RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780283|ref|YP_003064696.1| thioredoxin reductase (NADPH) protein [Candidatus Liberibacter asiaticus str. psy62] (321 letters) >gnl|CDD|30838 COG0492, TrxB, Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]. Length = 305 Score = 320 bits (822), Expect = 3e-88 Identities = 155/308 (50%), Positives = 204/308 (66%), Gaps = 13/308 (4%) Query: 7 KILIIGSGPAGYTAAIYAARAMLK-PVIIAGSDLGGQLMITESIENYPGFATSIRGDWLM 65 ++IIG GPAG TAAIYAARA LK +I+ G + GGQL T +ENYPGF I G LM Sbjct: 5 DVIIIGGGPAGLTAAIYAARAGLKVVLILEGGEPGGQLTKTTDVENYPGFPGGILGPELM 64 Query: 66 EQMRQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEVKWLRLESE 125 EQM++QAE FG +I++D V V+L+ PF V+T G + A AV+IATG+ + L + E Sbjct: 65 EQMKEQAEKFGVEIVEDEVEKVELEGGPFKVKTDKGT-YEAKAVIIATGAGARKLGVPGE 123 Query: 126 KKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEK 185 ++F+G GVS CATCDGFF K KDV+V+GGG++A EEAL+L+KIA++VT+VHRR R+E+ Sbjct: 124 EEFEGKGVSYCATCDGFF-KGKDVVVIGGGDSAVEEALYLSKIAKKVTLVHRRDEFRAEE 182 Query: 186 ILQEKLFLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGIFIA 245 IL E+L I+ L +T V +++G V GV L N K G E VDG+FIA Sbjct: 183 ILVERLKKNVKIEVLTNTVVKEILGD--------DVEGVVLKNVK-GEEKELPVDGVFIA 233 Query: 246 IGYKPNTKIFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDVADERYRQAITAAAMGCMA 305 IG+ PNT++ + + YI + TS+PGIFAAGDVAD+ RQ TAA G +A Sbjct: 234 IGHLPNTELLKGLGVLDENGYIVV-DEEMETSVPGIFAAGDVADKNGRQIATAAGDGAIA 292 Query: 306 ALEVEHYL 313 AL E YL Sbjct: 293 ALSAERYL 300 >gnl|CDD|35625 KOG0404, KOG0404, KOG0404, Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]. Length = 322 Score = 308 bits (791), Expect = 1e-84 Identities = 146/323 (45%), Positives = 207/323 (64%), Gaps = 16/323 (4%) Query: 1 MASHDSKILIIGSGPAGYTAAIYAARAMLKPVI-----IAGSDLGGQLMITESIENYPGF 55 +H+ ++IIGSGPA +TAAIYAARA LKP++ G GGQL T +EN+PGF Sbjct: 4 GMTHNENVVIIGSGPAAHTAAIYAARAELKPLLFEGMMANGIAPGGQLTTTTDVENFPGF 63 Query: 56 ATSIRGDWLMEQMRQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGS 115 I G LM++MR+Q+E FGT+II + V VDL PF + T + + ADAV++ATG+ Sbjct: 64 PDGITGPELMDKMRKQSERFGTEIITETVSKVDLSSKPFKLWTDARPV-TADAVILATGA 122 Query: 116 EVKWLRL--ESEKKFQGFGVSACATCDGF--FYKNKDVIVVGGGNTAAEEALHLAKIARR 171 K L L E E +F G+SACA CDG ++NK + V+GGG++A EEAL L K A + Sbjct: 123 SAKRLHLPGEGEGEFWQRGISACAVCDGAAPIFRNKPLAVIGGGDSAMEEALFLTKYASK 182 Query: 172 VTIVHRRSSLRSEKILQEKLFLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKE 231 V I+HRR R+ KI+Q++ NI+ L++T V+ +G ++G+R+ N K Sbjct: 183 VYIIHRRDHFRASKIMQQRAEKNPNIEVLYNTVAVEALGDGKL------LNGLRIKNVKT 236 Query: 232 GNFFERNVDGIFIAIGYKPNTKIFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDVADER 291 G + V G+F AIG+ P TK + Q+++ YI T P ++ TS+PG+FAAGDV D++ Sbjct: 237 GEETDLPVSGLFFAIGHSPATKFLKGQVELDEDGYIVTRPGTSLTSVPGVFAAGDVQDKK 296 Query: 292 YRQAITAAAMGCMAALEVEHYLS 314 YRQA+TAA GC+AAL+ E YL+ Sbjct: 297 YRQAVTAAGSGCIAALDAERYLT 319 >gnl|CDD|33432 COG3634, AhpF, Alkyl hydroperoxide reductase, large subunit [Posttranslational modification, protein turnover, chaperones]. Length = 520 Score = 176 bits (447), Expect = 9e-45 Identities = 91/311 (29%), Positives = 156/311 (50%), Gaps = 15/311 (4%) Query: 8 ILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENYPGFATSIRGDWLMEQ 67 +L++G GPAG AAIYAAR ++ ++A GGQ++ T IEN+ G L Sbjct: 214 VLVVGGGPAGAAAAIYAARKGIRTGLVA-ERFGGQVLDTMGIENFIS-VPETEGPKLAAA 271 Query: 68 MRQQAENFGTKIIQDLVVSVDLDRHP-----FLVETQSGDLWHADAVVIATGSEVKWLRL 122 + + + ++ +L + L+ VE +G + A V++ATG+ + + + Sbjct: 272 LEAHVKQYDVDVM-NLQRASKLEPAAVEGGLIEVELANGAVLKARTVILATGARWRNMNV 330 Query: 123 ESEKKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLR 182 E +++ GV+ C CDG +K K V V+GGGN+ E A+ LA I VT++ L+ Sbjct: 331 PGEDEYRNKGVAYCPHCDGPLFKGKRVAVIGGGNSGVEAAIDLAGIVEHVTLLEFAPELK 390 Query: 183 SEKILQEKLFLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGI 242 ++ +LQ+KL N+ + + + +V G V+G+ ++ G ++G+ Sbjct: 391 ADAVLQDKLRSLPNVTIITNAQTTEVKGD------GDKVTGLEYRDRVSGEEHHLELEGV 444 Query: 243 FIAIGYKPNTKIFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDVADERYRQAITAAAMG 302 F+ IG PNT+ + +++ I + T++PG+FAAGD Y+Q I A G Sbjct: 445 FVQIGLLPNTEWLKGAVELNRRGEI-IVDARGETNVPGVFAAGDCTTVPYKQIIIAMGEG 503 Query: 303 CMAALEVEHYL 313 A+L YL Sbjct: 504 AKASLSAFDYL 514 >gnl|CDD|31441 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]. Length = 454 Score = 89.1 bits (221), Expect = 2e-18 Identities = 80/341 (23%), Positives = 133/341 (39%), Gaps = 67/341 (19%) Query: 8 ILIIGSGPAGYTAAIYAARAMLKPVII-AGSDLGGQ----------------LMITESIE 50 +++IG+GPAGY AAI AA+ LK ++ G LGG +I E+ Sbjct: 7 VVVIGAGPAGYVAAIRAAQLGLKVALVEKGERLGGTCLNVGCIPSKALLHAAEVIEEARH 66 Query: 51 NYPGFATSIRGDWL-MEQMRQQAENFGTKI---IQDLVVS--VDL--------DRHPFLV 96 + S + E++ + + + ++ L+ VD+ D H V Sbjct: 67 AAKEYGISAEVPKIDFEKLLARKDKVVRLLTGGVEGLLKKNGVDVIRGEARFVDPHTVEV 126 Query: 97 ETQSGDLWHADAVVIATGSEVKWLRLESEKKFQGFGVSACATCDGFFYKN---KDVIVVG 153 + + AD ++IATGS + G + + K +++VG Sbjct: 127 TGEDKETITADNIIIATGSRPRIP------PGPGIDGARILDSSDALFLLELPKSLVIVG 180 Query: 154 GGNTAAEEALHLAKIARRVTIVHRRSS-LRSE-----KILQEKLFLQSNIDFLFDTEVVD 207 GG E A A + +VT+V R L E K L ++L + + L +T+V Sbjct: 181 GGYIGLEFASVFAALGSKVTVVERGDRILPGEDPEISKELTKQL-EKGGVKILLNTKVTA 239 Query: 208 VIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGIFIAIGYKPNTKIFRHQ---LKMTNT 264 V V L + + G D + +AIG KPNT + +++ + Sbjct: 240 VEKK-------DDGVLVTLEDGEGGTI---EADAVLVAIGRKPNTDGLGLENAGVELDDR 289 Query: 265 NYIWTMPDSTATSIPGIFAAGDVADER------YRQAITAA 299 +I D T++PGI+A GDV + AA Sbjct: 290 GFIKV-DDQMTTNVPGIYAIGDVIGGPMLAHVAMAEGRIAA 329 Score = 27.5 bits (61), Expect = 4.7 Identities = 11/37 (29%), Positives = 19/37 (51%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSL 181 K DV+V+G G A+ A++ +V +V + L Sbjct: 3 KEYDVVVIGAGPAGYVAAIRAAQLGLKVALVEKGERL 39 >gnl|CDD|30795 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]. Length = 415 Score = 75.7 bits (185), Expect = 2e-14 Identities = 66/321 (20%), Positives = 112/321 (34%), Gaps = 34/321 (10%) Query: 8 ILIIGSGPAGYTAAIYAARAMLK-PVIIAGSDLGGQLMITESIENYPGFATSIRGDW--L 64 I+I+G G AG +AA R +L + + G + + + G L Sbjct: 1 IVIVGGGAAGLSAATTLRRLLLAAEITLIGREPKYSY-------YRCPLSLYVGGGIASL 53 Query: 65 MEQMRQQAENFGTKIIQDL---VVSVDLDRHPFLVETQSGDLWHADAVVIATGSEVKWLR 121 + N T I V S+D + +V G++ D +V+ATG+ + Sbjct: 54 EDLRYPPRFNRATGIDVRTGTEVTSIDPENK--VVLLDDGEI-EYDYLVLATGARPRPPP 110 Query: 122 LE-SEKKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRS- 179 + E G KDV+VVG G E A AK ++VT++ Sbjct: 111 ISDWEGVVTLRLREDAEALKGGAEPPKDVVVVGAGPIGLEAAEAAAKRGKKVTLIEAADR 170 Query: 180 ---SLRSEKILQE--KLFLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKEGNF 234 L ++ +E +L + ++ L T+VV V G + R+ Sbjct: 171 LGGQLLDPEVAEELAELLEKYGVELLLGTKVVGVEGKGNT------LVVERVVGIDGE-- 222 Query: 235 FERNVDGIFIAIGYKPNTKIFRHQL--KMTNTNYIWTMPDSTATSIPGIFAAGDVADERY 292 E D + I G +PN + L + + P ++AAGDVA+ Sbjct: 223 -EIKADLVIIGPGERPNVVLANDALPGLALAGGAVLVDERGGTSKDPDVYAAGDVAEIPA 281 Query: 293 RQAITAAAMGCMAALEVEHYL 313 + + A + Sbjct: 282 AETGKGGRIALWAIAVAAGRI 302 Score = 39.1 bits (90), Expect = 0.002 Identities = 50/255 (19%), Positives = 76/255 (29%), Gaps = 20/255 (7%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVII-AGSDLGGQLMITESIENYPGFATSIRGDWLM 65 ++++G+GP G AA AA+ K +I A LGGQL+ E + L Sbjct: 138 DVVVVGAGPIGLEAAEAAAKRGKKVTLIEAADRLGGQLLDPEV------------AEELA 185 Query: 66 EQMRQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEVKWLRLESE 125 E + + V V G+ AD V+I G E + L ++ Sbjct: 186 ELLEKYGVELLLGTKVVGVEGKGNTLVVERVVGIDGEEIKADLVIIGPG-ERPNVVLAND 244 Query: 126 KKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHLAKIAR--RVTIVHRRSSLRS 183 D +KD V G+ A A K R I + + Sbjct: 245 ALPGLALAGGAVLVDERGGTSKDPDVYAAGDVAEIPAAETGKGGRIALWAIAVAAGRIAA 304 Query: 184 EKILQEKLF---LQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVD 240 E I L + I + D G V V K + Sbjct: 305 ENIAGALRIPGLLGTVISDVGDLCAAST-GLTEGKERGIDVVLVVSGGKDPRAHLYPGAE 363 Query: 241 GIFIAIGYKPNTKIF 255 + I + +T Sbjct: 364 LVGIKLVGDADTGRI 378 >gnl|CDD|36550 KOG1336, KOG1336, KOG1336, Monodehydroascorbate/ferredoxin reductase [General