RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781091|ref|YP_003065504.1| putative pyridoxal-phosphate-dependent aminotransferase protein [Candidatus Liberibacter asiaticus str. psy62] (383 letters) >gnl|CDD|132443 TIGR03402, FeS_nifS, cysteine desulfurase NifS. Members of this protein family are NifS, one of several related families of cysteine desulfurase involved in iron-sulfur (FeS) cluster biosynthesis. NifS is part of the NIF system, usually associated with other nif genes involved in nitrogenase expression and nitrogen fixation. The protein family is given a fairly broad interpretation here. It includes a clade nearly always found in extended nitrogen fixation genomic regions, plus a second clade more closely related to the first than to IscS and also part of NifS-like/NifU-like systems. This model does not extend to a more distantly clade found in the epsilon proteobacteria such as Helicobacter pylori, also named NifS in the literature, built instead in TIGR03403. Length = 379 Score = 309 bits (795), Expect = 6e-85 Identities = 143/380 (37%), Positives = 216/380 (56%), Gaps = 15/380 (3%) Query: 5 VYLDWNATAPLLEVVRQSFVKSL-DFYGNPSSVHKEGQKTRLYIEESRRIIADFCGAKPD 63 +YLD NAT + V ++ + +++GNPSS+H G + +EE+R +A GA+PD Sbjct: 1 IYLDNNATTRVDPEVLEAMLPYFTEYFGNPSSMHSFGGEVGKAVEEAREQVAKLLGAEPD 60 Query: 64 HVVFTSSATEAANWVLTPHFYQGSHKISIDSLYISAIEHPAVYAGGHF---PSHKIHKIP 120 ++FTS TE+ N + K I +A+EHPAV + +K+ +P Sbjct: 61 EIIFTSGGTESDNTAIKSALAAQPEKRHI---ITTAVEHPAVLSLCQHLEKQGYKVTYLP 117 Query: 121 VLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVD 180 V +G +D++ L + + +++VM+ NNETG I PI+EI +I KE + D Sbjct: 118 VDEEGRLDLEELRAAITDDTA-----LVSVMWANNETGTIFPIEEIGEIAKERGALFHTD 172 Query: 181 AVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDILLPSPLLRGGDQEKGQRA 240 AVQA G+IP+ ++E+ D L +S HKL P G GAL R+ PLLRGG QE+G+RA Sbjct: 173 AVQAVGKIPIDLKEMNIDMLSLSGHKLHGPKGVGALYIRKGTRF-RPLLRGGHQERGRRA 231 Query: 241 GTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYGKDAERISNT 300 GTEN I G AA+ + +++ ++RV A+RD LE L IP+ + G +R+ NT Sbjct: 232 GTENVPGIVGLGKAAELATEHLEEENTRVRALRDRLEAGLLARIPDARLNGDPTKRLPNT 291 Query: 301 CCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMG--FDTSQGAVRVSCG 358 S +++ E + + LD+EGI S+GSAC+SG ++ +HVL AMG + G++R S Sbjct: 292 VNISFEYIEGEAILLLLDMEGICASSGSACTSGSLEPSHVLRAMGVPHTAAHGSIRFSLS 351 Query: 359 DSTTQEDIDIFLNALQKIIR 378 T+EDID L L II Sbjct: 352 RYNTEEDIDYVLEVLPPIIA 371 >gnl|CDD|178257 PLN02651, PLN02651, cysteine desulfurase. Length = 364 Score = 231 bits (591), Expect = 3e-61 Identities = 121/380 (31%), Positives = 202/380 (53%), Gaps = 33/380 (8%) Query: 5 VYLDWNATAPLL-EVVRQSFVKSLDFYGNPSSV-HKEGQKTRLYIEESRRIIADFCGAKP 62 +YLD AT P+ V+ ++ +GNP S H G ++ +E++R +A GA P Sbjct: 1 LYLDMQATTPIDPRVLDAMLPFLIEHFGNPHSRTHLYGWESEDAVEKARAQVAALIGADP 60 Query: 63 DHVVFTSSATEAANWVL--TPHFYQGS--HKISIDSLYISAIEHPAVYAGGHFPSHKIHK 118 ++FTS ATE+ N + HFY+ H I+ + EH V H + Sbjct: 61 KEIIFTSGATESNNLAIKGVMHFYKDKKKHVIT------TQTEHKCVL--DSC-RHLQQE 111 Query: 119 ------IPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKE 172 +PV S G+VD+ L + R T +++VM VNNE GVIQP++EI ++ +E Sbjct: 112 GFEVTYLPVKSDGLVDLDELAAAI--RPDTA---LVSVMAVNNEIGVIQPVEEIGELCRE 166 Query: 173 YQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDILLP-SPLLRG 231 + + DA QA G+IP+ ++++ D + IS HK+ P G GAL R + PL+ G Sbjct: 167 KKVLFHTDAAQAVGKIPVDVDDLGVDLMSISGHKIYGPKGVGALYVRRRPRVRLEPLMSG 226 Query: 232 GDQEKGQRAGTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYG 291 G QE+G+R+GTEN ++ G A + +K++ + A+R+ L L+ + + + G Sbjct: 227 GGQERGRRSGTENTPLVVGLGAACELAMKEMDYDEKHMKALRERLLNGLRAKLGGVRVNG 286 Query: 292 K--DAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMGFDT- 348 +R T S +++ E L + L+ +AVS+GSAC+S ++ ++VL A+G Sbjct: 287 PRDPEKRYPGTLNLSFAYVEGESLLMG--LKEVAVSSGSACTSASLEPSYVLRALGVPEE 344 Query: 349 -SQGAVRVSCGDSTTQEDID 367 + G++R+ G TT+E++D Sbjct: 345 MAHGSLRLGVGRFTTEEEVD 364 >gnl|CDD|163191 TIGR03235, DNA_S_dndA, cysteine desulfurase DndA. This model describes DndA, a protein related to IscS and part of a larger family of cysteine desulfurases. It is encoded, typically, divergently from a conserved, sparsely distributed operon for sulfur modification of DNA. This modification system is designated dnd, after the phenotype of DNA degradation during electrophoresis. The system is sporadically distributed in bacteria, much like some restriction enzyme operons. DndB is described as a putative ATPase. Length = 353 Score = 226 bits (577), Expect = 1e-59 Identities = 129/367 (35%), Positives = 189/367 (51%), Gaps = 31/367 (8%) Query: 6 YLDWNATAPLL----EVVRQSFVKSLDFYGNPSSV-HKEGQKTRLYIEESRRIIADFCGA 60 YLD NAT P+ E + L+ +GNPSS H+ G + +E +R+ +A+ GA Sbjct: 1 YLDHNATTPIDPAVAEAMLPWL---LEEFGNPSSRTHEFGHNAKKAVERARKQVAEALGA 57 Query: 61 KPDHVVFTSSATEAANWV---LTPHFYQGSHKISIDSLYISAIEHPAVYAGGHF---PSH 114 + V+FTS ATE+ N L Q K + SAIEHPAV Sbjct: 58 DTEEVIFTSGATESNNLAILGLARAGEQKGKK----HIITSAIEHPAVLEPIRALERNGF 113 Query: 115 KIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQ 174 + +PV G +D+ L D + R T ++++M VNNETG IQPI+EIA++++ ++ Sbjct: 114 TVTYLPVDESGRIDVDELADAI--RPDTL---LVSIMHVNNETGSIQPIREIAEVLEAHE 168 Query: 175 GILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDILLP---SPLLRG 231 VDA Q G+I + + + D + S HK+ P G GALV R+ P++ G Sbjct: 169 AFFHVDAAQVVGKITVDLSADRIDLISCSGHKIYGPKGIGALVIRKRGKPKAPLKPIMFG 228 Query: 232 GDQEKGQRAGTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYG 291 G QE+G R GT +I G AA+ ++ Q ++ A+R+ L L+ + + G Sbjct: 229 GGQERGLRPGTLPVHLIVGMGEAAEIARRNAQAWEVKLRAMRNQLRDALQT--LGVKLNG 286 Query: 292 KDAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMGFDTSQ- 350 AE I + FSI + +E L + L AVS GSACSS K + +HVL AMG DT + Sbjct: 287 DPAETIPHILNFSIDGVNSEALIVNLR-ADAAVSTGSACSSSKYEPSHVLQAMGLDTDRA 345 Query: 351 -GAVRVS 356 GA+R S Sbjct: 346 RGAIRFS 352 >gnl|CDD|132444 TIGR03403, nifS_epsilon, cysteine desulfurase, NifS family, epsilon proteobacteria type. Members of this family are the NifS-like cysteine desulfurase of the epsilon division of the Proteobacteria, similar to the NifS protein of nitrogen-fixing bacteria. Like NifS, and unlike IscS, this protein is found as part of a system of just two proteins, a cysteine desulfurase and a scaffold, for iron-sulfur cluster biosynthesis. This protein is called NifS by Olsen, et al. (PubMed:11123951), so we use this designation. Length = 382 Score = 220 bits (562), Expect = 5e-58 Identities = 129/385 (33%), Positives = 206/385 (53%), Gaps = 22/385 (5%) Query: 5 VYLDWNATA---PLLEVVRQSFVKSLDFYGNPSSVHKEGQKTRLYIEES-RRIIADFCGA 60 VYLD NAT P ++ + F D YGNP+S+H+ G T I E+ ++ Sbjct: 1 VYLDNNATTMLDPKVKELMDPFFC--DIYGNPNSLHQFGTATHPAIAEALDKLYKGINAR 58 Query: 61 KPDHVVFTSSATEAANWVLTPHFYQGSHKISIDSLYISAIEHPAVYAGGHFPSH---KIH 117 D ++ TS ATE+ NWVL ++ K + + + +EHPAV A F ++ Sbjct: 59 DLDDIIITSCATESNNWVLKGVYFDEILKGGKNHIITTEVEHPAVRATCAFLESLGVEVT 118 Query: 118 KIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGIL 177 +P+ +G + + + + + ++ + +++VM+ NNETG+I PIKEI +I KE + Sbjct: 119 YLPINEQGTITAEQVREAITEKTA-----LVSVMWANNETGMIFPIKEIGEICKERGVLF 173 Query: 178 VVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDILLPSPLLRGGDQEKG 237 DAVQA G+IP+ +++ DFL S+HK P G G L R+ + L +PL GG+ G Sbjct: 174 HTDAVQAIGKIPVDVQKAGVDFLSFSAHKFHGPKGVGGLYIRKGVEL-TPLFHGGEHMGG 232 Query: 238 QRAGTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYGKDAERI 297 +R+GT N I A + + + S V +RD LE L +L P++ + G R+ Sbjct: 233 RRSGTLNVPYIVAMGEAMRLANEYLDFEKSHVRRLRDRLEDALLEL-PDVFVVGDREHRV 291 Query: 298 SNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMGFDT--SQGAVRV 355 NT SI ++ E + L+ GIA S GSAC+S ++ N V+ A+G D + A+R+ Sbjct: 292 PNTILISIKGVEGEAMLWDLNKAGIAASTGSACASEDLEANPVMVAIGADKELAHTAIRL 351 Query: 356 SCGDSTTQEDID----IFLNALQKI 376 S TT+E+ID +F A+Q++ Sbjct: 352 SLSRFTTEEEIDYTIEVFKKAVQRL 376 >gnl|CDD|184450 PRK14012, PRK14012, cysteine desulfurase; Provisional. Length = 404 Score = 203 bits (519), Expect = 6e-53 Identities = 127/379 (33%), Positives = 200/379 (52%), Gaps = 32/379 (8%) Query: 5 VYLDWNATAPL----LEVVRQSFVKSLDFYGNPSS-VHKEGQKTRLYIEESRRIIADFCG 59 +YLD++AT P+ E + F GNP+S H+ G + ++ +R IAD G Sbjct: 5 IYLDYSATTPVDPRVAEKMMPYLTMDGTF-GNPASRSHRFGWQAEEAVDIARNQIADLIG 63 Query: 60 AKPDHVVFTSSATEAANWVL--TPHFYQ--GSHKISIDSLYISAIEHPAVY-AGGHFPSH 114 A P +VFTS ATE+ N + HFYQ G H I+ S EH AV Sbjct: 64 ADPREIVFTSGATESDNLAIKGAAHFYQKKGKHIIT------SKTEHKAVLDTCRQLERE 117 Query: 115 --KIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKE 172 ++ + S GI+D++ L + R+ T ++++M VNNE GVIQ I I +I +E Sbjct: 118 GFEVTYLDPQSNGIIDLEKLEAAM--RDDTI---LVSIMHVNNEIGVIQDIAAIGEICRE 172 Query: 173 YQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGAL-VFREDILLPSPLLRG 231 I VDA Q+ G++P+ + ++K D + S+HK+ P G GAL V R+ + + G Sbjct: 173 RGIIFHVDAAQSVGKVPIDLSKLKVDLMSFSAHKIYGPKGIGALYVRRKPRVRLEAQMHG 232 Query: 232 GDQEKGQRAGTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYG 291 G E+G R+GT I G AA+ +++ + R+ A+RD L +K I + + G Sbjct: 233 GGHERGMRSGTLPTHQIVGMGEAARIAKEEMATENERIRALRDRLWNGIKD-IEEVYLNG 291 Query: 292 KDAERISNTCCFSIPFLKAEVLQIAL-DLEGIAVSAGSACSSGKIKKNHVLAAMGF--DT 348 +R+ S +++ E L +AL DL AVS+GSAC+S ++ ++VL A+G + Sbjct: 292 DLEQRVPGNLNVSFNYVEGESLIMALKDL---AVSSGSACTSASLEPSYVLRALGLNDEL 348 Query: 349 SQGAVRVSCGDSTTQEDID 367 + ++R S G TT+E+ID Sbjct: 349 AHSSIRFSLGRFTTEEEID 367 >gnl|CDD|131061 TIGR02006, IscS, cysteine desulfurase IscS. This model represents IscS, one of several cysteine desulfurases from a larger protein family designated (misleadingly, in this case) class V aminotransferases. IscS is one of at least 6 enzymes characteristic of the IscSUA-hscAB-fsx system of iron-sulfur cluster assembly. Scoring almost as well as proteobacterial sequences included in the model are mitochondrial cysteine desulfurases, apparently from an analogous system in eukaryotes. The sulfur, taken from cysteine, may be used in other systems as well, such as tRNA base modification and biosynthesis of other cofactors. Length = 402 Score = 190 bits (484), Expect = 5e-49 Identities = 125/386 (32%), Positives = 207/386 (53%), Gaps = 28/386 (7%) Query: 5 VYLDWNATAPLLEVVRQSFVKSL--DFYGNPSS-VHKEGQKTRLYIEESRRIIADFCGAK 61 +YLD+ AT P+ V + + L F GNP+S H G + +E +R +A+ GA Sbjct: 5 IYLDYAATTPVDPRVAEKMMPYLTEKF-GNPASRSHSFGWEAEEAVENARNQVAELIGAD 63 Query: 62 PDHVVFTSSATEAANWVL--TPHFYQ--GSHKISIDSLYISAIEHPAVY-AGGHFPSH-- 114 +VFTS ATE+ N + HFY+ G+H I+ S EH AV + Sbjct: 64 SREIVFTSGATESNNLAIKGIAHFYKSKGNHIIT------SKTEHKAVLDTCRYLEREGF 117 Query: 115 KIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQ 174 ++ +P S G++D++ L + R+ T ++++M VNNE GVIQ I I +I +E + Sbjct: 118 EVTYLPPKSNGLIDLEELKAAI--RDDTI---LVSIMHVNNEIGVIQDIAAIGEICRERK 172 Query: 175 GILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGAL-VFREDILLPSPLLRGGD 233 VDA Q+ G+IP+++ E+K D + IS HK+ P G GAL V R+ + L+ GG Sbjct: 173 VFFHVDAAQSVGKIPINVNELKVDLMSISGHKIYGPKGIGALYVRRKPRVRLEALIHGGG 232 Query: 234 QEKGQRAGTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYGKD 293 E+G R+GT I G A + +++ + ++ V A+RD L +K I + + G Sbjct: 233 HERGMRSGTLPTHQIVGMGEAFRIAKEEMAQDTAHVLALRDRLLNGIKS-IEEVYLNGDL 291 Query: 294 AERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMGF--DTSQG 351 R+ S +++ E L +A L+ +AVS+GSAC+S ++ ++VL A+G + + Sbjct: 292 EHRVPGNLNVSFNYVEGESLIMA--LKDLAVSSGSACTSASLEPSYVLRALGINDELAHS 349 Query: 352 AVRVSCGDSTTQEDIDIFLNALQKII 377 ++R + G TT+E+ID + ++ I Sbjct: 350 SIRFTIGRFTTEEEIDYAVKLVKSAI 375 >gnl|CDD|179511 PRK02948, PRK02948, cysteine desulfurase; Provisional. Length = 381 Score = 177 bits (451), Expect = 4e-45 Identities = 109/386 (28%), Positives = 190/386 (49%), Gaps = 24/386 (6%) Query: 5 VYLDWNATAPLLEVVRQSFVK-SLDFYGNPSSVHKEGQKTRLYIEESRRIIADFCGAKPD 63 +YLD+ AT P+ + Q++ K + ++GN SS+H G ++ R+ A+ G + Sbjct: 2 IYLDYAATTPMSKEALQTYQKAASQYFGNESSLHDIGGTASSLLQVCRKTFAEMIGGEEQ 61 Query: 64 HVVFTSSATE----AANWVLTPHFYQGSHKISIDSLYISAIEHPAVYAGGHF---PSHKI 116 + FTS TE A +L H I+ + +EH ++++ + + Sbjct: 62 GIYFTSGGTESNYLAIQSLLNALPQNKKHIIT------TPMEHASIHSYFQSLESQGYTV 115 Query: 117 HKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGI 176 +IPV G++ + L +R T + ++ N+E G IQPI EI ++K+Y + Sbjct: 116 TEIPVDKSGLIRLVDL-----ERAITPDTVLASIQHANSEIGTIQPIAEIGALLKKYNVL 170 Query: 177 LVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDILLPSPLLRGGDQEK 236 D VQ G++P+ + E+ D L +S+HK+ P G GA+ + P+ G EK Sbjct: 171 FHSDCVQTFGKLPIDVFEMGIDSLSVSAHKIYGPKGVGAVYINPQVRW-KPVFPGTTHEK 229 Query: 237 GQRAGTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYGKDAER 296 G R GT N I F AA+ ++K++Q+ S R +R Y ++++ L I + G Sbjct: 230 GFRPGTVNVPGIAAFLTAAENILKNMQEESLRFKELRSYFLEQIQTLPLPIEVEGHSTSC 289 Query: 297 ISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMGFDTSQGA---V 353 + + +I ++ + + + GIA+S GSAC GK + + + A+G T + A V Sbjct: 290 LPHIIGVTIKGIEGQYTMLECNRRGIAISTGSACQVGKQEPSKTMLAIG-KTYEEAKQFV 348 Query: 354 RVSCGDSTTQEDIDIFLNALQKIIRT 379 R S G TT++ ID ++AL+ I Sbjct: 349 RFSFGQQTTKDQIDTTIHALETIGNQ 374 >gnl|CDD|131034 TIGR01979, sufS, cysteine desulfurases, SufS subfamily. This model represents a subfamily of NifS-related cysteine desulfurases involved in FeS cluster formation needed for nitrogen fixation among other vital functions. Many cysteine desulfurases are also active as selenocysteine lyase and/or cysteine sulfinate desulfinase. This subfamily is associated with the six-gene SUF system described in E. coli and Erwinia as an FeS cluster formation system during oxidative stress. The active site Cys is this subfamily resembles GHHC with one or both His conserved. Length = 403 Score = 161 bits (410), Expect = 3e-40 Identities = 104/406 (25%), Positives = 171/406 (42%), Gaps = 57/406 (14%) Query: 5 VYLDWNATA----PLLEVVRQSFVKSLDFYGNPS-SVHKEGQKTRLYIEESRRIIADFCG 59 VYLD AT+ +++ V + + S N +H + E R +A F Sbjct: 20 VYLDSAATSQKPQQVIDAVAEYYRNS---NANVHRGIHTLSVRATEAYEAVREKVAKFIN 76 Query: 60 AKPDH-VVFTSSATEAANWVLT----PHFYQGSHKISIDSLYISAIEHPAVYAGGHFPSH 114 A D +VFT TE+ N V + G D + IS +EH A + Sbjct: 