243 (26%), Gaps = 37/243 (15%) Query: 6 IVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 +V+ R+ + +A SR +R+I +V +N + V + D + V Sbjct: 9 VVEAANEGDRLDRYVADHVPDLSRTYAQRLIEAAQVLLNNRQAR-PSTPVHAGDTVTVHL 67 Query: 63 --------------------DGVPLRKAERTRLWLYHKPIG------------LVTTHSD 90 D + + + ++ P + Sbjct: 68 PAPQPVGLVAEPLPLQIVYEDRDVVVIDKPASMVVHPAPGHDRGTLVNALIARYPEMAIN 127 Query: 91 PDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 D R + L S ++ R + L + ++ + Sbjct: 128 GDMRPGIVHRLDRDTSGLLVAARNERALRSLQAQQQARTMLKIYLAVVEGRMPELEGVID 187 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + ++ +V G + G + L G+ +I+ N Sbjct: 188 APIARHPTDRVRMAVVAGGRPART-HWRVLEDLGEYTLIEARLETGRTHQIRVHCASRNR 246 Query: 211 KVN 213 + Sbjct: 247 PIL 249 >gi|39995572|ref|NP_951523.1| S4 domain-containing protein [Geobacter sulfurreducens PCA] gi|39982335|gb|AAR33796.1| S4 domain protein [Geobacter sulfurreducens PCA] Length = 71 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 1/66 (1%) Query: 1 MKDKNIVQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M ++ + ++ + A +AS E + +IA+ V+VNG R + D Sbjct: 1 MPRGEPMKIDTDHIKLDSFLKAANLVASGGEAKIIIAEGAVRVNGETELRRGRKLRPGDQ 60 Query: 60 IEVDGV 65 +EV G Sbjct: 61 VEVAGE 66 >gi|79835462|gb|ABB52091.1| rRNA methylase [Arthrospira platensis] Length = 222 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 9/54 (16%) Query: 14 QRVS-----KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ + ++ SR++ +R+I V VN ++++ V + I+V Sbjct: 3 QRLDTLLVDRHLSE----SRQQAQRLIRAGEVMVNRQVVDKPGTEVDISATIDV 52 >gi|330470145|ref|YP_004407888.1| 30S ribosomal protein S4 [Verrucosispora maris AB-18-032] gi|328813116|gb|AEB47288.1| 30S ribosomal protein S4 [Verrucosispora maris AB-18-032] Length = 208 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ RAG A SR +++ VNG ++ + V + D IEV Sbjct: 99 RLDNVVYRAGYAKSRDMARQLVKHGHFTVNGKKVDIPSYRVSAHDIIEV 147 >gi|317051101|ref|YP_004112217.1| hemolysin A [Desulfurispirillum indicum S5] gi|316946185|gb|ADU65661.1| hemolysin A [Desulfurispirillum indicum S5] Length = 253 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 11/64 (17%), Positives = 24/64 (37%), Gaps = 1/64 (1%) Query: 7 VQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + + R+ K++ R + SR + +I V VN +++ V I + Sbjct: 1 MNQKTPRTRLDKLLVDRELVKSRERAKALIMAGAVIVNDHRIDKPGTTVPDDATIRLKVK 60 Query: 66 PLRK 69 + Sbjct: 61 DIPY 64 >gi|160896494|ref|YP_001562076.1| 30S ribosomal protein S4 [Delftia acidovorans SPH-1] gi|226697834|sp|A9BRX4|RS4_DELAS RecName: Full=30S ribosomal protein S4 gi|160362078|gb|ABX33691.1| ribosomal protein S4 [Delftia acidovorans SPH-1] Length = 207 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V D + V Sbjct: 98 RLDNVVYRMGFGSTRSEARQLVSHKAITVNGQSVNIPSYMVKVGDVVAV 146 >gi|330988806|gb|EGH86909.1| ribosomal large subunit pseudouridine synthase D(pseudouridine synthase) (Uracil hydrolyase) [Pseudomonas syringae pv. lachrymans str. M301315] Length = 320 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 31/236 (13%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G +L V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGGVLR-PRDIVHGGAVLELIAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L + + Sbjct: 75 EWVAQDIELD---IIYEDDQILVINKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRA 131 Query: 114 LDINTEG----------------LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVTAGGKIDAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINYPLV 247 >gi|237801870|ref|ZP_04590331.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. oryzae str. 1_6] gi|330962679|gb|EGH62939.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. maculicola str. ES4326] gi|331024728|gb|EGI04784.1| ribosomal large subunit pseudouridine synthase D [Pseudomonas syringae pv. oryzae str. 1_6] Length = 320 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 31/236 (13%), Positives = 63/236 (26%), Gaps = 40/236 (16%) Query: 13 PQRVSKVIARAGIA--SRREVERMIAQQRVKVNGILLERAAVNVMST------------- 57 QR+ +V A A SR + I R+ V+G +L V Sbjct: 17 GQRLDQV-AAQLFAEHSRSRLSAWIKDGRLTVDGGVLR-PRDIVHGGAVLELIAEQEAQG 74 Query: 58 ----DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR 113 IE+D + + L + +V + + + L + + Sbjct: 75 EWVAQDIELD---IIYEDDQILVINKPAGLVVHPAAGHADGTLLNALLHHVPDIINVPRA 131 Query: 114 LDINTEGL----------------LLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 ++ L+T + V Sbjct: 132 GIVHRLDKDTTGLMVVAKTIQAQTQLVTQLQSRSVSRIYECIVIGVVTAGGKIDAPIGRH 191 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 ++ V++G + + S+ V V L G+ +I+ N+ + Sbjct: 192 GQQRQRMAVMEGGKQAVSHYRVLERFRSHTHVRVKLETGRTHQIRVHMAHINYPLV 247 >gi|164686444|ref|ZP_02210472.1| hypothetical protein CLOBAR_00009 [Clostridium bartlettii DSM 16795] gi|164604455|gb|EDQ97920.1| hypothetical protein CLOBAR_00009 [Clostridium bartlettii DSM 16795] Length = 68 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 27/64 (42%), Gaps = 9/64 (14%) Query: 10 NFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ + + A G + +I + VKVNG + R ++ D +EV+G Sbjct: 7 ESEYIKLDQFLKLADIASTGG----HAKYLIQEGVVKVNGEVEMRRGKKLVPGDIVEVEG 62 Query: 65 VPLR 68 ++ Sbjct: 63 NQIK 66 >gi|50842085|ref|YP_055312.1| hypothetical protein PPA0599 [Propionibacterium acnes KPA171202] gi|50839687|gb|AAT82354.1| conserved protein [Propionibacterium acnes KPA171202] Length = 76 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 9/58 (15%) Query: 10 NFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + R+ + + A G + +IA V VNG + R + D + V Sbjct: 3 DDQMIRLGQYLKFANLAETGG----QARELIASGMVSVNGKVETRRGRQLHPGDEVTV 56 >gi|32491284|ref|NP_871538.1| hypothetical protein WGLp535 [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] gi|25166491|dbj|BAC24681.1| rluD [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] Length = 314 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 35/245 (14%), Positives = 77/245 (31%), Gaps = 33/245 (13%) Query: 2 KDKNIVQEN---FTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMST 57 K K +++ +R+ K IA SR ++++ I +VKVN I + N+ Sbjct: 3 KYKFFIKKTCISQNGKRLDKSIAEIFPEYSRNKIKKFIINNQVKVNDICIINPKKNIKGG 62 Query: 58 DHIEV----DGVPLRKAERTRLWLYHKPIGLVTTHSD----PDGRSTVFDNLPSIFSRVI 109 + I++ + K +T +Y LV G + L Sbjct: 63 ECIKIKISKKNNLISKKRKTYKLIYEDDDILVINKYKDVIVHPGCDKHENTLLHDILFNY 122 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG 169 + + L D ++ S ++ ++ ++++ +L I+ G Sbjct: 123 PDSKNLYRAGIVHRLDKDTTGLMLIARNSFSQKKLIKLLKLRLINREYRAVLLGKIICDG 182 Query: 170 ICYGDM---------------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFF 208 + + ++V + L G+ +I+ + Sbjct: 183 TVSAPIIRNSKNRTRMKVHISGKESITHYKIIKNFNDFSYVKINLESGRTHQIRLHMSYI 242 Query: 209 NWKVN 213 N V Sbjct: 243 NHPVL 247 >gi|86149496|ref|ZP_01067727.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni CF93-6] gi|88596172|ref|ZP_01099409.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 84-25] gi|218563183|ref|YP_002344963.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|26399526|sp|Q9PM81|RS4_CAMJE RecName: Full=30S ribosomal protein S4 gi|85840278|gb|EAQ57536.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni CF93-6] gi|88191013|gb|EAQ94985.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 84-25] gi|112360890|emb|CAL35691.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|284926789|gb|ADC29141.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni IA3902] gi|315927660|gb|EFV06991.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni DFVF1099] gi|315929465|gb|EFV08662.1| ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 305] Length = 208 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G A+ RR +++ V VNG ++ + V + IE+ Sbjct: 98 QRLDNIVYRMGFATTRRFARQLVTHGHVLVNGKRVDIPSFRVEAGAKIEI 147 >gi|328881776|emb|CCA55015.1| Ribosomal large subunit pseudouridine synthase D [Streptomyces venezuelae ATCC 10712] Length = 313 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 26/243 (10%), Positives = 61/243 (25%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD--HIE--- 61 V + +RV IAR SR + + A +V+V+G ++ + + V +E Sbjct: 12 VPDGLEGERVDAAIARMFGFSRTKAAELAAAGKVQVDGSVVGK-SERVSGGAWLEVEMPG 70 Query: 62 -----------VDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 V+G+ + + + + G + + + + S Sbjct: 71 AAAPVQIVAEPVEGMEIVHDDDDIVVIMKPIGVAAHPSPGWTGTTVIGGLAAAGYRISTS 130 Query: 111 VGRLDINTEGLLLLTNDGGL-------------ARVLELPSTQWLRVYRVRFHGQVDQDK 157 L + G + + E + + Sbjct: 131 GAAERQGIVHRLDVGTSGLMVVAKSEYAYTSLKRQFKERTVDKRYHALVQGHPDPMSGTI 190 Query: 158 LNLLKKGIVIQ-------GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + L S + + + L G+ +I+ Sbjct: 191 DAPIGRHPNHDYKWAVTADGKPSVTHYDLIEAYRSASLLDIKLETGRTHQIRVHMSAHRH 250 Query: 211 KVN 213 Sbjct: 251 PCV 253 >gi|270157887|ref|ZP_06186544.1| ribosomal protein S4 [Legionella longbeachae D-4968] gi|289163854|ref|YP_003453992.1| 30S ribosomal subunit protein S4 [Legionella longbeachae NSW150] gi|269989912|gb|EEZ96166.1| ribosomal protein S4 [Legionella longbeachae D-4968] gi|288857027|emb|CBJ10841.1| 30S ribosomal subunit protein S4 [Legionella longbeachae NSW150] Length = 206 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS R E +++ + + VN ++ + + D I V Sbjct: 97 RLDNVVYRMGFASTRAEARQLVTHKAILVNDKIVNVPSYLIKPGDVISV 145 >gi|296129503|ref|YP_003636753.1| hemolysin A [Cellulomonas flavigena DSM 20109] gi|296021318|gb|ADG74554.1| hemolysin A [Cellulomonas flavigena DSM 20109] Length = 286 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 1/58 (1%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + T R+ + R G+A SR +IA RV+V+G RAA V T I V+ Sbjct: 1 MTTTMTTGRLDAELVRRGLARSRGHAADLIAAGRVRVDGTPAHRAATQVDETREIGVE 58 >gi|67926067|ref|ZP_00519319.1| Hemolysin A [Crocosphaera watsonii WH 8501] gi|67852087|gb|EAM47594.1| Hemolysin A [Crocosphaera watsonii WH 8501] Length = 270 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ + + S R++ +R I VKVN ++++ V T IE+ P Sbjct: 5 RLDLLLVKRDLCSSRQQAQRCIRAGEVKVNQRIIDKPGTEVEITADIELKAKP 57 >gi|228476829|ref|ZP_04061474.1| RNA binding protein [Streptococcus salivarius SK126] gi|228251403|gb|EEK10548.1| RNA binding protein [Streptococcus salivarius SK126] Length = 267 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 18/53 (33%), Positives = 27/53 (50%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 + R+ V+A SR ++IA +VK+N +E+A VM D I V G Sbjct: 184 SSMRLDNVLATVLNLSRSNALKLIASGKVKLNYRQIEKANQTVMIGDMISVRG 236 >gi|307297368|ref|ZP_07577174.1| ribosomal protein S4 [Thermotogales bacterium mesG1.Ag.4.2] gi|306916628|gb|EFN47010.1| ribosomal protein S4 [Thermotogales bacterium mesG1.Ag.4.2] Length = 208 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ ++ R G AS RR+ +++ V VNG + + + N+ D +E+ Sbjct: 99 RLDNIVFRMGFASSRRQARQLVNHGHVLVNGRRVNKPSFNLRVGDIVEIKEK 150 >gi|297616625|ref|YP_003701784.1| hemolysin A [Syntrophothermus lipocalidus DSM 12680] gi|297144462|gb|ADI01219.1| hemolysin A [Syntrophothermus lipocalidus DSM 12680] Length = 270 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 11/52 (21%), Positives = 24/52 (46%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ G+A +R + +I +V VNG +++ V ++ V Sbjct: 2 EKSRLDTLVHDRGLAPTREKARALILAGKVVVNGNRVDKPGTKVPVDANVAV 53 >gi|253681337|ref|ZP_04862135.1| S4 domain protein [Clostridium botulinum D str. 1873] gi|253562575|gb|EES92026.1| S4 domain protein [Clostridium botulinum D str. 1873] Length = 88 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV +NG + + + V+ D IEV Sbjct: 1 MRLDKYLKVSRIIKRRTVAKEACESGRVFINGKVAK-PSSEVIENDIIEV 49 >gi|225174878|ref|ZP_03728875.1| hemolysin A [Dethiobacter alkaliphilus AHT 1] gi|225169518|gb|EEG78315.1| hemolysin A [Dethiobacter alkaliphilus AHT 1] Length = 273 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 10/53 (18%), Positives = 21/53 (39%), Gaps = 1/53 (1%) Query: 11 FTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ + AG+ SR + V V+G +++ V ++V Sbjct: 3 TERKRIDVYLTDAGLFPSRSAARAAVMAGLVTVDGQRVDKPGTAVSVDAAVDV 55 >gi|46907827|ref|YP_014216.1| 30S ribosomal protein S4 [Listeria monocytogenes serotype 4b str. F2365] gi|61215605|sp|Q71Z71|RS4_LISMF RecName: Full=30S ribosomal protein S4 gi|46881096|gb|AAT04393.1| ribosomal protein S4 [Listeria monocytogenes serotype 4b str. F2365] Length = 200 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 92 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 141 >gi|152976258|ref|YP_001375775.1| RNA-binding S4 domain-containing protein [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|152025010|gb|ABS22780.1| RNA-binding S4 domain protein [Bacillus cytotoxicus NVH 391-98] Length = 257 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/51 (27%), Positives = 27/51 (52%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+A SR++V+ +I VKVN ++++ + + D + V G Sbjct: 182 RLDVVLAEILHLSRQKVQPLIKNGLVKVNWKVVDQTSYECLPGDILSVRGH 232 >gi|304440182|ref|ZP_07400072.1| S4 RNA-binding domain protein [Peptoniphilus duerdenii ATCC BAA-1640] gi|304371231|gb|EFM24847.1| S4 RNA-binding domain protein [Peptoniphilus duerdenii ATCC BAA-1640] Length = 81 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + + RR + R+ VNG + + A+ V + D +E+ Sbjct: 1 MRLDKFLKNSRVIKRRTLAKEACDAGRITVNGRVAK-ASTEVNTGDILEI 49 >gi|289551172|ref|YP_003472076.1| Putative ribosomal large subunit pseudouridine synthase D [Staphylococcus lugdunensis HKU09-01] gi|289180704|gb|ADC87949.1| Putative ribosomal large subunit pseudouridine synthase D [Staphylococcus lugdunensis HKU09-01] Length = 284 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 31/223 (13%), Positives = 62/223 (27%), Gaps = 31/223 (13%) Query: 19 VIARAGIASRREVERMIAQ-QRVKVNGILLERAAVNVMSTDHIEV--------------- 62 + + G S ++ I Q + VN + + D + + Sbjct: 16 FLQQQGF-S-KKTTSAIKQNGALLVNHEPVTV-RYQLQPGDKLTIILPTEIPSANLQAFH 72 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRVISVGRLDIN 117 + + + L + + + S + L V RLD N Sbjct: 73 HPLDIVYEDDYLLIVCKPSLQNCAPSREHPHESLIEQVLAYCHENDNDFTPHIVTRLDRN 132 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------DKLNLLKKGIVIQGI 170 T GL+LL G + +L + Q + + + V Sbjct: 133 TTGLVLLAKHGHIHHLLSHIKINKRYIALCHGATQPEGIIEAPIARANDSIITRQVSSTG 192 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 Y K + + V L G+ +I+ F++ + Sbjct: 193 KYAKSTYRTLNSKQNVSLCEVTLHTGRTHQIRVHFQYIGHPLI 235 >gi|146298136|ref|YP_001192727.1| 30S ribosomal protein S4 [Flavobacterium johnsoniae UW101] gi|189045380|sp|A5FN16|RS4_FLAJO RecName: Full=30S ribosomal protein S4 gi|146152554|gb|ABQ03408.1| 30S ribosomal protein S4 [Flavobacterium johnsoniae UW101] Length = 201 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R GIA SRR ++++ + + VNG ++ + ++ D + V Sbjct: 94 RLDNVVFRMGIAPSRRGARQIVSHRHITVNGEVVNIPSYHLKPGDKVAV 142 >gi|254708671|ref|ZP_05170482.1| RluA family pseudouridine synthase [Brucella pinnipedialis B2/94] gi|254714518|ref|ZP_05176329.1| RluA family pseudouridine synthase [Brucella ceti M644/93/1] gi|254717416|ref|ZP_05179227.1| RluA family pseudouridine synthase [Brucella ceti M13/05/1] gi|256030197|ref|ZP_05443811.1| RluA family pseudouridine synthase [Brucella pinnipedialis M292/94/1] gi|256160371|ref|ZP_05458061.1| RluA family pseudouridine synthase [Brucella ceti M490/95/1] gi|256255579|ref|ZP_05461115.1| RluA family pseudouridine synthase [Brucella ceti B1/94] gi|261219246|ref|ZP_05933527.1| pseudouridine synthase [Brucella ceti M13/05/1] gi|261316161|ref|ZP_05955358.1| pseudouridine synthase [Brucella pinnipedialis B2/94] gi|261322307|ref|ZP_05961504.1| pseudouridine synthase [Brucella ceti M644/93/1] gi|265987225|ref|ZP_06099782.1| pseudouridine synthase [Brucella pinnipedialis M292/94/1] gi|265998740|ref|ZP_06111297.1| pseudouridine synthase [Brucella ceti M490/95/1] gi|260924335|gb|EEX90903.1| pseudouridine synthase [Brucella ceti M13/05/1] gi|261294997|gb|EEX98493.1| pseudouridine synthase [Brucella ceti M644/93/1] gi|261295384|gb|EEX98880.1| pseudouridine synthase [Brucella pinnipedialis B2/94] gi|262553429|gb|EEZ09198.1| pseudouridine synthase [Brucella ceti M490/95/1] gi|264659422|gb|EEZ29683.1| pseudouridine synthase [Brucella pinnipedialis M292/94/1] Length = 334 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 31/260 (11%), Positives = 71/260 (27%), Gaps = 52/260 (20%) Query: 6 IVQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 I + +R+ + +A A SR V+ +IA V ++G + +I + Sbjct: 5 IADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIAIV 64 Query: 63 ---------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 G + + + + +V + + V + Sbjct: 65 LSEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCGDSLS 124 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELP-----------------STQWLR 143 R V RLD +T G++++ + R L Sbjct: 125 GIGGIRRPGIVHRLDKDTSGVMVVAKNDRAHRHLSEQFADHGRTGDLERAYLALVWGMTE 184 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSN---------AWVTVGL 193 + + + + K+ +V + T + + + V L Sbjct: 185 RPQGTVDAYLGRSHRDRTKQAVVHEEREDARHAITHYATVEKFSPREDATALASLVECRL 244 Query: 194 REGKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 245 ETGRTHQIRVHMAHIGHPLV 264 >gi|167747373|ref|ZP_02419500.1| hypothetical protein ANACAC_02092 [Anaerostipes caccae DSM 14662] gi|167653351|gb|EDR97480.1| hypothetical protein ANACAC_02092 [Anaerostipes caccae DSM 14662] Length = 91 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 2/51 (3%) Query: 13 PQRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + + RR + RV VNG + A +V D I + Sbjct: 12 GMRLDKFLKVSRLIKRRTVANEACSAGRVTVNGKTAK-AGTDVKPGDEIRI 61 >gi|55980377|ref|YP_143674.1| ribosomal large subunit pseudouridine synthase D [Thermus thermophilus HB8] gi|55771790|dbj|BAD70231.1| ribosomal large subunit pseudouridine synthase D [Thermus thermophilus HB8] Length = 308 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 26/235 (11%), Positives = 68/235 (28%), Gaps = 33/235 (14%) Query: 12 TPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN----------------VM 55 R+ + +A A SR + + I RV+V ++ + A V+ Sbjct: 7 EGVRLDQAVAEALSVSRAKAQAWIQAGRVRVGDRVVLKPAYRLKGEEVAVEPVEEAPMVL 66 Query: 56 STDH---IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D I + + + L H G+ + + + + ++ G Sbjct: 67 PEDLPIPILYEDEDVLALNKPPGLLTHPAPGVYSGTVVNLLLARYYGPVEKGPPELVRPG 126 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK------------LNL 160 + + + VLE + + ++ + + + Sbjct: 127 IVHRLDKDTSGVLVVAKHGGVLEGLARAFRDRLVMKRYLAITEGHPREGVLIAPIGRHPR 186 Query: 161 LKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + G+ + + G A V G+ +I+ ++ + Sbjct: 187 ERHKMHVGGLAARYAETEFQVLATAGPYALVEARPHTGRTHQIRVHLKYLGAPIL 241 >gi|328957863|ref|YP_004375249.1| uncharacterized RNA pseudouridine synthase YlyB [Carnobacterium sp. 17-4] gi|328674187|gb|AEB30233.1| uncharacterized RNA pseudouridine synthase YlyB [Carnobacterium sp. 17-4] Length = 302 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 18/224 (8%), Positives = 58/224 (25%), Gaps = 30/224 (13%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD------------GVP 66 +++ SR V+ ++ + +V V+G ++++ ++ + + G+ Sbjct: 30 LLSIMSHTSRNSVKSILTRGQVTVDGKVIKKHNHPLLPNQVVAIQSNKAAIKETALVGMT 89 Query: 67 LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGR--LDINTEGLLLL 124 + + + + + L + + + + + + Sbjct: 90 ILYEDDAIIVIDKEAGLLSIAAKFAQELTAHRQLINYVKQENHNNRIYVVHRLDRDTSGV 149 Query: 125 TNDGGLARVLELPSTQWLRVYRVR----------------FHGQVDQDKLNLLKKGIVIQ 168 +V + W + + R + + K + Sbjct: 150 MVFAKTEQVKQEMQENWKDIVKERIYSVLVEGIVSEDEGSIKTWLTESKAMKVHSATYDN 209 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKV 212 G + L G+ +I+ E V Sbjct: 210 GGKLAITHYKKIRNNDEFTLLEARLETGRKNQIRVHMETLGHPV 253 >gi|284928717|ref|YP_003421239.1| hemolysin A [cyanobacterium UCYN-A] gi|284809176|gb|ADB94881.1| hemolysin A [cyanobacterium UCYN-A] Length = 264 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 15 RVSKVIAR-AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ SR++ +R I VK+N ++++ + IEV P Sbjct: 4 RLDILLVEKNLYTSRQQAQRCIRAGEVKINQRIIDKPGTEINIKAEIEVKIKP 56 >gi|251787995|ref|YP_003002716.1| 30S ribosomal protein S4 [Dickeya zeae Ech1591] gi|247536616|gb|ACT05237.1| ribosomal protein S4 [Dickeya zeae Ech1591] Length = 206 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + + +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAVMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|256825074|ref|YP_003149034.1| rRNA methylase [Kytococcus sedentarius DSM 20547] gi|256688467|gb|ACV06269.1| predicted rRNA methylase [Kytococcus sedentarius DSM 20547] Length = 281 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ K + + G+ SR + +I Q +V V G + + +V+V DG Sbjct: 1 MRLDKAVVQRGLTRSRTRAQGLIRQGQVLVEGEPVTKGSVDVDPESISLKDG 52 >gi|223038545|ref|ZP_03608839.1| ribosomal protein S4 [Campylobacter rectus RM3267] gi|255321747|ref|ZP_05362902.1| ribosomal protein S4 [Campylobacter showae RM3277] gi|222880402|gb|EEF15489.1| ribosomal protein S4 [Campylobacter rectus RM3267] gi|255301227|gb|EET80489.1| ribosomal protein S4 [Campylobacter showae RM3277] Length = 208 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V + +EV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKRVDIPSYRVQAGAKVEV 147 >gi|219670033|ref|YP_002460468.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2] gi|219540293|gb|ACL22032.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense DCB-2] Length = 334 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 32/222 (14%), Positives = 60/222 (27%), Gaps = 36/222 (16%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV------------DGVPLR--KAER 72 SR ++ +I + V VNG +A V + D I V + +PL + Sbjct: 56 SRSFIQGLIEEGHVLVNGA-ARKANYKVRAMDQIAVVIPPPRELKVEAENIPLEILYEDE 114 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDI---------------- 116 L + +V ++ V L + G L Sbjct: 115 DVLVVNKSQGMVVHPAPGAWTKTLVNALLYHCRNLSGINGVLRPGIVHRIDKDTSGLLVV 174 Query: 117 -----NTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGIC 171 +GL +AR + + +D + K +V Q Sbjct: 175 AKNDLAHQGLAEQIKAHSMARRYLAIVHGVVFEPSGTVEAPIGRDPADRKKMAVVFQNAK 234 Query: 172 YGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + L G+ +I+ + V Sbjct: 235 EAVTHYEVLERFRDFTLLEARLETGRTHQIRVHMAYLKHPVL 276 >gi|209694254|ref|YP_002262182.1| 23S rRNA pseudouridine synthase D [Aliivibrio salmonicida LFI1238] gi|208008205|emb|CAQ78349.1| ribosomal large subunit pseudouridine synthase D [Aliivibrio salmonicida LFI1238] Length = 324 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 67/239 (28%), Gaps = 31/239 (12%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 V+++ QR+ + A SR ++ + + VNG ++ +A V +M + I V Sbjct: 10 TVKDSQLGQRLDQAAAELFSDFSRSRIKEWVLAGSISVNGEVITKARVKMMGGEEIVVKA 69 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF----- 105 + + L + +V + + + L Sbjct: 70 ELEDEERWLAQDIPLEIVYEDDDILVINKPRDLVVHPGAGTPDGTILNALLFHYPSIAEV 129 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVD 154 R V RLD +T GL+++ L + + Sbjct: 130 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRKITREYEAIVLGRMTAGGMIEKPI 189 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ F + Sbjct: 190 GRHPQKRTLMAVHELGKDAVTHYRVAEHFRIHTRLRLRLETGRTHQIRVHMSFLQHPLV 248 >gi|188586310|ref|YP_001917855.1| hemolysin A [Natranaerobius thermophilus JW/NM-WN-LF] gi|179350997|gb|ACB85267.1| hemolysin A [Natranaerobius thermophilus JW/NM-WN-LF] Length = 276 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 10/57 (17%) Query: 2 KDKNIVQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMST 57 KDKN R+ +++ G ASR + +R I V V+ +++ V Sbjct: 3 KDKN---------RLDQLLVDKGYFASREQAKRNIMAGLVFVDNQKIDKPGKKVHLD 50 >gi|22536662|ref|NP_687513.1| ylmH protein [Streptococcus agalactiae 2603V/R] gi|22533501|gb|AAM99385.1|AE014213_24 ylmH protein [Streptococcus agalactiae 2603V/R] Length = 262 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 30/63 (47%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + + R+ K++A SR + ++I +VKVN + R + ++ D I Sbjct: 172 QDIQKLTVIASSLRLDKILATILKISRTQSTKLIEADKVKVNYATVNRVSEQLVEGDLIS 231 Query: 62 VDG 64 V G Sbjct: 232 VRG 234 >gi|27364191|ref|NP_759719.1| 30S ribosomal protein S4 [Vibrio vulnificus CMCP6] gi|37678582|ref|NP_933191.1| 30S ribosomal protein S4 [Vibrio vulnificus YJ016] gi|320157577|ref|YP_004189956.1| 30S ribosomal protein S4p (S9e) [Vibrio vulnificus MO6-24/O] gi|31340392|sp|Q8DE62|RS4_VIBVU RecName: Full=30S ribosomal protein S4 gi|41017818|sp|Q7MPG5|RS4_VIBVY RecName: Full=30S ribosomal protein S4 gi|27360309|gb|AAO09246.1| ribosomal protein S4 [Vibrio vulnificus CMCP6] gi|37197322|dbj|BAC93162.1| ribosomal protein S4 [Vibrio vulnificus YJ016] gi|319932889|gb|ADV87753.1| SSU ribosomal protein S4p (S9e) [Vibrio vulnificus MO6-24/O] Length = 206 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVSI 145 >gi|76798282|ref|ZP_00780529.1| ylmH protein [Streptococcus agalactiae 18RS21] gi|76586354|gb|EAO62865.1| ylmH protein [Streptococcus agalactiae 18RS21] Length = 179 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 30/63 (47%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + + R+ K++A SR + ++I +VKVN + R + ++ D I Sbjct: 89 QDIQKLTVIASSLRLDKILATILKISRTQSTKLIEADKVKVNYATVNRVSEQLVEGDLIS 148 Query: 62 VDG 64 V G Sbjct: 149 VRG 151 >gi|76787217|ref|YP_329217.1| S4 domain-containing protein [Streptococcus agalactiae A909] gi|77405577|ref|ZP_00782667.1| ylmH protein [Streptococcus agalactiae H36B] gi|76562274|gb|ABA44858.1| S4 domain protein [Streptococcus agalactiae A909] gi|77175799|gb|EAO78578.1| ylmH protein [Streptococcus agalactiae H36B] Length = 262 Score = 49.4 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 16/63 (25%), Positives = 30/63 (47%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +D + + R+ K++A SR + ++I +VKVN + R + ++ D I Sbjct: 172 QDIQKLTVIASSLRLDKILATILKISRTQSTKLIEADKVKVNYATVNRVSEQLVEGDLIS 231 Query: 62 VDG 64 V G Sbjct: 232 VRG 234 >gi|312143723|ref|YP_003995169.1| hemolysin A [Halanaerobium sp. 'sapolanicus'] gi|311904374|gb|ADQ14815.1| hemolysin A [Halanaerobium sp. 'sapolanicus'] Length = 277 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 1/54 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +R+ V+ G+ SR +R I + V+G ++A + IE+ G Sbjct: 3 QKERLDIVLTERGLFRSRSRAKRAIMAGLIFVDGQREDKAGTQIAKDAEIEIRG 56 >gi|71276503|ref|ZP_00652778.1| Ribosomal protein S4, bacterial and organelle form [Xylella fastidiosa Dixon] gi|71900586|ref|ZP_00682713.1| Ribosomal protein S4, bacterial and organelle form [Xylella fastidiosa Ann-1] gi|170729723|ref|YP_001775156.1| 30S ribosomal protein S4 [Xylella fastidiosa M12] gi|226703312|sp|B0U5M2|RS4_XYLFM RecName: Full=30S ribosomal protein S4 gi|71162680|gb|EAO12407.1| Ribosomal protein S4, bacterial and organelle form [Xylella fastidiosa Dixon] gi|71729643|gb|EAO31747.1| Ribosomal protein S4, bacterial and organelle form [Xylella fastidiosa Ann-1] gi|167964516|gb|ACA11526.1| 30S ribosomal protein S4 [Xylella fastidiosa M12] Length = 208 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 1/66 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ VI R G A +R ++++ + V VNG ++ + +V D + + + Sbjct: 98 RLDNVIYRMGFAVTRPAARQLVSHRGVLVNGKIVNLPSYHVKPGDIVALSQRAQKYLCVQ 157 Query: 74 RLWLYH 79 Sbjct: 158 ESLTIK 163 >gi|313763970|gb|EFS35334.1| S4 domain protein [Propionibacterium acnes HL013PA1] gi|313791626|gb|EFS39744.1| S4 domain protein [Propionibacterium acnes HL110PA1] gi|313802289|gb|EFS43515.1| S4 domain protein [Propionibacterium acnes HL110PA2] gi|313808159|gb|EFS46633.1| S4 domain protein [Propionibacterium acnes HL087PA2] gi|313812557|gb|EFS50271.1| S4 domain protein [Propionibacterium acnes HL025PA1] gi|313814903|gb|EFS52617.1| S4 domain protein [Propionibacterium acnes HL059PA1] gi|313818926|gb|EFS56640.1| S4 domain protein [Propionibacterium acnes HL046PA2] gi|313820755|gb|EFS58469.1| S4 domain protein [Propionibacterium acnes HL036PA1] gi|313822480|gb|EFS60194.1| S4 domain protein [Propionibacterium acnes HL036PA2] gi|313825724|gb|EFS63438.1| S4 domain protein [Propionibacterium acnes HL063PA1] gi|313828068|gb|EFS65782.1| S4 domain protein [Propionibacterium acnes HL063PA2] gi|313839055|gb|EFS76769.1| S4 domain protein [Propionibacterium acnes HL086PA1] gi|314915000|gb|EFS78831.1| S4 domain protein [Propionibacterium acnes HL005PA4] gi|314918670|gb|EFS82501.1| S4 domain protein [Propionibacterium acnes HL050PA1] gi|314920475|gb|EFS84306.1| S4 domain protein [Propionibacterium acnes HL050PA3] gi|314925670|gb|EFS89501.1| S4 domain protein [Propionibacterium acnes HL036PA3] gi|314932149|gb|EFS95980.1| S4 domain protein [Propionibacterium acnes HL067PA1] gi|314954585|gb|EFS98991.1| S4 domain protein [Propionibacterium acnes HL027PA1] gi|314958616|gb|EFT02718.1| S4 domain protein [Propionibacterium acnes HL002PA1] gi|314959777|gb|EFT03879.1| S4 domain protein [Propionibacterium acnes HL002PA2] gi|314962352|gb|EFT06453.1| S4 domain protein [Propionibacterium acnes HL082PA1] gi|314968218|gb|EFT12317.1| S4 domain protein [Propionibacterium acnes HL037PA1] gi|314979161|gb|EFT23255.1| S4 domain protein [Propionibacterium acnes HL072PA2] gi|314986715|gb|EFT30807.1| S4 domain protein [Propionibacterium acnes HL005PA2] gi|314989458|gb|EFT33549.1| S4 domain protein [Propionibacterium acnes HL005PA3] gi|315077438|gb|EFT49498.1| S4 domain protein [Propionibacterium acnes HL053PA2] gi|315080182|gb|EFT52158.1| S4 domain protein [Propionibacterium acnes HL078PA1] gi|315084063|gb|EFT56039.1| S4 domain protein [Propionibacterium acnes HL027PA2] gi|315089118|gb|EFT61094.1| S4 domain protein [Propionibacterium acnes HL072PA1] gi|315098941|gb|EFT70917.1| S4 domain protein [Propionibacterium acnes HL059PA2] gi|315100818|gb|EFT72794.1| S4 domain protein [Propionibacterium acnes HL046PA1] gi|315108036|gb|EFT80012.1| S4 domain protein [Propionibacterium acnes HL030PA2] gi|327330519|gb|EGE72266.1| S4 domain protein [Propionibacterium acnes HL096PA3] gi|327446856|gb|EGE93510.1| S4 domain protein [Propionibacterium acnes HL013PA2] gi|327450119|gb|EGE96773.1| S4 domain protein [Propionibacterium acnes HL087PA3] gi|327455154|gb|EGF01809.1| S4 domain protein [Propionibacterium acnes HL092PA1] gi|327455327|gb|EGF01982.1| S4 domain protein [Propionibacterium acnes HL083PA2] gi|328752532|gb|EGF66148.1| S4 domain protein [Propionibacterium acnes HL020PA1] gi|328752784|gb|EGF66400.1| S4 domain protein [Propionibacterium acnes HL087PA1] gi|328759294|gb|EGF72910.1| S4 domain protein [Propionibacterium acnes HL025PA2] Length = 71 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 9/54 (16%) Query: 14 QRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + A G + +IA V VNG + R + D + V Sbjct: 2 IRLGQYLKFANLAETGG----QARELIASGMVSVNGEVETRRGRQLHPGDEVTV 51 >gi|307720806|ref|YP_003891946.1| hemolysin A [Sulfurimonas autotrophica DSM 16294] gi|306978899|gb|ADN08934.1| hemolysin A [Sulfurimonas autotrophica DSM 16294] Length = 235 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + SR + + ++ + V VN +L+++ A V +D + V Sbjct: 1 MRLDNYLVENDFVESRNKAQTIVKEGLVYVNNMLVKKPAFQVQQSDEVRV 50 >gi|302560761|ref|ZP_07313103.1| nitrite reductase [NAD(P)H], large subunit [Streptomyces griseoflavus Tu4000] gi|302478379|gb|EFL41472.1| nitrite reductase [NAD(P)H], large subunit [Streptomyces griseoflavus Tu4000] Length = 926 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 18/108 (16%), Positives = 28/108 (25%), Gaps = 3/108 (2%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 GP + R + +P R + + G + A P Sbjct: 47 GPCSTCSPLTEAPDVHGHPDHRARRPRHGRPALPRGARRARPDRHPPRGRPV--RGAAPG 104 Query: 306 HRRNLASNVWMAKGIHSSFLSDSG-QREENHRRSPSFPSKRSLRRTSA 352 R A V + + G R HR +P P R + Sbjct: 105 VRPRPAHLVLLGEHARGPVADGPGVPRAARHRTAPRRPGGDHRPRGAP 152 >gi|302332618|gb|ADL22811.