RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1413
(408 letters)
>gnl|CDD|176188 cd05285, sorbitol_DH, Sorbitol dehydrogenase. Sorbitol and aldose
reductase are NAD(+) binding proteins of the polyol
pathway, which interconverts glucose and fructose.
Sorbitol dehydrogenase is tetrameric and has a single
catalytic zinc per subunit. Aldose reductase catalyzes
the NADP(H)-dependent conversion of glucose to sorbital,
and SDH uses NAD(H) in the conversion of sorbitol to
fructose. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 343
Score = 295 bits (758), Expect = 6e-98
Identities = 106/173 (61%), Positives = 125/173 (72%), Gaps = 1/173 (0%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
DRVAIEPGVPCRTC +CK GRYNLC + F ATPP G L RY H ADFCHKLPD+VSL
Sbjct: 80 DRVAIEPGVPCRTCEFCKSGRYNLCPDMRFAATPPVDGTLCRYVNHPADFCHKLPDNVSL 139
Query: 294 EEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHK 353
EEGAL+EPLSVGVHACRRAGV G VL+ GAGPIGL+T A+A GA++VV+TDI +
Sbjct: 140 EEGALVEPLSVGVHACRRAGVRPGDTVLVFGAGPIGLLTAAVAKAFGATKVVVTDIDPSR 199
Query: 354 LKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLG 406
L+ AKE+GA TV + E + I ELL G+ PD I+C+G ES I+
Sbjct: 200 LEFAKELGATHTVNVRTE-DTPESAEKIAELLGGKGPDVVIECTGAESCIQTA 251
Score = 139 bits (354), Expect = 5e-38
Identities = 53/92 (57%), Positives = 65/92 (70%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYANDYPIALAMVASGKVDVKK 201
+ ATRPGG +V+VG G +V +PL +EIDIRGVFRYAN YP A+ ++ASGKVDVK
Sbjct: 252 IYATRPGGTVVLVGMGKPEVTLPLSAASLREIDIRGVFRYANTYPTAIELLASGKVDVKP 311
Query: 202 LITHNYLLEDTLHAFETAKTGAGNAIKVMIHC 233
LITH + LED + AFETA G IKV+I
Sbjct: 312 LITHRFPLEDAVEAFETAAKGKKGVIKVVIEG 343
Score = 111 bits (281), Expect = 1e-27
Identities = 39/76 (51%), Positives = 53/76 (69%), Gaps = 1/76 (1%)
Query: 68 ILRRRFSLRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHE 127
+L LR E++PI +P EVL+ + VGICGSDVHY HG+IGDF + +PM++GHE
Sbjct: 3 VLHGPGDLRL-EERPIPEPGPGEVLVRVRAVGICGSDVHYYKHGRIGDFVVKEPMVLGHE 61
Query: 128 ASGIVSKVGAKVKHLK 143
++G V VG+ V HLK
Sbjct: 62 SAGTVVAVGSGVTHLK 77
Score = 94.9 bits (237), Expect = 9e-22
Identities = 30/50 (60%), Positives = 39/50 (78%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+ VGICGSDVHY HG+IGDF + +PM++GHE++G V VG+ V HLKV
Sbjct: 29 VRAVGICGSDVHYYKHGRIGDFVVKEPMVLGHESAGTVVAVGSGVTHLKV 78
>gnl|CDD|215378 PLN02702, PLN02702, L-idonate 5-dehydrogenase.
