RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781062|ref|YP_003065475.1| putative aminotransferase involved in iron-sulfur cluster biogenesis [Candidatus Liberibacter asiaticus str. psy62] (406 letters) >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 = 573 bits (1479), Expect = e-164 Identities = 202/401 (50%), Positives = 285/401 (71%), Gaps = 2/401 (0%) Query: 8 IRKDFPILGRDIRKKPLIYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTD 67 IR DFPIL R I KPL+Y D+AA++QKPQ VID++ Y + AN+HRG+H ++ T+ Sbjct: 3 IRADFPILKRKINGKPLVYLDSAATSQKPQQVIDAVAEYYRNSNANVHRGIHTLSVRATE 62 Query: 68 KYEKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNI 127 YE R+KV +FINA+S +EI+FTR TESINLV+Y WG ++ GDEIV+S MEHH+NI Sbjct: 63 AYEAVREKVAKFINAASDEEIVFTRGTTESINLVAYSWGDSNLKAGDEIVISEMEHHANI 122 Query: 128 IPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEIC 187 +PW L +R GA+L ++P+D+ G +D+ + LTE+TKL+AITH+SNVLGTV P++EI Sbjct: 123 VPWQLLAERTGATLKFIPLDDDGTLDLDDLEKLLTEKTKLVAITHVSNVLGTVNPVEEIA 182 Query: 188 RIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMD 247 ++AH+ VLVDG+Q H VDVQ +DCD+Y+ +GHK+YGP+GIG LY KE L +M Sbjct: 183 KLAHQVGAKVLVDGAQAVPHMPVDVQALDCDFYVFSGHKMYGPTGIGVLYGKEELLEQMP 242 Query: 248 PFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERE 307 PF+GG EMIA+V+ + TY + P++FE GTP I+ I LG A+DY+E I ++I ++E E Sbjct: 243 PFLGGGEMIAEVSFEETTYNEAPHKFEAGTPNIAGVIGLGAAIDYLEAIGLENIEAHEHE 302 Query: 308 LARYVRSRLKEVRGMQLV--NESLEDSPIISFRLGNIHPYDLALFLDGEGIAIRAGTHCA 365 L Y RL E+ G+++ ++ + IISF + +HP+D+ LD EGIA+R+G HCA Sbjct: 303 LTAYALERLGEIPGLRIYGPRDAEDRGGIISFNVEGVHPHDVGTILDEEGIAVRSGHHCA 362 Query: 366 NPLLKFLGIDSLCRASLAMYNTYEEADKFIETLKKSIQFFQ 406 PL++ G+ + CRAS +YNT E+ D +E LKK +FF Sbjct: 363 QPLMRRFGVPATCRASFYIYNTEEDIDALVEALKKVRKFFG 403 >gnl|CDD|178446 PLN02855, PLN02855, Bifunctional selenocysteine lyase/cysteine desulfurase. Length = 424 Score = 461 bits (1187), Expect = e-130 Identities = 186/403 (46%), Positives = 261/403 (64%), Gaps = 5/403 (1%) Query: 8 IRKDFPILGRDIRKKPLIYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTD 67 R DFPIL + + L+Y DNAA++QKP V+D++ Y +N+HRG+H ++ TD Sbjct: 17 TRPDFPILDQTVNGSKLVYLDNAATSQKPAAVLDALQDYYEEYNSNVHRGIHALSAKATD 76 Query: 68 KYEKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNI 127 YE AR KV FINAS+ +EI+FTR+ATE+INLV+Y WG ++ GDE++LSV EHHSNI Sbjct: 77 AYELARKKVAAFINASTSREIVFTRNATEAINLVAYTWGLANLKPGDEVILSVAEHHSNI 136 Query: 128 IPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEIC 187 +PW + Q+ GA L +V + +++ K L+E+TKL+A H+SNVLG+++P+++I Sbjct: 137 VPWQLVAQKTGAVLKFVGLTPDEVLDVEQLKELLSEKTKLVATHHVSNVLGSILPVEDIV 196 Query: 188 RIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMD 247 AH VLVD Q H VDVQ + D+ + + HK+ GP+GIG L+ K L M Sbjct: 197 HWAHAVGAKVLVDACQSVPHMPVDVQTLGADFLVASSHKMCGPTGIGFLWGKSDLLESMP 256 Query: 248 PFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERE 307 PF+GG EMI+DV D TYA P RFE GTP I +AI LG A+DY+ +I I YE E Sbjct: 257 PFLGGGEMISDVFLDHSTYAPPPSRFEAGTPAIGEAIGLGAAIDYLSEIGMDRIHEYEVE 316 Query: 308 LARYVRSRLKEVRGMQL----VNESLEDSPIISFRLGNIHPYDLALFLDGE-GIAIRAGT 362 L Y+ +L V G+++ +E + + + +F + IHP DL+ FLD + G+AIR+G Sbjct: 317 LGTYLYEKLSSVPGVRIYGPKPSEGVGRAALCAFNVEGIHPTDLSTFLDQQHGVAIRSGH 376 Query: 363 HCANPLLKFLGIDSLCRASLAMYNTYEEADKFIETLKKSIQFF 405 HCA PL ++LG+++ RASL YNT EE D FI LK +I FF Sbjct: 377 HCAQPLHRYLGVNASARASLYFYNTKEEVDAFIHALKDTIAFF 419 >gnl|CDD|181766 PRK09295, PRK09295, bifunctional cysteine desulfurase/selenocysteine lyase; Validated. Length = 406 Score = 452 bits (1164), Expect = e-128 Identities = 187/401 (46%), Positives = 256/401 (63%), Gaps = 2/401 (0%) Query: 1 MTFDINSIRKDFPILGRDIRKKPLIYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHY 60 MTF + +R DFP+L R++ PL Y D+AASAQKP VID+ Y H YA +HRG+H Sbjct: 1 MTFSVEKVRADFPVLSREVNGLPLAYLDSAASAQKPSQVIDAEAEFYRHGYAAVHRGIHT 60 Query: 61 MANAVTDKYEKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSV 120 ++ T+K E R + FINA S +E++F R TE INLV+ WG ++ GD I++S Sbjct: 61 LSAQATEKMENVRKQAALFINARSAEELVFVRGTTEGINLVANSWGNSNVRAGDNIIISE 120 Query: 121 MEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTV 180 MEHH+NI+PW L R GA L +P++ G ++ ERT+L+AITH+SNVLGT Sbjct: 121 MEHHANIVPWQMLCARVGAELRVIPLNPDGTLQLETLPALFDERTRLLAITHVSNVLGTE 180 Query: 181 IPIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKE 240 P+ E+ +AH+ VLVDG+Q +H+ VDVQ +DCD+Y+ +GHKLYGP+GIG LY KE Sbjct: 181 NPLAEMIALAHQHGAKVLVDGAQAVMHHPVDVQALDCDFYVFSGHKLYGPTGIGILYVKE 240 Query: 241 SRLNEMDPFMGGSEMIADVT-QDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRK 299 + L EM P+ GG MIA V+ + T+A P+RFE GTP I LG ALDYV + Sbjct: 241 ALLQEMPPWEGGGSMIATVSLTEGTTWAKAPWRFEAGTPNTGGIIGLGAALDYVSALGLN 300 Query: 300 SIFSYERELARYVRSRLKEVRGMQLVNESLEDSPIISFRLGNIHPYDLALFLDGEGIAIR 359 +I YE+ L Y S+L+ V + L +I+F LG H YD+ FLD GIA+R Sbjct: 301 NIAEYEQNLMHYALSQLESVPDLTLYGPQ-NRLGVIAFNLGKHHAYDVGSFLDNYGIAVR 359 Query: 360 AGTHCANPLLKFLGIDSLCRASLAMYNTYEEADKFIETLKK 400 G HCA PL+ + + ++CRASLAMYNT+EE D+ + L++ Sbjct: 360 TGHHCAMPLMAYYNVPAMCRASLAMYNTHEEVDRLVAGLQR 400 >gnl|CDD|182799 PRK10874, PRK10874, cysteine sulfinate desulfinase; Provisional. Length = 401 Score = 368 bits (948), Expect = e-103 Identities = 152/406 (37%), Positives = 227/406 (55%), Gaps = 7/406 (1%) Query: 1 MTFDINSIRKDFPILGRDIRKKPLIYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHY 60 F+ R FP L +Y D+AA+A KPQ VI++ YS N+HR Sbjct: 2 NVFNPAQFRAQFPALQ-----DAGVYLDSAATALKPQAVIEATQQFYSLSAGNVHRSQFA 56 Query: 61 MANAVTDKYEKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSV 120 A +T +YE AR++V + +NA K I++TR TESINLV+ + + GDEI++S Sbjct: 57 AAQRLTARYEAAREQVAQLLNAPDAKNIVWTRGTTESINLVAQSYARPRLQPGDEIIVSE 116 Query: 121 MEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTV 180 EHH+N++PW + Q+ GA +V +P+ +D +T RT+++A+ MSNV G Sbjct: 117 AEHHANLVPWLMVAQQTGAKVVKLPLGADRLPDVDLLPELITPRTRILALGQMSNVTGGC 176 Query: 181 IPIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKE 240 + +AH+ + V+VDG+QG+VH DVQ +D D+Y +GHKLYGP+GIG LY K Sbjct: 177 PDLARAITLAHQAGMVVMVDGAQGAVHFPADVQALDIDFYAFSGHKLYGPTGIGVLYGKS 236 Query: 241 SRLNEMDPFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKS 300 L M P+ GG +M+ +V+ D T P+RFE GTP ++ I L AL+++ ID Sbjct: 237 ELLEAMSPWQGGGKMLTEVSFDGFTPQSAPWRFEAGTPNVAGVIGLSAALEWLADIDINQ 296 Query: 301 IFSYERELARYVRSRLKEVRGMQLVNESLEDSPIISFRLGNIHPYDLALFLDGEGIAIRA 360 S+ R LA L ++ G + + +DS +++F +H DL L GIA+RA Sbjct: 297 AESWSRSLATLAEDALAKLPGFR--SFRCQDSSLLAFDFAGVHHSDLVTLLAEYGIALRA 354 Query: 361 GTHCANPLLKFLGIDSLCRASLAMYNTYEEADKFIETLKKSIQFFQ 406 G HCA PLL LG+ RAS A YNT + D + + ++++ Sbjct: 355 GQHCAQPLLAALGVTGTLRASFAPYNTQSDVDALVNAVDRALELLV 400 >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 = 350 bits (899), Expect = 4e-97 Identities = 154/404 (38%), Positives = 228/404 (56%), Gaps = 7/404 (1%) Query: 3 FDINSIRKDFPILGRDIRKKPLIYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMA 62 F+ R+ FP L + +Y D+AA+A KPQ VID+ Y +HR H A Sbjct: 1 FNPAQFRQQFPAL-----QDGTVYLDSAATALKPQAVIDATQQFYRLSSGTVHRSQHQQA 55 Query: 63 NAVTDKYEKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVME 122 ++T +YE AR +V RF+NA + I++TR TESINLV+ + + GDEI++S E Sbjct: 56 QSLTARYELARQQVARFLNAPDAENIVWTRGTTESINLVAQSYARPRLQPGDEIIVSEAE 115 Query: 123 HHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIP 182 HH+N+IPW + Q+ GA +V +PI I + LT RT+++A+ MSNV G Sbjct: 116 HHANLIPWLMVAQQTGAKVVKLPIGADLLPDIRQLPELLTPRTRILALGQMSNVTGGCPD 175 Query: 183 IKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESR 242 + +AH+ V+VDG+QG VH DVQ +D D+Y +GHKLYGP+GIG LY K Sbjct: 176 LARAITLAHQYGAVVVVDGAQGVVHGPPDVQALDIDFYAFSGHKLYGPTGIGVLYGKTEL 235 Query: 243 LNEMDPFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIF 302 L M P+ GG +M++ V+ D +P+RFE GTP I+ I L AL+++ ID + Sbjct: 236 LEAMPPWQGGGKMLSHVSFDGFIPQAVPHRFEAGTPNIAGVIGLSAALEWLTDIDIAAAE 295 Query: 303 SYERELARYVRSRLKEVRGMQLVNESLEDSPIISFRLGNIHPYDLALFLDGEGIAIRAGT 362 ++ LA RL ++ G + + S +++F +H DLA L GIA+RAG Sbjct: 296 AWSVSLADLAEERLAQLPGFR--SFRCPGSSLLAFDFAGVHHSDLAALLAESGIALRAGQ 353 Query: 363 HCANPLLKFLGIDSLCRASLAMYNTYEEADKFIETLKKSIQFFQ 406 HCA PL+ LG+ RAS A YNT ++ D ++ + +++ Sbjct: 354 HCAQPLMAALGVSGTLRASFAPYNTQQDVDALVDAVGAALELLN 397 >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 = 232 bits (594), Expect = 1e-61 Identities = 120/388 (30%), Positives = 194/388 (50%), Gaps = 27/388 (6%) Query: 25 IYFDNAASA-QKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINAS 83 IYFDNAA+ KP +V +++ Y + + RG + +A + + E+ R + + NA Sbjct: 1 