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus aureus subsp. aureus JKD6159] Length = 284 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 26/199 (13%), Positives = 54/199 (27%), Gaps = 28/199 (14%) Query: 42 VNGILLERAAVNVMSTDHIEVD---------------GVPLRKAERTRLWLYHKPIGLVT 86 VN + +M D +E+ V + + + + T Sbjct: 38 VNDEPVTV-RKQLMPNDILEIHLPQEIPSVNLIPYARKVEVLYEDAFIIIVTKPNNQNCT 96 Query: 87 THSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 + S + L V RLD NT G+++ G + + + + Sbjct: 97 PSREHPHESLIEQVLYHCQEHGENINPHIVTRLDRNTTGIVIFAKYGHIHHLFSKGNLKK 156 Query: 142 LRVYRVRFHGQVD-------QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + V + + + V Y + Q + V L Sbjct: 157 IYTCLVYGKTHTSGIIEANIRRSKDSIITREVASDGKYAKTSYEVINQNDKYSLCKVHLH 216 Query: 195 EGKNREIKKVFEFFNWKVN 213 G+ +I+ F+ + Sbjct: 217 TGRTHQIRVHFQHIGHPIV 235 >gi|269104036|ref|ZP_06156733.1| SSU ribosomal protein S4p (S9e) [Photobacterium damselae subsp. damselae CIP 102761] gi|268163934|gb|EEZ42430.1| SSU ribosomal protein S4p (S9e) [Photobacterium damselae subsp. damselae CIP 102761] Length = 206 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGQVVNVPSYKVAANDVVSI 145 >gi|307152717|ref|YP_003888101.1| photosystem II S4 domain-containing protein [Cyanothece sp. PCC 7822] gi|306982945|gb|ADN14826.1| photosystem II S4 domain protein [Cyanothece sp. PCC 7822] Length = 259 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 2/65 (3%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K + R+ IA AG SR ++ I+ V+VN + +A+ NV S D I Sbjct: 172 PQKKEMTTVEASMRLD-AIASAGFGMSRSKMAEAISSGDVRVNWKEITQASHNVSSGDLI 230 Query: 61 EVDGV 65 + G Sbjct: 231 SMRGK 235 >gi|153853046|ref|ZP_01994455.1| hypothetical protein DORLON_00440 [Dorea longicatena DSM 13814] gi|149753832|gb|EDM63763.1| hypothetical protein DORLON_00440 [Dorea longicatena DSM 13814] Length = 269 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 27/221 (12%), Positives = 61/221 (27%), Gaps = 20/221 (9%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + +A SR + + +I V V+G ++A IEV G L R Sbjct: 3 ERLDVLLVKRNLAASREKAKAIIMSGIVYVDGQKEDKAGTTFPEEATIEVRGHTLPYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L + ++ G + + + D L + Sbjct: 63 GGLKLEKAIKNFDVSVEGKVCTDVGSST-GGFTDCMLQNGAVKVFAIDVGRGQLDWKLRQ 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWV--- 189 + + + V + + + + + ++ L A + Sbjct: 122 DPRVVCMEKTNIRYVTPEDIGEPVQFSSIDVSFISLTKVLLPIRNYLTEDGQIVALIKPQ 181 Query: 190 ----------TVGLREGKNRE-----IKKVFEFFNWKVNRL 215 +RE + ++V L Sbjct: 182 FEAGREKVGKKGVVREKSTHIEVIHKVIDYAMSIGFEVLNL 222 >gi|227513091|ref|ZP_03943140.1| 30S ribosomal protein S4 [Lactobacillus buchneri ATCC 11577] gi|227083666|gb|EEI18978.1| 30S ribosomal protein S4 [Lactobacillus buchneri ATCC 11577] Length = 231 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 10/49 (20%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A+ RR+ +++ + V+G ++ + V + + V Sbjct: 122 RLDNIVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSYEVKTGQVVSV 170 >gi|163814985|ref|ZP_02206372.1| hypothetical protein COPEUT_01138 [Coprococcus eutactus ATCC 27759] gi|158449668|gb|EDP26663.1| hypothetical protein COPEUT_01138 [Coprococcus eutactus ATCC 27759] Length = 69 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 4/52 (7%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAE 71 + +G+ E + I Q V VNG + R + D +E DG + + Sbjct: 22 LVESGV----EAKEFIVQGLVVVNGEVETRRGRKLYDGDEVEFDGDKISIQK 69 >gi|237785442|ref|YP_002906147.1| hypothetical protein ckrop_0850 [Corynebacterium kroppenstedtii DSM 44385] gi|237758354|gb|ACR17604.1| hypothetical protein ckrop_0850 [Corynebacterium kroppenstedtii DSM 44385] Length = 276 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%) Query: 7 VQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + + + +R+ + +A SR + MI RV VNG + A V I+V+ Sbjct: 1 MTKQPSRRRLDAELVNRKVARSRDQAVEMIRSGRVMVNGFQATKPATRVEPGISIKVE 58 >gi|227524306|ref|ZP_03954355.1| 30S ribosomal protein S4 [Lactobacillus hilgardii ATCC 8290] gi|227088537|gb|EEI23849.1| 30S ribosomal protein S4 [Lactobacillus hilgardii ATCC 8290] Length = 231 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 10/49 (20%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A+ RR+ +++ + V+G ++ + V + + V Sbjct: 122 RLDNIVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSYEVKTGQVVSV 170 >gi|325831406|ref|ZP_08164660.1| pseudouridine synthase, RluA family [Eggerthella sp. HGA1] gi|325486660|gb|EGC89108.1| pseudouridine synthase, RluA family [Eggerthella sp. HGA1] Length = 344 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 30/256 (11%), Positives = 70/256 (27%), Gaps = 50/256 (19%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVD 63 + + QR+ ++A G+ SR R + V VNG + ++ V D I Sbjct: 8 VAAPDDAGQRLDALLAARGLYPSRSAAARAVDDGLVFVNGAEVAKK--HPVAPGDTIVYQ 65 Query: 64 -----------GVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 G P +R + + L + + D D + V + + Sbjct: 66 VEEPVEPGPLRGQPIDLDIRFEDEDLIVLSKQVGLVCHPSVDHDDGTLVNALIYHCGAEN 125 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + + + + G++ + +L + + + + L G++ Sbjct: 126 LCNVQGEDDRLGIVHRLDRDTSGLMLAAKNDETGYALMSDIRDRAVDRRYLALVHGVIAH 185 Query: 169 G-------------ICYGDMQVTLDTQKGSNAWVTV------------------GLREGK 197 + + + V L G+ Sbjct: 186 DTGMIDAPIARAEKERTRMAVRDTPSAREAITTFRVLERFEHGARDDGYTLIDCKLFTGR 245 Query: 198 NREIKKVFEFFNWKVN 213 +I+ E+ + Sbjct: 246 THQIRVHLEYAKHPLV 261 >gi|323484858|ref|ZP_08090214.1| hypothetical protein HMPREF9474_01965 [Clostridium symbiosum WAL-14163] gi|323693772|ref|ZP_08107967.1| hemolysin A [Clostridium symbiosum WAL-14673] gi|323401854|gb|EGA94196.1| hypothetical protein HMPREF9474_01965 [Clostridium symbiosum WAL-14163] gi|323502158|gb|EGB18025.1| hemolysin A [Clostridium symbiosum WAL-14673] Length = 269 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 25/178 (14%), Positives = 55/178 (30%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + G+A SR + + +I V V+ ++A + T IEV G LR R Sbjct: 3 ERLDVLLVKKGLAESREKAKAIIMSGIVYVDDQKEDKAGTSFEETAKIEVRGATLRYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L I ++ G + + + + L Sbjct: 63 GGLKLEKAMIHFGVVTDKKVCMDVGAST-GGFTDCMLQNGAVKVYSVDVGHGQLAWKLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V D+ +L + + ++ + + Sbjct: 122 DPRVVCMEKTNIRYVTPEDINDKIELVSIDVSFISLTKVLVPVKKLMAEDGQIVCLIK 179 >gi|258420636|ref|ZP_05683575.1| SSU ribosomal protein S4 [Staphylococcus aureus A9719] gi|257843240|gb|EEV67650.1| SSU ribosomal protein S4 [Staphylococcus aureus A9719] Length = 200 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ G+A +RR+ +++ + V+G ++ + +V I V Sbjct: 93 RLDAVVYSLGLARTRRQARQLVNHGHILVDGKRVDIPSYSVKPGQTISV 141 >gi|146319810|ref|YP_001199522.1| 30S ribosomal protein S4 [Streptococcus suis 05ZYH33] gi|146322003|ref|YP_001201714.1| 30S ribosomal protein S4 [Streptococcus suis 98HAH33] gi|223933695|ref|ZP_03625671.1| ribosomal protein S4 [Streptococcus suis 89/1591] gi|253752788|ref|YP_003025929.1| 30S ribosomal protein S4 [Streptococcus suis SC84] gi|253754613|ref|YP_003027754.1| 30S ribosomal protein S4 [Streptococcus suis P1/7] gi|253756546|ref|YP_003029686.1| 30S ribosomal protein S4 [Streptococcus suis BM407] gi|172045576|sp|A4W4M5|RS4_STRS2 RecName: Full=30S ribosomal protein S4 gi|172045584|sp|A4VYD3|RS4_STRSY RecName: Full=30S ribosomal protein S4 gi|145690616|gb|ABP91122.1| 30S ribosomal protein S4 [Streptococcus suis 05ZYH33] gi|145692809|gb|ABP93314.1| 30S ribosomal protein S4 [Streptococcus suis 98HAH33] gi|223897648|gb|EEF64033.1| ribosomal protein S4 [Streptococcus suis 89/1591] gi|251817077|emb|CAZ52729.1| 30S ribosomal protein S4 [Streptococcus suis SC84] gi|251819010|emb|CAZ56857.1| 30S ribosomal protein S4 [Streptococcus suis BM407] gi|251820859|emb|CAR47625.1| 30S ribosomal protein S4 [Streptococcus suis P1/7] gi|319759206|gb|ADV71148.1| 30S ribosomal protein S4 [Streptococcus suis JS14] Length = 203 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V ++ Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVEVGQVISVREKSIKVP 150 >gi|114561360|ref|YP_748873.1| 30S ribosomal protein S4 [Shewanella frigidimarina NCIMB 400] gi|122301094|sp|Q089N0|RS4_SHEFN RecName: Full=30S ribosomal protein S4 gi|114332653|gb|ABI70035.1| SSU ribosomal protein S4P [Shewanella frigidimarina NCIMB 400] Length = 206 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VNG ++ + V + D + + Sbjct: 96 VRLDNVVYRMGFGSTRAESRQLVSHKSVMVNGRVVNIPSFKVSANDVVSI 145 >gi|16803636|ref|NP_465121.1| 30S ribosomal protein S4 [Listeria monocytogenes EGD-e] gi|26399430|sp|Q8Y6T6|RS4_LISMO RecName: Full=30S ribosomal protein S4 gi|16411025|emb|CAC99674.1| ribosomal protein S4 [Listeria monocytogenes EGD-e] Length = 200 Score = 49.4 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 92 QRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISV 141 >gi|238927877|ref|ZP_04659637.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531] gi|238884210|gb|EEQ47848.1| pseudouridylate synthase [Selenomonas flueggei ATCC 43531] Length = 299 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 34/236 (14%), Positives = 65/236 (27%), Gaps = 35/236 (14%) Query: 13 PQRVSKVIARAGIA-SRREVERMIAQQRVKVNGI--------------LLERA---AVNV 54 +R+ + R A SR +R+IA V V+G + + Sbjct: 9 GERLDVFLVRQMPALSRSYAQRLIAGGNVAVDGERRKANFKLSGAEMVVCTLPPAEETEI 68 Query: 55 MSTDH---IEVDGVPLRKAERTRLWLYHKPIGLVTTH--------------SDPDGRSTV 97 + D I + + + R + H G+ T + R + Sbjct: 69 CAEDIPLDILYEDADIIVINKRRGMVVHPAAGVHTGTLVNALLHHCSDLSGINGALRPGI 128 Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 L S V+ + D+ L D R + G + + Sbjct: 129 VHRLDKDTSGVMVAAKNDMAHHYLARQIRDKEARREYRAIVYGNIVERAGVITGDIGRHP 188 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K IV + + + G +V L G+ +I+ + Sbjct: 189 TDRKKMAIVRENGRPATTHFEVLERFGDYTFVACRLETGRTHQIRVHMTSIGHPLV 244 >gi|117927542|ref|YP_872093.1| SSU ribosomal protein S4P [Acidothermus cellulolyticus 11B] gi|152060925|sp|A0LRP7|RS4_ACIC1 RecName: Full=30S ribosomal protein S4 gi|117648005|gb|ABK52107.1| SSU ribosomal protein S4P [Acidothermus cellulolyticus 11B] Length = 208 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ RAG A SR + +++ VNG ++ + V D IEV Sbjct: 99 RLDNVVYRAGFAASRDQARQLVRHGHFLVNGRRVDIPSYRVSENDVIEV 147 >gi|57504894|ref|ZP_00370869.1| ribosomal protein S4 [Campylobacter coli RM2228] gi|305432399|ref|ZP_07401561.1| 30S ribosomal protein S4 [Campylobacter coli JV20] gi|57019322|gb|EAL56024.1| ribosomal protein S4 [Campylobacter coli RM2228] gi|304444438|gb|EFM37089.1| 30S ribosomal protein S4 [Campylobacter coli JV20] Length = 208 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V + IEV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKRVDIPSFRVEAGAKIEV 147 >gi|56692649|ref|YP_164107.1| hypothetical protein ORF012L [Singapore grouper iridovirus] gi|42517361|gb|AAS18027.1| unknown [Singapore grouper iridovirus] Length = 1024 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 13/132 (9%), Positives = 32/132 (24%), Gaps = 3/132 (2%) Query: 226 GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 L + K L + + H ++ P + R Sbjct: 12 KALGIRGYSSMRKAELEDVIKQHQAGVSKQKKSPDKRPDSLRKSASPERSRDKRPASPRR 71 Query: 286 KKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK- 344 ++S +++ + P + + A + + + S Sbjct: 72 PRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPE 131 Query: 345 --RSLRRTSAKK 354 R R S ++ Sbjct: 132 RSRDKRPASPRR 143 Score = 47.9 bits (112), Expect = 0.003, Method: Composition-based stats. Identities = 15/116 (12%), Positives = 36/116 (31%), Gaps = 3/116 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNG---LSKQ 298 +++ P ++ +P S + + + + S+ Sbjct: 40 KQKKSPDKRPDSLRKSASPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRD 99 Query: 299 KKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 K+ A+P R+ + DS +R + R + + S R+ K+ Sbjct: 100 KRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKR 155 Score = 46.7 bits (109), Expect = 0.006, Method: Composition-based stats. Identities = 16/108 (14%), Positives = 30/108 (27%), Gaps = 3/108 (2%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 E ++ A + P + S K S ++ +P Sbjct: 56 ASPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSP--E 113 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK-RSLRRTSAKK 354 R+ + S +R + RR P + R R S ++ Sbjct: 114 RSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRR 161 Score = 44.8 bits (104), Expect = 0.021, Method: Composition-based stats. Identities = 13/117 (11%), Positives = 28/117 (23%), Gaps = 5/117 (4%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKK-----NSSQ 291 LR+ P + + S RD+ P D + + + Sbjct: 48 RPDSLRKSASPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRR 107 Query: 292 KNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLR 348 ++ + P R + ++ + E R +R Sbjct: 108 PRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRG 164 Score = 44.4 bits (103), Expect = 0.029, Method: Composition-based stats. Identities = 10/102 (9%), Positives = 26/102 (25%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 + P ++ +S RD P + R ++S +++ + Sbjct: 64 KRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASP 123 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPS 343 P + + A + + + S Sbjct: 124 RRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRGS 165 Score = 39.4 bits (90), Expect = 0.89, Method: Composition-based stats. Identities = 22/121 (18%), Positives = 41/121 (33%), Gaps = 5/121 (4%) Query: 236 VSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGL 295 V+ K L+ Q + A + + + + PD + S+ Sbjct: 2 VTVKELQAQAKALGIRGYSSMRKAELEDVIKQHQAGVSKQKKSPDKRPDSLRKSASPE-R 60 Query: 296 SKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFP--SKRSLRRTSAK 353 S+ K+ A+P RR S +S E + + P+ P + S R+ K Sbjct: 61 SRDKRPASP--RRPRDSPERSRDKRPASPRRPRDSPERSRDKRPASPRRPRDSPERSRDK 118 Query: 354 K 354 + Sbjct: 119 R 119 >gi|30019042|ref|NP_830673.1| collagen adhesion protein [Bacillus cereus ATCC 14579] gi|29894584|gb|AAP07874.1| Collagen adhesion protein [Bacillus cereus ATCC 14579] Length = 1324 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 18/130 (13%), Positives = 34/130 (26%), Gaps = 5/130 (3%) Query: 221 GPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPD 280 G + L + A +S K ++ + V L ++P +E PD Sbjct: 1131 GDYTLKEIQAPEGYTLSDKEMK--FTISNEKIEVVKLQITNKKDTDKDPEKPGEGTEKPD 1188 Query: 281 DFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSG---QREENHRR 337 + T + K G +K G G + Sbjct: 1189 EGTGKPGEGTGKPGEGTEKPDEGTGKPGEGTGKPGEGTGKPGEGTGKPGEGTGKPGEGTE 1248 Query: 338 SPSFPSKRSL 347 P +++ Sbjct: 1249 KPGEGTEKPG 1258 >gi|34557002|ref|NP_906817.1| putative hemolysin [Wolinella succinogenes DSM 1740] gi|34482717|emb|CAE09717.1| PUTATIVE HEMOLYSIN [Wolinella succinogenes] Length = 236 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 11/50 (22%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +A + + SR + +I + ++ V+G + ++ VM IE+ Sbjct: 1 MRLDAYLAKESLVPSREKARALILEGQILVDGKAASKPSMEVMEGVSIEL 50 >gi|283783153|ref|YP_003373907.1| ribosomal RNA large subunit methyltransferase J [Gardnerella vaginalis 409-05] gi|283441504|gb|ADB13970.1| ribosomal RNA large subunit methyltransferase J [Gardnerella vaginalis 409-05] Length = 267 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 14/63 (22%), Positives = 31/63 (49%), Gaps = 1/63 (1%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 +D + + + QR+ + G+A SR +R+I V V+ + +++ V ++ I Sbjct: 5 EDLSKLSNSNISQRLDCALVNRGLAESRTTAQRLIRAGVVSVDNRNITKSSFLVNNSHTI 64 Query: 61 EVD 63 +D Sbjct: 65 TID 67 >gi|271502222|ref|YP_003335248.1| 30S ribosomal protein S4 [Dickeya dadantii Ech586] gi|270345777|gb|ACZ78542.1| ribosomal protein S4 [Dickeya dadantii Ech586] Length = 206 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + + +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAVLVNGRVVNIASYQVSPNDVVSIREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|257791310|ref|YP_003181916.1| pseudouridine synthase, RluA family [Eggerthella lenta DSM 2243] gi|257475207|gb|ACV55527.1| pseudouridine synthase, RluA family [Eggerthella lenta DSM 2243] Length = 344 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 30/256 (11%), Positives = 70/256 (27%), Gaps = 50/256 (19%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVD 63 + + QR+ ++A G+ SR R + V VNG + ++ V D I Sbjct: 8 VAAPDDAGQRLDALLAARGLYPSRSAAARAVDDGLVFVNGAEVAKK--HPVAPGDTIVYQ 65 Query: 64 -----------GVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 G P +R + + L + + D D + V + + Sbjct: 66 VEEPVEPGPLRGQPIDLDIRFEDEDLIVLSKQVGLVCHPSVDHDDGTLVNALIYHCGAEN 125 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + + + + G++ + +L + + + + L G++ Sbjct: 126 LCNVQGEDDRLGIVHRLDRDTSGLMLAAKNDETGYALMSDIRDRAVDRRYLALVHGVIAH 185 Query: 169 G-------------ICYGDMQVTLDTQKGSNAWVTV------------------GLREGK 197 + + + V L G+ Sbjct: 186 DTGMIDAPIARAEKERTRMAVRDTPSAREAITTFRVLERFEHGARDDGYTLIDCKLFTGR 245 Query: 198 NREIKKVFEFFNWKVN 213 +I+ E+ + Sbjct: 246 THQIRVHLEYAKHPLV 261 >gi|226224634|ref|YP_002758741.1| hypothetical protein Lm4b_02049 [Listeria monocytogenes Clip81459] gi|225877096|emb|CAS05808.1| Hypothetical protein of unknown function [Listeria monocytogenes serotype 4b str. CLIP 80459] Length = 258 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 10/50 (20%), Positives = 21/50 (42%) Query: 10 NFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 + R+ +I+ SR++ ++++ VKVN +E D Sbjct: 178 TVSSMRLDVIISNVHHISRQKAKQLVTAGLVKVNWKTVENPDFECEEEDV 227 >gi|62290527|ref|YP_222320.1| ribosomal large subunit pseudouridine synthase D [Brucella abortus bv. 1 str. 9-941] gi|82700443|ref|YP_415017.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis biovar Abortus 2308] gi|148558837|ref|YP_001259509.1| ribosomal large subunit pseudouridine synthase D [Brucella ovis ATCC 25840] gi|189024749|ref|YP_001935517.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Brucella abortus S19] gi|254689825|ref|ZP_05153079.1| RluA family pseudouridine synthase [Brucella abortus bv. 6 str. 870] gi|254694317|ref|ZP_05156145.1| RluA family pseudouridine synthase [Brucella abortus bv. 3 str. Tulya] gi|254697973|ref|ZP_05159801.1| RluA family pseudouridine synthase [Brucella abortus bv. 2 str. 86/8/59] gi|254700318|ref|ZP_05162146.1| RluA family pseudouridine synthase [Brucella suis bv. 5 str. 513] gi|254703437|ref|ZP_05165265.1| RluA family pseudouridine synthase [Brucella suis bv. 3 str. 686] gi|254708478|ref|ZP_05170306.1| RluA family pseudouridine synthase [Brucella pinnipedialis M163/99/10] gi|254730859|ref|ZP_05189437.1| RluA family pseudouridine synthase [Brucella abortus bv. 4 str. 292] gi|256061695|ref|ZP_05451832.1| RluA family pseudouridine synthase [Brucella neotomae 5K33] gi|256258078|ref|ZP_05463614.1| RluA family pseudouridine synthase [Brucella abortus bv. 9 str. C68] gi|260547225|ref|ZP_05822963.1| ribosomal large subunit pseudouridine synthase [Brucella abortus NCTC 8038] gi|260568746|ref|ZP_05839214.1| ribosomal large subunit pseudouridine synthase [Brucella suis bv. 4 str. 40] gi|260755356|ref|ZP_05867704.1| pseudouridine synthase [Brucella abortus bv. 6 str. 870] gi|260758578|ref|ZP_05870926.1| pseudouridine synthase [Brucella abortus bv. 4 str. 292] gi|260762410|ref|ZP_05874747.1| pseudouridine synthase [Brucella abortus bv. 2 str. 86/8/59] gi|260884372|ref|ZP_05895986.1| pseudouridine synthase [Brucella abortus bv. 9 str. C68] gi|261214623|ref|ZP_05928904.1| pseudouridine synthase [Brucella abortus bv. 3 str. Tulya] gi|261315976|ref|ZP_05955173.1| pseudouridine synthase [Brucella pinnipedialis M163/99/10] gi|261325700|ref|ZP_05964897.1| pseudouridine synthase [Brucella neotomae 5K33] gi|261750812|ref|ZP_05994521.1| pseudouridine synthase [Brucella suis bv. 5 str. 513] gi|261754066|ref|ZP_05997775.1| pseudouridine synthase [Brucella suis bv. 3 str. 686] gi|62196659|gb|AAX74959.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Brucella abortus bv. 1 str. 9-941] gi|82616544|emb|CAJ11622.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine synthase:Pseudouridine synthase, Rlu:Pseudouridine synthase [Brucella melitensis biovar Abortus 2308] gi|148370094|gb|ABQ60073.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Brucella ovis ATCC 25840] gi|189020321|gb|ACD73043.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Brucella abortus S19] gi|260095590|gb|EEW79468.1| ribosomal large subunit pseudouridine synthase [Brucella abortus NCTC 8038] gi|260154130|gb|EEW89212.1| ribosomal large subunit pseudouridine synthase [Brucella suis bv. 4 str. 40] gi|260668896|gb|EEX55836.1| pseudouridine synthase [Brucella abortus bv. 4 str. 292] gi|260672836|gb|EEX59657.1| pseudouridine synthase [Brucella abortus bv. 2 str. 86/8/59] gi|260675464|gb|EEX62285.1| pseudouridine synthase [Brucella abortus bv. 6 str. 870] gi|260873900|gb|EEX80969.1| pseudouridine synthase [Brucella abortus bv. 9 str. C68] gi|260916230|gb|EEX83091.1| pseudouridine synthase [Brucella abortus bv. 3 str. Tulya] gi|261301680|gb|EEY05177.1| pseudouridine synthase [Brucella neotomae 5K33] gi|261305002|gb|EEY08499.1| pseudouridine synthase [Brucella pinnipedialis M163/99/10] gi|261740565|gb|EEY28491.1| pseudouridine synthase [Brucella suis bv. 5 str. 513] gi|261743819|gb|EEY31745.1| pseudouridine synthase [Brucella suis bv. 3 str. 686] Length = 334 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 31/260 (11%), Positives = 71/260 (27%), Gaps = 52/260 (20%) Query: 6 IVQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 I + +R+ + +A A SR V+ +IA V ++G + +I + Sbjct: 5 IADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIAIV 64 Query: 63 ---------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 G + + + + +V + + V + Sbjct: 65 LPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCGDSLS 124 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELP-----------------STQWLR 143 R V RLD +T G++++ + R L Sbjct: 125 GIGGIRRPGIVHRLDKDTSGVMVVAKNDRAHRHLSEQFADHGRTGDLERAYLALVWGMTE 184 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSN---------AWVTVGL 193 + + + + K+ +V + T + + + V L Sbjct: 185 RPQGTVDAYLGRSHRDRTKQAVVHEEREDARHAITHYATVEKFSPREDATALASLVECRL 244 Query: 194 REGKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 245 ETGRTHQIRVHMAHIGHPLV 264 >gi|332530055|ref|ZP_08406005.1| 30S ribosomal protein S4 [Hylemonella gracilis ATCC 19624] gi|332040528|gb|EGI76904.1| 30S ribosomal protein S4 [Hylemonella gracilis ATCC 19624] Length = 207 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V + D I V Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGQAVNIPSYMVQAGDVIAV 146 >gi|331006743|ref|ZP_08330012.1| hypothetical protein IMCC1989_694 [gamma proteobacterium IMCC1989] gi|330419432|gb|EGG93829.1| hypothetical protein IMCC1989_694 [gamma proteobacterium IMCC1989] Length = 74 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 1/69 (1%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 +K +V+ N P + K++ G+AS E + +I Q V++NG + VMS D I Sbjct: 4 NKTVVEINQEPVELYKILKFEGLASSGAEAKMVIDQGHVQLNGKTETQKRKKVMSGDTIT 63 Query: 62 VDGVPLRKA 70 +G L Sbjct: 64 FNGDTLHIQ 72 >gi|327479347|gb|AEA82657.1| 30S ribosomal protein S4 [Pseudomonas stutzeri DSM 4166] Length = 167 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V + D + V Sbjct: 58 RLDNVVYRMGFGSTRAESRQLVSHKSITVNGQTVNIPSYQVKAGDVVAV 106 >gi|323339475|ref|ZP_08079754.1| 30S ribosomal protein S4 [Lactobacillus ruminis ATCC 25644] gi|323093089|gb|EFZ35682.1| 30S ribosomal protein S4 [Lactobacillus ruminis ATCC 25644] Length = 202 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ +++ + V+G ++ + V I + Sbjct: 94 RLDNVVYRLGLATTRRQARQLVNHGHITVDGKRVDIPSYEVKPGQVISL 142 >gi|260905245|ref|ZP_05913567.1| hypothetical protein BlinB_07935 [Brevibacterium linens BL2] Length = 267 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + IA+R R IA RV VNG + + + V +D + V Sbjct: 3 RLDRELVERELIATRSRAAREIAAGRVSVNGHTVSKPSQVVSDSDELSV 51 >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 = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 33/131 (25%), Positives = 60/131 (45%) Query: 98 FDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK 157 I +I V LD + EG++LLTNDG A L+ + L Y ++ ++ +K Sbjct: 3 NKIENYIPEHLIIVNSLDSDMEGIILLTNDGDFANKLKDINNNILTTYLIKTQEELTNEK 62 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + LL+KG I I +++ + W+ + E + +F +N + + R Sbjct: 63 VELLRKGCTIDDIHIRPLELKIIKPNLLYKWLKLTYVEKSQTHLNLLFSKYNMTIRKCKR 122 Query: 218 ISYGPFQLGTL 228 S+GP++ L Sbjct: 123 YSFGPYKSSDL 133 >gi|294794409|ref|ZP_06759545.1| ribosomal large subunit pseudouridine synthase, RluA family [Veillonella sp. 3_1_44] gi|294454739|gb|EFG23112.1| ribosomal large subunit pseudouridine synthase, RluA family [Veillonella sp. 3_1_44] Length = 301 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 34/227 (14%), Positives = 67/227 (29%), Gaps = 31/227 (13%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------GVPLRK 69 SK + S R+++ M ++RVKVN + + D + ++ GV + K Sbjct: 29 SKYVKERFSLSSRDIQMMFRKKRVKVNSRVAHS-QRALKKGDVLTLELPQDKDYGVDVEK 87 Query: 70 AERTRLWL--------------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 T L+ H + R + + Sbjct: 88 GPITVLYEDAHTLVVNKAPFMLVHPAGQTKSCTLSNYIAGYYAKKGVVHKVRPVHRLDRE 147 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------LKKGIVIQ 168 + L T + EL + + R+Y G +D D + + + Sbjct: 148 TSGCILFGKTKEAQQYYTDELQAGRIDRIYTGLVEGHIDADGMVDEPIGVDPVFDNRRVI 207 Query: 169 GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + T+ +G N + L G+ +I+ E + Sbjct: 208 DEFGQPAQTEYTVLGYEGDNTLLRFKLLTGRTHQIRVHMEHIGHPII 254 >gi|288573309|ref|ZP_06391666.1| pseudouridine synthase, RluA family [Dethiosulfovibrio peptidovorans DSM 11002] gi|288569050|gb|EFC90607.1| pseudouridine synthase, RluA family [Dethiosulfovibrio peptidovorans DSM 11002] Length = 305 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 40/258 (15%), Positives = 73/258 (28%), Gaps = 43/258 (16%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRRE--------VERMIAQQRVKVNGILLERAAVNV 54 D+ +V + +R+ KVI R++ + + +++V+++G + Sbjct: 2 DRFVVSRHDDGRRLDKVI-------RKKWPSLPLGAMMKAFRKKQVRIDGARA-SFDQRL 53 Query: 55 MSTDHIEV--------------DGVPLRKAERTRLWLY-HKPIGLVTTHSDPDGRSTVFD 99 + I V G + LW+ L Sbjct: 54 VEGQEILVPWESAPTDVGAKRTGGHLVTVYRDESLWVVSKPAGLLSQPDKKGGDSVVTRA 113 Query: 100 NLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLN 159 LP + +V RLD NT G+++L G R L D + Sbjct: 114 FLPGSSFQPQAVNRLDRNTSGIMVLALTGESLRDLSSRWRDGEMEKVYLALVVGDLPEEG 173 Query: 160 LLKKGIVIQGICYGD----------MQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + G G + V L G++ +I+ Sbjct: 174 SIDAPLSKDGSSNKVFVDSKGQSSLTLYRRLASGGGLSLCLVTLITGRSHQIRVHMSHIG 233 Query: 210 WKVNRLIRISYGPFQLGT 227 V L + YG L Sbjct: 234 HPV--LGDVKYGDRALNG 249 >gi|225868958|ref|YP_002744906.1| hypothetical protein SZO_13920 [Streptococcus equi subsp. zooepidemicus] gi|225702234|emb|CAW99980.1| conserved hypothetical protein [Streptococcus equi subsp. zooepidemicus] Length = 264 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 17/50 (34%), Positives = 27/50 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 RV ++IA SR + R++ +VKVN L+ +A+ V D I + G Sbjct: 187 RVDRLIATVLKQSRNQAIRLVEAGKVKVNYQLVTKASQPVAIGDLISIRG 236 >gi|254449317|ref|ZP_05062762.1| ribosomal protein S4 [gamma proteobacterium HTCC5015] gi|198261076|gb|EDY85376.1| ribosomal protein S4 [gamma proteobacterium HTCC5015] Length = 173 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG ++ A+ V + D ++V Sbjct: 64 RLDNVVYRMGYGSTRAEARQLVSHKAILVNGAVVNVASYQVKAGDEVKV 112 >gi|156740304|ref|YP_001430433.1| RluA family pseudouridine synthase [Roseiflexus castenholzii DSM 13941] gi|156231632|gb|ABU56415.1| pseudouridine synthase, RluA family [Roseiflexus castenholzii DSM 13941] Length = 315 Score = 49.4 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 67/243 (27%), Gaps = 37/243 (15%) Query: 6 IVQENFTPQRVSKVIA-RAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 IV+ R+ + IA + SR +I RV +N + A V D + V Sbjct: 10 IVEAADEGHRLDRYIAGKVPDLSRTYARHLIEDARVLLNNRQVR-PASPVRVGDVVTVQL 68 Query: 63 -DGVP-----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 + P + + + + +V + + V + IS Sbjct: 69 PEPQPVGLVAEALPLQIVYEDDDVVVIDKPAGIVVHPAPGHNRGTLVNALIARYPEMAIS 128 Query: 111 VG--------------------RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFH 150 R D L + ++ + + Sbjct: 129 GDLRPGIVHRLDRDTSGLLVAARNDRALHSLQAQQQARRMLKIYLVVVEGRMNESGGVID 188 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 + + + ++ ++ G + + G A + L G+ +I+ F N Sbjct: 189 APIARHPTDRVRMAVMAGGRPART-HWRVLEELGEYALIEARLETGRTHQIRVHFASRNR 247 Query: 211 KVN 213 V Sbjct: 248 PVL 250 >gi|306832984|ref|ZP_07466116.1| S4 domain-containing protein YlmH [Streptococcus bovis ATCC 700338] gi|304424883|gb|EFM28017.1| S4 domain-containing protein YlmH [Streptococcus bovis ATCC 700338] Length = 263 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 18/63 (28%), Positives = 32/63 (50%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 KD + + R+ KV+A SR + ++I +VK+N +++RA+ + D I Sbjct: 173 KDSRQLDIIVSSMRMDKVLATVLKLSRSQAVQLIETDKVKLNYQIVDRASEMLQVGDLIS 232 Query: 62 VDG 64 V G Sbjct: 233 VRG 235 >gi|282901320|ref|ZP_06309246.1| Hemolysin A [Cylindrospermopsis raciborskii CS-505] gi|281193815|gb|EFA68786.1| Hemolysin A [Cylindrospermopsis raciborskii CS-505] Length = 279 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 10/41 (24%), Positives = 23/41 (56%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 SR++ +R+I V VN ++++ + ++ I++ PL Sbjct: 25 SRQQAQRLIQAGEVMVNQQIIDKPGTEIDTSAEIQIKERPL 65 >gi|296123932|ref|YP_003631710.1| pseudouridine synthase, RluA family [Planctomyces limnophilus DSM 3776] gi|296016272|gb|ADG69511.1| pseudouridine synthase, RluA family [Planctomyces limnophilus DSM 3776] Length = 345 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 44/318 (13%), Positives = 90/318 (28%), Gaps = 41/318 (12%) Query: 15 RVSKVIARA-GIASRREVERMIAQQRVKVNGILLE-----------------RAAVNVMS 56 R+ ++R SR +R I + +V VNG+ ++ V Sbjct: 27 RIDHYLSRLYPNFSRVAFQRTIEEGKVLVNGLPVKISRRLRVNDVIEFSLPAEPDQRVQP 86 Query: 57 TDH---IEVDGVPLRKAERTRLWLYHK-PIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 D I D L +T + H T + + + R V Sbjct: 87 EDIPLDILYDDEYLCVINKTANMIVHPGRGNYRGTLAGALQFHFDSLSDVAGQYRAGIVH 146 Query: 113 RLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK--------------- 157 RLD +T G+L++ D + + L + + Sbjct: 147 RLDRDTSGVLVVAKDNTVHQHLSRQFEERSVEKEYHAIVWGEMQFDADYVETYVRVSFRN 206 Query: 158 LNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIR 217 + + + +V + + G+ +++ + R Sbjct: 207 RERMMVCPPGDNARQAATFYEVQQRFRGFTYVKLQPQTGRTHQLRVHMHHLGHPIIA-DR 265 Query: 218 ISYGP--FQLGTLLAGSTREVSKKIL-REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNI 274 + G +L +L + E + ++ R+ L L + L D Sbjct: 266 LYEGKTCVKLSDILPETPEEADETLIDRQALHARRLAFNHPVTKKRMVFEAPLPADFQKT 325 Query: 275 ISEVPDDFTRMKKNSSQK 292 + + + KK+ S K Sbjct: 326 LDTLKTHAIKPKKSPSSK 343 >gi|94985941|ref|YP_605305.1| 30S ribosomal protein S4 [Deinococcus geothermalis DSM 11300] gi|152060945|sp|Q1IX98|RS4_DEIGD RecName: Full=30S ribosomal protein S4 gi|94556222|gb|ABF46136.1| ribosomal protein S4 [Deinococcus geothermalis DSM 11300] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS RR+ + + + VNG ++ + V D I V Sbjct: 97 RLDNVVFRMGFASTRRQARQFVGHGHILVNGKRVDIPSYRVRIGDEISV 145 >gi|257066413|ref|YP_003152669.1| RNA-binding S4 domain-containing protein [Anaerococcus prevotii DSM 20548] gi|256798293|gb|ACV28948.1| RNA-binding S4 domain protein [Anaerococcus prevotii DSM 20548] Length = 255 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 9/48 (18%), Positives = 22/48 (45%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ SR + + +I + VKV+ + + NV + + Sbjct: 180 RLDNIVSSLVNTSRSKAKDLINNRLVKVDHQTITDPSYNVDEGAILSI 227 >gi|228472245|ref|ZP_04057011.1| ribosomal protein S4 [Capnocytophaga gingivalis ATCC 33624] gi|228276448|gb|EEK15172.1| ribosomal protein S4 [Capnocytophaga gingivalis ATCC 33624] Length = 201 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R GIA SRR ++++ + + VNG ++ + ++ D + V Sbjct: 94 RLDNVVYRMGIAPSRRAARQLVSHRHITVNGEVVNIPSYSLKPGDIVGV 142 >gi|154685957|ref|YP_001421118.1| YlmH [Bacillus amyloliquefaciens FZB42] gi|154351808|gb|ABS73887.1| YlmH [Bacillus amyloliquefaciens FZB42] Length = 256 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 27/62 (43%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D I + + R+ V A SR++ + ++ VKVN +E + V D + + Sbjct: 169 DVEIRDDTVSSLRLDAVCASMSRQSRQKAQALVKNGLVKVNWKAIEDPSYQVAEGDMLSI 228 Query: 63 DG 64 G Sbjct: 229 RG 230 >gi|260886902|ref|ZP_05898165.1| ribosomal protein S4 [Selenomonas sputigena ATCC 35185] gi|330839300|ref|YP_004413880.1| ribosomal protein S4 [Selenomonas sputigena ATCC 35185] gi|260863501|gb|EEX78001.1| ribosomal protein S4 [Selenomonas sputigena ATCC 35185] gi|329747064|gb|AEC00421.1| ribosomal protein S4 [Selenomonas sputigena ATCC 35185] Length = 197 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 1/68 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G+A +RR+ +++ ++VNG L+ + V + D I +D A Sbjct: 88 RIDNVVYRLGLAQTRRQARQLVTHGHIRVNGKRLDIPSALVRAEDEITIDEKSRSNAFFK 147 Query: 74 RLWLYHKP 81 L +KP Sbjct: 148 ALAENYKP 155 >gi|227513366|ref|ZP_03943415.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577] gi|227524509|ref|ZP_03954558.