77 AASDEEIVFTRGTTESINLVAYSWGDSNLKAG------DEIVISEMEHHANIVPWQLLAE 130 Query: 115 ----KIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIV 170 + IP+ G +D+ L L ++ ++A+ V+N G + P++EIA++ Sbjct: 131 RTGATLKFIPLDDDGTLDLDDLEKLLTEK-----TKLVAITHVSNVLGTVNPVEEIAKLA 185 Query: 171 KEYQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDIL--LPSPL 228 + ++VD QA +P+ ++ + DF + S HK+ P G G L +E++L +P P Sbjct: 186 HQVGAKVLVDGAQAVPHMPVDVQALDCDFYVFSGHKMYGPTGIGVLYGKEELLEQMP-PF 244 Query: 229 LRGGD------------QEKGQR--AGTENYAVIGGFAVAAQQMVK-DIQKRSSRVFAIR 273 L GG+ E + AGT N A + G A + ++ + + Sbjct: 245 LGGGEMIAEVSFEETTYNEAPHKFEAGTPNIAGVIGLGAAIDYLEAIGLENIEAHEHELT 304 Query: 274 DYLEQELKKLIPNIIIYG-KDAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSS 332 Y + L + IP + IYG +DAE F++ + + LD EGIAV +G C+ Sbjct: 305 AYALERLGE-IPGLRIYGPRDAEDRGGIISFNVEGVHPHDVGTILDEEGIAVRSGHHCA- 362 Query: 333 GKIKKNHVLAAMGFDTSQGAVRVSCGDSTTQEDIDIFLNALQKIIR 378 M R S T+EDID + AL+K+ + Sbjct: 363 --------QPLMRRFGVPATCRASFYIYNTEEDIDALVEALKKVRK 400 >gnl|CDD|131032 TIGR01977, am_tr_V_EF2568, cysteine desulfurase family protein. This model describes a subfamily of probable pyridoxal phosphate-dependent enzymes in the aminotransferase class V family. Related families contain members active as cysteine desulfurases, selenocysteine lyases, or both. The members of this family form a distinct clade and all are shorter at the N-terminus. The function of this subfamily is unknown. Length = 376 Score = 137 bits (346), Expect = 6e-33 Identities = 104/407 (25%), Positives = 172/407 (42%), Gaps = 66/407 (16%) Query: 5 VYLDWNATA-PLLEVVRQSFVKSLDFYG-NPS-SVHKEGQKTRLYIEESRRIIADFCGA- 60 +Y D AT P + V ++ YG +P ++ + +EE+R+++A A Sbjct: 1 IYFDNAATTYPKPDEVYEAMADFYKNYGGSPGRGRYRLALRASREVEETRQLLAKLFNAP 60 Query: 61 KPDHVVFTSSATEAANWVLTPHFYQGSHKISIDSLYISAIEHPAVYAGGHFPSHKIHK-- 118 HVVFT++AT A N L +G K D + + +EH +V P + + Sbjct: 61 SSAHVVFTNNATTALNIAL-----KGLLK-EGDHVITTPMEHNSVAR----PLECLKEQI 110 Query: 119 ------IPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKE 172 + ++G++ + + +R +I V +N TG I PI+EI ++ +E Sbjct: 111 GVEITIVKCDNEGLISPERI-----KRAIKTNTKLIVVSHASNVTGTILPIEEIGELAQE 165 Query: 173 YQGILVVDAVQAAGRIPLSIEEIKADFLIISSHK-LGAPVGAGALVFREDILLPSPLLRG 231 ++DA Q AG IP+ + E+ D L + HK L P G G L RE I L PL G Sbjct: 166 NGIFFILDAAQTAGVIPIDMTELAIDMLAFTGHKGLLGPQGTGGLYIREGIKL-KPLKSG 224 Query: 232 G------DQEKGQ------RAGTENYAVIGGFAVAAQQM----VKDIQKRSSRVFAIRDY 275 G ++ +GT N I G + + + +I K+ + + Sbjct: 225 GTGSHSALIDQPSELPDRFESGTLNTPGIAGLNAGIKFIEKIGIANIAKKE---CMLTEK 281 Query: 276 LEQELKKLIPNIIIYG-KDAERISNTCCFSIPFLKAEVLQIALDLE-GIAVSAGSACSSG 333 L L++ I + IYG D F++ + +E + LD + IA G C Sbjct: 282 LLNGLRE-INKVKIYGPADPANRVGVVSFTVEGIDSEEVADILDEKFDIATRTGLHC--- 337 Query: 334 KIKKNHVLAAMGFDTSQ----GAVRVSCGDSTTQEDIDIFLNALQKI 376 A + T G +R+S G T+E+I+ L AL +I Sbjct: 338 --------APLAHKTIGTFATGTIRLSLGYFNTEEEIEKLLEALSEI 376 >gnl|CDD|178446 PLN02855, PLN02855, Bifunctional selenocysteine lyase/cysteine desulfurase. Length = 424 Score = 100 bits (251), Expect = 6e-22 Identities = 102/410 (24%), Positives = 180/410 (43%), Gaps = 60/410 (14%) Query: 3 KRVYLDWNATA--PLLEVVRQSFVKSLDFY--GNPSSVHK-----EGQKTRLYIEESRRI 53 K VYLD AT+ P + + +L Y S+VH+ + T Y E +R+ Sbjct: 32 KLVYLDNAATSQKP------AAVLDALQDYYEEYNSNVHRGIHALSAKATDAY-ELARKK 84 Query: 54 IADFCGAKPD-HVVFTSSATEAANWVLTPHFYQGSHKISIDSLYISAIEHPAVYAGGHFP 112 +A F A +VFT +ATEA N L + + ++ D + +S EH + Sbjct: 85 VAAFINASTSREIVFTRNATEAIN--LVAYTWGLANLKPGDEVILSVAEHHSNIVPWQLV 142 Query: 113 SHK----IHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQ 168 + K + + + ++D++ L + L ++ ++A V+N G I P+++I Sbjct: 143 AQKTGAVLKFVGLTPDEVLDVEQLKELLSEKTK-----LVATHHVSNVLGSILPVEDIVH 197 Query: 169 IVKEYQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDIL--LPS 226 ++VDA Q+ +P+ ++ + ADFL+ SSHK+ P G G L + D+L +P Sbjct: 198 WAHAVGAKVLVDACQSVPHMPVDVQTLGADFLVASSHKMCGPTGIGFLWGKSDLLESMP- 256 Query: 227 PLLRGGD------------QEKGQR--AGTENYAVIGGFAVAAQQMVK-DIQKRSSRVFA 271 P L GG+ R AGT G A + + + + Sbjct: 257 PFLGGGEMISDVFLDHSTYAPPPSRFEAGTPAIGEAIGLGAAIDYLSEIGMDRIHEYEVE 316 Query: 272 IRDYLEQELKKLIPNIIIYG---KDAERISNTCCFSIPFLKAEVLQIALDLE-GIAVSAG 327 + YL ++L +P + IYG + + C F++ + L LD + G+A+ +G Sbjct: 317 LGTYLYEKLSS-VPGVRIYGPKPSEGVGRAALCAFNVEGIHPTDLSTFLDQQHGVAIRSG 375 Query: 328 SACSSGKIKKNHVLAAMGFDTSQGAVRVSCGDSTTQEDIDIFLNALQKII 377 C+ + H +G + S R S T+E++D F++AL+ I Sbjct: 376 HHCA----QPLH--RYLGVNAS---ARASLYFYNTKEEVDAFIHALKDTI 416 >gnl|CDD|162635 TIGR01976, am_tr_V_VC1184, cysteine desulfurase family protein, VC1184 subfamily. This model describes a subfamily of probable pyridoxal phosphate-dependent enzymes in the aminotransferase class V family (pfam00266). The most closely related characterized proteins are active as cysteine desulfurases, selenocysteine lyases, or both; some are involved in FeS cofactor biosynthesis and are designated NifS. An active site Cys residue present in those sequences, in motifs resembling GHHC or GSAC, is not found in this family. The function of members of this family is unknown, but seems unlike to be as an aminotransferase. Length = 397 Score = 93.7 bits (233), Expect = 8e-20 Identities = 90/398 (22%), Positives = 151/398 (37%), Gaps = 46/398 (11%) Query: 4 RVYLDWNATAPLLEVVRQSFVKSLDFYG-NPSSVHKEGQKTRLYIEESRRIIADFCGAKP 62 RV+ D A + + V + +L N ++ ++ ++++R +AD A P Sbjct: 18 RVFFDNPAGTQIPQSVADAVSAALTRSNANRGGAYESSRRADQVVDDAREAVADLLNADP 77 Query: 63 DHVVFTSSATEAANWVLTPHFYQGSHKISI--DSLYISAIEHPAVYA----GGHFPSHKI 116 VVF ++AT LT + + D + ++ ++H A + K+ Sbjct: 78 PEVVFGANAT-----SLTFLLSRAISRRWGPGDEVIVTRLDHEANISPWLQAAERAGAKV 132 Query: 117 HKIPVLSK-GIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQG 175 V G + L L R ++AV +N G I + I ++V Sbjct: 133 KWARVDEATGELHPDDLASLLSPRTR-----LVAVTAASNTLGSIVDLAAITELVHAAGA 187 Query: 176 ILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDI---LLPSPLLRGG 232 ++VVDAV A + ++ ADFL S++K P G L R ++ L P L Sbjct: 188 LVVVDAVHYAPHGLIDVQATGADFLTCSAYKFFGP-HMGILWGRPELLMNLPPYKLTFSY 246 Query: 233 DQEKGQ-RAGTENYAVIGGFAVAAQQM----VKDIQKRSSRVFA-----------IRDYL 276 D + GT Y ++ G A + R R+ A + +YL Sbjct: 247 DTGPERFELGTPQYELLAGVVAAVDYLAGLGESANGSRRERLVASFQAIDAYENRLAEYL 306 Query: 277 EQELKKLIPNIIIYG-KDAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKI 335 L L P + +YG T F++ L + + L +GI AG + Sbjct: 307 LVGLSDL-PGVTLYGVARLAARVPTVSFTVHGLPPQRVVRRLADQGIDAWAGHFYAVR-- 363 Query: 336 KKNHVLAAMGFDTSQGAVRVSCGDSTTQEDIDIFLNAL 373 +L +G + G VRV T E++D L AL Sbjct: 364 ----LLRRLGLNDEGGVVRVGLAHYNTAEEVDRLLEAL 397 >gnl|CDD|181766 PRK09295, PRK09295, bifunctional cysteine desulfurase/selenocysteine lyase; Validated. Length = 406 Score = 91.7 bits (228), Expect = 3e-19 Identities = 96/411 (23%), Positives = 159/411 (38%), Gaps = 69/411 (16%) Query: 5 VYLDWNATAPLLEVVRQSFVKSLDFYGNP-SSVHK-----EGQKTRLYIEESRRIIADFC 58 YLD A+A V +FY + ++VH+ Q T +E R+ A F Sbjct: 25 AYLDSAASAQKPSQVID---AEAEFYRHGYAAVHRGIHTLSAQATEK-MENVRKQAALFI 80 Query: 59 