function prediction only]. Length = 478 Score = 71.9 bits (176), Expect = 2e-13 Identities = 66/304 (21%), Positives = 106/304 (34%), Gaps = 31/304 (10%) Query: 1 MASHDSKILIIGSGPAGYTAAIY--AARAMLKPVIIAGSDLGGQLMITESIENYPGFATS 58 +I+G GP G A + ++ L + F + Sbjct: 70 AGYAARHFVIVGGGPGGAVAIETLRQVGFTERIALVKREYL-----LPYDRARLSKFLLT 124 Query: 59 IRGDWLMEQMRQQAENFGTKII-QDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEV 117 + L ++ + + G ++I VV DL + +G+ ++IATGS Sbjct: 125 VGEG-LAKRTPEFYKEKGIELILGTSVVKADLASK--TLVLGNGETLKYSKLIIATGSSA 181 Query: 118 KWLRL---ESEKKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHLAKIARRVTI 174 K L + E + F + V+ VGGG E A L A+ VT+ Sbjct: 182 KTLDIPGVELKNVFYLREIEDANRLVAAIQLGGKVVCVGGGFIGMEVAAALVSKAKSVTV 241 Query: 175 VHRRS----SLRSEKILQ--EKLFLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHN 228 V L I Q E + + F T V + G+ VS V+L + Sbjct: 242 VFPEPWLLPRLFGPSIGQFYEDYYENKGVKFYLGTVVSSLEGNSDG-----EVSEVKLKD 296 Query: 229 KKEGNFFERNVDGIFIAIGYKPNTKIFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDVA 288 K D + + IG KPNT + + + I + TS+P ++A GDVA Sbjct: 297 GK-----TLEADLVVVGIGIKPNTSFLEKGILLDSKGGIKV-DEFFQTSVPNVYAIGDVA 350 Query: 289 DERY 292 Sbjct: 351 TFPL 354 >gnl|CDD|32255 COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]. Length = 443 Score = 68.6 bits (167), Expect = 2e-12 Identities = 56/319 (17%), Positives = 104/319 (32%), Gaps = 38/319 (11%) Query: 1 MASHDSKILIIGSGPAGYTAAIYAARAMLKPVII--AGSDLGGQL------MIT------ 46 + + + IIG+G +G AA +A + +I D+GG + Sbjct: 4 GVATHTDVAIIGAGQSGLAAAYALKQAGVPDFVIFEKRDDVGGTWRYNRYPGLRLDSPKW 63 Query: 47 ---------ESIENYPGFATSIRGDWLMEQMRQQAENFGTKIIQDL-VVSVDLDRHPFLV 96 E + FA I+ D++ + + + F + + V D D + V Sbjct: 64 LLGFPFLPFRWDEAFAPFA-EIK-DYIKDYLEKYGLRFQIRFNTRVEVADWDEDTKRWTV 121 Query: 97 ETQSG--DLWHADAVVIATG--SEVKWLRLESEKKFQGFGVSACATCDGFFYKNKDVIVV 152 T G AD VV+ATG SE +F+G + + + + K V+V+ Sbjct: 122 TTSDGGTGELTADFVVVATGHLSEPYIPDFAGLDEFKGRILHSADWPNPEDLRGKRVLVI 181 Query: 153 GGGNTAAEEALHLAKIARRVTIVHRRSSL-----RSEKILQEKLFLQSNIDFLFDTEVVD 207 G G +A + A LA++ VT+ R + + +L L+ + + Sbjct: 182 GAGASAVDIAPELAEVGASVTLSQRSPPHILPKPLLGEEVGGRLALRRALPAGWALRRGR 241 Query: 208 VI-GSIPEPPLFPSVSGVRLH-NKKEGNFFERNVDGIFIAIGYKPNTKIFRHQLKMTNTN 265 V+ +P P+ V + P+ +L Sbjct: 242 VLDALLPGAGYLPAFPAPDKRVEALLRAALRFLVLDAGVREDLGPDYAPGDGRLVPDGDL 301 Query: 266 YIWTMPDSTATSIPGIFAA 284 + + I Sbjct: 302 FE-AGASGDVEVVTEIIDR 319 >gnl|CDD|30839 COG0493, GltD, NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]. Length = 457 Score = 68.0 bits (166), Expect = 3e-12 Identities = 77/347 (22%), Positives = 124/347 (35%), Gaps = 61/347 (17%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENYPGFATSIRGDWLME 66 K+ +IG+GPAG AA +RA + L G L++ I ++ + D +E Sbjct: 125 KVAVIGAGPAGLAAADDLSRAGHDVTVFERVALDGGLLLY-GIPDFKLPKDIL--DRRLE 181 Query: 67 QMRQQAENF--GTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEV-KWLRLE 123 + + F ++ +D+ + L + DAV +ATG+ + L + Sbjct: 182 LLERSGVEFKLNVRVGRDITLEELLKEY--------------DAVFLATGAGKPRPLDIP 227 Query: 124 SE------------KKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHLAKI--A 169 E + + A K K V+V+GGG+TA + A A Sbjct: 228 GEDAKGVAFALDFLTRLNKEVLGDFAEDRTPPAKGKRVVVIGGGDTAM-DCAGTALRLGA 286 Query: 170 RRVTIVHRR------------------SSLRSEKILQEKLFLQSNIDFLFDTE--VVDVI 209 + VT +R S E + E+L F+ + V V Sbjct: 287 KSVTCFYREDRDDETNEWPTWAAQLEVRSAGEEGV--ERLPFVQPKAFIGNEGGRVTGVK 344 Query: 210 GSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGIFIAIGYKPNTKIF---RHQLKMTNTNY 266 EP + G R G D + +AIG++ + LK+ Sbjct: 345 FGRVEPGEYVDGWGRRGPVGVIGTEKTDAADTVILAIGFEGDATDGLLLEFGLKLDKRGR 404 Query: 267 IWTMPDSTATSIPGIFAAGDVADERYRQAITAAAMGCMAALEVEHYL 313 I + TSIPG+FA GD + A A G AA ++ L Sbjct: 405 IKVDENLQQTSIPGVFAGGDAVRGA-ALVVWAIAEGREAAKAIDKEL 450 >gnl|CDD|36613 KOG1399, KOG1399, KOG1399, Flavin-containing monooxygenase [Secondary metabolites biosynthesis, transport and catabolism]. Length = 448 Score = 58.5 bits (141), Expect = 2e-09 Identities = 57/244 (23%), Positives = 94/244 (38%), Gaps = 47/244 (19%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVII-AGSDLGGQLMITESIEN-------------- 51 + +IG+GPAG AA R + V+ D+GG TE++E Sbjct: 8 DVAVIGAGPAGLAAARELLREGHEVVVFERTDDIGGLWKYTENVEVVHSSVYKSLRTNLP 67 Query: 52 -----YPGFATSIRGDWLM-------EQMRQQAENFG-TKIIQDLVVSVDLDRHP---FL 95 Y F R E +R A++F K+I V +D + Sbjct: 68 KEMMGYSDFPFPERDPRYFPSHREVLEYLRDYAKHFDLLKMINFNTEVVRVDSIDKGKWR 127 Query: 96 VETQSGDLWH----ADAVVIATG-------SEVKWLRLESEKKFQGFGVSACATCDGFFY 144 V T+ DAVV+ TG ++ +ES F+G + + + Sbjct: 128 VTTKDNGTQIEEEIFDAVVVCTGHYVEPRIPQIPGPGIES---FKGKIIHSHDYKSPEKF 184 Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEK--ILQEKLFLQSNIDFLFD 202 ++K V+VVG GN+ + +L L ++A+ V + + E IL E L+ +I + Sbjct: 185 RDKVVLVVGCGNSGMDISLDLLRVAKEVHLSVVSPKVHVEPPEILGENLWQVPSIKSFTE 244 Query: 203 TEVV 206 V Sbjct: 245 DGSV 248 >gnl|CDD|143852 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide oxidoreductase. This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain. Length = 82 Score = 55.7 bits (135), Expect = 2e-08 Identities = 31/89 (34%), Positives = 42/89 (47%), Gaps = 14/89 (15%) Query: 149 VIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRS------EKILQEKLFLQSNIDFLFD 202 V+VVGGG E A LAK+ +VT+V RR L KILQEKL ++ I+ L + Sbjct: 2 VVVVGGGYIGLEFASALAKLGSKVTVVERRDRLLRGFDEEIAKILQEKLE-KNGIEVLLN 60 Query: 203 TEVVDVIGSIPEPPLFPSVSGVRLHNKKE 231 T V ++ G+ V L Sbjct: 61 TTVEEIEGN-------GDGVLVVLETGDG 82 >gnl|CDD|36549 KOG1335, KOG1335, KOG1335, Dihydrolipoamide dehydrogenase [Energy production and conversion]. Length = 506 Score = 54.5 bits (131), Expect = 4e-08 Identities = 69/334 (20%), Positives = 117/334 (35%), Gaps = 68/334 (20%) Query: 4 HDSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSD-LGG--------------------Q 42 +D +++IG GP GY AAI AA+ LK + LGG Sbjct: 38 NDYDVVVIGGGPGGYVAAIKAAQLGLKTACVEKRGTLGGTCLNVGCIPSKALLNNSHLYH 97 Query: 43 LMITESIENYPGFATSIRGDWLMEQMRQQAENFGTKIIQDLVVSVD-------------L 89 E + +S+ D ++ M + +N ++ + L Sbjct: 98 EAQHEDFASRGIDVSSVSLD--LQAMMKAKDNAVKQLTGGIENLFKKNKVTYVKGFGSFL 155 Query: 90 DRHPFLVETQSGDLWHADA--VVIATGSEVKWLRLESEKKFQGFGV--SACATCDGFF-- 143 D + V+ G+ A ++IATGSEV F G + + G Sbjct: 156 DPNKVSVKKIDGEDQIIKAKNIIIATGSEV--------TPFPGITIDEKKIVSSTGALSL 207 Query: 144 -YKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSL------RSEKILQEKLFLQSN 196 K + V+G G E +++ VT+V + K Q L Q Sbjct: 208 KEVPKKLTVIGAGYIGLEMGSVWSRLGSEVTVVEFLDQIGGVMDGEISKAFQRVLQKQG- 266 Query: 197 IDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGIFIAIGYKPNTK--- 253 I F T+V + P + + N K G D + ++IG +P T+ Sbjct: 267 IKFKLGTKVTSATRNGDGPVE------IEVENAKTGKKETLECDVLLVSIGRRPFTEGLG 320 Query: 254 IFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDV 287 + + +++ + + T +P I+A GDV Sbjct: 321 LEKIGIELDKRGRV-IVNTRFQTKVPHIYAIGDV 353 >gnl|CDD|39914 KOG4716, KOG4716, KOG4716, Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]. Length = 503 Score = 49.2 bits (117), Expect = 1e-06 Identities = 80/350 (22%), Positives = 129/350 (36%), Gaps = 83/350 (23%) Query: 3 SHDSKILIIGSGPAGYT----AAIYAARAML----KPVIIAGS-DLGG----------QL 43 S+D +++IG G G AA A+ KP S LGG +L Sbjct: 17 SYDYDLIVIGGGSGGLACAKEAADLGAKVACLDFVKPTPQGTSWGLGGTCVNVGCIPKKL 76 Query: 44 M-----ITESIENYPGFA-----TSIRGDW--LME--QMRQQAENFGTKII--QDLVVSV 87 M + E++ + + I+ DW L++ Q ++ N+G ++ + V + Sbjct: 77 MHQAALLGEALHDARKYGWNVDEQKIKHDWNKLVKSVQNHIKSLNWGYRVQLREKKVEYI 136 Query: 88 D-----LDRHPFLVETQSG--DLWHADAVVIATGSEVKWLRLESEKKFQGFGVSACATCD 140 + +D H + G A+ VIATG ++ + K++ T D Sbjct: 137 NSYGEFVDPHKIKATNKKGKERFLTAENFVIATGLRPRYPDIPGAKEY-------GITSD 189 Query: 141 GFF---YKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLR------SEKILQEKL 191 F Y+ +VVG G A E A L VT++ R LR +E + + Sbjct: 190 DLFSLPYEPGKTLVVGAGYVALECAGFLKGFGYDVTVMVRSILLRGFDQDMAELVA--EH 247 Query: 192 FLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGIFIAIGYKPN 251 + I FL T V I + L V N G E D + AIG K Sbjct: 248 MEERGIKFLRKTVPERV-EQIDDGKLR-----VFYKNTNTGEEGEEEYDTVLWAIGRKAL 301 Query: 252 T----------KIFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDVADER 291 T K K+ D AT++P ++A GD+ +++ Sbjct: 302 TDDLNLDNAGVKTNEKSGKIPVD-------DEEATNVPYVYAVGDILEDK 344 >gnl|CDD|31443 COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and conversion]. Length = 793 Score = 49.1 bits (117), Expect = 2e-06 Identities = 68/302 (22%), Positives = 117/302 (38%), Gaps = 41/302 (13%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENY--PGFATSIRGDWL 64 K++IIG+G AG +L+ A + E NY ++ + G+ Sbjct: 5 KLVIIGNGMAG----HRTIEELLE---SAPDLYDITVFGEEPRPNYNRILLSSVLAGEKT 57 Query: 65 MEQMRQQAENFGTK-----IIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEVKW 119 E + ++ + + V+ +D +V T +G D ++IATGS Sbjct: 58 AEDISLNRNDWYEENGITLYTGEKVIQIDRANK--VVTTDAGRTVSYDKLIIATGSYPFI 115 Query: 120 LRLESEKKFQGFGVSACATCDGFF--YKNKD-VIVVGGGNTAAEEALHLAKIARRVTIVH 176 L + F + +NK +V+GGG E A L + VT+VH Sbjct: 116 LPIPGSDLPGVFVYRTIDDVEAMLDCARNKKKAVVIGGGLLGLEAARGLKDLGMEVTVVH 175 Query: 177 RRSSLRSEKI-------LQEKLFLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNK 229 +L ++ L+ KL I L + +++G V GVR Sbjct: 176 IAPTLMERQLDRTAGRLLRRKL-EDLGIKVLLEKNTEEIVGE-------DKVEGVRF--- 224 Query: 230 KEGNFFERNVDGIFIAIGYKPNTKIFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDVAD 289 +G E D + +A+G +PN ++ + N + + D TS P I+A G+ A+ Sbjct: 225 ADGT--EIPADLVVMAVGIRPNDELAKEAGLAVNRGIV--VNDYMQTSDPDIYAVGECAE 280 Query: 290 ER 291 R Sbjct: 281 HR 282 >gnl|CDD|31444 COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]. Length = 405 Score = 47.1 bits (112), Expect = 6e-06 Identities = 68/336 (20%), Positives = 108/336 (32%), Gaps = 59/336 (17%) Query: 1 MASHDSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENYPGFATSIR 60 M +I+I+G G G +AA AR + I L AT Sbjct: 1 MMKK--RIVILGGGFGGLSAAKRLARKLPDVEITLVDRRDYHLFTPL----LYEVATGTL 54 Query: 61 GDW-LMEQMRQQAENFG-TKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEVK 118 + + +R G + +Q V +D D V D +V+A GSE Sbjct: 55 SESEIAIPLRALLRKSGNVQFVQGEVTDIDRDAK--KVTLADLGEISYDYLVVALGSETN 112 Query: 119 WLR-------------LESEKKFQGFGVSACATCDGFFYKNK--DVIVVGGGNTAAEEAL 163 + LE + + + A +++VGGG T E A Sbjct: 113 YFGIPGAAEYAFGLKTLEDALRLRRHLLEAFEKASQEEDDRALLTIVIVGGGPTGVELAG 172 Query: 164 HLAKIAR-------------RVTIVHRRSSL---RSEKILQ--EKLFLQSNIDFLFDTEV 205 LA+ RV +V + K+ + E+ + ++ L T V Sbjct: 173 ELAERLHRLLKKFRVDPSELRVILVEAGPRILPMFPPKLSKYAERALEKLGVEVLLGTPV 232 Query: 206 VDVIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGIFIAIGYKPNTKIFRHQLKMTN-T 264 +V P GV L + +E E D + A G + + + T+ Sbjct: 233 TEV-----TP------DGVTLKDGEE----EIPADTVVWAAGVRASPLLKDLSGLETDRR 277 Query: 265 NYIWTMPDSTATSIPGIFAAGDVADERYRQAITAAA 300 + P P IFAAGD A + + A Sbjct: 278 GRLVVNPTLQVPGHPDIFAAGDCAAVIDPRPVPPTA 313 >gnl|CDD|35626 KOG0405, KOG0405, KOG0405, Pyridine nucleotide-disulphide oxidoreductase [Secondary metabolites biosynthesis, transport and catabolism]. Length = 478 Score = 44.2 bits (104), Expect = 5e-05 Identities = 51/211 (24%), Positives = 82/211 (38%), Gaps = 31/211 (14%) Query: 106 ADAVVIATGSEVKWLRLESEKKFQGFGVSACATCDGFF---YKNKDVIVVGGGNTAAEEA 162 A ++IATG + G DGFF + K V+VVG G A E A Sbjct: 154 AKHILIATGGRPIIPNIP--------GAELGIDSDGFFDLEEQPKRVVVVGAGYIAVEFA 205 Query: 163 LHLAKIARRVTIVHRRSS-LRS-EKILQEKL---FLQSNIDFLFDTEVVDVIGSIPEPPL 217 A + + R+ LR ++++ + + I+ ++ V VI + L Sbjct: 206 GIFAGLGSETHLFIRQEKVLRGFDEMISDLVTEHLEGRGINVHKNSSVTKVIKTDDGLEL 265 Query: 218 FPSVSGVRLHNKKEGNFFERNVDGIFIAIGYKPNTKIFRHQ---LKMTNTNYIWTMPDST 274 + G +VD + AIG KPNTK + +K I + + Sbjct: 266 VITSHGT-----------IEDVDTLLWAIGRKPNTKGLNLENVGVKTDKNGAI-IVDEYQ 313 Query: 275 ATSIPGIFAAGDVADERYRQAITAAAMGCMA 305 T++P I+A GDV + + AA +A Sbjct: 314 NTNVPSIWAVGDVTGKINLTPVAIAAGRKLA 344 >gnl|CDD|32264 COG2081, COG2081, Predicted flavoproteins [General function prediction only]. Length = 408 Score = 42.9 bits (101), Expect = 1e-04 Identities = 37/163 (22%), Positives = 65/163 (39%), Gaps = 58/163 (35%) Query: 7 KILIIGSGPAGYTAAIYAARA------------MLKPVIIAGSDLGGQLMITES------ 48 ++IIG GPAG AAI AA+A + + ++++G GG+ T S Sbjct: 5 DVIIIGGGPAGLMAAISAAKAGRRVLLIDKGPKLGRKILMSG---GGRCNFTNSEAPDEF 61 Query: 49 IENYPGFATSIRG-----------DW-------------------------LMEQMRQQA 72 + PG ++ DW +++ + ++ Sbjct: 62 LSRNPGNGHFLKSALARFTPEDFIDWVEGLGIALKEEDLGRMFPDSDKASPIVDALLKEL 121 Query: 73 ENFGTKII-QDLVVSVDLDRHPFLVETQSGDLWHADAVVIATG 114 E G I + V SV+ D F ++T SG+ D++++ATG Sbjct: 122 EALGVTIRTRSRVSSVEKDDSGFRLDTSSGETVKCDSLILATG 164 Score = 27.1 bits (60), Expect = 7.7 Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEKIL 187 + DVI++GGG A+ AK RRV ++ + L KIL Sbjct: 2 ERFDVIIIGGGPAGLMAAISAAKAGRRVLLIDKGPKL-GRKIL 43 >gnl|CDD|30989 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production and conversion]. Length = 396 Score = 38.6 bits (89), Expect = 0.002 Identities = 37/195 (18%), Positives = 66/195 (33%), Gaps = 47/195 (24%) Query: 8 ILIIGSGPAGYTAAIYAARAMLKPVII-AGSDLG-----GQLMITESIENY-----PGFA 56 ++I+G+GPAG +AA A+A L +++ GS+ G G + ++E Sbjct: 6 VVIVGAGPAGSSAARRLAKAGLDVLVLEKGSEPGAKPCCGGGLSPRALEELIPDFDEEIE 65 Query: 57 TSIRGDWLM------------------------EQMRQQAENFGTKIIQDLVVSVDL--D 90 + G + + + ++AE G ++ V+ + D Sbjct: 66 RKVTGARIYFPGEKVAIEVPVGEGYIVDRAKFDKWLAERAEEAGAELYPGTRVTGVIRED 125 Query: 91 RHPFLVETQSGDLWHADAVVIATGSE---VKWLRLESEKK-------FQGFGVSACATCD 140 + D A V+ A G + L L+ K + V + Sbjct: 126 DGVVVGVRAGDDEVRAKVVIDADGVNSALARKLGLKDRKPEDYAIGVKEVIEVPDDGDVE 185 Query: 141 GFFYKNKDVIVVGGG 155 F Y DV G G Sbjct: 186 EFLYGPLDVGPGGYG 200 Score = 32.8 bits (74), Expect = 0.12 Identities = 19/97 (19%), Positives = 36/97 (37%), Gaps = 10/97 (10%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEKILQEKLFLQSNIDFLFDTEVVD 207 DV++VG G + A LAK V ++ + S ++ L ++ Sbjct: 5 DVVIVGAGPAGSSAARRLAKAGLDVLVLEKGSEPGAKPCCGGGL----------SPRALE 54 Query: 208 VIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGIFI 244 + + + V+G R++ E E V +I Sbjct: 55 ELIPDFDEEIERKVTGARIYFPGEKVAIEVPVGEGYI 91 >gnl|CDD|31822 COG1635, THI4, Flavoprotein involved in thiazole biosynthesis [Coenzyme metabolism]. Length = 262 Score = 37.5 bits (87), Expect = 0.005 Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 7/47 (14%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVII-------AGSDLGGQLM 44 +S ++I+G+GP+G TAA Y A+A LK I G GG L Sbjct: 30 ESDVIIVGAGPSGLTAAYYLAKAGLKVAIFERKLSFGGGIWGGGMLF 76 Score = 30.6 bits (69), Expect = 0.59 Identities = 15/38 (39%), Positives = 20/38 (52%) Query: 144 YKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSL 181 Y DVI+VG G + A +LAK +V I R+ S Sbjct: 28 YLESDVIIVGAGPSGLTAAYYLAKAGLKVAIFERKLSF 65 >gnl|CDD|144475 pfam00890, FAD_binding_2, FAD binding domain. This family includes members that bind FAD. This family includes the flavoprotein subunits from succinate and fumarate dehydrogenase, aspartate oxidase and the alpha subunit of adenylylsulphate reductase. Length = 401 Score = 37.3 bits (87), Expect = 0.005 Identities = 14/34 (41%), Positives = 20/34 (58%) Query: 8 ILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGG 41 +++IGSG AG AA+ AA A LK ++ G Sbjct: 2 VVVIGSGLAGLAAALEAAEAGLKVAVVEKGQPFG 35 >gnl|CDD|145231 pfam01946, Thi4, Thi4 family. This family includes a putative thiamine biosynthetic enzyme. Length = 229 Score = 37.4 bits (87), Expect = 0.006 Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 7/46 (15%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVII-------AGSDLGGQL 43 +S ++I+G+GP+G TAA Y A+ LK II G+ GG L Sbjct: 17 ESDVVIVGAGPSGLTAAYYLAKKGLKVAIIERSLSPGGGAWGGGML 62 Score = 26.6 bits (59), Expect = 8.9 Identities = 14/37 (37%), Positives = 20/37 (54%) Query: 144 YKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSS 180 Y DV++VG G + A +LAK +V I+ R S Sbjct: 15 YAESDVVIVGAGPSGLTAAYYLAKKGLKVAIIERSLS 51 >gnl|CDD|144651 pfam01134, GIDA, Glucose inhibited division protein A. Length = 391 Score = 37.1 bits (87), Expect = 0.007 Identities = 39/154 (25%), Positives = 55/154 (35%), Gaps = 49/154 (31%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIA---------------GSD-----------LG 40 +++IG G AG AA+ AAR K ++I G LG Sbjct: 1 DVIVIGGGHAGCEAALAAARMGAKVLLITHNTDTIAELSCNPSIGGIAKGHLVREIDALG 60 Query: 41 GQLM-------ITESIENYP-GFATSIRGDWLMEQ---------MRQQAENF-GTKIIQD 