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290] gi|227083239|gb|EEI18551.1| pseudouridylate synthase [Lactobacillus buchneri ATCC 11577] gi|227088319|gb|EEI23631.1| pseudouridylate synthase [Lactobacillus hilgardii ATCC 8290] Length = 303 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 32/247 (12%), Positives = 74/247 (29%), Gaps = 37/247 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M K + + R+ K++++ SR ++MI V VN ++ +D Sbjct: 1 MPKKFKITD--ELGRLDKIVSKLDPEISRSRAKKMIEDGDVIVNDSK-KKPKYETKVSDT 57 Query: 60 IEVDGVP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 I + V + + + + +V + + V L Sbjct: 58 ILIKDVKPETVSIKPENMPLDIVYEDEDVIVVNKPQGMVVHPSAGHPNHTLVNALLFHSP 117 Query: 106 -------SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKL 158 R V R+D +T GLL++ + + L + + + Sbjct: 118 LSSINGEYRPGIVHRIDKDTSGLLMVAKNDMAHKALSKQLKAKKNLRKYVALVHGRIKED 177 Query: 159 NLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTV------------GLREGKNREIKKVFE 206 + + K + + Q + + + V L G+ +I+ + Sbjct: 178 SGVIKAPIGRSPKDRKKQAIVADGRPAITHFEVMERFEDYTLIDCRLETGRTHQIRVHMQ 237 Query: 207 FFNWKVN 213 + + Sbjct: 238 YIGHPIV 244 >gi|218289979|ref|ZP_03494156.1| ribosomal protein S4 [Alicyclobacillus acidocaldarius LAA1] gi|218239964|gb|EED07151.1| ribosomal protein S4 [Alicyclobacillus acidocaldarius LAA1] Length = 208 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SR E +++ ++VNG ++ + V D + V Sbjct: 99 RLDNVVYRLGFAASRAEARQLVRHGHIQVNGRRVDIPSFLVKEGDVVSV 147 >gi|158319571|ref|YP_001512078.1| ribosomal protein S4 [Alkaliphilus oremlandii OhILAs] gi|172048249|sp|A8MLG8|RS4A_ALKOO RecName: Full=30S ribosomal protein S4 A gi|158139770|gb|ABW18082.1| ribosomal protein S4 [Alkaliphilus oremlandii OhILAs] Length = 207 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 1/67 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V R G S R E +++ VNG ++ + V + D I V A+ Sbjct: 99 RLDNVAYRLGFGSSRAEARQLVVHGHFTVNGKKVDIPSYLVSAGDTIAVAEKSKSSAKFK 158 Query: 74 RLWLYHK 80 L K Sbjct: 159 ALAENAK 165 >gi|315107243|gb|EFT79219.1| S4 domain protein [Propionibacterium acnes HL030PA1] gi|327331109|gb|EGE72849.1| S4 domain protein [Propionibacterium acnes HL097PA1] Length = 71 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 9/54 (16%) Query: 14 QRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ + + A G + +IA V VNG + R + D + V Sbjct: 2 IRLGQYLKFANLAETGG----QARELIASGMVSVNGKVETRRGRQLHPGDEVTV 51 >gi|224437308|ref|ZP_03658280.1| 30S ribosomal protein S4 [Helicobacter cinaedi CCUG 18818] gi|313143763|ref|ZP_07805956.1| 30S ribosomal protein S4 [Helicobacter cinaedi CCUG 18818] gi|313128794|gb|EFR46411.1| 30S ribosomal protein S4 [Helicobacter cinaedi CCUG 18818] Length = 208 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V IEV Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKHVDIPSYMVKPGQKIEV 147 >gi|149192393|ref|ZP_01870594.1| 30S ribosomal protein S4 [Vibrio shilonii AK1] gi|148833784|gb|EDL50820.1| 30S ribosomal protein S4 [Vibrio shilonii AK1] Length = 172 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVSI 145 >gi|258512643|ref|YP_003186077.1| 30S ribosomal protein S4 [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|257479369|gb|ACV59688.1| ribosomal protein S4 [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 208 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SR E +++ ++VNG ++ + V D + V Sbjct: 99 RLDNVVYRLGFAASRAEARQLVRHGHIQVNGRRVDIPSFLVKEGDVVSV 147 >gi|218289628|ref|ZP_03493848.1| hemolysin A [Alicyclobacillus acidocaldarius LAA1] gi|218240278|gb|EED07461.1| hemolysin A [Alicyclobacillus acidocaldarius LAA1] Length = 279 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIASRREV-ERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ ++ G+ S RE R I V+V+G+ ++ V I+V+ Sbjct: 5 RLDLLLVARGLYSSREAARRAIMAGLVRVDGVRADKPGFKVAEDVEIDVE 54 >gi|154492071|ref|ZP_02031697.1| hypothetical protein PARMER_01702 [Parabacteroides merdae ATCC 43184] gi|154087857|gb|EDN86902.1| hypothetical protein PARMER_01702 [Parabacteroides merdae ATCC 43184] Length = 359 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 28/260 (10%), Positives = 64/260 (24%), Gaps = 42/260 (16%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV----------- 62 RV K + +R ++ + NG ++ V D + + Sbjct: 45 RVDKFLVDRMFGATRNRIQSAADAGCIMANGKPVKS-NYRVKPEDVVTIMMTRPPRTFEI 103 Query: 63 --DGVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV------- 111 + +P++ + L + +V + V + Sbjct: 104 LPENIPIKIVYEDDDLLVVDKPAGLVVHPGHGNYTGTLVNALAWYLKDDPTYDPNDPALG 163 Query: 112 --GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQ---------------VD 154 R+D +T GLL++ L + R + Sbjct: 164 LVHRIDKDTSGLLVVAKKPEAKAHLSMQFFHKTTKREYRALVWGIVREDEGRIEGNIGRN 223 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNR 214 + ++ + G V L G+ +I+ ++ + Sbjct: 224 PRDRMQMTVFPEGDQGKTAVTHYSVLERLGYVTLVKCRLETGRTHQIRVHMKYIGHTLFN 283 Query: 215 LIRISYGPFQLGTLLAGSTR 234 R G L + + Sbjct: 284 DERYG-GNEILKGTTSSKYK 302 >gi|32477768|ref|NP_870762.1| ribosomal large subunit pseudouridine synthase [Rhodopirellula baltica SH 1] gi|32448322|emb|CAD77839.1| ribosomal large subunit pseudouridine synthase [Rhodopirellula baltica SH 1] Length = 334 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 39/318 (12%), Positives = 92/318 (28%), Gaps = 45/318 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIARA--GIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M + +V E+ R+ + ++ G SR ++ + +V+G ++ + V + Sbjct: 1 MMREFVVPESANGFRIDLFLTQSCDGY-SRSQIRDAVQNDGAEVDGRIIR-PSYKVKAGQ 58 Query: 59 HIEV----------------------DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRST 96 + D + + + ++ T + Sbjct: 59 KVRFRVPPPASDDTVPENIPLDILYEDDGLVVINKPAGMVVHPARGNWTGTLTSALAFRF 118 Query: 97 VFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA------RVLELPSTQWLRVYRVRFH 150 + +R V RLD +T G++++ + + L ++ + R Sbjct: 119 QSLSDVGGPTRPGIVHRLDRDTSGVIVVAKNNAVHLNLAAQWHDRLVQKEYTAITFGRLD 178 Query: 151 GQVDQ------DKLNLLKKGIVIQG---ICYGDMQVTLDTQKGSNAWVTVGLREGKNREI 201 D K + +G + + G V V + G+ +I Sbjct: 179 RDRDWIHASIGRHPYQRDKQAIREGHATSKTASTFYEVVERHGRVTRVDVRPKTGRTHQI 238 Query: 202 KKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPI 261 + + R+ YG L R ++ + E ++ L Sbjct: 239 RVHLAHIGCPIL-CDRL-YGGHS--ELSRSQIRRLAGTEVATPGVKPTPEGEEILLSRQA 294 Query: 262 YSSETLVRDRPNIISEVP 279 ++ L P E+ Sbjct: 295 LHAKALTFTNPQTGKEMT 312 >gi|325067131|ref|ZP_08125804.1| pseudouridine synthase, RluA family protein [Actinomyces oris K20] Length = 306 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 30/242 (12%), Positives = 58/242 (23%), Gaps = 36/242 (14%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 V + F +RV +AR SR VE + V+ G L + + + + + +EVD Sbjct: 8 VPDGFDGERVDAALARMTGLSRSRVEDLCEAGEVRRGGETLAK-SSRLRAGELLEVDLPD 66 Query: 64 ------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 G+ L + + + DG + S Sbjct: 67 PRPVEPVATPVEGMELLYEDEDIVVVDKPAGVAAHPSMGWDGPDVLGALKAMHVRVATSG 126 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD--------------- 156 L + G + + L+ Sbjct: 127 AAERQGIVSRLDVGTSGVMIVAKGERAYSVLKRAFREHTVDKVYHALVQGHLDPSSGTID 186 Query: 157 -----KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + K +I+G + + L G+ +I+ Sbjct: 187 APIGRHPSREWKMAIIEGGRESITHYDVIEAMPGACLAEIHLETGRTHQIRVHMAAVGHP 246 Query: 212 VN 213 Sbjct: 247 CV 248 >gi|205374494|ref|ZP_03227290.1| 30S ribosomal protein S4 [Bacillus coahuilensis m4-4] Length = 200 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +++ V VNG ++ + V I V Sbjct: 93 RLDNVVYRLGLARTRRQARQLVNHGHVLVNGSRVDIPSFRVQPGQVIGV 141 >gi|157363469|ref|YP_001470236.1| 30S ribosomal protein S4 [Thermotoga lettingae TMO] gi|172045985|sp|A8F4T8|RS4_THELT RecName: Full=30S ribosomal protein S4 gi|157314073|gb|ABV33172.1| RNA-binding S4 domain protein [Thermotoga lettingae TMO] Length = 209 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 RV ++ R G A SRR+ +++ VNG+ ++ + + D +EV Sbjct: 99 RVDNIVYRLGFAISRRQARQLVTHGHFSVNGVKIDIPSYKLRPGDIVEV 147 >gi|326789142|ref|YP_004306963.1| RNA-binding S4 domain protein [Clostridium lentocellum DSM 5427] gi|326539906|gb|ADZ81765.1| RNA-binding S4 domain protein [Clostridium lentocellum DSM 5427] Length = 68 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 6/72 (8%) Query: 1 MKDKNIVQENFTPQRVSKV--IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 MK+ I E ++ K + + G E + +IA + V VNG + + + D Sbjct: 1 MKEIKIDTEFIKLDQLMKYASMVQTGG----EAKMLIAGELVLVNGEICTQRGKKIRPGD 56 Query: 59 HIEVDGVPLRKA 70 + DG + Sbjct: 57 EVLFDGETYKVK 68 >gi|293977792|ref|YP_003543222.1| pseudouridine synthase, RluA family [Candidatus Sulcia muelleri DMIN] gi|292667723|gb|ADE35358.1| pseudouridine synthase, RluA family [Candidatus Sulcia muelleri DMIN] Length = 314 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 22/244 (9%), Positives = 67/244 (27%), Gaps = 41/244 (16%) Query: 8 QENFTPQRVS---KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-- 62 ++ R+ K I +R ++++I + V VN IL+++ V D IE+ Sbjct: 8 KKKENLIRIDTYIKFILHKK--NRNFIQKIIEKGFVYVNNILIKK-NYIVKINDVIEIFL 64 Query: 63 -DGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 +G + + + + + +V + + + + Sbjct: 65 PEGKKNIIPENLKINIFYEDEYVIIINKQSGLVVHPGKGNESMTLINGLHFYFLKKKNIY 124 Query: 112 GRLD---INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 ++ + + + ++ + ++ KG +I Sbjct: 125 NKIPILVHRIDKGTSGLILVAKDKNILEKISKQFYINHIKRKYITLVWGYIKNNKGTIIC 184 Query: 169 G-------------------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + L G+ +I+ ++ Sbjct: 185 NIGRSLKNRIYMNVFPNGIYGKFSITHYKVLERFKYVTLLKCTLETGRTHQIRVHLKYIG 244 Query: 210 WKVN 213 + Sbjct: 245 HPIL 248 >gi|293192941|ref|ZP_06609785.1| cytotoxin/hemolysin [Actinomyces odontolyticus F0309] gi|292819997|gb|EFF78996.1| cytotoxin/hemolysin [Actinomyces odontolyticus F0309] Length = 275 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + R G+A SR +MI RVK++G ++ + A + I V+ Sbjct: 5 RIDSELVRRGLAKSRAAAAQMIEDGRVKLDGQIVLKPARQMDPAQAIVVE 54 >gi|209693947|ref|YP_002261875.1| 30S ribosomal protein S4 [Aliivibrio salmonicida LFI1238] gi|226697795|sp|B6EPU8|RS4_ALISL RecName: Full=30S ribosomal protein S4 gi|208007898|emb|CAQ78028.1| 30S ribosomal protein S4 [Aliivibrio salmonicida LFI1238] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGSTRAESRQLVSHKSILVNGKVVNVPSFKVSANDVVSI 145 >gi|153952888|ref|YP_001393653.1| 30S ribosomal protein S4 [Clostridium kluyveri DSM 555] gi|219853553|ref|YP_002470675.1| hypothetical protein CKR_0210 [Clostridium kluyveri NBRC 12016] gi|146345769|gb|EDK32305.1| RpsD1 [Clostridium kluyveri DSM 555] gi|219567277|dbj|BAH05261.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 2/52 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DG 64 R+ V+ + G SR E +++ KVNG + + V D I V DG Sbjct: 99 RLDNVVYKLGYGQSRTEARQLVTHGHFKVNGRKVNIPSFKVSVNDTISVKDG 150 >gi|163942386|ref|YP_001647270.1| 30S ribosomal protein S4 [Bacillus weihenstephanensis KBAB4] gi|229013860|ref|ZP_04170988.1| 30S ribosomal protein S4 [Bacillus mycoides DSM 2048] gi|229062341|ref|ZP_04199659.1| 30S ribosomal protein S4 [Bacillus cereus AH603] gi|229135493|ref|ZP_04264279.1| 30S ribosomal protein S4 [Bacillus cereus BDRD-ST196] gi|229169382|ref|ZP_04297092.1| 30S ribosomal protein S4 [Bacillus cereus AH621] gi|226697804|sp|A9VKG5|RS4_BACWK RecName: Full=30S ribosomal protein S4 gi|163864583|gb|ABY45642.1| ribosomal protein S4 [Bacillus weihenstephanensis KBAB4] gi|228614145|gb|EEK71260.1| 30S ribosomal protein S4 [Bacillus cereus AH621] gi|228647958|gb|EEL04007.1| 30S ribosomal protein S4 [Bacillus cereus BDRD-ST196] gi|228716946|gb|EEL68630.1| 30S ribosomal protein S4 [Bacillus cereus AH603] gi|228747529|gb|EEL97404.1| 30S ribosomal protein S4 [Bacillus mycoides DSM 2048] Length = 200 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 93 RLDNLVYRMGLARTRRAARQLVNHGHITVDGARVDIPSYRVKPNQTISV 141 >gi|291562667|emb|CBL41483.1| hemolysin TlyA family protein [butyrate-producing bacterium SS3/4] Length = 269 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 23/178 (12%), Positives = 56/178 (31%), Gaps = 2/178 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ ++ + +A SR + + +I V V+G ++A T ++EV G L+ R Sbjct: 3 ERLDVLLVKRNLAESREKAKAVIMSGIVYVDGQKEDKAGSMFDETANVEVRGTTLKYVSR 62 Query: 73 TRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 L L T ++ G + + + + L Sbjct: 63 GGLKLEKAMTHFGVTLEGKICMDVGAST-GGFTDCMLQNGAVKVYSVDVGHGQLAWKLRN 121 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V D+ + + + G ++ ++ + Sbjct: 122 DERVVCMEKTNIRYVTPEEIPDRIQFVSIDVSFISLTKVLGPVKALMEPDGEVVCLIK 179 >gi|294669849|ref|ZP_06734908.1| hypothetical protein NEIELOOT_01742 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308242|gb|EFE49485.1| hypothetical protein NEIELOOT_01742 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 102 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/52 (21%), Positives = 22/52 (42%), Gaps = 1/52 (1%) Query: 23 AGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 G S R E +++A + + VNG ++ + V D + V ++ Sbjct: 1 MGFGSTRAEARQLVAHKAIVVNGHVVNIPSFQVQPGDVVAVREKAKKQVRIQ 52 >gi|255321407|ref|ZP_05362567.1| ribosomal RNA large subunit methyltransferase J [Campylobacter showae RM3277] gi|255301560|gb|EET80817.1| ribosomal RNA large subunit methyltransferase J [Campylobacter showae RM3277] Length = 380 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 2/51 (3%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R A SR + +I ++ +NG + + + V D DG Sbjct: 1 MRFDLFTASRLNISRNKAAELIKSGKILLNGKICSKPSFEVGEFDK--FDG 49 >gi|330444047|ref|YP_004377033.1| RluA family pseudouridine synthase [Chlamydophila pecorum E58] gi|328807157|gb|AEB41330.1| pseudouridine synthase, RluA family [Chlamydophila pecorum E58] Length = 328 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/100 (13%), Positives = 27/100 (27%), Gaps = 1/100 (1%) Query: 9 ENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 T R+ K +A SR ++ I V +NG + + + + D + + Sbjct: 18 TEPTLMRLDKYLAMMYPEYSRAFYQKHIVNHNVFINGEVQTKVSSRLSEGDVVTIHIQEK 77 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 + + + PS Sbjct: 78 EELSELLPEEIPLHKVYEDSMIIVVNKPRDMVVHPSPGHH 117 >gi|302389863|ref|YP_003825684.1| hemolysin A [Thermosediminibacter oceani DSM 16646] gi|302200491|gb|ADL08061.1| hemolysin A [Thermosediminibacter oceani DSM 16646] Length = 264 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ + G+ S RE + I V VN +++ V I V L Sbjct: 2 QKERLDVLLVQRGLFSSRERAKSEIMMGNVFVNNKKIDKPGTMVDINSDIIVKERSLPY 60 >gi|322435971|ref|YP_004218183.1| hemolysin A [Acidobacterium sp. MP5ACTX9] gi|321163698|gb|ADW69403.1| hemolysin A [Acidobacterium sp. MP5ACTX9] Length = 259 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 1/49 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 R+ K+I G A SR + +I RV V +++ V + Sbjct: 3 IRLDKLIVDRGHAASRERAQALILAGRVLVQDQRIDKPGTPVDDASILR 51 >gi|237806899|ref|YP_002891339.1| 30S ribosomal protein S4 [Tolumonas auensis DSM 9187] gi|259495302|sp|C4L7V4|RS4_TOLAT RecName: Full=30S ribosomal protein S4 gi|237499160|gb|ACQ91753.1| ribosomal protein S4 [Tolumonas auensis DSM 9187] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A+ R E ++++ + + VNG ++ + V D + V Sbjct: 97 RLDNVVYRMGFATTRAEARQLVSHKAIVVNGKVVNIPSSQVSPEDVVTV 145 >gi|168187786|ref|ZP_02622421.1| ribosomal protein S4 [Clostridium botulinum C str. Eklund] gi|169294366|gb|EDS76499.1| ribosomal protein S4 [Clostridium botulinum C str. Eklund] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ + G S R E +++ VNG ++ + V + D I V Sbjct: 98 MRLDNVVYKLGFGSSRAEARQLVTHGHFLVNGKKVDIISYQVSAGDVISV 147 >gi|146281194|ref|YP_001171347.1| 30S ribosomal protein S4 [Pseudomonas stutzeri A1501] gi|172045574|sp|A4VHQ4|RS4_PSEU5 RecName: Full=30S ribosomal protein S4 gi|145569399|gb|ABP78505.1| ribosomal protein S4 [Pseudomonas stutzeri A1501] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + + V + D + V Sbjct: 97 RLDNVVYRMGFGSTRAESRQLVSHKSITVNGQTVNIPSYQVKAGDVVAV 145 >gi|118444508|ref|YP_877226.1| 30S ribosomal protein S4 [Clostridium novyi NT] gi|152060917|sp|A0PXX4|RS4A_CLONN RecName: Full=30S ribosomal protein S4 A gi|118134964|gb|ABK62008.1| ribosomal protein S4 [Clostridium novyi NT] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ + G S R E +++ VNG ++ + V + D I V Sbjct: 98 MRLDNVVYKLGFGSSRAEARQLVTHGHFLVNGKKVDIISYQVSAGDVISV 147 >gi|317490447|ref|ZP_07948929.1| RluA family pseudouridine synthase [Eggerthella sp. 1_3_56FAA] gi|316910440|gb|EFV32067.1| RluA family pseudouridine synthase [Eggerthella sp. 1_3_56FAA] Length = 344 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 30/256 (11%), Positives = 70/256 (27%), Gaps = 50/256 (19%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNG-ILLERAAVNVMSTDHIEVD 63 + + QR+ ++A G+ SR R + V VNG + ++ V D I Sbjct: 8 VAAPDDAGQRLDALLAARGLYPSRSAAARAVDDGLVFVNGAEVAKK--HPVAPGDTIVYQ 65 Query: 64 -----------GVP----LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRV 108 G P +R + + L + + D D + V + + Sbjct: 66 VEEPVEPGPLRGQPIDLDIRFEDEDLIVLSKQVGLVCHPSVDHDDGTLVNALIYHCGAEN 125 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 + + + + G++ + +L + + + + L G++ Sbjct: 126 LCNVQGEDDRLGIVHRLDRDTSGLMLAAKNDETGYALMSDIRDRAVDRRYLALVHGVIAH 185 Query: 169 G-------------ICYGDMQVTLDTQKGSNAWVTV------------------GLREGK 197 + + + V L G+ Sbjct: 186 DTGMIDAPIARAEKERTRMAVRDTPSAREAITTFRVLERFEHGGRDDGYTLIDCKLFTGR 245 Query: 198 NREIKKVFEFFNWKVN 213 +I+ E+ + Sbjct: 246 THQIRVHLEYAKHPLV 261 >gi|309356679|emb|CAP36772.2| hypothetical protein CBG_19546 [Caenorhabditis briggsae AF16] Length = 438 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 28/207 (13%), Positives = 59/207 (28%), Gaps = 24/207 (11%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIE---------VDGVPLRKAERTR---LWLY 78 + R+ VNG + + + D +E V +P+R T + Sbjct: 109 AKVACKMGRIYVNGEQMTDVDYVMKNGDRVEHWVHRHEHPVRDLPIRIISETDDLLVIEK 168 Query: 79 HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPS 138 + + T + + + RLD T G+LL + + Sbjct: 169 PPSLPVHTCGQYAIHTVLGQLRENEEKTGLRVLHRLDRATSGVLLFAKNYETDLEFKTTL 228 Query: 139 TQWLR--VYRVRFHGQVDQDKLNL----------LKKGIVIQGICYGDMQVTLDTQKGSN 186 Q Y + G ++ + V G++ Sbjct: 229 KQGEWSKEYVCKVDGVFPDEEQVCEQPIGPLVISMGIQCVRPDGKEAKSTFRKLWSDGTH 288 Query: 187 AWVTVGLREGKNREIKKVFEFFNWKVN 213 + V V + G+ +I+ +F + + Sbjct: 289 SVVQVHIETGRTHQIRVHSQFLGYPIV 315 >gi|242067965|ref|XP_002449259.1| hypothetical protein SORBIDRAFT_05g006893 [Sorghum bicolor] gi|241935102|gb|EES08247.1| hypothetical protein SORBIDRAFT_05g006893 [Sorghum bicolor] Length = 260 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 7/49 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R + SR ++ I Q +V V+G ++ +A V IE+ Sbjct: 17 ERFQQY-------SRTYIQSWILQGKVIVDGRVVNKAGTQVSDKSVIEI 58 >gi|225469571|ref|XP_002271057.1| PREDICTED: hypothetical protein [Vitis vinifera] Length = 316 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 7/49 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R + SR ++ I Q +V V+G ++ +A V +E+ Sbjct: 84 ERFQQY-------SRTFIQSWILQGKVFVDGKVVNKAGTPVSDKAVVEI 125 >gi|169830294|ref|YP_001716276.1| RNA-binding S4 domain-containing protein [Candidatus Desulforudis audaxviator MP104C] gi|169637138|gb|ACA58644.1| RNA-binding S4 domain protein [Candidatus Desulforudis audaxviator MP104C] Length = 88 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 3/71 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-GVPLRKAE 71 R+ K + + + RR + + Q V VNG L + A V D + V G E Sbjct: 1 MRLDKFLKVSRLIKRRALAKEVCDQGLVTVNGRLAK-AGTPVNPGDIVRVQLGSRNLYFE 59 Query: 72 RTRLWLYHKPI 82 RL + Sbjct: 60 VLRLDEHVPAG 70 >gi|154249782|ref|YP_001410607.1| RluA family pseudouridine synthase [Fervidobacterium nodosum Rt17-B1] gi|154153718|gb|ABS60950.1| pseudouridine synthase, RluA family [Fervidobacterium nodosum Rt17-B1] Length = 314 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 35/238 (14%), Positives = 62/238 (26%), Gaps = 43/238 (18%) Query: 15 RVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--------- 63 R+ K + SR ++R I V VNG ++ + V S D I ++ Sbjct: 13 RLDKFVMEKTPEWISRTFIQRAIKNGEVLVNGTS-KKPSYKVKSGDIITLNAPEAPEIPE 71 Query: 64 ----GVPLR--KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDIN 117 +PL +R L + +P + + V L G L Sbjct: 72 ILPEDIPLDIIYEDRDILVINKQPGIITHPIPSHTSGTIVNGVLYHCKDLQGIGGVLRPG 131 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQV 177 L G + + Q L + L I + Sbjct: 132 IVHRLDKDTSGVMVIAKNDLAHQSLTKQFKDRLTEKLYICLVKGVPKRKEGDIEINIARN 191 Query: 178 TL----------DTQKGSNAWVTVGLRE--------------GKNREIKKVFEFFNWK 211 + + K + V RE G+ +I+ ++ Sbjct: 192 PVLRVKMTVTNSEYGKPALTHYKVV-REFGDIAALVFAYPKTGRTHQIRVHMKYIGHP 248 >gi|17534965|ref|NP_493778.1| hypothetical protein K07E8.7 [Caenorhabditis elegans] gi|3915497|sp|O16686|YK27_CAEEL RecName: Full=Uncharacterized protein K07E8.7 gi|2315726|gb|AAB66153.1| Hypothetical protein K07E8.7 [Caenorhabditis elegans] Length = 432 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 28/209 (13%), Positives = 60/209 (28%), Gaps = 24/209 (11%) Query: 28 RREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---------VDGVPLRKAERTR---L 75 R + R+ VNG + + + D +E + +P+R T + Sbjct: 100 RNYAKIACKMGRIYVNGEQMTDVDYVMRNGDRVEHWAHRHEHPIRDLPIRVISETDDLFV 159 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 + + T + + + + RLD T G+LL + + Sbjct: 160 VEKPPSLPVHTCGQYAIHTVLGQLRVNEGRTGLRVLHRLDRATSGVLLFAKNYETDLEFK 219 Query: 136 LPSTQWLR--VYRVRFHGQVDQDKLNL----------LKKGIVIQGICYGDMQVTLDTQK 183 Q Y + G ++ + V + Sbjct: 220 TTLKQGEWSKEYICKVDGVFPDEEQVCEQPIGPLVISMGIQCVRPDGKDAKSRFRKLWSD 279 Query: 184 GSNAWVTVGLREGKNREIKKVFEFFNWKV 212 G+ + V V + G+ +I+ +F + Sbjct: 280 GTQSVVQVHIETGRTHQIRVHSQFLGHPI 308 >gi|319940172|ref|ZP_08014525.1| 30S ribosomal protein S4 [Streptococcus anginosus 1_2_62CV] gi|319810643|gb|EFW06973.1| 30S ribosomal protein S4 [Streptococcus anginosus 1_2_62CV] Length = 203 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 1/57 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 R+ V+ R G+A+ RR+ + + + V+G ++ + V I V L+ Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVSVGQVISVREKSLKVP 150 >gi|260779479|ref|ZP_05888369.1| SSU ribosomal protein S4p (S9e) [Vibrio coralliilyticus ATCC BAA-450] gi|260604288|gb|EEX30592.1| SSU ribosomal protein S4p (S9e) [Vibrio coralliilyticus ATCC BAA-450] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVSI 145 >gi|260582391|ref|ZP_05850183.1| pseudouridylate synthase [Haemophilus influenzae NT127] gi|260094542|gb|EEW78438.1| pseudouridylate synthase [Haemophilus influenzae NT127] Length = 324 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|227832272|ref|YP_002833979.1| 30S ribosomal protein S4 [Corynebacterium aurimucosum ATCC 700975] gi|262183872|ref|ZP_06043293.1| 30S ribosomal protein S4 [Corynebacterium aurimucosum ATCC 700975] gi|254764581|sp|C3PL37|RS4_CORA7 RecName: Full=30S ribosomal protein S4 gi|227453288|gb|ACP32041.1| 30S ribosomal protein S4 [Corynebacterium aurimucosum ATCC 700975] Length = 201 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI RAG+A +RR+ ++++ VNG + + V D I+V Sbjct: 92 RLDNVIYRAGLANTRRQARQLVSHGHFTVNGKKINVPSFRVTQYDIIDV 140 >gi|254509448|ref|ZP_05121526.1| ribosomal protein S4 [Vibrio parahaemolyticus 16] gi|323495528|ref|ZP_08100602.1| 30S ribosomal protein S4 [Vibrio sinaloensis DSM 21326] gi|219547621|gb|EED24668.1| ribosomal protein S4 [Vibrio parahaemolyticus 16] gi|323319409|gb|EGA72346.1| 30S ribosomal protein S4 [Vibrio sinaloensis DSM 21326] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/61 (18%), Positives = 29/61 (47%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVAIREKAQKQSRIK 156 Query: 74 R 74 Sbjct: 157 A 157 >gi|172040040|ref|YP_001799754.1| 30S ribosomal protein S4 [Corynebacterium urealyticum DSM 7109] gi|226697828|sp|B1VEY1|RS4_CORU7 RecName: Full=30S ribosomal protein S4 gi|171851344|emb|CAQ04320.1| 30S ribosomal protein S4 [Corynebacterium urealyticum DSM 7109] Length = 201 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ VI RAG+A +RR+ ++++ VNG + + V D I+V Sbjct: 92 RLDNVIYRAGLARTRRQARQLVSHGHFTVNGKKINVPSFRVSQYDIIDVRDR 143 >gi|159465535|ref|XP_001690978.1| hypothetical protein CHLREDRAFT_128015 [Chlamydomonas reinhardtii] gi|158279664|gb|EDP05424.1| predicted protein [Chlamydomonas reinhardtii] Length = 291 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 5/70 (7%) Query: 13 PQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV---PLR 68 R+ IA AG SR ++ MI V++N + + +V V D I G ++ Sbjct: 215 SMRLD-AIASAGFRMSRTKIGDMIKAGDVRLNWRPVTKPSVEVKEGDVISCSGKGRVEIK 273 Query: 69 KAERTRLWLY 78 E T+ Y Sbjct: 274 ACEMTKKEKY 283 >gi|167040179|ref|YP_001663164.1| hemolysin A [Thermoanaerobacter sp. X514] gi|256752077|ref|ZP_05492945.1| hemolysin A [Thermoanaerobacter ethanolicus CCSD1] gi|300914262|ref|ZP_07131578.1| hemolysin A [Thermoanaerobacter sp. X561] gi|307724502|ref|YP_003904253.1| hemolysin A [Thermoanaerobacter sp. X513] gi|166854419|gb|ABY92828.1| hemolysin A [Thermoanaerobacter sp. X514] gi|256749087|gb|EEU62123.1| hemolysin A [Thermoanaerobacter ethanolicus CCSD1] gi|300889197|gb|EFK84343.1| hemolysin A [Thermoanaerobacter sp. X561] gi|307581563|gb|ADN54962.1| hemolysin A [Thermoanaerobacter sp. X513] Length = 266 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 11 FTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ + G S RE + I V V+G +E+A V IE+ Sbjct: 3 SKKERLDVLLVQKGFFSSREKAKASIMAGEVYVDGKKIEKAGEFVNIDSSIEI 55 >gi|108757719|ref|YP_632808.1| hemolysin A [Myxococcus xanthus DK 1622] gi|108461599|gb|ABF86784.1| hemolysin A [Myxococcus xanthus DK 1622] Length = 246 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 10/61 (16%), Positives = 25/61 (40%), Gaps = 1/61 (1%) Query: 10 NFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R+ ++ G+A SR + + +I +V V +++ + + + G L Sbjct: 2 KPRKERLDVLVVERGLAESRTKAQALILAGQVVVGDQRVDKPGTLIPQEAELRLKGEVLP 61 Query: 69 K 69 Sbjct: 62 Y 62 >gi|332524579|ref|ZP_08400783.1| 30S ribosomal protein S4 [Rubrivivax benzoatilyticus JA2] gi|332107892|gb|EGJ09116.1| 30S ribosomal protein S4 [Rubrivivax benzoatilyticus JA2] Length = 207 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG ++ + V + D + V Sbjct: 98 RLDNVVYRMGFGSTRAESRQLVSHKAITVNGQVVNIPSYMVKAGDVVAV 146 >gi|315658673|ref|ZP_07911543.1| ribosomal large subunit pseudouridine synthase [Staphylococcus lugdunensis M23590] gi|315496304|gb|EFU84629.1| ribosomal large subunit pseudouridine synthase [Staphylococcus lugdunensis M23590] Length = 284 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 30/223 (13%), Positives = 62/223 (27%), Gaps = 31/223 (13%) Query: 19 VIARAGIASRREVERMIAQ-QRVKVNGILLERAAVNVMSTDHIEV--------------- 62 + + G S ++ I Q + VN + + D + + Sbjct: 16 FLQQQGF-S-KKTTSAIKQNGALLVNHEPVTV-RYQLQPGDKLTIILPTEIPSANLQAFH 72 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDG-----RSTVFDNLPSIFSRVISVGRLDIN 117 + + + L + I + + + + V RLD N Sbjct: 73 HPLDIVYEDDYLLIVCKPSIQNCAPSREHPHESLIEQVIAYCHENDNDFTPHIVTRLDRN 132 Query: 118 TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ-------DKLNLLKKGIVIQGI 170 T GL+LL G + +L + Q + + + V Sbjct: 133 TTGLVLLAKHGHIHHLLSHIKINKRYIALCHGATQPEGIIEAPIARANDSIITRQVSSTG 192 Query: 171 CYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 Y K + + V L G+ +I+ F++ + Sbjct: 193 KYAKSTYRTLNSKQNVSLCEVTLHTGRTHQIRVHFQYIGHPLI 235 >gi|256383853|gb|ACU78423.1| ribosomal RNA large subunit methyltransferase J [Mycoplasma mycoides subsp. capri str. GM12] gi|256384684|gb|ACU79253.1| ribosomal RNA large subunit methyltransferase J [Mycoplasma mycoides subsp. capri str. GM12] gi|296455958|gb|ADH22193.1| ribosomal RNA large subunit methyltransferase J [synthetic Mycoplasma mycoides JCVI-syn1.0] Length = 268 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 23/177 (12%), Positives = 53/177 (29%), Gaps = 2/177 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + I + + SR + + I + V VN I + + + V S D IE+ L R Sbjct: 4 RLDEYIYKNNLTQSRNKAKEHILNKEVYVNNIAIIKPSFLVDSNDLIEIRSTKLEYVSRA 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++ + + L + + L + Sbjct: 64 YEKLKKAINKWNIDLTNKICLDIGASTGGFTQCCLDNNASLVYAVDVGTDQLHSSLLNNL 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + +Q+ + D + I ++ + ++ L+ + Sbjct: 124 KVINMSQYNFRNAKKQDFLKSIDFVCCDVSFISLE-KIFLPLKDILEFNTSGVFLIK 179 >gi|16272141|ref|NP_438344.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae Rd KW20] gi|260580943|ref|ZP_05848767.1| sfhB protein [Haemophilus influenzae RdAW] gi|1175998|sp|P44445|RLUD_HAEIN RecName: Full=Ribosomal large subunit pseudouridine synthase D; AltName: Full=rRNA pseudouridylate synthase D; AltName: Full=rRNA-uridine isomerase D gi|1573131|gb|AAC21845.1| sfhB protein (sfhB) [Haemophilus influenzae Rd KW20] gi|260092432|gb|EEW76371.1| sfhB protein [Haemophilus influenzae RdAW] Length = 324 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 30/238 (12%), Positives = 61/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L V Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|315127932|ref|YP_004069935.1| 30S ribosomal protein S4 [Pseudoalteromonas sp. SM9913] gi|332533190|ref|ZP_08409057.1| 30S ribosomal protein S4 [Pseudoalteromonas haloplanktis ANT/505] gi|315016446|gb|ADT69784.1| 30S ribosomal protein S4 [Pseudoalteromonas sp. SM9913] gi|332037269|gb|EGI73724.1| 30S ribosomal protein S4 [Pseudoalteromonas haloplanktis ANT/505] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G AS R E ++++ + + VNG ++ + + D + + Sbjct: 96 QRLDNVVYRMGFASTRAEARQLVSHKAILVNGRVVNIPSYVITPEDTVVI 145 >gi|311898675|dbj|BAJ31083.1| putative translation initiation factor IF-2 [Kitasatospora setae KM-6054] Length = 1035 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 7/77 (9%), Positives = 11/77 (14%) Query: 277 EVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHR 336 S P A G G+R Sbjct: 181 PFTSGGASGMARPSAPRPGGAPSGERGPRPGGERGPRPAGAPGAGERGPRPGGERGPRPA 240 Query: 337 RSPSFPSKRSLRRTSAK 353 +P + + Sbjct: 241 GAPGAGDRGPRPGGAPS 257 Score = 39.4 bits (90), Expect = 0.81, Method: Composition-based stats. Identities = 11/116 (9%), Positives = 20/116 (17%), Gaps = 9/116 (7%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + +R + P R + ++ A Sbjct: 189 GMARPSAPRPGGAPSGERGPRPGGERGPRPAGAPGAGERGPRPGGERGPRPAGAPGAGDR 248 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQR---------EENHRRSPSFPSKRSLRRTSA 352 R + G P PS + R + Sbjct: 249 GPRPGGAPSGERGPRPGGAPRPGGPGAGAPRPDGMPRPAAPRPGAPSPSGMPRPNP 304 >gi|85859632|ref|YP_461834.1| rRNA methylase [Syntrophus aciditrophicus SB] gi|85722723|gb|ABC77666.1| rRNA methylase [Syntrophus aciditrophicus SB] Length = 277 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 1/60 (1%) Query: 7 VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 + R+ ++ G+ ASR +I V V+ ++A V + + G Sbjct: 1 MGSREEKIRLDLLLVNRGLSASRERARALILSGAVLVDEKPADKAGALVSCAASVRIKGK 60 >gi|56752497|ref|YP_173198.1| hypothetical protein syc2488_d [Synechococcus elongatus PCC 6301] gi|56687456|dbj|BAD80678.1| hypothetical protein [Synechococcus elongatus PCC 6301] Length = 259 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 2/52 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ IA AG SR ++ +I++ V+VN + + + + D + V G Sbjct: 185 RLD-AIASAGFGLSRSKMVDLISRGEVRVNWKAATQPSTQLKTGDLVAVRGK 235 >gi|309972703|gb|ADO95904.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae R2846] Length = 324 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 60/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|312134570|ref|YP_004001908.1| RNA-binding S4 domain-containing protein [Caldicellulosiruptor owensensis OL] gi|311774621|gb|ADQ04108.1| RNA-binding S4 domain protein [Caldicellulosiruptor owensensis OL] Length = 80 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV VNG + + + +V D IEV Sbjct: 1 MRIDKYLKVSRIIKRRTLAQEACEAGRVFVNGKVAK-PSTDVKVGDVIEV 49 >gi|239818004|ref|YP_002946914.1| 30S ribosomal protein S4 [Variovorax paradoxus S110] gi|319796381|ref|YP_004158021.1| ribosomal protein s4 [Variovorax paradoxus EPS] gi|259495303|sp|C5CQ76|RS4_VARPS RecName: Full=30S ribosomal protein S4 gi|239804581|gb|ACS21648.1| ribosomal protein S4 [Variovorax paradoxus S110] gi|315598844|gb|ADU39910.1| ribosomal protein S4 [Variovorax paradoxus EPS] Length = 207 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ R G S R E ++++ + + VNG + + V + D I V Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGQSVNIPSYLVKTGDVIAVRDK 149 >gi|154508712|ref|ZP_02044354.1| hypothetical protein ACTODO_01220 [Actinomyces odontolyticus ATCC 17982] gi|153798346|gb|EDN80766.1| hypothetical protein ACTODO_01220 [Actinomyces odontolyticus ATCC 17982] Length = 275 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + R G+A SR +MI RVK++G ++ + A + I V+ Sbjct: 5 RIDSELVRRGLAKSRAAAAQMIEDGRVKLDGQIVLKPARQMDPAQAIVVE 54 >gi|119718096|ref|YP_925061.1| 30S ribosomal protein S4 [Nocardioides sp. JS614] gi|152112238|sp|A1SNI9|RS4_NOCSJ RecName: Full=30S ribosomal protein S4 gi|119538757|gb|ABL83374.1| SSU ribosomal protein S4P [Nocardioides sp. JS614] Length = 202 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ RAG A +RR +++ KVNG ++ + V + D I+V L Sbjct: 92 RLDNVVYRAGFARTRRHARQLVTHGHFKVNGKKVDIPSFQVTAHDVIDVREKSLEMTPFI 151 Query: 74 R 74 Sbjct: 152 V 152 >gi|317401792|gb|EFV82407.1| pseudouridine synthase [Achromobacter xylosoxidans C54] Length = 336 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 33/240 (13%), Positives = 57/240 (23%), Gaps = 44/240 (18%) Query: 15 RVSKVIARAGIA---SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV------ 65 R+ KV+A G+ SR ++ I V+VNG + V D I V Sbjct: 45 RLDKVLA--GLLPDHSRSRLQGWIEAGNVQVNGAPGKVRQT-VGPGDEIAVWAQPAPEAL 101 Query: 66 ---------PLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS--RVISVGRL 114 P+ + + +V + + + L +V G + Sbjct: 102 AFAPEAIDFPVVDESPDWIVVNKPAGLVVHPGAGNWSGTLLNGLLHRYPELAQVARAGIV 161 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQG----- 169 + L Q R + + L K G Sbjct: 162 HRLDKDTSGLMVVARNEIAQTHLVRQLQARSMGREYVALAHGWLAAAGKVDRPIGRDPRV 221 Query: 170 ----------------ICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 Y + G V L G+ +I+ + Sbjct: 222 PVRMSVERPVAPKPAVTHYAPARRGQIDPGGRATEVVCRLETGRTHQIRVHLASLGHPLL 281 >gi|317494318|ref|ZP_07952732.1| ribosomal protein S4 [Enterobacteriaceae bacterium 9_2_54FAA] gi|316917568|gb|EFV38913.1| ribosomal protein S4 [Enterobacteriaceae bacterium 9_2_54FAA] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/73 (20%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + V +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAVVVNGRVVNIASYQVSPNDVVSVREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|304438388|ref|ZP_07398329.1| 30S ribosomal protein S4 [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304368754|gb|EFM22438.1| 30S ribosomal protein S4 [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 197 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +++ VNG ++ + V D IEV Sbjct: 88 RMDNVVFRLGLANTRRQARQLVRHGHFTVNGKRVDIPSALVHEGDVIEV 136 >gi|261854973|ref|YP_003262256.1| ribosomal protein S4 [Halothiobacillus neapolitanus c2] gi|261835442|gb|ACX95209.1| ribosomal protein S4 [Halothiobacillus neapolitanus c2] Length = 207 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG ++ A+ V + D + V Sbjct: 98 RLDNVVYRMGFGSTRSESRQLVSHRAITVNGEVVNIASYQVAANDVVAV 146 >gi|219854472|ref|YP_002471594.1| hypothetical protein CKR_1129 [Clostridium kluyveri NBRC 12016] gi|219568196|dbj|BAH06180.