IYFDNAATTYPKPDEVYEAMADFYKNYGGSPGRGRYRLALRASREVEETRQLLAKLFNAP 60 Query: 84 SVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLVW 143 S ++FT +AT ++N+ G + GD ++ + MEH+S P L+++ G + Sbjct: 61 SSAHVVFTNNATTALNIALKG----LLKEGDHVITTPMEHNSVARPLECLKEQIGVEITI 116 Query: 144 VPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQ 203 V DN+G + K + TKLI ++H SNV GT++PI+EI +A E I ++D +Q Sbjct: 117 VKCDNEGLISPERIKRAIKTNTKLIVVSHASNVTGTILPIEEIGELAQENGIFFILDAAQ 176 Query: 204 GSVHNFVDVQDIDCDWYIITGHK-LYGPSGIGGLYSKESRLNEMDPFMGG-----SEMIA 257 + +D+ ++ D TGHK L GP G GGLY +E ++ P G S +I Sbjct: 177 TAGVIPIDMTELAIDMLAFTGHKGLLGPQGTGGLYIREGI--KLKPLKSGGTGSHSALI- 233 Query: 258 DVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSRLK 317 D ++ P RFE GT L + ++EKI +I E L + + L+ Sbjct: 234 DQPSEL------PDRFESGTLNTPGIAGLNAGIKFIEKIGIANIAKKECMLTEKLLNGLR 287 Query: 318 EVRGMQLV--NESLEDSPIISFRLGNIHPYDLALFLDGE-GIAIRAGTHCANPLL-KFLG 373 E+ +++ + ++SF + I ++A LD + IA R G HCA PL K +G Sbjct: 288 EINKVKIYGPADPANRVGVVSFTVEGIDSEEVADILDEKFDIATRTGLHCA-PLAHKTIG 346 Query: 374 I--DSLCRASLAMYNTYEEADKFIETLK 399 R SL +NT EE +K +E L Sbjct: 347 TFATGTIRLSLGYFNTEEEIEKLLEALS 374 >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 = 209 bits (535), Expect = 7e-55 Identities = 123/417 (29%), Positives = 197/417 (47%), Gaps = 41/417 (9%) Query: 3 FDINSIRKDFPILGRDIRKKPLIYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMA 62 FD+ ++R FP L R ++FDN A Q PQ V D++ + AN RG Y + Sbjct: 1 FDVEAVRGQFPALADGDR----VFFDNPAGTQIPQSVADAVSAALTRSNAN--RGGAYES 54 Query: 63 NAVTDKY-EKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVM 121 + D+ + AR+ V +NA E++F +AT L+S R GDE++++ + Sbjct: 55 SRRADQVVDDAREAVADLLNADP-PEVVFGANATSLTFLLSRAIS-RRWGPGDEVIVTRL 112 Query: 122 EHHSNIIPWYFLRQRRGASLVWVPID-NQGFFHIDEFKNRLTERTKLIAITHMSNVLGTV 180 +H +NI PW +R GA + W +D G H D+ + L+ RT+L+A+T SN LG++ Sbjct: 113 DHEANISPWLQAAERAGAKVKWARVDEATGELHPDDLASLLSPRTRLVAVTAASNTLGSI 172 Query: 181 IPIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKE 240 + + I + H V+VD + H +DVQ D+ + +K +GP +G L+ + Sbjct: 173 VDLAAITELVHAAGALVVVDAVHYAPHGLIDVQATGADFLTCSAYKFFGPH-MGILWGRP 231 Query: 241 SRLNEMDPFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDR-- 298 L + P+ + +Y P RFE GTP + A+DY+ + Sbjct: 232 ELLMNLPPY-----------KLTFSYDTGPERFELGTPQYELLAGVVAAVDYLAGLGESA 280 Query: 299 ------------KSIFSYERELARYVRSRLKEVRGMQL--VNESLEDSPIISFRLGNIHP 344 ++I +YE LA Y+ L ++ G+ L V P +SF + + P Sbjct: 281 NGSRRERLVASFQAIDAYENRLAEYLLVGLSDLPGVTLYGVARLAARVPTVSFTVHGLPP 340 Query: 345 YDLALFLDGEGIAIRAGTHCANPLLKFLGI---DSLCRASLAMYNTYEEADKFIETL 398 + L +GI AG A LL+ LG+ + R LA YNT EE D+ +E L Sbjct: 341 QRVVRRLADQGIDAWAGHFYAVRLLRRLGLNDEGGVVRVGLAHYNTAEEVDRLLEAL 397 >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 = 149 bits (378), Expect = 1e-36 Identities = 104/401 (25%), Positives = 178/401 (44%), Gaps = 52/401 (12%) Query: 25 IYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINASS 84 IY DN A+ + +V+++++ ++ + N +H V E+AR++V + + A Sbjct: 1 IYLDNNATTRVDPEVLEAMLPYFTEYFGN-PSSMHSFGGEVGKAVEEAREQVAKLLGAEP 59 Query: 85 VKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLVWV 144 EIIFT TES N A I+ + +EH + + L +++G + ++ Sbjct: 60 -DEIIFTSGGTESDNTAIKSALAAQPEK-RHIITTAVEHPAVLSLCQHL-EKQGYKVTYL 116 Query: 145 PIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQG 204 P+D +G ++E + +T+ T L+++ +N GT+ PI+EI IA ER D Q Sbjct: 117 PVDEEGRLDLEELRAAITDDTALVSVMWANNETGTIFPIEEIGEIAKERGALFHTDAVQA 176 Query: 205 SVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDPFM--GGSEMIADVTQD 262 +D+++++ D ++GHKL+GP G+G LY ++ P + G E Sbjct: 177 VGKIPIDLKEMNIDMLSLSGHKLHGPKGVGALYIRKG--TRFRPLLRGGHQE-------- 226 Query: 263 MVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSRLK----- 317 GT + + LG A E E R +R RL+ Sbjct: 227 --------RGRRAGTENVPGIVGLGKA---AELATEH--LEEENTRVRALRDRLEAGLLA 273 Query: 318 ---EVRGMQLVNESLEDSPIISFRLGNIHPYDLALFLDGEGIAIRAGTHCAN----P--L 368 + R + L ++ ISF I + L LD EGI +G+ C + P + Sbjct: 274 RIPDARLNGDPTKRLPNTVNISFE--YIEGEAILLLLDMEGICASSGSACTSGSLEPSHV 331 Query: 369 LKFLGI------DSLCRASLAMYNTYEEADKFIETLKKSIQ 403 L+ +G+ S+ R SL+ YNT E+ D +E L I Sbjct: 332 LRAMGVPHTAAHGSI-RFSLSRYNTEEDIDYVLEVLPPIIA 371 >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 = 138 bits (348), Expect = 3e-33 Identities = 114/401 (28%), Positives = 179/401 (44%), Gaps = 49/401 (12%) Query: 25 IYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINASS 84 +Y DN A+ V + + + Y N + LH A +A DK+ + INA Sbjct: 1 VYLDNNATTMLDPKVKELMDPFFCDIYGNPN-SLHQFGTATHPAIAEALDKLYKGINARD 59 Query: 85 VKEIIFTRSATESINLVSYGWGARHISTGD--EIVLSVMEHHSNIIPWYFLRQRRGASLV 142 + +II T ATES N V G I G I+ + +EH + FL + G + Sbjct: 60 LDDIIITSCATESNNWVLKGVYFDEILKGGKNHIITTEVEHPAVRATCAFL-ESLGVEVT 118 Query: 143 WVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 ++PI+ QG ++ + +TE+T L+++ +N G + PIKEI I ER + D Sbjct: 119 YLPINEQGTITAEQVREAITEKTALVSVMWANNETGMIFPIKEIGEICKERGVLFHTDAV 178 Query: 203 QGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDP-FMGGSEMIADVTQ 261 Q VDVQ D+ + HK +GP G+GGLY ++ E+ P F GG M Sbjct: 179 QAIGKIPVDVQKAGVDFLSFSAHKFHGPKGVGGLYIRKGV--ELTPLFHGGEHMGGR--- 233 Query: 262 DMVTYADLPYRFEPGTPPISQAIALGVALDY-VEKIDRKSIFSYERELARYVRSRLK--- 317 GT + +A+G A+ E +D +E+ R +R RL+ Sbjct: 234 ------------RSGTLNVPYIVAMGEAMRLANEYLD------FEKSHVRRLRDRLEDAL 275 Query: 318 -EVRGMQLVNESLEDSP---IISFRLGNIHPYDLALFLDGEGIAIRAGTHCA------NP 367 E+ + +V + P +IS + + + L+ GIA G+ CA NP Sbjct: 276 LELPDVFVVGDREHRVPNTILISIK--GVEGEAMLWDLNKAGIAASTGSACASEDLEANP 333 Query: 368 LLKFLGID-----SLCRASLAMYNTYEEADKFIETLKKSIQ 403 ++ +G D + R SL+ + T EE D IE KK++Q Sbjct: 334 VMVAIGADKELAHTAIRLSLSRFTTEEEIDYTIEVFKKAVQ 374 >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 = 132 bits (334), Expect = 2e-31 Identities = 103/403 (25%), Positives = 179/403 (44%), Gaps = 57/403 (14%) Query: 25 IYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINASS 84 IY D AA+ V + +M + ++ N H + E AR++V I A S Sbjct: 5 IYLDYAATTPVDPRVAEKMMPYLTEKFGNPASRSHSFGWEAEEAVENARNQVAELIGADS 64 Query: 85 VKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLVWV 144 +EI+FT ATES NL G + S G+ I+ S EH + + +L +R G + ++ Sbjct: 65 -REIVFTSGATESNNLAIKGIAHFYKSKGNHIITSKTEHKAVLDTCRYL-EREGFEVTYL 122 Query: 145 PIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQG 204 P + G ++E K + + T L++I H++N +G + I I I ER + VD +Q Sbjct: 123 PPKSNGLIDLEELKAAIRDDTILVSIMHVNNEIGVIQDIAAIGEICRERKVFFHVDAAQS 182 Query: 205 SVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDPFM--GGSEMIADVTQD 262 ++V ++ D I+GHK+YGP GIG LY + ++ + GG E Sbjct: 183 VGKIPINVNELKVDLMSISGHKIYGPKGIGALYVRRKPRVRLEALIHGGGHER------- 235 Query: 263 MVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSR---LKEV 319 GT P Q + +G A +I ++ + ++ A + R L + Sbjct: 236 ---------GMRSGTLPTHQIVGMGEAF----RIAKEEM---AQDTAHVLALRDRLLNGI 279 Query: 320 RGMQLV--NESLEDSPIISFRLGNIHPYDLALFLDGEGI-------AIRAGTHCANP--- 367 + ++ V N LE R+ +++GE + A+ +G+ C + Sbjct: 280 KSIEEVYLNGDLEH------RVPGNLNVSFN-YVEGESLIMALKDLAVSSGSACTSASLE 332 Query: 368 ---LLKFLGID-----SLCRASLAMYNTYEEADKFIETLKKSI 402 +L+ LGI+ S R ++ + T EE D ++ +K +I Sbjct: 333 PSYVLRALGINDELAHSSIRFTIGRFTTEEEIDYAVKLVKSAI 375 >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 = 128 bits (324), Expect = 2e-30 Identities = 88/347 (25%), Positives = 153/347 (44%), Gaps = 29/347 (8%) Query: 26 YFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINASSV 85 Y D+ A+ V ++++ E+ N H + E+AR +V + A + Sbjct: 1 YLDHNATTPIDPAVAEAMLPWLLEEFGNPSSRTHEFGHNAKKAVERARKQVAEALGADT- 59 Query: 86 KEIIFTRSATESINLVSYGWGARHISTGDE-IVLSVMEHHSNIIPWYFLRQRRGASLVWV 144 +E+IFT ATES NL G G + I+ S +EH + + P L R G ++ ++ Sbjct: 60 EEVIFTSGATESNNLAILGLARAGEQKGKKHIITSAIEHPAVLEPIRALE-RNGFTVTYL 118 Query: 145 PIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQG 204 P+D G +DE + + T L++I H++N G++ PI+EI + VD +Q Sbjct: 119 PVDESGRIDVDELADAIRPDTLLVSIMHVNNETGSIQPIREIAEVLEAHEAFFHVDAAQV 178 Query: 205 SVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDP-----FMGGSEMIADV 259 VD+ D +GHK+YGP GIG L + R P F GG E Sbjct: 179 VGKITVDLSADRIDLISCSGHKIYGPKGIGALVIR-KRGKPKAPLKPIMFGGGQER---- 233 Query: 260 TQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSRLKEV 319 PGT P+ + +G A + + + ++ R + +R L+ + Sbjct: 234 ------------GLRPGTLPVHLIVGMGEAAEIARR-NAQAWEVKLRAMRNQLRDALQTL 280 Query: 320 RGMQLVNESLEDSP-IISFRLGNIHPYDLALFLDGEGIAIRAGTHCA 365 ++L + E P I++F + ++ L + L + A+ G+ C+ Sbjct: 281 G-VKLNGDPAETIPHILNFSIDGVNSEALIVNLRAD-AAVSTGSACS 325 >gnl|CDD|178257 PLN02651, PLN02651, cysteine