82 G + I + N G A L Q M + EN +IQ Sbjct: 61 GLMGKAADKTGIQFRMLNTSKGPA----VRALRAQVDRDLYSKEMTETLENHPNLTLIQG 116 Query: 83 LVVSVDLDRHPFL-VETQSGDLWHADAVVIATGS 115 V + + V T+ G+ + A AVVIATG+ Sbjct: 117 EVTDLIPENGKVKGVVTEDGEEYKAKAVVIATGT 150 Score = 27.5 bits (62), Expect = 4.7 Identities = 11/20 (55%), Positives = 14/20 (70%) Query: 148 DVIVVGGGNTAAEEALHLAK 167 DVIV+GGG+ E AL A+ Sbjct: 1 DVIVIGGGHAGCEAALAAAR 20 >gnl|CDD|35620 KOG0399, KOG0399, KOG0399, Glutamate synthase [Amino acid transport and metabolism]. Length = 2142 Score = 36.5 bits (84), Expect = 0.011 Identities = 74/336 (22%), Positives = 111/336 (33%), Gaps = 85/336 (25%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGSD-LGGQLMITESIENYPGFATSIRGDWLM 65 ++ IIGSGPAG AA +A + SD +GG LM F R + Sbjct: 1787 RVAIIGSGPAGLAAADQLNKAGHTVTVYERSDRVGGLLMYGIPNMKLDKFVVQRR----V 1842 Query: 66 EQMRQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEV-------- 117 + + Q+ F T VS+D L + DA+V+ATGS Sbjct: 1843 DLLEQEGIRFVTNTEIGKHVSLD-----ELKKEN-------DAIVLATGSTTPRDLPVPG 1890 Query: 118 --------------KWLRLESEKKFQGFGVSACATCDGFFYKNKDVIVVGGGNTA----A 159 K + + G +SA K K VIV+GGG+T Sbjct: 1891 RDLKGVHFAMEFLEKNTKSLLDSVLDGNYISA---------KGKKVIVIGGGDTGTDCIG 1941 Query: 160 EEALHLAKIARRVTIVHRRSSLRSEKILQEKLFLQSNIDFLFDTEVVDVIGSIPEPPLFP 219 H K ++ + R+ + +D+ E + GS P Sbjct: 1942 TSVRHGCKSVGNFELLPQPPPERAPDNPWPQWPRVFRVDY-GHAEAKEHYGSDPRTY--- 1997 Query: 220 SVSGVRLHNKKEGNF---------FERNVDGIFIAIGYKPNTKIF--------------- 255 SV R GN +E++ G + + +I Sbjct: 1998 SVLTKRFIGDDNGNVTGLETVRVEWEKDDKGRWQMKEINNSEEIIEADLVILAMGFVGPE 2057 Query: 256 -----RHQLKMTNTNYIWTMPDSTATSIPGIFAAGD 286 + LK + I T DS +T + +FAAGD Sbjct: 2058 KSVIEQLNLKTDPRSNILTPKDSYSTDVAKVFAAGD 2093 >gnl|CDD|31253 COG1053, SdhA, Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]. Length = 562 Score = 36.1 bits (83), Expect = 0.012 Identities = 15/34 (44%), Positives = 21/34 (61%) Query: 1 MASHDSKILIIGSGPAGYTAAIYAARAMLKPVII 34 M H+ +++IG G AG AAI AA A LK ++ Sbjct: 2 MTIHEFDVVVIGGGGAGLRAAIEAAEAGLKVALL 35 Score = 28.0 bits (62), Expect = 3.6 Identities = 11/23 (47%), Positives = 13/23 (56%) Query: 266 YIWTMPDSTATSIPGIFAAGDVA 288 I T T IPG+FAAG+ A Sbjct: 357 GIPTNTGRVETKIPGLFAAGEAA 379 Score = 27.2 bits (60), Expect = 5.8 Identities = 10/36 (27%), Positives = 18/36 (50%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRS 183 DV+V+GGG A+ A+ +V ++ + R Sbjct: 8 DVVVIGGGGAGLRAAIEAAEAGLKVALLSKAPPKRG 43 >gnl|CDD|33289 COG3486, IucD, Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]. Length = 436 Score = 35.2 bits (81), Expect = 0.023 Identities = 41/257 (15%), Positives = 78/257 (30%), Gaps = 61/257 (23%) Query: 63 WLMEQMRQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGSEVKWL-- 120 W Q+ FG ++ + D F V T +G ++ A +V+ G+ ++ Sbjct: 106 WAASQLPSL--RFGEEVTDISSLDGDAVVRLF-VVTANGTVYRARNLVLGVGT-QPYIPP 161 Query: 121 RLESEKKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHL-----------AKIA 169 S + F S + + V V+G G +AAE L L I Sbjct: 162 CFRSLIGERVFHSSEYLERHPELLQKRSVTVIGSGQSAAEIFLDLLNSQPPQDYQLNWIT 221 Query: 170 RR--------------------VTIVHRRSSLRSEKILQEKLFLQSNIDF-----LFDTE 204 R + +++L+++ L I F ++D Sbjct: 222 RSSGFLPMDYSKFGLEYFSPEYTDYFYGLPPEARDELLRKQRLLYKGISFDTIEEIYDLL 281 Query: 205 VVDVIGSIPEPP--LFPSVSGVRLHNKKEGNF------------FERNVDGIFIAIGYKP 250 +G +P L + +G + D + +A GY+ Sbjct: 282 YEQSLG-GRKPDVRLLSLSEVQSVEPAGDGRYRLTLRHHETGELETVETDAVILATGYRR 340 Query: 251 NTKIF----RHQLKMTN 263 F +L+ + Sbjct: 341 AVPSFLEGLADRLQWDD 357 >gnl|CDD|109787 pfam00743, FMO-like, Flavin-binding monooxygenase-like. This family includes FMO proteins and cyclohexanone monooxygenase. Length = 532 Score = 35.2 bits (81), Expect = 0.024 Identities = 53/222 (23%), Positives = 87/222 (39%), Gaps = 55/222 (24%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGS-DLGGQLMITESIE--------------- 50 K+ +IG+G +G ++ L+P S D+GG TE +E Sbjct: 3 KVAVIGAGVSGLSSIKCCLEEGLEPTCFERSDDIGGLWRFTEHVEEGRASIYKSVVTNSS 62 Query: 51 -------------NYPGFATSIRGDWLMEQMRQQAENFGT-KIIQDLVVSVDLDRHPFLV 96 +YP F + +E +R A++F K IQ + + P Sbjct: 63 KEMSCFSDFPFPEDYPNF---MHNSKFLEYLRMFAKHFDLLKYIQFKTTVCSVTKRPDFS 119 Query: 97 ET------------QSGDLWHADAVVIATGSEVK-WLRLES---EKKFQG--FGVSACAT 138 + Q ++ DAV++ TG L LES KF+G F Sbjct: 120 TSGQWEVVTEHEGKQESAVF--DAVMVCTGHHTNPHLPLESFPGINKFKGQYFHSRDYKH 177 Query: 139 CDGFFYKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSS 180 +GF + K V+V+G GN+ + A+ L++ A +V + R S Sbjct: 178 PEGF--QGKRVLVIGLGNSGGDIAVELSRTAAQVFLSTRTGS 217 >gnl|CDD|31426 COG1233, COG1233, Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]. Length = 487 Score = 35.1 bits (80), Expect = 0.030 Identities = 14/46 (30%), Positives = 24/46 (52%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENY 52 +++IG+G G AA ARA LK ++ +D G T ++ + Sbjct: 5 DVVVIGAGLNGLAAAALLARAGLKVTVLEKNDRVGGRARTFELDGF 50 Score = 32.0 bits (72), Expect = 0.23 Identities = 10/35 (28%), Positives = 17/35 (48%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRS 179 DV+V+G G A LA+ +VT++ + Sbjct: 2 PMYDVVVIGAGLNGLAAAALLARAGLKVTVLEKND 36 >gnl|CDD|144747 pfam01266, DAO, FAD dependent oxidoreductase. This family includes various FAD dependent oxidoreductases: Glycerol-3-phosphate dehydrogenase EC:1.1.99.5, Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1. Length = 309 Score = 34.7 bits (80), Expect = 0.032 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 2/52 (3%) Query: 64 LMEQMRQQAENFGTKIIQDL-VVSVDLDRHPFLVETQSGDLWHADAVVIATG 114 L+ + + AE G +I++ V ++ + VET G++ AD VV A G Sbjct: 149 LLRALARAAEALGVEILEGTEVTGLEREGGGVTVETADGEI-RADKVVNAAG 199 Score = 29.3 bits (66), Expect = 1.3 Identities = 12/31 (38%), Positives = 17/31 (54%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIVHRR 178 DV+V+GGG A LA+ VT++ R Sbjct: 1 DVVVIGGGIVGLSTAYELARRGLSVTLLERG 31 Score = 29.3 bits (66), Expect = 1.4 Identities = 10/35 (28%), Positives = 16/35 (45%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGG 41 +++IG G G + A AR L ++ DL Sbjct: 1 DVVVIGGGIVGLSTAYELARRGLSVTLLERGDLAS 35 >gnl|CDD|37011 KOG1800, KOG1800, KOG1800, Ferredoxin/adrenodoxin reductase [Nucleotide transport and metabolism]. Length = 468 Score = 34.6 bits (79), Expect = 0.034 Identities = 57/256 (22%), Positives = 85/256 (33%), Gaps = 60/256 (23%) Query: 2 ASHDSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENYP-GFATSIR 60 S ++ I+GSGPAG+ Y A+ +LK A D+ E P F Sbjct: 17 QSSTPRVCIVGSGPAGF----YTAQHLLKRHPNAHVDI---------FEKLPVPFGLVRY 63 Query: 61 GDWLMEQMRQQAENFGTKIIQD----LVVSVDLDRHPFLVETQSGDLWHADAVVIATGSE 116 G + N TK + +V + R L E DAVV+A G++ Sbjct: 64 GVAPDHPEVKNVINTFTKTAEHERFSFFGNVKVGRDVSLKELTDN----YDAVVLAYGAD 119 Query: 117 VKWLRLE----------SEKKFQG-FGVSACATCDGFFYKNKDVIVVGGGNTA------- 158 RL+ S ++F G + + V++VG GN A Sbjct: 120 -GDRRLDIPGEELSGVISAREFVGWYNGLPENQNLEPDLSGRKVVIVGNGNVALDVARIL 178 Query: 159 -------------AEEALHLAKIA--RRVTIVHRRSSLRSE---KILQEKLFLQSNIDFL 200 + AL+L K + + V +V RR L+ K L+E L L Sbjct: 179 LSPQGPLFRRTDIPKLALNLLKRSNVKDVKLVGRRGPLQVAFTIKELREVLEL-PGARPR 237 Query: 201 FDTEVVDVIGSIPEPP 216 D Sbjct: 238 LDPVDFSGKWMDESET 253 >gnl|CDD|30999 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]. Length = 387 Score = 34.3 bits (78), Expect = 0.045 Identities = 11/31 (35%), Positives = 17/31 (54%) Query: 4 HDSKILIIGSGPAGYTAAIYAARAMLKPVII 34 + I+G+GPAG A+ ARA L ++ Sbjct: 1 KMLDVAIVGAGPAGLALALALARAGLDVTLL 31 Score = 30.8 bits (69), Expect = 0.48 Identities = 13/36 (36%), Positives = 17/36 (47%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSS 180 K DV +VG G AL LA+ VT++ R Sbjct: 1 KMLDVAIVGAGPAGLALALALARAGLDVTLLERAPR 36 >gnl|CDD|113586 pfam04820, Trp_halogenase, Tryptophan halogenase. Tryptophan halogenase catalyses the chlorination of tryptophan to form 7-chlorotryptophan. This is the first step in the biosynthesis of pyrrolnitrin, an antibiotic with broad-spectrum anti-fungal activity. Tryptophan halogenase is NADH-dependent. Length = 457 Score = 34.2 bits (79), Expect = 0.052 Identities = 12/28 (42%), Positives = 18/28 (64%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVII 34 