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 280 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/69 (23%), Positives = 31/69 (44%), Gaps = 3/69 (4%) Query: 1 MKDKNIVQENFTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDH 59 M + ++ E +R+ ++ GI S RE I + V+G +++ N+ + + Sbjct: 1 MTKEFVMSEPK--ERIDVLLVDKGIFSSRERARASIMAGEIFVDGRRVDKCGQNIKRSSN 58 Query: 60 IEVDGVPLR 68 IE G L Sbjct: 59 IEFRGEKLP 67 >gi|123966876|ref|YP_001011957.1| rRNA methyltransferase [Prochlorococcus marinus str. MIT 9515] gi|123201242|gb|ABM72850.1| FtsJ cell division protein:S4 domain:Hemolysin A [Prochlorococcus marinus str. MIT 9515] Length = 270 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 9/54 (16%), Positives = 26/54 (48%), Gaps = 2/54 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVP 66 R+ + G+ +R++ + +I +VK +NG + ++ V++ ++ Sbjct: 6 RLDLYLLSQGLCETRQKAQGLILAGKVKDINGKIFDKPGQQVITGTEFIIESEA 59 >gi|37519794|ref|NP_923171.1| hypothetical protein gsl0225 [Gloeobacter violaceus PCC 7421] gi|35210785|dbj|BAC88166.1| gsl0225 [Gloeobacter violaceus PCC 7421] Length = 71 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/61 (18%), Positives = 27/61 (44%), Gaps = 9/61 (14%) Query: 7 VQENFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + E T ++ + + A+ G + + +I + V VNG + R +++ D + Sbjct: 1 MSEERTFIKLDQFLKLVGAAQTGG----QAKILIQEGEVLVNGAVETRRGRKLLAGDQVT 56 Query: 62 V 62 + Sbjct: 57 L 57 >gi|269469225|gb|EEZ80756.1| ribosomal protein S4 [uncultured SUP05 cluster bacterium] Length = 208 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D I V Sbjct: 99 RLDNVVYRMGFGATRAEARQLVSHKSILVNGSIVNIPSYQVSANDEISV 147 >gi|15615771|ref|NP_244075.1| 30S ribosomal protein S4 [Bacillus halodurans C-125] gi|26399508|sp|Q9K7Z8|RS4_BACHD RecName: Full=30S ribosomal protein S4 gi|10175832|dbj|BAB06928.1| 30S ribosomal protein S4 [Bacillus halodurans C-125] Length = 200 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 93 RLDNLVYRMGLARTRRAARQLVNHGHITVDGQRVDIPSYRVKPGQVIGV 141 >gi|312128212|ref|YP_003993086.1| RNA-binding S4 domain-containing protein [Caldicellulosiruptor hydrothermalis 108] gi|311778231|gb|ADQ07717.1| RNA-binding S4 domain protein [Caldicellulosiruptor hydrothermalis 108] Length = 80 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR ++ RV VNG + + + +V D IEV Sbjct: 1 MRIDKYLKVSRIIKRRTLAQQACEAGRVFVNGKVAK-PSTDVKVGDVIEV 49 >gi|226323041|ref|ZP_03798559.1| hypothetical protein COPCOM_00813 [Coprococcus comes ATCC 27758] gi|225208608|gb|EEG90962.1| hypothetical protein COPCOM_00813 [Coprococcus comes ATCC 27758] Length = 90 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 2/66 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DGVPLRKAER 72 R+ V+ R G A +RRE +++ ++V VNG + + + + D IE+ +G + + Sbjct: 16 RLDNVVFRLGFARTRREARQIVDHKQVLVNGKQVNIPSYLIKAGDVIEIKEGKKIFTEIQ 75 Query: 73 TRLWLY 78 Y Sbjct: 76 RYRRSY 81 >gi|302023694|ref|ZP_07248905.1| RNA pseudouridylate synthase [Streptococcus suis 05HAS68] Length = 54 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%) Query: 13 PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 R+ K ++ SR I +V VNG ++A +V D Sbjct: 9 GIRLDKALSDLTDLSRSFANEQIKAGQVLVNGQP-KKAKYSVQVGDV 54 >gi|291533845|emb|CBL06958.1| ribosomal large subunit pseudouridine synthase D [Megamonas hypermegale ART12/1] Length = 304 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 33/242 (13%), Positives = 71/242 (29%), Gaps = 46/242 (19%) Query: 13 PQRVSKVIARAGIA-----SRREVERMIAQQRVKVNGILLERAAVNVMSTD--------- 58 R+ +A SR +++MI + VN + +RA + + D Sbjct: 12 GTRLDVFLA----GQEDNPSRASIQKMITDGAITVNNQV-KRANYKLKANDQITMVFEPP 66 Query: 59 -HIEVDGVPLRK---AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS---- 110 IEV + E + + +K G+V + T+ + L +S Sbjct: 67 TEIEVKPENIPLDILYEDNDIIVINKARGMVVHPAAGVYSGTLVNALLYHCHDELSGING 126 Query: 111 -------------------VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHG 151 V + D L L + + + +G Sbjct: 127 KIRPGIVHRLDKDTSGVMVVAKNDFAHNDLALQIGSKTAIKEYVALVHGNITEEKGIING 186 Query: 152 QVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 + + ++ K +V G + + + +V L G+ +I+ + Sbjct: 187 NIGRHPIDRKKMAVVTNGGKPATTVFHVLERYKNCTFVQCRLLTGRTHQIRVHMAYIGHP 246 Query: 212 VN 213 + Sbjct: 247 LI 248 >gi|322412877|gb|EFY03785.1| 30S ribosomal protein S4 [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] gi|323128282|gb|ADX25579.1| 30S ribosomal protein S4 [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 203 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A+ RR+ + + + V+G ++ + V + I V Sbjct: 94 RLDNVVYRLGLATTRRQARQFVNHGHILVDGKRVDIPSYRVEAGQVISV 142 >gi|313837447|gb|EFS75161.1| pseudouridine synthase, RluA family [Propionibacterium acnes HL037PA2] gi|314929343|gb|EFS93174.1| pseudouridine synthase, RluA family [Propionibacterium acnes HL044PA1] gi|314971654|gb|EFT15752.1| pseudouridine synthase, RluA family [Propionibacterium acnes HL037PA3] Length = 306 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 31/243 (12%), Positives = 65/243 (26%), Gaps = 38/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 V + +RV AR SR + +I + V ++G + RA+V V + ++VD Sbjct: 6 VPDGLDGERVDVAAARMSGVSRSRIGNLIEEGGVFLDGQQVSRASVRVTAGQMLDVDLSD 65 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 G+ + + + + +G S V + F+ S Sbjct: 66 PVSTPSITPQIVEGMRIVHDDSDIVVVDKPAGVAAHPSLGWEGPSVVEHLAAAGFAISTS 125 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST---------------------QWLRVYRVRF 149 L + G + + + Sbjct: 126 GLLERQGIVQRLDVGTSGLMVVAKSEHAYTLLKQAFRDRAVDKVYLALVQGHPDPFAGTI 185 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D + K ++ G + + V L G+ +I+ Sbjct: 186 DAPIGRDHRHDW-KMAIVDGGRHSVTHYETVEAFRHATLLKVHLETGRTHQIRVHMAAVK 244 Query: 210 WKV 212 Sbjct: 245 HPC 247 >gi|254500931|ref|ZP_05113082.1| hemolysin A [Labrenzia alexandrii DFL-11] gi|222437002|gb|EEE43681.1| hemolysin A [Labrenzia alexandrii DFL-11] Length = 246 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 1/52 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 QR+ + + G SR I + V VNG + + A V + I V+ Sbjct: 4 QRLDQHLVDTGHFPSRARARDAILRGTVSVNGAVCGKPAQKVAANAAIAVED 55 >gi|189219158|ref|YP_001939799.1| pseudouridylate synthase, 23S RNA-specific [Methylacidiphilum infernorum V4] gi|189186016|gb|ACD83201.1| Pseudouridylate synthase, 23S RNA-specific [Methylacidiphilum infernorum V4] Length = 325 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 71/244 (29%), Gaps = 41/244 (16%) Query: 9 ENFTPQRVSKVIARAGIASRREVERMIAQQRVKV-NGILLERAAVNVMSTDHIEVDGVP- 66 E QR+ ++ SR ++++ I +++ NG +L + + + IE+ G Sbjct: 19 EKGVGQRLDLFLSSLLNVSRNKIKKKILSGDLRLKNGAVL-EPSHRIRGIEEIEIRGGLT 77 Query: 67 ---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS----- 106 + + L + + +V + V L Sbjct: 78 EEIPSLPKAEEIALEILYEDEEILIVNKQRGMVVHPSCGHWSGTLVNSLLFHYGESLPGS 137 Query: 107 ---RVISVGRLDINTEGLLLLTN--------------DGGLARVLELPSTQWLRVYRVRF 149 R V RLD +T G++++ L L ++ + Sbjct: 138 SLLRPGIVHRLDKDTSGVMVIAKTERSLKSLLLQFSQRTVQKVYLCLCKNRFPYLRYSFE 197 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 ++G + + TL +++ G+ +I+ Sbjct: 198 ANIHRHASDRKKMAVHRLKG-KTAETRFTLLFASSQASFLKCEPVSGRTHQIRVHLSHLG 256 Query: 210 WKVN 213 + + Sbjct: 257 FPII 260 >gi|261250393|ref|ZP_05942968.1| SSU ribosomal protein S4p (S9e) [Vibrio orientalis CIP 102891] gi|260938962|gb|EEX94949.1| SSU ribosomal protein S4p (S9e) [Vibrio orientalis CIP 102891] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNIPSFKVAANDVVSI 145 >gi|229019885|ref|ZP_04176683.1| 30S ribosomal protein S4 [Bacillus cereus AH1273] gi|229026111|ref|ZP_04182488.1| 30S ribosomal protein S4 [Bacillus cereus AH1272] gi|229032307|ref|ZP_04188280.1| 30S ribosomal protein S4 [Bacillus cereus AH1271] gi|229175366|ref|ZP_04302881.1| 30S ribosomal protein S4 [Bacillus cereus MM3] gi|228608198|gb|EEK65505.1| 30S ribosomal protein S4 [Bacillus cereus MM3] gi|228729087|gb|EEL80090.1| 30S ribosomal protein S4 [Bacillus cereus AH1271] gi|228735189|gb|EEL85807.1| 30S ribosomal protein S4 [Bacillus cereus AH1272] gi|228741405|gb|EEL91607.1| 30S ribosomal protein S4 [Bacillus cereus AH1273] Length = 200 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 93 RLDNLVYRMGLARTRRAARQLVNHGHITVDGSRVDIPSYRVKPGQTISV 141 >gi|227871775|ref|ZP_03990180.1| ribosomal protein S4 [Oribacterium sinus F0268] gi|227842376|gb|EEJ52601.1| ribosomal protein S4 [Oribacterium sinus F0268] Length = 197 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G+A +RRE +++ + V VNG ++ + V + D I++ Sbjct: 88 RLDNVIFRMGMARTRREARQVVGHRHVTVNGKIVNIPSYLVSAGDVIQI 136 >gi|313891858|ref|ZP_07825463.1| ribosomal RNA large subunit methyltransferase J [Dialister microaerophilus UPII 345-E] gi|313119852|gb|EFR43039.1| ribosomal RNA large subunit methyltransferase J [Dialister microaerophilus UPII 345-E] Length = 278 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 9/57 (15%), Positives = 23/57 (40%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G SR +R I + V+ + +++ V + + G + Sbjct: 13 ERLDVLLVERGFFNSRENAKRHIMAGIILVDNMPVDKPGTKVCIDSELRIKGKIMPY 69 >gi|294678313|ref|YP_003578928.1| heat shock protein [Rhodobacter capsulatus SB 1003] gi|294477133|gb|ADE86521.1| heat shock protein [Rhodobacter capsulatus SB 1003] Length = 92 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 1/55 (1%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + +A A SR ++ RV+VNG LE+ V D + + Sbjct: 2 SEGDRIRIDKWLWQARFAKSRALAVDLVTAGRVRVNGQKLEKPGRAVGPGDVLTL 56 >gi|283788068|ref|YP_003367933.1| 30S ribosomal subunit protein S4 [Citrobacter rodentium ICC168] gi|282951522|emb|CBG91221.1| 30S ribosomal subunit protein S4 [Citrobacter rodentium ICC168] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + + +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAVMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|224132002|ref|XP_002321231.1| predicted protein [Populus trichocarpa] gi|222862004|gb|EEE99546.1| predicted protein [Populus trichocarpa] Length = 255 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/55 (21%), Positives = 26/55 (47%), Gaps = 1/55 (1%) Query: 9 ENFTPQRVSKV-IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + +R+ ++ + R SR ++ I Q +V V+G + +A V +E+ Sbjct: 6 KKGRKRRLDEICLERFQQYSRTFIQSWILQGKVFVDGKVANKAGTPVSEKSVVEI 60 >gi|28897055|ref|NP_796660.1| 30S ribosomal protein S4 [Vibrio parahaemolyticus RIMD 2210633] gi|153840228|ref|ZP_01992895.1| ribosomal protein S4 [Vibrio parahaemolyticus AQ3810] gi|156973074|ref|YP_001443981.1| 30S ribosomal protein S4 [Vibrio harveyi ATCC BAA-1116] gi|260877973|ref|ZP_05890328.1| ribosomal protein S4 [Vibrio parahaemolyticus AN-5034] gi|260895673|ref|ZP_05904169.1| ribosomal protein S4 [Vibrio parahaemolyticus Peru-466] gi|260903551|ref|ZP_05911946.1| ribosomal protein S4 [Vibrio parahaemolyticus AQ4037] gi|262392492|ref|YP_003284346.1| 30S ribosomal protein S4p [Vibrio sp. Ex25] gi|269964713|ref|ZP_06178951.1| 30S ribosomal protein S4 [Vibrio alginolyticus 40B] gi|31340377|sp|Q87SZ1|RS4_VIBPA RecName: Full=30S ribosomal protein S4 gi|171769916|sp|A7N0H7|RS4_VIBHB RecName: Full=30S ribosomal protein S4 gi|28805263|dbj|BAC58544.1| ribosomal protein S4 [Vibrio parahaemolyticus RIMD 2210633] gi|149746105|gb|EDM57235.1| ribosomal protein S4 [Vibrio parahaemolyticus AQ3810] gi|156524668|gb|ABU69754.1| hypothetical protein VIBHAR_00753 [Vibrio harveyi ATCC BAA-1116] gi|262336086|gb|ACY49881.1| SSU ribosomal protein S4p (S9e) [Vibrio sp. Ex25] gi|269830612|gb|EEZ84833.1| 30S ribosomal protein S4 [Vibrio alginolyticus 40B] gi|308089501|gb|EFO39196.1| ribosomal protein S4 [Vibrio parahaemolyticus Peru-466] gi|308090096|gb|EFO39791.1| ribosomal protein S4 [Vibrio parahaemolyticus AN-5034] gi|308109051|gb|EFO46591.1| ribosomal protein S4 [Vibrio parahaemolyticus AQ4037] gi|328471858|gb|EGF42735.1| 30S ribosomal protein S4 [Vibrio parahaemolyticus 10329] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVSI 145 >gi|88799195|ref|ZP_01114775.1| ribosomal protein S4 [Reinekea sp. MED297] gi|88778178|gb|EAR09373.1| ribosomal protein S4 [Reinekea sp. MED297] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG + + V D + V Sbjct: 97 RLDNVVYRMGFGVTRAEARQLVSHKAILVNGQSVNIPSFQVKPGDVVSV 145 >gi|257483209|ref|ZP_05637250.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tabaci ATCC 11528] gi|331012437|gb|EGH92493.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tabaci ATCC 11528] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VNG + + V + D + + Sbjct: 97 RLDNVVYRMGFGSTRAESRQLVSHKSVSVNGKTVNVPSYQVRAGDVVAI 145 >gi|242089543|ref|XP_002440604.1| hypothetical protein SORBIDRAFT_09g003890 [Sorghum bicolor] gi|241945889|gb|EES19034.1| hypothetical protein SORBIDRAFT_09g003890 [Sorghum bicolor] Length = 299 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 1/59 (1%) Query: 5 NIVQENFTPQRVSKV-IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +Q +R+ +V + R SR ++ I Q +V V+G ++ +A V IE+ Sbjct: 34 QKIQLPKKKRRLDEVCLGRFQQYSRTYIQSWILQGKVIVDGRVVNKAGTQVSDKSVIEI 92 >gi|167037517|ref|YP_001665095.1| hemolysin A [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|320115931|ref|YP_004186090.1| hemolysin A [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166856351|gb|ABY94759.1| hemolysin A [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|319929022|gb|ADV79707.1| hemolysin A [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 264 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 11 FTPQRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ + G S RE + I V V+G +E+A V IE+ Sbjct: 3 SKKERLDVLLVQKGFFSSREKAKASIMAGEVYVDGKKIEKAGEFVNIDSSIEI 55 >gi|317063086|ref|ZP_07927571.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium ulcerans ATCC 49185] gi|313688762|gb|EFS25597.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium ulcerans ATCC 49185] Length = 313 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 26/242 (10%), Positives = 72/242 (29%), Gaps = 36/242 (14%) Query: 8 QENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 EN +R+ + A+R ++++I V++ G + ++ + T+ I V+ Sbjct: 13 DENDKGKRIDSFLNEVIDDATRSYIQKIIDGGYVEITGKKVTKSGNKLKGTETITVNIPE 72 Query: 64 GVPLR-----------KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVG 112 L ++ + + P +V + V L I G Sbjct: 73 DEILDVIPENIPLNIIYEDKDIVVINKAPDMVVHPAHGNYNGTLVNALLYHIKDLSTING 132 Query: 113 RLDINTEGLLLLTNDGGLA------------RVLELPSTQWLRVYRVRFHGQVDQDKLNL 160 + L G + + + + + + + + ++ Sbjct: 133 VIRPGIVHRLDKDTSGVIVVAKNDEAHSTLSDMFKEKTLEKTYICIAKGIFKDKSGRIET 192 Query: 161 LKKGIVIQGICYGDMQ---------VTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 L + + ++ + + V V + G+ +I+ ++ N Sbjct: 193 LIGRDSRDRKKMAVVDINGKNAISNYEILDEEKNFSLVKVRIETGRTHQIRVHMKYLNHP 252 Query: 212 VN 213 + Sbjct: 253 IL 254 >gi|291562745|emb|CBL41561.1| SSU ribosomal protein S4P [butyrate-producing bacterium SS3/4] Length = 197 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A +R+E +++ + V VNG + + V + D +E+ Sbjct: 88 RLDNVIFRLGFARTRKEARQIVDHKHVLVNGKCVNIPSYLVKAGDVVEI 136 >gi|187777365|ref|ZP_02993838.1| hypothetical protein CLOSPO_00921 [Clostridium sporogenes ATCC 15579] gi|187774293|gb|EDU38095.1| hypothetical protein CLOSPO_00921 [Clostridium sporogenes ATCC 15579] Length = 68 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 5/59 (8%) Query: 10 NFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 N ++ + +G + S E + I VKVNG + +R + D IE + Sbjct: 7 NSEIIKLDSFLKWSGATTLGS--EAKFFIQNGEVKVNGEIEKRRGRKLKIGDLIEFNNE 63 >gi|170758477|ref|YP_001785338.1| S4 domain-containing protein [Clostridium botulinum A3 str. Loch Maree] gi|169405466|gb|ACA53877.1| S4 domain protein [Clostridium botulinum A3 str. Loch Maree] Length = 68 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 5/59 (8%) Query: 10 NFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 N ++ + +G + S E + I VKVNG + +R + D IE + Sbjct: 7 NSEIIKLDSFLKWSGATTLGS--EAKFFIQNGEVKVNGEIEKRRGRKLKIGDLIEFNNE 63 >gi|150025382|ref|YP_001296208.1| 30S ribosomal protein S4 [Flavobacterium psychrophilum JIP02/86] gi|172048611|sp|A6GZ74|RS4_FLAPJ RecName: Full=30S ribosomal protein S4 gi|149771923|emb|CAL43397.1| 30S ribosomal protein S4 [Flavobacterium psychrophilum JIP02/86] Length = 201 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R GIA +RR ++++ + V VNG L+ + ++ D + V Sbjct: 94 RLDNVVYRMGIAPTRRAARQIVSHRHVTVNGELVNVPSYHLKPGDKVAV 142 >gi|323141904|ref|ZP_08076765.1| pseudouridine synthase, RluA family [Phascolarctobacterium sp. YIT 12067] gi|322413651|gb|EFY04509.1| pseudouridine synthase, RluA family [Phascolarctobacterium sp. YIT 12067] Length = 314 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 34/247 (13%), Positives = 73/247 (29%), Gaps = 36/247 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 + + I+ E QR +A +R +++++ + R V G + ++ + D I+ Sbjct: 11 QQRLIITEQEAGQRADVGLAAMLELTRSNMQKLLEEGR-AVRGSKVLKSNYKLRLGDEID 69 Query: 62 V--------DGVP------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 V D P + + + + +V + + V L + Sbjct: 70 VTLPEPQPLDVQPENIPLDIIYEDEDVVVVNKARGMVVHPAAGNLNGTLVNALLYHCKNL 129 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ------------ 155 G + L G + + L Q Sbjct: 130 SGINGVIRPGIVHRLDKDTSGIMICAKNDAAHLSLSQQIQAKTAQRTYLAVVRGNIKTDS 189 Query: 156 ---------DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 DK + K +V +G + + + G V LR G+ +I+ E Sbjct: 190 GVIETLIARDKNDRKKMAVVKEGGRDAVTEYEVLERFGKYTIVRCRLRTGRTHQIRVHME 249 Query: 207 FFNWKVN 213 + + + Sbjct: 250 YLGYPLV 256 >gi|319898141|ref|YP_004136338.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3031] gi|317433647|emb|CBY82032.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3031] Length = 324 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 30/238 (12%), Positives = 61/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L V Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|315103148|gb|EFT75124.1| pseudouridine synthase, RluA family [Propionibacterium acnes HL050PA2] Length = 306 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 32/243 (13%), Positives = 65/243 (26%), Gaps = 38/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--- 63 V + +RV AR SR + +I V ++G L+ RA+V V + ++VD Sbjct: 6 VPDGLDGERVDVAAARMSGVSRSRISSLIEDGGVFLDGQLVSRASVRVATGQMLDVDLCD 65 Query: 64 -------------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 G+ + + + + +G S V + F+ S Sbjct: 66 PVATPSITPQIVEGMRIIHDDSDIVVVDKPAGVAAHPSLGWEGPSVVEHLAAAGFAISTS 125 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPST---------------------QWLRVYRVRF 149 L + G + + + Sbjct: 126 GAPERQGIVQRLDVGTSGLMVVAKSEHAYTLLKQAFRDRTVDKVYLALVQGHPDPFTGTI 185 Query: 150 HGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + +D + K ++ G + + V L G+ +I+ Sbjct: 186 DAPIGRDHRHDW-KMAIVDGGRHSVTHYETVEAFRHATLLKVHLETGRTHQIRVHMAAIK 244 Query: 210 WKV 212 Sbjct: 245 HPC 247 >gi|292492445|ref|YP_003527884.1| ribosomal protein S4 [Nitrosococcus halophilus Nc4] gi|291581040|gb|ADE15497.1| ribosomal protein S4 [Nitrosococcus halophilus Nc4] Length = 208 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++I+ + + VNG ++ + + + D + V Sbjct: 99 RLDNVVYRMGFGSTRAEARQLISHKGILVNGKVINVPSYQIRAEDVVSV 147 >gi|261493667|ref|ZP_05990186.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261494334|ref|ZP_05990828.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype A2 str. OVINE] gi|261309983|gb|EEY11192.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype A2 str. OVINE] gi|261310667|gb|EEY11851.1| 23S rRNA pseudouridine synthase D [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 325 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 24/230 (10%), Positives = 54/230 (23%), Gaps = 31/230 (13%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNV------------------M 55 R+ + +A+ SR ++ I VKVNG ++ +A V Sbjct: 19 RLDQALAQLFPDYSRSRIKVWIESDLVKVNGNIVNKAREKVFGGETVEITAEIEEEIRFE 78 Query: 56 STD----HIEVDGVPLRKAERTRLWLYHKPIG---LVTTHSDPDGRSTVFDNLPSIFSRV 108 D + D + + L ++ V I R+ Sbjct: 79 PQDIPLNIVYEDDDIIVINKPKDLVVHPGAGNPDGTVLNALLHYYPPIAEVPRAGIVHRL 138 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-----KLNLLKK 163 + + A + ++ + D Sbjct: 139 DKDTTGLMVVAKNIPAQTHLVTALQKRRITREYEAIASGIMTQGGKVDEPMARHPTKRTA 198 Query: 164 GIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + Sbjct: 199 MAVHPMGKPAVTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 248 >gi|260589250|ref|ZP_05855163.1| ribosomal protein S4 [Blautia hansenii DSM 20583] gi|331082658|ref|ZP_08331781.1| 30S ribosomal protein S4 [Lachnospiraceae bacterium 6_1_63FAA] gi|260540331|gb|EEX20900.1| ribosomal protein S4 [Blautia hansenii DSM 20583] gi|330400277|gb|EGG79919.1| 30S ribosomal protein S4 [Lachnospiraceae bacterium 6_1_63FAA] Length = 197 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G+A +R+E +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVIFRMGLARTRKEARQIVDHKHVMVNGKQVNIPSYLVKAGDVIEI 136 >gi|323492143|ref|ZP_08097305.1| 30S ribosomal protein S4 [Vibrio brasiliensis LMG 20546] gi|323313704|gb|EGA66806.1| 30S ribosomal protein S4 [Vibrio brasiliensis LMG 20546] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNIPSFKVAANDVVSI 145 >gi|222528664|ref|YP_002572546.1| RNA-binding S4 domain-containing protein [Caldicellulosiruptor bescii DSM 6725] gi|222455511|gb|ACM59773.1| RNA-binding S4 domain protein [Caldicellulosiruptor bescii DSM 6725] Length = 80 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR ++ RV VNG + + + +V D IEV Sbjct: 1 MRIDKYLKVSRIIKRRTLAQQACEAGRVFVNGKVAK-PSTDVKVGDVIEV 49 >gi|162447341|ref|YP_001620473.1| rRNA methyltransferase [Acholeplasma laidlawii PG-8A] gi|161985448|gb|ABX81097.1| rRNA methyltransferase, putative [Acholeplasma laidlawii PG-8A] Length = 232 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 6/51 (11%), Positives = 22/51 (43%), Gaps = 1/51 (1%) Query: 14 QRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ K + +R + I + V ++ ++ + + +V+ ++ + Sbjct: 1 MRLDKYLTDHYKDITRSQFSDFIKRGFVTIDDKVITKPSFDVLEHHVVKFN 51 >gi|154509029|ref|ZP_02044671.1| hypothetical protein ACTODO_01546 [Actinomyces odontolyticus ATCC 17982] gi|153798663|gb|EDN81083.1| hypothetical protein ACTODO_01546 [Actinomyces odontolyticus ATCC 17982] Length = 76 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 10/34 (29%), Positives = 17/34 (50%) Query: 30 EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 + +I V VNG + R ++ + D +EVD Sbjct: 29 QARELIQAGDVTVNGEVETRRGHHLSAGDLVEVD 62 >gi|149187050|ref|ZP_01865357.1| pseudouridine synthase D large subunit [Erythrobacter sp. SD-21] gi|148829339|gb|EDL47783.1| pseudouridine synthase D large subunit [Erythrobacter sp. SD-21] Length = 318 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 56/238 (23%), Gaps = 45/238 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMST----------------- 57 R+ K +A A SR V+ +IA V++ G A+ V Sbjct: 16 RLDKALADATGLSRERVKGLIADGVVEIAGKAARSASAKVAEGERYFIALPPPEPLETVA 75 Query: 58 DHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI------FSRVISV 111 I +D + + L + +V + + V L + V Sbjct: 76 QDIPLD---VVFEDAYLLVVNKPAGMVVHPAAGNPDGTLVNALLHHCAGRLSGINGVARP 132 Query: 112 GRLDINTEGLLL-----------------LTNDGGLARVLELPSTQWLRVYRVRFHGQVD 154 G + + + R L + Sbjct: 133 GIVHRIDKDTSGLLVVAKSDAAHEGLAKQFADHSITRRYLAACAGHPNPPSGTVSGRIGR 192 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA--WVTVGLREGKNREIKKVFEFFNW 210 D+ + +T + N + L G+ +++ Sbjct: 193 SDRDRKKMAVLPDDSTRGKHAVTHYETVRRLNHAALIECRLETGRTHQVRVHCASIGH 250 >gi|148378014|ref|YP_001252555.1| S4 domain protein [Clostridium botulinum A str. ATCC 3502] gi|153932828|ref|YP_001382413.1| S4 domain-containing protein [Clostridium botulinum A str. ATCC 19397] gi|153936289|ref|YP_001385965.1| S4 domain-containing protein [Clostridium botulinum A str. Hall] gi|153938642|ref|YP_001389372.1| S4 domain-containing protein [Clostridium botulinum F str. Langeland] gi|168181118|ref|ZP_02615782.1| S4 domain protein [Clostridium botulinum NCTC 2916] gi|170757697|ref|YP_001779629.1| S4 domain-containing protein [Clostridium botulinum B1 str. Okra] gi|226947225|ref|YP_002802316.1| S4 domain protein [Clostridium botulinum A2 str. Kyoto] gi|148287498|emb|CAL81557.1| putative RNA-binding mediating protein [Clostridium botulinum A str. ATCC 3502] gi|152928872|gb|ABS34372.1| S4 domain protein [Clostridium botulinum A str. ATCC 19397] gi|152932203|gb|ABS37702.1| S4 domain protein [Clostridium botulinum A str. Hall] gi|152934538|gb|ABS40036.1| S4 domain protein [Clostridium botulinum F str. Langeland] gi|169122909|gb|ACA46745.1| S4 domain protein [Clostridium botulinum B1 str. Okra] gi|182668110|gb|EDT80089.1| S4 domain protein [Clostridium botulinum NCTC 2916] gi|226841527|gb|ACO84193.1| S4 domain protein [Clostridium botulinum A2 str. Kyoto] gi|295317479|gb|ADF97856.1| S4 domain protein [Clostridium botulinum F str. 230613] gi|322804281|emb|CBZ01831.1| hypothetical protein H04402_00003 [Clostridium botulinum H04402 065] Length = 68 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 5/59 (8%) Query: 10 NFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 N ++ + +G + S E + I VKVNG + +R + D IE + Sbjct: 7 NSEIIKLDSFLKWSGATTLGS--EAKFFIQNGEVKVNGEIEKRRGRKLKIDDLIEFNNE 63 >gi|118474954|ref|YP_892206.1| pseudouridine synthase [Campylobacter fetus subsp. fetus 82-40] gi|118414180|gb|ABK82600.1| pseudouridine synthase [Campylobacter fetus subsp. fetus 82-40] Length = 254 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 26/198 (13%), Positives = 61/198 (30%), Gaps = 2/198 (1%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG--VPLRKAERTRL 75 K++A S E + +I V G L A + +V P+ E + Sbjct: 8 KLLALQEGISNNEAKELIDSGLVSAGGKRLVLARGLLNENTSFKVTKLAKPVMIYEDDNI 67 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 +KP + + + + + L S VI + + + + + + + + Sbjct: 68 VAVNKPPFITSEKVAEIFKFPLLNRLDKETSGVILLYKNEEFQKAAIKEFANNKVKKTYL 127 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + + I + V+ +G + + VG+ Sbjct: 128 AIVRGIVVDEFSVELPISTVKTKSGAFSKIDLSRGKTAITHVSPLMVEGKKSLIKVGIET 187 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + + V Sbjct: 188 GRTHQIRCHLAYSGYGVI 205 >gi|325843404|ref|ZP_08167962.1| ribosomal protein S4 [Turicibacter sp. HGF1] gi|325489326|gb|EGC91700.1| ribosomal protein S4 [Turicibacter sp. HGF1] Length = 199 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 10/49 (20%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR+ +++ + V+G ++ + +V I + Sbjct: 92 RLDNLVYRLGLAATRRQARQLVNHGHITVDGKRVDIPSYSVKPGQTISL 140 >gi|167564391|ref|ZP_02357307.1| 30S ribosomal protein S4 [Burkholderia oklahomensis EO147] gi|167571538|ref|ZP_02364412.1| 30S ribosomal protein S4 [Burkholderia oklahomensis C6786] Length = 207 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + +NG++ + V + D I + Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITLNGVVANVPSQQVKAGDVISI 146 >gi|46198348|ref|YP_004015.1| ribosomal large subunit pseudouridine synthase D [Thermus thermophilus HB27] gi|46195970|gb|AAS80388.1| ribosomal large subunit pseudouridine synthase D [Thermus thermophilus HB27] Length = 300 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 26/233 (11%), Positives = 68/233 (29%), Gaps = 33/233 (14%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN----------------VMST 57 R+ + +A A SR + + I RV+V ++ + A V+ Sbjct: 1 MRLDQAVAEALSVSRAKAQAWIQAGRVRVGDRVVLKPAYRLKGEEVAVEPVEEAPMVLPE 60 Query: 58 DH---IEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRL 114 D I + + + L H G+ + + + + ++ G + Sbjct: 61 DLPIPILYEDEDVLALNKPPGLLTHPAPGVYSGTVVNLLLARYYGPVEKGPPELVRPGIV 120 Query: 115 DINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDK------------LNLLK 162 + + VLE + + ++ + + + + Sbjct: 121 HRLDKDTSGVLVVAKHGGVLEGLARAFRDRLVMKRYLAITEGHPREGVLIAPIGRHPRER 180 Query: 163 KGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + G+ + + G A V G+ +I+ ++ + Sbjct: 181 HKMHVGGLAARYAETEFQVLATAGPYALVEARPHTGRTHQIRVHLKYLGAPIL 233 >gi|270159531|ref|ZP_06188187.1| ribosomal large subunit pseudouridine synthase D [Legionella longbeachae D-4968] gi|289165671|ref|YP_003455809.1| Ribosomal large subunit pseudouridine synthase D (Pseudouridylate synthase) (Uracil hydrolyase) [Legionella longbeachae NSW150] gi|269987870|gb|EEZ94125.1| ribosomal large subunit pseudouridine synthase D [Legionella longbeachae D-4968] gi|288858844|emb|CBJ12758.1| Ribosomal large subunit pseudouridine synthase D (Pseudouridylate synthase) (Uracil hydrolyase) [Legionella longbeachae NSW150] Length = 321 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 36/249 (14%), Positives = 67/249 (26%), Gaps = 38/249 (15%) Query: 1 MKDKNIVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K + + + QR+ +A SR ++ I + +N + V D Sbjct: 5 IKKQLTIPREYHNQRIDTALAHLLSDYSRSQISNWIKCGSIMLNHQSCK-PKDKVEDGDL 63 Query: 60 IEVD---GVP---------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNL 101 I+++ + + L L +V + + V L Sbjct: 64 IDINVNFNKTDTNLEHCIPEEIPLNIIYEDDDVLVLNKPANMVVHPGAGNKEHTLVNALL 123 Query: 102 PS-----IFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR---------- 146 R V RLD +T GLL++ L Sbjct: 124 HHSPSLIHLPRAGIVHRLDKDTTGLLIIAKTLPAHTSLIRQMQAREIKRHYITLVQGHII 183 Query: 147 --VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 + N LK + G + Q + V L G+ +I+ Sbjct: 184 SGGTIDTGFGRHPRNRLKMAVQEHGRQA-ITHYAVKKQYHDFTLLDVNLMTGRTHQIRVH 242 Query: 205 FEFFNWKVN 213 + + V Sbjct: 243 LAYIHHPVV 251 >gi|291614496|ref|YP_003524653.1| pseudouridine synthase, RluA family [Sideroxydans lithotrophicus ES-1] gi|291584608|gb|ADE12266.1| pseudouridine synthase, RluA family [Sideroxydans lithotrophicus ES-1] Length = 331 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 23/231 (9%), Positives = 52/231 (22%), Gaps = 33/231 (14%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP------- 66 R+ + + + SR ++ + Q V VNG V +HI V Sbjct: 33 RLDQALVKLFPEYSRSRLQDWVEQGLVTVNGK-AGSVKQKVWGGEHISVSPQIHPSEQPY 91 Query: 67 --------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----------SR 107 + + L + +V S + + L R Sbjct: 92 HAEDIPLDIVYEDDAMLIINKPVGLVVHPGSGNWQGTLLNALLHHAPQLADVPRAGIVHR 151 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI 167 + + L+ ++L + + + Sbjct: 152 LDKDTSGLMVVAKSLVAQTALVRQMQARSVKREYLALVWGELDRDYTINVPIGRHPSQRV 211 Query: 168 QGICYGDMQVTLDTQKGSN-----AWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + V L G+ +I+ + Sbjct: 212 KMATTESGKEAITHVGIEERFPYCTLVRCRLETGRTHQIRVHMTHIGHPLI 262 >gi|183600728|ref|ZP_02962221.1| hypothetical protein PROSTU_04324 [Providencia stuartii ATCC 25827] gi|212709003|ref|ZP_03317131.1| hypothetical protein PROVALCAL_00035 [Providencia alcalifaciens DSM 30120] gi|268593565|ref|ZP_06127786.1| ribosomal protein S4 [Providencia rettgeri DSM 1131] gi|188019708|gb|EDU57748.1| hypothetical protein PROSTU_04324 [Providencia stuartii ATCC 25827] gi|212688369|gb|EEB47897.1| hypothetical protein PROVALCAL_00035 [Providencia alcalifaciens DSM 30120] gi|291310842|gb|EFE51295.1| ribosomal protein S4 [Providencia rettgeri DSM 1131] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E +M++ + + VNG ++ A+ V D I V +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQMVSHKAIMVNGRVVNIASYQVSPNDVISVREKAKKQSRIK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|329298510|ref|ZP_08255846.1| 30S ribosomal protein S4 [Plautia stali symbiont] Length = 206 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + + +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKSVMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|291484092|dbj|BAI85167.1| hypothetical protein BSNT_02544 [Bacillus subtilis subsp. natto BEST195] Length = 257 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 28/62 (45%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D I + + R+ V A SR++ + ++ VKVN ++E + V D + + Sbjct: 170 DVEIRDDTVSSLRLDAVCASMSRQSRQKSQTLVKNGLVKVNWKVVEDPSYIVAEGDMLSI 229 Query: 63 DG 64 G Sbjct: 230 RG 231 >gi|49483170|ref|YP_040394.1| RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257425058|ref|ZP_05601484.