RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780676|ref|YP_003065089.1| lipoyl synthase [Candidatus Liberibacter asiaticus str. psy62] (329 letters) >gnl|CDD|180115 PRK05481, PRK05481, lipoyl synthase; Provisional. Length = 289 Score = 558 bits (1440), Expect = e-159 Identities = 175/283 (61%), Positives = 204/283 (72%) Query: 40 KPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNKNHATFMILGAICTRA 99 KPDW+RV+ P Y E +LR L TVCEEA CPNIGECW++ ATFMILG ICTR Sbjct: 7 KPDWLRVKLPTGEEYTEIKKLLRELGLHTVCEEASCPNIGECWSRGTATFMILGDICTRR 66 Query: 100 CTFCNVATGKPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGGAQHFAEVISAIR 159 C FC+VATG+P PLDP EPE ++ AV M L +VVITSVDRDDL DGGAQHFAE I AIR Sbjct: 67 CPFCDVATGRPLPLDPDEPERVAEAVARMGLKYVVITSVDRDDLPDGGAQHFAETIRAIR 126 Query: 160 ESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVRPGARYFHSLRLL 219 E P TTIEVL PDF + AL V+ A+PDVFNHNLETV Y VRPGA Y SL LL Sbjct: 127 ELNPGTTIEVLIPDFRGRMDALLTVLDARPDVFNHNLETVPRLYKRVRPGADYERSLELL 186 Query: 220 QRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTMGQYLQPTRKHHKVESF 279 +R KEL P I TKSG+M+GLGET E+L++MDDLR A VD LT+GQYLQP+RKH VE + Sbjct: 187 KRAKELHPGIPTKSGLMVGLGETDEEVLEVMDDLRAAGVDILTIGQYLQPSRKHLPVERY 246 Query: 280 VTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDFLRLKNN 322 VTP++F Y+ IA GFL V++ PL RSSYHA + + Sbjct: 247 VTPEEFDEYKEIALELGFLHVASGPLVRSSYHADEQAAGAEVA 289 >gnl|CDD|183830 PRK12928, PRK12928, lipoyl synthase; Provisional. Length = 290 Score = 446 bits (1150), Expect = e-126 Identities = 146/292 (50%), Positives = 190/292 (65%), Gaps = 3/292 (1%) Query: 25 RHPEKIHKPDTEKMQKPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNK 84 R +K + E+ P+W+R +S + +++ R L T+CEEA CPN GEC+ + Sbjct: 1 RSRDKSARIPVER--LPEWLRAPIGKASELETVQRLVKQRRLHTICEEARCPNRGECYAQ 58 Query: 85 NHATFMILGAICTRACTFCNVATGKPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLD 144 ATF+I+G+ICTR C FC V G+P PLDP EPE ++ AV ++ L +VV+TSV RDDL Sbjct: 59 GTATFLIMGSICTRRCAFCQVDKGRPMPLDPDEPERVAEAVAALGLRYVVLTSVARDDLP 118 Query: 145 DGGAQHFAEVISAIRESAPSTTIEVLTPDFL-RKPHALEKVVSAKPDVFNHNLETVASNY 203 DGGA HF I+AIR P T IEVLTPDF + L V++AKPDVFNHNLETV Sbjct: 119 DGGAAHFVATIAAIRARNPGTGIEVLTPDFWGGQRERLATVLAAKPDVFNHNLETVPRLQ 178 Query: 204 LMVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTM 263 VR GA Y SL LL R KEL P I TKSG+MLGLGET +E+++ + DLR D LT+ Sbjct: 179 KAVRRGADYQRSLDLLARAKELAPDIPTKSGLMLGLGETEDEVIETLRDLRAVGCDRLTI 238 Query: 264 GQYLQPTRKHHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDD 315 GQYL+P+ H V+ + TP++F++ IA GF V + PL RSSYHAG+ Sbjct: 239 GQYLRPSLAHLPVQRYWTPEEFEALGQIARELGFSHVRSGPLVRSSYHAGEQ 290 >gnl|CDD|161907 TIGR00510, lipA, lipoate synthase. The