RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|255764490|ref|YP_003065085.2| dehydrogenase, E1 component [Candidatus Liberibacter asiaticus str. psy62] (364 letters) >gnl|CDD|35446 KOG0225, KOG0225, KOG0225, Pyruvate dehydrogenase E1, alpha subunit [Energy production and conversion]. Length = 394 Score = 408 bits (1049), Expect = e-114 Identities = 175/320 (54%), Positives = 222/320 (69%), Gaps = 5/320 (1%) Query: 46 EFNKEQELSAYRLMLLIRRFEEKAGQLYGMGMVGGFCHLCIGQEAVIVGMKMSLTEGDQM 105 E KE+ L YR M IRR E A QLY + GFCHL GQEAV VGM+ ++T+ D + Sbjct: 55 ELTKEEALKYYRDMQTIRRMELAADQLYKAKKIRGFCHLYDGQEAVAVGMEAAITKSDSI 114 Query: 106 ITAYREHGHILACGVDASKIMAELTGRQGGISKGKGGSMHMFSTKNGFYGGHGIVGAQVS 165 IT+YR HG GV +++AEL GRQ G SKGKGGSMHM++ FYGG+GIVGAQ+ Sbjct: 115 ITSYRCHGWTYLRGVSVREVLAELMGRQAGCSKGKGGSMHMYA--KNFYGGNGIVGAQIP 172 Query: 166 LGTGIAFANKYRRSDKICVVCFGDGAANQGQVYESFNIAALWNLNVIYVIENNQYAMGTS 225 LG GIAFA KY R D +C +GDGAANQGQV+E+FN+AALW L VI+V ENN Y MGTS Sbjct: 173 LGAGIAFAQKYNREDAVCFALYGDGAANQGQVFEAFNMAALWKLPVIFVCENNHYGMGTS 232 Query: 226 VSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYR 285 RASA T + KRG IPG++VDGMD+ AV+ A Y KGPI++EM TYRY Sbjct: 233 AERASASTEYYKRGDY--IPGLKVDGMDVLAVREATKFAKKYALEGKGPILMEMDTYRYH 290 Query: 286 GHSMSDPA-NYRTREEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKIINNSV 344 GHSMSDP +YRTREEI E+R DPIE ++KRL+ A+E +LK I+ +RK ++ +V Sbjct: 291 GHSMSDPGTSYRTREEIQEVRQKRDPIEGLKKRLIELGLATEEELKAIDKEIRKEVDEAV 350 Query: 345 EFAQSDKEPDPAELYSDILI 364 FA + EP+P+EL++D+ + Sbjct: 351 AFATASPEPEPSELFTDVYV 370 >gnl|CDD|31269 COG1071, AcoA, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]. Length = 358 Score = 403 bits (1036), Expect = e-113 Identities = 152/324 (46%), Positives = 203/324 (62%), Gaps = 4/324 (1%) Query: 43 EVSEFNKEQELSAYRLMLLIRRFEEKAGQLYGMGMVGGFCHLCIGQEAVIVGMKMSLTEG 102 + +KE+ L YRLMLLIRRF+EK QL G +GGF HL IGQEAV VG +L G Sbjct: 20 PNAALSKEELLELYRLMLLIRRFDEKMLQLQRQGKIGGFYHLYIGQEAVQVGAAAALRPG 79 Query: 103 -DQMITAYREHGHILACGVDASKIMAELTGRQGGISKGKGGSMHMFSTKNGFYGGHGIVG 161 D + YR+HGH+LA GV +IMAEL G+ G KG+GGSMH + GF GG GIVG Sbjct: 80 EDWIFPTYRDHGHLLARGVPLKEIMAELLGKATGPCKGRGGSMHYSDKEKGFLGGSGIVG 139 Query: 162 AQVSLGTGIAFANKYRRSDKICVVC-FGDGAANQGQVYESFNIAALWNLNVIYVIENNQY 220 Q+ L G A A KYR + V FGDGA NQG +E+ N AA+W L V++VIENNQY Sbjct: 140 TQIPLAAGAALALKYRGTKDGVAVAFFGDGATNQGDFHEALNFAAVWKLPVVFVIENNQY 199 Query: 221 AMGTSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEML 280 A+ SR +A + R ++ IPG++VDG D+ AV +AV RA +GP +IE + Sbjct: 200 AISVPRSRQTAAEIIAARAAAYGIPGVRVDGNDVLAVYEAAKEAVERARAGEGPTLIEAV 259 Query: 281 TYRYRGHSMSDPAN-YRTREEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKI 339 TYRY GHS SD + YR++EE+ E + DPI ++RK L+ SE +L+ IE + Sbjct: 260 TYRYGGHSTSDDPSKYRSKEEVEEWKK-RDPIVRLRKYLIEAGILSEEELEAIEAEAKAE 318 Query: 340 INNSVEFAQSDKEPDPAELYSDIL 363 ++ +VEFA++ PD +EL+ D+ Sbjct: 319 VDEAVEFAEASPYPDVSELFEDVY 342 >gnl|CDD|48163 cd02000, TPP_E1_PDC_ADC_BCADC, Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain alpha-keto acid dehydrogenase/2-oxoisovalerate dehydrogenase complex (BCADC). PDC catalyzes the irreversible oxidative decarboxylation of pyruvate to produce acetyl-CoA in the bridging step between glycolysis and the citric acid cycle. ADC participates in the breakdown of acetoin while BCADC participates in the breakdown of branched chain amino acids. BCADC catalyzes the oxidative decarboxylation of 4-methyl-2-oxopentanoate, 3-methyl-2-oxopentanoate and 3-methyl-2-oxobutanoate (branched chain 2-oxo acids derived from the transamination of leucine, valine and isoleucine).. Length = 293 