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 55/2053] gi|257427722|ref|ZP_05604120.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 65-1322] gi|257430357|ref|ZP_05606739.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 68-397] gi|257433061|ref|ZP_05609419.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus E1410] gi|257435958|ref|ZP_05612005.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M876] gi|282903554|ref|ZP_06311442.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus aureus subsp. aureus C160] gi|282905328|ref|ZP_06313183.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus Btn1260] gi|282908301|ref|ZP_06316132.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WW2703/97] gi|282910585|ref|ZP_06318388.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WBG10049] gi|282913781|ref|ZP_06321568.1| ribosomal large subunit pseudouridine synthase, RluD subfamily protein [Staphylococcus aureus subsp. aureus M899] gi|282918706|ref|ZP_06326441.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C427] gi|282923814|ref|ZP_06331490.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C101] gi|283957751|ref|ZP_06375202.1| RluD subfamily ribosomal large subunit pseudouridine synthase [Staphylococcus aureus subsp. aureus A017934/97] gi|293500819|ref|ZP_06666670.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus 58-424] gi|293509774|ref|ZP_06668483.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus M809] gi|293526360|ref|ZP_06671045.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus aureus subsp. aureus M1015] gi|295427495|ref|ZP_06820127.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus EMRSA16] gi|297591555|ref|ZP_06950193.1| ribosomal large subunit pseudouridine synthase [Staphylococcus aureus subsp. aureus MN8] gi|49241299|emb|CAG39980.1| putative RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus MRSA252] gi|257272034|gb|EEV04166.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 55/2053] gi|257274563|gb|EEV06050.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 65-1322] gi|257278485|gb|EEV09104.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 68-397] gi|257281154|gb|EEV11291.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus E1410] gi|257284240|gb|EEV14360.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M876] gi|282313786|gb|EFB44178.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C101] gi|282316516|gb|EFB46890.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus C427] gi|282321849|gb|EFB52173.1| ribosomal large subunit pseudouridine synthase, RluD subfamily protein [Staphylococcus aureus subsp. aureus M899] gi|282325190|gb|EFB55499.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WBG10049] gi|282327966|gb|EFB58248.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus WW2703/97] gi|282330620|gb|EFB60134.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus Btn1260] gi|282595172|gb|EFC00136.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus aureus subsp. aureus C160] gi|283789900|gb|EFC28717.1| RluD subfamily ribosomal large subunit pseudouridine synthase [Staphylococcus aureus subsp. aureus A017934/97] gi|290920432|gb|EFD97495.1| ribosomal large subunit pseudouridine synthase, RluD subfamily [Staphylococcus aureus subsp. aureus M1015] gi|291095824|gb|EFE26085.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus 58-424] gi|291467224|gb|EFF09741.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus M809] gi|295127853|gb|EFG57487.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus EMRSA16] gi|297576441|gb|EFH95157.1| ribosomal large subunit pseudouridine synthase [Staphylococcus aureus subsp. aureus MN8] gi|312438620|gb|ADQ77691.1| ribosomal large subunit pseudouridine synthase [Staphylococcus aureus subsp. aureus TCH60] gi|315193667|gb|EFU24062.1| putative RNA pseudouridylate synthase [Staphylococcus aureus subsp. aureus CGS00] Length = 284 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 26/199 (13%), Positives = 56/199 (28%), Gaps = 28/199 (14%) Query: 42 VNGILLERAAVNVMSTDHIEVD---------------GVPLRKAERTRLWLYHKPIGLVT 86 VN + +M D +E+ + + + + + T Sbjct: 38 VNDEPVTV-RKQLMPNDILEIHLPREIPSVNLIPYARKLEVLYEDAFVIIVTKPNNQNCT 96 Query: 87 THSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTNDGGLARVLELPSTQ- 140 + S + L V RLD NT G+++ G + + + + Sbjct: 97 PSREHPHESLIEQVLYHCQEHGENINPHIVTRLDRNTTGIVIFAKYGHIHHLFSKVNLKK 156 Query: 141 -WLRVYRVRFHGQVDQDKLNLLKKGIVI-----QGICYGDMQVTLDTQKGSNAWVTVGLR 194 + + + H + K +I Y + Q + V L Sbjct: 157 IYTCLVYGKTHTFGIIEANIRRSKDSIITREVASDGKYAKTSYEVINQNDKYSLCKVHLH 216 Query: 195 EGKNREIKKVFEFFNWKVN 213 G+ +I+ F+ + Sbjct: 217 TGRTHQIRVHFQHIGHPIV 235 >gi|269959712|ref|ZP_06174092.1| 30S ribosomal protein S4 [Vibrio harveyi 1DA3] gi|269835635|gb|EEZ89714.1| 30S ribosomal protein S4 [Vibrio harveyi 1DA3] Length = 202 Score = 49.0 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D + + Sbjct: 93 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFKVAANDVVSI 141 >gi|327395480|dbj|BAK12902.1| 30S ribosomal protein S4 RpsD [Pantoea ananatis AJ13355] Length = 176 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + + +++ Sbjct: 67 RLDNVVYRMGFGATRAEARQLVSHKSVLVNGRVVNIASYQVSPNDVVSIREKAKKQSRVK 126 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 127 AALELAEQREKPT 139 >gi|326516230|dbj|BAJ88138.1| predicted protein [Hordeum vulgare subsp. vulgare] Length = 318 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 12/36 (33%), Positives = 19/36 (52%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 SR ++ I Q +V VNG ++ +A V IE+ Sbjct: 56 SRTYIQSWILQGKVHVNGRVVNKAGTQVSDKSVIEI 91 >gi|291336629|gb|ADD96175.1| hypothetical protein [uncultured organism MedDCM-OCT-S05-C185] Length = 74 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 23/73 (31%), Positives = 38/73 (52%) Query: 205 FEFFNWKVNRLIRISYGPFQLGTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSS 264 + + +VNRLIR+++GPFQLG L AG+ EV + L+EQL + + ++ Sbjct: 1 MDSIDLQVNRLIRVAFGPFQLGNLSAGAVEEVPENKLKEQLSVFNESQNKNIKVMRGKNA 60 Query: 265 ETLVRDRPNIISE 277 + R + S Sbjct: 61 HYIRRKARSKASN 73 >gi|227503700|ref|ZP_03933749.1| possible hemolysin A [Corynebacterium accolens ATCC 49725] gi|227075736|gb|EEI13699.1| possible hemolysin A [Corynebacterium accolens ATCC 49725] Length = 268 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + R IA SR + MI RV V G E+ A V I+V+ Sbjct: 7 RLDAELVRRKIARSREQAREMIKSGRVTVGGFKAEKPATVVDPEVSIKVE 56 >gi|163853708|ref|YP_001641751.1| hemolysin A [Methylobacterium extorquens PA1] gi|163665313|gb|ABY32680.1| hemolysin A [Methylobacterium extorquens PA1] Length = 250 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 3/53 (5%) Query: 12 TPQRV--SKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 T +R+ + + G SR + I V +G L+ R + V + IE Sbjct: 2 TGERLRADRFLVERGHFRSRAQARAAIEAGLVSADGRLVTRPSDLVEAGARIE 54 >gi|91786410|ref|YP_547362.1| 30S ribosomal protein S4 [Polaromonas sp. JS666] gi|123060350|sp|Q12G78|RS4_POLSJ RecName: Full=30S ribosomal protein S4 gi|91695635|gb|ABE42464.1| SSU ribosomal protein S4P [Polaromonas sp. JS666] Length = 207 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 1/69 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G S R E ++++ + + VNG + + V + D I V ++ T Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGNSVNIPSYMVKTGDVIAVRDKSKKQTRVT 157 Query: 74 RLWLYHKPI 82 K + Sbjct: 158 EALELAKQV 166 >gi|68248781|ref|YP_247893.1| 23S rRNA pseudouridine synthase D [Haemophilus influenzae 86-028NP] gi|145635280|ref|ZP_01790983.1| ribosomal large subunit pseudouridine synthase D [Haemophilus influenzae PittAA] gi|68056980|gb|AAX87233.1| ribosomal large subunit pseudouridine synthase D [Haemophilus influenzae 86-028NP] gi|145267424|gb|EDK07425.1| ribosomal large subunit pseudouridine synthase D [Haemophilus influenzae PittAA] Length = 324 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 59/238 (24%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVFGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|115484941|ref|NP_001067614.1| Os11g0247400 [Oryza sativa Japonica Group] gi|62734664|gb|AAX96773.1| hemolysin A, putative [Oryza sativa Japonica Group] gi|77549558|gb|ABA92355.1| hemolysin A family protein, expressed [Oryza sativa Japonica Group] gi|113644836|dbj|BAF27977.1| Os11g0247400 [Oryza sativa Japonica Group] Length = 295 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 8/61 (13%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K K + E +R + SR ++ I Q +V V+G ++ +A V IE Sbjct: 41 KKKRRLDEVC-LERFQQY-------SRTYIQSWILQGKVLVDGRVVNKAGTQVSDKSIIE 92 Query: 62 V 62 + Sbjct: 93 I 93 >gi|261346911|ref|ZP_05974555.1| ribosomal protein S4 [Providencia rustigianii DSM 4541] gi|282564977|gb|EFB70512.1| ribosomal protein S4 [Providencia rustigianii DSM 4541] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 16/73 (21%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E +M++ + + VNG ++ A+ V D I V +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQMVSHKAIMVNGRVVNIASYQVSPNDVISVREKAKKQSRIK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|167770733|ref|ZP_02442786.1| hypothetical protein ANACOL_02079 [Anaerotruncus colihominis DSM 17241] gi|167667328|gb|EDS11458.1| hypothetical protein ANACOL_02079 [Anaerotruncus colihominis DSM 17241] Length = 270 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 25/183 (13%), Positives = 52/183 (28%), Gaps = 2/183 (1%) Query: 9 ENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 E +R+ ++ SR + + +I +V +NG ++ ++V IEV G L Sbjct: 2 EGAVKKRLDILLTEKEFFPSREKAKAVIMAGQVYINGQKADKPGMDVAEDADIEVRGDTL 61 Query: 68 RKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTND 127 R R L L D ++ G + + Sbjct: 62 RYVSRGGLKLEKAMQVWPIVLQDQICMDIGAST-GGFTDCMLQNGAAKVYAVDVGYGQLA 120 Query: 128 GGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNA 187 L + + + + + D+ + + + L T + Sbjct: 121 WKLRNDPRVVNLERTNIRNITREQLPDRIDFISIDVSFISLRLVLPVAAQLLCTGGKAVC 180 Query: 188 WVT 190 V Sbjct: 181 LVK 183 >gi|323140952|ref|ZP_08075864.1| ribosomal RNA large subunit methyltransferase J [Phascolarctobacterium sp. YIT 12067] gi|322414555|gb|EFY05362.1| ribosomal RNA large subunit methyltransferase J [Phascolarctobacterium sp. YIT 12067] Length = 274 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 11/59 (18%), Positives = 24/59 (40%), Gaps = 1/59 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G+ SR + + + +V VN +++ V I + G L Sbjct: 2 KKERLDVLLVNRGMFESRAKAQAAVMAGQVLVNEQKIDKPGTPVAPEVTIRLLGNKLPY 60 >gi|219871128|ref|YP_002475503.1| 23S rRNA pseudouridine synthase D [Haemophilus parasuis SH0165] gi|219691332|gb|ACL32555.1| 23S rRNA pseudouridine synthase D [Haemophilus parasuis SH0165] Length = 325 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 20/234 (8%), Positives = 56/234 (23%), Gaps = 39/234 (16%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN-------------------- 53 R+ + +A+ SR ++ I V VNG ++ +A Sbjct: 19 RLDQALAQLFPDYSRSRIKVWIESDLVSVNGKIVNKAREKVFGGELIEIQAEIEEEIRFE 78 Query: 54 --------VMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 V D I V + K + + ++ + + + Sbjct: 79 PQNIPLNIVYEDDDILV----INKPKDLVVHPGAGNPDGTVLNALLHHYPQIAEVPRAGI 134 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL------RVYRVRFHGQVDQDKLN 159 + + + + + T+ + + + Sbjct: 135 VHRLDKDTTGLMVVAKTVPAQTHLVTALQRREITREYEAVASGIMTQGGKVDEPMARHPT 194 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + + L G+ +I+ + Sbjct: 195 KRTAMAVHPMGKPAVTHYRIMERFRNYSRLRLRLETGRTHQIRVHMAHIAHPLL 248 >gi|27807135|ref|NP_777057.1| voltage-dependent N-type calcium channel subunit alpha-1B [Bos taurus] gi|6690638|gb|AAF24229.1|AF173882_1 N-type calcium channel alpha1B subunit [Bos taurus] Length = 2331 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 9/106 (8%), Positives = 23/106 (21%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + R + + P + + +G + + +P Sbjct: 871 RADAPKAEGGEPGAREERARPRRSRSKEAAGPREARSERGRGLGPDGGRRHHRRGSPEEA 930 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A + + RR+ R+ R + Sbjct: 931 AEREPRRHRAHRHAPEPSREGAPGSKGERRARHRGGSRAGPREAES 976 Score = 46.7 bits (109), Expect = 0.006, Method: Composition-based stats. Identities = 10/88 (11%), Positives = 19/88 (21%), Gaps = 2/88 (2%) Query: 266 TLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFL 325 PD R + S + ++ + S A G Sbjct: 902 PREARSERGRGLGPDGGRRHHRRGSPEEAAEREPRRHRAHRHAPEPSREG-APGSKGE-R 959 Query: 326 SDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + + RR A+ Sbjct: 960 RARHRGGSRAGPREAESGEEPSRRHRAR 987 Score = 38.6 bits (88), Expect = 1.3, Method: Composition-based stats. Identities = 23/168 (13%), Positives = 42/168 (25%), Gaps = 36/168 (21%) Query: 223 FQLGTL---LAGSTREVSKKI-LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 +L L E+ + LR HL + + +LD P+ R + Sbjct: 775 LRLQNLRASCEALYSEMDPEERLRFATSRHLRPDMKTHLDRPLVVEPGRDGARGPAGGKA 834 Query: 279 PDDFTRMKKNSSQK---------------NGLSKQKKLATPVHRRNLA------------ 311 + + + + + P Sbjct: 835 RPEGGEAGEGADPPRRHHRHRDRDRDKAAAPAGEPDRADAPKAEGGEPGAREERARPRRS 894 Query: 312 -----SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + A+ L G R + R SP ++R RR A + Sbjct: 895 RSKEAAGPREARSERGRGLGPDGGRRHHRRGSPEEAAEREPRRHRAHR 942 Score = 36.3 bits (82), Expect = 6.7, Method: Composition-based stats. Identities = 14/117 (11%), Positives = 30/117 (25%), Gaps = 9/117 (7%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + D + + + + + + S+ K+ A P Sbjct: 844 GADPPRRHHRHRDRDRDKAAAPAGEPDRADAPKAEGGEPGAREERARPRRSRSKEAAGPR 903 Query: 306 HRRNLASNVWMAKGIHSSFLS--------DSGQREENHRRSPSFPSKRSLRRTSAKK 354 R+ G +R HR +P PS+ + ++ Sbjct: 904 EARSERGRGLGPDGGRRHHRRGSPEEAAEREPRRHRAHRHAP-EPSREGAPGSKGER 959 >gi|326692258|ref|ZP_08229263.1| 30S ribosomal protein S4 [Leuconostoc argentinum KCTC 3773] Length = 203 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 1/53 (1%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 QR+ ++ R G+A+ R++ +++ + V+G ++ + V I V Sbjct: 93 QRLDSLVYRLGLATTRQQARQLVNHGHILVDGQRVDIPSYQVTPGQVISVRDK 145 >gi|283850591|ref|ZP_06367879.1| PSP1 domain protein [Desulfovibrio sp. FW1012B] gi|283574162|gb|EFC22134.1| PSP1 domain protein [Desulfovibrio sp. FW1012B] Length = 443 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/119 (11%), Positives = 24/119 (20%), Gaps = 7/119 (5%) Query: 231 GSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSS 290 G RE++ + + L E Q RP + Sbjct: 252 GEERELTVEEWGTVVEARLPSEGQA-------QPRPAEPGRPETARPEGGRPEGGRPEGG 304 Query: 291 QKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRR 349 + + + R + G S S S + R Sbjct: 305 RSDSRRGEGSSHGRPEGRGEGRDRSRPSGAGGPQASPSPAPSRPAGPSAGPEAGPQAER 363 >gi|254510211|ref|ZP_05122278.1| ribosomal large subunit pseudouridine synthase D [Rhodobacteraceae bacterium KLH11] gi|221533922|gb|EEE36910.1| ribosomal large subunit pseudouridine synthase D [Rhodobacteraceae bacterium KLH11] Length = 344 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 4/54 (7%) Query: 13 PQRVSKVIARAGIA----SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 P R+ K +AR A SR + R+I + V V+G +++ V I + Sbjct: 15 PPRLDKALARDVPAEESLSRTRLARLIGEGAVTVDGAVVDDPKAKVAEDAQIAI 68 >gi|254283192|ref|ZP_04958160.1| ribosomal protein S4 [gamma proteobacterium NOR51-B] gi|219679395|gb|EED35744.1| ribosomal protein S4 [gamma proteobacterium NOR51-B] Length = 154 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E +++A + + +N ++ + V D + + Sbjct: 45 RLDNVVYRMGFGSTRAEARQLVAHKGILINNAVVNIPSYQVKPGDVVSI 93 >gi|168183729|ref|ZP_02618393.1| S4 domain protein [Clostridium botulinum Bf] gi|237793323|ref|YP_002860875.1| S4 domain-containing protein [Clostridium botulinum Ba4 str. 657] gi|182673254|gb|EDT85215.1| S4 domain protein [Clostridium botulinum Bf] gi|229263875|gb|ACQ54908.1| S4 domain protein [Clostridium botulinum Ba4 str. 657] Length = 68 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 5/59 (8%) Query: 10 NFTPQRVSKVIARAG---IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 N ++ + +G + S E + I VKVNG + +R + D IE + Sbjct: 7 NSEIIKLDSFLKWSGATTLGS--EAKFFIQNGEVKVNGEIEKRRGRKLKIGDLIEFNNE 63 >gi|307266987|ref|ZP_07548503.1| ribosomal protein S4 [Thermoanaerobacter wiegelii Rt8.B1] gi|326390634|ref|ZP_08212189.1| ribosomal protein S4 [Thermoanaerobacter ethanolicus JW 200] gi|306917972|gb|EFN48230.1| ribosomal protein S4 [Thermoanaerobacter wiegelii Rt8.B1] gi|325993312|gb|EGD51749.1| ribosomal protein S4 [Thermoanaerobacter ethanolicus JW 200] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SR + ++++ ++VNG ++ + V D I V Sbjct: 99 RLDNVVYRLGFAASRPQARQLVSHGHIEVNGKKVDIPSFLVKPGDVISV 147 >gi|257463990|ref|ZP_05628375.1| 30S ribosomal protein S4 [Fusobacterium sp. D12] gi|317061512|ref|ZP_07925997.1| SSU ribosomal protein S4P [Fusobacterium sp. D12] gi|313687188|gb|EFS24023.1| SSU ribosomal protein S4P [Fusobacterium sp. D12] Length = 195 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR+ ++++ V VNG + A+ V D I V Sbjct: 89 RLENVVYRLGFAKTRRQARQIVSHGHVTVNGRRVNIASYRVKVGDVIAV 137 >gi|224438280|ref|ZP_03659207.1| ribosomal pseudouridine synthase [Helicobacter cinaedi CCUG 18818] gi|313144719|ref|ZP_07806912.1| ribosomal pseudouridine synthase [Helicobacter cinaedi CCUG 18818] gi|313129750|gb|EFR47367.1| ribosomal pseudouridine synthase [Helicobacter cinaedi CCUG 18818] Length = 245 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 25/198 (12%), Positives = 58/198 (29%), Gaps = 2/198 (1%) Query: 18 KVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLRKAERTRL 75 K++A+A S + +I + V NG + A + + + + EV P E ++ Sbjct: 8 KLLAKAKCISHNLAKSLIDKGLVSSNGKKITIARLELPLSANFEVAEIKKPKVIFEDKQI 67 Query: 76 WLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLE 135 KP + + + + + + + + L A E Sbjct: 68 LALDKPPFIESYDLSDMFEGWSLLHRLDKQTSGVILLIQENSPFHLKAKEAFKKQAVYKE 127 Query: 136 LPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLRE 195 + + K + + Q+T + G + Sbjct: 128 YICLLHGILADSITINKPISTIKKGFAKSRIDKNGLSAHTQLTPLSIVGKKTQAQAIITT 187 Query: 196 GKNREIKKVFEFFNWKVN 213 G+ +I+ + N + Sbjct: 188 GRTHQIRVHCQSINHPIV 205 >gi|15828588|ref|NP_325948.1| ribosomal large subunit pseudouridine synthase C (pseudouridylate synthase) (uracil hydrolyase) [Mycoplasma pulmonis UAB CTIP] gi|14089530|emb|CAC13290.1| RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE C (PSEUDOURIDYLATE SYNTHASE) (URACIL HYDROLYASE) [Mycoplasma pulmonis] Length = 282 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 24/253 (9%), Positives = 64/253 (25%), Gaps = 45/253 (17%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG----------VPLRKA-----E 71 SR ++++ ++ +KVNG V D I++ G + + E Sbjct: 29 SR--IQKLFREKDIKVNGKRNIDKNFIVSKDDLIQIYGLTNVKQKLVFKKIEQKFNVIFE 86 Query: 72 RTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLA 131 + + +K G+ + V L + + + Sbjct: 87 DQNILVINKQAGVSMHSDENSLDKQVLSYLNFKQVDSFVPSSIGRLDKVTSGVVVYAKNY 146 Query: 132 RVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDM----QVTLDTQKGSNA 187 +L+ + F + + ++ + + ++ K + Sbjct: 147 SILKTLKSNEHLRKTYVFMSNITLEPNQKIEHVFYHKYNPIKKKAELFKENVEESKITKT 206 Query: 188 WVTVG-------LREGKNREIKKVFEFFNWKV-------------NRLIRISYGPFQLGT 227 + L G+ +I+ + + L L Sbjct: 207 LLYKVKNNNYAELITGRKHQIRATLSKLGFPIFGDVKYGGKKDKRVYLHSYKIKFHSLK- 265 Query: 228 LLAGSTREVSKKI 240 G ++ + Sbjct: 266 ---GEFEYLNNQE 275 >gi|222056129|ref|YP_002538491.1| hemolysin A [Geobacter sp. FRC-32] gi|221565418|gb|ACM21390.1| hemolysin A [Geobacter sp. FRC-32] Length = 247 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R+ K++ +A SR + +I +V V+ L ++A V I + G L Sbjct: 4 ERLDKILLDRRLAPSRERAKALIMAGQVVVDDHLADKAGQMVAVDAEIRLKGEVLP 59 >gi|304407040|ref|ZP_07388694.1| hemolysin A [Paenibacillus curdlanolyticus YK9] gi|304344027|gb|EFM09867.1| hemolysin A [Paenibacillus curdlanolyticus YK9] Length = 277 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 13/57 (22%), Positives = 25/57 (43%), Gaps = 1/57 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRK 69 +R+ ++ G SR + + + V V+G +E++ + V I V G P Sbjct: 6 ERIDVLLVEQGFYESREKAKAAVMAGLVLVDGDRMEKSGMKVPRAATITVKGAPHPY 62 >gi|254520694|ref|ZP_05132750.1| S4 domain-containing protein [Clostridium sp. 7_2_43FAA] gi|226914443|gb|EEH99644.1| S4 domain-containing protein [Clostridium sp. 7_2_43FAA] Length = 68 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 1/62 (1%) Query: 10 NFTPQRVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 N ++ + G AS E + I + VKVN + + + D +E +G + Sbjct: 7 NTEFIKLDSFLKWCGAASLGSEAKMYILDEMVKVNDEVCTQRGKKLKQGDIVEFNGEKYK 66 Query: 69 KA 70 Sbjct: 67 II 68 >gi|145628474|ref|ZP_01784274.1| SfhB [Haemophilus influenzae 22.1-21] gi|144978944|gb|EDJ88630.1| SfhB [Haemophilus influenzae 22.1-21] Length = 324 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 58/238 (24%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV--- 62 VQ QR+ + +A SR ++ I V +N + V + IE+ Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVNLNDRIANIPREKVFGGERIEIIVE 69 Query: 63 --DGVP---------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 D + + + + +V + + + L Sbjct: 70 VEDDTRFEPENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIAEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|220930992|ref|YP_002507900.1| ribosomal protein S4 [Halothermothrix orenii H 168] gi|254764592|sp|B8D0T6|RS4_HALOH RecName: Full=30S ribosomal protein S4 gi|219992302|gb|ACL68905.1| ribosomal protein S4 [Halothermothrix orenii H 168] Length = 208 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 1/66 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G+A SR E + + + VNG + + V D I V + Sbjct: 99 RLDNVVYRLGLATSRNEARQFVLHGHILVNGRKVNIPSYLVDEGDVISVKDSSRKSKRFK 158 Query: 74 RLWLYH 79 ++ ++ Sbjct: 159 EVFEFN 164 >gi|89069368|ref|ZP_01156727.1| S4 domain protein [Oceanicola granulosus HTCC2516] gi|89045135|gb|EAR51206.1| S4 domain protein [Oceanicola granulosus HTCC2516] Length = 128 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 16/71 (22%), Positives = 30/71 (42%), Gaps = 2/71 (2%) Query: 7 VQENFTPQRVSKVIARA-GIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV-DG 64 + E + R+ K + +A SR ++ RV+V+G + + A V + D + G Sbjct: 1 MNEPRSTIRLDKWLWQARFFKSRSLAAEIVGNGRVRVDGQPVSKPARAVGAGDVLTFPQG 60 Query: 65 VPLRKAERTRL 75 +R L Sbjct: 61 QAVRVVRILAL 71 >gi|238916291|ref|YP_002929808.1| small subunit ribosomal protein S4 [Eubacterium eligens ATCC 27750] gi|259495278|sp|C4Z2V6|RS4_EUBE2 RecName: Full=30S ribosomal protein S4 gi|238871651|gb|ACR71361.1| small subunit ribosomal protein S4 [Eubacterium eligens ATCC 27750] Length = 197 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +R+E +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVLFRLGFARTRKEARQIVDHKHVLVNGKCVNIPSYLVKAGDVIEI 136 >gi|225870034|ref|YP_002745981.1| hypothetical protein SEQ_0625 [Streptococcus equi subsp. equi 4047] gi|225699438|emb|CAW92932.1| conserved hypothetical protein [Streptococcus equi subsp. equi 4047] Length = 264 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 17/50 (34%), Positives = 27/50 (54%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 RV ++IA SR + R++ +VKVN L+ +A+ V D I + G Sbjct: 187 RVDRLIATVLKQSRNQAIRLVEAGKVKVNYQLVTKASQPVAVGDLISIRG 236 >gi|222098129|ref|YP_002532186.1| 30S ribosomal protein s4 [Bacillus cereus Q1] gi|254764569|sp|B9J159|RS4_BACCQ RecName: Full=30S ribosomal protein S4 gi|221242187|gb|ACM14897.1| ribosomal protein S4 (30S ribosomal protein S4) [Bacillus cereus Q1] Length = 200 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G+A +RR +++ + V+G ++ + V I V Sbjct: 93 RLDNLVYRMGLARTRRAARQLVNHGHITVDGSRVDIPSYRVKPGQTISV 141 >gi|72162433|ref|YP_290090.1| hemolysin A [Thermobifida fusca YX] gi|71916165|gb|AAZ56067.1| hemolysin A [Thermobifida fusca YX] Length = 266 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 4/57 (7%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV---DGVPL 67 R+ + R G A SR +IA RV+V G L +AA V I V D P+ Sbjct: 6 RLDAELVRRGHARSRAHAAELIAAGRVRVAGTLATKAATQVGVDQAIVVEQADDEPV 62 >gi|15924709|ref|NP_372243.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus Mu50] gi|15927296|ref|NP_374829.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus N315] gi|21283391|ref|NP_646479.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus MW2] gi|49486544|ref|YP_043765.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus MSSA476] gi|57652018|ref|YP_186603.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus COL] gi|82751307|ref|YP_417048.1| 30S ribosomal protein S4 [Staphylococcus aureus RF122] gi|87159914|ref|YP_494360.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88195529|ref|YP_500334.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148268198|ref|YP_001247141.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus JH9] gi|150394266|ref|YP_001316941.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus JH1] gi|151221825|ref|YP_001332647.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus str. Newman] gi|156980036|ref|YP_001442295.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus Mu3] gi|161509934|ref|YP_001575593.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253315106|ref|ZP_04838319.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|253732369|ref|ZP_04866534.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|255006504|ref|ZP_05145105.2| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257794103|ref|ZP_05643082.1| 30S ribosomal protein S4 [Staphylococcus aureus A9781] gi|258415807|ref|ZP_05682078.1| 30S ribosomal protein S4 [Staphylococcus aureus A9763] gi|258424134|ref|ZP_05687016.1| SSU ribosomal protein S4 [Staphylococcus aureus A9635] gi|258438286|ref|ZP_05689570.1| ribosomal protein S4 [Staphylococcus aureus A9299] gi|258443744|ref|ZP_05692083.1| ribosomal protein S4 [Staphylococcus aureus A8115] gi|258445955|ref|ZP_05694131.1| 30S ribosomal protein S4 [Staphylococcus aureus A6300] gi|258448365|ref|ZP_05696482.1| ribosomal protein S4 [Staphylococcus aureus A6224] gi|258450886|ref|ZP_05698939.1| 30S ribosomal protein S4 [Staphylococcus aureus A5948] gi|258454155|ref|ZP_05702126.1| SSU ribosomal protein S4P [Staphylococcus aureus A5937] gi|262049033|ref|ZP_06021911.1| 30S ribosomal protein S4 [Staphylococcus aureus D30] gi|262051784|ref|ZP_06024001.1| 30S ribosomal protein S4 [Staphylococcus aureus 930918-3] gi|269203358|ref|YP_003282627.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus ED98] gi|282893214|ref|ZP_06301448.1| 30S ribosomal protein S4 [Staphylococcus aureus A8117] gi|282916980|ref|ZP_06324738.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus D139] gi|282924410|ref|ZP_06332083.1| 30S ribosomal protein S4 [Staphylococcus aureus A9765] gi|282927849|ref|ZP_06335460.1| 30S ribosomal protein S4 [Staphylococcus aureus A10102] gi|283770798|ref|ZP_06343690.1| small subunit ribosomal protein S4 [Staphylococcus aureus subsp. aureus H19] gi|284024766|ref|ZP_06379164.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus 132] gi|294849881|ref|ZP_06790620.1| 30S ribosomal protein S4 [Staphylococcus aureus A9754] gi|295406030|ref|ZP_06815838.1| 30S ribosomal protein S4 [Staphylococcus aureus A8819] gi|296276442|ref|ZP_06858949.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus MR1] gi|297207568|ref|ZP_06924003.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297245044|ref|ZP_06928921.1| 30S ribosomal protein S4 [Staphylococcus aureus A8796] gi|300911649|ref|ZP_07129093.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus TCH70] gi|304380688|ref|ZP_07363359.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|54039510|sp|P66563|RS4_STAAN RecName: Full=30S ribosomal protein S4 gi|54039511|sp|P66564|RS4_STAAW RecName: Full=30S ribosomal protein S4 gi|54041963|sp|P66562|RS4_STAAM RecName: Full=30S ribosomal protein S4 gi|56749380|sp|Q6G8K8|RS4_STAAS RecName: Full=30S ribosomal protein S4 gi|62287184|sp|Q5HF54|RS4_STAAC RecName: Full=30S ribosomal protein S4 gi|90101727|sp|Q2YTH0|RS4_STAAB RecName: Full=30S ribosomal protein S4 gi|122539301|sp|Q2FXK6|RS4_STAA8 RecName: Full=30S ribosomal protein S4 gi|123485448|sp|Q2FG18|RS4_STAA3 RecName: Full=30S ribosomal protein S4 gi|171769945|sp|A7X3F0|RS4_STAA1 RecName: Full=30S ribosomal protein S4 gi|172048947|sp|A6QHQ3|RS4_STAAE RecName: Full=30S ribosomal protein S4 gi|189045401|sp|A6U2I6|RS4_STAA2 RecName: Full=30S ribosomal protein S4 gi|189045402|sp|A5ITP2|RS4_STAA9 RecName: Full=30S ribosomal protein S4 gi|189045403|sp|A8Z2N6|RS4_STAAT RecName: Full=30S ribosomal protein S4 gi|13701514|dbj|BAB42808.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus N315] gi|14247491|dbj|BAB57881.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus Mu50] gi|21204831|dbj|BAB95527.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus MW2] gi|49244987|emb|CAG43448.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus MSSA476] gi|57286204|gb|AAW38298.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus COL] gi|82656838|emb|CAI81267.1| 30S ribosomal protein S4 [Staphylococcus aureus RF122] gi|87125888|gb|ABD20402.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87203087|gb|ABD30897.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741267|gb|ABQ49565.1| SSU ribosomal protein S4P [Staphylococcus aureus subsp. aureus JH9] gi|149946718|gb|ABR52654.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus JH1] gi|150374625|dbj|BAF67885.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus str. Newman] gi|156722171|dbj|BAF78588.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus Mu3] gi|160368743|gb|ABX29714.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253723891|gb|EES92620.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|257788075|gb|EEV26415.1| 30S ribosomal protein S4 [Staphylococcus aureus A9781] gi|257839400|gb|EEV63873.1| 30S ribosomal protein S4 [Staphylococcus aureus A9763] gi|257845755|gb|EEV69787.1| SSU ribosomal protein S4 [Staphylococcus aureus A9635] gi|257848330|gb|EEV72321.1| ribosomal protein S4 [Staphylococcus aureus A9299] gi|257851150|gb|EEV75093.1| ribosomal protein S4 [Staphylococcus aureus A8115] gi|257855197|gb|EEV78136.1| 30S ribosomal protein S4 [Staphylococcus aureus A6300] gi|257858333|gb|EEV81218.1| ribosomal protein S4 [Staphylococcus aureus A6224] gi|257861422|gb|EEV84230.1| 30S ribosomal protein S4 [Staphylococcus aureus A5948] gi|257863607|gb|EEV86364.1| SSU ribosomal protein S4P [Staphylococcus aureus A5937] gi|259160278|gb|EEW45305.1| 30S ribosomal protein S4 [Staphylococcus aureus 930918-3] gi|259162850|gb|EEW47414.1| 30S ribosomal protein S4 [Staphylococcus aureus D30] gi|262075648|gb|ACY11621.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus ED98] gi|269941198|emb|CBI49586.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus TW20] gi|282319467|gb|EFB49819.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus D139] gi|282590359|gb|EFB95438.1| 30S ribosomal protein S4 [Staphylococcus aureus A10102] gi|282592911|gb|EFB97914.1| 30S ribosomal protein S4 [Staphylococcus aureus A9765] gi|282764532|gb|EFC04658.1| 30S ribosomal protein S4 [Staphylococcus aureus A8117] gi|283460945|gb|EFC08035.1| small subunit ribosomal protein S4 [Staphylococcus aureus subsp. aureus H19] gi|283470985|emb|CAQ50196.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus ST398] gi|285817402|gb|ADC37889.1| 30S ribosomal protein S4 [Staphylococcus aureus 04-02981] gi|294823220|gb|EFG39650.1| 30S ribosomal protein S4 [Staphylococcus aureus A9754] gi|294969027|gb|EFG45048.1| 30S ribosomal protein S4 [Staphylococcus aureus A8819] gi|296887585|gb|EFH26483.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297178124|gb|EFH37372.1| 30S ribosomal protein S4 [Staphylococcus aureus A8796] gi|298694988|gb|ADI98210.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus ED133] gi|300887070|gb|EFK82271.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus TCH70] gi|302333384|gb|ADL23577.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus JKD6159] gi|304340795|gb|EFM06724.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312830098|emb|CBX34940.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315130645|gb|EFT86631.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus CGS03] gi|315197186|gb|EFU27525.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus CGS01] gi|320141663|gb|EFW33498.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus MRSA131] gi|320143817|gb|EFW35590.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus MRSA177] gi|323440736|gb|EGA98445.1| 30S ribosomal protein S4 [Staphylococcus aureus O11] gi|323442976|gb|EGB00598.1| 30S ribosomal protein S4 [Staphylococcus aureus O46] gi|329314393|gb|AEB88806.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus T0131] gi|329726987|gb|EGG63444.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus 21189] gi|329727555|gb|EGG64011.