family shows strong sequence conservation. Length = 302 Score = 346 bits (888), Expect = 6e-96 Identities = 146/289 (50%), Positives = 192/289 (66%), Gaps = 4/289 (1%) Query: 32 KPDTEK---MQKPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNKNHAT 88 P K ++KP+W++++ P+ + + N ++++ L TVCEEA CPN+ ECWN AT Sbjct: 6 NPIPNKEILLRKPEWLKIKLPLGTVIAQIKNTMKNKGLHTVCEEASCPNLTECWNHGTAT 65 Query: 89 FMILGAICTRACTFCNVATG-KPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGG 147 FMILG ICTR C FC+VA G P P DP+EP ++ ++ M L +VVITSVDRDDL+DGG Sbjct: 66 FMILGDICTRRCPFCDVAHGRNPLPPDPEEPAKLAETIKDMGLKYVVITSVDRDDLEDGG 125 Query: 148 AQHFAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVR 207 A H AE I AIRE P+ IE L PDF AL+ ++ A PDV+NHNLETV VR Sbjct: 126 ASHLAECIEAIREKLPNIKIETLVPDFRGNIAALDILLDAPPDVYNHNLETVERLTPFVR 185 Query: 208 PGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTMGQYL 267 PGA Y SL+LL+R KE P + TKSGIM+GLGET EI Q + DLR V +T+GQYL Sbjct: 186 PGATYRWSLKLLERAKEYLPNLPTKSGIMVGLGETNEEIKQTLKDLRDHGVTMVTLGQYL 245 Query: 268 QPTRKHHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDF 316 +P+R+H V+ +V+P++F Y ++A GFL + P RSSYHA F Sbjct: 246 RPSRRHLPVKRYVSPEEFDYYRSVALEMGFLHAACGPFVRSSYHADSLF 294 >gnl|CDD|178048 PLN02428, PLN02428, lipoic acid synthase. Length = 349 Score = 331 bits (850), Expect = 2e-91 Identities = 141/294 (47%), Positives = 184/294 (62%), Gaps = 9/294 (3%) Query: 40 KPDWIRVRAPVSSGYKETYNILRSRNLTTVCEEAGCPNIGECWNKNH-----ATFMILGA 94 KP W+R RAP Y E LR L TVCEEA CPNIGECWN AT MILG Sbjct: 51 KPKWLRQRAPGGEKYTEIKEKLRELKLNTVCEEAQCPNIGECWNGGGTGTATATIMILGD 110 Query: 95 ICTRACTFCNVATGK-PQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGGAQHFAE 153 CTR C FC V T + P P DP EPEN++ A+ S + +VV+TSVDRDDL DGG+ HFAE Sbjct: 111 TCTRGCRFCAVKTSRTPPPPDPDEPENVAEAIASWGVDYVVLTSVDRDDLPDGGSGHFAE 170 Query: 154 VISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVR-PGARY 212 + +++ P +E L PDF A+E V ++ DVF HN+ETV +VR P A Y Sbjct: 171 TVRRLKQLKPEILVEALVPDFRGDLGAVETVATSGLDVFAHNIETVERLQRIVRDPRAGY 230 Query: 213 FHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLTMGQYLQPTRK 272 SL +L+ KE P + TK+ IMLGLGET E++Q M+DLR A VD +T GQYL+PT++ Sbjct: 231 KQSLDVLKHAKESKPGLLTKTSIMLGLGETDEEVVQTMEDLRAAGVDVVTFGQYLRPTKR 290 Query: 273 HHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDFLR--LKNNRR 324 H V+ +VTP+ F+ + GF V++ PL RSSY AG+ F++ ++ +R Sbjct: 291 HLPVKEYVTPEKFEFWREYGEEMGFRYVASGPLVRSSYKAGEFFIKSMIREDRA 344 >gnl|CDD|173603 PTZ00413, PTZ00413, lipoate synthase; Provisional. Length = 398 Score = 300 bits (769), Expect = 4e-82 Identities = 131/305 (42%), Positives = 180/305 (59%), Gaps = 14/305 (4%) Query: 36 EKMQKPDWIRVRAPVSSGYKETYNIL----RSRNLTTVCEEAGCPNIGECWN------KN 