Score = 386 bits (992), Expect = e-108 Identities = 143/294 (48%), Positives = 192/294 (65%), Gaps = 2/294 (0%) Query: 55 AYRLMLLIRRFEEKAGQLYGMGMVGGFCHLCIGQEAVIVGMKMSLTEGDQMITAYREHGH 114 YR M+LIRRF+E+ +LY G +GGF HL IGQEAV VG+ +L GD + YR+HGH Sbjct: 1 LYRTMVLIRRFDERLLELYRQGKIGGFYHLSIGQEAVAVGVAAALRPGDWVFPTYRDHGH 60 Query: 115 ILACGVDASKIMAELTGRQGGISKGKGGSMHMFSTKNGFYGGHGIVGAQVSLGTGIAFAN 174 LA GVD +++AEL G++ G KG+GGSMH+ + F+GG+GIVG QV L G A A Sbjct: 61 ALARGVDLKEMLAELFGKETGPCKGRGGSMHIGDKEKNFFGGNGIVGGQVPLAAGAALAL 120 Query: 175 KYRRSDKICVVCFGDGAANQGQVYESFNIAALWNLNVIYVIENNQYAMGTSVSRASAQTN 234 KYR D++ V FGDGA N+G +E+ N AALW L VI+V ENN YA+ T SR +A T+ Sbjct: 121 KYRGEDRVAVCFFGDGATNEGDFHEALNFAALWKLPVIFVCENNGYAISTPTSRQTAGTS 180 Query: 235 FSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRGHSMS-DPA 293 + R ++ IPG++VDG D+ AV +AV RA GP +IE +TYR GHS S DP+ Sbjct: 181 IADRAAAYGIPGIRVDGNDVLAVYEAAKEAVERARAGGGPTLIEAVTYRLGGHSTSDDPS 240 Query: 294 NYRTREEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKIINNSVEFA 347 YRT+EE+ E + DPI ++RK L+ +E +L IE V+ + +VEFA Sbjct: 241 RYRTKEEVEEWKK-RDPILRLRKYLIEAGILTEEELAAIEAEVKAEVEEAVEFA 293 >gnl|CDD|144320 pfam00676, E1_dh, Dehydrogenase E1 component. This family uses thiamine pyrophosphate as a cofactor. This family includes pyruvate dehydrogenase, 2-oxoglutarate dehydrogenase and 2-oxoisovalerate dehydrogenase. Length = 303 Score = 362 bits (932), Expect = e-101 Identities = 154/300 (51%), Positives = 199/300 (66%), Gaps = 3/300 (1%) Query: 59 MLLIRRFEEKAGQLYGMGMVGGFCHLCIGQEAVIVGMKMSLTEGDQMITAYREHGHILAC 118 M+ +RR E+ LY GFCHL GQEA+ VG+ +L GD +I YR+HG++LA Sbjct: 3 MMTLRRMEDARMALYQRKGRRGFCHLYAGQEALQVGIAAALNPGDYVIPTYRDHGNLLAR 62 Query: 119 GVDASKIMAELTGRQGGISKGKGGSMHMFS--TKNGFYGGHGIVGAQVSLGTGIAFANKY 176 GV ++MAELTG + G SKGKGGSMH + N FYGG+GIVGAQV LG GIA A KY Sbjct: 63 GVSLEQVMAELTGNEAGCSKGKGGSMHGYYAPKNNRFYGGNGIVGAQVPLGAGIALAAKY 122 Query: 177 RRSDKICVVCFGDGAANQGQVYESFNIAALWNLNVIYVIENNQYAMGTSVSRASAQTNFS 236 R ++ + FGDGA NQGQ +E+ N AALW L VI+V ENNQYA+ T R+SA T ++ Sbjct: 123 RGKKEVAITLFGDGATNQGQFFEALNFAALWKLPVIFVCENNQYAISTPAERSSASTYYA 182 Query: 237 KRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRGHSMSDPAN-Y 295 R + IPG++VDGMD AV + A R GP +IE++TYRY GHSMSD + Y Sbjct: 183 DRARGYGIPGIRVDGMDPLAVYQAVKFAAERARTGNGPTLIELVTYRYGGHSMSDDPSTY 242 Query: 296 RTREEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKIINNSVEFAQSDKEPDP 355 RTREE+ E+R DPI++++K L+ SE +LKEIE VRK I +V+ A+SD EP+P Sbjct: 243 RTREEVEEVRKKKDPIKRLKKHLVSRGVVSEEELKEIEKEVRKEIEEAVKKAESDPEPNP 302 >gnl|CDD|177069 CHL00149, odpA, pyruvate dehydrogenase E1 component alpha subunit; Reviewed. Length = 341 Score = 282 bits (723), Expect = 1e-76 Identities = 127/319 (39%), Positives = 190/319 (59%), Gaps = 8/319 (2%) Query: 48 NKEQELSAYRLMLLIRRFEEKAGQLYGMGMVGGFCHLCIGQEAVIVGMKMSLTEGDQMIT 107 N L Y MLL R FE+ Q+Y G + GF HL GQEAV G+ L E D + + Sbjct: 18 NSMWLLVLYEDMLLGRNFEDMCAQMYYRGKMFGFVHLYNGQEAVSTGVIKLLAETDYVCS 77 Query: 108 AYREHGHILACGVDASKIMAELTGRQGGISKGKGGSMHMFSTKNGFYGGHGIVGAQVSLG 167 YR+H H L+ GV +MAEL G++ G S+G+GGSMH+FS + F GG +G + + Sbjct: 78 TYRDHVHALSKGVPPKNVMAELFGKETGCSRGRGGSMHIFSAPHNFLGGFAFIGEGIPIA 137 Query: 168 TGIAFANKYRRS------DKICVVCF-GDGAANQGQVYESFNIAALWNLNVIYVIENNQY 220 G AF + YR+ CF GDG N GQ +E N+A LW L +I+V+ENNQ+ Sbjct: 138 LGAAFQSIYRQQVLKEVQPLRVTACFFGDGTTNNGQFFECLNMAVLWKLPIIFVVENNQW 197 Query: 221 AMGTSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEML 280 A+G + R+++ K+ +F +PG++VDGMD+ AV+ +AV R GP +IE L Sbjct: 198 AIGMAHHRSTSIPEIHKKAEAFGLPGIEVDGMDVLAVREVAKEAVERARQGDGPTLIEAL 257 Query: 281 TYRYRGHSMSDPANYRTREEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKII 340 TYR+RGHS++DP R+++E E DPI++++ ++ N+ AS+ +L +I+ V+ I Sbjct: 258 TYRFRGHSLADPDELRSKQE-KEAWVARDPIKKLKSYIIDNELASQKELNKIQREVKIEI 316 Query: 341 NNSVEFAQSDKEPDPAELY 359 +V+FA S EP+ ++L Sbjct: 317 EQAVQFAISSPEPNISDLK 335 >gnl|CDD|36396 KOG1182, KOG1182, KOG1182, Branched chain alpha-keto acid dehydrogenase complex, alpha subunit [Energy production and conversion]. Length = 432 Score = 152 bits (385), Expect = 2e-37 Identities = 86/279 (30%), Positives = 140/279 (50%), Gaps = 2/279 (0%) Query: 86 IGQEAVIVGMKMSLTEGDQMITAYREHGHILACGVDASKIMAELTGRQGGISKGKGGSMH 145 G+EA+ +G +L D + YRE G +L G + M + G + + KG+ +H Sbjct: 121 FGEEAIHIGSAAALEPQDLIYGQYREAGVLLWRGFTLEEFMNQCYGNKSDLGKGRQMPVH 180 Query: 146 MFSTKNGFYGGHGIVGAQVSLGTGIAFANKYRRSDKICVVC-FGDGAANQGQVYESFNIA 204 S + F + Q+ G A+A K R+ + C V FGDGAA++G + +FN A Sbjct: 181 YGSKELNFVTISSPLATQLPQAVGAAYALKMRKKNNACAVTYFGDGAASEGDAHAAFNFA 240 Query: 205 ALWNLNVIYVIENNQYAMGTSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKA 264 A VI+ NN +A+ T S + +G ++ I ++VDG D AV + +A Sbjct: 241 ATLECPVIFFCRNNGWAISTPTSEQYRGDGIAVKGPAYGIRSIRVDGNDALAVYNAVKEA 300 Query: 265 VAYCRAHKGPIIIEMLTYRYRGHSMSDPAN-YRTREEINEMRSNHDPIEQVRKRLLHNKW 323 + P++IE +TYR HS SD + YR+ +EI + PI + RK + N W Sbjct: 301 REMAVTEQRPVLIEAMTYRVGHHSTSDDSTAYRSADEIQYWNKSRHPISRFRKYIESNGW 360 Query: 324 ASEGDLKEIEMNVRKIINNSVEFAQSDKEPDPAELYSDI 362 SE D E+ N+RK + ++ A+ ++P+ EL+ D+ Sbjct: 361 WSEEDESELRKNIRKKVLEAIAAAEKKEKPNLTELFEDV 399 >gnl|CDD|30913 COG0567, SucA, 2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes [Energy production and conversion]. Length = 906 Score = 70.7 bits (173), Expect = 6e-13 Identities = 42/181 (23%), Positives = 76/181 (41%), Gaps = 16/181 (8%) Query: 184 VVCFGDGA-ANQGQVYESFNIAALWNLNV---IYVIENNQYAMGTSVSRASAQTNFSKRG 239 ++ GD A A QG V E+ N++ L +V +++ NNQ TS + A + + Sbjct: 329 ILIHGDAAFAGQGVVAETLNLSRLDGYSVGGTWHIVINNQIGFTTSPADARSTPYCTDVA 388 Query: 240 VSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRGH------SMSDPA 293 P V+ D AV A+ Y K ++I+++ YR GH S++ P Sbjct: 389 KMIEAPIFHVNADDPEAVLFAPALALEYRNGFKKDVVIDLVCYRRHGHNEGDEPSVTQPL 448 Query: 294 NYRTREEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKIINNSVEFAQSDKEP 353 Y +++ + + +L+ SE + E+ + R ++ E + KE Sbjct: 449 MY------QKIKKHPTVRKLYADKLIAEGVISEEEADELVNDYRDALDQGFEVVKEYKEM 502 Query: 354 D 354 D Sbjct: 503 D 503 >gnl|CDD|48179 cd02016, TPP_E1_OGDC_like, Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of the tricarboxylic acid cycle.. Length = 265 Score = 69.0 bits (169), Expect = 2e-12 Identities = 52/240 (21%), Positives = 92/240 (38%), Gaps = 38/240 (15%) Query: 87 GQEAVIVGMKMSLTEGDQ-------MITAYREHGHILA--CGVDASKIMAELTGRQGGIS 137 G E++I + + + + A+R ++LA G +I +E G+ Sbjct: 19 GAESLIPALDELIDRAAELGVEEVVIGMAHRGRLNVLANVLGKPLEQIFSEFEGKSEFPE 78 Query: 138 KGKGGS---MHM-FSTKNGFYGGHGIVGAQVSL-------------GTGIAFANKYRRSD 180 +G H+ +S+ G + +SL G A + R D Sbjct: 79 DDEGSGDVKYHLGYSSDRKTPSGKKV---HLSLAPNPSHLEAVNPVVMGKTRAKQDYRGD 135 Query: 181 K-----ICVVCFGDGA-ANQGQVYESFNIAALWNLNV---IYVIENNQYAMGTSVSRASA 231 + ++ GD A A QG VYE+ N++ L I+++ NNQ T + + Sbjct: 136 GERDKVLPILIHGDAAFAGQGVVYETLNLSNLPGYTTGGTIHIVVNNQIGFTTDPRDSRS 195 Query: 232 QTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRGHSMSD 291 + P V+G D AV A+ Y + K ++I+++ YR GH+ D Sbjct: 196 SPYCTDVAKMIGAPIFHVNGDDPEAVVRATRLALEYRQKFKKDVVIDLVCYRRHGHNELD 255 >gnl|CDD|35672 KOG0451, KOG0451, KOG0451, Predicted 2-oxoglutarate dehydrogenase, E1 subunit [Carbohydrate transport and metabolism]. Length = 913 Score = 67.0 bits (163), Expect = 7e-12 Identities = 41/177 (23%), Positives = 73/177 (41%), Gaps = 4/177 (2%) Query: 182 ICVVCFGDGA-ANQGQVYESFNIAALWNLNV---IYVIENNQYAMGTSVSRASAQTNFSK 237 + V+ GD A A QG V E N++ + + V +++I NNQ T R + S Sbjct: 321 LNVIVHGDAAFAGQGIVQECLNLSYVPHFRVGGSVHLIVNNQVGFTTPGDRGRSSAYCSD 380 Query: 238 RGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRGHSMSDPANYRT 297 S P + V+G D V A Y R + + I++ +R GH+ D + + Sbjct: 381 IAKSIQAPVIHVNGDDPEEVVRATRLAFRYQREFRKDVFIDLNCFRRWGHNELDDPTFTS 440 Query: 298 REEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKIINNSVEFAQSDKEPD 354 E+ + + ++L +E +KE+ K +N + A + + P Sbjct: 441 PVMYKEVEARESVPDLYAQQLAKEGVLTEEKVKEMRDEYMKYLNEELALAPAYQPPP 497 >gnl|CDD|48175 cd02012, TPP_TK, Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. In addition, the enzyme plays a central role in the Calvin cycle in plants. Typically, TKs are homodimers. They require TPP and divalent cations, such as magnesium ions, for activity.. Length = 255 Score = 64.4 bits (157), Expect = 5e-11 Identities = 34/133 (25%), Positives = 64/133 (48%), Gaps = 11/133 (8%) Query: 156 GHGIVGAQVSLGTGIAFANKYRRSDKICVVCFGDGAANQGQVYESFNIAALWNL-NVIYV 214 G G+ S+ G+A A K D V GDG +G V+E+ + A + L N+I + Sbjct: 108 GQGL-----SVAVGMALAEKLLGFDYRVYVLLGDGELQEGSVWEAASFAGHYKLDNLIAI 162 Query: 215 IENNQYAMGTSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKG- 273 +++N+ + + +K+ +F ++VDG D+ + A +++A + KG Sbjct: 163 VDSNRIQIDGPTDDILFTEDLAKKFEAFGWNVIEVDGHDVEEILAALEEA----KKSKGK 218 Query: 274 PIIIEMLTYRYRG 286 P +I T + +G Sbjct: 219 PTLIIAKTIKGKG 231 >gnl|CDD|35671 KOG0450, KOG0450, KOG0450, 2-oxoglutarate dehydrogenase, E1 subunit [Carbohydrate transport and metabolism]. Length = 1017 Score = 62.3 bits (151), Expect = 2e-10 Identities = 39/188 (20%), Positives = 80/188 (42%), Gaps = 9/188 (4%) Query: 173 ANKYRRSDKIC-----VVCFGDGA-ANQGQVYESFNIAALWNLNV---IYVIENNQYAMG 223 A ++ D+ ++ GD A A QG VYE+F+++ L + ++V+ NNQ Sbjct: 389 AEQFYTGDEEGKKVMGILIHGDAAFAGQGVVYETFHLSDLPSYTTGGTVHVVVNNQIGFT 448 Query: 224 TSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYR 283 T A + + N P V+ D AV A + + ++++++ YR Sbjct: 449 TDPRFARSSPYCTDVARVVNAPIFHVNADDPEAVMHVCKVAAEWRKTFHKDVVVDLVCYR 508 Query: 284 YRGHSMSDPANYRTREEINEMRSNHDPIEQVRKRLLHNKWASEGDLKEIEMNVRKIINNS 343 GH+ D + ++R + +++ ++LL S+ ++ E I+ + Sbjct: 509 RHGHNEIDEPMFTQPLMYKQIRKHKPVLQKYAEKLLSEGTVSQQEVDEEIKKYDNILEEA 568 Query: 344 VEFAQSDK 351 E ++ K Sbjct: 569 FERSKDYK 576 >gnl|CDD|73294 cd02007, TPP_DXS, Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS catalyzes a transketolase-type condensation of pyruvate with D-glyceraldehyde-3-phosphate to form 1-deoxy-D-xylulose-5-phosphate (DXP) and carbon dioxide. The formation of DXP leads to the formation of the terpene precursor IPP (isopentyl diphosphate) and to the formation of thiamine (vitamin B1) and pyridoxal (vitamin B6).. Length = 195 Score = 54.4 bits (131), Expect = 5e-08 Identities = 39/164 (23%), Positives = 71/164 (43%), Gaps = 17/164 (10%) Query: 129 LTGRQGGIS-----KGKGGSMHMFSTKNGFYG-GHGIVGAQVSLGTGIAFANKYRRSDKI 182 LTGR+ G G ++ +G GH +S G+A A + + Sbjct: 42 LTGRRDQFHTLRQYGGLSGFTKRSESEYDAFGTGHS--STSISAALGMAVARDLKGKKRK 99 Query: 183 CVVCFGDGAANQGQVYESFNIAALWNLNVIYVIENNQYAMGTSVSRASAQTNFSKRGVSF 242 + GDGA G +E+ N A N+I ++ +N+ M S + + F + G + Sbjct: 100 VIAVIGDGALTGGMAFEALNNAGYLKSNMIVILNDNE--MSISPNVGTPGNLFEELGFRY 157 Query: 243 NIPGMQVDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRG 286 P VDG +I A+ + + + KGP+++ ++T + +G Sbjct: 158 IGP---VDGHNIEALIKVLKEV----KDLKGPVLLHVVTKKGKG 194 >gnl|CDD|33740 COG3959, COG3959, Transketolase, N-terminal subunit [Carbohydrate transport and metabolism]. Length = 243 Score = 53.7 bits (129), Expect = 9e-08 Identities = 29/110 (26%), Positives = 53/110 (48%), Gaps = 6/110 (5%) Query: 156 GHGIVGAQVSLGTGIAFANKYRRSDKICVVCFGDGAANQGQVYESFNIAALWNL-NVIYV 214 G G+ S+ G+A K + S V GDG ++GQV+E+ AA + L N+I + Sbjct: 122 GQGL-----SVAVGMALGAKLKGSPYRVYVILGDGELDEGQVWEAAMTAAHYKLDNLIAI 176 Query: 215 IENNQYAMGTSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKA 264 ++ N+ + + + + +F ++VDG DI + ++KA Sbjct: 177 VDRNKLQLDGETEEIMPKEPLADKWEAFGWEVIEVDGHDIEEIVEALEKA 226 >gnl|CDD|35743 KOG0523, KOG0523, KOG0523, Transketolase [Carbohydrate transport and metabolism]. Length = 632 Score = 51.8 bits (124), Expect = 3e-07 Identities = 35/133 (26%), Positives = 64/133 (48%), Gaps = 5/133 (3%) Query: 156 GHGIVGAQVSLGTGIAFANKYRRSDKICVVCF-GDGAANQGQVYESFNIAALWNL-NVIY 213 G +G +S G+A+A K+ V C GDG +G V+E+ ++A L N++ Sbjct: 116 ATGPLGQGISNAVGMAYAGKHLGKASNRVYCVLGDGCLTEGSVWEAMSLAGHLKLDNLVA 175 Query: 214 VIENNQYAMGTSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYCRAHKG 273 + +NN+ ++ + S + + R +F + VDG D+ ++ + KA + K Sbjct: 176 IYDNNKISIDGATSLGFDEDVYQLRFEAFGWNVIIVDGGDVDEIRKAIGKAKSVK--GK- 232 Query: 274 PIIIEMLTYRYRG 286 P I+ T+ RG Sbjct: 233 PTAIKATTFIGRG 245 >gnl|CDD|48162 cd00568, TPP_enzymes, Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and the branched chain alpha-keto acid dehydrogenase complexes.. Length = 168 Score = 48.0 bits (114), Expect = 4e-06 Identities = 34/137 (24%), Positives = 48/137 (35%), Gaps = 15/137 (10%) Query: 152 GFYGGHGIVGAQVSLGTGIAFANKYRRSDKICVVCF-GDGAANQGQVYESFNIAALWNLN 210 G G +G + G A A R VVC GDG + A + L Sbjct: 40 LTSTGFGAMGYGLPAAIGAALAAPDRP-----VVCIAGDGGFMMT--GQELATAVRYGLP 92 Query: 211 VIYVIENNQYAMGTSVSRASAQTNFSKRGVSFNIPGMQ--VDGMDIRAVKAT----MDKA 264 VI V+ NN GT A G + P + + V+ ++ A Sbjct: 93 VIVVVFNNGG-YGTIRMHQEAFYGGRVSGTDLSNPDFAALAEAYGAKGVRVEDPEDLEAA 151 Query: 265 VAYCRAHKGPIIIEMLT 281 +A A GP +IE+ T Sbjct: 152 LAEALAAGGPALIEVKT 168 >gnl|CDD|145759 pfam02775, TPP_enzyme_C, Thiamine pyrophosphate enzyme, C-terminal TPP binding domain. Length = 150 Score = 46.8 bits (112), Expect = 1e-05 Identities = 31/143 (21%), Positives = 48/143 (33%), Gaps = 37/143 (25%) Query: 155 GGHGIVGAQVSLGTGIAFANKYRRSDKICVVCF-GDGAANQGQVYESFNIAALW-----N 208 GG G +G + G A R VV GDG N L N Sbjct: 25 GGLGTMGYGLPAAIGAKLARPDRP-----VVAIAGDGGF-------QMNGQELATAVRYN 72 Query: 209 LNVIYVIENNQ-YAM------------GTSVSRASAQTNFSKRGVSFNIPGMQVDGMDIR 255 L + V+ NN Y M + +F+K ++ G +V+ Sbjct: 73 LPITVVVLNNGGYGMTRGQQTPFGGKRYSGPDGDLPPVDFAKLAEAYGAKGARVE----- 127 Query: 256 AVKATMDKAVAYCRAHKGPIIIE 278 +++A+ AH GP +I+ Sbjct: 128 -SPEELEEALKEALAHDGPALID 149 >gnl|CDD|31348 COG1154, Dxs, Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]. Length = 627 Score = 38.2 bits (89), Expect = 0.003 Identities = 28/106 (26%), Positives = 46/106 (43%), Gaps = 11/106 (10%) Query: 129 LTGRQGGIS--KGKGGSMHMFSTKN-----GFYGGHGIVGAQVSLGTGIAFANKYRRSDK 181 LTGR+ + K G + F + F GH +S G+A A + D+ Sbjct: 82 LTGRREQFDTLRQKDG-LSGFPKREESEHDWFGVGHS--STSISAALGMAKARDLKGEDR 138 Query: 182 ICVVCFGDGAANQGQVYESFN-IAALWNLNVIYVIENNQYAMGTSV 226 V GDGA G +E+ N A N+I ++ +N+ ++ +V Sbjct: 139 NVVAVIGDGALTGGMAFEALNNAGADLKSNLIVILNDNEMSISPNV 184 >gnl|CDD|30371 COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]. Length = 663 Score = 37.5 bits (87), Expect = 0.006 Identities = 31/140 (22%), Positives = 61/140 (43%), Gaps = 24/140 (17%) Query: 158 GIVGAQVSLGTGIAFANKYRRSD-----------KICVVCFGDGAANQGQVYESFNIAAL 206 G +G ++ G+A A K+ + V+ GDG +G +E+ ++A Sbjct: 116 GPLGQGLANAVGMALAEKHLAALFNRPGFDIVDHYTYVLV-GDGCLMEGVSHEAASLAGH 174 Query: 207 