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus 21172] gi|329733129|gb|EGG69466.1| ribosomal protein S4 [Staphylococcus aureus subsp. aureus 21193] Length = 200 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ G+A +RR+ +++ + V+G ++ + +V I V Sbjct: 93 RLDAVVYSLGLARTRRQARQLVNHGHILVDGKRVDIPSYSVKPGQTISV 141 >gi|291533602|emb|CBL06715.1| Ribosomal protein S4 and related proteins [Megamonas hypermegale ART12/1] Length = 125 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+AS RR+ ++++ + VNG L+ + + D I V Sbjct: 16 RIDNVVFRLGLASTRRQARQLVSHGHITVNGKRLDIPSALIKVGDVIGV 64 >gi|253578522|ref|ZP_04855794.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA] gi|251850840|gb|EES78798.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA] Length = 269 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 24/177 (13%), Positives = 50/177 (28%), Gaps = 2/177 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ ++ +A SR + + I V V+G ++A T IEV G L R Sbjct: 4 RLDMLMMERALAPSREKAKAFIMAGDVYVDGQKEDKAGTMFPETVKIEVRGNTLPYVSRG 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L L T ++ G + + + + D L Sbjct: 64 GLKLEKAMKNFDVTLDSKVCMDVGAST-GGFTDCMLQNGAVKVYSIDVGYGQLDWKLRND 122 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + + + V + + + + ++ L + + Sbjct: 123 PRVVCMEKTNIRYVVPEDLGEPADFSSIDVSFISLTKVLLPVRNLLTDEGEIVCLIK 179 >gi|225175647|ref|ZP_03729641.1| ribosomal protein S4 [Dethiobacter alkaliphilus AHT 1] gi|225168976|gb|EEG77776.1| ribosomal protein S4 [Dethiobacter alkaliphilus AHT 1] Length = 209 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SR E +++ VNG ++ + V D + V Sbjct: 100 RLDNVVYRMGFALSRPEARQLVKHGHFTVNGRKVDIPSYQVRPDDVVAV 148 >gi|297621148|ref|YP_003709285.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] gi|297376449|gb|ADI38279.1| RNA pseudouridylate synthase family protein [Waddlia chondrophila WSU 86-1044] Length = 287 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 24/225 (10%), Positives = 58/225 (25%), Gaps = 22/225 (9%) Query: 11 FTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 + ++ I + G S R+++R I V VNG + + + D +E D L Sbjct: 8 ESGIKLVDFIHQKLQGKHSLRKIKRAIENNHVCVNGAVERFYSFQLSKGDLVEFDDSVLE 67 Query: 69 KAERTR---------------LWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF-----SRV 108 K+E + L + Sbjct: 68 KSESEKPVPERDAILFEDDHLLIYNKPSGMNSDEFGLGKFFPSFPLIHRLDKETTGCIMF 127 Query: 109 ISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQ 168 ++ L + F GQ+ + ++ + + Sbjct: 128 AKYPKVKNRMIELFKGKKISKHYLAVVDGVPNKREGVEESFIGQISSNPGSIKWGNVSPK 187 Query: 169 GICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + Q ++ + A + + G+ +++ + Sbjct: 188 QGQHAKTQWMIEKRGKEAALLKMQPITGRTHQLRVHAAQMGHPIL 232 >gi|225850422|ref|YP_002730656.1| RNA pseudouridine synthase family protein [Persephonella marina EX-H1] gi|225646434|gb|ACO04620.1| RNA pseudouridine synthase family protein [Persephonella marina EX-H1] Length = 272 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 24/201 (11%), Positives = 62/201 (30%), Gaps = 8/201 (3%) Query: 19 VIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTRLWLY 78 I+ ++ + + +I + V VN + A+ + D +E+ + + + + Sbjct: 15 FISEVLGLTKNKAKEIIDSKNVFVNSKRVWIASHTLKKGDIVEIADIDNSFSWKPEKSVI 74 Query: 79 HKPIGLVTTHSDPD------GRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLAR 132 ++ ++ P S + + R+ ++ RLD T G+LL + + Sbjct: 75 YEDQFILAVQKPPFLESEGRKGSVEYQLRKVLDRRLKAIHRLDRETSGVLLFAKNEKIFH 134 Query: 133 VLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVG 192 + + V + + V Y V Sbjct: 135 RFKDLWHRKEVVKVYLSISYGEAKFKKKVVNMPV--DKKYAKSIFFTKKISKGFTLFEVE 192 Query: 193 LREGKNREIKKVFEFFNWKVN 213 ++ G+ +I+ + Sbjct: 193 IKTGRKHQIRIHSSKIRHPIV 213 >gi|253734496|ref|ZP_04868661.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus TCH130] gi|253727550|gb|EES96279.1| 30S ribosomal protein S4 [Staphylococcus aureus subsp. aureus TCH130] Length = 200 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ G+A +RR+ +++ + V+G ++ + +V I V Sbjct: 93 RLDAVVYSLGLARTRRQARQLVNHGHILVDGKRVDIPSYSVKPGQTISV 141 >gi|167855786|ref|ZP_02478539.1| ribosomal large subunit pseudouridine synthase D [Haemophilus parasuis 29755] gi|167853065|gb|EDS24326.1| ribosomal large subunit pseudouridine synthase D [Haemophilus parasuis 29755] Length = 325 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 20/234 (8%), Positives = 56/234 (23%), Gaps = 39/234 (16%) Query: 15 RVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVN-------------------- 53 R+ + +A+ SR ++ I V VNG ++ +A Sbjct: 19 RLDQALAQLFPDYSRSRIKVWIESDLVSVNGKIVNKAREKVFGGELIEIQAEIEEEIRFE 78 Query: 54 --------VMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF 105 V D I V + K + + ++ + + + Sbjct: 79 PQNIPLNIVYEDDDILV----INKPKDLVVHPGAGNPDGTVLNALLHHYPQIAEVPRAGI 134 Query: 106 SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWL------RVYRVRFHGQVDQDKLN 159 + + + + + + T+ + + + Sbjct: 135 VHRLDKDTTGLMVVAKTVPAQTHLVTALQKREITREYEAVASGIMTQGGKVDEPMARHPT 194 Query: 160 LLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + + L G+ +I+ + Sbjct: 195 KRTAMAVHPMGKPAVTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 248 >gi|156932259|ref|YP_001436175.1| 30S ribosomal protein S4 [Cronobacter sakazakii ATCC BAA-894] gi|260599616|ref|YP_003212187.1| 30S ribosomal protein S4 [Cronobacter turicensis z3032] gi|171769807|sp|A7MPF7|RS4_ENTS8 RecName: Full=30S ribosomal protein S4 gi|156530513|gb|ABU75339.1| hypothetical protein ESA_00030 [Cronobacter sakazakii ATCC BAA-894] gi|260218793|emb|CBA34141.1| 30S ribosomal protein S4 [Cronobacter turicensis z3032] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + + VNG ++ A+ V D + V +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAIMVNGRVVNIASYQVSPNDVVSVREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|325267152|ref|ZP_08133820.1| 30S ribosomal protein S4 [Kingella denitrificans ATCC 33394] gi|324981390|gb|EGC17034.1| 30S ribosomal protein S4 [Kingella denitrificans ATCC 33394] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G AS R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFASTRAEARQLVSHKALTVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 156 >gi|304399266|ref|ZP_07381132.1| ribosomal protein S4 [Pantoea sp. aB] gi|308188332|ref|YP_003932463.1| 30S ribosomal protein S4 [Pantoea vagans C9-1] gi|304353192|gb|EFM17573.1| ribosomal protein S4 [Pantoea sp. aB] gi|308058842|gb|ADO11014.1| 30S ribosomal protein S4 [Pantoea vagans C9-1] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + + +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKSVLVNGRVVNIASYQVSPNDVVSIREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|282856468|ref|ZP_06265745.1| ribosomal large subunit pseudouridine synthase D [Pyramidobacter piscolens W5455] gi|282585708|gb|EFB90999.1| ribosomal large subunit pseudouridine synthase D [Pyramidobacter piscolens W5455] Length = 345 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 24/240 (10%), Positives = 54/240 (22%), Gaps = 38/240 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLER-AAVNVMSTDHIEVDGV 65 V E + R+ +A SR +I V +G + + A + V+ Sbjct: 44 VPEEDSGARLDLFLAGELSLSRSRARSLIDGGAVS-SGQVKKIRPAFKIQPGQIYRVEIP 102 Query: 66 P--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 + + + + +V + + V + Sbjct: 103 EAAPAEIAAQDMPFDVVYEDDDVIVVNKPAGVVVHPGAGRPDGTLVNGLMFRYPEIGRIG 162 Query: 112 GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ---------------- 155 + L + G + + + L + Sbjct: 163 DSVRPGIVHRLDVGTSGLMVVARSDAAFRGLTEAFQAHEVLKEYLGLGVGALKAPEGTVD 222 Query: 156 -----DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 D N LK + + + + V L G+ +I+ Sbjct: 223 APIGRDPRNRLKMCVSW-DGRDAVTDYKVLWTRARCNLIRVRLHTGRTHQIRVHMRALGC 281 >gi|269798694|ref|YP_003312594.1| pseudouridine synthase [Veillonella parvula DSM 2008] gi|269095323|gb|ACZ25314.1| pseudouridine synthase, RluA family [Veillonella parvula DSM 2008] Length = 288 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 33/227 (14%), Positives = 67/227 (29%), Gaps = 31/227 (13%) Query: 17 SKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-------GVPLRK 69 SK + S R+++ M ++RVKVN + + D + ++ GV + K Sbjct: 17 SKYVKERFSLSSRDIQMMFRKKRVKVNSRVAHS-QRALKKGDVLTLELPQDKDYGVDVEK 75 Query: 70 AERTRLWL--------------YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLD 115 T L+ H + R + D Sbjct: 76 GPITVLYEDAHTLVVNKDPFMLVHPAGQTKSCTLSNYVAGYYAKKNVVHKVRPVHRLDRD 135 Query: 116 INTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNL-------LKKGIVIQ 168 + L T + EL + + R+Y G++D + + + + Sbjct: 136 TSGCILFGKTKEAQQYYTDELQAGRIDRIYTGLVEGRIDANGMVDAPIGVDPVFDNRRVI 195 Query: 169 GICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +G N + L G+ +I+ E + Sbjct: 196 DELGQPAQTEYIVLDHEGDNTLLRFKLLTGRTHQIRVHMEHIGHPIV 242 >gi|256045267|ref|ZP_05448161.1| pseudouridine synthase, RluA family protein [Brucella melitensis bv. 1 str. Rev.1] gi|256114226|ref|ZP_05454971.1| pseudouridine synthase, RluA family protein [Brucella melitensis bv. 3 str. Ether] gi|256263395|ref|ZP_05465927.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis bv. 2 str. 63/9] gi|260565840|ref|ZP_05836323.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis bv. 1 str. 16M] gi|265991692|ref|ZP_06104249.1| pseudouridine synthase [Brucella melitensis bv. 1 str. Rev.1] gi|265995529|ref|ZP_06108086.1| pseudouridine synthase [Brucella melitensis bv. 3 str. Ether] gi|260151213|gb|EEW86308.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis bv. 1 str. 16M] gi|262766813|gb|EEZ12431.1| pseudouridine synthase [Brucella melitensis bv. 3 str. Ether] gi|263002648|gb|EEZ15051.1| pseudouridine synthase [Brucella melitensis bv. 1 str. Rev.1] gi|263093392|gb|EEZ17461.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis bv. 2 str. 63/9] gi|326409663|gb|ADZ66728.1| pseudouridine synthase [Brucella melitensis M28] gi|326539370|gb|ADZ87585.1| pseudouridine synthase, RluA family protein [Brucella melitensis M5-90] Length = 334 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 31/260 (11%), Positives = 71/260 (27%), Gaps = 52/260 (20%) Query: 6 IVQENFTPQRVSKVIARAG--IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV- 62 I + +R+ + +A A SR V+ +IA V ++G + +I + Sbjct: 5 IADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIAIV 64 Query: 63 ---------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 G + + + + +V + + V + Sbjct: 65 LPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYQCGDSLS 124 Query: 106 -----SRVISVGRLDINTEGLLLLTNDGGLARVLELP-----------------STQWLR 143 R V RLD +T G++++ + R L Sbjct: 125 GIGGIRRPGIVHRLDKDTSGVMVVAKNDRAHRHLSEQFADHGRTGDLERAYLALVWGMTE 184 Query: 144 VYRVRFHGQVDQDKLNLLKKGIVIQGIC-YGDMQVTLDTQKGSN---------AWVTVGL 193 + + + + K+ +V + T + + + V L Sbjct: 185 RPQGTVDAYLGRSHRDRTKQAVVHEEREDARHAITHYATVEKFSPREDATALASLVECRL 244 Query: 194 REGKNREIKKVFEFFNWKVN 213 G+ +I+ + Sbjct: 245 ETGRTHQIRVHMAHIGHPLV 264 >gi|255283706|ref|ZP_05348261.1| ribosomal protein S4 [Bryantella formatexigens DSM 14469] gi|255265771|gb|EET58976.1| ribosomal protein S4 [Bryantella formatexigens DSM 14469] Length = 197 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G A +R+E +++ + V VNG + + V + D +E+ Sbjct: 88 RLDNVIFRLGFARTRKEARQIVDHKHVLVNGKQVNIPSYLVKAGDTVEI 136 >gi|160915194|ref|ZP_02077407.1| hypothetical protein EUBDOL_01202 [Eubacterium dolichum DSM 3991] gi|158432993|gb|EDP11282.1| hypothetical protein EUBDOL_01202 [Eubacterium dolichum DSM 3991] Length = 200 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ ++ R G A +RR +++ + VNG ++ + IEV Sbjct: 93 RLDNLVYRMGFARTRRAARQLVNHGHILVNGKKVDIPSYIAKPGAVIEVKEK 144 >gi|84494745|ref|ZP_00993864.1| 30S ribosomal protein S4 [Janibacter sp. HTCC2649] gi|84384238|gb|EAQ00118.1| 30S ribosomal protein S4 [Janibacter sp. HTCC2649] Length = 202 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ VI RAG+A +RR +++ +VNG ++ + V D I V + Sbjct: 92 RLDNVIYRAGLARTRRAARQLVTHGHFEVNGKRVDVPSYRVEQYDIITVRKQSVETFPLQ 151 >gi|332968427|gb|EGK07494.1| 30S ribosomal protein S4 [Kingella kingae ATCC 23330] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G AS R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFASTRAEARQLVSHKALTVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 156 >gi|291619151|ref|YP_003521893.1| RpsD [Pantoea ananatis LMG 20103] gi|291154181|gb|ADD78765.1| RpsD [Pantoea ananatis LMG 20103] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + V VNG ++ A+ V D + + +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKSVLVNGRVVNIASYQVSPNDVVSIREKAKKQSRVK 156 Query: 74 RLWLYHKPIGLVT 86 + T Sbjct: 157 AALELAEQREKPT 169 >gi|144143|gb|AAC05398.1| ribosomal protein S4 [Buchnera aphidicola] gi|448400|prf||1917188A ribosomal protein S4 Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ R G +R E ++I+ + +KVN ++ A+ + D I V Sbjct: 97 RLDNVVYRMGFGCTRSESRQLISHKSIKVNNNIVNIASYQISPNDRISVRDK 148 >gi|15642567|ref|NP_232200.1| 30S ribosomal protein S4 [Vibrio cholerae O1 biovar El Tor str. N16961] gi|147675276|ref|YP_001218066.1| 30S ribosomal protein S4 [Vibrio cholerae O395] gi|153820465|ref|ZP_01973132.1| ribosomal protein S4 [Vibrio cholerae NCTC 8457] gi|227082689|ref|YP_002811240.1| ribosomal protein S4 [Vibrio cholerae M66-2] gi|229507376|ref|ZP_04396881.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae BX 330286] gi|229509700|ref|ZP_04399181.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae B33] gi|229513495|ref|ZP_04402959.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae TMA 21] gi|229516825|ref|ZP_04406271.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae RC9] gi|229521638|ref|ZP_04411056.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae TM 11079-80] gi|229527498|ref|ZP_04416890.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae 12129(1)] gi|229606882|ref|YP_002877530.1| 30S ribosomal protein S4 [Vibrio cholerae MJ-1236] gi|254292241|ref|ZP_04963004.1| ribosomal protein S4 [Vibrio cholerae AM-19226] gi|254851112|ref|ZP_05240462.1| ribosomal protein S4 [Vibrio cholerae MO10] gi|255744459|ref|ZP_05418411.1| SSU ribosomal protein S4p (S9e) [Vibrio cholera CIRS 101] gi|297581414|ref|ZP_06943337.1| ribosomal protein S4 [Vibrio cholerae RC385] gi|26399513|sp|Q9KP07|RS4_VIBCH RecName: Full=30S ribosomal protein S4 gi|172047566|sp|A5F573|RS4_VIBC3 RecName: Full=30S ribosomal protein S4 gi|254764621|sp|C3LRN4|RS4_VIBCM RecName: Full=30S ribosomal protein S4 gi|9657158|gb|AAF95713.1| ribosomal protein S4 [Vibrio cholerae O1 biovar El Tor str. N16961] gi|126508992|gb|EAZ71586.1| ribosomal protein S4 [Vibrio cholerae NCTC 8457] gi|146317159|gb|ABQ21698.1| ribosomal protein S4 [Vibrio cholerae O395] gi|150421843|gb|EDN13827.1| ribosomal protein S4 [Vibrio cholerae AM-19226] gi|227010577|gb|ACP06789.1| ribosomal protein S4 [Vibrio cholerae M66-2] gi|227014461|gb|ACP10671.1| ribosomal protein S4 [Vibrio cholerae O395] gi|229335130|gb|EEO00615.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae 12129(1)] gi|229341232|gb|EEO06236.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae TM 11079-80] gi|229345888|gb|EEO10860.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae RC9] gi|229349372|gb|EEO14328.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae TMA 21] gi|229353174|gb|EEO18113.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae B33] gi|229354881|gb|EEO19802.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae BX 330286] gi|229369537|gb|ACQ59960.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae MJ-1236] gi|254846817|gb|EET25231.1| ribosomal protein S4 [Vibrio cholerae MO10] gi|255737984|gb|EET93377.1| SSU ribosomal protein S4p (S9e) [Vibrio cholera CIRS 101] gi|297534252|gb|EFH73090.1| ribosomal protein S4 [Vibrio cholerae RC385] gi|327485054|gb|AEA79461.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae LMA3894-4] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + NV + D + V Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFNVAANDVVAV 145 >gi|306836026|ref|ZP_07469016.1| cytotoxin/hemolysin [Corynebacterium accolens ATCC 49726] gi|304568053|gb|EFM43628.1| cytotoxin/hemolysin [Corynebacterium accolens ATCC 49726] Length = 268 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD 63 R+ + R IA SR + MI RV V G E+ A V I+V+ Sbjct: 7 RLDAELVRRKIARSREQAREMIKSGRVTVGGFKAEKPATVVDPEVSIKVE 56 >gi|300780856|ref|ZP_07090710.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium genitalium ATCC 33030] gi|300532563|gb|EFK53624.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium genitalium ATCC 33030] Length = 307 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 63/244 (25%), Gaps = 37/244 (15%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD-G 64 +V E RV +A+A SR +I V ++G + + + V + +EV Sbjct: 8 VVPEGLDSMRVDAAVAKAFGLSRTVAAELIEAGEVLIDGSRVTK-SDRVSTGHSLEVTLP 66 Query: 65 VPLRKAERTRLW--------------LYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 P + + KP+G+ + TV L ++ ++ Sbjct: 67 EPKQAPMPKEEIVEGLTVLYDDDDVIVVDKPVGVAAHPTLGWDGPTVVGGLQAMGYQLPD 126 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGI 170 G + L G+ V + + + I G Sbjct: 127 AGPPERKGIVQRLDVGTSGVMVVANSIPGYSVLKRAFKERTVEKTYHAVVQGLPDPIVGT 186 Query: 171 CYGDM---------------------QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFN 209 + + + + V L G+ +I+ Sbjct: 187 IDAPIGRHPSSGWKFAVTADGRHSVTHYEVLEAFREASLLEVHLETGRTHQIRVHMSSVG 246 Query: 210 WKVN 213 Sbjct: 247 HPCV 250 >gi|28867878|ref|NP_790497.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tomato str. DC3000] gi|66047752|ref|YP_237593.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. syringae B728a] gi|71734874|ref|YP_276682.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. phaseolicola 1448A] gi|213969238|ref|ZP_03397376.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tomato T1] gi|289623825|ref|ZP_06456779.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289648918|ref|ZP_06480261.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. aesculi str. 2250] gi|289675512|ref|ZP_06496402.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. syringae FF5] gi|298489072|ref|ZP_07007094.1| SSU ribosomal protein S4p (S9e) [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|301381745|ref|ZP_07230163.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tomato Max13] gi|302061055|ref|ZP_07252596.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tomato K40] gi|302130804|ref|ZP_07256794.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tomato NCPPB 1108] gi|302189301|ref|ZP_07265974.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. syringae 642] gi|37999395|sp|Q889U7|RS4_PSESM RecName: Full=30S ribosomal protein S4 gi|81307873|sp|Q4ZMR7|RS4_PSEU2 RecName: Full=30S ribosomal protein S4 gi|90101706|sp|Q48D60|RS4_PSE14 RecName: Full=30S ribosomal protein S4 gi|28851114|gb|AAO54192.1| ribosomal protein S4 [Pseudomonas syringae pv. tomato str. DC3000] gi|63258459|gb|AAY39555.1| Ribosomal protein S4, bacterial and organelle form [Pseudomonas syringae pv. syringae B728a] gi|71555427|gb|AAZ34638.1| ribosomal protein S4 [Pseudomonas syringae pv. phaseolicola 1448A] gi|213925916|gb|EEB59473.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. tomato T1] gi|298156384|gb|EFH97482.1| SSU ribosomal protein S4p (S9e) [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|320322298|gb|EFW78392.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. glycinea str. B076] gi|320331956|gb|EFW87892.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. glycinea str. race 4] gi|330869407|gb|EGH04116.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330879399|gb|EGH13548.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. glycinea str. race 4] gi|330879418|gb|EGH13567.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. morsprunorum str. M302280PT] gi|330891908|gb|EGH24569.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. mori str. 301020] gi|330899712|gb|EGH31131.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. japonica str. M301072PT] gi|330940914|gb|EGH43865.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. pisi str. 1704B] gi|330953173|gb|EGH53433.1| 30S ribosomal protein S4 [Pseudomonas syringae Cit 7] gi|330962501|gb|EGH62761.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. maculicola str. ES4326] gi|330966887|gb|EGH67147.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. actinidiae str. M302091] gi|330969797|gb|EGH69863.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. aceris str. M302273PT] gi|330988258|gb|EGH86361.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. lachrymans str. M301315] gi|331018184|gb|EGH98240.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VNG + + V + D + + Sbjct: 97 RLDNVVYRMGFGSTRAESRQLVSHKSVSVNGKTVNVPSYQVRAGDVVAI 145 >gi|331703116|ref|YP_004399803.1| Hemolysin A [Mycoplasma mycoides subsp. capri LC str. 95010] gi|328801671|emb|CBW53824.1| Hemolysin A [Mycoplasma mycoides subsp. capri LC str. 95010] Length = 272 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 22/177 (12%), Positives = 54/177 (30%), Gaps = 2/177 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ + I + + SR + + I + V VN I + + + V S D IE+ L R Sbjct: 4 RLDEYIYKNNLTQSRNKAKEHILNKEVYVNNIAIIKPSFLVDSNDLIEIRSTKLEHVSRA 63 Query: 74 RLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARV 133 L ++ + + L + + L + Sbjct: 64 YEKLKKAINKWNIDLTNKICLDIGASTGGFTQCCLDNNASLVYAVDVGTNQLHSSLLNNL 123 Query: 134 LELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVT 190 + +Q+ + + D + I ++ + ++ ++ + Sbjct: 124 KVINMSQYNFRNAKKQDFLKNIDFVCCDVSFISLE-KIFLPLKDVVEFNTSGVFLIK 179 >gi|326332226|ref|ZP_08198506.1| ribosomal protein S4 [Nocardioidaceae bacterium Broad-1] gi|325949932|gb|EGD41992.1| ribosomal protein S4 [Nocardioidaceae bacterium Broad-1] Length = 202 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ RAG A +RR+ +++ VNG + + V + D I+V L Sbjct: 92 RLDNVVYRAGFARTRRQARQLVVHGHFLVNGKKVNVPSFQVSAHDVIDVREKSLEMTPFI 151 Query: 74 R 74 Sbjct: 152 V 152 >gi|283953794|ref|ZP_06371325.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 414] gi|283794835|gb|EFC33573.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni 414] Length = 208 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ V V+G ++ + V + IE+ Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHVLVDGKRVDIPSFRVKAGAKIEI 147 >gi|262273355|ref|ZP_06051169.1| SSU ribosomal protein S4p (S9e) [Grimontia hollisae CIP 101886] gi|262222333|gb|EEY73644.1| SSU ribosomal protein S4p (S9e) [Grimontia hollisae CIP 101886] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D I + Sbjct: 97 RLDNVVYRMGFGATRAESRQLVSHKAILVNGKVVNVPSFKVTANDVISI 145 >gi|260893899|ref|YP_003239996.1| RNA-binding S4 domain protein [Ammonifex degensii KC4] gi|260866040|gb|ACX53146.1| RNA-binding S4 domain protein [Ammonifex degensii KC4] Length = 81 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 4/60 (6%) Query: 14 QRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEVD--GVPLRKA 70 R+ K + A + +RR + + + V +NG + A V D I ++ G LR Sbjct: 1 MRIDKFLKEARLITRRTVANQALREGLVTINGRTAK-PATRVKKGDIITLNLGGKLLRLE 59 >gi|156354206|ref|XP_001623291.1| predicted protein [Nematostella vectensis] gi|156209974|gb|EDO31191.1| predicted protein [Nematostella vectensis] Length = 1300 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 9/109 (8%), Positives = 15/109 (13%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 E + P P + G + Sbjct: 1001 EPDRLQHEARIPPHDQGRPPYEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGR 1060 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 P + G+ R P P + Sbjct: 1061 PPHEPGRPPHEPGRPPYEPGRPPHEPGRPPHELGRPPHEPGRPPHEPGR 1109 Score = 47.9 bits (112), Expect = 0.003, Method: Composition-based stats. Identities = 13/114 (11%), Positives = 21/114 (18%), Gaps = 2/114 (1%) Query: 243 EQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLA 302 +Q P + P P + G + Sbjct: 1015 DQGRPPYEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGR 1074 Query: 303 TPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS--LRRTSAKK 354 P + G+ R P P + RR +K Sbjct: 1075 PPYEPGRPPHEPGRPPHELGRPPHEPGRPPHEPGRLPHEPGRPPYEQRRPPHEK 1128 Score = 46.7 bits (109), Expect = 0.006, Method: Composition-based stats. Identities = 9/112 (8%), Positives = 17/112 (15%), Gaps = 1/112 (0%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 RE + + E + + + Sbjct: 985 REYYDQKPGPPGRPPFEPDRLQHEARIPPHDQGRPPYEPGRPPHEPGRPPHEPGRPPHEP 1044 Query: 302 ATPVHRRNLAS-NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 P H + G+ R P P + Sbjct: 1045 GRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPYEPGRPPHEPGRPPHELGRP 1096 Score = 46.3 bits (108), Expect = 0.007, Method: Composition-based stats. Identities = 8/122 (6%), Positives = 21/122 (17%), Gaps = 5/122 (4%) Query: 238 KKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK 297 L+ + ++ + + E + Sbjct: 1002 PDRLQHEARIPPHDQGRPPYEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRP 1061 Query: 298 QKKLATPVHRRNLAS-NVWMAKGIHSSFLSDSGQREENHRRSPSFPSK----RSLRRTSA 352 + P H + G+ R P P + Sbjct: 1062 PHEPGRPPHEPGRPPYEPGRPPHEPGRPPHELGRPPHEPGRPPHEPGRLPHEPGRPPYEQ 1121 Query: 353 KK 354 ++ Sbjct: 1122 RR 1123 Score = 45.9 bits (107), Expect = 0.009, Method: Composition-based stats. Identities = 15/126 (11%), Positives = 27/126 (21%), Gaps = 2/126 (1%) Query: 229 LAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISE--VPDDFTRMK 286 G++RE + P L E +++ E + PD Sbjct: 950 HEGASREERPPGIPYPDNPRLGERPPIDVRRQEPGREYYDQKPGPPGRPPFEPDRLQHEA 1009 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + G + P + G+ R P P + Sbjct: 1010 RIPPHDQGRPPYEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPP 1069 Query: 347 LRRTSA 352 Sbjct: 1070 HEPGRP 1075 Score = 44.8 bits (104), Expect = 0.023, Method: Composition-based stats. Identities = 10/110 (9%), Positives = 16/110 (14%), Gaps = 1/110 (0%) Query: 244 QLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLAT 303 + P Q E I + + Sbjct: 980 RQEPGREYYDQKPGPPGRPPFEPDRLQHEARIPPHDQGRPPYEPGRPPHEPGRPPHEPGR 1039 Query: 304 PVHRRNLAS-NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 P H + G+ R P P + Sbjct: 1040 PPHEPGRPPHEPGRPPHEPGRPPHEPGRPPHEPGRPPYEPGRPPHEPGRP 1089 Score = 36.3 bits (82), Expect = 8.2, Method: Composition-based stats. Identities = 11/107 (10%), Positives = 21/107 (19%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 GP + + + E P R ++ + P Sbjct: 941 GPEGYRRPSHEGASREERPPGIPYPDNPRLGERPPIDVRRQEPGREYYDQKPGPPGRPPF 1000 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 L + + G+ R P P + Sbjct: 1001 EPDRLQHEARIPPHDQGRPPYEPGRPPHEPGRPPHEPGRPPHEPGRP 1047 >gi|294789218|ref|ZP_06754457.1| ribosomal protein S4 [Simonsiella muelleri ATCC 29453] gi|294482959|gb|EFG30647.1| ribosomal protein S4 [Simonsiella muelleri ATCC 29453] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 1/60 (1%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G AS R E ++++ + + VNG ++ + V + D + V ++ Sbjct: 97 RLDNVVYRMGFASTRAEARQLVSHKALTVNGQVVNIPSFQVKAGDVVAVREKAKKQVRIQ 156 >gi|197287092|ref|YP_002152964.1| 30S ribosomal protein S4 [Proteus mirabilis HI4320] gi|227354912|ref|ZP_03839326.1| 30S ribosomal protein S4 [Proteus mirabilis ATCC 29906] gi|226699106|sp|B4F1K8|RS4_PROMH RecName: Full=30S ribosomal protein S4 gi|194684579|emb|CAR46428.1| 30S ribosomal protein S4 [Proteus mirabilis HI4320] gi|227164994|gb|EEI49833.1| 30S ribosomal protein S4 [Proteus mirabilis ATCC 29906] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E +M++ + + VNG ++ A+ V D + V Sbjct: 97 RLDNVVYRMGFGATRAEARQMVSHKAIMVNGRVVNIASYQVSPNDVVSV 145 >gi|21672746|ref|NP_660813.1| 30S ribosomal protein S4 [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|22654271|sp|P41186|RS4_BUCAP RecName: Full=30S ribosomal protein S4 gi|21623392|gb|AAM68024.1| 30S ribosomal protein S4 [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ R G +R E ++I+ + +KVN ++ A+ + D I V Sbjct: 97 RLDNVVYRMGFGCTRSESRQLISHKSIKVNNNIVNIASYQISPNDRISVRDK 148 >gi|224419009|ref|ZP_03657015.1| putative ribosomal pseudouridine synthase [Helicobacter canadensis MIT 98-5491] gi|253827954|ref|ZP_04870839.1| putative ribosomal pseudouridine synthase [Helicobacter canadensis MIT 98-5491] gi|313142521|ref|ZP_07804714.1| conserved hypothetical protein [Helicobacter canadensis MIT 98-5491] gi|253511360|gb|EES90019.1| putative ribosomal pseudouridine synthase [Helicobacter canadensis MIT 98-5491] gi|313131552|gb|EFR49169.1| conserved hypothetical protein [Helicobacter canadensis MIT 98-5491] Length = 265 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 25/227 (11%), Positives = 59/227 (25%), Gaps = 14/227 (6%) Query: 1 MKDKNIVQENFTPQRV-----------SKVIARAGIASRREVERMIAQQRVKVNGILLER 49 MK K Q + K+++ S E + +I + V + G L+ Sbjct: 1 MKTKQTKNSPKKNQHIPTKIPNNAQKAYKLLSAQEGISHNEAKNLIDRGLVTIQGKKLKI 60 Query: 50 AAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVI 109 A + H ++ +P K + T + + L + Sbjct: 61 ARALLSPNTHFKIQQLPPIKIIFQDENILALSKPAFLTSEEIVKLYPQWALLHRLDKETS 120 Query: 110 SVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVI-- 167 V L L + + + + + VI Sbjct: 121 GVLLLIKENSPFHLKAKEEFKKEQIFKQYVAIVEGIIDEEQEITEPLIIQKGHFAKVIVA 180 Query: 168 -QGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + ++T + + + ++ G+ +I+ + Sbjct: 181 KKNGIKAYTKITPIEIESKKTKLEILIKTGRTHQIRAHLAHIKHPII 227 >gi|325282667|ref|YP_004255208.1| ribosomal protein S4 [Deinococcus proteolyticus MRP] gi|324314476|gb|ADY25591.1| ribosomal protein S4 [Deinococcus proteolyticus MRP] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G AS RR+ + + + VNG ++ A+ V D I V Sbjct: 97 RLDNVVFRMGFASTRRQARQFVGHGHILVNGKKVDIASYRVKIGDEITV 145 >gi|116327250|ref|YP_796970.1| 30S ribosomal protein S4 [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116327290|ref|YP_797010.1| 30S ribosomal protein S4 [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116332096|ref|YP_801814.1| 30S ribosomal protein S4 [Leptospira borgpetersenii serovar Hardjo-bovis JB197] gi|122280174|sp|Q04PW4|RS4_LEPBJ RecName: Full=30S ribosomal protein S4 gi|122284903|sp|Q055B8|RS4_LEPBL RecName: Full=30S ribosomal protein S4 gi|116119994|gb|ABJ78037.1| 30S Ribosomal protein S4 [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116120034|gb|ABJ78077.1| 30S Ribosomal protein S4 [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116125785|gb|ABJ77056.1| 30S Ribosomal protein S4 [Leptospira borgpetersenii serovar Hardjo-bovis JB197] Length = 207 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A +RR+ IA + V VNG ++ + + D +E+ Sbjct: 97 RLDNVVYRLGFAVTRRQARNFIAHRHVLVNGERVDIPSYRLNVGDKVEI 145 >gi|308804930|ref|XP_003079777.1| hemolysin A, putative (ISS) [Ostreococcus tauri] gi|116058234|emb|CAL53423.1| hemolysin A, putative (ISS) [Ostreococcus tauri] Length = 290 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 12/36 (33%), Positives = 18/36 (50%) Query: 27 SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 SR + IAQ +V V+G + +A + IEV Sbjct: 46 SRNVAQSWIAQGKVLVDGQPVTKAGTKFKPSVKIEV 81 >gi|113970789|ref|YP_734582.1| RNA-binding S4 domain-containing protein [Shewanella sp. MR-4] gi|114048016|ref|YP_738566.1| RNA-binding S4 domain-containing protein [Shewanella sp. MR-7] gi|117921057|ref|YP_870249.1| RNA-binding S4 domain-containing protein [Shewanella sp. ANA-3] gi|113885473|gb|ABI39525.1| RNA-binding S4 domain protein [Shewanella sp. MR-4] gi|113889458|gb|ABI43509.1| RNA-binding S4 domain protein [Shewanella sp. MR-7] gi|117613389|gb|ABK48843.1| RNA-binding S4 domain protein [Shewanella sp. ANA-3] Length = 76 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 4/51 (7%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 ++ AG E + +I + V VNG + R V++ D + +G ++ Sbjct: 27 MSNAGG----EAKHVIDEGLVTVNGEVETRKRKKVVAGDIVSFNGESVQII 73 >gi|312829403|emb|CBX34245.1| RNA pseudouridylate synthase family protein [Staphylococcus aureus subsp. aureus ECT-R 2] Length = 284 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 25/199 (12%), Positives = 54/199 (27%), Gaps = 28/199 (14%) Query: 42 VNGILLERAAVNVMSTDHIEVD---------------GVPLRKAERTRLWLYHKPIGLVT 86 VN + +M D +E+ + + + + + T Sbjct: 38 VNDEPVTV-RKQLMPNDILEIHLPREIPSVNLIPYARKLEVLYEDAFIIIVTKPNNQNCT 96 Query: 87 THSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 + S + L V RLD NT G+++ G + + + + Sbjct: 97 PSREHLHESLIEQVLYHCQEHGENINPHIVTRLDHNTTGIVIFAKYGHIHHLFSKVNLKK 156 Query: 142 LRVYRVRFHGQVD-------QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + V + + + V Y + Q + V L Sbjct: 157 IYTCLVYGKTHTSGIIEANIRRSKDSIITREVASDGKYAKTSYEVINQNDKYSLCKVHLH 216 Query: 195 EGKNREIKKVFEFFNWKVN 213 G+ +I+ F+ + Sbjct: 217 TGRTHQIRVHFQHIGHPIV 235 >gi|295425098|ref|ZP_06817803.1| pseudouridylate synthase [Lactobacillus amylolyticus DSM 11664] gi|295065157|gb|EFG56060.1| pseudouridylate synthase [Lactobacillus amylolyticus DSM 11664] Length = 50 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 11/40 (27%), Positives = 19/40 (47%) Query: 14 QRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN 53 R+ K +A + SR++V ++I V VNG + Sbjct: 1 MRIDKYLANMNVGSRKDVHKLIKSVIVSVNGHPVTTPKEK 40 >gi|168211877|ref|ZP_02637502.1| ribosomal protein S4 [Clostridium perfringens B str. ATCC 3626] gi|170710184|gb|EDT22366.1| ribosomal protein S4 [Clostridium perfringens B str. ATCC 3626] Length = 206 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G SR E +++ VNG ++ A+ V D I V Sbjct: 98 MRLDNVVYRLGYGASRTEARQLVNHGHFLVNGKKVDIASFKVSVNDFITV 147 >gi|116491377|ref|YP_810921.1| SSU ribosomal protein S4P [Oenococcus oeni PSU-1] gi|116092102|gb|ABJ57256.1| SSU ribosomal protein S4P [Oenococcus oeni PSU-1] Length = 262 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+AS R + +++ + V+G + + V I V Sbjct: 153 RLDSVVFRLGLASTRPQARQLVNHGHILVDGKRVTIPSYEVKPGQIISV 201 >gi|318042231|ref|ZP_07974187.1| hypothetical protein SCB01_11007 [Synechococcus sp. CB0101] Length = 263 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 2/52 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V A AG+ SR + +I Q V+VN ++ + + D + +DG Sbjct: 190 RLDAV-ASAGLGLSRSRMADLIRQGSVRVNWQVITSPSKELRCGDRVRLDGR 240 >gi|294787547|ref|ZP_06752800.1| ribosomal RNA large subunit methyltransferase J [Parascardovia denticolens F0305] gi|315226867|ref|ZP_07868655.1| cytotoxin/hemolysin [Parascardovia denticolens DSM 10105] gi|294484903|gb|EFG32538.1| ribosomal RNA large subunit methyltransferase J [Parascardovia denticolens F0305] gi|315120999|gb|EFT84131.1| cytotoxin/hemolysin [Parascardovia denticolens DSM 10105] Length = 260 Score = 48.6 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 14/58 (24%), Positives = 33/58 (56%), Gaps = 2/58 (3%) Query: 7 VQENFTPQ-RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 ++ ++T Q R+ + + G+A SR + + +I++ V VN + +A+ + D ++V Sbjct: 1 MKTDYTSQIRLDRALVEQGLAPSRTKAQELISRGDVFVNHLPAGKASRLIGPEDRLQV 58 >gi|326803755|ref|YP_004321573.1| ribosomal protein S4 [Aerococcus urinae ACS-120-V-Col10a] gi|326650742|gb|AEA00925.1| ribosomal protein S4 [Aerococcus urinae ACS-120-V-Col10a] Length = 203 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ ++ R G+AS RR+ ++++ + V+G ++ + V I V Sbjct: 94 QRLDNMVYRLGLASTRRQARQLVSHGHITVDGKRVDIPSYIVEVGQVIGV 143 >gi|284049231|ref|YP_003399570.1| ribosomal protein S4 [Acidaminococcus fermentans DSM 20731] gi|283953452|gb|ADB48255.1| ribosomal protein S4 [Acidaminococcus fermentans DSM 20731] Length = 197 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +++ + VNG L+ + V + D + V Sbjct: 88 RLDNVVYRMGLAHTRRQARQLVTHGHIAVNGKRLDIPSALVKAGDVVSV 136 >gi|229524553|ref|ZP_04413958.