desulfurase. Length = 364 Score = 127 bits (321), Expect = 5e-30 Identities = 102/395 (25%), Positives = 166/395 (42%), Gaps = 58/395 (14%) Query: 25 IYFD-NAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINAS 83 +Y D A + P+ V+D+++ + N H H D EKAR +V I A Sbjct: 1 LYLDMQATTPIDPR-VLDAMLPFLIEHFGNPHSRTHLYGWESEDAVEKARAQVAALIGAD 59 Query: 84 SVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLVW 143 KEIIFT ATES NL G + V++ H ++ Q+ G + + Sbjct: 60 P-KEIIFTSGATESNNLAIKG-VMHFYKDKKKHVITTQTEHKCVLDSCRHLQQEGFEVTY 117 Query: 144 VPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQ 203 +P+ + G +DE + T L+++ ++N +G + P++EI + E+ + D +Q Sbjct: 118 LPVKSDGLVDLDELAAAIRPDTALVSVMAVNNEIGVIQPVEEIGELCREKKVLFHTDAAQ 177 Query: 204 --GSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDPFM--GGSEMIADV 259 G + VDV D+ D I+GHK+YGP G+G LY + ++P M GG E Sbjct: 178 AVGKIP--VDVDDLGVDLMSISGHKIYGPKGVGALYVRRRPRVRLEPLMSGGGQE----- 230 Query: 260 TQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEK---IDRKSIFSYERELARYVRSRL 316 GT + LG A + K D K + + L +R++L Sbjct: 231 -----------RGRRSGTENTPLVVGLGAACELAMKEMDYDEKHMKALRERLLNGLRAKL 279 Query: 317 KEVRGMQLVNESLEDSPIISFRLGNIHPYDLALFLDGE-------GIAIRAGTHCANP-- 367 VR VN + R A +++GE +A+ +G+ C + Sbjct: 280 GGVR----VNGPRDPEK----RYPGTLNLSFA-YVEGESLLMGLKEVAVSSGSACTSASL 330 Query: 368 ----LLKFLGID------SLCRASLAMYNTYEEAD 392 +L+ LG+ SL R + + T EE D Sbjct: 331 EPSYVLRALGVPEEMAHGSL-RLGVGRFTTEEEVD 364 >gnl|CDD|184450 PRK14012, PRK14012, cysteine desulfurase; Provisional. Length = 404 Score = 124 bits (314), Expect = 3e-29 Identities = 107/408 (26%), Positives = 181/408 (44%), Gaps = 65/408 (15%) Query: 25 IYFDNAASAQKPQDVIDSIM--CTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINA 82 IY D +A+ V + +M T + N H + + AR+++ I A Sbjct: 5 IYLDYSATTPVDPRVAEKMMPYLTMDGTFGNPASRSHRFGWQAEEAVDIARNQIADLIGA 64 Query: 83 SSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLV 142 +EI+FT ATES NL G + G I+ S EH + + L +R G + Sbjct: 65 DP-REIVFTSGATESDNLAIKGAAHFYQKKGKHIITSKTEHKAVLDTCRQL-EREGFEVT 122 Query: 143 WVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 ++ + G +++ + + + T L++I H++N +G + I I I ER I VD + Sbjct: 123 YLDPQSNGIIDLEKLEAAMRDDTILVSIMHVNNEIGVIQDIAAIGEICRERGIIFHVDAA 182 Query: 203 QGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLY-SKESRLNEMDPFM--GGSEMIADV 259 Q +D+ + D + HK+YGP GIG LY ++ R+ ++ M GG E Sbjct: 183 QSVGKVPIDLSKLKVDLMSFSAHKIYGPKGIGALYVRRKPRV-RLEAQMHGGGHE----- 236 Query: 260 TQDMVTYADLPYR-FEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSRL-K 317 R GT P Q + +G A +I ++ + + E E R +R RL Sbjct: 237 ------------RGMRSGTLPTHQIVGMGEAA----RIAKEEMAT-ENERIRALRDRLWN 279 Query: 318 EVRGMQLV--NESLEDSPIISFRLGNIHPYDLAL---FLDGEG-------IAIRAGTHCA 365 ++ ++ V N LE R+ P +L + +++GE +A+ +G+ C Sbjct: 280 GIKDIEEVYLNGDLEQ------RV----PGNLNVSFNYVEGESLIMALKDLAVSSGSACT 329 Query: 366 NP------LLKFLGID-----SLCRASLAMYNTYEEADKFIETLKKSI 402 + +L+ LG++ S R SL + T EE D IE ++KSI Sbjct: 330 SASLEPSYVLRALGLNDELAHSSIRFSLGRFTTEEEIDYAIELVRKSI 377 >gnl|CDD|179511 PRK02948, PRK02948, cysteine desulfurase; Provisional. Length = 381 Score = 87.1 bits (216), Expect = 8e-18 Identities = 85/382 (22%), Positives = 148/382 (38%), Gaps = 44/382 (11%) Query: 24 LIYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINAS 83 +IY D AA+ ++ + + S + N LH + + + R I Sbjct: 1 MIYLDYAATTPMSKEALQTYQKAASQYFGN-ESSLHDIGGTASSLLQVCRKTFAEMIGGE 59 Query: 84 SVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLVW 143 + I FT TES L I+ + MEH S + L + G ++ Sbjct: 60 E-QGIYFTSGGTESNYLAIQSLLNALPQNKKHIITTPMEHASIHSYFQSLESQ-GYTVTE 117 Query: 144 VPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQ 203 +P+D G + + + +T T L +I H ++ +GT+ PI EI + + N+ D Q Sbjct: 118 IPVDKSGLIRLVDLERAITPDTVLASIQHANSEIGTIQPIAEIGALLKKYNVLFHSDCVQ 177 Query: 204 GSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDPFMGGSEMIADVTQDM 263 +DV ++ D ++ HK+YGP G+G +Y ++P + + T + Sbjct: 178 TFGKLPIDVFEMGIDSLSVSAHKIYGPKGVGAVY--------INPQVRWKPVFPGTTHE- 228 Query: 264 VTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSRLKEVRGMQ 323 F PGT + A A + + K ++ ++ +RS E Q Sbjct: 229 -------KGFRPGTVNVPGIAAFLTAAENILKNMQEESLRFKE-----LRSYFLE----Q 272 Query: 324 LVNESLEDSP--IISFRLGNI-----HPYD---LALFLDGEGIAIRAGTHCANPLLKFLG 373 + L + L +I + L + GIAI G+ C +G Sbjct: 273 IQTLPLPIEVEGHSTSCLPHIIGVTIKGIEGQYTMLECNRRGIAISTGSACQ------VG 326 Query: 374 IDSLCRASLAMYNTYEEADKFI 395 + LA+ TYEEA +F+ Sbjct: 327 KQEPSKTMLAIGKTYEEAKQFV 348 >gnl|CDD|181402 PRK08363, PRK08363, alanine aminotransferase; Validated. Length = 398 Score = 53.3 bits (128), Expect = 1e-07 Identities = 75/300 (25%), Positives = 132/300 (44%), Gaps = 62/300 (20%) Query: 49 HEYANIHRGLHYMANAVTDKYEKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGAR 108 H Y GL + A+ + EK ++ V + ++ T + TE++ L+ +GA Sbjct: 63 HNYYGPSEGLPELREAIVKR-EKRKNGVD-----ITPDDVRVTAAVTEALQLI---FGAL 113 Query: 109 HISTGDEIVLSVMEHHSNIIPWY--FLRQRRGASLVWVPIDNQGFF-HIDEFKNRLTERT 165 + GDEI++ P Y ++ G + + I+ +G+ ID+ + ++TE+T Sbjct: 114 -LDPGDEILIP-----GPSYPPYTGLVKFYGGVPVEYRTIEEEGWQPDIDDIRKKITEKT 167 Query: 166 KLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVDG------------SQGSVHNFV 210 K IA+ + +N G + +KEI IA E ++PV+ D S GS+ V Sbjct: 168 KAIAVINPNNPTGALYEKKTLKEILDIAGEHDLPVISDEIYDLMTYEGKHVSPGSLTKDV 227 Query: 211 DVQDIDCDWYIITG-HKLYGPSG--IGGLYSKESRLNEMDPFMGGSEMIADVTQDMVTYA 267 V ++ G K+Y +G +G +Y F+ +A+V + + A Sbjct: 228 PV-------IVMNGLSKVYFATGWRLGYIY-----------FVDPEGKLAEVREAIDKLA 269 Query: 268 DLPYRFEPGTPPISQAIA-LGVALDYVEKIDRKSIFSYERELARYVRSRLKEVRGMQLVN 326 + R P TP AIA L +DY+E+ +K +E Y+ RL E+ G+ Sbjct: 270 RI--RLCPNTPAQFAAIAGLTGPMDYLEEYMKKL-----KERRDYIYKRLNEIPGISTTK 322 >gnl|CDD|181782 PRK09331, PRK09331, Sep-tRNA:Cys-tRNA synthetase; Provisional. Length = 387 Score = 49.5 bits (119), Expect = 2e-06 Identities = 37/149 (24%), Positives = 64/149 (42%), Gaps = 25/149 (16%) Query: 106 GARH---------ISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFH--- 153 GAR GD +VL + H+++ Y +R G ++ VP + Sbjct: 86 GAREGKFAVMHSLCKKGDYVVLDGLAHYTS----YVAAERAGLNVREVPKTGYPEYKITP 141 Query: 154 ------IDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQGSVH 207 I+E K + L +TH+ G + K++ ++AHE IP L++G+ Sbjct: 142 EAYAEKIEEVKEETGKPPALALLTHVDGNYGNLADAKKVAKVAHEYGIPFLLNGAYTVGR 201 Query: 208 NFVDVQDIDCDWYIITGHKLY---GPSGI 233 VD + + D+ + +GHK PSG+ Sbjct: 202 MPVDGKKLGADFIVGSGHKSMAASAPSGV 230 >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 = 46.6 bits (111), Expect = 1e-05 Identities = 48/211 (22%), Positives = 80/211 (37%), Gaps = 31/211 (14%) Query: 167 LIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDG--SQGSVHNFVDVQDIDCDWYIITG 224 +A H G + P++ I ++A ++VD S G++ +D++++D D I + Sbjct: 128 HVATVHHETTTGILNPLEAIAKVARSHGAVLIVDAMSSFGAIP--IDIEELDVDALIASA 185 Query: 225 HK-LYGPSGIGGLYSKESRLNEMDPFMGGSEMIADVTQDMVTYADL---PYRFE-----P 275 +K L G G G + ++ L E A + + Y DL E Sbjct: 186 NKCLEGVPGFGFVIARRDLL----------EASAGNARSL--YLDLYDQWAYMEKTGKWR 233 Query: 276 GTPPISQAIALGVALD-YVEKIDRKSIFSYERELARYVRSRLKEVRGMQLVNESLEDSPI 334 TPP A AL+ + + + R + L+ + G Q + SPI Sbjct: 234 FTPPTHTVYAFAQALEELEAEGGVPARIARYRRNRELLVDGLRAL-GFQPLLPERWQSPI 292 Query: 335 I-SFRLGNIHPYDLALF---LDGEGIAIRAG 361 I SF + +D F L G I G Sbjct: 293 IVSFLYPDDPDFDFDDFYQELKERGFVIYPG 323 >gnl|CDD|180244 PRK05764, PRK05764, aspartate aminotransferase; Provisional. Length = 393 Score = 45.5 bits (109), Expect = 3e-05 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 5/68 (7%) Query: 138 GASLVWVPID-NQGF-FHIDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHE 192 G V+VP GF +++ + +T +TK + + SN G V ++ I +A E Sbjct: 136 GGVPVFVPTGEENGFKLTVEQLEAAITPKTKALILNSPSNPTGAVYSPEELEAIADVAVE 195 Query: 193 RNIPVLVD 200 +I VL D Sbjct: 196 HDIWVLSD 203 >gnl|CDD|180720 PRK06836, PRK06836, aspartate aminotransferase; Provisional. Length = 394 Score = 45.2 bits (108), Expect = 3e-05 Identities = 41/168 (24%), Positives = 67/168 (39%), Gaps = 34/168 (20%) Query: 36 PQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINAS-----SVKEIIF 90 P V +++ E +H YM NA Y + R+ + +N + I+ Sbjct: 48 PAAVKEALRELAEEEDPGLHG---YMPNA---GYPEVREAIAESLNRRFGTPLTADHIVM 101 Query: 91 TRSATESINLVSYGWGARHI-STGDE-IVLSVMEHHSNIIPWYFLRQR-----RGASLVW 143 T A ++N+ + I + GDE IV + P YF+ R G LV Sbjct: 102 TCGAAGALNVA-----LKAILNPGDEVIVFA---------P-YFVEYRFYVDNHGGKLVV 146 Query: 144 VPIDNQGFF-HIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIA 190 VP D F +D + +T +TK + I +N G V + + +A Sbjct: 147 VPTDTDTFQPDLDALEAAITPKTKAVIINSPNNPTGVVYSEETLKALA 