WNL-NVIYVIENNQYAMGTSVSRASAQTNFSKRGVSFNIPGMQV----DGMDIRAVKATM 261 L +I + ++N ++ S + + + +KR F G V DG D+ A+ + Sbjct: 175 LKLGKLIVLYDSNDISIDGDTSLSFTE-DVAKR---FEAYGWNVIRVIDGHDLEAIDKAI 230 Query: 262 DKAVAYCRAHKGPIIIEMLT 281 ++A A + P +I + T Sbjct: 231 EEAKA---STDKPTLIIVKT 247 >gnl|CDD|48177 cd02014, TPP_POX, Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates pyruvate, producing hydrogen peroxide and the energy-storage metabolite acetylphosphate. It requires FAD in addition to TPP and a divalent cation as cofactors.. Length = 178 Score = 35.5 bits (82), Expect = 0.024 Identities = 30/126 (23%), Positives = 50/126 (39%), Gaps = 14/126 (11%) Query: 165 SLGTGI--AFANKYRRSDKICVVCFGDGAANQGQVYESFNIAALWNLNVIYVIENNQ-YA 221 ++G G+ A A K D+ + GDG + A +NL VI V+ NN Sbjct: 52 TMGNGLPGAIAAKLAYPDRQVIALSGDGGF--AMLMGDLITAVKYNLPVIVVVFNNSDLG 109 Query: 222 MGTSVSRASAQTNFSKRGVSFNIP--GMQVDGMDIRAVKAT----MDKAVAYCRAHKGPI 275 Q F GV P + M I+ ++ ++ A+ A GP+ Sbjct: 110 FIKWEQEVMGQPEF---GVDLPNPDFAKIAEAMGIKGIRVEDPDELEAALDEALAADGPV 166 Query: 276 IIEMLT 281 +I+++T Sbjct: 167 VIDVVT 172 >gnl|CDD|31217 COG1013, PorB, Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]. Length = 294 Score = 34.5 bits (79), Expect = 0.049 Identities = 37/206 (17%), Positives = 67/206 (32%), Gaps = 39/206 (18%) Query: 153 FYGGHGIVGAQVSLGTGIAFANKYRRSDKICVVCFGDG-AANQGQVYESFNIAALWNLNV 211 H + G ++ TGI AN +V GDG A + G A N ++ Sbjct: 65 PPWVHSLHGRAAAVATGIKLANP----ALSVIVIGGDGDAYDIG--GNHLIHALRRNHDI 118 Query: 212 IYVIENNQYAMGT-----SVSRASAQTNFSKRGVS----FNIPGM----------QVDGM 252 Y++ +N+ T + A+T + G + + + Sbjct: 119 TYIVVDNEVYGNTGGQASPTTPKGAKTKTTPYGKRSEKKKDPGLLAMAAGATYVARASVG 178 Query: 253 DIRAVKATMDKAVAYCRAHKGPIIIEMLT--YRYRGHSMSDPANYRTREEINEMRSNHDP 310 D + + + KA HKGP I++L+ G + E + + + P Sbjct: 179 DPKDLTEKIKKAA----EHKGPSFIDVLSPCPTGNGRNTMKTI----EEAKLAVETGYWP 230 Query: 311 I---EQVRKRLLHNKWASEGDLKEIE 333 + E + K G +E Sbjct: 231 LYRYEPGKAEEEKGKDIPIGIFYPVE 256 >gnl|CDD|73355 cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA. In the reductive tricarboxylic acid cycle found in the anaerobic autotroph Hydrogenobacter thermophilus, OGFOR catalyzes the reductive carboxylation of succinyl-CoA to produce 2-oxoglutarate. Thauera aromatica OGFOR has been shown to provide reduced ferredoxin to benzoyl-CoA reductase, a key enzyme in the anaerobic metabolism of aromatic compounds. OGFOR is dependent on TPP and a divalent metal cation for activity.. Length = 193 Score = 33.2 bits (76), Expect = 0.13 Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 12/74 (16%) Query: 153 FYGGHGIVGAQVSLGTGIAFANKYRRSDKICVVCF---GDGAANQGQVYESFNIAALWNL 209 YG H + G +++ TG+ AN + V+ GD AA G F AA N+ Sbjct: 46 TYGFHTLHGRALAVATGVKLANP-----DLTVIVVSGDGDLAAIGGN---HFIHAARRNI 97 Query: 210 NVIYVIENNQ-YAM 222 ++ ++ NNQ Y + Sbjct: 98 DITVIVHNNQIYGL 111 >gnl|CDD|48185 cd03376, TPP_PFOR_porB_like, Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea and some hyperthermophilic bacteria. PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea, anaerobic bacteria and eukaryotes that lack mitochondria (and therefore pyruvate dehydrogenase) use PFOR to oxidatively decarboxylate pyruvate, with ferredoxin or flavodoxin as the electron acceptor. The 36-kDa porB subunit contains the binding sites for the cofactors, TPP and a divalent metal cation, which are required for activity.. Length = 235 Score = 29.8 bits (67), Expect = 1.3 Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 8/85 (9%) Query: 161 GAQVSLGTGIAFANKYRRSDKICVVCFGDGA-ANQGQVYESFNIAALWNLNVIYVIENNQ 219 A V+ G A R D V GDG A+ G +++ + AA +++Y+ +N+ Sbjct: 61 