GAK-PDHVVFTSSATEAANWVLTPHFYQGSHKISI-DSLYISAIEHPA---------VYA 107 A+ + +VF TE N V G+ + D++ IS +EH A Sbjct: 81 NARSAEELVFVRGTTEGINLVANSW---GNSNVRAGDNIIISEMEHHANIVPWQMLCARV 137 Query: 108 GGHFPSHKIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIA 167 G + IP+ G + ++ L ++R ++A+ V+N G P+ E+ Sbjct: 138 GAE-----LRVIPLNPDGTLQLETLPALFDERTR-----LLAITHVSNVLGTENPLAEMI 187 Query: 168 QIVKEYQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDILLPSP 227 + ++ ++VD QA P+ ++ + DF + S HKL P G G L +E +L P Sbjct: 188 ALAHQHGAKVLVDGAQAVMHHPVDVQALDCDFYVFSGHKLYGPTGIGILYVKEALLQEMP 247 Query: 228 LLRGGDQEKGQ----------------RAGTENYAVIGGFAVA----AQQMVKDIQKRSS 267 GG AGT N I G A + + +I + Sbjct: 248 PWEGGGSMIATVSLTEGTTWAKAPWRFEAGTPNTGGIIGLGAALDYVSALGLNNIAEYEQ 307 Query: 268 RVFAIRDYLEQELKKLIPNIIIYGKDAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAG 327 + Y +L+ +P++ +YG R+ F++ A + LD GIAV G Sbjct: 308 ---NLMHYALSQLES-VPDLTLYGP-QNRLG-VIAFNLGKHHAYDVGSFLDNYGIAVRTG 361 Query: 328 SACSSGKIKKNHVLAAMGFDTSQGAVRVSCGDSTTQEDIDIFLNALQKIIR 378 C+ + M + R S T E++D + LQ+I R Sbjct: 362 HHCA---------MPLMAYYNVPAMCRASLAMYNTHEEVDRLVAGLQRIHR 403 >gnl|CDD|132433 TIGR03392, FeS_syn_CsdA, cysteine desulfurase, catalytic subunit CsdA. Members of this protein family are CsdS. This protein, found Escherichia coli, Yersinia pestis, Photorhabdus luminescens, and related species, and related to SufS, works together with and physically interacts with CsdE (a paralog of SufE). CsdA has cysteine desulfurase activity that is enhanced by CsdE, a sulfur acceptor protein. This gene pair, although involved in FeS cluster biosynthesis, is not found next to other such genes as are its paralogs from the Suf or Isc systems. Length = 398 Score = 91.4 bits (227), Expect = 3e-19 Identities = 101/407 (24%), Positives = 165/407 (40%), Gaps = 69/407 (16%) Query: 5 VYLDWNATA----PLLEVVRQSFVKSLDFYGNPS-----SVHKEGQKTRLYIEESRRIIA 55 VYLD ATA +++ +Q FY S S H++ Q E +R+ +A Sbjct: 18 VYLDSAATALKPQAVIDATQQ-------FYRLSSGTVHRSQHQQAQSLTARYELARQQVA 70 Query: 56 DFCGA-KPDHVVFTSSATEAANWVLT----PHFYQGSHKISIDSLYISAIEHPAVYAG-- 108 F A +++V+T TE+ N V P G D + +S EH A Sbjct: 71 RFLNAPDAENIVWTRGTTESINLVAQSYARPRLQPG------DEIIVSEAEHHANLIPWL 124 Query: 109 --GHFPSHKIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEI 166 K+ K+P+ + + DI+ L + L R ++A+ ++N TG + Sbjct: 125 MVAQQTGAKVVKLPIGADLLPDIRQLPELLTPRTR-----ILALGQMSNVTGGCPDLARA 179 Query: 167 AQIVKEYQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFREDILLPS 226 + +Y ++VVD Q P ++ + DF S HKL P G G L + ++L Sbjct: 180 ITLAHQYGAVVVVDGAQGVVHGPPDVQALDIDFYAFSGHKLYGPTGIGVLYGKTELLEAM 239 Query: 227 PLLRGGD-------------QEKGQR--AGTENYAVIGGFAVAAQQMVK-DIQKRSSRVF 270 P +GG Q R AGT N A + G + A + + DI + Sbjct: 240 PPWQGGGKMLSHVSFDGFIPQAVPHRFEAGTPNIAGVIGLSAALEWLTDIDIAAAEAWSV 299 Query: 271 AIRDYLEQELKKLIPNIIIYGKDAERISNTCCFSIPFLKAEVLQIA--LDLEGIAVSAGS 328 ++ D E+ L +L P + R + + F +A L GIA+ AG Sbjct: 300 SLADLAEERLAQL-PGFRSF-----RCPGSSLLAFDFAGVHHSDLAALLAESGIALRAGQ 353 Query: 329 ACSSGKIKKNHVLAAMGFDTSQGAVRVSCGDSTTQEDIDIFLNALQK 375 C+ ++AA+G G +R S TQ+D+D ++A+ Sbjct: 354 HCA------QPLMAALGVS---GTLRASFAPYNTQQDVDALVDAVGA 391 >gnl|CDD|182799 PRK10874, PRK10874, cysteine sulfinate desulfinase; Provisional. Length = 401 Score = 88.6 bits (220), Expect = 2e-18 Identities = 107/417 (25%), Positives = 163/417 (39%), Gaps = 89/417 (21%) Query: 5 VYLDWNATA----PLLEVVRQSFVKSLDFYGNPS-----SVHKEGQKTRLYIEESRRIIA 55 VYLD ATA ++E +Q FY + S Q+ E +R +A Sbjct: 21 VYLDSAATALKPQAVIEATQQ-------FYSLSAGNVHRSQFAAAQRLTARYEAAREQVA 73 Query: 56 DFCGA-KPDHVVFTSSATEAANWV----LTPHFYQGSHKISIDSLYISAIEH-----P-- 103 A ++V+T TE+ N V P G D + +S EH P Sbjct: 74 QLLNAPDAKNIVWTRGTTESINLVAQSYARPRLQPG------DEIIVSEAEHHANLVPWL 127 Query: 104 --AVYAGGHFPSHKIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQ 161 A G K+ K+P+ + + D+ L + + R ++A+ ++N TG Sbjct: 128 MVAQQTGA-----KVVKLPLGADRLPDVDLLPELITPRTR-----ILALGQMSNVTGGCP 177 Query: 162 PIKEIAQIVKEYQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKLGAPVGAGALVFRED 221 + + + +++VD Q A P ++ + DF S HKL P G G L + + Sbjct: 178 DLARAITLAHQAGMVVMVDGAQGAVHFPADVQALDIDFYAFSGHKLYGPTGIGVLYGKSE 237 Query: 222 ILLP-SPLLRGGD------------QEKGQR--AGTENYAVIGGFAVAAQQMVKDIQ--- 263 +L SP GG Q R AGT N A + G + AA + + DI Sbjct: 238 LLEAMSPWQGGGKMLTEVSFDGFTPQSAPWRFEAGTPNVAGVIGLS-AALEWLADIDINQ 296 Query: 264 -KRSSRVFAIRDYLEQELKKLIPNIIIYGKDAERISNTCCFSIPFLKAEV----LQIALD 318 + SR A E L KL P + R ++ + F A V L L Sbjct: 297 AESWSRSLA--TLAEDALAKL-PGFRSF-----RCQDSSLLAFDF--AGVHHSDLVTLLA 346 Query: 319 LEGIAVSAGSACSSGKIKKNHVLAAMGFDTSQGAVRVSCGDSTTQEDIDIFLNALQK 375 GIA+ AG C+ +LAA+G G +R S TQ D+D +NA+ + Sbjct: 347 EYGIALRAGQHCAQP------LLAALGVT---GTLRASFAPYNTQSDVDALVNAVDR 394 >gnl|CDD|132344 TIGR03301, PhnW-AepZ, 2-aminoethylphosphonate aminotransferase. This family includes a number of 2-aminoethylphosphonate aminotransferases, some of which are indicated to operate in the catabolism of 2-aminoethylphosphonate (AEP) and others which are involved in the biosynthesis of the same compound. The catabolic enzyme (PhnW, ) is known to use pyruvate:alanine as the transfer partner and is modeled by the equivalog-level alignment (TIGR02326). The PhnW family is apparently a branch of a larger tree including genes (AepZ) adjacent to others responsible for the biosynthesis of phosphonoacetaldehyde. The identity of the transfer partner is unknown for these enzymes and considering the reversed flux compared to PhnW, it may very well be different. Length = 355 Score = 58.5 bits (142), Expect = 3e-09 Identities = 31/82 (37%), Positives = 52/82 (63%), Gaps = 5/82 (6%) Query: 150 VMFVNNET--GVIQPIKEIAQIVKEYQGILVVDAVQAAGRIPLSIEEIKADFLIISSHKL 207 V V++ET G++ P++ IA++ + + +L+VDA+ + G IP+ IEE+ D LI S++K Sbjct: 129 VATVHHETTTGILNPLEAIAKVARSHGAVLIVDAMSSFGAIPIDIEELDVDALIASANKC 188 Query: 208 --GAPVGAGALVFREDILLPSP 227 G P G G ++ R D+L S Sbjct: 189 LEGVP-GFGFVIARRDLLEASA 209 >gnl|CDD|178325 PLN02724, PLN02724, Molybdenum cofactor sulfurase. Length = 805 Score = 58.3 bits (141), Expect = 3e-09 Identities = 113/486 (23%), Positives = 176/486 (36%), Gaps = 130/486 (26%) Query: 2 FKR----VYLDWNATAPL-----LEVVRQSFVKSLDFYGNPSSVHKEGQKTRLYIEESRR 52 F R VYLD +A A L LE F S + YGNP S ++ IE +R+ Sbjct: 29 FARLKGVVYLD-HAGATLYSESQLEAALADF--SSNVYGNPHSQSDSSMRSSDTIESARQ 85 Query: 53 IIADFCGAKP-DHV-VFTSSAT-------EAANWVLTPHFY------------------Q 85 + ++ A P D+ VFTS AT E W HF + Sbjct: 86 QVLEYFNAPPSDYACVFTSGATAALKLVGETFPWSSESHFCYTLENHNSVLGIREYALEK 145 Query: 86 GSHKISIDSLYISAIEHPAVYAGGHFPSHKIHKIPVLSKGIVDIQALTDFLEQRNSTCGI 145 G+ I++D IE A S + + + +Q D E N Sbjct: 146 GAAAIAVD------IEEAANQPTNSQGSVVVKSRGLQRRNTSKLQKREDDGEAYN----- 194 Query: 146 PMIAVMFVNNETGVIQPIKEIAQIVKEYQG---------ILVVDAVQAAGRIPLSIEEIK 196 + A N +G P+ ++ +++K+ Q ++++DA + G P + Sbjct: 195 -LFAFPSECNFSGAKFPL-DLVKLIKDNQHSNFSKSGRWMVLLDAAKGCGTSPPDLSRYP 252 Query: 197 ADFLIISSHKL-GAPVGAGALVFREDI--LLPSPLLRGG----------------DQEKG 237 ADF+++S +K+ G P G GAL+ R D LL GG E+ Sbjct: 253 