85 + P W +V+ P + + +N + R + L TVCEEA CPNIGECW Sbjct: 89 GEEPLPPWFKVKVPKGASRRPRFNRIRRSMREKKLHTVCEEAKCPNIGECWGGGDEEGTA 148 Query: 86 HATFMILGAICTRACTFCNVATG-KPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLD 144 AT M++G CTR C FC+V T KP PLDP EPE ++ AV M + ++V+T VDRDDL Sbjct: 149 TATIMVMGDHCTRGCRFCSVKTSRKPPPLDPNEPEKVAKAVAEMGVDYIVMTMVDRDDLP 208 Query: 145 DGGAQHFAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYL 204 DGGA H A + I+ES P +E L DF ++EK+ ++ V+ HN+E V Sbjct: 209 DGGASHVARCVELIKESNPELLLEALVGDFHGDLKSVEKLANSPLSVYAHNIECVERITP 268 Query: 205 MVRPG-ARYFHSLRLLQRVKEL-DPLIFTKSGIMLGLGETRNEILQLMDDLRTADVDFLT 262 VR A Y SL++L+ VKE + + TKS IMLGLGET E+ Q + DLRTA V +T Sbjct: 269 YVRDRRASYRQSLKVLEHVKEFTNGAMLTKSSIMLGLGETEEEVRQTLRDLRTAGVSAVT 328 Query: 263 MGQYLQPTRKHHKVESFVTPQDFKSYETIAYSKGFLMVSASPLTRSSYHAGDDFLR-LKN 321 +GQYLQPT+ KV + P++F+ +E A GFL ++ PL RSSY AG+ +++ L Sbjct: 329 LGQYLQPTKTRLKVSRYAHPKEFEMWEEEAMKMGFLYCASGPLVRSSYRAGEYYIKNLVK 388 Query: 322 NRRQH 326 RR+ Sbjct: 389 QRRKA 393 >gnl|CDD|128968 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM. This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases. Length = 216 Score = 65.9 bits (161), Expect = 1e-11 Identities = 39/195 (20%), Positives = 73/195 (37%), Gaps = 20/195 (10%) Query: 86 HATFMILGAICTRACTFC--NVATGKPQPLDPQEPEN-----ISWAVRSMKLSHVVITSV 138 I+ C R CTFC A GK + + + + + V I Sbjct: 1 PLALYIITRGCPRRCTFCSFPSARGKLRSRYLEALVREIELLAEKGEKEILVGTVFIGGG 60 Query: 139 DRDDLDDGGAQHFAEVISAIRESAP-----STTIEVLTPDFLRKPHALEKVVSAKPDVFN 193 L + E++ AIRE TIE P L + LE + A + + Sbjct: 61 TPTLLSP---EQLEELLEAIREILGLADDVEITIET-RPGTLTEEL-LEALKEAGVNRVS 115 Query: 194 HNLETVASNYL-MVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGL-GETRNEILQLMD 251 +++ + L + G L +++++E P I + +++GL GET + + + Sbjct: 116 LGVQSGSDEVLKAINRGHTVEDVLEAVEKLREAGP-IKVSTDLIVGLPGETEEDFEETLK 174 Query: 252 DLRTADVDFLTMGQY 266 L+ D +++ Sbjct: 175 LLKELGPDRVSIFPL 189 >gnl|CDD|161876 TIGR00433, bioB, biotin synthetase. Catalyzes the last step of the biotin biosynthesis pathway. Length = 296 Score = 45.9 bits (109), Expect = 1e-05 Identities = 25/109 (22%), Positives = 44/109 (40%), Gaps = 2/109 (1%) Query: 151 FAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYLMVRPGA 210 F E + A+ + ++ L P +++ A D +NHNL+T Y + Sbjct: 96 FMEYVEAMVQIVEEMGLKTCATLGLLDPEQAKRLKDAGLDYYNHNLDTSQEFYSNIISTH 155 Query: 211 RYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVD 259 Y + L+ K+ + SG + GLGET + + L L + Sbjct: 156 TYDDRVDTLENAKKAG--LKVCSGGIFGLGETVEDRIGLALALANLPPE 202 >gnl|CDD|180492 PRK06256, PRK06256, biotin synthase; Validated. Length = 336 Score = 44.0 bits (105), Expect = 5e-05 Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 18/117 (15%) Query: 151 FAEVISAIRESAPSTTIEV------LTPDFLRKPHALEKVVSAKPDVFNHNLETVASNYL 204 +V+ A++ T +E+ LT + E++ A D +NHNLET S + Sbjct: 125 VDQVVEAVKAIKEETDLEICACLGLLTEE------QAERLKEAGVDRYNHNLETSRSYFP 178 Query: 205 MVRPGARYFHSLRLLQRVKE--LDPLIFTKSGIMLGLGETRNEILQLMDDLRTADVD 259 V Y + + VK ++P SG ++G+GE+ + ++ L+ D D Sbjct: 179 NVVTTHTYEDRIDTCEMVKAAGIEPC----SGGIIGMGESLEDRVEHAFFLKELDAD 231 >gnl|CDD|131404 TIGR02351, thiH, thiazole biosynthesis protein ThiH. Members this protein family are the ThiH protein of thiamine biosynthesis, a homolog of the BioB protein of biotin biosynthesis. Genes for the this protein generally are found in operons with other thiamin biosynthesis genes. Length = 366 Score = 32.3 bits (74), Expect = 0.16 Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 5/83 (6%) Query: 90 MILGAICTRACTFCNVATG---KPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDG 146 + L C+ C +C + K + L+ +E E A++ +++ + + + Sbjct: 77 LYLSNYCSNKCVYCGFSMSNKIKRKKLNEEEIEREIEAIKKSGFKEILLVTGESEKA--A 134 Query: 147 GAQHFAEVISAIRESAPSTTIEV 169 G ++ AE I RE S IEV Sbjct: 135 GVEYIAEAIKLAREYFSSLAIEV 157 >gnl|CDD|185063 PRK15108, PRK15108, biotin synthase; Provisional. Length = 345 Score = 30.9 bits (70), Expect = 0.41 Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 2/61 (3%) Query: 182 EKVVSAKPDVFNHNLETVASNYLMVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGE 241 +++ +A D +NHNL+T Y + Y L L++V++ I SG ++GLGE Sbjct: 140 QRLANAGLDYYNHNLDTSPEFYGNIITTRTYQERLDTLEKVRDAG--IKVCSGGIVGLGE 197 Query: 242 T 242 T Sbjct: 198 T 198 >gnl|CDD|150764 pfam10127, Nuc-transf, Predicted nucleotidyltransferase. Members of this family of bacterial proteins catalyze the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms. Length = 247 Score = 31.1 bits (71), Expect = 0.44 Identities = 16/100 (16%), Positives = 34/100 (34%), Gaps = 17/100 (17%) Query: 175 LRKPHALEKVVSAKPDVFN------HNLETVASNY-LMVRPGA----RYFHSLRLLQRVK 223 L ++++ + F+ H L + ++ +YF+ LR L + Sbjct: 103 REDVDFLGELLALAREAFSSRRLIHHYLGMARKQFRKYLKGETVRLKKYFYVLRPLLAGR 162 Query: 224 ELD------PLIFTKSGIMLGLGETRNEILQLMDDLRTAD 257 + P+ F + G EI +L+ R + Sbjct: 163 WILRTGTPPPMEFQVLLAGVLDGSLLAEIDELLARKRGGE 202 >gnl|CDD|178013 PLN02389, PLN02389, biotin synthase. Length = 379 Score = 29.0 bits (65), Expect = 1.5 Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 2/64 (3%) Query: 192 FNHNLETVASNYLMVRPGARYFHSLRLLQRVKELDPLIFTKSGIMLGLGETRNEILQLMD 251 +NHNL+T Y V Y L L+ V+E I SG ++GLGE + + L+ Sbjct: 192 YNHNLDTSREYYPNVITTRSYDDRLETLEAVREAG--ISVCSGGIIGLGEAEEDRVGLLH 249 Query: 252 DLRT 255 L T Sbjct: 250 TLAT 253 >gnl|CDD|178787 PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed. Length = 309 Score = 28.9 bits (66), Expect = 1.9 Identities = 12/37 (32%), Positives = 19/37 (51%) Query: 156 SAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVF 192 S +++ A I VL P+ LR P L ++ + DV Sbjct: 46 SPVKQLALEHGIPVLQPEKLRDPEFLAELAALNADVI 82 >gnl|CDD|172816 PRK14340, PRK14340, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional. Length = 445 Score = 28.6 bits (64), Expect = 2.1 Identities = 27/131 (20%), Positives = 48/131 (36%), Gaps = 11/131 (8%) Query: 144 DDGGAQHFAEVISAIRESAPSTTIEVLTPDFLRKPHALEKVVSAKPDVFNHNLETVASN- 202 D FA ++ A+ +AP I T +L + ++A+P++ NH V S Sbjct: 210 DPEAGADFAGLLDAVSRAAPEMRIRFTTSHPKDISESLVRTIAARPNICNHIHLPVQSGS 269 Query: 203 ----YLMVRPGAR--YFHSLRLLQRVKELDPLIFTKSGIMLGL-GETRNEILQLMDDLRT 255 M R Y + L+ + P + + ++ G GET + + + Sbjct: 270 SRMLRRMNRGHTIEEYLEKIALI---RSAIPGVTLSTDLIAGFCGETEEDHRATLSLMEE 326 Query: 256 ADVDFLTMGQY 266 D M Y Sbjct: 327 VRFDSAFMFYY 337 >gnl|CDD|178137 PLN02522, PLN02522, ATP citrate (pro-S)-lyase. Length = 608 Score = 28.6 bits (64), Expect = 2.3 Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 4/37 (10%) Query: 110 PQPLDPQEPENISWAVRSMKL---SHVVIT-SVDRDD 142 + PQ PE+++ A++S K+ +H+V T S DR + Sbjct: 327 KEVTPPQIPEDLNSAIKSGKVRAPTHIVSTISDDRGE 363 >gnl|CDD|119145 pfam10625, UspB, Universal stress protein B (UspB). UspB in Escherichia coli is a 14kDa protein which is predicted to be an integral membrane protein. Overexpression of UspB results in cell death in stationary phase, and mutants of uspB are sensitive to ethanol exposure during stationary phase. Length = 107 Score = 28.5 bits (64), Expect = 2.8 Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 1/22 (4%) Query: 210 ARYFHSLR-LLQRVKELDPLIF 230 ARY SLR LL ++E DPL++ Sbjct: 20 ARYVSSLRALLYIMREADPLLY 41 >gnl|CDD|182106 PRK09841, PRK09841, cryptic autophosphorylating protein tyrosine kinase Etk; Provisional. Length = 726 Score = 28.0 bits (62), Expect = 4.1 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 8/46 (17%) Query: 189 PDVFNHNLETVASNYL---MVRPGARYFHSLRLLQR-----VKELD 226 P + L ++A+NYL + R A+ SL LQR ELD Sbjct: 239 PQLITRILNSIANNYLQQNIARQAAQDSQSLEFLQRQLPEVRSELD 284 >gnl|CDD|183473 PRK12361, PRK12361, hypothetical protein; Provisional. Length = 547 Score = 27.7 bits (62), Expect = 4.6 Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%) Query: 17 ATPNAERLRHPEKIHKPDTEKMQKPDWIRVRAPVSSGYK 55 A N +LR EK+ + + K W+ PVS G K Sbjct: 220 ARLNKRQLRALEKMLEQGKLNIHKRAWLIAN-PVSGGGK 257 >gnl|CDD|181715 PRK09234, fbiC, FO synthase; Reviewed. Length = 843 Score = 27.3 bits (61), Expect = 5.2 Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 13/68 (19%) Query: 196 