Length = 364
Score = 221 bits (565), Expect = 6e-69
Identities = 93/183 (50%), Positives = 126/183 (68%), Gaps = 4/183 (2%)
Query: 224 GNAIKVMIHCDRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADF 283
G+ +K ++ DRVA+EPG+ C C CKEGRYNLC ++ F ATPP HG+L+ H AD
Sbjct: 89 GSEVKHLVVGDRVALEPGISCWRCNLCKEGRYNLCPEMKFFATPPVHGSLANQVVHPADL 148
Query: 284 CHKLPDHVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASR 343
C KLP++VSLEEGA+ EPLSVGVHACRRA + + VL+ GAGPIGLVT+L ARA GA R
Sbjct: 149 CFKLPENVSLEEGAMCEPLSVGVHACRRANIGPETNVLVMGAGPIGLVTMLAARAFGAPR 208
Query: 344 VVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQ--GEQPDKTIDCSGIES 401
+VI D+ + +L AK++GAD VL+ N +E++ + + E+ + G D + DC G
Sbjct: 209 IVIVDVDDERLSVAKQLGADEIVLVSTN--IEDVESEVEEIQKAMGGGIDVSFDCVGFNK 266
Query: 402 TIK 404
T+
Sbjct: 267 TMS 269
Score = 91.4 bits (227), Expect = 2e-20
Identities = 43/91 (47%), Positives = 60/91 (65%), Gaps = 3/91 (3%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYANDYPIALAMVASGKVDVKK 201
L+ATR GG + +VG G ++ +PL +E+D+ GVFRY N +P+ L + SGK+DVK
Sbjct: 272 LEATRAGGKVCLVGMGHNEMTVPLTPAAAREVDVVGVFRYRNTWPLCLEFLRSGKIDVKP 331
Query: 202 LITHNYLL--EDTLHAFETAKTGAGNAIKVM 230
LITH + ++ AFET+ G GNAIKVM
Sbjct: 332 LITHRFGFSQKEVEEAFETSARG-GNAIKVM 361
Score = 78.3 bits (193), Expect = 5e-16
Identities = 32/66 (48%), Positives = 44/66 (66%), Gaps = 5/66 (7%)
Query: 88 DHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLK---- 143
H+V + M VGICGSDVHYL + DF + +PM++GHE +GI+ +VG++VKHL
Sbjct: 41 PHDVRVRMKAVGICGSDVHYLKTMRCADFVVKEPMVIGHECAGIIEEVGSEVKHLVVGDR 100
Query: 144 -ATRPG 148
A PG
Sbjct: 101 VALEPG 106
Score = 74.8 bits (184), Expect = 8e-15
Identities = 29/58 (50%), Positives = 41/58 (70%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVP 58
M VGICGSDVHYL + DF + +PM++GHE +GI+ +VG++VKHL V ++ P
Sbjct: 48 MKAVGICGSDVHYLKTMRCADFVVKEPMVIGHECAGIIEEVGSEVKHLVVGDRVALEP 105
>gnl|CDD|176195 cd08233, butanediol_DH_like, (2R,3R)-2,3-butanediol dehydrogenase.
(2R,3R)-2,3-butanediol dehydrogenase, a zinc-dependent
medium chain alcohol dehydrogenase, catalyzes the
NAD(+)-dependent oxidation of (2R,3R)-2,3-butanediol and
meso-butanediol to acetoin. BDH functions as a
homodimer. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Sorbitol and aldose reductase are NAD(+) binding
proteins of the polyol pathway, which interconverts
glucose and fructose. Sorbitol dehydrogenase is
tetrameric and has a single catalytic zinc per subunit.
Length = 351
Score = 162 bits (412), Expect = 3e-46
Identities = 66/174 (37%), Positives = 102/174 (58%), Gaps = 4/174 (2%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
DRV +EP + C TC CK G YNLC + F G + Y A HKLPD+V L
Sbjct: 90 DRVVVEPTIKCGTCGACKRGLYNLCDSLGFIGLGGGGGGFAEYVVVPAYHVHKLPDNVPL 149
Query: 294 EEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHK 353
EE AL+EPL+V HA RR+G G L+ GAGPIGL+T+L +A GAS++++++ E +
Sbjct: 150 EEAALVEPLAVAWHAVRRSGFKPGDTALVLGAGPIGLLTILALKAAGASKIIVSEPSEAR 209
Query: 354 LKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLGM 407
+ A+E+GA + + + ++ + +L G D + DC+G+++T+ +
Sbjct: 210 RELAEELGATIVL----DPTEVDVVAEVRKLTGGGGVDVSFDCAGVQATLDTAI 259
Score = 56.8 bits (138), Expect = 7e-09
Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 9/77 (11%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQI-----GDFRLSD---PMIVGH 126
+R E+ P EV +++ GICGSD+H G I G L+ P+ +GH
Sbjct: 12 IRV-EEVPEPPVKPGEVKIKVAWCGICGSDLHEYLDGPIFIPTEGHPHLTGETAPVTLGH 70
Query: 127 EASGIVSKVGAKVKHLK 143
E SG+V +VG+ V K
Sbjct: 71 EFSGVVVEVGSGVTGFK 87
Score = 55.6 bits (135), Expect = 2e-08
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 2/93 (2%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRY-ANDYPIALAMVASGKVDVK 200
+ A RP G V V + + + KE + G Y D+ + ++ASGK+D +
Sbjct: 259 IDALRPRGTAVNVAIWEKPISFNPNDLVLKEKTLTGSICYTREDFEEVIDLLASGKIDAE 318
Query: 201 KLITHNYLLEDTL-HAFETAKTGAGNAIKVMIH 232
LIT LED + FE +K+++
Sbjct: 319 PLITSRIPLEDIVEKGFEELINDKEQHVKILVS 351
Score = 48.3 bits (116), Expect = 4e-06
Identities = 23/55 (41%), Positives = 30/55 (54%), Gaps = 8/55 (14%)
Query: 4 VGICGSDVHYLTHGQI-----GDFRLSD---PMIVGHEASGIVSKVGAKVKHLKV 50
GICGSD+H G I G L+ P+ +GHE SG+V +VG+ V KV
Sbjct: 34 CGICGSDLHEYLDGPIFIPTEGHPHLTGETAPVTLGHEFSGVVVEVGSGVTGFKV 88
>gnl|CDD|176194 cd08232, idonate-5-DH, L-idonate 5-dehydrogenase. L-idonate
5-dehydrogenase (L-ido 5-DH ) catalyzes the conversion
of L-lodonate to 5-ketogluconate in the metabolism of
L-Idonate to 6-P-gluconate. In E. coli, this GntII
pathway is a subsidiary pathway to the canonical GntI
system, which also phosphorylates and transports
gluconate. L-ido 5-DH is found in an operon with a
regulator indR, transporter idnT, 5-keto-D-gluconate
5-reductase, and Gnt kinase. L-ido 5-DH is a
zinc-dependent alcohol dehydrogenase-like protein. The
alcohol dehydrogenase ADH-like family of proteins is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. This group is
also called the medium chain dehydrogenases/reductase
family (MDR) which displays 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 GroES-like catalytic
domain. 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. 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.