194 >gnl|CDD|179819 PRK04311, PRK04311, selenocysteine synthase; Provisional. Length = 464 Score = 44.8 bits (107), Expect = 3e-05 Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 6/62 (9%) Query: 153 HIDEFKNRLTERTKLIAITHMSN--VLGTV--IPIKEICRIAHERNIPVLVD-GSQGSVH 207 H+ +++ + E T L+ H SN + G + + E+ + E +PV+ D GS GS+ Sbjct: 205 HLRDYEQAINENTALLLKVHTSNYRIEGFTKEVSLAELAALGKEHGLPVVYDLGS-GSLV 263 Query: 208 NF 209 + Sbjct: 264 DL 265 >gnl|CDD|161897 TIGR00474, selA, seryl-tRNA(sec) selenium transferase. In bacteria, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes SelA. This model excludes homologs that appear to differ in function from Frankia alni, Helicobacter pylori, Methanococcus jannaschii and other archaea, and so on. Length = 454 Score = 44.1 bits (105), Expect = 6e-05 Identities = 23/75 (30%), Positives = 40/75 (53%), Gaps = 8/75 (10%) Query: 135 QRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSN--VLGTV--IPIKEICRIA 190 ++ GA LV V N+ H+ ++++ +TE T L+ H SN ++G + I E+ + Sbjct: 184 EQSGAKLVEVGTTNRT--HLKDYEDAITENTALLLKVHTSNYRIVGFTEEVSIAELVALG 241 Query: 191 HERNIPVLVDGSQGS 205 E +PV+ D GS Sbjct: 242 REHGLPVMED--LGS 254 >gnl|CDD|179178 PRK00950, PRK00950, histidinol-phosphate aminotransferase; Validated. Length = 361 Score = 44.1 bits (105), Expect = 6e-05 Identities = 26/111 (23%), Positives = 47/111 (42%), Gaps = 18/111 (16%) Query: 110 ISTGDEIVLSVMEHHSNIIPWY----FLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERT 165 I GDE+++ P + + GA V+ + +D N +TE+T Sbjct: 108 IDPGDEVIIP--------TPTFSYYEISAKAHGAKPVYAKREEDFSLDVDSVLNAITEKT 159 Query: 166 KLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDID 216 K+I + +N G +IP ++I +I + V VD +V+ + D Sbjct: 160 KVIFLCTPNNPTGNLIPEEDIRKILESTDALVFVD------EAYVEFAEYD 204 >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 = 43.6 bits (103), Expect = 8e-05 Identities = 36/175 (20%), Positives = 76/175 (43%), Gaps = 23/175 (13%) Query: 74 DKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWYFL 133 + + F+ + T A E V + GD +VL + H+++ Y Sbjct: 58 EDLAEFLGMDEAR---VTHGAREGKFAVMHALCKE----GDWVVLDGLAHYTS----YVA 106 Query: 134 RQRRGASLVWVP--------IDNQGFFH-IDEFKNRLTERTKLIAITHMSNVLGTVIPIK 184 +R G ++ VP +D +G+ I+E ++ + L +TH+ G + Sbjct: 107 AERAGLNVKEVPHTGHPEYKVDPEGYGEVIEEVEDESGKPPVLALLTHVDGEYGNLPDAG 166 Query: 185 EICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHK---LYGPSGIGGL 236 ++ ++ E+ +P+L++ + V ++I D+ + +GHK GP G+ G+ Sbjct: 167 KVAKVCREKGVPLLLNCAYTVGRMPVSAKEIGADFIVGSGHKSMAASGPCGVLGM 221 >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 = 42.3 bits (100), Expect = 2e-04 Identities = 58/287 (20%), Positives = 110/287 (38%), Gaps = 65/287 (22%) Query: 138 GASLVWVPIDNQGFFHIDEFKNRLTERT-KLIAITHMSNVLGTVIPIKEICRIAHERNIP 196 G L + P+D + + ++ + + T ++ I + LG + I+E+ +IA E I Sbjct: 127 GLELRYAPLDEDYTVDVKDVEDLIDDNTIGIVGIAGTTE-LGQIDDIEELSKIALENGIY 185 Query: 197 VLVDGSQGS-VHNFVDVQDIDCDW---------YIITGHKLYG----PSGIGGLYSKESR 242 + VD + G V F+ + I HK+ G P+G G L+ +S Sbjct: 186 LHVDAAFGGFVIPFLKKGYNPPPFDFSLPGVQSITIDPHKM-GLSPIPAG-GILFRSKSY 243 Query: 243 LNEMD---PFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRK 299 L + P++ Q +T GT + A A + Y+ + + Sbjct: 244 LKYLSVDAPYL------TVKKQATIT----------GTRSGASAAATYAVIKYLGREGYR 287 Query: 300 SIFSYERELARYVRSRLKEVRGMQLVNESLEDSPIISFRLGNIHPYDLALFLDGEGIAIR 359 I + E RY+ LK++ ++ L I++F + + P ++ L G + Sbjct: 288 KIVAECMENTRYLVEELKKIGFEPVIEPVLN---IVAFEVDD--PEEVRKKLRDRGWYV- 341 Query: 360 AGTHCANPLLKFLGIDSLCRASLAM------YNTYEEADKFIETLKK 400 S+ R A+ + T E ++F+E LK+ Sbjct: 342 ----------------SVTRCPKALRIVVMPHVTREHIEEFLEDLKE 372 >gnl|CDD|180344 PRK05994, PRK05994, O-acetylhomoserine aminocarboxypropyltransferase; Validated. Length = 427 Score = 42.0 bits (99), Expect = 3e-04 Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 5/68 (7%) Query: 138 GASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPV 197 G + W D+ F+ +T RTK I I ++N GTV I I +AH +P+ Sbjct: 127 GWQVRWADADD-----PASFERAITPRTKAIFIESIANPGGTVTDIAAIAEVAHRAGLPL 181 Query: 198 LVDGSQGS 205 +VD + S Sbjct: 182 IVDNTLAS 189 >gnl|CDD|178031 PLN02409, PLN02409, serine--glyoxylate aminotransaminase. Length = 401 Score = 42.0 bits (99), Expect = 3e-04 Identities = 58/261 (22%), Positives = 96/261 (36%), Gaps = 34/261 (13%) Query: 85 VKEIIFTRSATESINLVSYGWGARH------ISTGDEIVLSVMEHHSNIIPWYFLRQRRG 138 VK I T+S T I + G GA +S GD++V + S + W QR Sbjct: 51 VKYIFKTKSGTPFI-FPTTGTGAWESALTNTLSPGDKVVSFRIGQFSLL--WIDQMQRLN 107 Query: 139 ASLVWVPIDNQGFFHIDEFKNRLTERT----KLIAITHMSNVLGTVIPIKEICRIAHERN 194 + V +D K++L + T K + + H G + + ++ Sbjct: 108 FDVDVVESPWGQGADLDILKSKLRQDTNHKIKAVCVVHNETSTGVTNDLAGVRKLLDCAQ 167 Query: 195 IP--VLVDG--SQGSVHNFVDVQDIDCDWYIITGHK--LYGPSGIGGLYSKESRLNEMDP 248 P +LVDG S G++ +D +D +TG + L P+G+G + + L Sbjct: 168 HPALLLVDGVSSIGALDFRMDEWGVDV---ALTGSQKALSLPTGLGIVCASPKALEASK- 223 Query: 249 FMGGSEMIADVTQDMVTYADLPYR---FEPGTPPISQAIALGVALDYVEKIDRKSIFSYE 305 + V D Y Y+ + P TP I L ALD + + +++ + Sbjct: 224 ----TAKSPRVFFDWADYLKF-YKLGTYWPYTPSIQLLYGLRAALDLIFEEGLENVIARH 278 Query: 306 RELARYVRSRLKEVRGMQLVN 326 L R V L Sbjct: 279 ARLGEATR---LAVEAWGLKL 296 >gnl|CDD|181321 PRK08248, PRK08248, O-acetylhomoserine aminocarboxypropyltransferase; Validated. Length = 431 Score = 41.0 bits (96), Expect = 6e-04 Identities = 17/51 (33%), Positives = 30/51 (58%) Query: 155 DEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQGS 205 + F+ +T++TK + + N G V+ I+ + IAHE IP++VD + S Sbjct: 140 ENFEAAITDKTKALFAETIGNPKGDVLDIEAVAAIAHEHGIPLIVDNTFAS 190 >gnl|CDD|162303 TIGR01329, cysta_beta_ly_E, cystathionine beta-lyase, eukaryotic. This model represents cystathionine beta-lyase (alternate name: beta-cystathionase), one of several pyridoxal-dependent enzymes of cysteine, methionine, and homocysteine metabolism. This enzyme is involved in the biosynthesis of Met from Cys. Length = 378 Score = 40.2 bits (94), Expect = 0.001 Identities = 21/74 (28%), Positives = 38/74 (51%), Gaps = 5/74 (6%) Query: 132 FLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAH 191 + R G +V V + +D+ K L +TKL+ + +N L ++ I++I +AH Sbjct: 104 QVVPRSGVVVVHVDTTD-----LDKVKAALGPKTKLVLLESPTNPLQKIVDIRKISEMAH 158 Query: 192 ERNIPVLVDGSQGS 205 +N V+VD + S Sbjct: 159 AQNALVVVDNTMMS 172 >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 = 38.2 bits (89), Expect = 0.004 Identities = 20/79 (25%), Positives = 41/79 (51%), Gaps = 5/79 (6%) Query: 168 IAITHMSNVLGTVIPIKEICRIAHERNIPVLVDG--SQGSVHNFVDVQDIDCDWYIITGH 225 IA+ H G + PI+ + ++AH +VD S G + +D+ ++ D+ I + + Sbjct: 133 IALVHCETTTGILNPIEAVAKLAHRHGKVTIVDAMSSFGGIP--IDIAELHIDYLISSAN 190 Query: 226 K-LYGPSGIGGLYSKESRL 243 K + G G G + ++++ L Sbjct: 191 KCIQGVPGFGFVIARQAEL 209 >gnl|CDD|168777 PRK07036, PRK07036, hypothetical protein; Provisional. Length = 466 Score = 37.7 bits (88), Expect = 0.005 Identities = 30/133 (22%), Positives = 50/133 (37%), Gaps = 23/133 (17%) Query: 281 SQAIALGVALDYVEKIDRKSIFSYERELARYVRSRLK---------EVRGMQLVN--ESL 329 +A AL +E ++R+ + + RE+ Y RL +VRG L+ E + Sbjct: 330 GHPVACAAALKNIEIMEREGLCEHVREVGPYFEERLASLRELPLVGDVRGDHLMACVECV 389 Query: 330 EDSPIISFRLGNIHPYDLALFLDGEGIAIRAGTHCANPLLKFLGIDSLCRASLAMYNTYE 389 D AL + I R HC L ++ LC S + T Sbjct: 390 AD------------KGSKALLPEDIAIGQRIDRHCQERGLLVRPLEHLCVLSPPLIITRA 437 Query: 390 EADKFIETLKKSI 402 + D+ + L+ +I Sbjct: 438 QIDEIVAILRAAI 450 >gnl|CDD|130393 TIGR01326, OAH_OAS_sulfhy, OAH/OAS sulfhydrylase. This model describes a distinct clade of the Cys/Met metabolism pyridoxal phosphate-dependent enzyme superfamily. Members include examples of OAH/OAS sulfhydrylase, an enzyme with activity both as O-acetylhomoserine (OAH) sulfhydrylase (EC 2.5.1.49) and O-acetylserine (OAS) sulphydrylase (EC 2.5.1.47). An alternate name for OAH sulfhydrylase is homocysteine synthase. This model is designated subfamily because it may or may not have both activities. Length = 418 Score = 36.2 bits (84), Expect = 0.015 Identities = 14/48 (29%), Positives = 24/48 (50%) Query: 153 HIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 +EF+ + E TK + + N V I+ I +AH +P++VD Sbjct: 131 DPEEFEKAIDENTKAVFAETIGNPAINVPDIEAIAEVAHAHGVPLIVD 178 >gnl|CDD|179546 PRK03158, PRK03158, histidinol-phosphate aminotransferase; Provisional. Length = 359 Score = 35.7 bits (83), Expect = 0.023 Identities = 27/134 (20%), Positives = 58/134 (43%), Gaps = 20/134 (14%) Query: 73 RDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVME----HHSNII 128 R KV + + ++++F E I ++S ++ G V++ H+ II Sbjct: 70 