LETVASNYLMVRPGARYFHS--------LRLLQRVKELD-PLIFTKSGIMLGLGETRNEI 246 LET S L G ++ S LR+L+ L P FT +GI++G+GET E Sbjct: 194 LETT-SRRLFEEKGGPHYGSPDKDPAVRLRVLEDAGRLSVP--FT-TGILIGIGETLAER 249 Query: 247 LQLMDDLR 254 + + +R Sbjct: 250 AESLFAIR 257 >gnl|CDD|130372 TIGR01305, GMP_reduct_1, guanosine monophosphate reductase, eukaryotic. A deep split separates two families of GMP reductase. This family includes both eukaryotic and some proteobacterial sequences, while the other family contains other bacterial sequences. Length = 343 Score = 27.2 bits (60), Expect = 6.5 Identities = 10/26 (38%), Positives = 17/26 (65%) Query: 142 DLDDGGAQHFAEVISAIRESAPSTTI 167 D+ +G ++HF E + +RE+ P TI Sbjct: 128 DVANGYSEHFVEFVKLVREAFPEHTI 153 >gnl|CDD|149590 pfam08591, RNR_inhib, Ribonucleotide reductase inhibitor. This family includes S. pombe Spd1. Spd1p inhibits fission yeast RNR activity by interacting with the Cdc22p. Length = 96 Score = 27.1 bits (60), Expect = 6.7 Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 2/38 (5%) Query: 45 RVRAPVSSGYK--ETYNILRSRNLTTVCEEAGCPNIGE 80 R+R V+ GYK Y+ R+ + T+ + A N G Sbjct: 9 RIRKSVAEGYKTGNKYSAFRAPSTTSTSDPARGVNDGT 46 >gnl|CDD|129517 TIGR00423, TIGR00423, radical SAM domain protein, CofH subfamily. This protein family includes the CofH protein of coenzyme F(420) biosynthesis from Methanocaldococcus jannaschii, but appears to hit genomes more broadly than just the subset that make coenzyme F(420), so that narrower group is being built as a separate family. Length = 309 Score = 27.0 bits (60), Expect = 6.9 Identities = 17/82 (20%), Positives = 27/82 (32%), Gaps = 7/82 (8%) Query: 95 ICTRACTFC----NVATGKPQPLDPQEPENISWAVRSMKLSHVVITSVDRDDLDDGGAQH 150 IC C FC L +E + + V I LD ++ Sbjct: 14 ICVGKCKFCAFRAREKDKDAYVLSLEEILEKVKEAVAKGATEVCIQGGLNPQLD---IEY 70 Query: 151 FAEVISAIRESAPSTTIEVLTP 172 + E+ AI++ P I +P Sbjct: 71 YEELFRAIKQEFPDVHIHAFSP 92 >gnl|CDD|180835 PRK07094, PRK07094, biotin synthase; Provisional. Length = 323 Score = 27.1 bits (61), Expect = 7.2 Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 11/66 (16%) Query: 207 RPGARYFHSLRLLQRVKELDPLIF-TKSGIMLGL-GETRNEILQLMDD---LRTADVDFL 261 PG + + + L+ +KEL + SG M+GL G+T E L DD L+ D+D + Sbjct: 159 HPGMSFENRIACLKDLKELG---YEVGSGFMVGLPGQT-LED--LADDILFLKELDLDMI 212 Query: 262 TMGQYL 267 +G ++ Sbjct: 213 GIGPFI 218 >gnl|CDD|132589 TIGR03550, F420_cofG, 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit. This model represents either a subunit or a domain, depending on whether or not the genes are fused, of a bifunctional protein that completes the synthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is the chromophore of coenzyme F(420), involved in methanogenesis in methanogenic