AAAVASGIEAALKALGRGKDITVVAFAGDGGTADIG--FQALSGAAERGHDILYICYDNE 118 Query: 220 YAMGTSVSRAS-----AQTNFSKRG 239 M T + R+ A T + G Sbjct: 119 AYMNTGIQRSGSTPYGAWTTTTPVG 143 >gnl|CDD|30110 cd00755, YgdL_like, Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, 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 the substrate. The exact function of this family is unknown.. Length = 231 Score = 29.8 bits (67), Expect = 1.3 Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 12/71 (16%) Query: 249 VDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRGHSMSDPANYRTREEINEMRSNH 308 VD +D K + +AYCR K P+I M DP R + +++ Sbjct: 107 VDAIDSIRAKVAL---IAYCRKRKIPVISSMGAGG-----KLDPTRIRVA---DISKTSG 155 Query: 309 DPI-EQVRKRL 318 DP+ +VRKRL Sbjct: 156 DPLARKVRKRL 166 >gnl|CDD|34382 COG4769, COG4769, Predicted membrane protein [Function unknown]. Length = 181 Score = 29.5 bits (66), Expect = 1.7 Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 1/40 (2%) Query: 53 LSAYRLMLLIRRFEEKAGQLYGMGMVGGFCHLCIGQEAVI 92 + + M + +F K L G+ ++G F H +GQ V Sbjct: 88 ILSTLFMYFLYQFGPKYLSLLGISVMGAFTH-NLGQLIVA 126 >gnl|CDD|48167 cd02004, TPP_BZL_OCoD_HPCL, Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL cleaves the acyloin linkage of benzoin producing 2 molecules of benzaldehyde and enabling the Pseudomonas to grow on benzoin as the sole carbon and energy source. OCoD has a role in the detoxification of oxalate, catalyzing the decarboxylation of oxalyl-CoA to formate. 2-HPCL is a peroxisomal enzyme which plays a role in the alpha-oxidation of 3-methyl-branched fatty acids, catalyzing the cleavage of 2-hydroxy-3-methylacyl-CoA into formyl-CoA and a 2-methyl-branched fatty aldehyde. All these enzymes depend on Mg2+ and TPP for activity.. Length = 172 Score = 28.6 bits (64), Expect = 2.7 Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 2/52 (3%) Query: 167 GTGIAFANKYRRSDKICVVCFGDGAANQGQVYESFNIAALWNLNVIYVIENN 218 G G A A R DK V+ GDGA G A +NL ++ V+ NN Sbjct: 53 GLGYAIAAALARPDKRVVLVEGDGAF--GFSGMELETAVRYNLPIVVVVGNN 102 >gnl|CDD|36399 KOG1185, KOG1185, KOG1185, Thiamine pyrophosphate-requiring enzyme [Amino acid transport and metabolism, Coenzyme transport and metabolism]. Length = 571 Score = 28.0 bits (62), Expect = 4.2 Identities = 28/132 (21%), Positives = 43/132 (32%), Gaps = 24/132 (18%) Query: 166 LGTGIAFANKYRRSDKICVVCFGDGAANQGQVYESFNIAALWNLNVIYVIENNQYAMG-- 223 +G G A A D+ V GD A G + L V+ V+ NN G Sbjct: 434 VGLGFALAAALAAPDRKVVCVEGDSAF--GFSAMELETFVRYKLPVVIVVGNNNGIYGLD 491 Query: 224 ---------------TSVSRASAQTNFSKRGVSFNIPGMQVDGMDIRAVKATMDKAVAYC 268 + A T + K +F G V + + A + +A C Sbjct: 492 DDGWKQISEQDPTLDLPPTALLANTRYDKVAKAFGGKGYFVS--TVEELLAALQQA---C 546 Query: 269 RAHKGPIIIEML 280 + P +I +L Sbjct: 547 QDTDKPSVINVL 558 >gnl|CDD|31372 COG1179, COG1179, Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]. Length = 263 Score = 27.9 bits (62), Expect = 4.9 Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 14/72 (19%) Query: 249 VDGMDIRAVKATMDKAVAYCRAHKGPIIIEMLTYRYRGHSMSDPANYRTREEINEM-RSN 307 +D +D K + +AYCR +K P+I M DP TR ++ ++ ++ Sbjct: 126 IDAIDSVRAKVAL---IAYCRRNKIPVISSMGAGG-----KLDP----TRIQVADISKTI 173 Query: 308 HDPI-EQVRKRL 318 DP+ +VR++L Sbjct: 174 QDPLAAKVRRKL 185 >gnl|CDD|33481 COG3684, LacD, Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]. Length = 306 Score = 27.6 bits (61), Expect = 5.9 Identities = 15/59 (25%), Positives = 25/59 (42%) Query: 258 KATMDKAVAYCRAHKGPIIIEMLTYRYRGHSMSDPANYRTREEINEMRSNHDPIEQVRK 316 A +++ + C A P +E LTY R + A + ++ I M+ D V K Sbjct: 146 LAYIERIGSECHAEDLPFFLEPLTYDPRIGDKEEYAKRKPQKVIEAMKEFSDSGADVLK 204 >gnl|CDD|110245 