RTKVAKHLGVDE-EQLLFGAGLDEVIQMISRAL----LNPGTNTVMAEPTFSQYRHNAII 124 Query: 129 PWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICR 188 GA + VP+ + G ++ + E+TK++ I + +N GT + +E+ Sbjct: 125 --------EGAEVREVPLKD-GGHDLEAMLKAIDEQTKIVWICNPNNPTGTYVNHEELLS 175 Query: 189 IAHE--RNIPVLVD 200 ++ V++D Sbjct: 176 FLESVPSHVLVVLD 189 >gnl|CDD|179465 PRK02731, PRK02731, histidinol-phosphate aminotransferase; Validated. Length = 367 Score = 35.5 bits (83), Expect = 0.024 Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 7/68 (10%) Query: 135 QRRGASLVWVPIDNQGFFH-IDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHER 193 Q GA V VP + G H +D +T RT+L+ I + +N GT +P +E+ R Sbjct: 126 QAVGAKPVEVPAKDYG--HDLDAMLAAVTPRTRLVFIANPNNPTGTYLPAEEVERF-LAG 182 Query: 194 NIP--VLV 199 +P VLV Sbjct: 183 -VPPDVLV 189 >gnl|CDD|181083 PRK07683, PRK07683, aminotransferase A; Validated. Length = 387 Score = 35.5 bits (82), Expect = 0.027 Identities = 36/127 (28%), Positives = 63/127 (49%), Gaps = 16/127 (12%) Query: 80 INASSVKEIIFTRSATESINLVSYGWGARHI-STGDEIVLSVMEHHSNIIPWYF-LRQRR 137 ++ S EII T A+E+I++ R I G E++L + I P Y + + Sbjct: 84 LHYSPESEIIVTIGASEAIDI-----AFRTILEPGTEVILP-----APIYPGYEPIIRLC 133 Query: 138 GASLVWVPIDNQGF-FHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAH---ER 193 GA V++ + GF + +N +TE+T+ + + + SN G + +E+ IA ++ Sbjct: 134 GAKPVFIDTRSTGFRLTAEALENAITEKTRCVVLPYPSNPTGVTLSKEELQDIADVLKDK 193 Query: 194 NIPVLVD 200 NI VL D Sbjct: 194 NIFVLSD 200 >gnl|CDD|162223 TIGR01141, hisC, histidinol-phosphate aminotransferase. Histidinol-phosphate aminotransferase is a pyridoxal-phosphate dependent enzyme. Length = 346 Score = 35.3 bits (82), Expect = 0.028 Identities = 26/155 (16%), Positives = 56/155 (36%), Gaps = 32/155 (20%) Query: 64 AVTDKYEKARDKVRRFINASSVK--------------EIIFTRSATESINLVSYGWGARH 109 + DK+ R+ + + +I+ + E I L+ + Sbjct: 36 KAKEALRAEADKLHRYPDPDPAELKQALADYYGVDPEQILLGNGSDEIIELLIRAFLE-- 93 Query: 110 ISTGDEIVL-----SVMEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTER 164 GD +++ S+ E + I GA +V VP+D G +++ + ++ Sbjct: 94 --PGDAVLVPPPTYSMYEISAKI---------HGAEVVKVPLDEDGQLDLEDILVAIDDK 142 Query: 165 TKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLV 199 KL+ + +N G ++ +I + LV Sbjct: 143 PKLVFLCSPNNPTGNLLSRSDIEAVLERTPEDALV 177 >gnl|CDD|181026 PRK07550, PRK07550, hypothetical protein; Provisional. Length = 386 Score = 34.9 bits (81), Expect = 0.037 Identities = 41/168 (24%), Positives = 68/168 (40%), Gaps = 49/168 (29%) Query: 113 GDEIVLSVMEHHSNIIPWYF-----LRQRRGASLVWVPIDNQ-GFF-HIDEFKNRLTERT 165 GDE++L + PWYF L G V++P D G + +T RT Sbjct: 114 GDEVILPL--------PWYFNHKMWLDML-GIRPVYLPCDEGPGLLPDPAAAEALITPRT 164 Query: 166 KLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD-------GSQGSVHNFVDVQDI 215 + IA+ +N G V P + E+ +A I +++D G+ H+ Sbjct: 165 RAIALVTPNNPTGVVYPPELLHELYDLARRHGIALILDETYRDFDSGGGAPHDLFA---- 220 Query: 216 DCDW-------------YIITGHKLYGPSGIGGLYSKESRLNEMDPFM 250 D DW Y +TGH++ G + + +R+ E++ FM Sbjct: 221 DPDWDDTLVHLYSFSKSYALTGHRV------GAVVASPARIAEIEKFM 262 >gnl|CDD|177885 PLN02242, PLN02242, methionine gamma-lyase. Length = 418 Score = 34.7 bits (80), Expect = 0.044 Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 6/71 (8%) Query: 131 YFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTE-RTKLIAITHMSNVLGTVIPIKEICRI 189 +FL ++ + +V I + ++ K + +TK++ +SN TV I E+ RI Sbjct: 134 HFLPRKCNITTTFVDITD-----LEAVKKAVVPGKTKVLYFESISNPTLTVADIPELARI 188 Query: 190 AHERNIPVLVD 200 AHE+ + V+VD Sbjct: 189 AHEKGVTVVVD 199 >gnl|CDD|168478 PRK06234, PRK06234, methionine gamma-lyase; Provisional. Length = 400 Score = 33.6 bits (77), Expect = 0.086 Identities = 17/47 (36%), Positives = 25/47 (53%) Query: 153 HIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLV 199 +++E +N L TK++ + +N V IK I IAHE N LV Sbjct: 138 NLEEVRNALKANTKVVYLETPANPTLKVTDIKAISNIAHENNKECLV 184 >gnl|CDD|169403 PRK08361, PRK08361, aspartate aminotransferase; Provisional. Length = 391 Score = 33.7 bits (77), Expect = 0.097 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 5/68 (7%) Query: 138 GASLVWVPIDNQGFFHID--EFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHE 192 A + +P+ + F D E +T+RT++I I + +N G + K I IA + Sbjct: 138 EAKPIRIPLREENEFQPDPDELLELITKRTRMIVINYPNNPTGATLDKEVAKAIADIAED 197 Query: 193 RNIPVLVD 200 NI +L D Sbjct: 198 YNIYILSD 205 >gnl|CDD|180929 PRK07324, PRK07324, transaminase; Validated. Length = 373 Score = 33.0 bits (76), Expect = 0.13 Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 3/50 (6%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 +DE + + TKLI I + +N G ++ ++EI IA + VL D Sbjct: 143 LDELRRLVRPNTKLICINNANNPTGALMDRAYLEEIVEIARSVDAYVLSD 192 >gnl|CDD|181036 PRK07568, PRK07568, aspartate aminotransferase; Provisional. Length = 397 Score = 32.9 bits (76), Expect = 0.15 Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 20/99 (20%) Query: 113 GDEIVLSVMEHHSNIIPWY-----FLRQRRGASLVWVPIDNQGFFH---IDEFKNRLTER 164 GDEI+ V E P+Y F G +V V + FH +E + +T + Sbjct: 112 GDEIL--VPE------PFYANYNGFATSA-GVKIVPVTTKIEEGFHLPSKEEIEKLITPK 162 Query: 165 TKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 TK I I++ N G V ++ + IA + ++ ++ D Sbjct: 163 TKAILISNPGNPTGVVYTKEELEMLAEIAKKHDLFLISD 201 >gnl|CDD|169194 PRK08045, PRK08045, cystathionine gamma-synthase; Provisional. Length = 386 Score = 32.9 bits (75), Expect = 0.17 Identities = 15/46 (32%), Positives = 24/46 (52%) Query: 157 FKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 + L E+ KL+ + SN L V+ I +IC +A E +VD + Sbjct: 130 LRAALAEKPKLVLVESPSNPLLRVVDIAKICHLAREAGAVSVVDNT 175 >gnl|CDD|131432 TIGR02379, ECA_wecE, TDP-4-keto-6-deoxy-D-glucose transaminase. This family consists of TDP-4-keto-6-deoxy-D-glucose transaminases, the WecE (formerly RffA) protein of enterobacterial common antigen (ECA) biosynthesis, from enterobacteria. It also includes closely matching sequence from species not expected to make ECA, but which contain other genes for the biosynthesis of TDP-4-keto-6-deoxy-D-Glc, an intermediate in the biosynthesis of other compounds as well and the substrate of WecA. This family belongs to the DegT/DnrJ/EryC1/StrS aminotransferase family (pfam01041). Length = 376 Score = 32.9 bits (75), Expect = 0.17 Identities = 35/134 (26%), Positives = 58/134 (43%), Gaps = 25/134 (18%) Query: 79 FINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPWY-FLRQR- 136 N + K+ + T S T ++ + + I GDE+ I+P Y F+ Sbjct: 40 LENRTGTKKALLTPSCTAALEMAAL---LLDIQPGDEV----------IMPSYTFVSTAN 86 Query: 137 ----RGASLVWVPIDNQGFFHIDEFK--NRLTERTKLIAITHMSNVLGTVIPIKEICRIA 190 RGA +V+V I +IDE + +T RTK I H + V + I +A Sbjct: 87 AFVLRGAKIVFVDIRPDTM-NIDETLIESAITHRTKAIVPVHYAGVACDMDTIMA---LA 142 Query: 191 HERNIPVLVDGSQG 204 ++ + V+ D +QG Sbjct: 143 NKHQLFVIEDAAQG 156 >gnl|CDD|180765 PRK06939, PRK06939, 2-amino-3-ketobutyrate coenzyme A ligase; Provisional. Length = 397 Score = 32.5 bits (75), Expect = 0.21 Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 14/71 (19%) Query: 164 RTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQGS---------VHNFVDVQD 214 R KLIA + ++ G + P+ EIC +A + + V+VD S V D Sbjct: 174 RHKLIATDGVFSMDGDIAPLPEICDLADKYDALVMVDDSHAVGFVGENGRGTVEHFGVMD 233 Query: 215 -IDCDWYIITG 224 +D IITG Sbjct: 234 RVD----IITG 240 >gnl|CDD|184109 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional. Length = 371 Score = 32.5 bits (75), Expect = 0.22 Identities = 65/286 (22%), Positives = 105/286 (36%), Gaps = 66/286 (23%) Query: 138 GASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPV 197 G L P+D+ + ++ + + T I + LG V PI E+ +IA E I + Sbjct: 125 GVELRRAPLDDDYRVDVKAVEDLIDDNTIGIVGIAGTTELGQVDPIPELSKIALENGIFL 184 Query: 198 LVDGSQGSVHNFV----------DVQDIDCDWYIITGHKLYG----PSGIGGLYSKESRL 243 VD + G FV D D I HK+ G P+G G L+ ES L Sbjct: 185 HVDAAFGG---FVIPFLDDPPNFDFSLPGVDSITIDPHKM-GLAPIPAG-GILFRDESYL 239 Query: 244 NEMD---PFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKS 300 + + P++ Q +T GT + A + Y+ + + Sbjct: 240 DALAVDTPYLTSK------KQATLT----------GTRSGAGVAATYAVMKYLGREGYRK 283 Query: 301 IFSYERELARYVRSRLKEVRGMQLVNESLEDSPIISFRLGNIHPYDLALFLDGEGIAIRA 360 + E R++ LKE RG + V E I++F N P ++ L G + Sbjct: 284 VVERCMENTRWLAEELKE-RGFEPVIEP--VLNIVAFDDPN--PDEVREKLRERGWRV-- 336 Query: 361 GTHCANPLLKFLGIDSLCRASLAM------YNTYEEADKFIETLKK 400 S+ R A+ + T E + F+E LK+ Sbjct: 337 ---------------SVTRCPEALRIVCMPHVTREHIENFLEDLKE 367 >gnl|CDD|181244 PRK08133, PRK08133, O-succinylhomoserine sulfhydrylase; Validated. Length = 390 Score = 32.3 bits (74), Expect = 0.22 Identities = 21/98 (21%), Positives = 36/98 (36%), Gaps = 17/98 (17%) Query: 109 HISTGDEIVLS------VMEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLT 162 + GD +V S + I R G +V + + +D ++ + Sbjct: 96 LLQAGDHVVSSRSLFGSTVSLFEKIFA------RFGIETTFVDLTD-----LDAWRAAVR 144 Query: 163 ERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 TKL + SN L + I + IAH ++VD Sbjct: 145 PNTKLFFLETPSNPLTELADIAALAEIAHAAGALLVVD 182 >gnl|CDD|181082 PRK07682, PRK07682, hypothetical protein; Validated. Length = 378 Score = 32.4 bits (74), Expect = 0.24 Identities = 37/150 (24%), Positives = 71/150 (47%), Gaps = 18/150 (12%) Query: 60 YMANA--VTDKYEKARDKVRRF-INASSVKEIIFTRSATESINLVSYGWGARHI-STGDE 115 Y ANA + + E A+ +RF ++ EII T A++++++ R I + GDE Sbjct: 53 YTANAGLLELRQEIAKYLKKRFAVSYDPNDEIIVTVGASQALDV-----AMRAIINPGDE 107 Query: 116 IVLSVMEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHID--EFKNRLTERTKLIAITHM 173 ++ ++E + + + L G V V + F + + + +T +TK I + Sbjct: 108 VL--IVE--PSFVSYAPLVTLAGGVPVPVATTLENEFKVQPAQIEAAITAKTKAILLCSP 163 Query: 174 SNVLGTVI---PIKEICRIAHERNIPVLVD 200 +N G V+ ++EI I + ++ VL D Sbjct: 164 NNPTGAVLNKSELEEIAVIVEKHDLIVLSD 193 >gnl|CDD|181114 PRK07777, PRK07777, aminotransferase; Validated. Length = 387 Score = 31.9 bits (73), Expect = 0.27 Identities = 39/140 (27%), Positives = 63/140 (45%), Gaps = 23/140 (16%) Query: 72 ARDKVRRF-INASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIPW 130 A + RR+ + E++ T ATE+I G + GDE++L I P+ Sbjct: 71 AAQRRRRYGLEYDPDTEVLVTVGATEAIAAAVLGL----VEPGDEVLL--------IEPY 118 Query: 131 Y----FLRQRRGASLVWVPI--DNQGF-FHIDEFKNRLTERTKLIAITHMSNVLGTVIPI 183 Y + GA V VP+ D +GF +D + +T RT+ + + N GTV+ Sbjct: 119 YDSYAAVIAMAGAHRVPVPLVPDGRGFALDLDALRAAVTPRTRALIVNSPHNPTGTVLTA 178 Query: 184 KE---ICRIAHERNIPVLVD 200 E I +A E ++ V+ D Sbjct: 179 AELAAIAELAVEHDLLVITD 198 >gnl|CDD|130331 TIGR01264, tyr_amTase_E, tyrosine aminotransferase, eukaryotic. This model describes tyrosine aminotransferase as found in animals and Trypanosoma cruzi. It is the first enzyme of a pathway of tyrosine degradation via homogentisate. Several plant enzyme designated as probable tyrosine aminotransferases are very closely related to an experimentally demonstrated nicotianamine aminotransferase, an enzyme in a siderophore (iron uptake chelator) biosynthesis pathway. These plant sequences are excluded from the model seed and score between the trusted an noise cutoffs. Length = 401 Score = 31.7 bits (72), Expect = 0.38 Identities = 12/57 (21%), Positives = 29/57 (50%), Gaps = 3/57 (5%) Query: 147 DNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 D + + ++ + E+T + + + SN G+V ++EI +A + +P++ D Sbjct: 151 DKSWEIDLKQLESLIDEKTAALIVNNPSNPCGSVFSRQHLEEILAVAERQCLPIIAD 207 >gnl|CDD|183994 PRK13355, PRK13355, bifunctional HTH-domain containing protein/aminotransferase; Provisional. Length = 517 Score = 31.6 bits (72), Expect = 0.42 Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 3/50 (6%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 ID+ ++++T RTK I I + +N G + P +++I IA E + + D Sbjct: 271 IDDIRSKITSRTKAIVIINPNNPTGALYPREVLQQIVDIAREHQLIIFSD 320 >gnl|CDD|168313 PRK05957, PRK05957, aspartate aminotransferase; Provisional. Length = 389 Score = 31.2 bits (71), Expect = 0.49 Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 15/92 (16%) Query: 111 STGDEIVLSVMEHHSNIIPWYFLR----QRRGASLVWVPIDNQGFFHIDEFKNRLTERTK 166 GDEI+L+ P+YF G + VP D+ + + +T +T+ Sbjct: 111 DPGDEIILNT--------PYYFNHEMAITMAGCQPILVPTDDNYQLQPEAIEQAITPKTR 162 Query: 167 LIAITHMSNVLGTVIP---IKEICRIAHERNI 195 I +N G V P ++ + +I E I Sbjct: 163 AIVTISPNNPTGVVYPEALLRAVNQICAEHGI 194 >gnl|CDD|184076 PRK13479, PRK13479, 2-aminoethylphosphonate--pyruvate transaminase; Provisional. Length = 368 Score = 31.0 bits (71), Expect = 0.49 Identities = 47/199 (23%), Positives = 78/199 (39%), Gaps = 57/199 (28%) Query: 169 AITHMSNV-----LGTVIPIKEICRIAHERNIPVLVDG--SQGSVHNFVDVQDIDCDWYI 221 ITH++ V G + P+ EI +A ++VD S G++ +D+ ++ D I Sbjct: 131 RITHVALVHCETTTGILNPLDEIAAVAKRHGKRLIVDAMSSFGAIP--IDIAELGIDALI 188 Query: 222 ITGHK-LYGPSGIGGLYSKESRLNE---------MDPFMGGSEMIADVTQDMVTYADLPY 271 + +K + G G G + ++ S L +D + + M Q + Sbjct: 189 SSANKCIEGVPGFGFVIARRSELEACKGNSRSLSLDLYDQWAYM-EKTGQ---------W 238 Query: 272 RFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERE------LARYVRSRLKEVRGMQ-- 323 RF TPP A AL E E ARY ++ V GM+ Sbjct: 239 RF---TPPTHVVAAFYQALL-----------ELEEEGGVPARGARYANNQRTLVAGMRAL 284 Query: 324 ----LVNESLEDSPII-SF 337 L++ ++ SPII +F Sbjct: 285 GFEPLLDAEIQ-SPIIVTF 302 >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 = 31.2 bits (71), Expect = 0.50 Identities = 41/194 (21%), Positives = 77/194 (39%), Gaps = 46/194 (23%) Query: 164 RTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIIT 223 R K+IA + ++ G + PI+EIC +A + +D VH Sbjct: 177 RPKIIAFESVYSMDGDIAPIEEICDLADKYGALTYLD----EVHAV-------------- 218 Query: 224 GHKLYGPSGIGGLYSKESRLNEMDPF----------MGGSEMIADVTQ--DMV-TYADLP 270 LYGP G GG+ ++ ++ +D +GG IA + D + +YA Sbjct: 219 --GLYGPRG-GGIAERDGLMHRIDIIEGTLAKAFGVVGG--YIAASRKLIDAIRSYAP-G 272 Query: 271 YRFEPGTPPISQAIAL-GVALDYVEKIDRKSIFSYERELARYVRSRLKEVRGMQLVNESL 329 + F PP A A + + R++ +E + +++ L+ G+ ++ Sbjct: 273 FIFTTSLPPAIAAGATASIRHLKESQDLRRA----HQENVKRLKNLLEA-LGIPVIP--- 324 Query: 330 EDSPIISFRLGNIH 343 S I+ +G+ Sbjct: 325 NPSHIVPVIIGDAA 338 >gnl|CDD|184023 PRK13392, PRK13392, 5-aminolevulinate synthase; Provisional. Length = 410 Score = 31.0 bits (70), Expect = 0.55 Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 21/90 (23%) Query: 162 TERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYI 221 +R KLIA + ++ G + PI+ IC +A N VD VH Sbjct: 176 PDRPKLIAFESVYSMDGDIAPIEAICDLADRYNALTYVD----EVHAV------------ 219 Query: 222 ITGHKLYGPSGIGGLYSKESRLNEMDPFMG 251 LYG G GG+ ++ ++ +D G Sbjct: 220 ----GLYGARG-GGIAERDGLMDRIDMIQG 244 >gnl|CDD|180392 PRK06084, PRK06084, O-acetylhomoserine aminocarboxypropyltransferase; Validated. Length = 425 Score = 31.0 bits (70), Expect = 0.57 Identities = 13/40 (32%), Positives = 22/40 (55%) Query: 163 ERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 ERTK + + N G +I I+ + AH +P++VD + Sbjct: 142 ERTKAVFCESIGNPAGNIIDIQALADAAHRHGVPLIVDNT 181 >gnl|CDD|184489 PRK14075, pnk, inorganic polyphosphate/ATP-NAD kinase; Provisional. Length = 256 Score = 30.9 bits (70), Expect = 0.69 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 12/59 (20%) Query: 346 DLALFLDGEGIAIRAGTHCANPLLKF----LGIDSLCRASLAMYNTYEEADKFIETLKK 400 DL + + G+G ++A PL+ F LG L+ Y T EE D+F+E LK Sbjct: 43 DLIIVVGGDGTVLKAAKKVGTPLVGFKAGRLGF-------LSSY-TLEEIDRFLEDLKN 93 >gnl|CDD|180685 PRK06767, PRK06767, methionine gamma-lyase; Provisional. Length = 386 Score = 30.6 bits (69), Expect = 0.75 Identities = 13/46 (28%), Positives = 25/46 (54%) Query: 155 DEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 + +N++ TKLI + N +I +K++ R+A + V+VD Sbjct: 137 ADIENKIRPNTKLIFVETPINPTMKLIDLKQVIRVAKRNGLLVIVD 182 >gnl|CDD|179559 PRK03321, PRK03321, putative aminotransferase; Provisional. Length = 352 Score = 30.7 bits (70), Expect = 0.77 Identities = 25/82 (30%), Positives = 37/82 (45%), Gaps = 16/82 (19%) Query: 113 GDEIVLSVMEHHSNIIPW-----Y-FLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTK 166 GDE+ I W Y L Q GA+ V VP+ +D +T+RT+ Sbjct: 98 GDEV----------IFAWRSFEAYPILVQVAGATPVQVPLTPDHTHDLDAMAAAITDRTR 147 Query: 167 LIAITHMSNVLGTVIPIKEICR 188 LI + + +N GTV+ E+ R Sbjct: 148 LIFVCNPNNPTGTVVTPAELAR 169 >gnl|CDD|131135 TIGR02080, O_succ_thio_ly, O-succinylhomoserine (thiol)-lyase. This family consists of O-succinylhomoserine (thiol)-lyase, one of three different enzymes designated cystathionine gamma-synthase and involved in methionine biosynthesis. In all three cases, sulfur is added by transsulfuration from Cys to yield cystathionine rather than by a sulfhydrylation step that uses H2S directly and bypasses cystathionine. Length = 382 Score = 30.5 bits (69), Expect = 0.79 Identities = 15/40 (37%), Positives = 22/40 (55%) Query: 161 LTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 L ++ KL+ I SN L V+ I +IC +A V+VD Sbjct: 133 LAQKPKLVLIETPSNPLLRVVDIAKICHLAKAVGAVVVVD 172 >gnl|CDD|179878 PRK04781, PRK04781, histidinol-phosphate aminotransferase; Provisional. Length = 364 Score = 30.2 bits (68), Expect = 0.87 Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 4/60 (6%) Query: 135 QRRGASLVWVP-IDNQGFFHIDE---FKNRLTERTKLIAITHMSNVLGTVIPIKEICRIA 190 + + A LV VP +D FH D L KL+ + SN G+ I + +I R Sbjct: 119 RLQNAPLVEVPLVDGADGFHADVPAIVAAALASNAKLVFLCSPSNPAGSAIALDQIERAL 