archaea but found in certain other lineages as well. The chromophore also occurs as a cofactor in DNA photolyases in Cyanobacteria. Length = 322 Score = 26.9 bits (60), Expect = 7.2 Identities = 11/25 (44%), Positives = 18/25 (72%), Gaps = 1/25 (4%) Query: 230 FTKSGIMLGLGETRNEILQLMDDLR 254 FT +GI++G+GETR E + + +R Sbjct: 165 FT-TGILIGIGETREERAESLLAIR 188 >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed. Length = 2890 Score = 26.8 bits (59), Expect = 7.4 Identities = 12/30 (40%), Positives = 16/30 (53%) Query: 38 MQKPDWIRVRAPVSSGYKETYNILRSRNLT 67 M KPD + P+ S +KE N+L N T Sbjct: 2112 MTKPDGSIIETPIISNFKEGLNVLEYFNST 2141 >gnl|CDD|178698 PLN03153, PLN03153, hypothetical protein; Provisional. Length = 537 Score = 26.8 bits (59), Expect = 7.6 Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 4/47 (8%) Query: 189 PDVFNHNLETVASNYLMVRPGARYFHSLRLLQRVKELDPLIFTKSGI 235 P V H++E V Y PG SL+L R ++DP F + I Sbjct: 335 PFVSIHHVEAVDPFY----PGLSSLDSLKLFTRAMKVDPRSFLQRSI 377 >gnl|CDD|185214 PRK15314, PRK15314, outer membrane protein RatB; Provisional. Length = 2435 Score = 26.7 bits (58), Expect = 7.9 Identities = 11/26 (42%), Positives = 17/26 (65%) Query: 112 PLDPQEPENISWAVRSMKLSHVVITS 137 PLDPQ NIS+ +++ H+V+ S Sbjct: 132 PLDPQPVSNISFCAQNLAGRHLVVWS 157 >gnl|CDD|179900 PRK04960, PRK04960, universal stress protein UspB; Provisional. Length = 111 Score = 26.9 bits (60), Expect = 8.0 Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 1/22 (4%) Query: 210 ARYFHSLRLLQRV-KELDPLIF 230 ARYF SLR L V + DPL++ Sbjct: 20 ARYFSSLRALLVVLRGCDPLLY 41 >gnl|CDD|185557 PTZ00327, PTZ00327, eukaryotic translation initiation factor 2 gamma subunit; Provisional. Length = 460 Score = 26.9 bits (60), Expect = 8.1 Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 16/79 (20%) Query: 70 CEEAGCPNIGECWN-KNHATF------------MILGAICTRACTFCNVATGKPQPLDPQ 116 + CP G K H +F M+ GA +A + P PQ Sbjct: 101 PDNPPCPGCGHKMTLKRHVSFVDCPGHDILMATMLNGA-AVMDAALLLIAANESCP-QPQ 158 Query: 117 EPENISWAVRSMKLSHVVI 135 E+++ AV MKL H++I Sbjct: 159 TSEHLA-AVEIMKLKHIII 176 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.320 0.134 0.402 Gapped Lambda K H 0.267 0.0747 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,450,522 Number of extensions: 343419 Number of successful extensions: 659 Number of sequences better than 10.0: 1 Number of HSP's gapped: 646 Number of HSP's successfully gapped: 38 Length of query: 329 Length of database: 5,994,473 Length adjustment: 94 Effective length of query: 235 Effective length of database: 3,963,321 Effective search space: 931380435 Effective search space used: 931380435 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 57 (25.7 bits)