pfam01229, Glyco_hydro_39, Glycosyl hydrolases family 39. Length = 486 Score = 27.5 bits (61), Expect = 6.6 Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 1/26 (3%) Query: 289 MSDPANYRTREEINEMRSNHDPIEQV 314 M P Y + E+ +R DP+ + Sbjct: 433 MGRPV-YPSAEQFRRLRKAEDPVAEA 457 >gnl|CDD|48169 cd02006, TPP_Gcl, Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the condensation of two molecules of glyoxylate to give tartronic semialdehyde and carbon dioxide. This enzyme requires TPP, magnesium ion and FAD as cofactors.. Length = 202 Score = 27.3 bits (60), Expect = 6.6 Identities = 40/178 (22%), Positives = 74/178 (41%), Gaps = 29/178 (16%) Query: 135 GISKGKGGSM-HMFSTKNGFYGGH-GIVGAQVSLGTGIAFANKYRRSDKICVVCFGDGAA 192 G+S+ G M H++ ++ G G +G V G+A A+ D+ V GD Sbjct: 32 GLSQIAGAQMLHVYKPRHWINCGQAGPLGWTVPAALGVAAAD----PDRQVVALSGD--Y 85 Query: 193 NQGQVYESFNIAALWNLNVIYVIENNQY-----------AMGTSVSRASAQTNFSKRGVS 241 + + E + A + I+V+ NN Y M V+ A N S+ G Sbjct: 86 DFQFMIEELAVGAQHRIPYIHVLVNNAYLGLIRQAQRAFDMDYQVNLAFENINSSELGG- 144 Query: 242 FNIPGMQV-DGMDIRAVKAT--------MDKAVAYCRAHKGPIIIEMLTYRYRGHSMS 290 + + ++V +G+ +A++ T ++A H+ P+++E + R SM Sbjct: 145 YGVDHVKVAEGLGCKAIRVTKPEELAAAFEQAKKLMAEHRVPVVVEAILERVTNISMG 202 >gnl|CDD|99866 cd06113, citrate_synt_like_1_2, Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) a carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) hydrolysis of citryl-CoA to produce citrate and CoA. CSs are found in two structural types: type I (homodimeric) and type II CSs (homohexameric). Type II CSs are unique to gram-negative bacteria. Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria. Type I CS is active as a homodimer, both subunits participating in the active site. Type II CS is a hexamer of identical subunits (approximated as a trimer of dimers). Some type II CSs are strongly and specifically inhibited by NADH through an allosteric mechanism. This subgroup includes both gram-positive and gram-negative bacteria.. Length = 406 Score = 27.2 bits (61), Expect = 7.6 Identities = 12/34 (35%), Positives = 20/34 (58%) Query: 43 EVSEFNKEQELSAYRLMLLIRRFEEKAGQLYGMG 76 V ++ E E+ AY +L + +K+G +YGMG Sbjct: 261 NVKDWTDEDEVRAYLRKILNKEAFDKSGLIYGMG 294 >gnl|CDD|30677 COG0329, DapA, Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]. Length = 299 Score = 27.2 bits (60), Expect = 7.7 Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 3/49 (6%) Query: 92 IVGMKMSLTEGDQMITAYREHG---HILACGVDASKIMAELTGRQGGIS 137 IVG+K S + D++ G I+ G D + A L G G IS Sbjct: 160 IVGVKDSSGDLDRLEEIIAALGDRDFIVLSGDDELALPALLLGADGVIS 208 >gnl|CDD|32199 COG2016, COG2016, Predicted RNA-binding protein (contains PUA domain) [Translation, ribosomal structure and biogenesis]. Length = 161 Score = 26.7 bits (59), Expect = 9.9 Identities = 10/44 (22%), Positives = 19/44 (43%), Gaps = 3/44 (6%) Query: 92 IVGMKMSLTEGDQMITAYREHGHILACG---VDASKIMAELTGR 132 IV + EGD ++ + G LA G + ++ + G+ Sbjct: 100 IVSADGEIKEGDIVVVVDEKKGRPLAVGIALMSGKEMEEKKKGK 143 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 0.319 0.134 0.391 Gapped Lambda K H 0.267 0.0793 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 4,226,415 Number of extensions: 221117 Number of successful extensions: 506 Number of sequences better than 10.0: 1 Number of HSP's gapped: 483 Number of HSP's successfully gapped: 36 Length of query: 364 Length of database: 6,263,737 Length adjustment: 95 Effective length of query: 269 Effective length of database: 4,210,882 Effective search space: 1132727258 Effective search space used: 1132727258 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 58 (26.0 bits)