178 >gnl|CDD|181320 PRK08247, PRK08247, cystathionine gamma-synthase; Reviewed. Length = 366 Score = 30.4 bits (69), Expect = 0.89 Identities = 13/47 (27%), Positives = 22/47 (46%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 + + +T TK I I +N L I I +IA + + ++VD Sbjct: 126 LKAIEQAITPNTKAIFIETPTNPLMQETDIAAIAKIAKKHGLLLIVD 172 >gnl|CDD|102505 PRK06702, PRK06702, O-acetylhomoserine aminocarboxypropyltransferase; Validated. Length = 432 Score = 30.4 bits (68), Expect = 0.93 Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 3/68 (4%) Query: 138 GASLVWVPIDNQGF---FHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERN 194 G SL + ID F DE ++TKL+ + N V+ KE A E Sbjct: 118 GVSLRKLGIDVTFFNPNLTADEIVALANDKTKLVYAESLGNPAMNVLNFKEFSDAAKELE 177 Query: 195 IPVLVDGS 202 +P +VD + Sbjct: 178 VPFIVDNT 185 >gnl|CDD|181567 PRK08861, PRK08861, cystathionine gamma-synthase; Provisional. Length = 388 Score = 30.2 bits (68), Expect = 1.0 Identities = 15/42 (35%), Positives = 22/42 (52%) Query: 161 LTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 L ++ KLI + SN L V+ I E+C+ A V VD + Sbjct: 135 LAKKPKLILLETPSNPLVRVVDIAELCQKAKAVGALVAVDNT 176 >gnl|CDD|180573 PRK06460, PRK06460, hypothetical protein; Provisional. Length = 376 Score = 30.2 bits (68), Expect = 1.1 Identities = 9/41 (21%), Positives = 24/41 (58%) Query: 162 TERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 ++R ++ + +++N L V+ I E+ ++ E ++VD + Sbjct: 128 SKRYDVVFVENITNPLLRVVDITELSKVCKENGSILIVDAT 168 >gnl|CDD|130395 TIGR01328, met_gam_lyase, methionine gamma-lyase. This model describes a methionine gamma-lyase subset of a family of PLP-dependent trans-sulfuration enzymes. The member from the parasite Trichomonas vaginalis is described as catalyzing alpha gamma- and alpha-beta eliminations and gamma-replacement reactions on methionine, cysteine, and some derivatives. Likewise, the enzyme from Pseudomonas degrades cysteine as well as methionine. Length = 391 Score = 29.9 bits (67), Expect = 1.1 Identities = 13/48 (27%), Positives = 27/48 (56%) Query: 155 DEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 +E K + + TK++ +N +I ++ +CR AH + + V+VD + Sbjct: 135 EEVKAHIKDNTKIVYFETPANPTMKLIDMERVCRDAHSQGVKVIVDNT 182 >gnl|CDD|181129 PRK07811, PRK07811, cystathionine gamma-synthase; Provisional. Length = 388 Score = 30.0 bits (68), Expect = 1.2 Identities = 15/46 (32%), Positives = 25/46 (54%) Query: 155 DEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 D + +T RTKLI + +N L ++ I + +AH+ V+VD Sbjct: 137 DAVRAAITPRTKLIWVETPTNPLLSITDIAALAELAHDAGAKVVVD 182 >gnl|CDD|184829 PRK14807, PRK14807, histidinol-phosphate aminotransferase; Provisional. Length = 351 Score = 29.8 bits (67), Expect = 1.4 Identities = 52/242 (21%), Positives = 97/242 (40%), Gaps = 34/242 (14%) Query: 70 EKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSVMEHHSNIIP 129 EK R+++ R+ + I + E I+L+ + I+ GD ++ H + Sbjct: 62 EKLREELARYCSVVP-TNIFVGNGSDEIIHLIMLAF----INKGDVVIYP----HPSFAM 112 Query: 130 WYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTE-RTKLIAITHMSNVLGTVIPIKEICR 188 + + GA + V + + + F + + + KL+ + + +N G+VI ++I + Sbjct: 113 YSVYSKIAGAVEIPVKLKEDYTYDVGSFIKVIEKYQPKLVFLCNPNNPTGSVIEREDIIK 172 Query: 189 IAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDP 248 I + V+VD + + V I+ +I L G+ GL + NE Sbjct: 173 IIEKSRGIVVVDEAYFEFYGNTIVDVINEFENLIVLRTLSKAFGLAGLRVGYAVANE--- 229 Query: 249 FMGGSEMIADVTQDMVTYADL---PYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYE 305 +++ Y +L PY +SQ IAL V V K +R + E Sbjct: 230 -------------NILKYLNLVKSPYNIN----SLSQVIALKVLRTGVLK-ERVNYILNE 271 Query: 306 RE 307 RE Sbjct: 272 RE 273 >gnl|CDD|184024 PRK13393, PRK13393, 5-aminolevulinate synthase; Provisional. Length = 406 Score = 29.7 bits (67), Expect = 1.6 Identities = 22/78 (28%), Positives = 32/78 (41%), Gaps = 21/78 (26%) Query: 163 ERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYII 222 R KL+A + ++ G + PI EIC +A + +D VH Sbjct: 176 HRPKLVAFESVYSMDGDIAPIAEICDVAEKHGAMTYLD----EVH--------------- 216 Query: 223 TGHKLYGPSGIGGLYSKE 240 LYGP G GG+ +E Sbjct: 217 -AVGLYGPRG-GGIAERE 232 >gnl|CDD|181860 PRK09440, avtA, valine--pyruvate transaminase; Provisional. Length = 416 Score = 29.4 bits (67), Expect = 1.6 Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 8/71 (11%) Query: 150 GFF--HIDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVDGSQG 204 G F H+D + E T I ++ +N G V+ ++++ +A + NIP+L+D + G Sbjct: 163 GQFKYHVDFEHLHIDEDTGAICVSRPTNPTGNVLTDEELEKLDALARQHNIPLLIDNAYG 222 Query: 205 SVH---NFVDV 212 F + Sbjct: 223 PPFPGIIFSEA 233 >gnl|CDD|130881 TIGR01822, 2am3keto_CoA, 2-amino-3-ketobutyrate coenzyme A ligase. This model represents a narrowly defined clade of animal and bacterial (almost exclusively Proteobacterial) 2-amino-3-ketobutyrate--CoA ligase. This enzyme can act in threonine catabolism. The closest homolog from Bacillus subtilis, and sequences like it, may be functionally equivalent but were not included in the model because of difficulty in finding reports of function. Length = 393 Score = 29.4 bits (66), Expect = 1.7 Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 20/87 (22%) Query: 154 IDEFKNRLTE------RTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD------- 200 + + + +L E R +LIA + ++ G + P+ EIC +A + + V+VD Sbjct: 154 MADLEAQLKEARAAGARHRLIATDGVFSMDGVIAPLDEICDLADKYDALVMVDECHATGF 213 Query: 201 -GSQG-SVHNFVDVQD-IDCDWYIITG 224 G G H V +D IITG Sbjct: 214 LGPTGRGSHELCGVMGRVD----IITG 236 >gnl|CDD|181615 PRK09028, PRK09028, cystathionine beta-lyase; Provisional. Length = 394 Score = 28.9 bits (65), Expect = 2.2 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 7/46 (15%) Query: 186 ICRIAHERNIPVLVDGSQGSVHNF------VDVQDIDCDWYIITGH 225 + RIAHE +I V++D + S N VD+ YI+ GH Sbjct: 168 LSRIAHEHDIVVMLDNTWASPINSRPFEMGVDISIQAATKYIV-GH 212 >gnl|CDD|181245 PRK08134, PRK08134, O-acetylhomoserine aminocarboxypropyltransferase; Validated. Length = 433 Score = 28.9 bits (65), Expect = 2.4 Identities = 15/47 (31%), Positives = 25/47 (53%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 ID ++ + T+L+ + N V+ I + IAHE +P+LVD Sbjct: 139 IDGWRAAIRPNTRLLFGETLGNPGLEVLDIPTVAAIAHEAGVPLLVD 185 >gnl|CDD|179838 PRK04366, PRK04366, glycine dehydrogenase subunit 2; Validated. Length = 481 Score = 28.9 bits (66), Expect = 2.4 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%) Query: 144 VPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIP-IKEICRIAHE 192 +P + G ++ K + E T + +T+ N LG I EI I HE Sbjct: 188 IPSNEDGLVDLEALKAAVGEDTAALMLTN-PNTLGLFERNILEIAEIVHE 236 >gnl|CDD|185613 PTZ00433, PTZ00433, tyrosine aminotransferase; Provisional. Length = 412 Score = 28.6 bits (64), Expect = 2.8 Identities = 14/50 (28%), Positives = 29/50 (58%), Gaps = 3/50 (6%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 +DE + + +RTK + +T+ SN G+ +++I R+ E +P++ D Sbjct: 167 LDEIRRLVDDRTKALIMTNPSNPCGSNFSRKHVEDIIRLCEELRLPLISD 216 >gnl|CDD|181738 PRK09265, PRK09265, aminotransferase AlaT; Validated. Length = 404 Score = 28.6 bits (65), Expect = 2.9 Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 3/50 (6%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 +D+ ++++T RTK I I + +N G V ++EI IA + N+ + D Sbjct: 158 LDDIRSKITPRTKAIVIINPNNPTGAVYSKELLEEIVEIARQHNLIIFAD 207 >gnl|CDD|178125 PLN02509, PLN02509, cystathionine beta-lyase. Length = 464 Score = 28.5 bits (63), Expect = 3.1 Identities = 15/50 (30%), Positives = 27/50 (54%) Query: 153 HIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVDGS 202 ++DE + +TKL+ + +N + I++I +AH + VLVD S Sbjct: 206 NLDEVAAAIGPQTKLVWLESPTNPRQQISDIRKIAEMAHAQGALVLVDNS 255 >gnl|CDD|181359 PRK08293, PRK08293, 3-hydroxybutyryl-CoA dehydrogenase; Validated. Length = 287 Score = 28.4 bits (64), Expect = 3.4 Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 1/23 (4%) Query: 211 DVQDIDCDWYIITGHKLYGPSGI 233 D + ID W I TG + GP GI Sbjct: 213 DPETIDKTWMIATGAPM-GPFGI 234 >gnl|CDD|180764 PRK06938, PRK06938, diaminobutyrate--2-oxoglutarate aminotransferase; Provisional. Length = 464 Score = 28.5 bits (64), Expect = 3.5 Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 5/31 (16%) Query: 178 GTVIP-----IKEICRIAHERNIPVLVDGSQ 203 G VIP ++ + RI E IP++VD Q Sbjct: 244 GGVIPAPIEWLRGLRRITEEAGIPLIVDEIQ 274 >gnl|CDD|181130 PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated. Length = 436 Score = 28.2 bits (63), Expect = 3.8 Identities = 13/47 (27%), Positives = 24/47 (51%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIPVLVD 200 +D ++ + TK +SN V+ I + +AHE +P++VD Sbjct: 145 LDAWRAAVRPNTKAFFAETISNPQIDVLDIPGVAEVAHEAGVPLIVD 191 >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 = 28.0 bits (63), Expect = 4.0 Identities = 42/201 (20%), Positives = 77/201 (38%), Gaps = 45/201 (22%) Query: 178 GTVIPIKEICRIAHERNIPVLVD----------GSQGSVHNFVDVQDIDCDWYIITGHKL 227 G + P+ ++ +A ++VD +G++ +F ++ D + T K Sbjct: 160 GDIAPLPQLVALAERYGAWLMVDDAHGTGVLGEDGRGTLEHF-GLKPEPVDIQVGTLSKA 218 Query: 228 YGPSGIGGLYSKESRLNEMDPFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALG 287 G G ++ GS+ + D ++ A F PP + A A Sbjct: 219 LG--SYGA-------------YVAGSQALIDY---LINRAR-TLIFSTALPP-AVAAAAL 258 Query: 288 VALDYVEKID--RKSIFSYERELARYVRSRLKEVRGMQLVNESLEDSPIISFRLGNIHP- 344 AL+ +++ R+ + L +R+ L E G L+ +PI+ +G+ Sbjct: 259 AALELIQEEPWRREKLL----ALIARLRAGL-EALGFTLMP---SCTPIVPVIIGDNASA 310 Query: 345 YDLALFLDGEGI---AIRAGT 362 LA L +GI AIR T Sbjct: 311 LALAEELQQQGIFVGAIRPPT 331 >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 = 28.3 bits (63), Expect = 4.0 Identities = 63/365 (17%), Positives = 116/365 (31%), Gaps = 50/365 (13%) Query: 61 MANAVTDKYEKARDKVRRFINASSVKEIIFTRSATESINLVSYGWGARHISTGDEIVLSV 120 + +T++ K + + VK AT L W + ++ Sbjct: 53 VLAKLTNELVK---DFLKLLGLREVKNCFVVPLATGMSLLCMLSWRRKR-PKAKYVIWPR 108 Query: 121 MEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKN------RLTERTKLIAITHMS 174 ++ S+I G V G + I + + E L ++ S Sbjct: 109 IDQKSSIKAAERA----GFEPRLVETVLDGDYLITDVNDVETIIEEKGEEVILAVLSTTS 164 Query: 175 NVLGTVI-PIKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGI 233 +KEI +I E ++P LV+G+ G +Q + I H+ G Sbjct: 165 CFAPRSPDNVKEIAKICAEYDVPHLVNGAYG-------IQSEETIRLIAAAHEC----GR 213 Query: 234 GGLYSKESRLNEMDPFMGGSEMIADVTQDMVTYADLPYRFEPGTPPISQAIALGVALDYV 293 + N + P G IA + + Y PG + + L + Sbjct: 214 VDAVVQSLDKNFIVPVGGAI--IAAFDESFIQEISEEY---PGRASARPSKDKLITLLSL 268 Query: 294 EKIDRKSIFSYERELARYVRSRLK---EVRGMQLVNESLEDSPIISFRLGNIHP------ 344 ++ ++E+ +R LK E G QL++ +PI S Sbjct: 269 GCKAYLALMKEQKEMFPLLRELLKDLAEEVGEQLLDVP--HNPISSAMTLETLDEISKKG 326 Query: 345 -YDLALFLDGEGIAIRAGTHCANPLLKFLGIDSLCR-----ASLAMYNTYEEADKFIETL 398 DL L + ++P G + R +++ M E+ D IE L Sbjct: 327 RTDLGSELFSRRVTGARVVRSSDPFGTIEGCEYHGRYLNIASAIGM--KDEDVDYVIERL 384 Query: 399 KKSIQ 403 + ++ Sbjct: 385 DEILE 389 >gnl|CDD|180479 PRK06225, PRK06225, aspartate aminotransferase; Provisional. Length = 380 Score = 28.2 bits (63), Expect = 4.0 Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 18/77 (23%) Query: 136 RRGASLVWVPIDNQGFFHIDEFKNRLT---------ERTKLIAITHMSNVLG---TVIPI 183 R GA ++ VPI ++ E +LT E T+LI + N LG T I Sbjct: 126 RFGAEVIEVPIYSE------ECNYKLTPELVKENMDENTRLIYLIDPLNPLGSSYTEEEI 179 Query: 184 KEICRIAHERNIPVLVD 200 KE IA + + +L D Sbjct: 180 KEFAEIARDNDAFLLHD 196 >gnl|CDD|182686 PRK10736, PRK10736, hypothetical protein; Provisional. Length = 374 Score = 28.0 bits (63), Expect = 4.1 Identities = 10/24 (41%), Positives = 12/24 (50%) Query: 331 DSPIISFRLGNIHPYDLALFLDGE 354 DS +L I Y ALF+ GE Sbjct: 78 DSEFYPPQLLAIADYPGALFVSGE 101 >gnl|CDD|184383 PRK13903, murB, UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional. Length = 363 Score = 28.0 bits (63), Expect = 4.4 Identities = 9/21 (42%), Positives = 13/21 (61%) Query: 307 ELARYVRSRLKEVRGMQLVNE 327 LAR VR +++ G+ LV E Sbjct: 335 ALAREVRDGVRDAFGVTLVPE 355 >gnl|CDD|179033 PRK00451, PRK00451, glycine dehydrogenase subunit 1; Validated. Length = 447 Score = 28.2 bits (64), Expect = 4.5 Identities = 14/63 (22%), Positives = 30/63 (47%), Gaps = 2/63 (3%) Query: 137 RGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAHERNIP 196 +G +V VP ++ G ++ + + + T + + + N G + ++EI IAH Sbjct: 178 QGIEVVEVPYED-GVTDLEALEAAVDDDTAAVVVQY-PNFFGVIEDLEEIAEIAHAGGAL 235 Query: 197 VLV 199 +V Sbjct: 236 FIV 238 >gnl|CDD|130392 TIGR01325, O_suc_HS_sulf, O-succinylhomoserine sulfhydrylase. This model describes O-succinylhomoserine sulfhydrylase, one of several related pyridoxal phosphate-dependent enzymes of cysteine and methionine metabolism. This enzyme is part of an alternative pathway of homocysteine biosynthesis, a step in methionine biosynthesis. Length = 380 Score = 27.9 bits (62), Expect = 4.8 Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 11/78 (14%) Query: 125 SNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIK 184 S I+P R G + +V + ++ ++ + TKL+ + SN LG ++ I Sbjct: 111 SEILP------RFGIEVSFVDPTD-----LNAWEAAVKPNTKLVFVETPSNPLGELVDIA 159 Query: 185 EICRIAHERNIPVLVDGS 202 + +AH ++VD Sbjct: 160 ALAELAHAIGALLVVDNV 177 >gnl|CDD|179957 PRK05183, hscA, chaperone protein HscA; Provisional. Length = 616 Score = 27.8 bits (63), Expect = 5.3 Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 5/30 (16%) Query: 249 FMGGSEMIADVTQDMVTYADLPYRFEPGTP 278 FMG S +AD+ Q Y LPY+F Sbjct: 88 FMGRS--LADIQQ---RYPHLPYQFVASEN 112 >gnl|CDD|181642 PRK09082, PRK09082, methionine aminotransferase; Validated. Length = 386 Score = 27.6 bits (62), Expect = 5.8 Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 6/68 (8%) Query: 138 GASLVWVPIDNQGFFHID--EFKNRLTERTKLIAITHMSNVLGTVIPIKEICRIAH---E 192 G V V + F +D F ++ RT+LI + N GTV ++ + Sbjct: 136 GGRAVRVALQPPDF-RVDWQRFAAAISPRTRLIILNTPHNPSGTVWSAADMRALWQLIAG 194 Query: 193 RNIPVLVD 200 +I VL D Sbjct: 195 TDIYVLSD 202 >gnl|CDD|180419 PRK06134, PRK06134, putative FAD-binding dehydrogenase; Reviewed. Length = 581 Score = 27.8 bits (62), Expect = 6.0 Identities = 9/21 (42%), Positives = 12/21 (57%) Query: 306 RELARYVRSRLKEVRGMQLVN 326 R AR++ + RGM LVN Sbjct: 195 RRFARHLIDLARHGRGMHLVN 215 >gnl|CDD|130332 TIGR01265, tyr_nico_aTase, tyrosine/nicotianamine aminotransferases. This subfamily of pyridoxal phosphate-dependent enzymes includes known examples of both tyrosine aminotransferase from animals and nicotianamine aminotransferase from barley. Length = 403 Score = 27.7 bits (62), Expect = 6.2 Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 3/41 (7%) Query: 163 ERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 E+T I + + SN G+V +++I +A + IP++ D Sbjct: 168 EKTVAIVVINPSNPCGSVFSRDHLQKIAEVARKLGIPIIAD 208 >gnl|CDD|130336 TIGR01269, Tyr_3_monoox, tyrosine 3-monooxygenase, tetrameric. This model describes tyrosine 3-monooxygenase, a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tryptophan 5-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria. Length = 457 Score = 27.2 bits (60), Expect = 7.4 Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 18/74 (24%) Query: 29 NAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINASSVKEI 88 N A+ Q QD Y I+ VT+ +E A+ K+R +IN S I Sbjct: 375 NDAAVQPYQDQ----------GYQKIY--------FVTESFEDAKRKLRNYINTSGRPFI 416 Query: 89 IFTRSATESINLVS 102 + TE++ ++ Sbjct: 417 VRFDPITETVEVLD 430 >gnl|CDD|180537 PRK06348, PRK06348, aspartate aminotransferase; Provisional. Length = 384 Score = 27.0 bits (60), Expect = 8.5 Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 3/50 (6%) Query: 154 IDEFKNRLTERTKLIAITHMSNVLGTVIP---IKEICRIAHERNIPVLVD 200 + + + +T +TK I + +N G V ++EI +IA E ++ ++ D Sbjct: 152 VKKLEALITSKTKAIILNSPNNPTGAVFSKETLEEIAKIAIEYDLFIISD 201 >gnl|CDD|180542 PRK06358, PRK06358, threonine-phosphate decarboxylase; Provisional. Length = 354 Score = 26.9 bits (60), Expect = 8.8 Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 4/53 (7%) Query: 152 FHIDE-FKNRLTERTKLIAITHMSNVLGTVIPIKEICRIA---HERNIPVLVD 200 F +E + E L+ + + +N G +I +E+ +I +RNI +++D Sbjct: 128 FAANEIVLEEIKEEIDLVFLCNPNNPTGQLISKEEMKKILDKCEKRNIYLIID 180 >gnl|CDD|178035 PLN02414, PLN02414, glycine dehydrogenase (decarboxylating). Length = 993 Score = 27.0 bits (60), Expect = 8.9 Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 3/68 (4%) Query: 138 GASLVWVPIDNQGFFHIDEFKNRLTERTKLIA---ITHMSNVLGTVIPIKEICRIAHERN 194 G +V V D +G +I+E + +A +T+ S I EIC I H+ Sbjct: 637 GMKIVVVGTDAKGNINIEELRKAAEAHKDNLAALMVTYPSTHGVYEEGIDEICDIIHDNG 696 Query: 195 IPVLVDGS 202 V +DG+ Sbjct: 697 GQVYMDGA 704 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 0.322 0.139 0.414 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: 6,760,105 Number of extensions: 446300 Number of successful extensions: 1132 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1088 Number of HSP's successfully gapped: 105 Length of query: 406 Length of database: 5,994,473 Length adjustment: 96 Effective length of query: 310 Effective length of database: 3,920,105 Effective search space: 1215232550 Effective search space used: 1215232550 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 (21.9 bits) S2: 58 (26.2 bits)