ADFVVVSFYKIFGYPTGLGALLVRRDAAKLLKKKYFGGGTVAASIADIDFVKRRERVEQR 312 Query: 238 QRAGTENYAVIG----GFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKL-----IPNII 288 GT ++ I GF + + + I + A+ Y+ L+ L P + Sbjct: 313 FEDGTISFLSIAALRHGFKLLNRLTISAIAMHTW---ALTHYVANSLRNLKHGNGAPVCV 369 Query: 289 IYGKDAERISNTCCFSIPFLK-------------AEVLQIALDLEGIAVSAGSACSSGKI 335 +YG ++ P + EV ++A L GI + G C+ G Sbjct: 370 LYGNHTFKLE--FHIQGPIVTFNLKRADGSWVGHREVEKLA-SLSGIQLRTGCFCNPGAC 426 Query: 336 KK----NHVLAAMGFDTSQ--------------GAVRVSCGDSTTQEDIDIFLNALQKII 377 K +H F+ GAVRVS G +T ED F+ I Sbjct: 427 AKYLGLSHKDLQANFEAGHVCWDDQDVIHGRPTGAVRVSFGYMSTFEDCQKFI----DFI 482 Query: 378 RTSTVR 383 +S V Sbjct: 483 ISSFVS 488 >gnl|CDD|131379 TIGR02326, transamin_PhnW, 2-aminoethylphosphonate--pyruvate transaminase. Members of this family are 2-aminoethylphosphonate--pyruvate transaminase. This enzyme acts on the most common type of naturally occurring phosphonate. It interconverts 2-aminoethylphosphonate plus pyruvate with 2-phosphonoacetaldehyde plus alanine. The enzyme phosphonoacetaldehyde hydrolase (EC 3.11.1.1), usually encoded by an adjacent gene, then cleaves the C-P bond of phosphonoacetaldehyde, adding water to yield acetaldehyde plus inorganic phosphate. Species with this pathway generally have an identified phosphonate ABC transporter but do not also have the multisubunit C-P lysase complex as found in Escherichia coli. Length = 363 Score = 56.7 bits (137), Expect = 1e-08 Identities = 27/84 (32%), Positives = 48/84 (57%), Gaps = 3/84 (3%) Query: 145 IPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQAAGRIPLSIEEIKADFLIISS 204 I IA++ TG++ PI+ +A++ + + +VDA+ + G IP+ I E+ D+LI S+ Sbjct: 130 ITHIALVHCETTTGILNPIEAVAKLAHRHGKVTIVDAMSSFGGIPIDIAELHIDYLISSA 189 Query: 205 HKL--GAPVGAGALVFREDILLPS 226 +K G P G G ++ R+ L Sbjct: 190 NKCIQGVP-GFGFVIARQAELAAC 212 >gnl|CDD|184076 PRK13479, PRK13479, 2-aminoethylphosphonate--pyruvate transaminase; Provisional. Length = 368 Score = 55.3 bits (134), Expect = 3e-08 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 6/99 (6%) Query: 127 VDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQAAG 186 D + L + I +A++ TG++ P+ EIA + K + L+VDA+ + G Sbjct: 117 PDAAEVEAAL-AADPR--ITHVALVHCETTTGILNPLDEIAAVAKRHGKRLIVDAMSSFG 173 Query: 187 RIPLSIEEIKADFLIISSHKL--GAPVGAGALVFREDIL 223 IP+ I E+ D LI S++K G P G G ++ R L Sbjct: 174 AIPIDIAELGIDALISSANKCIEGVP-GFGFVIARRSEL 211 >gnl|CDD|184109 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional. Length = 371 Score = 53.4 bits (129), Expect = 1e-07 Identities = 69/270 (25%), Positives = 112/270 (41%), Gaps = 56/270 (20%) Query: 127 VDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQAAG 186 VD++A+ D ++ T GI IA E G + PI E+++I E L VDA A G Sbjct: 139 VDVKAVEDLIDDN--TIGIVGIAG---TTELGQVDPIPELSKIALENGIFLHVDA--AFG 191 Query: 187 R--IPLSIEEIKADF-------LIISSHKLG-APVGAGALVFREDILL-----PSPLLRG 231 IP + DF + I HK+G AP+ AG ++FR++ L +P L Sbjct: 192 GFVIPFLDDPPNFDFSLPGVDSITIDPHKMGLAPIPAGGILFRDESYLDALAVDTPYLTS 251 Query: 232 GDQEK--GQRAGTENYAVIGGFAVAAQQMVKDIQKR-SSRVFAIRDYLEQELKKLIPNII 288 Q G R+G V +AV + + ++ ++ R +L +ELK+ + Sbjct: 252 KKQATLTGTRSGA---GVAATYAV-MKYLGREGYRKVVERCMENTRWLAEELKERGFEPV 307 Query: 289 IYGKDAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMGFDT 348 I E + N F P + ++ L G V S + Sbjct: 308 I-----EPVLNIVAFDDP--NPDEVREKLRERGWRV---SVTRCPE-------------- 343 Query: 349 SQGAVRVSCGDSTTQEDIDIFLNALQKIIR 378 A+R+ C T+E I+ FL L+++ + Sbjct: 344 ---ALRIVCMPHVTREHIENFLEDLKEVKK 370 >gnl|CDD|163524 TIGR03812, tyr_de_CO2_Arch, tyrosine decarboxylase MnfA. Members of this protein family are the archaeal form, MnfA, of tyrosine decarboxylase, and are involved in methanofuran biosynthesis. Members show clear homology to the Enterococcus form, Tdc, that is involved in tyrosine decarboxylation for resistance to acidic conditions. Length = 373 Score = 48.1 bits (115), Expect = 4e-06 Identities = 69/271 (25%), Positives = 100/271 (36%), Gaps = 59/271 (21%) Query: 127 VDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQAAG 186 VD++ + D ++ T GI IA E G I I+E+++I E L VDA Sbjct: 141 VDVKDVEDLIDDN--TIGIVGIAG---TTELGQIDDIEELSKIALENGIYLHVDAAFGGF 195 Query: 187 RIP-LSIEEIKADF---------LIISSHKLG-APVGAGALVFREDILLPS-----PLLR 230 IP L F + I HK+G +P+ AG ++FR L P L Sbjct: 196 VIPFLKKGYNPPPFDFSLPGVQSITIDPHKMGLSPIPAGGILFRSKSYLKYLSVDAPYLT 255 Query: 231 GGDQEK--GQRAGTE---NYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIP 285 Q G R+G YAVI +K + YL +ELKK+ Sbjct: 256 VKKQATITGTRSGASAAATYAVIKYLGREGY------RKIVAECMENTRYLVEELKKIGF 309 Query: 286 NIIIYGKDAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMG 345 +I E + N F + E ++ L G V S K Sbjct: 310 EPVI-----EPVLNIVAFEVD--DPEEVRKKLRDRGWYV---SVTRCPK----------- 348 Query: 346 FDTSQGAVRVSCGDSTTQEDIDIFLNALQKI 376 A+R+ T+E I+ FL L++I Sbjct: 349 ------ALRIVVMPHVTREHIEEFLEDLKEI 373 >gnl|CDD|162909 TIGR02539, SepCysS, Sep-tRNA:Cys-tRNA synthase. Aminoacylation of tRNA(Cys) with Cys, and cysteine biosynthesis in the process, happens in Methanocaldococcus jannaschii and several other archaea by misacylation of tRNA(Cys) with O-phosphoserine (Sep), followed by modification of the phosphoserine to cysteine. In some species, direct tRNA-cys aminoacylation also occurs but this pathway is required for Cys biosynthesis. Members of this protein catalyze the second step in this two step pathway, using pyridoxal phosphate and a sulfur donor to synthesize Cys from Sep while attached to the tRNA. Length = 370 Score = 47.9 bits (114), Expect = 4e-06 Identities = 27/98 (27%), Positives = 50/98 (51%), Gaps = 3/98 (3%) Query: 127 VDIQALTDFLEQRNSTCGIP--MIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQA 184 VD + + +E+ G P + + V+ E G + ++A++ +E L+++ Sbjct: 127 VDPEGYGEVIEEVEDESGKPPVLALLTHVDGEYGNLPDAGKVAKVCREKGVPLLLNCAYT 186 Query: 185 AGRIPLSIEEIKADFLIISSHK-LGAPVGAGALVFRED 221 GR+P+S +EI ADF++ S HK + A G L E+ Sbjct: 187 VGRMPVSAKEIGADFIVGSGHKSMAASGPCGVLGMSEE 224 >gnl|CDD|163511 TIGR03799, NOD_PanD_pyr, putative pyridoxal-dependent aspartate 1-decarboxylase. This enzyme is proposed here to be a form of aspartate 1-decarboxylase, pyridoxal-dependent, that represents a non-orthologous displacement to the more widely distributed pyruvoyl-dependent form (TIGR00223). Aspartate 1-decarboxylase makes beta-alanine, used usually in pathothenate biosynthesis, by decarboxylation from asparatate. A number of species with the PanB and PanC enzymes, however, lack PanD. This protein family occurs in a number of Proteobacteria that lack PanD. This enzyme family appears to be a pyridoxal-dependent enzyme (see pfam00282). The family was identified by Partial Phylogenetic Profiling; members in Geobacter sulfurreducens, G. metallireducens, and Pseudoalteromonas atlantica are clustered with the genes for PanB and PanC. We suggest the gene symbol panP (panthothenate biosynthesis enzyme, Pyridoxal-dependent). Length = 522 Score = 43.1 bits (102), Expect = 1e-04 