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae bv. albensis VL426] gi|229338134|gb|EEO03151.1| SSU ribosomal protein S4p (S9e) [Vibrio cholerae bv. albensis VL426] Length = 206 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + NV + D + V Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFNVAANDVVAV 145 >gi|328957152|ref|YP_004374538.1| 30S ribosomal protein S4 [Carnobacterium sp. 17-4] gi|328673476|gb|AEB29522.1| 30S ribosomal protein S4 [Carnobacterium sp. 17-4] Length = 201 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ +++ + V+G ++ + +V I V Sbjct: 93 QRLDNVVYRLGLATTRRQARQLVNHGHILVDGKRVDIPSYSVSVGQVITV 142 >gi|319775954|ref|YP_004138442.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3047] gi|329123818|ref|ZP_08252376.1| ribosomal large subunit pseudouridine synthase D [Haemophilus aegyptius ATCC 11116] gi|317450545|emb|CBY86762.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae F3047] gi|327469305|gb|EGF14776.1| ribosomal large subunit pseudouridine synthase D [Haemophilus aegyptius ATCC 11116] Length = 324 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 30/238 (12%), Positives = 61/238 (25%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI----E 61 VQ QR+ + +A SR ++ I VK+N + V+ + I E Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L V Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVR-----------FHGQVDQ 155 RLD +T GL+++ L + Q Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 156 DKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 V + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPMGKPAVTHYRIMENYRNYTRLRLRLETGRMHQIRVHMAHIAHPLL 247 >gi|312792842|ref|YP_004025765.1| RNA-binding S4 domain-containing protein [Caldicellulosiruptor kristjanssonii 177R1B] gi|312876108|ref|ZP_07736096.1| RNA-binding S4 domain protein [Caldicellulosiruptor lactoaceticus 6A] gi|311797094|gb|EFR13435.1| RNA-binding S4 domain protein [Caldicellulosiruptor lactoaceticus 6A] gi|312179982|gb|ADQ40152.1| RNA-binding S4 domain protein [Caldicellulosiruptor kristjanssonii 177R1B] Length = 80 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR + RV VNG + + + +V D IEV Sbjct: 1 MRIDKYLKVSRIIKRRTLAQEACEAGRVFVNGKVAK-PSTDVKVGDIIEV 49 >gi|293400557|ref|ZP_06644702.1| tyrosine--tRNA ligase [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291305583|gb|EFE46827.1| tyrosine--tRNA ligase [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 407 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 2/61 (3%) Query: 16 VSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERTR 74 + V+ +A IAS +RE I Q +++NG ++ V ST I + +++ +R Sbjct: 344 LD-VLVQAKIASSKREAREWIKQGSIQINGERIKDCEFIVSSTHAITTNKTIIKRGKRNY 402 Query: 75 L 75 Sbjct: 403 Y 403 >gi|227550803|ref|ZP_03980852.1| 30S ribosomal protein S4 [Enterococcus faecium TX1330] gi|257878795|ref|ZP_05658448.1| ribosomal protein S4 [Enterococcus faecium 1,230,933] gi|257881433|ref|ZP_05661086.1| ribosomal protein S4 [Enterococcus faecium 1,231,502] gi|257885703|ref|ZP_05665356.1| ribosomal protein S4 [Enterococcus faecium 1,231,501] gi|257887941|ref|ZP_05667594.1| ribosomal protein S4 [Enterococcus faecium 1,141,733] gi|257890654|ref|ZP_05670307.1| ribosomal protein S4 [Enterococcus faecium 1,231,410] gi|257893257|ref|ZP_05672910.1| ribosomal protein S4 [Enterococcus faecium 1,231,408] gi|257896441|ref|ZP_05676094.1| ribosomal protein S4 [Enterococcus faecium Com12] gi|257899415|ref|ZP_05679068.1| ribosomal protein S4 [Enterococcus faecium Com15] gi|258615136|ref|ZP_05712906.1| 30S ribosomal protein S4 [Enterococcus faecium DO] gi|260558361|ref|ZP_05830557.1| ribosomal protein S4 [Enterococcus faecium C68] gi|261207068|ref|ZP_05921757.1| ribosomal protein S4 [Enterococcus faecium TC 6] gi|289565930|ref|ZP_06446370.1| 30S ribosomal protein S4 [Enterococcus faecium D344SRF] gi|293379587|ref|ZP_06625726.1| ribosomal protein S4 [Enterococcus faecium PC4.1] gi|293556844|ref|ZP_06675405.1| ribosomal protein S4 [Enterococcus faecium E1039] gi|293563783|ref|ZP_06678222.1| ribosomal protein S4 [Enterococcus faecium E1162] gi|293567853|ref|ZP_06679194.1| ribosomal protein S4 [Enterococcus faecium E1071] gi|294614629|ref|ZP_06694533.1| ribosomal protein S4 [Enterococcus faecium E1636] gi|294618566|ref|ZP_06698125.1| ribosomal protein S4 [Enterococcus faecium E1679] gi|294622064|ref|ZP_06701197.1| ribosomal protein S4 [Enterococcus faecium U0317] gi|314938819|ref|ZP_07846090.1| ribosomal protein S4 [Enterococcus faecium TX0133a04] gi|314943624|ref|ZP_07850378.1| ribosomal protein S4 [Enterococcus faecium TX0133C] gi|314948703|ref|ZP_07852076.1| ribosomal protein S4 [Enterococcus faecium TX0082] gi|314952153|ref|ZP_07855171.1| ribosomal protein S4 [Enterococcus faecium TX0133A] gi|314991873|ref|ZP_07857330.1| ribosomal protein S4 [Enterococcus faecium TX0133B] gi|314996586|ref|ZP_07861621.1| ribosomal protein S4 [Enterococcus faecium TX0133a01] gi|227180040|gb|EEI61012.1| 30S ribosomal protein S4 [Enterococcus faecium TX1330] gi|257813023|gb|EEV41781.1| ribosomal protein S4 [Enterococcus faecium 1,230,933] gi|257817091|gb|EEV44419.1| ribosomal protein S4 [Enterococcus faecium 1,231,502] gi|257821559|gb|EEV48689.1| ribosomal protein S4 [Enterococcus faecium 1,231,501] gi|257823995|gb|EEV50927.1| ribosomal protein S4 [Enterococcus faecium 1,141,733] gi|257827014|gb|EEV53640.1| ribosomal protein S4 [Enterococcus faecium 1,231,410] gi|257829636|gb|EEV56243.1| ribosomal protein S4 [Enterococcus faecium 1,231,408] gi|257833006|gb|EEV59427.1| ribosomal protein S4 [Enterococcus faecium Com12] gi|257837327|gb|EEV62401.1| ribosomal protein S4 [Enterococcus faecium Com15] gi|260075535|gb|EEW63841.1| ribosomal protein S4 [Enterococcus faecium C68] gi|260078696|gb|EEW66398.1| ribosomal protein S4 [Enterococcus faecium TC 6] gi|289162303|gb|EFD10163.1| 30S ribosomal protein S4 [Enterococcus faecium D344SRF] gi|291589438|gb|EFF21245.1| ribosomal protein S4 [Enterococcus faecium E1071] gi|291592531|gb|EFF24136.1| ribosomal protein S4 [Enterococcus faecium E1636] gi|291595179|gb|EFF26513.1| ribosomal protein S4 [Enterococcus faecium E1679] gi|291598362|gb|EFF29446.1| ribosomal protein S4 [Enterococcus faecium U0317] gi|291600928|gb|EFF31219.1| ribosomal protein S4 [Enterococcus faecium E1039] gi|291604264|gb|EFF33759.1| ribosomal protein S4 [Enterococcus faecium E1162] gi|292641803|gb|EFF59974.1| ribosomal protein S4 [Enterococcus faecium PC4.1] gi|313589275|gb|EFR68120.1| ribosomal protein S4 [Enterococcus faecium TX0133a01] gi|313593578|gb|EFR72423.1| ribosomal protein S4 [Enterococcus faecium TX0133B] gi|313595685|gb|EFR74530.1| ribosomal protein S4 [Enterococcus faecium TX0133A] gi|313597661|gb|EFR76506.1| ribosomal protein S4 [Enterococcus faecium TX0133C] gi|313641830|gb|EFS06410.1| ribosomal protein S4 [Enterococcus faecium TX0133a04] gi|313644875|gb|EFS09455.1| ribosomal protein S4 [Enterococcus faecium TX0082] Length = 203 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ +++ + V+G ++ + +V I V Sbjct: 93 QRLDNVVYRLGLATTRRQARQLVNHGHILVDGKRVDIPSYHVEVGQVISV 142 >gi|239828057|ref|YP_002950681.1| 30S ribosomal protein S4 [Geobacillus sp. WCH70] gi|259495282|sp|C5D699|RS4_GEOSW RecName: Full=30S ribosomal protein S4 gi|239808350|gb|ACS25415.1| ribosomal protein S4 [Geobacillus sp. WCH70] Length = 200 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RR+ +++ + V+G + + V I V Sbjct: 93 RLDNLVYRLGFARTRRQARQLVTHGHILVDGNRVNIPSYRVKPGQTISV 141 >gi|153831469|ref|ZP_01984136.1| ribosomal protein S4 [Vibrio cholerae 623-39] gi|148873050|gb|EDL71185.1| ribosomal protein S4 [Vibrio cholerae 623-39] Length = 166 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 27/49 (55%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + NV + D + V Sbjct: 57 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFNVAANDVVAV 105 >gi|255556673|ref|XP_002519370.1| ribosomal pseudouridine synthase, putative [Ricinus communis] gi|223541437|gb|EEF42987.1| ribosomal pseudouridine synthase, putative [Ricinus communis] Length = 399 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 28/198 (14%), Positives = 60/198 (30%), Gaps = 7/198 (3%) Query: 5 NIVQENFTPQRVSKVIAR--AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +V R+ I+ +GI SR V+ I V VNG ++++ + NV D + Sbjct: 63 QVVHAKSVKLRLDSWISSRISGI-SRARVQSSIKSGLVSVNGRVVDKVSHNVKFGDKVTC 121 Query: 63 DGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLL 122 L+ + + + + + V + + Sbjct: 122 TISELQPLRAEPEDMPLDIVYEDEHLLVVNKPPHMVVHPAPGNPTGTLVNGILHHCNLPT 181 Query: 123 LLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG----DMQVT 178 + + + E S R Y + ++ L KG + ++ Sbjct: 182 VAISSQEVLSDAEDRSDDDERSYSSSCESSIRPGIVHRLDKGTSGLLVVAKDEHAHAHLS 241 Query: 179 LDTQKGSNAWVTVGLREG 196 ++ + V + L G Sbjct: 242 EQFKQHTIQRVYISLTSG 259 >gi|33862020|ref|NP_893581.1| rRNA methyltransferase [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|33634238|emb|CAE19923.1| FtsJ cell division protein:S4 domain:Hemolysin A [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 270 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 10/54 (18%), Positives = 26/54 (48%), Gaps = 2/54 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVK-VNGILLERAAVNVMSTDHIEVDGVP 66 R+ + G+ +R++ + +I +VK +NG + ++ V+ ++ P Sbjct: 6 RLDLYLIYKGLCETRQKAQGLILAGKVKDINGKIFDKPGQQVLIGTEFIIESEP 59 >gi|330976664|gb|EGH76707.1| 30S ribosomal protein S4 [Pseudomonas syringae pv. aptata str. DSM 50252] Length = 206 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + V VNG + + V + D + + Sbjct: 97 RLDNVVYRMGFGSTRAESRQLVSHKSVSVNGKTVNVPSYQVRAGDVVAI 145 >gi|238928129|ref|ZP_04659889.1| ribosomal protein S4 [Selenomonas flueggei ATCC 43531] gi|238884089|gb|EEQ47727.1| ribosomal protein S4 [Selenomonas flueggei ATCC 43531] Length = 197 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+A +RR+ +++ VNG ++ + V D IEV Sbjct: 88 RMDNVVFRLGLANTRRQARQLVRHGHFTVNGKRVDIPSALVREGDVIEV 136 >gi|167036828|ref|YP_001664406.1| 30S ribosomal protein S4 [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167039547|ref|YP_001662532.1| 30S ribosomal protein S4 [Thermoanaerobacter sp. X514] gi|256752659|ref|ZP_05493511.1| ribosomal protein S4 [Thermoanaerobacter ethanolicus CCSD1] gi|300915202|ref|ZP_07132517.1| ribosomal protein S4 [Thermoanaerobacter sp. X561] gi|307725126|ref|YP_003904877.1| 30S ribosomal protein S4 [Thermoanaerobacter sp. X513] gi|320115250|ref|YP_004185409.1| 30S ribosomal protein S4 [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|226695091|sp|B0KCM7|RS4_THEP3 RecName: Full=30S ribosomal protein S4 gi|226695092|sp|B0K5S0|RS4_THEPX RecName: Full=30S ribosomal protein S4 gi|166853787|gb|ABY92196.1| RNA-binding S4 domain protein [Thermoanaerobacter sp. X514] gi|166855662|gb|ABY94070.1| RNA-binding S4 domain protein [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256748479|gb|EEU61531.1| ribosomal protein S4 [Thermoanaerobacter ethanolicus CCSD1] gi|300888926|gb|EFK84073.1| ribosomal protein S4 [Thermoanaerobacter sp. X561] gi|307582187|gb|ADN55586.1| ribosomal protein S4 [Thermoanaerobacter sp. X513] gi|319928341|gb|ADV79026.1| ribosomal protein S4 [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 206 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A SR + ++++ ++VNG ++ + V D I V Sbjct: 99 RLDNVVFRLGFAASRPQARQLVSHGHIEVNGKKVDIPSFLVKPGDVISV 147 >gi|291538949|emb|CBL12060.1| Uncharacterized conserved protein, contains S4-like domain [Roseburia intestinalis XB6B4] Length = 250 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 5/66 (7%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M DK+ I+ N R+ VIA SR + +I RV VNG ++ D Sbjct: 163 MIDKDGIITSN----RLDSVIACVYRLSRSQSLELIRADRVFVNGKNIQTPTYICKPDDI 218 Query: 60 IEVDGV 65 I V G Sbjct: 219 ISVRGH 224 >gi|240146312|ref|ZP_04744913.1| putative S4 domain protein [Roseburia intestinalis L1-82] gi|257201553|gb|EEU99837.1| putative S4 domain protein [Roseburia intestinalis L1-82] Length = 250 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 5/66 (7%) Query: 1 MKDKN-IVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 M DK+ I+ N R+ VIA SR + +I RV VNG ++ D Sbjct: 163 MIDKDGIITSN----RLDSVIACVYRLSRSQSLELIRADRVFVNGKNIQTPTYICKPDDI 218 Query: 60 IEVDGV 65 I V G Sbjct: 219 ISVRGH 224 >gi|225376437|ref|ZP_03753658.1| hypothetical protein ROSEINA2194_02079 [Roseburia inulinivorans DSM 16841] gi|225211813|gb|EEG94167.1| hypothetical protein ROSEINA2194_02079 [Roseburia inulinivorans DSM 16841] Length = 197 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 1/52 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ V+ R G A +R+E +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVVFRLGFARTRKEARQIVDHKFVTVNGKQVNIPSYLVKAGDVIEIKEK 139 >gi|189219451|ref|YP_001940092.1| ribosomal protein S4 [Methylacidiphilum infernorum V4] gi|189186309|gb|ACD83494.1| Ribosomal protein S4 [Methylacidiphilum infernorum V4] Length = 228 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 1/73 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAER 72 +R+ V+ R A SR E +++ + VNG + + D IEV P + Sbjct: 118 ERLDNVVYRLCFATSRMEARQLVNHGHIYVNGKKVNIPSYRTKPGDVIEVCPKPQSRKLA 177 Query: 73 TRLWLYHKPIGLV 85 R K + + Sbjct: 178 LRNLEAMKGVKIP 190 >gi|254977345|ref|ZP_05273817.1| putative RNA-binding mediating protein [Clostridium difficile QCD-66c26] gi|255094675|ref|ZP_05324153.1| putative RNA-binding mediating protein [Clostridium difficile CIP 107932] gi|255316429|ref|ZP_05358012.1| putative RNA-binding mediating protein [Clostridium difficile QCD-76w55] gi|255519089|ref|ZP_05386765.1| putative RNA-binding mediating protein [Clostridium difficile QCD-97b34] gi|255652272|ref|ZP_05399174.1| putative RNA-binding mediating protein [Clostridium difficile QCD-37x79] gi|260681772|ref|YP_003213057.1| putative RNA-binding mediating protein [Clostridium difficile CD196] gi|306521986|ref|ZP_07408333.1| putative RNA-binding mediating protein [Clostridium difficile QCD-32g58] gi|260207935|emb|CBA60045.1| putative RNA-binding mediating protein [Clostridium difficile CD196] Length = 68 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 10/64 (15%), Positives = 25/64 (39%), Gaps = 9/64 (14%) Query: 10 NFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 ++ + + A G + +I + V VN + R + S D ++++G Sbjct: 7 ESEYIKLDQFLKLAEIASTGG----HAKFLIQEGLVTVNDEIELRRGKKIKSGDIVKIEG 62 Query: 65 VPLR 68 ++ Sbjct: 63 TKIK 66 >gi|148657960|ref|YP_001278165.1| hemolysin A [Roseiflexus sp. RS-1] gi|148570070|gb|ABQ92215.1| hemolysin A [Roseiflexus sp. RS-1] Length = 267 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/56 (23%), Positives = 27/56 (48%), Gaps = 1/56 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ + G+A +R + +I V+V+G++ +A V IE+ G Sbjct: 3 KKVRLDHLLVQRGLAETRARAQALILAGEVRVDGVVRLKAGELVPEDAGIELAGKL 58 >gi|125973345|ref|YP_001037255.1| hemolysin A [Clostridium thermocellum ATCC 27405] gi|256005451|ref|ZP_05430414.1| hemolysin A [Clostridium thermocellum DSM 2360] gi|281417545|ref|ZP_06248565.1| hemolysin A [Clostridium thermocellum JW20] gi|125713570|gb|ABN52062.1| hemolysin A [Clostridium thermocellum ATCC 27405] gi|255990591|gb|EEU00710.1| hemolysin A [Clostridium thermocellum DSM 2360] gi|281408947|gb|EFB39205.1| hemolysin A [Clostridium thermocellum JW20] gi|316940423|gb|ADU74457.1| hemolysin A [Clostridium thermocellum DSM 1313] Length = 270 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ G SR + + I V VN ++ V V I + Sbjct: 2 KKERLDVLLVNRGFFQSREKAKSSIMAGVVFVNDKKEDKPGVKVDVDSIITI 53 >gi|295399544|ref|ZP_06809526.1| ribosomal protein S4 [Geobacillus thermoglucosidasius C56-YS93] gi|312109901|ref|YP_003988217.1| ribosomal protein S4 [Geobacillus sp. Y4.1MC1] gi|294979010|gb|EFG54606.1| ribosomal protein S4 [Geobacillus thermoglucosidasius C56-YS93] gi|311215002|gb|ADP73606.1| ribosomal protein S4 [Geobacillus sp. Y4.1MC1] Length = 200 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RR+ +++ + V+G + + V I V Sbjct: 93 RLDNLVYRLGFARTRRQARQLVTHGHILVDGNRVNIPSYRVKPGQTISV 141 >gi|114763109|ref|ZP_01442535.1| ribosomal large subunit pseudouridine synthase D [Pelagibaca bermudensis HTCC2601] gi|114544162|gb|EAU47171.1| ribosomal large subunit pseudouridine synthase D [Roseovarius sp. HTCC2601] Length = 343 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 4/62 (6%) Query: 5 NIVQENFTPQRVSKVIAR----AGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 I+ P R+ K +AR A SR + ++IA+ V G +L V V D I Sbjct: 6 RIIIGEAPPARLDKALARDVPEAAALSRTRLAKLIAEGAVTRGGEVLSDPKVKVAEGDEI 65 Query: 61 EV 62 + Sbjct: 66 VI 67 >gi|82703097|ref|YP_412663.1| pseudouridine synthase, RluD [Nitrosospira multiformis ATCC 25196] gi|82411162|gb|ABB75271.1| ribosomal large subunit pseudouridine synthase D [Nitrosospira multiformis ATCC 25196] Length = 318 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 35/243 (14%), Positives = 71/243 (29%), Gaps = 39/243 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGI-----------------LL 47 I+ ++ R+ + +A+ SR ++ I ++RV V+G Sbjct: 4 IIPDHCAGLRLDQALAQLLAEWSRSRLQSWILEKRVSVDGACSLPRQKVWGGEKIVLSPA 63 Query: 48 ERAAVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS- 106 A + I +D + + + + +V S + + L Sbjct: 64 RDPAETAHEPEAIALD---IVHEDHAIIIIDKPAGLVVHPGSGNWQGTLLNALLHHSPQL 120 Query: 107 ----RVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY------------RVRFH 150 R V RLD T GLL++ L + R Sbjct: 121 SGIPRSGIVHRLDKETSGLLVVAKTLEAQTSLVRQLQKRTVKREYLALVWGSVSSHGRVD 180 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 V + + + +V G + + Q + GL G+ +I+ + Sbjct: 181 APVGRHPVQRTRMAVVASGKEART-RYEVLEQFTDCTLLRCGLETGRTHQIRVHMQSLGH 239 Query: 211 KVN 213 + Sbjct: 240 PLV 242 >gi|293365886|ref|ZP_06612589.1| S4 domain-containing protein YlmH [Streptococcus oralis ATCC 35037] gi|307702291|ref|ZP_07639249.1| S4 domain protein [Streptococcus oralis ATCC 35037] gi|291315564|gb|EFE56014.1| S4 domain-containing protein YlmH [Streptococcus oralis ATCC 35037] gi|307624094|gb|EFO03073.1| S4 domain protein [Streptococcus oralis ATCC 35037] Length = 263 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/48 (27%), Positives = 27/48 (56%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ +++ A SR + ++I ++ V+VN ++E++ V D I V Sbjct: 186 RLDALLSSALKLSRNQTSQLIEKKSVQVNYHVVEKSDYQVAVGDLISV 233 >gi|260944778|ref|XP_002616687.1| hypothetical protein CLUG_03928 [Clavispora lusitaniae ATCC 42720] gi|238850336|gb|EEQ39800.1| hypothetical protein CLUG_03928 [Clavispora lusitaniae ATCC 42720] Length = 468 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 1/54 (1%) Query: 15 RVSKVIARAGIASR-REVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPL 67 R+ + R+ AS R+ I VKVNG+ ++ A + S D V+ + Sbjct: 104 RLEFALFRSMFASSVRQAREFIKNGHVKVNGVTIKHPAFPLKSGDIFSVNPEKV 157 >gi|229006180|ref|ZP_04163866.1| RNA-binding S4 domain protein [Bacillus mycoides Rock1-4] gi|228755021|gb|EEM04380.1| RNA-binding S4 domain protein [Bacillus mycoides Rock1-4] Length = 246 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 24/50 (48%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ ++A SR++V+ +I VKVN +E+ A D + G Sbjct: 171 RLDVLLAEMLHLSRQKVQPLIKNGLVKVNWKTVEQTAYECFPGDVFSIRG 220 >gi|120609325|ref|YP_969003.1| 30S ribosomal protein S4 [Acidovorax citrulli AAC00-1] gi|152060922|sp|A1TJU1|RS4_ACIAC RecName: Full=30S ribosomal protein S4 gi|120587789|gb|ABM31229.1| SSU ribosomal protein S4P [Acidovorax citrulli AAC00-1] Length = 207 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G S R E ++++ + + VNG + A+ V D + V Sbjct: 98 RLDNVVYRMGFGSTRAEARQLVSHKAITVNGQSVNIASYLVKPGDVVAV 146 >gi|68535941|ref|YP_250646.1| hypothetical protein jk0864 [Corynebacterium jeikeium K411] gi|68263540|emb|CAI37028.1| hypothetical protein jk0864 [Corynebacterium jeikeium K411] Length = 283 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 1/58 (1%) Query: 6 IVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 + + QR+ + IA SR + MI RV VNG+L ++ A V I+V Sbjct: 1 MAKRGPKLQRLDAELVARKIARSREHAQEMIKAGRVTVNGMLAKKPASGVDGNVSIKV 58 >gi|194014420|ref|ZP_03053037.1| RNA-binding protein [Bacillus pumilus ATCC 7061] gi|194013446|gb|EDW23011.1| RNA-binding protein [Bacillus pumilus ATCC 7061] Length = 258 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 1/65 (1%) Query: 1 MKDK-NIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDH 59 +K K +I ++ + R+ V A SR++ + ++ VKVN + E + + D Sbjct: 168 VKSKTDIKEDTISSLRLDAVCAAISRQSRQKAQLLVKNGLVKVNWKVTEDPSFTIGEGDQ 227 Query: 60 IEVDG 64 + V G Sbjct: 228 LSVRG 232 >gi|114799098|ref|YP_762171.1| RluA family pseudouridine synthase [Hyphomonas neptunium ATCC 15444] gi|114739272|gb|ABI77397.1| pseudouridine synthase, RluA family [Hyphomonas neptunium ATCC 15444] Length = 341 Score = 48.6 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 2/65 (3%) Query: 1 MKDKNIVQENFT-PQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M I E QR+ + ARA SR + +I + V V G + V Sbjct: 1 MNQIVITSEAADAGQRLDAFLGARAEGISRSRAKTLIEEGAVTVGGAVETNPRAPVKKGL 60 Query: 59 HIEVD 63 V+ Sbjct: 61 VYAVN 65 >gi|298504578|gb|ADI83301.1| S4 domain protein [Geobacter sulfurreducens KN400] Length = 65 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 1/60 (1%) Query: 7 VQENFTPQRVSKVI-ARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 ++ + ++ + A +AS E + +IA+ V+VNG R + D +EV G Sbjct: 1 MKIDTDHIKLDSFLKAANLVASGGEAKIIIAEGAVRVNGETELRRGRKLRPGDQVEVAGE 60 >gi|294101380|ref|YP_003553238.1| pseudouridine synthase, RluA family [Aminobacterium colombiense DSM 12261] gi|293616360|gb|ADE56514.1| pseudouridine synthase, RluA family [Aminobacterium colombiense DSM 12261] Length = 314 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 41/268 (15%), Positives = 76/268 (28%), Gaps = 40/268 (14%) Query: 1 MKDKNIVQENFTPQRVSKVIA----RAGIASRREVERMIAQQRVKVNGILLERAAVNVMS 56 M V E+ +R+ KVI + + R I + V+V+G +V + Sbjct: 1 MSYTFKVSEHHAGRRLDKVIRTLWPNLPLG---AMMRGIRKGLVRVDGRK-TSCSVRLED 56 Query: 57 TDHIEVDGVP-----------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFD 99 + V + + + L + ++ + Sbjct: 57 GQSVYVPWEEPELIEKSVKTKRTGALSIVYKDHYIMVLNKEAGLIIQPDQSGEESLIERV 116 Query: 100 NLPSIFSRVI---SVGRLDINTEGLLLLTNDGGL----ARVLELPSTQWLRVYRVRFHGQ 152 L +V RLD NT GL+++ G R + VR Sbjct: 117 WLEVEPEGDFRACAVHRLDRNTTGLVVVALHGQSLRELQRAFRDNDVDKTYLVAVRGQTP 176 Query: 153 VDQDKLNLLKKGIVIQGICYGDM------QVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 ++ D L+K + + + V L G++ +I+ Sbjct: 177 LEGDITAPLQKDRDHNIVTASPDGLPAHTHYEKIAGDDECSLLKVSLLTGRSHQIRVHLA 236 Query: 207 FFNWKVNRLIRISYGPFQLGTLLAGSTR 234 + V + YG F L R Sbjct: 237 ISGYPVIG--DVKYGDFALNKQWYHRIR 262 >gi|293570759|ref|ZP_06681809.1| ribosomal protein S4 [Enterococcus faecium E980] gi|291609231|gb|EFF38503.1| ribosomal protein S4 [Enterococcus faecium E980] Length = 203 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G+A+ RR+ +++ + V+G ++ + +V I V Sbjct: 93 QRLDNVVYRLGLATTRRQARQLVNHGHILVDGKRVDIPSYHVEVGQVISV 142 >gi|157377427|ref|YP_001476027.1| 30S ribosomal protein S4 [Shewanella sediminis HAW-EB3] gi|189045400|sp|A8G1C6|RS4_SHESH RecName: Full=30S ribosomal protein S4 gi|157319801|gb|ABV38899.1| ribosomal protein S4 [Shewanella sediminis HAW-EB3] Length = 206 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D I + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKSIMVNGSVVNIPSFKVSANDVISI 145 >gi|320354569|ref|YP_004195908.1| RluA family pseudouridine synthase [Desulfobulbus propionicus DSM 2032] gi|320123071|gb|ADW18617.1| pseudouridine synthase, RluA family [Desulfobulbus propionicus DSM 2032] Length = 302 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 39/243 (16%), Positives = 73/243 (30%), Gaps = 37/243 (15%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 +V QR+ + R SR + ++I V VNG ++ A + + I V Sbjct: 1 MVTSGDQGQRLDHYLIRQLPEQSRSAIGKLIGAAHVLVNGQQVK-AGYRLHQDEIITVSF 59 Query: 65 VP--------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS---- 106 P + + L + P +V G + V L Sbjct: 60 PPTPSLDLAPEKIDFSILFEDEHLLVIGKPPGLVVHPACGHGGGTLVHGLLYHCQDLPAL 119 Query: 107 ---RVISVGRLDINTEGLLLLT-------------NDGGLARVLELPSTQWLRVYRVRFH 150 R V RLD +T G++L+ + + + + R R Sbjct: 120 DAGRPGIVHRLDKDTSGVMLVAKSERSLRSLMADFKNRKIHKTYHALLLRSPREREGRLV 179 Query: 151 GQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGS-NAWVTVGLREGKNREIKKVFEFFN 209 + + ++ K I Y + + V +G+ G+ +I+ Sbjct: 180 APIGRHPVDRKKMAIRPDQGKYAATHWRVLESFINGWCLVEIGIETGRTHQIRVHMASLR 239 Query: 210 WKV 212 V Sbjct: 240 APV 242 >gi|291087195|ref|ZP_06345679.2| ribosomal protein S4 [Clostridium sp. M62/1] gi|291075940|gb|EFE13304.1| ribosomal protein S4 [Clostridium sp. M62/1] gi|295092573|emb|CBK78680.1| SSU ribosomal protein S4P [Clostridium cf. saccharolyticum K10] Length = 197 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R+E +++ + V VNG + + V + D IE+ Sbjct: 88 RLDNVLFRMGFGRTRKETRQIVDHKHVLVNGKCVNIPSYLVKAGDVIEI 136 >gi|325265702|ref|ZP_08132391.1| ribosomal large subunit pseudouridine synthase D [Kingella denitrificans ATCC 33394] gi|324982833|gb|EGC18456.1| ribosomal large subunit pseudouridine synthase D [Kingella denitrificans ATCC 33394] Length = 367 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 26/231 (11%), Positives = 64/231 (27%), Gaps = 32/231 (13%) Query: 13 PQRVSKVIARAG-IASRREVERMIAQQRVKVNGILL---------ERAAVNVMSTDH--- 59 R+ +A+ SR + I V+ NG E V + +D Sbjct: 33 GTRLDAALAKLLPDYSRSRITSWIKDGLVQCNGQTASPKHKLIGGELLRVQIQPSDENQA 92 Query: 60 ----------IEVDGVPLRKAERTRLWLYHKPIGLVTT--HSDPDGRSTVFDNLPSIFSR 107 + D + + L ++ T + + + Sbjct: 93 FEPEAMDLDIVYEDDSVIVLNKPAGLVVHPAAGNWTGTLLNGLLAHCPELGQVPRAGIVH 152 Query: 108 VISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLR-------VYRVRFHGQVDQDKLNL 160 + + L + + ++ + R + + + +D N Sbjct: 153 RLDKDTSGLMVVAKTLPAQNHLVQQLQNRSVKRIYRAVADGIVPFDGKIETLIGRDPHNR 212 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWK 211 LK +V G V++ + +++++ L G+ +I+ Sbjct: 213 LKMAVVKFGGKEAVTHVSVLERYQAHSYIECRLETGRTHQIRVHMREARHP 263 >gi|282916259|ref|ZP_06324021.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus D139] gi|283770074|ref|ZP_06342966.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus H19] gi|282319699|gb|EFB50047.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus D139] gi|283460221|gb|EFC07311.1| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus H19] Length = 284 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 25/199 (12%), Positives = 53/199 (26%), Gaps = 28/199 (14%) Query: 42 VNGILLERAAVNVMSTDHIEVD-GVPLR--------------KAERTRLWLYHKPIGLVT 86 VN + +M D +E+ + + + + T Sbjct: 38 VNDEPVTV-RKQLMPNDILEIHLPQEIPSVNLIPYARKLEVLYEDAFIIIVTKPNNQNCT 96 Query: 87 THSDPDGRSTVFDNLPSIFSR-----VISVGRLDINTEGLLLLTNDGGLARVLELPSTQW 141 + S + L V RLD NT G+++ G + + + + Sbjct: 97 PSREHPHESLIEQVLYHCQEHGENINPHIVTRLDRNTTGIVIFAKYGHIHHLFSKVNLKK 156 Query: 142 LRVYRVRFHGQVD-------QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLR 194 + V + + + V Y + Q + V L Sbjct: 157 IYTCLVYGKTHTSGIIEANIRRSKDSIITREVASDGKYAKTSYEVINQNDKYSLCKVHLH 216 Query: 195 EGKNREIKKVFEFFNWKVN 213 G+ +I+ F+ + Sbjct: 217 TGRTHQIRVHFQHIGHPIV 235 >gi|302913178|ref|XP_003050861.1| predicted protein [Nectria haematococca mpVI 77-13-4] gi|256731799|gb|EEU45148.1| predicted protein [Nectria haematococca mpVI 77-13-4] Length = 4743 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/122 (10%), Positives = 35/122 (28%), Gaps = 4/122 (3%) Query: 237 SKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLS 296 +R++ EE+ AP + + + ++++ Sbjct: 4596 RPDDIRDRPSTAEREESVAPAPAPRRRFFGIKTSDNPPPAREEPAVAEPIRERAKESPPV 4655 Query: 297 KQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSK----RSLRRTSA 352 ++ K +RR S + + + + PS + S R+ Sbjct: 4656 EEPKRTRSKYRRPRESMDEARPRSRRTRDEPAPESPRDRDARPSRHVRMDTEDSRRKARH 4715 Query: 353 KK 354 ++ Sbjct: 4716 EE 4717 Score = 37.1 bits (84), Expect = 3.9, Method: Composition-based stats. Identities = 18/120 (15%), Positives = 37/120 (30%), Gaps = 5/120 (4%) Query: 239 KILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSK- 297 + ++E G E + S + R RP+ I + P R + + + Sbjct: 4565 QEVKEAKGKEPEAEPERRHRRSRRHSHS-GRPRPDDIRDRPSTAEREESVAPAPAPRRRF 4623 Query: 298 ---QKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + P R A + + S + +R + R P + R+ + Sbjct: 4624 FGIKTSDNPPPAREEPAVAEPIRERAKESPPVEEPKRTRSKYRRPRESMDEARPRSRRTR 4683 >gi|226356664|ref|YP_002786404.1| ribosomal large subunit pseudouridine synthase D [Deinococcus deserti VCD115] gi|226318654|gb|ACO46650.1| putative ribosomal large subunit pseudouridine synthase D [Deinococcus deserti VCD115] Length = 321 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 31/244 (12%), Positives = 60/244 (24%), Gaps = 45/244 (18%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLER------AAVNVM------STDHIEV 62 R+ V+A ASR +V IA VKV G + + + +E Sbjct: 13 RLDAVLAALSGASRSQVAAWIAGGHVKVEGQPVTKVSLKLRGGERIDVSPPALPDARVEA 72 Query: 63 DGVPLRKAERTRLWL--YHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTE- 119 + +PL + P + + V L + + Sbjct: 73 EDLPLDVIYEDDYLIAVNKPPGMVTHPAPGVLSGTLVNALLGRMPLPEQPDYDSEAGYRP 132 Query: 120 GLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKKGIVIQGICYG------ 173 G++ + ++ + F + + + G Sbjct: 133 GIVHRLDKDTSGVIVVAKTVGAHARLAAAFKDRETRKTYLAIAAGQWRADGPARVEAPIG 192 Query: 174 --DMQVTLDTQKGSN----------------------AWVTVGLREGKNREIKKVFEFFN 209 +Q T G+N A V R G+ +I+ Sbjct: 193 RHPVQRQRMTVGGANPREAQTLFTPLAAHPDGHGRTLALVRAQPRTGRTHQIRVHLAHLG 252 Query: 210 WKVN 213 + Sbjct: 253 SPIL 256 >gi|190893167|ref|YP_001979709.1| RNA-pseudouridylate synthase, ribosomal large subunit D [Rhizobium etli CIAT 652] gi|190698446|gb|ACE92531.