KI+I+G G AG+ AA ARA+ + + Sbjct: 1 KIVIVGGGTAGWMAAAALARALKGGLDV 28 >gnl|CDD|31342 COG1148, HdrA, Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]. Length = 622 Score = 33.0 bits (75), Expect = 0.11 Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 1/41 (2%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVIIAG-SDLGGQLM 44 +L+IG G AG TAA+ A K ++ +GG++ Sbjct: 124 SKSVLVIGGGVAGITAALELADMGFKVYLVEKEPSIGGRMA 164 Score = 32.6 bits (74), Expect = 0.13 Identities = 22/85 (25%), Positives = 34/85 (40%), Gaps = 18/85 (21%) Query: 146 NKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEKILQEKLF------------- 192 +K V+V+GGG AL LA + +V +V + S+ K F Sbjct: 124 SKSVLVIGGGVAGITAALELADMGFKVYLVEKEPSIGGRMAKLNKTFPTNDCSICILAPK 183 Query: 193 -----LQSNIDFLFDTEVVDVIGSI 212 NI+ + EV +V GS+ Sbjct: 184 MVEVSNHPNIELITYAEVEEVSGSV 208 >gnl|CDD|38055 KOG2844, KOG2844, KOG2844, Dimethylglycine dehydrogenase precursor [Amino acid transport and metabolism]. Length = 856 Score = 33.0 bits (75), Expect = 0.11 Identities = 15/36 (41%), Positives = 21/36 (58%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRS 183 DV+V+GGG+ A HLAK + ++ RS L S Sbjct: 41 DVVVIGGGSLGCSTAYHLAKRGMKGAVLLERSRLTS 76 >gnl|CDD|146239 pfam03486, HI0933_like, HI0933-like protein. Length = 405 Score = 32.5 bits (75), Expect = 0.15 Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 16/67 (23%) Query: 7 KILIIGSGPAGYTAAIYAARA------------MLKPVIIAGSDLGGQLMITESIENYPG 54 +++IG G AG AAI AA+ + + ++I+G GG+ +T S+E Sbjct: 2 DVIVIGGGAAGLMAAISAAKRGRRVLLIEKGKKLGRKILISG---GGRCNVTNSVE-PDN 57 Query: 55 FATSIRG 61 F + G Sbjct: 58 FLSRYPG 64 >gnl|CDD|31009 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]. Length = 387 Score = 32.6 bits (73), Expect = 0.15 Identities = 10/34 (29%), Positives = 17/34 (50%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRR 178 DV+++GGG A +LA+ VT++ Sbjct: 3 MKMDVVIIGGGIVGLSAAYYLAERGADVTVLEAG 36 Score = 29.5 bits (65), Expect = 1.3 Identities = 11/35 (31%), Positives = 17/35 (48%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGG 41 ++IIG G G +AA Y A ++ + GG Sbjct: 6 DVVIIGGGIVGLSAAYYLAERGADVTVLEAGEAGG 40 Score = 27.6 bits (60), Expect = 5.0 Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 3/54 (5%) Query: 64 LMEQMRQQAENFGTKII--QDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGS 115 L + AE G II V S++ D VET G + AD VV+A G+ Sbjct: 158 LTRALAAAAEELGVVIIEGGTPVTSLERDGRVVGVETDGGTI-EADKVVLAAGA 210 >gnl|CDD|37644 KOG2433, KOG2433, KOG2433, Uncharacterized conserved protein [Function unknown]. Length = 577 Score = 32.3 bits (73), Expect = 0.16 Identities = 16/107 (14%), Positives = 37/107 (34%), Gaps = 7/107 (6%) Query: 175 VHRRSSLRSEKILQEKLFLQSNIDFLFDTEV-VDVIGSIPEPPLFPSVSGVRLHNKKEGN 233 V +E + + + FL+S++ L + +++ G +P F R+ + + Sbjct: 70 VIHVLFAYAEDLTENRQFLESSLSALIELRGNLNIDGILPGGQ-FTLQLTSRMLENRSIS 128 Query: 234 FFERNVDGIFIAIGYKPNTKIFRHQLKMTNTNYIWTMPDSTATSIPG 280 F + + + ++ Y W+ P S G Sbjct: 129 EFLC-----DLNTMFNNEHVLMEGASCVSRVGYEWSRPQEDIKSAAG 170 >gnl|CDD|39055 KOG3851, KOG3851, KOG3851, Sulfide:quinone oxidoreductase/flavo-binding protein [Energy production and conversion]. Length = 446 Score = 32.3 bits (73), Expect = 0.17 Identities = 29/119 (24%), Positives = 49/119 (41%), Gaps = 18/119 (15%) Query: 2 ASHDSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENY---PGFATS 58 A K+L++G G G A R + G + I E E++ PGF Sbjct: 36 ARKHFKVLVVGGGSGGIGMAAKFYRKLGS----------GSVGIVEPAEDHYYQPGFTLV 85 Query: 59 IRGDWLMEQMRQQAENF---GTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATG 114 G ++ R++ + G I++ V + D++ V T+ G+ D +VIA G Sbjct: 86 GGGLKSLDSSRRKQASLIPKGATWIKEKVKEFNPDKNT--VVTRGGEEISYDYLVIAMG 142 >gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family. The medium chain reductase/dehydrogenases (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (ADH) , quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent interconversion of alcohols to aldehydes or ketones. ADH-like proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and generally have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site and a structural zinc in a lobe of the catalytic domain. The active site zinc is coordinated by a histidine, two cysteines, and a water molecule. The second zinc seems to play a structural role, affects subunit interactions, and is typically coordinated by 4 cysteines. Other MDR members have only a catalytic zinc, and some contain no coordinated zinc. Length = 271 Score = 31.9 bits (73), Expect = 0.23 Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 1/34 (2%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSD 38 +L++G+G G A A+A VI+ Sbjct: 135 GDTVLVLGAGGVG-LLAAQLAKAAGARVIVTDRS 167 >gnl|CDD|30794 COG0445, GidA, NAD/FAD-utilizing enzyme apparently involved in cell division [Cell division and chromosome partitioning]. Length = 621 Score = 31.7 bits (72), Expect = 0.30 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 3/53 (5%) Query: 66 EQMRQQAENF-GTKIIQDLVVSVDLDRHPFL--VETQSGDLWHADAVVIATGS 115 M+ + EN ++Q V + ++ + V T G +HA AVV+ TG+ Sbjct: 104 RAMKNELENQPNLHLLQGEVEDLIVEEGQRVVGVVTADGPEFHAKAVVLTTGT 156 Score = 28.6 bits (64), Expect = 2.5 Identities = 12/33 (36%), Positives = 19/33 (57%) Query: 143 FYKNKDVIVVGGGNTAAEEALHLAKIARRVTIV 175 K DVIV+GGG+ E AL A++ + ++ Sbjct: 1 MPKEYDVIVIGGGHAGVEAALAAARMGAKTLLL 33 >gnl|CDD|36512 KOG1298, KOG1298, KOG1298, Squalene monooxygenase [Lipid transport and metabolism]. Length = 509 Score = 31.4 bits (71), Expect = 0.31 Identities = 14/30 (46%), Positives = 18/30 (60%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIVHR 177 DVI+VG G + A LAK RRV ++ R Sbjct: 47 DVIIVGAGVAGSALAYALAKDGRRVHVIER 76 >gnl|CDD|31834 COG1648, CysG, Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]. Length = 210 Score = 31.4 bits (71), Expect = 0.33 Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 2/75 (2%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEKILQEKL--FLQSNIDFLFD 202 + K V+VVGGG+ A +A L K VT+V + +++E +++ D Sbjct: 11 EGKKVLVVGGGSVALRKARLLLKAGADVTVVSPEFEPELKALIEEGKIKWIEREFDAEDL 70 Query: 203 TEVVDVIGSIPEPPL 217 + VI + + L Sbjct: 71 DDAFLVIAATDDEEL 85 >gnl|CDD|33910 COG4168, SapB, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]. Length = 321 Score = 31.4 bits (71), Expect = 0.34 Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 8/51 (15%) Query: 42 QLMITESIENYPGFATSIRGDWLMEQMRQQAEN---FGTKIIQDLVVSVDL 89 MITES+ +PG G WL+ +RQQ G +I LV+ V++ Sbjct: 255 LAMITESVFGWPGI-----GRWLINAIRQQDYASISAGVIVIGSLVIIVNV 300 >gnl|CDD|31425 COG1232, HemY, Protoporphyrinogen oxidase [Coenzyme metabolism]. Length = 444 Score = 31.0 bits (70), Expect = 0.49 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 4/50 (8%) Query: 7 KILIIGSGPAGYTAAIYAARA--MLKPVII-AGSDLGGQLMITESIENYP 53 KI IIG G AG +AA +A ++ + A +GG L+ T I+ + Sbjct: 2 KIAIIGGGIAGLSAAYRLQKAGPDVEVTLFEADDRVGG-LLRTVKIDGFL 50 >gnl|CDD|114453 pfam05728, UPF0227, Uncharacterized protein family (UPF0227). Despite being classed as uncharacterized proteins, the members of this family are almost certainly enzymes that are distantly related to the pfam00561. Length = 187 Score = 30.8 bits (70), Expect = 0.53 Identities = 10/31 (32%), Positives = 14/31 (45%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVIIA 35 D L++GS GY A R L+ V+ Sbjct: 58 DDNPLLVGSSLGGYYATWLGFRCGLRQVLFN 88 >gnl|CDD|37966 KOG2755, KOG2755, KOG2755, Oxidoreductase [General function prediction only]. Length = 334 Score = 30.7 bits (69), Expect = 0.57 Identities = 17/60 (28%), Positives = 31/60 (51%) Query: 228 NKKEGNFFERNVDGIFIAIGYKPNTKIFRHQLKMTNTNYIWTMPDSTATSIPGIFAAGDV 287 +K++ + D I A G PN++ +++ + + D+ TS+P +FAAGDV Sbjct: 260 DKEKMADNQLTCDFIVSATGVTPNSEWAMNKMLQITEDGGIKVDDAMETSLPDVFAAGDV 319 >gnl|CDD|109456 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase. Length = 258 Score = 30.3 bits (69), Expect = 0.68 Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 11/59 (18%) Query: 164 HLAKIARRVTIVHRRSSLRSEKILQEKLFLQSNI-----DFL-FDTEVVD---VIGSIP 213 LAK A++V + L K LQ+KL L N+ DFL F + V+G+IP Sbjct: 47 