Identities = 38/118 (32%), Positives = 56/118 (47%), Gaps = 24/118 (20%) Query: 118 KIPVLSKGIVDIQALTDF---LEQRNSTCGIPMIAVMFV--NNETGVIQPIKEIAQIVKE 172 I + +D+ AL D L ++N I +A++ V ETG I P+ E+A I +E Sbjct: 238 AIKTDANNRIDVDALRDKCAELAEQN----IKPLAIVGVAGTTETGNIDPLDEMADIAQE 293 Query: 173 YQGILVVDAVQAAGRIPL----------SIEEIKADFLIISSHK-LGAPVGAGALVFR 219 VDA A G L IE +AD + I +HK L P+GAG ++F+ Sbjct: 294 LGCHFHVDA--AWGGATLLSNTYRHLLKGIE--RADSVTIDAHKQLYVPMGAGMVLFK 347 >gnl|CDD|181782 PRK09331, PRK09331, Sep-tRNA:Cys-tRNA synthetase; Provisional. Length = 387 Score = 42.2 bits (100), Expect = 2e-04 Identities = 18/65 (27%), Positives = 36/65 (55%), Gaps = 1/65 (1%) Query: 158 GVIQPIKEIAQIVKEYQGILVVDAVQAAGRIPLSIEEIKADFLIISSHK-LGAPVGAGAL 216 G + K++A++ EY +++ GR+P+ +++ ADF++ S HK + A +G L Sbjct: 172 GNLADAKKVAKVAHEYGIPFLLNGAYTVGRMPVDGKKLGADFIVGSGHKSMAASAPSGVL 231 Query: 217 VFRED 221 E+ Sbjct: 232 ATTEE 236 >gnl|CDD|130873 TIGR01814, kynureninase, kynureninase. This model describes kynureninase, a pyridoxal-phosphate enzyme. Kynurinine is a Trp breakdown product and a precursor for NAD. In Chlamydia psittaci, an obligate intracellular pathogen, kynureninase makes anthranilate, a Trp precursor, from kynurenine. This counters the tryptophan hydrolysis that occurs in the host cell in response to the pathogen. Length = 406 Score = 41.3 bits (97), Expect = 4e-04 Identities = 44/171 (25%), Positives = 72/171 (42%), Gaps = 20/171 (11%) Query: 59 GAKPDHVVFTSSATEAANWVLTPHFYQGS---HKISIDSLY----ISAIEHPAVYAGGHF 111 GAK D VV ++ T + +L FY+ + +KI +++ AIE G Sbjct: 83 GAKEDEVVVMNTLTINLHLLLAS-FYKPTPKRYKILLEAKAFPSDHYAIESQLQLHGLTV 141 Query: 112 PSHKIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMF---VNNETGVIQPIKEIAQ 168 + P + + ++ + D +E+ IAV+ V TG + + I + Sbjct: 142 EESMVQIEP-REEETLRLEDILDTIEKNG-----DDIAVILLSGVQYYTGQLFDMAAITR 195 Query: 169 IVKEYQGILVV-DAVQAAGRIPLSIEEIKADFLIISSHK-LGAPVGAGALV 217 +G LV D A G +PL + + DF ++K L A GAGA V Sbjct: 196 AAHA-KGALVGFDLAHAVGNVPLDLHDWGVDFACWCTYKYLNAGPGAGAFV 245 >gnl|CDD|178031 PLN02409, PLN02409, serine--glyoxylate aminotransaminase. Length = 401 Score = 37.4 bits (87), Expect = 0.006 Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 5/71 (7%) Query: 149 AVMFVNNE--TGVIQPIKEIAQIVKEYQ--GILVVDAVQAAGRIPLSIEEIKADFLIISS 204 AV V+NE TGV + + +++ Q +L+VD V + G + ++E D + S Sbjct: 140 AVCVVHNETSTGVTNDLAGVRKLLDCAQHPALLLVDGVSSIGALDFRMDEWGVDVALTGS 199 Query: 205 HK-LGAPVGAG 214 K L P G G Sbjct: 200 QKALSLPTGLG 210 >gnl|CDD|102071 PRK05937, PRK05937, 8-amino-7-oxononanoate synthase; Provisional. Length = 370 Score = 36.7 bits (85), Expect = 0.010 Identities = 60/241 (24%), Positives = 96/241 (39%), Gaps = 42/241 (17%) Query: 54 IADFCGAKPDHVVFTSSATEAANWVLTPHFYQGSHKISID-SLYISAIEHPAVYAGGH-- 110 IA F GA +V + AN L H + + D ++IS + +V +G H Sbjct: 65 IAHFHGAPEAFIVPSGYM---ANLGLCAHLSSVTDYVLWDEQVHISVVYSLSVISGWHQS 121 Query: 111 FPSHKIHKIPVLSKGIVDIQALTDFLEQ-RNSTCGIPMIAVMFVNNETGVIQPIKEIAQI 169 F + D+ L LE R + G I V V + G + P+++I + Sbjct: 122 FRHN-------------DLDHLESLLESCRQRSFGRIFIFVCSVYSFKGTLAPLEQIIAL 168 Query: 170 VKEYQGILVVDAVQAAGRI---------PLSIEEIKADFLIISSHKLGAPVGAGALVFRE 220 K+Y L+VD A G L E A L+ S LG+ +GA L E Sbjct: 169 SKKYHAHLIVDEAHAMGIFGDDGKGFCHSLGYENFYA-VLVTYSKALGS-MGAALLSSSE 226 Query: 221 ---DILLPSPLLRGGDQEKGQRAGTENYAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLE 277 D++L SP LR G + +I VA + ++ + ++F +++Y Sbjct: 227 VKQDLMLNSPPLR-------YSTGLPPHLLI-SIQVAYDFLSQEGELARKQLFRLKEYFA 278 Query: 278 Q 278 Q Sbjct: 279 Q 279 >gnl|CDD|183910 PRK13238, tnaA, tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional. Length = 460 Score = 35.2 bits (82), Expect = 0.032 Identities = 34/121 (28%), Positives = 56/121 (46%), Gaps = 26/121 (21%) Query: 124 KGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQP-----IKEIAQIVKEYQGILV 178 KG D++ L +E+ + +P I VM + N + QP ++ + +I K+Y +V Sbjct: 158 KGNFDLEKLEALIEEVGAE-NVPFI-VMTITNNSAGGQPVSMANLRAVYEIAKKYGIPVV 215 Query: 179 VDAVQAA-----------GRIPLSIEEIK------ADFLIISSHKLG-APVGAGALVFRE 220 +DA + A G SI+EI AD L +S+ K +G G L FR+ Sbjct: 216 IDAARFAENAYFIKQREPGYKDKSIKEIAREMFSYADGLTMSAKKDAMVNIG-GLLCFRD 274 Query: 221 D 221 + Sbjct: 275 E 275 >gnl|CDD|177960 PLN02326, PLN02326, 3-oxoacyl-[acyl-carrier-protein] synthase III. Length = 379 Score = 33.6 bits (77), Expect = 0.095 Identities = 23/65 (35%), Positives = 28/65 (43%), Gaps = 24/65 (36%) Query: 282 KLIPNIIIYGKDAERISNTCCFSIPFLKAEVLQIALDLEGIAVSAGSACSSGKIKKNHVL 341 K+I N+ YG NT SIP +ALD A SGK+KK V+ Sbjct: 326 KVISNLANYG-------NTSAASIP--------LALD---------EAVRSGKVKKGDVI 361 Query: 342 AAMGF 346 A GF Sbjct: 362 ATAGF 366 >gnl|CDD|130848 TIGR01788, Glu-decarb-GAD, glutamate decarboxylase. This model represents the pyridoxal phosphate-dependent glutamate (alpha) decarboxylase found in bacteria (low and hi-GC gram positive, proteobacteria and cyanobacteria), plants, fungi and at least one archaon (Methanosarcina). The product of the enzyme is gamma-aminobutyrate (GABA). Length = 431 Score = 33.1 bits (76), Expect = 0.11 Identities = 45/184 (24%), Positives = 70/184 (38%), Gaps = 58/184 (31%) Query: 128 DIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQAAGR 187 D++AL D L++ N+ +TG PI VDA Sbjct: 204 DVKALNDALDEYNA--------------KTGWDIPIH--------------VDAASGGFI 235 Query: 188 IPLSIEEIKADFLI-------ISSHKLG-APVGAGALVFREDILLPSPLL-----RGGDQ 234 P +++ DF + +S HK G G G +++R++ LP L+ GGD+ Sbjct: 236 APFVYPDLEWDFRLPRVKSINVSGHKYGLVYPGVGWVIWRDEEALPEELIFHVNYLGGDE 295 Query: 235 EKGQRAGTENYAVIGGFAVAAQ--QMV-------KDIQKRSSRVFAIRDYLEQELKKLIP 285 T N++ V AQ + + I + S V YL +E+ KL P Sbjct: 296 P----TFTLNFSR-PANQVIAQYYNFLRLGREGYRKIMQNSLDV---ARYLAEEIAKLGP 347 Query: 286 NIII 289 II Sbjct: 348 FEII 351 >gnl|CDD|147827 pfam05889, SLA_LP_auto_ag, Soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen). This family consists of several eukaryotic and archaeal proteins which are related to the human soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen). Autoantibodies are a hallmark of autoimmune hepatitis, but most are not disease specific. Autoantibodies to soluble liver antigen (SLA) and to liver and pancreas antigen (LP) have been described as disease specific, occurring in about 30% of all patients with autoimmune hepatitis. The function of SLA/LP is unknown, however, it has been suggested that the protein may function as a serine hydroxymethyltransferase and may be an important enzyme in the thus far poorly understood selenocysteine pathway. Some archaeal members are annotated as being pyridoxal phosphate-dependent enzymes. Length = 389 Score = 32.6 bits (74), Expect = 0.16 Identities = 15/96 (15%), Positives = 32/96 (33%), Gaps = 16/96 (16%) Query: 126 IVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQA- 184 I D+ + +E++ I + +KEIA+I EY +V+ Sbjct: 138 ITDVNDVETIIEEKGEEV-ILAVLSTTSCFAPRSPDNVKEIAKICAEYDVPHLVNGAYGI 196 Query: 185 --------------AGRIPLSIEEIKADFLIISSHK 206 GR+ ++ + +F++ Sbjct: 197 QSEETIRLIAAAHECGRVDAVVQSLDKNFIVPVGGA 