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D [Rhizobium etli CIAT 652] Length = 354 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 35/286 (12%), Positives = 79/286 (27%), Gaps = 53/286 (18%) Query: 4 KNIVQENFTPQ-RVSKVI-ARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 + ++ + T + R+ + A+ G SR ++ +I +V + G L+ V + D Sbjct: 25 RKVLTADETAEGRLDAWLTAQLGEEFSRSRIKVLIKDGQVSMRGQLITDPQRKVRAGDSF 84 Query: 61 EV----------DGVPLR----KAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFS 106 E+ G + + + + +V S + V + + Sbjct: 85 EITLPEPEDPTPQGEDIPLDILYEDDDLIVISKPAGLVVHPGSGNWTGTLVNALIHHCGA 144 Query: 107 RVISVGRLDIN----------TEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD 156 + +G + T +++ ND + + + R + + Sbjct: 145 TLSGIGGVRRPGIVHRLDKDTTGVMVVAKNDVAHRHLSLQFADHGRTMPLERAYRAIVWG 204 Query: 157 KLNLLKKGI-----VIQGICYGDMQVTLDTQKGSN---------------------AWVT 190 + L + G D+Q + V Sbjct: 205 RPRSLTGTVDAPLGRATGDRTRRAVKRPDSQDADEAITHYEVIERFHETPDATALASLVE 264 Query: 191 VGLREGKNREIKKVFEFFNWKVNRLIRISYGPFQLGTLLAGSTREV 236 L G+ +I+ + G LL R+V Sbjct: 265 CRLETGRTHQIRVHMAHIGHPLLGDTVYGAGFRTKANLLPEDIRKV 310 >gi|153940691|ref|YP_001390824.1| RluA family pseudouridine synthase [Clostridium botulinum F str. Langeland] gi|152936587|gb|ABS42085.1| pseudouridine synthase, RluA family [Clostridium botulinum F str. Langeland] gi|295318893|gb|ADF99270.1| pseudouridine synthase, RluA family [Clostridium botulinum F str. 230613] Length = 305 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 65/244 (26%), Gaps = 37/244 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ N+ V++ F R+ +++ SR ++ +I + V VN ++ + D Sbjct: 1 MEKINLQVEKEFDNVRLDLYLSKIFEDKSRSYLQGIIDEGNVLVNNK-EKKRNYKLKVGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 +IEV+ P + ++ + + +V + V L Sbjct: 60 NIEVNIPEPKLLQIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLHHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------- 156 G + G L S L Sbjct: 120 KDLSGINGVARPGIVHRIDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEGIIK 179 Query: 157 ------------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 K V++ + + + ++ V L G+ +I+ Sbjct: 180 YEQGTIEAPIGRHPVDRIKMAVVKDGRHAVTHYKVIERFKNHTLVECRLETGRTHQIRVH 239 Query: 205 FEFF 208 Sbjct: 240 MSHI 243 >gi|170728985|ref|YP_001763011.1| 30S ribosomal protein S4 [Shewanella woodyi ATCC 51908] gi|226695076|sp|B1KM36|RS4_SHEWM RecName: Full=30S ribosomal protein S4 gi|169814332|gb|ACA88916.1| ribosomal protein S4 [Shewanella woodyi ATCC 51908] Length = 206 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 26/49 (53%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G +R E ++++ + + VNG ++ + V + D I + Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKSIMVNGSVVNIPSFKVSANDVISI 145 >gi|145639768|ref|ZP_01795370.1| SfhB [Haemophilus influenzae PittII] gi|145271136|gb|EDK11051.1| SfhB [Haemophilus influenzae PittII] gi|309750408|gb|ADO80392.1| 23S rRNA pseudouridine synthase [Haemophilus influenzae R2866] Length = 324 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 65/238 (27%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---- 61 VQ QR+ + +A SR ++ I VK+N + V+ + IE Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L V Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY---------RVRFHGQVDQDK 157 RLD +T GL+++ L + + Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 158 LNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K+ ++ + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPIGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|312623027|ref|YP_004024640.1| RNA-binding S4 domain-containing protein [Caldicellulosiruptor kronotskyensis 2002] gi|312203494|gb|ADQ46821.1| RNA-binding S4 domain protein [Caldicellulosiruptor kronotskyensis 2002] Length = 80 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRRE-VERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + I RR ++ RV VNG + + + +V D IEV Sbjct: 1 MRIDKYLKVSRIIKRRTLAQQACEAGRVFVNGKVAK-PSTDVKVGDVIEV 49 >gi|218134379|ref|ZP_03463183.1| hypothetical protein BACPEC_02273 [Bacteroides pectinophilus ATCC 43243] gi|217989764|gb|EEC55775.1| hypothetical protein BACPEC_02273 [Bacteroides pectinophilus ATCC 43243] Length = 69 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 4/51 (7%) Query: 20 IARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKA 70 + +G+ E + +I V VNG + + + D +E DG ++ Sbjct: 22 LVESGV----EAKIVITDGEVTVNGQVETQRGKKLHGGDIVEFDGEQIKIE 68 >gi|16078605|ref|NP_389424.1| factor involved in shape determination, RNA-binding fold [Bacillus subtilis subsp. subtilis str. 168] gi|221309415|ref|ZP_03591262.1| hypothetical protein Bsubs1_08521 [Bacillus subtilis subsp. subtilis str. 168] gi|221313740|ref|ZP_03595545.1| hypothetical protein BsubsN3_08457 [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221318664|ref|ZP_03599958.1| hypothetical protein BsubsJ_08391 [Bacillus subtilis subsp. subtilis str. JH642] gi|221322937|ref|ZP_03604231.1| hypothetical protein BsubsS_08497 [Bacillus subtilis subsp. subtilis str. SMY] gi|81345679|sp|P71020|YLMH_BACSU RecName: Full=Putative RNA-binding protein ylmH gi|1518679|gb|AAB49278.1| orf [Bacillus subtilis subsp. subtilis str. 168] gi|2633914|emb|CAB13415.1| factor involved in shape determination, RNA-binding fold [Bacillus subtilis subsp. subtilis str. 168] Length = 257 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 28/62 (45%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D I + + R+ V A SR++ + ++ VKVN ++E + V D + + Sbjct: 170 DVEIRDDTVSSLRLDAVCASMSRQSRQKSQTLVKNGLVKVNWKVVEDPSYIVAEGDMLSI 229 Query: 63 DG 64 G Sbjct: 230 RG 231 >gi|227503303|ref|ZP_03933352.1| pseudouridylate synthase [Corynebacterium accolens ATCC 49725] gi|306836462|ref|ZP_07469436.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium accolens ATCC 49726] gi|227075806|gb|EEI13769.1| pseudouridylate synthase [Corynebacterium accolens ATCC 49725] gi|304567655|gb|EFM43246.1| ribosomal large subunit pseudouridine synthase D [Corynebacterium accolens ATCC 49726] Length = 308 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 23/243 (9%), Positives = 60/243 (24%), Gaps = 37/243 (15%) Query: 7 VQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVN------------GILLE----RA 50 + E R +A+ SR ++ A+ V V+ G ++ Sbjct: 10 IPEGLEGMRADAALAKLLGLSRSATAQLCAEGGVTVDSQELGKSERLASGQVVSVLLPEP 69 Query: 51 AVNVMSTDHIEVDGVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVIS 110 ++ + + V+G+ + ++ + ++ DG + + + ++ Sbjct: 70 EKPLLPREEL-VEGMDVLYSDADIICVHKPVGVAAHPSVGWDGPTVIGGLRAAGYNVASL 128 Query: 111 VGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------------- 156 L + G + + L+ + Sbjct: 129 GPTERQGIVHRLDVGTSGVMVVASSGRAYSALKHAFKHRTVKKTYHAVVQGLPDPIEGTI 188 Query: 157 ------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNW 210 K V+ L + + V L G+ +I+ Sbjct: 189 DAPIGRHPKSGWKFAVLDDGKAAVTHYRLIEAFREASLIEVHLETGRTHQIRVHMSATGH 248 Query: 211 KVN 213 Sbjct: 249 PCV 251 >gi|226507814|ref|NP_001152354.1| hemolysin A [Zea mays] gi|195655423|gb|ACG47179.1| hemolysin A [Zea mays] Length = 297 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 8/61 (13%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE 61 K K + E +R + SR ++ I Q +V V+G ++ +A V IE Sbjct: 40 KKKRRLDEVC-LERFQQY-------SRTYIQSWILQGKVIVDGRVVNKAGTQVSDKSVIE 91 Query: 62 V 62 + Sbjct: 92 I 92 >gi|145641509|ref|ZP_01797087.1| SfhB [Haemophilus influenzae R3021] gi|145273800|gb|EDK13668.1| SfhB [Haemophilus influenzae 22.4-21] Length = 324 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 28/238 (11%), Positives = 64/238 (26%), Gaps = 31/238 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE---- 61 VQ QR+ + +A SR ++ I VK+N + V+ + IE Sbjct: 10 VQPEQMGQRLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVE 69 Query: 62 VDGVP----------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 V+ + + + + +V + + + L Sbjct: 70 VEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPISEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVY---------RVRFHGQVDQDK 157 RLD +T GL+++ L + + Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREYEAVASGIMTKGGTVDQPMA 189 Query: 158 LNLLKKGIVIQGICYGDM--QVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + K+ ++ + + + + L G+ +I+ + Sbjct: 190 RHATKRTLMAVHPIGKPAVTHYRIMENYRNYTRLRLRLETGRTHQIRVHMAHIAHPLL 247 >gi|319774855|ref|YP_004134124.1| RNA polymerase sigma factor, sigma-70 family [Thermovibrio ammonificans HB-1] gi|317115203|gb|ADU97692.1| RNA polymerase sigma factor, sigma-70 family [Thermovibrio ammonificans HB-1] Length = 289 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 10/36 (27%), Positives = 17/36 (47%) Query: 31 VERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 ++ Q V+VNG ++ + + V TD I V Sbjct: 171 ASELLEQGLVRVNGRVVRKPSWKVSLTDEILVGDER 206 >gi|212638314|ref|YP_002314834.1| 30S ribosomal protein S4 [Anoxybacillus flavithermus WK1] gi|212559794|gb|ACJ32849.1| Ribosomal protein S4 [Anoxybacillus flavithermus WK1] Length = 219 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ R G A +RR+ +++ + V+G ++ + V I V Sbjct: 112 RLDNLVYRLGFARTRRQARQLVNHGHILVDGSRVDIPSYRVKPGQTISV 160 >gi|291436587|ref|ZP_06575977.1| type I polyketide synthase [Streptomyces ghanaensis ATCC 14672] gi|291339482|gb|EFE66438.1| type I polyketide synthase [Streptomyces ghanaensis ATCC 14672] Length = 2626 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 12/99 (12%), Positives = 20/99 (20%) Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + AP R + +P + + P R Sbjct: 2044 RHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNPPPGRRGHL 2103 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S R P+ PS+ R + Sbjct: 2104 PGHRRTERTRGRHRPSAGRPRGPAPGPALPSRTRRPRGA 2142 Score = 41.7 bits (96), Expect = 0.16, Method: Composition-based stats. Identities = 12/108 (11%), Positives = 24/108 (22%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 E + +L P + R R + ++ + P Sbjct: 2068 ALPAHREGRRHLRPPGRTRPGGTRTRNPPPGRRGHLPGHRRTERTRGRHRPSAGRPRGPA 2127 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 L S +G + + R + R R + Sbjct: 2128 PGPALPSRTRRPRGARPAAGTRRPGRARHRPRRRRHRGSRGAPGHRGR 2175 Score = 40.9 bits (94), Expect = 0.31, Method: Composition-based stats. Identities = 11/111 (9%), Positives = 19/111 (17%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + L P+ + P + + ++ Sbjct: 2021 RRRHRLPGTRRPPPHGLRGGGRLRHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLR 2080 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R G R PS R A Sbjct: 2081 PPGRTRPGGTRTRNPPPGRRGHLPGHRRTERTRGRHRPSAGRPRGPAPGPA 2131 Score = 40.2 bits (92), Expect = 0.49, Method: Composition-based stats. Identities = 8/94 (8%), Positives = 16/94 (17%), Gaps = 2/94 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R L A + + + + + + + Sbjct: 2056 RRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNPPPGRRGHLPGHRRTERTRGR 2115 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENH 335 P R + S G R Sbjct: 2116 HRPSAGRPRGPAPG--PALPSRTRRPRGARPAAG 2147 Score = 39.8 bits (91), Expect = 0.59, Method: Composition-based stats. Identities = 19/145 (13%), Positives = 32/145 (22%), Gaps = 17/145 (11%) Query: 226 GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 G S R + + L A + ++ + R R P R Sbjct: 1980 GDRSPASQRPLRRTRQEGHLPQQPDHAAPLRPQPHLHRFQPRRRHRLPGTRRPPPHGLRG 2039 Query: 286 KKN------------SSQKNGLSKQKKLATPVHRRNLA---SNVWMAKGIHSSFLSDSGQ 330 + + A P HR G + G+ Sbjct: 2040 GGRLRHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNPPPGR 2099 Query: 331 RE--ENHRRSPSFPSKRSLRRTSAK 353 R HRR+ + + Sbjct: 2100 RGHLPGHRRTERTRGRHRPSAGRPR 2124 Score = 35.9 bits (81), Expect = 9.1, Method: Composition-based stats. Identities = 9/126 (7%), Positives = 19/126 (15%) Query: 227 TLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 G S++ LR L + + Sbjct: 1976 GHHPGDRSPASQRPLRRTRQEGHLPQQPDHAAPLRPQPHLHRFQPRRRHRLPGTRRPPPH 2035 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + RR + + + R R ++ Sbjct: 2036 GLRGGGRLRHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNP 2095 Query: 347 LRRTSA 352 Sbjct: 2096 PPGRRG 2101 >gi|239928258|ref|ZP_04685211.1| putative type I polyketide synthase WcbR [Streptomyces ghanaensis ATCC 14672] Length = 2617 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 12/99 (12%), Positives = 20/99 (20%) Query: 253 AQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLAS 312 + AP R + +P + + P R Sbjct: 2035 RHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNPPPGRRGHL 2094 Query: 313 NVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTS 351 S R P+ PS+ R + Sbjct: 2095 PGHRRTERTRGRHRPSAGRPRGPAPGPALPSRTRRPRGA 2133 Score = 41.7 bits (96), Expect = 0.16, Method: Composition-based stats. Identities = 12/108 (11%), Positives = 24/108 (22%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 E + +L P + R R + ++ + P Sbjct: 2059 ALPAHREGRRHLRPPGRTRPGGTRTRNPPPGRRGHLPGHRRTERTRGRHRPSAGRPRGPA 2118 Query: 306 HRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 L S +G + + R + R R + Sbjct: 2119 PGPALPSRTRRPRGARPAAGTRRPGRARHRPRRRRHRGSRGAPGHRGR 2166 Score = 40.9 bits (94), Expect = 0.30, Method: Composition-based stats. Identities = 11/111 (9%), Positives = 19/111 (17%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R + + L P+ + P + + ++ Sbjct: 2012 RRRHRLPGTRRPPPHGLRGGGRLRHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLR 2071 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSA 352 R G R PS R A Sbjct: 2072 PPGRTRPGGTRTRNPPPGRRGHLPGHRRTERTRGRHRPSAGRPRGPAPGPA 2122 Score = 40.2 bits (92), Expect = 0.48, Method: Composition-based stats. Identities = 8/94 (8%), Positives = 16/94 (17%), Gaps = 2/94 (2%) Query: 242 REQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKL 301 R L A + + + + + + + Sbjct: 2047 RRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNPPPGRRGHLPGHRRTERTRGR 2106 Query: 302 ATPVHRRNLASNVWMAKGIHSSFLSDSGQREENH 335 P R + S G R Sbjct: 2107 HRPSAGRPRGPAPG--PALPSRTRRPRGARPAAG 2138 Score = 39.8 bits (91), Expect = 0.58, Method: Composition-based stats. Identities = 19/145 (13%), Positives = 32/145 (22%), Gaps = 17/145 (11%) Query: 226 GTLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRM 285 G S R + + L A + ++ + R R P R Sbjct: 1971 GDRSPASQRPLRRTRQEGHLPQQPDHAAPLRPQPHLHRFQPRRRHRLPGTRRPPPHGLRG 2030 Query: 286 KKN------------SSQKNGLSKQKKLATPVHRRNLA---SNVWMAKGIHSSFLSDSGQ 330 + + A P HR G + G+ Sbjct: 2031 GGRLRHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNPPPGR 2090 Query: 331 RE--ENHRRSPSFPSKRSLRRTSAK 353 R HRR+ + + Sbjct: 2091 RGHLPGHRRTERTRGRHRPSAGRPR 2115 Score = 35.9 bits (81), Expect = 9.0, Method: Composition-based stats. Identities = 9/126 (7%), Positives = 19/126 (15%) Query: 227 TLLAGSTREVSKKILREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMK 286 G S++ LR L + + Sbjct: 1967 GHHPGDRSPASQRPLRRTRQEGHLPQQPDHAAPLRPQPHLHRFQPRRRHRLPGTRRPPPH 2026 Query: 287 KNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRS 346 + RR + + + R R ++ Sbjct: 2027 GLRGGGRLRHLPAPAPHGLPRRPHRGGLPPPAALPAHREGRRHLRPPGRTRPGGTRTRNP 2086 Query: 347 LRRTSA 352 Sbjct: 2087 PPGRRG 2092 >gi|256390172|ref|YP_003111736.1| 30S ribosomal protein S4 [Catenulispora acidiphila DSM 44928] gi|256356398|gb|ACU69895.1| ribosomal protein S4 [Catenulispora acidiphila DSM 44928] Length = 208 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ RAG A SR +++ + +NG ++ V +D +EV L Sbjct: 99 RLDNVVYRAGFAKSRDHARQLVRHGHILINGHKANIPSMRVTPSDIVEVRKESLELTPFV 158 Query: 74 R 74 Sbjct: 159 V 159 >gi|300854303|ref|YP_003779287.1| putative rRNA methylase [Clostridium ljungdahlii DSM 13528] gi|300434418|gb|ADK14185.1| predicted rRNA methylase [Clostridium ljungdahlii DSM 13528] Length = 274 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 12/56 (21%), Positives = 25/56 (44%), Gaps = 1/56 (1%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLR 68 +R+ ++ GI SR + I V ++G +++ + + +IE G L Sbjct: 6 ERLDVLLVEKGIFQSRERAKASIMAGEVFIDGQRVDKCGQKIKKSSNIEFRGEKLP 61 >gi|296482012|gb|DAA24127.1| calcium channel, voltage-dependent, L type, alpha 1B subunit [Bos taurus] Length = 1242 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 9/106 (8%), Positives = 23/106 (21%) Query: 248 HLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHR 307 + R + + P + + +G + + +P Sbjct: 871 RADAPKAEGGEPGAREERARPRRSRSKEAAGPREARSERGRGLGPDGGRRHHRRGSPEEA 930 Query: 308 RNLASNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAK 353 A + + RR+ R+ R + Sbjct: 931 AEREPRRHRAHRHAPEPSREGAPGSKGERRARHRGGSRAGPREAES 976 Score = 45.9 bits (107), Expect = 0.008, Method: Composition-based stats. Identities = 10/88 (11%), Positives = 19/88 (21%), Gaps = 2/88 (2%) Query: 266 TLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPVHRRNLASNVWMAKGIHSSFL 325 PD R + S + ++ + S A G Sbjct: 902 PREARSERGRGLGPDGGRRHHRRGSPEEAAEREPRRHRAHRHAPEPSREG-APGSKGE-R 959 Query: 326 SDSGQREENHRRSPSFPSKRSLRRTSAK 353 + + + RR A+ Sbjct: 960 RARHRGGSRAGPREAESGEEPSRRHRAR 987 Score = 38.2 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 23/168 (13%), Positives = 42/168 (25%), Gaps = 36/168 (21%) Query: 223 FQLGTL---LAGSTREVSKKI-LREQLGPHLLEEAQVNLDAPIYSSETLVRDRPNIISEV 278 +L L E+ + LR HL + + +LD P+ R + Sbjct: 775 LRLQNLRASCEALYSEMDPEERLRFATSRHLRPDMKTHLDRPLVVEPGRDGARGPAGGKA 834 Query: 279 PDDFTRMKKNSSQK---------------NGLSKQKKLATPVHRRNLA------------ 311 + + + + + P Sbjct: 835 RPEGGEAGEGADPPRRHHRHRDRDRDKAAAPAGEPDRADAPKAEGGEPGAREERARPRRS 894 Query: 312 -----SNVWMAKGIHSSFLSDSGQREENHRRSPSFPSKRSLRRTSAKK 354 + A+ L G R + R SP ++R RR A + Sbjct: 895 RSKEAAGPREARSERGRGLGPDGGRRHHRRGSPEEAAEREPRRHRAHR 942 Score = 35.9 bits (81), Expect = 8.4, Method: Composition-based stats. Identities = 14/117 (11%), Positives = 30/117 (25%), Gaps = 9/117 (7%) Query: 246 GPHLLEEAQVNLDAPIYSSETLVRDRPNIISEVPDDFTRMKKNSSQKNGLSKQKKLATPV 305 G + D + + + + + + S+ K+ A P Sbjct: 844 GADPPRRHHRHRDRDRDKAAAPAGEPDRADAPKAEGGEPGAREERARPRRSRSKEAAGPR 903 Query: 306 HRRNLASNVWMAKGIHSSFLS--------DSGQREENHRRSPSFPSKRSLRRTSAKK 354 R+ G +R HR +P PS+ + ++ Sbjct: 904 EARSERGRGLGPDGGRRHHRRGSPEEAAEREPRRHRAHRHAP-EPSREGAPGSKGER 959 >gi|321315306|ref|YP_004207593.1| shape determination protein [Bacillus subtilis BSn5] gi|320021580|gb|ADV96566.1| factor involved in shape determination, RNA-binding fold protein [Bacillus subtilis BSn5] Length = 257 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 28/62 (45%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D I + + R+ V A SR++ + ++ VKVN ++E + V D + + Sbjct: 170 DVEIRDDTVSSLRLDAVCASMSRQSRQKSQTLVKNGLVKVNWKVVEDPSYIVAEGDMLSI 229 Query: 63 DG 64 G Sbjct: 230 RG 231 >gi|308173503|ref|YP_003920208.1| shape determination protein [Bacillus amyloliquefaciens DSM 7] gi|307606367|emb|CBI42738.1| factor involved in shape determination, RNA-binding fold [Bacillus amyloliquefaciens DSM 7] gi|328553566|gb|AEB24058.1| factor involved in shape determination, RNA-binding fold protein [Bacillus amyloliquefaciens TA208] gi|328911642|gb|AEB63238.1| factor involved in shape determination, RNA-binding fold [Bacillus amyloliquefaciens LL3] Length = 256 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 28/62 (45%) Query: 3 DKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 D I ++ + R+ V A SR++ + ++ VKVN +E + V D + + Sbjct: 169 DVEIREDTVSSLRLDAVCALMSRQSRQKAQALVKNGLVKVNWKAVEDPSYQVAEGDMLSI 228 Query: 63 DG 64 G Sbjct: 229 RG 230 >gi|298704938|emb|CBJ28441.1| RNA-binding S4 [Ectocarpus siliculosus] Length = 158 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 18/65 (27%), Positives = 25/65 (38%), Gaps = 3/65 (4%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHI 60 K K++ R+ V A AG+ SR ++ I V VN NV D + Sbjct: 72 KTKDVSTVEA-SLRLDSV-ASAGMGMSRSKMSAAIKSGLVLVNWKAASSGTTNVREGDIV 129 Query: 61 EVDGV 65 V G Sbjct: 130 TVRGK 134 >gi|296129454|ref|YP_003636704.1| RNA-binding S4 domain protein [Cellulomonas flavigena DSM 20109] gi|296021269|gb|ADG74505.1| RNA-binding S4 domain protein [Cellulomonas flavigena DSM 20109] Length = 76 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/68 (22%), Positives = 24/68 (35%), Gaps = 9/68 (13%) Query: 1 MKDKNIVQENFTPQRVSKVI-----ARAGIASRREVERMIAQQRVKVNGILLERAAVNVM 55 M V + P R+ + + A +G ++ V VNG R + Sbjct: 1 MPHTGHVTRSDDPIRLGQFLKLVNLAESGG----HARALLDDGAVTVNGEPETRRGRQLR 56 Query: 56 STDHIEVD 63 D +EVD Sbjct: 57 PGDVVEVD 64 >gi|238021615|ref|ZP_04602041.1| hypothetical protein GCWU000324_01515 [Kingella oralis ATCC 51147] gi|237866229|gb|EEP67271.1| hypothetical protein GCWU000324_01515 [Kingella oralis ATCC 51147] Length = 102 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 10/52 (19%), Positives = 24/52 (46%), Gaps = 1/52 (1%) Query: 23 AGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 G AS R E ++++ + + VNG ++ + V + D + + ++ Sbjct: 1 MGFASTRAEARQLVSHKAIMVNGQVVNIPSFQVKAGDVVAIREKAKKQVRIQ 52 >gi|228992632|ref|ZP_04152558.1| RNA-binding S4 domain protein [Bacillus pseudomycoides DSM 12442] gi|228766964|gb|EEM15601.1| RNA-binding S4 domain protein [Bacillus pseudomycoides DSM 12442] Length = 257 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 24/50 (48%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDG 64 R+ ++A SR++V+ +I VKVN +E+ A D + G Sbjct: 182 RLDVLLAEMLHLSRQKVQPLIKNGLVKVNWKTVEQTAYECFPGDVFSIRG 231 >gi|153816224|ref|ZP_01968892.1| hypothetical protein RUMTOR_02473 [Ruminococcus torques ATCC 27756] gi|145846407|gb|EDK23325.1| hypothetical protein RUMTOR_02473 [Ruminococcus torques ATCC 27756] Length = 181 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ VI R G+A +R+E +++ + V VNG + + V + D IE+ Sbjct: 72 RLDNVIFRMGLARTRKEARQIVDHKHVLVNGKQVNIPSYLVKAGDTIEI 120 >gi|307729591|ref|YP_003906815.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1003] gi|307584126|gb|ADN57524.1| pseudouridine synthase, RluA family [Burkholderia sp. CCGE1003] Length = 430 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 68/247 (27%), Gaps = 40/247 (16%) Query: 6 IVQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIE--- 61 +V + +R+ KV+AR SR ++ I +RV+++G + V IE Sbjct: 69 VVPDELAGERLDKVLARVFPEFSRNRLQSWIEAERVRIDGKPAK-IRQPVPLGASIELVP 127 Query: 62 --------VDGVPLRK----AERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIF---- 105 P+ + T + + +V + + + L Sbjct: 128 DLLPEQLAFTPEPVPLEIVFEDDTLVVINKPAGMVVHPAAGNWSGTVLNGLLYRYGDAAA 187 Query: 106 --SRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQDKLNLLKK 163 R V RLD T GL+++ L R + + + Sbjct: 188 GLPRAGIVHRLDKETSGLMVVARTLEAQTDLVRQLQARTVKRRYLALVWGNMPEEGTIDA 247 Query: 164 GIVIQ-----------GICYGDMQVTL------DTQKGSNAWVTVGLREGKNREIKKVFE 206 I G + Q+ + L G+ +I+ Sbjct: 248 PIGRDPRERTRMAVVTGASGKPARTHFRRVDTAIWQRQPVTAIHCDLETGRTHQIRVHCA 307 Query: 207 FFNWKVN 213 + Sbjct: 308 HIGHPLL 314 >gi|256826599|ref|YP_003150558.1| 30S ribosomal protein S4P [Cryptobacterium curtum DSM 15641] gi|256582742|gb|ACU93876.1| SSU ribosomal protein S4P [Cryptobacterium curtum DSM 15641] Length = 197 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 1/53 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVP 66 R+ ++ R G A +RRE + + + VNG ++ + V D I V Sbjct: 88 RLDNIVFRLGFARTRREARQTVTHGHITVNGNRVDIPSYRVRPGDLIAVAPKA 140 >gi|169824335|ref|YP_001691946.1| putative RNA binding protein [Finegoldia magna ATCC 29328] gi|167831140|dbj|BAG08056.1| putative RNA binding protein [Finegoldia magna ATCC 29328] Length = 258 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 11/71 (15%), Positives = 33/71 (46%), Gaps = 9/71 (12%) Query: 3 DKNIVQENFT---------PQRVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVN 53 +KNI ++ +R+ +++ SR++ + +I +++K+N ++ + + Sbjct: 162 EKNIEKDEEKYKPFTGIINSERLDCLVSEMANISRKDAQILIKNKKIKLNYEVVSNTSKS 221 Query: 54 VMSTDHIEVDG 64 V + + G Sbjct: 222 VEENSLVSIRG 232 >gi|81300312|ref|YP_400520.1| RNA-binding S4 [Synechococcus elongatus PCC 7942] gi|81169193|gb|ABB57533.1| RNA-binding S4 [Synechococcus elongatus PCC 7942] Length = 259 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 2/52 (3%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGV 65 R+ IA AG SR ++ +I + V+VN + + + + D + V G Sbjct: 185 RLD-AIASAGFGLSRSKMVDLINRGEVRVNWKAATQPSTQLKTGDLVAVRGK 235 >gi|170718793|ref|YP_001783975.1| 23S rRNA pseudouridine synthase D [Haemophilus somnus 2336] gi|168826922|gb|ACA32293.1| pseudouridine synthase, RluA family [Haemophilus somnus 2336] Length = 324 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 31/239 (12%), Positives = 69/239 (28%), Gaps = 33/239 (13%) Query: 7 VQENFTPQRVSKVIARAG-IASRREVERMIAQQRVKVNGILLERAAVNVMST-------- 57 +Q QR+ + +A SR ++ I VKVNG ++ A V Sbjct: 10 IQPQHMGQRLDQTLAELFPDYSRSRLKTWIEGDLVKVNGEIINVARTKVYGGELVEICVE 69 Query: 58 ----DHIEVDGVP--LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISV 111 E + +P + + L + +V + + + L V Sbjct: 70 IEEESRFEPENLPLNIVYEDEHILVINKPKDFVVHPGAGNQRGTVLNALLYHYPKIVEVP 129 Query: 112 -----GRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR------------VRFHGQVD 154 RLD +T GL+++ L + + + + Sbjct: 130 RAGIVHRLDKDTTGLMVVAKTIPAQTKLVQDLQKRKIIREYEAVAFGVMTQGGKVDQPMS 189 Query: 155 QDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + + G + + + + + L G+ +I+ + + Sbjct: 190 RHPTKRTQMAVHPLGKPA-VTHYRIMERFRNYTRLRLRLETGRTHQIRVHMAHISHPLL 247 >gi|225571162|ref|ZP_03780160.1| hypothetical protein CLOHYLEM_07250 [Clostridium hylemonae DSM 15053] gi|225159993|gb|EEG72612.1| hypothetical protein CLOHYLEM_07250 [Clostridium hylemonae DSM 15053] Length = 79 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%) Query: 14 QRVSKVIARAGIASRR-EVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ K + + + RR RV VNG + + A+V V D IE+ Sbjct: 1 MRLDKFLKVSRLIKRRTVANEACDAGRVTVNGSVAK-ASVKVKPGDIIEI 49 >gi|57238607|ref|YP_179738.1| 30S ribosomal protein S4 [Campylobacter jejuni RM1221] gi|148925738|ref|ZP_01809426.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni CG8486] gi|205355608|ref|ZP_03222378.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni CG8421] gi|81675536|sp|Q5HSJ7|RS4_CAMJR RecName: Full=30S ribosomal protein S4 gi|57167411|gb|AAW36190.1| ribosomal protein S4 [Campylobacter jejuni RM1221] gi|145845748|gb|EDK22839.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni CG8486] gi|205346385|gb|EDZ33018.1| 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni CG8421] gi|315059045|gb|ADT73374.1| SSU ribosomal protein S4p [Campylobacter jejuni subsp. jejuni S3] Length = 208 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 QR+ V+ R G A+ RR +++ + VNG ++ + V + IE+ Sbjct: 98 QRLDNVVYRMGFATTRRFARQLVTHGHILVNGKRVDIPSFRVEAGAKIEI 147 >gi|326391214|ref|ZP_08212757.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus JW 200] gi|325992718|gb|EGD51167.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus JW 200] Length = 285 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 27/240 (11%), Positives = 61/240 (25%), Gaps = 40/240 (16%) Query: 6 IVQENFTPQRVSKVIARAGIASRREVERMIA----QQRVKVNGILLERAAVNV-MSTDHI 60 IV EN + + G +R+I Q + VNG ++ + D I Sbjct: 4 IVGENEKGVILENFLRNKGF-----SKRLIRIYKWQGEILVNG--VKENVQRILQPGDVI 56 Query: 61 -----EVD--------GVPLRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSIFSR 107 EVD G+ + + L + +V + + Sbjct: 57 DLILPEVDSDIAPEKMGLDIYYEDEDVLIVDKPAGVVVHPTKRYQSGTLANGVAWYFKDK 116 Query: 108 VISVGRLDINTEG--------------LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQV 153 I +N + L + R + Sbjct: 117 GIKALIRPVNRLDKGTSGLVVFAKRPFMQYYLQIVKPMSKLYFAVVEGKMEGEGRIDLPI 176 Query: 154 DQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVN 213 + + +++ + +G + + + V + G+ +I+ + Sbjct: 177 SRKPQSGIERMVSEEGDRA-ITNYKVIKSSERFSLLKVKIETGRTHQIRVHLSHIGHPIV 235 >gi|312880111|ref|ZP_07739911.1| ribosomal large subunit pseudouridine synthase D [Aminomonas paucivorans DSM 12260] gi|310783402|gb|EFQ23800.1| ribosomal large subunit pseudouridine synthase D [Aminomonas paucivorans DSM 12260] Length = 344 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 29/238 (12%), Positives = 63/238 (26%), Gaps = 35/238 (14%) Query: 15 RVSKVIARAGIASRREVERMIAQQRVKVNGILLERAAVNVMSTDHI--------EVDGVP 66 R+ ++R SR ++I +V V+ + ++ V+ + E+D VP Sbjct: 48 RLDYFLSRELGTSRAFSTKLIRDGQVSVSWCPRVKPSMKVLPGGSVTAVVPPPEELDLVP 107 Query: 67 LRKAERTRLWLY------HKPIGLVTTHSDPDGRSTVFDNLPSIFSRVISVGRLDINTEG 120 R +V + V L G Sbjct: 108 EDVPFRVVYEDADLIVVDKPAGLVVHPAPGHWRGTLVHGLLFRYPDMEALNGVRRPGIVH 167 Query: 121 LLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQ--------------------DKLNL 160 L T G L + + L + + + Sbjct: 168 RLDATTSGLLVVARNGLAMEELVRCFKQRTLRKEYLALAHGRPQLPEGEIRLPIGRDPKN 227 Query: 161 LKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFEFFNWKVNRLIRI 218 K+ +++G + +G + + L G+ +I+ + + R+ Sbjct: 228 RKRMTILEGGRDSLTRYRTLWTRGRISLLLCQLCTGRTHQIRVHLKALGCPLVG-DRV 284 >gi|325678657|ref|ZP_08158267.1| ribosomal protein S4 [Ruminococcus albus 8] gi|324109707|gb|EGC03913.1| ribosomal protein S4 [Ruminococcus albus 8] Length = 198 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G+ +RRE +++ VNG ++ + V + D I + Sbjct: 89 RLDSVVFRMGLSMTRREARQLVVHGHFLVNGKRVDIPSYRVKAGDVISL 137 >gi|288574921|ref|ZP_06393278.1| pseudouridine synthase, RluA family [Dethiosulfovibrio peptidovorans DSM 11002] gi|288570662|gb|EFC92219.1| pseudouridine synthase, RluA family [Dethiosulfovibrio peptidovorans DSM 11002] Length = 340 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 35/247 (14%), Positives = 73/247 (29%), Gaps = 36/247 (14%) Query: 2 KDKNIVQENFTPQRVSKVIARAGIASRREVERMIAQQRVKV-NGILLE---------RAA 51 +++ +V + R+ ++ SR ++R+I VKV G ++ Sbjct: 32 EEEILVPPDMDGVRLDAFLSDFLGVSRTFIQRVIRDGYVKVFQGKRVKPSRSVLAGESLR 91 Query: 52 VNVMS-------------------TDHIEVD---GVPLRKAERTR---LWLYHKPIGLVT 86 + D I VD GV + A L Sbjct: 92 FKLPPPQRMDLVPEPVDFSVVYEDEDIIVVDKPAGVVVHPAPGHWRGTLVHGLLYRYPDI 151 Query: 87 THSDPDGRSTVFDNLPSIFSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYR 146 + R + L S S +++V R + L D + + S + Sbjct: 152 GTINDVVRPGIVHRLDSTTSGLLAVARNTESLNELQSSFRDRKVGKFYLALSDGRVVGEE 211 Query: 147 VRFHGQVDQDKLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKVFE 206 + + +D+ N + + G V +G +++ L G+ +I+ Sbjct: 212 ISLDAPIGRDRNNRYRMTVTDDGKNART-DVYPLWNRGRYSFLICELHSGRTHQIRVHLR 270 Query: 207 FFNWKVN 213 + Sbjct: 271 HLGAPLV 277 >gi|225018820|ref|ZP_03708012.1| hypothetical protein CLOSTMETH_02770 [Clostridium methylpentosum DSM 5476] gi|224948380|gb|EEG29589.1| hypothetical protein CLOSTMETH_02770 [Clostridium methylpentosum DSM 5476] Length = 266 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 1/50 (2%) Query: 14 QRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ ++ G+A SR + + I V V G ++A V I V Sbjct: 4 IRLDVLLTERGLAPSREKAKAFIMAGEVLVGGERCDKAGQLVQQDAEITV 53 >gi|217077261|ref|YP_002334979.1| hemolysin A [Thermosipho africanus TCF52B] gi|217037116|gb|ACJ75638.1| hemolysin A [Thermosipho africanus TCF52B] Length = 260 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%) Query: 12 TPQRVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 +R+ ++ G+ SR + +R+I V VN L+++ V I + Sbjct: 2 KKERLDVLLVERGLIESREKAKRIIMSGNVFVNEQLVDKPGKLVDVESKIRI 53 >gi|152989997|ref|YP_001355719.1| 30S ribosomal protein S4 [Nitratiruptor sp. SB155-2] gi|172048726|sp|A6Q1K3|RS4_NITSB RecName: Full=30S ribosomal protein S4 gi|151421858|dbj|BAF69362.1| 30S ribosomal protein S4 [Nitratiruptor sp. SB155-2] Length = 208 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Query: 15 RVSKVIARAGIAS-RREVERMIAQQRVKVNGILLERAAVNVMSTDHIEV 62 R+ V+ R G A+ RR +++ V V+G + + V IE+ Sbjct: 99 RLDNVVYRMGFATTRRFARQLVNHGHVLVDGKRVNIPSFRVKPGQKIEI 147 >gi|148379448|ref|YP_001253989.1| pseudouridine synthase, RluA family [Clostridium botulinum A str. ATCC 3502] gi|153934249|ref|YP_001383827.1| RluA family pseudouridine synthase [Clostridium botulinum A str. ATCC 19397] gi|153935171|ref|YP_001387377.1| RluA family pseudouridine synthase [Clostridium botulinum A str. Hall] gi|148288932|emb|CAL83019.1| putative ribosomal large subunit pseudouridine synthase [Clostridium botulinum A str. ATCC 3502] gi|152930293|gb|ABS35793.1| pseudouridine synthase, RluA family [Clostridium botulinum A str. ATCC 19397] gi|152931085|gb|ABS36584.1| pseudouridine synthase, RluA family [Clostridium botulinum A str. Hall] gi|322805794|emb|CBZ03359.1| ribosomal large subunit pseudouridine synthase D [Clostridium botulinum H04402 065] Length = 305 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 30/244 (12%), Positives = 65/244 (26%), Gaps = 37/244 (15%) Query: 1 MKDKNI-VQENFTPQRVSKVIARAGI-ASRREVERMIAQQRVKVNGILLERAAVNVMSTD 58 M+ N+ V++ F R+ +++ SR ++ +I + V VN ++ + D Sbjct: 1 MEKINLQVEKEFDNVRLDLYLSKIFEDKSRSYLQGIIDEGNVLVNNK-EKKRNYKLKVGD 59 Query: 59 HIEVD-GVP-------------LRKAERTRLWLYHKPIGLVTTHSDPDGRSTVFDNLPSI 104 +IEV+ P + ++ + + +V + V L Sbjct: 60 NIEVNIPEPKLLQIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLHHC 119 Query: 105 FSRVISVGRLDINTEGLLLLTNDGGLARVLELPSTQWLRVYRVRFHGQVDQD-------- 156 G + G L S L Sbjct: 120 KDLSGINGVARPGIVHRIDKDTSGILVVAKNDISHNNLAAQFKEHSISRVYMALVEGIIK 179 Query: 157 ------------KLNLLKKGIVIQGICYGDMQVTLDTQKGSNAWVTVGLREGKNREIKKV 204 K V++ + + + ++ V L G+ +I+ Sbjct: 180 DEQGTIEAPIGRHPVDRIKMAVVKDGRHAVTHYKVIERFKNHTLVECRLETGRTHQIRVH 239 Query: 205 FEFF 208 Sbjct: 240 MSHI 243 >gi|298500604|ref|ZP_07010408.1| SSU ribosomal protein S4 [Vibrio cholerae MAK 757] gi|297540773|gb|EFH76830.1| SSU ribosomal protein S4 [Vibrio cholerae MAK 757] Length = 206 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/61 (21%), Positives = 30/61 (49%), Gaps = 1/61 (1%) Query: 15 RVSKVIARAGIA-SRREVERMIAQQRVKVNGILLERAAVNVMSTDHIEVDGVPLRKAERT 73 R+ V+ R G +R E ++++ + + VNG ++ + NV + D + V +++ Sbjct: 97 RLDNVVYRMGFGATRAEARQLVSHKAILVNGKVVNVPSFNVAANDVVAVREKAKKQSRIK 156 Query: 74 R 74 Sbjct: 157 A 157 >gi|228998678|ref|ZP_04158265.1| RNA-binding S4 domain protein [Bacillus mycoides Rock3-17] gi|228761146|gb|EEM10105.1| RNA-binding S4 domain protein [Bacillus mycoides Rock3-17] Length = 257 Score = 48.3 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 24/50 (48%) Query: 15 RVSKVIARAGIASRREVERMIAQQR