ELAKRAKQVVAIEIDPRL--AKRLQKKLALHPNVEVVHQDFLKFSFPKHEPFLVVGNIP 103 >gnl|CDD|35252 KOG0029, KOG0029, KOG0029, Amine oxidase [Secondary metabolites biosynthesis, transport and catabolism]. Length = 501 Score = 30.3 bits (68), Expect = 0.68 Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 1/45 (2%) Query: 1 MASHDSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSD-LGGQLM 44 A K+++IG+G AG +AA +++ D +GG++ Sbjct: 11 EAGKKKKVIVIGAGLAGLSAARQLQDFGFDVLVLEARDRVGGRIY 55 >gnl|CDD|30923 COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy production and conversion]. Length = 532 Score = 30.3 bits (68), Expect = 0.78 Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 5/45 (11%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIVHRRS-----SLRSEKIL 187 DVIV+GGG T A A A +V +V + S RS K++ Sbjct: 14 DVIVIGGGITGAGIARDAAGRGLKVALVEKGDLASGTSSRSTKLI 58 Score = 27.6 bits (61), Expect = 5.2 Identities = 11/41 (26%), Positives = 18/41 (43%) Query: 1 MASHDSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGG 41 + + +++IG G G A AA LK ++ DL Sbjct: 8 LRMEEFDVIVIGGGITGAGIARDAAGRGLKVALVEKGDLAS 48 >gnl|CDD|38323 KOG3113, KOG3113, KOG3113, Uncharacterized conserved protein [Function unknown]. Length = 293 Score = 30.0 bits (67), Expect = 0.84 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 9/62 (14%) Query: 124 SEKKFQGFGVSACATCDGFFYKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRS 183 SE+ + S C C Y+ DVIV+ G EE + L + + R++ + Sbjct: 138 SERALKEIKASVCHVCGA-AYQEDDVIVLNG----TEEDVDLL----KTRMEERKAKAKL 188 Query: 184 EK 185 EK Sbjct: 189 EK 190 >gnl|CDD|107362 cd06367, PBP1_iGluR_NMDA, N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in the treatment of chronic pain. Length = 362 Score = 30.0 bits (68), Expect = 0.87 Identities = 14/74 (18%), Positives = 23/74 (31%), Gaps = 13/74 (17%) Query: 254 IFR--HQLKMTNTNYIWTMPDSTATSI-------PGIFA----AGDVADERYRQAITAAA 300 IF L +T Y+W + + S G+ + R R A+ A Sbjct: 210 IFEAAASLGLTGPGYVWIVGELALGSGLAPEGLPVGLLGVGLDTWYSLEARVRDAVAIVA 269 Query: 301 MGCMAALEVEHYLS 314 + L + L Sbjct: 270 RAAESLLRDKGALP 283 >gnl|CDD|38171 KOG2960, KOG2960, KOG2960, Protein involved in thiamine biosynthesis and DNA damage tolerance [General function prediction only]. Length = 328 Score = 30.0 bits (67), Expect = 0.89 Identities = 20/48 (41%), Positives = 27/48 (56%), Gaps = 9/48 (18%) Query: 5 DSKILIIGSGPAGYTAAIYAA--RAMLKPVII-------AGSDLGGQL 43 +S ++I+G+G AG +AA A R LK II G+ LGGQL Sbjct: 76 ESDVVIVGAGSAGLSAAYVIAKNRPDLKVAIIESSVAPGGGAWLGGQL 123 >gnl|CDD|48037 cd03442, BFIT_BACH, Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis, and brown adipose tissues. The archeal and eukaryotic members of this family have two tandem copies of the conserved hot dog fold, while most bacterial members have only one copy.. Length = 123 Score = 29.8 bits (67), Expect = 1.1 Identities = 19/56 (33%), Positives = 27/56 (48%) Query: 59 IRGDWLMEQMRQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATG 114 I G WL+E M + A + VV+ +DR FL + GD+ A V+ TG Sbjct: 25 IFGGWLLEWMDELAGIAAYRHAGGRVVTASVDRIDFLKPVRVGDVVELSARVVYTG 80 >gnl|CDD|37825 KOG2614, KOG2614, KOG2614, Kynurenine 3-monooxygenase and related flavoprotein monooxygenases [Energy production and conversion, General function prediction only]. Length = 420 Score = 29.5 bits (66), Expect = 1.1 Identities = 13/40 (32%), Positives = 18/40 (45%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSE 184 K V++VGGG AL L + V ++ R R E Sbjct: 1 KEPKVVIVGGGIVGLATALALHRKGIDVVVLESREDPRGE 40 >gnl|CDD|144912 pfam01494, FAD_binding_3, FAD binding domain. This domain is involved in FAD binding in a number of enzymes. Length = 349 Score = 29.6 bits (67), Expect = 1.1 Identities = 12/30 (40%), Positives = 21/30 (70%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVII 34 ++ +LI+G GPAG A+ ARA ++ V++ Sbjct: 1 ETDVLIVGGGPAGLMLALLLARAGVRVVLV 30 Score = 27.7 bits (62), Expect = 4.5 Identities = 14/33 (42%), Positives = 20/33 (60%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIVHRRSS 180 DV++VGGG AL LA+ RV +V R ++ Sbjct: 3 DVLIVGGGPAGLMLALLLARAGVRVVLVERHAT 35 >gnl|CDD|34178 COG4529, COG4529, Uncharacterized protein conserved in bacteria [Function unknown]. Length = 474 Score = 29.5 bits (66), Expect = 1.2 Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 3/38 (7%) Query: 147 KDVIVVGGGNTAAEEALHLAKIAR---RVTIVHRRSSL 181 V ++GGG + A HL K R ++I R + Sbjct: 2 FKVAIIGGGFSGIYMAAHLLKSPRPSGLISIFEPRPNF 39 >gnl|CDD|36277 KOG1059, KOG1059, KOG1059, Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]. Length = 877 Score = 29.5 bits (66), Expect = 1.2 Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 12/48 (25%) Query: 195 SNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLHNKKEGNFFERNVDGI 242 + ID F+ + D+I G+R H + E F + ++ I Sbjct: 6 APIDRFFEKSLKDLI------------KGIRSHKEDEEKFISQCLEEI 41 >gnl|CDD|30379 COG0029, NadB, Aspartate oxidase [Coenzyme metabolism]. Length = 518 Score = 29.5 bits (66), Expect = 1.2 Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 1/36 (2%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLG 40 +LIIGSG AG TAA+ A + + ++ LG Sbjct: 7 HPDVLIIGSGLAGLTAALSLAPS-FRVTVLTKGPLG 41 Score = 28.7 bits (64), Expect = 2.0 Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 1/38 (2%) Query: 142 FFYKNKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRS 179 +++ DV+++G G AL LA + RVT++ + Sbjct: 3 TDFEHPDVLIIGSGLAGLTAALSLAP-SFRVTVLTKGP 39 >gnl|CDD|32889 COG3075, GlpB, Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]. Length = 421 Score = 29.1 bits (65), Expect = 1.6 Identities = 9/29 (31%), Positives = 14/29 (48%) Query: 6 SKILIIGSGPAGYTAAIYAARAMLKPVII 34 + IIG G AG T + +A + I+ Sbjct: 3 FDVAIIGGGLAGLTCGLALQQAGKRCAIV 31 Score = 26.4 bits (58), Expect = 10.0 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 17/69 (24%) Query: 146 NKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEKILQEKLFLQSNIDFLFDTEV 205 N DV ++GGG L L + +R IV+R QS + F + Sbjct: 2 NFDVAIIGGGLAGLTCGLALQQAGKRCAIVNRG---------------QSALH--FSSGS 44 Query: 206 VDVIGSIPE 214 +D++G +P+ Sbjct: 45 LDLLGRLPD 53 >gnl|CDD|144908 pfam01488, Shikimate_DH, Shikimate / quinate 5-dehydrogenase. This family contains both shikimate and quinate dehydrogenases. Shikimate 5-dehydrogenase catalyses the conversion of shikimate to 5-dehydroshikimate. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites 3-dehydroquinate and dehydroshikimate. Length = 134 Score = 29.2 bits (66), Expect = 1.7 Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 1/35 (2%) Query: 144 YKNKDVIVVGGGNTAAEEALHL-AKIARRVTIVHR 177 K K V+++G G A A HL +K A+++TI +R Sbjct: 10 LKGKKVLLIGAGEMARLAAKHLLSKGAKKITIANR 44 >gnl|CDD|30111 cd00757, ThiF_MoeB_HesA_family, ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD and ThiS, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS. MoeB, as the MPT synthase (MoaE/MoaD complex) sulfurase, is involved in the biosynthesis of the molybdenum cofactor, a derivative of the tricyclic pterin, molybdopterin (MPT). ThiF catalyzes the adenylation of ThiS, as part of the biosynthesis pathway of thiamin pyrophosphate (vitamin B1). . Length = 228 Score = 28.5 bits (64), Expect = 2.3 Identities = 10/34 (29%), Positives = 20/34 (58%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSD 38 ++++L++G+G G AA Y A A + + + D Sbjct: 21 NARVLVVGAGGLGSPAAEYLAAAGVGKLGLVDDD 54 >gnl|CDD|32579 COG2509, COG2509, Uncharacterized FAD-dependent dehydrogenases [General function prediction only]. Length = 486 Score = 28.7 bits (64), Expect = 2.3 Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 3/66 (4%) Query: 64 LMEQMRQQAENFGTKII-QDLVVSVDL-DRHPFLVETQSGDLWHADAVVIATG-SEVKWL 120 +++ +R+ E+ G +I V +++ D V+ G+ AD VV+A G S W Sbjct: 175 VVKNIREYLESLGGEIRFNTEVEDIEIEDNEVLGVKLTKGEEIEADYVVLAPGRSGRDWF 234 Query: 121 RLESEK 126 + +K Sbjct: 235 EMLHKK 240 Score = 28.3 bits (63), Expect = 3.1 Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 1/35 (2%) Query: 272 DSTATSIPGIFAAGDVADERYRQAITAAAMGCMAA 306 + +TSI G++ AGD A R ++AAA G AA Sbjct: 443 EDLSTSIKGLYPAGDGAGLA-RGIVSAAADGIKAA 476 >gnl|CDD|32731 