232 >gnl|CDD|180248 PRK05769, PRK05769, 4-aminobutyrate aminotransferase; Provisional. Length = 441 Score = 31.4 bits (72), Expect = 0.37 Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 30/120 (25%) Query: 149 AVMF--VNNETGVIQP----IKEIAQIVKEYQGILVVDAVQAA----GRIPLSIEE--IK 196 A++ + E G + P KE+ ++ +Y +L+ D VQ G++ +IE ++ Sbjct: 224 AIIVEPIQGEGGYVVPPKNFFKELRKLADKYGILLIDDEVQTGMGRTGKM-FAIEHFGVE 282 Query: 197 ADFLIISSHK-LGAPVGAGALVFREDILLPSPLLRGGDQEKGQRAGTENYAVIGGFAVAA 255 D II+ K + + GA++ R +++ G A T GG VAA Sbjct: 283 PD--IITLAKAIAGGLPLGAVIGRAELM---------FLPPGSHANT-----FGGNPVAA 326 >gnl|CDD|162223 TIGR01141, hisC, histidinol-phosphate aminotransferase. Histidinol-phosphate aminotransferase is a pyridoxal-phosphate dependent enzyme. Length = 346 Score = 31.5 bits (72), Expect = 0.40 Identities = 30/122 (24%), Positives = 49/122 (40%), Gaps = 25/122 (20%) Query: 252 AVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLIPNIIIYGKDAERISNTCCFSIPFLKAE 311 A+AA + I+K + A R+ L LKK +P + +Y DA N P Sbjct: 249 AIAALRDDDFIEKTVEEINAERERLYDGLKK-LPGLEVYPSDA----NFVLIRFPRDADA 303 Query: 312 VLQIALDLEGIAVSAGSACSSGKIKKNHVLAAMGFDTSQGAVRVSCGDSTTQEDIDIFLN 371 + + L+ +GI V + + +R++ G T+E+ D FL Sbjct: 304 LFEALLE-KGIIVRDLN----------------SYPGLPNCLRITVG---TREENDRFLA 343 Query: 372 AL 373 AL Sbjct: 344 AL 345 >gnl|CDD|181401 PRK08360, PRK08360, 4-aminobutyrate aminotransferase; Provisional. Length = 443 Score = 31.3 bits (71), Expect = 0.40 Identities = 30/96 (31%), Positives = 49/96 (51%), Gaps = 19/96 (19%) Query: 148 IAVMF---VNNETGVIQP----IKEIAQIVKEYQGILVVDAVQAA-GRIP--LSIEEIKA 197 +A +F + + G+I P K++ +I+ E+ +LVVD VQ+ GR +IE Sbjct: 205 VAALFAEPIQGDAGMIVPPEDYFKKLKKILDEHGILLVVDEVQSGLGRTGKWFAIEHFGV 264 Query: 198 DFLIISSHKLGAPVGAG----ALVFREDIL--LPSP 227 + II+ LG P+G G A + R +I+ LP Sbjct: 265 EPDIIT---LGKPLGGGLPISATIGRAEIMDSLPPL 297 >gnl|CDD|179636 PRK03715, argD, acetylornithine transaminase protein; Provisional. Length = 395 Score = 30.8 bits (70), Expect = 0.55 Identities = 41/160 (25%), Positives = 67/160 (41%), Gaps = 47/160 (29%) Query: 148 IAVMF--VNNETGVIQPIKEIAQ----IVKEYQGILVVDAVQAA-GR----IPLSIEEIK 196 +AVM V E GVI +E Q + K++ +L+VD VQ GR + I+ Sbjct: 181 VAVMLEPVQGEGGVIPATREFMQQLRALTKQHGLLLIVDEVQTGCGRTGTLFAYELSGIE 240 Query: 197 ADFLIISSHKLGAPVGAG----ALVFREDILLPSPLLRGGDQEKGQRAGTEN-------- 244 D + LG +G G AL+ + ++ + GDQ GT N Sbjct: 241 PDIM-----TLGKGIGGGVPLAALLAKAEVAVFEA----GDQ-----GGTYNGNPLMTAV 286 Query: 245 -YAVIGGFAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKL 283 AVI + A ++ ++ R +YL+++L +L Sbjct: 287 GVAVIS--QLLAPGFLEGVRARG-------EYLKEKLLEL 317 >gnl|CDD|179033 PRK00451, PRK00451, glycine dehydrogenase subunit 1; Validated. Length = 447 Score = 30.5 bits (70), Expect = 0.74 Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 9/71 (12%) Query: 110 HFPSHKIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVN-NETGVIQPIKEIAQ 168 ++ ++P G+ D++AL ++ + AV+ N GVI+ ++EIA+ Sbjct: 176 KGQGIEVVEVPYED-GVTDLEALEAAVDDDTA-------AVVVQYPNFFGVIEDLEEIAE 227 Query: 169 IVKEYQGILVV 179 I + +V Sbjct: 228 IAHAGGALFIV 238 >gnl|CDD|179505 PRK02936, argD, acetylornithine aminotransferase; Provisional. Length = 377 Score = 30.3 bits (69), Expect = 0.83 Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 14/78 (17%) Query: 149 AVMF--VNNETGVIQPI-----KEIAQIVKEYQGILVVDAVQAA-GRI--PLSIEEIKAD 198 AVM V E GVI P +E+ + K++ +L++D VQ GR + E+ D Sbjct: 170 AVMLEVVQGEGGVI-PADPAFLQEVQTLCKKFGALLIIDEVQTGIGRTGTLFAYEQFGLD 228 Query: 199 FLIISSHKL---GAPVGA 213 I++ K G PVGA Sbjct: 229 PDIVTVAKGLGNGIPVGA 246 >gnl|CDD|179558 PRK03317, PRK03317, histidinol-phosphate aminotransferase; Provisional. Length = 368 Score = 29.8 bits (68), Expect = 1.1 Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 3/35 (8%) Query: 149 AVMFV---NNETGVIQPIKEIAQIVKEYQGILVVD 180 V+F+ NN TG P+ ++ I+ GI+VVD Sbjct: 162 DVVFLTSPNNPTGTALPLDDVEAILDAAPGIVVVD 196 >gnl|CDD|180866 PRK07179, PRK07179, hypothetical protein; Provisional. Length = 407 Score = 30.0 bits (68), Expect = 1.2 Identities = 14/33 (42%), Positives = 20/33 (60%) Query: 148 IAVMFVNNETGVIQPIKEIAQIVKEYQGILVVD 180 I V V + TG I P+ +I I +E+ +LVVD Sbjct: 185 IVVDSVYSTTGTIAPLADIVDIAEEFGCVLVVD 217 >gnl|CDD|185461 PTZ00125, PTZ00125, ornithine aminotransferase-like protein; Provisional. Length = 400 Score = 29.6 bits (67), Expect = 1.2 Identities = 41/184 (22%), Positives = 75/184 (40%), Gaps = 47/184 (25%) Query: 128 DIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQP----IKEIAQIVKEYQGILVVDAVQ 183 D++AL L+ N V + E GVI P +K++ ++ K+Y +L+VD +Q Sbjct: 166 DVEALEKLLQDPN-VAAF---IVEPIQGEAGVIVPDDGYLKQVYELCKKYNVLLIVDEIQ 221 Query: 184 AA----GRIPLSI--EEIKADFLIISSHKLGAPVGAGALVFREDILLPSPLLRGGDQ--- 234 G++ L+ E +K D ++ LG + G L P + D Sbjct: 222 TGLGRTGKL-LAHDHEGVKPDIVL-----LGKALSGG--------LYPISAVLANDDVML 267 Query: 235 --EKGQRAGTENYAVIGG------FAVAAQQMVKDIQKRSSRVFAIRDYLEQELKKLI-- 284 + G+ T GG AV A +++K+ +K + + + LK+L+ Sbjct: 268 VIKPGEHGST-----YGGNPLACAVAVEALEVLKE-EKLAENAQRLGEVFRDGLKELLKK 321 Query: 285 PNII 288 + Sbjct: 322 SPWV 325 >gnl|CDD|180748 PRK06918, PRK06918, 4-aminobutyrate aminotransferase; Reviewed. Length = 451 Score = 29.8 bits (67), Expect = 1.3 Identities = 31/108 (28%), Positives = 48/108 (44%), Gaps = 18/108 (16%) Query: 129 IQALTDFLEQRNSTCGIPMIA--VMF-VNNETGVIQP----IKEIAQIVKEYQGILVVDA 181 I+ +F S IA VM V E G I P ++E+ I E+ + V D Sbjct: 204 IEEFKNFF---ISEVAPETIAAVVMEPVQGEGGFIVPSKKFVQEVRNICSEHGILFVADE 260 Query: 182 VQAA----GRIPLSIE--EIKADFLIISSHKLGAPVGAGALVFREDIL 223 +Q G+ +IE ++ D LI S LGA V ++ R++I+ Sbjct: 261 IQTGFARTGKY-FAIEHFDVVPD-LITVSKSLGAGVPISGVIGRKEIM 306 >gnl|CDD|181651 PRK09105, PRK09105, putative aminotransferase; Provisional. Length = 370 Score = 29.6 bits (67), Expect = 1.3 Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 8/68 (11%) Query: 115 KIHKIPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIV--KE 172 + K+P+ + G D++A+ + G +I + NN TG + P +I ++ K Sbjct: 142 PVAKVPLRADGAHDVKAML----AADPNAG--LIYICNPNNPTGTVTPRADIEWLLANKP 195 Query: 173 YQGILVVD 180 +L+VD Sbjct: 196 AGSVLLVD 203 >gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54; Provisional. Length = 437 Score = 29.4 bits (67), Expect = 1.4 Identities = 11/27 (40%), Positives = 18/27 (66%) Query: 155 NETGVIQPIKEIAQIVKEYQGILVVDA 181 E +I+ +KEI + VK + +LV+DA Sbjct: 189 LEEDLIEEMKEIKEAVKPDEVLLVIDA 215 >gnl|CDD|129937 TIGR00858, bioF, 8-amino-7-oxononanoate synthase. This model represents 8-amino-7-oxononanoate synthase, the BioF protein of biotin biosynthesis. This model is based on a careful phylogenetic analysis to separate members of this family from 2-amino-3-ketobutyrate and other related pyridoxal phosphate-dependent enzymes. In several species, including Staphylococcus and Coxiella, a candidate 8-amino-7-oxononanoate synthase is confirmed by location in the midst of a biotin biosynthesis operon but scores below the trusted cutoff of this model. Length = 360 Score = 28.8 bits (65), Expect = 2.5 Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 1/59 (1%) Query: 128 DIQALTDFLEQRNSTCGIPMIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQAAG 186 D++ L LE+ +I V + G I P+ ++ + + Y L+VD G Sbjct: 131 DVEHLERLLEKNRGE-RRKLIVTDGVFSMDGDIAPLPQLVALAERYGAWLMVDDAHGTG 188 >gnl|CDD|179178 PRK00950, PRK00950, histidinol-phosphate aminotransferase; Validated. Length = 361 Score = 28.7 bits (65), Expect = 2.8 Identities = 9/27 (33%), Positives = 17/27 (62%) Query: 154 NNETGVIQPIKEIAQIVKEYQGILVVD 180 NN TG + P ++I +I++ ++ VD Sbjct: 168 NNPTGNLIPEEDIRKILESTDALVFVD 194 >gnl|CDD|180327 PRK05958, PRK05958, 8-amino-7-oxononanoate synthase; Reviewed. Length = 385 Score = 28.2 bits (64), Expect = 4.1 Identities = 13/58 (22%), Positives = 24/58 (41%), Gaps = 12/58 (20%) Query: 128 DIQALTDFLEQRNSTCGIPMIAVMFVNNET-----GVIQPIKEIAQIVKEYQGILVVD 180 D+ AL L + G +I E+ G + P+ E+ + + + L+VD Sbjct: 154 DVDALEALLAKW--RAGRALIVT-----ESVFSMDGDLAPLAELVALARRHGAWLLVD 204 >gnl|CDD|162547 TIGR01821, 5aminolev_synth, 5-aminolevulinic acid synthase. This model represents 5-aminolevulinic acid synthase, an enzyme for one of two routes to the heme precursor 5-aminolevulinate. The protein is a pyridoxal phosphate-dependent enzyme related to 2-amino-3-ketobutyrate CoA tranferase and 8-amino-7-oxononanoate synthase. This enzyme appears restricted to the alpha Proteobacteria and mitochondrial derivatives. Length = 402 Score = 27.8 bits (62), Expect = 5.1 Identities = 14/40 (35%), Positives = 21/40 (52%) Query: 147 MIAVMFVNNETGVIQPIKEIAQIVKEYQGILVVDAVQAAG 186 +IA V + G I PI+EI + +Y + +D V A G Sbjct: 180 IIAFESVYSMDGDIAPIEEICDLADKYGALTYLDEVHAVG 219 >gnl|CDD|129792 TIGR00709, dat, 2,4-diaminobutyrate 4-transaminases. This family consists of L-diaminobutyric acid transaminases. This general designation covers both 2.6.1.76 (diaminobutyrate-2-oxoglutarate transaminase, which uses glutamate as the amino donor in DABA biosynthesis), and 2.6.1.46 (diaminobutyrate--pyruvate transaminase, which uses alanine as the amino donor). Most members with known function are 2.6.1.76, and at least some annotations as 2.6.1.46 in current databases at time of model revision are incorrect. A distinct branch of this family contains examples of 2.6.1.76 nearly all of which are involved in ectoine biosynthesis. A related enzyme is 4-aminobutyrate aminotransferase (EC 2.6.1.19), also called GABA transaminase. These enzymes all are pyridoxal phosphate-containing class III aminotransferase. Length = 442 Score = 27.6 bits (61), Expect = 5.8 Identities = 35/170 (20%), Positives = 70/170 (41%), Gaps = 31/170 (18%) Query: 129 IQALTDFLEQRNSTCGIPMIAVM-FVNNETGV----IQPIKEIAQIVKEYQGILVVDAVQ 183 I+ +F+E S P ++ + E GV + +++I ++ +++ L++D VQ Sbjct: 190 IEYFENFIEDVESGVDKPAAVILEAIQGEGGVVAAPSEWLQKIREVTRKHDIKLILDEVQ 249 Query: 184 A----AGRIPLSIEE--IKADFLIISSHKLGAPVGAGALVFRE-DILLPSPLLRGGDQEK 236 A +G + + E I+ DF+++S G A L+ E D P Sbjct: 250 AGFGRSGTM-FAFEHAGIEPDFVVMSKAVGGGLPLAVLLIAPEFDAWQP----------- 297 Query: 237 GQRAGT---ENYAVIGGFAV----AAQQMVKDIQKRSSRVFAIRDYLEQE 279 GT A++ G + ++ Q+R R+ + D + +E Sbjct: 298 AGHTGTFRGNQLAMVTGTEALNYWKDDNLAQNAQERGERITSFLDDMIKE 347 >gnl|CDD|180469 PRK06207, PRK06207, aspartate aminotransferase; Provisional. Length = 405 Score = 27.4 bits (61), Expect = 6.0 Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 3/30 (10%) Query: 154 NNETGVIQPIKEIAQI---VKEYQGILVVD 180 NN GV+ +EIAQI + Y ++VD Sbjct: 188 NNPAGVVYSAEEIAQIAALARRYGATVIVD 217 >gnl|CDD|179533 PRK03080, PRK03080, phosphoserine aminotransferase; Provisional. Length = 378 Score = 27.5 bits (62), Expect = 6.4 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 4/48 (8%) Query: 150 VMFVNNET--GVIQPIKEIAQIVKEYQGILVVDAVQAAGRIPLSIEEI 195 V+F N T GV P+ I + +G+ + DA AA +PL ++ Sbjct: 140 VVFTWNGTTTGVRVPVARW--IGADREGLTICDATSAAFALPLDWSKL 185 >gnl|CDD|177597 PHA03359, PHA03359, UL17 tegument protein; Provisional. Length = 686 Score = 27.3 bits (61), Expect = 7.4 Identities = 22/99 (22%), Positives = 32/99 (32%), Gaps = 19/99 (19%) Query: 283 LIPNIIIYGKDAERISNTCC------FSIPFLKAEVLQIALDLE------GIAVSAGSAC 330 L+P Y D R++ C S L + A LE G + Sbjct: 154 LVPPGTRYNADGPRLAALCRQFCAYVRSHAALPPAAKEAAAHLEACLGEDGRSNGDPVLS 213 Query: 331 SSGKIKKNHVLAAMG-FDTSQGAVRVSCGDSTTQEDIDI 368 + I L A G FDT R+ ++D +I Sbjct: 214 ADAYIDPEEQLTAPGGFDTPAADARI------EEDDREI 246 >gnl|CDD|179838 PRK04366, PRK04366, glycine dehydrogenase subunit 2; Validated. Length = 481 Score = 27.0 bits (61), Expect = 7.9 Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 9/64 (14%) Query: 119 IPVLSKGIVDIQALTDFLEQRNSTCGIPMIAVMFVN-NETGVIQP-IKEIAQIVKEYQGI 176 IP G+VD++AL + + T + M N N G+ + I EIA+IV E G+ Sbjct: 188 IPSNEDGLVDLEALKAAVGED--TAAL-----MLTNPNTLGLFERNILEIAEIVHEAGGL 240 Query: 177 LVVD 180 L D Sbjct: 241 LYYD 244 >gnl|CDD|183994 PRK13355, PRK13355, bifunctional HTH-domain containing protein/aminotransferase; Provisional. Length = 517 Score = 27.0 bits (60), Expect = 8.0 Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 3/36 (8%) Query: 148 IAVMFVNNETGVIQP---IKEIAQIVKEYQGILVVD 180 I ++ NN TG + P +++I I +E+Q I+ D Sbjct: 285 IVIINPNNPTGALYPREVLQQIVDIAREHQLIIFSD 320 >gnl|CDD|182526 PRK10533, PRK10533, putative lipoprotein; Provisional. Length = 171 Score = 27.0 bits (60), Expect = 8.2 Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 4/49 (8%) Query: 237 GQRAGTENYAVIGGFAVAAQQMVK-DIQKRSSRVFAIRDYLEQELKKLI 284 G R+G V GG AQQ IQ RS+ + A+R YL +L L+ Sbjct: 30 GSRSGP---CVEGGPDSVAQQFYDYRIQHRSNDIAALRPYLSDKLATLL 75 >gnl|CDD|118329 pfam09798, LCD1, DNA damage checkpoint protein. This is a family of proteins which regulate checkpoint kinases. In Schizosaccharomyces pombe this protein is called Rad26 and in Saccharomyces cerevisiae it is called LCD1. Length = 648 Score = 26.7 bits (59), Expect = 9.4 Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 7/42 (16%) Query: 274 DYLEQELKKLIPNIIIYGKDAERISNTCCFSIPFLKAEVLQI 315 D + + L LI +II+ K+ S+PFL A + Q Sbjct: 187 DTVLEALADLIKSIIVLPKE-------LKLSVPFLVALMHQT 221 >gnl|CDD|151679 pfam11237, DUF3038, Protein of unknown function (DUF3038). This family of proteins with unknown function appear to be restricted to Cyanobacteria. Length = 171 Score = 26.8 bits (60), Expect = 9.8 Identities = 9/22 (40%), Positives = 14/22 (63%) Query: 183 QAAGRIPLSIEEIKADFLIISS 204 ++ R PL++EE +A LII Sbjct: 57 RSTRRGPLTVEEARALVLIICY 78 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 0.321 0.136 0.391 Gapped Lambda K H 0.267 0.0710 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,319,534 Number of extensions: 420987 Number of successful extensions: 1080 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1019 Number of HSP's successfully gapped: 77 Length of query: 383 Length of database: 5,994,473 Length adjustment: 95 Effective length of query: 288 Effective length of database: 3,941,713 Effective search space: 1135213344 Effective search space used: 1135213344 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: 58 (26.2 bits)