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)