COG2907, COG2907, Predicted NAD/FAD-binding protein [General function prediction only]. Length = 447 Score = 28.4 bits (63), Expect = 3.0 Identities = 14/36 (38%), Positives = 19/36 (52%) Query: 7 KILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQ 42 KI +IGSG +G +AA +R + A LGG Sbjct: 10 KIAVIGSGISGLSAAWLLSRRHDVTLFEADRRLGGH 45 >gnl|CDD|32458 COG2303, BetA, Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]. Length = 542 Score = 28.1 bits (62), Expect = 3.1 Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 4/73 (5%) Query: 1 MASHDSKILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENYPGFATSIR 60 + +I+GSG AG A + A L +++ G I+ +A + Sbjct: 3 EMKMEYDYVIVGSGSAGSVLAARLSDAGLSVLVLE----AGGPDRRPLIQMPAAYAFLMN 58 Query: 61 GDWLMEQMRQQAE 73 G R + E Sbjct: 59 GPRYDWGFRTEPE 71 >gnl|CDD|30722 COG0373, HemA, Glutamyl-tRNA reductase [Coenzyme metabolism]. Length = 414 Score = 28.3 bits (63), Expect = 3.1 Identities = 24/75 (32%), Positives = 41/75 (54%), Gaps = 4/75 (5%) Query: 145 KNKDVIVVGGGNTAAEEALHLA-KIARRVTIVHR---RSSLRSEKILQEKLFLQSNIDFL 200 K+K V+V+G G A HLA K +++TI +R R+ ++K+ E + L+ ++ L Sbjct: 177 KDKKVLVIGAGEMGELVAKHLAEKGVKKITIANRTLERAEELAKKLGAEAVALEELLEAL 236 Query: 201 FDTEVVDVIGSIPEP 215 + +VV S P P Sbjct: 237 AEADVVISSTSAPHP 251 >gnl|CDD|30371 COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]. Length = 663 Score = 28.2 bits (63), Expect = 3.2 Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 1/30 (3%) Query: 106 ADAVVIATGSEVKWLRLESEKKFQGFGVSA 135 D ++IATGSEV L +E+ K+ + G+ Sbjct: 549 PDVILIATGSEV-ELAVEAAKELEAEGIKV 577 >gnl|CDD|38064 KOG2853, KOG2853, KOG2853, Possible oxidoreductase [General function prediction only]. Length = 509 Score = 28.0 bits (62), Expect = 3.2 Identities = 27/115 (23%), Positives = 47/115 (40%), Gaps = 18/115 (15%) Query: 143 FYKNKDVIVVGGGNTAAEEALHLAKIAR----RVTIVHR------RSSLRSEKILQEKLF 192 F + DV+++GGG + + A L + AR V +V R S++ S + ++ Sbjct: 83 FPYHCDVVIIGGGGSGSSTAFWLKERARDEGLNVVVVERDDTYTQSSTMLSVGGICQQFS 142 Query: 193 LQSNIDF-LFDTEVVDVIG------SIPEPPLFPSVSG-VRLHNKKEGNFFERNV 239 L NI LF E + + L +G +RL +++E N Sbjct: 143 LPENIQMSLFTAEFLRNAREHLGILDSEQVDLNFFPTGYLRLASEEEAEMMRSNS 197 >gnl|CDD|143522 cd06964, NR_DBD_RAR, DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers. DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. RAR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. RARs mediate the biological effect of retinoids, including both natural dietary vitamin A (retinol) metabolites and active synthetic analogs. Retinoids play key roles in a wide variety of essential biological processes, such as vertebrate embryonic morphogenesis and organogenesis, differentiation and apoptosis, and homeostasis. RAR function as a heterodimer with retinoic X receptor by binding to specific RAR response elements (RAREs), which are composed of two direct repeats of the consensus sequence 5'-AGGTCA-3' separated by one to five base pair and found in the promoter regions of retinoid target genes. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, retinoic acid receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD). Length = 85 Score = 28.0 bits (62), Expect = 3.8 Identities = 9/13 (69%), Positives = 10/13 (76%) Query: 131 FGVSACATCDGFF 143 +GVSAC C GFF Sbjct: 19 YGVSACEGCKGFF 31 >gnl|CDD|80317 cd04371, DEP, DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is present. New studies show that the DEP domain of Sst2, a yeast RGS protein is necessary and sufficient for receptor interaction.. Length = 81 Score = 28.0 bits (62), Expect = 3.9 Identities = 11/39 (28%), Positives = 20/39 (51%), Gaps = 5/39 (12%) Query: 62 DWLMEQM----RQQAENFGTKII-QDLVVSVDLDRHPFL 95 DWL++ + R++A G ++ L+ V D+H F Sbjct: 36 DWLLDNLEAITREEAVELGQALLKHGLIHHVSDDKHTFR 74 >gnl|CDD|176193 cd08231, MDR_TM0436_like, Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH). This group contains the hypothetical TM0436 alcohol dehydrogenase from Thermotoga maritima, proteins annotated as 5-exo-alcohol dehydrogenase, and other members of the medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family. MDR, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent interconversion of alcohols to aldehydes or ketones. Active site zinc has a catalytic role, while structural zinc aids in stability. Length = 361 Score = 28.0 bits (63), Expect = 3.9 Identities = 21/107 (19%), Positives = 33/107 (30%), Gaps = 29/107 (27%) Query: 9 LIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENYPGFATSIRGDWLMEQM 68 ++ G+GP G A A A + VI+ + Sbjct: 182 VVQGAGPLGLYAVAAAKLAGARRVIVIDGS---------------------------PER 214 Query: 69 RQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIATGS 115 + A FG D+ D R + + G AD V+ A+G Sbjct: 215 LELAREFGADATIDIDELPDPQRRAIVRDITGGRG--ADVVIEASGH 259 >gnl|CDD|37626 KOG2415, KOG2415, KOG2415, Electron transfer flavoprotein ubiquinone oxidoreductase [Energy production and conversion]. Length = 621 Score = 28.0 bits (62), Expect = 3.9 Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 9/69 (13%) Query: 2 ASHDSKILIIGSGPAGYTAAIYAARAMLKP-------VIIAGSDLGGQLMITESIENYPG 54 S + ++I+G+GPAG +AAI + K V+ +++GG + IE PG Sbjct: 73 ESEEVDVVIVGAGPAGLSAAIRLKQLAAKANKDLRVCVVEKAAEVGGHTLSGAVIE--PG 130 Query: 55 FATSIRGDW 63 + DW Sbjct: 131 ALDELLPDW 139 >gnl|CDD|112521 pfam03711, OKR_DC_1_C, Orn/Lys/Arg decarboxylase, C-terminal domain. Length = 137 Score = 28.0 bits (63), Expect = 3.9 Identities = 7/19 (36%), Positives = 11/19 (57%) Query: 43 LMITESIENYPGFATSIRG 61 L + E ++PGF I+G Sbjct: 110 LALEEFGNHFPGFEPEIQG 128 >gnl|CDD|33316 COG3513, COG3513, Uncharacterized protein conserved in bacteria [Function unknown]. Length = 1088 Score = 27.7 bits (61), Expect = 4.1 Identities = 19/106 (17%), Positives = 33/106 (31%), Gaps = 24/106 (22%) Query: 102 DLWHA-DAVVIATGSEVKWLRLESEKKFQGFGV-----------SACATCDGFFYKN--- 146 + HA DAVV+A + +LE + + A FY N Sbjct: 733 NYHHAHDAVVVACALNSMYPKLERFFVYGEYNSYDLYKANSDQEIGKAISKKLFYPNIMK 792 Query: 147 ----KDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEKILQ 188 + I V G + + V + S R + +++ Sbjct: 793 FFAQEVRIRVFDGEPGEILW-----DKKYLDTVKKVLSGRQQNVVK 833 >gnl|CDD|38031 KOG2820, KOG2820, KOG2820, FAD-dependent oxidoreductase [General function prediction only]. Length = 399 Score = 27.6 bits (61), Expect = 4.2 Identities = 11/33 (33%), Positives = 19/33 (57%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARRVTIVHR 177 K++DVI+VG G A LAK ++ ++ + Sbjct: 6 KSRDVIIVGAGVFGLSTAYELAKRGDKILLLEQ 38 >gnl|CDD|146292 pfam03575, Peptidase_S51, Peptidase family S51. Length = 154 Score = 27.6 bits (62), Expect = 5.1 Identities = 13/27 (48%), Positives = 14/27 (51%), Gaps = 5/27 (18%) Query: 145 KNKDVIVVGGGNTAAEEALHLAKIARR 171 DVI VGGGNT HL K+ R Sbjct: 34 LKADVIYVGGGNTF-----HLLKLLRE 55 >gnl|CDD|30824 COG0476, ThiF, Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]. Length = 254 Score = 27.3 bits (60), Expect = 5.5 Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 6/50 (12%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVIIAG------SDLGGQLMITES 48 DS++L++G+G G AA Y A A + + I S+L Q + TE+ Sbjct: 30 DSRVLVVGAGGLGSPAAKYLALAGVGKLTIVDFDTVELSNLQRQFLFTEA 79 >gnl|CDD|31238 COG1035, FrhB, Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]. Length = 332 Score = 27.2 bits (60), Expect = 5.5 Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 17/68 (25%) Query: 84 VVSVDLDRHPFLVETQSGDLWHADAVVIATGSEVKWLRLESEKKFQGFGVSACATCDGFF 143 V +D+ + F+VE + G EVK + L K+ + +G C C F Sbjct: 206 VEKMDIRKGKFVVELKDG--------------EVKEIPL---KETEEYGPEGCRVCTDFV 248 Query: 144 YKNKDVIV 151 + D+ V Sbjct: 249 AELADISV 256 >gnl|CDD|37522 KOG2311, KOG2311, KOG2311, NAD/FAD-utilizing protein possibly involved in translation [Translation, ribosomal structure and biogenesis]. Length = 679 Score = 27.2 bits (60), Expect = 5.9 Identities = 10/28 (35%), Positives = 17/28 (60%) Query: 148 DVIVVGGGNTAAEEALHLAKIARRVTIV 175 DV+V+GGG+ E A A++ R ++ Sbjct: 30 DVVVIGGGHAGCEAAAAAARLGARTLLL 57 >gnl|CDD|173942 cd08183, Fe-ADH2, Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria. Length = 374 Score = 27.1 bits (61), Expect = 6.1 Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 10/66 (15%) Query: 150 IVVGGGNTAAEEALHLAKIARRVTIVHRRSSLRSEKILQEKLFLQSNIDFLFDTEVVDVI 209 I G G A E A++ RRV +V SSLR+ +++ + I+ V + Sbjct: 4 IHFGRG-VAKELPALAAELGRRVLLVTGASSLRAAWLIEA--LRAAGIE-------VTHV 53 Query: 210 GSIPEP 215 EP Sbjct: 54 VVAGEP 59 >gnl|CDD|153240 cd03146, GAT1_Peptidase_E, Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption. Length = 212 Score = 27.2 bits (61), Expect = 6.6 Identities = 12/29 (41%), Positives = 13/29 (44%), Gaps = 4/29 (13%) Query: 148 DVIVVGGGNT----AAEEALHLAKIARRV 172 DVI VGGGNT A L I + Sbjct: 82 DVIYVGGGNTFNLLAQWREHGLDAILKAA 110 >gnl|CDD|30908 COG0562, Glf, UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]. Length = 374 Score = 27.1 bits (60), Expect = 6.7 Identities = 12/36 (33%), Positives = 21/36 (58%) Query: 146 NKDVIVVGGGNTAAEEALHLAKIARRVTIVHRRSSL 181 D ++VG G + A A A++ +RV IV +R+ + Sbjct: 1 MFDYLIVGAGLSGAVIAEVAAQLGKRVLIVEKRNHI 36 >gnl|CDD|107373 cd06378, PBP1_iGluR_NMDA_NR2, N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in the treatment of chronic pain. Length = 362 Score = 26.9 bits (60), Expect = 6.8 Identities = 16/70 (22%), Positives = 23/70 (32%), Gaps = 15/70 (21%) Query: 254 IFR--HQLKMTNTNYIWTMPDSTATS---IPGIFAAGDVA----------DERYRQAITA 298 IFR +T Y+W +P + P F G ++ R R + Sbjct: 209 IFRAARSAGLTGPGYVWIVPSLVLGNTDLGPSEFPVGLISVSYDGWRYSLRARVRDGVAI 268 Query: 299 AAMGCMAALE 308 A G A L Sbjct: 269 IATGASAMLR 278 >gnl|CDD|37321 KOG2110, KOG2110, KOG2110, Uncharacterized conserved protein, contains WD40 repeats [Function unknown]. Length = 391 Score = 26.8 bits (59), Expect = 7.4 Identities = 10/29 (34%), Positives = 13/29 (44%) Query: 228 NKKEGNFFERNVDGIFIAIGYKPNTKIFR 256 K NF N D +++G K KIF Sbjct: 4 KKPTINFIGFNQDSTLLSVGSKDGYKIFS 32 >gnl|CDD|107290 cd06295, PBP1_CelR, Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor. Length = 275 Score = 26.8 bits (60), Expect = 8.0 Identities = 9/47 (19%), Positives = 15/47 (31%), Gaps = 2/47 (4%) Query: 8 ILIIGSGPAGYTAAIYAARAMLKPVIIAGSDLGGQLMITESIENYPG 54 +++IG P ++ G L GQ +N G Sbjct: 68 VILIGQH--DQDPLPERLAETGLPFVVWGRPLPGQPYCYVGSDNVGG 112 >gnl|CDD|133452 cd05213, NAD_bind_Glutamyl_tRNA_reduct, NADP-binding domain of glutamyl-tRNA reductase. Glutamyl-tRNA reductase catalyzes the conversion of glutamyl-tRNA to glutamate-1-semialdehyde, initiating the synthesis of tetrapyrrole. Whereas tRNAs are generally associated with peptide bond formation in protein translation, here the tRNA activates glutamate in the initiation of tetrapyrrole biosynthesis in archaea, plants and many bacteria. In the first step, activated glutamate is reduced to glutamate-1-semi-aldehyde via the NADPH dependent glutamyl-tRNA reductase. Glutamyl-tRNA reductase forms a V-shaped dimer. Each monomer has 3 domains: an N-terminal catalytic domain, a classic nucleotide binding domain, and a C-terminal dimerization domain. Although the representative structure 1GPJ lacks a bound NADPH, a theoretical binding pocket has been described. (PMID 11172694). Amino acid dehydrogenase (DH)-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate, leucine, and phenylalanine DHs, methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH/cyclohydrolase, Shikimate DH-like proteins, malate oxidoreductases, and glutamyl tRNA reductase. Amino acid DHs catalyze the deamination of amino acids to keto acids with NAD(P)+ as a cofactor. The NAD(P)-binding Rossmann fold superfamily includes a wide variety of protein families including NAD(P)- binding domains of alcohol DHs, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate DH, lactate/malate DHs, formate/glycerate DHs, siroheme synthases, 6-phosphogluconate DH, amino acid DHs, repressor rex, NAD-binding potassium channel domain, CoA-binding, and ornithine cyclodeaminase-like domains. These domains have an alpha-beta-alpha configuration. NAD binding involves numerous hydrogen and van der Waals contacts. Length = 311 Score = 26.8 bits (60), Expect = 8.4 Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 1/34 (2%) Query: 145 KNKDVIVVGGGNTAAEEALHLA-KIARRVTIVHR 177 K K V+V+G G A HLA K +TI +R Sbjct: 177 KGKKVLVIGAGEMGELAAKHLAAKGVAEITIANR 210 >gnl|CDD|143592 cd07568, ML_beta-AS_like, mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases). This family includes mammalian-like beta-AS (EC 3.5.1.6, also known as beta-ureidopropionase or N-carbamoyl-beta-alanine amidohydrolase). This enzyme catalyzes the third and final step in the catabolic pyrimidine catabolic pathway responsible for the degradation of uracil and thymine, the hydrolysis of N-carbamyl-beta-alanine and N-carbamyl-beta-aminoisobutyrate to the beta-amino acids, beta-alanine and beta-aminoisobutyrate respectively. This family belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 5. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. Beta-ASs from this subgroup are found in various oligomeric states, dimer (human), hexamer (calf liver), decamer (Arabidopsis and Zea mays), and in the case of Drosophila melanogaster beta-AS, as a homooctamer assembled as a left-handed helical turn, with the possibility of higher order oligomers formed by adding dimers at either end. Rat beta-AS changes its oligomeric state (hexamer, trimer, dodecamer) in response to allosteric effectors. Eukaryotic Saccharomyces kluyveri beta-AS belongs to a different superfamily. Length = 287 Score = 26.7 bits (59), Expect = 8.9 Identities = 24/122 (19%), Positives = 42/122 (34%), Gaps = 26/122 (21%) Query: 9 LIIGSGPAGYTAAIYAAR-AML---KPVIIAGSDLGGQLMITESIENYPGFATSIRGDW- 63 LI S A I + AM+ +I ++ G Q++ + I P F W Sbjct: 8 LIQASNVIPTDAPIEKQKEAMIQKHVTMIREAAEAGAQIVCLQEIFYGPYFCAEQDTKWY 67 Query: 64 ----------LMEQMRQQAENFGTKIIQDLVVSVDLDRHPFLVETQSGDLWHADAVVIAT 113 ++ A+ + +I P + Q G L++ AV+ A Sbjct: 68 EFAEEIPNGPTTKRFAALAKEYNMVLI-----------LPIYEKEQGGTLYNTAAVIDAD 116 Query: 114 GS 115 G+ Sbjct: 117 GT 118 >gnl|CDD|35408 KOG0187, KOG0187, KOG0187, 40S ribosomal protein S17 [Translation, ribosomal structure and biogenesis]. Length = 134 Score = 26.4 bits (58), Expect = 9.6 Identities = 11/53 (20%), Positives = 26/53 (49%) Query: 175 VHRRSSLRSEKILQEKLFLQSNIDFLFDTEVVDVIGSIPEPPLFPSVSGVRLH 227 V ++ ++ +++ EK + + +DF + V + + IP L ++G H Sbjct: 4 VRTKTVKKAARVIIEKYYTRLTLDFHTNKRVCEEVAIIPSKKLRNKIAGYVTH 56 >gnl|CDD|107302 cd06307, PBP1_uncharacterized_sugar_binding, Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes. Length = 275 Score = 26.7 bits (60), Expect = 9.7 Identities = 8/27 (29%), Positives = 11/27 (40%), Gaps = 1/27 (3%) Query: 151 VVGGGNTAAEEAL-HLAKIARRVTIVH 176 GGGN AL + + V + H Sbjct: 192 NAGGGNRGVIRALREAGRAGKVVFVGH 218 >gnl|CDD|146932 pfam04536, DUF477, Domain of unknown function (DUF477). The function of this presumed domain is unknown. It is found in both eukarya and eubacteria. Length = 124 Score = 26.4 bits (59), Expect = 9.8 Identities = 8/41 (19%), Positives = 12/41 (29%) Query: 270 MPDSTATSIPGIFAAGDVADERYRQAITAAAMGCMAALEVE 310 +PD+ I Y + + AA A L Sbjct: 84 LPDARWDRIIDDTIVPAFRQGDYAEGLVAAIDAIGAVLAGH 124 >gnl|CDD|32964 COG3150, COG3150, Predicted esterase [General function prediction only]. Length = 191 Score = 26.4 bits (58), Expect = 9.9 Identities = 9/30 (30%), Positives = 13/30 (43%) Query: 5 DSKILIIGSGPAGYTAAIYAARAMLKPVII 34 D LI+GS GY A ++ V+ Sbjct: 58 DESPLIVGSSLGGYYATWLGFLCGIRAVVF 87 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.320 0.135 0.397 Gapped Lambda K H 0.267 0.0684 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,904,650 Number of extensions: 207843 Number of successful extensions: 907 Number of sequences better than 10.0: 1 Number of HSP's gapped: 869 Number of HSP's successfully gapped: 148 Length of query: 321 Length of database: 6,263,737 Length adjustment: 94 Effective length of query: 227 Effective length of database: 4,232,491 Effective search space: 960775457 Effective search space used: 960775457 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 57 (25.8 bits)