Length = 339
Score = 154 bits (392), Expect = 1e-43
Identities = 67/174 (38%), Positives = 87/174 (50%), Gaps = 11/174 (6%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCA----TPPDHGNLSRYYRHAADFCHKLPD 289
RVA+ P PC TC YC+ GR NLC + F P G Y A C LPD
Sbjct: 79 QRVAVNPSRPCGTCDYCRAGRPNLCLNMRFLGSAMRFPHVQGGFREYLVVDASQCVPLPD 138
Query: 290 HVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDI 349
+SL AL EPL+V +HA RAG G +VL+TGAGPIG + + AR GA+ +V TD+
Sbjct: 139 GLSLRRAALAEPLAVALHAVNRAGDLAGKRVLVTGAGPIGALVVAAARRAGAAEIVATDL 198
Query: 350 LEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTI 403
+ L A+ MGAD TV + R L + D + SG + +
Sbjct: 199 ADAPLAVARAMGADETVNLAR-DPLAAYAADK------GDFDVVFEASGAPAAL 245
Score = 86.9 bits (216), Expect = 6e-19
Identities = 38/108 (35%), Positives = 63/108 (58%), Gaps = 4/108 (3%)
Query: 124 VGHEASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYAN 183
V EASG + + + L+ RPGG +V VG V +PL + KE+D+RG FR+ +
Sbjct: 234 VVFEASGAPAALASA---LRVVRPGGTVVQVGMLGGPVPLPLNALVAKELDLRGSFRFDD 290
Query: 184 DYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
++ A+ ++A+G++DV+ LIT + LE+ AF A ++KV +
Sbjct: 291 EFAEAVRLLAAGRIDVRPLITAVFPLEEAAEAFALAAD-RTRSVKVQL 337
Score = 86.5 bits (215), Expect = 7e-19
Identities = 35/83 (42%), Positives = 45/83 (54%), Gaps = 9/83 (10%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
LR E+ P +P EV + + GICGSD+HY HG G RL +PM++GHE SG+V
Sbjct: 9 LRVEER-PAPEPGPGEVRVRVAAGGICGSDLHYYQHGGFGTVRLREPMVLGHEVSGVVEA 67
Query: 135 VGAKVKHLKA--------TRPGG 149
VG V L +RP G
Sbjct: 68 VGPGVTGLAPGQRVAVNPSRPCG 90
Score = 71.9 bits (177), Expect = 7e-14
Identities = 25/51 (49%), Positives = 31/51 (60%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVD 51
+ GICGSD+HY HG G RL +PM++GHE SG+V VG V L
Sbjct: 28 VAAGGICGSDLHYYQHGGFGTVRLREPMVLGHEVSGVVEAVGPGVTGLAPG 78
>gnl|CDD|223991 COG1063, Tdh, Threonine dehydrogenase and related Zn-dependent
dehydrogenases [Amino acid transport and metabolism /
General function prediction only].
Length = 350
Score = 154 bits (392), Expect = 1e-43
Identities = 64/180 (35%), Positives = 84/180 (46%), Gaps = 9/180 (5%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCAT----PPDHGNLSRYYRHAADFCHK-LP 288
DRV +EP +PC C YC+ G YNLC F G + Y R ADF LP
Sbjct: 80 DRVVVEPNIPCGHCRYCRAGEYNLCENPGFYGYAGLGGGIDGGFAEYVRVPADFNLAKLP 139
Query: 289 DHVSLEEGALLEPLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVIT 347
D + E AL EPL+ H RA V G V++ GAGPIGL+ + A+ LGAS V++
Sbjct: 140 DGIDEEAAALTEPLATAYHGHAERAAVRPGGTVVVVGAGPIGLLAIALAKLLGASVVIVV 199
Query: 348 DILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLGM 407
D +L+ AKE G V+ I+EL G D I+ G + +
Sbjct: 200 DRSPERLELAKEAGGADVVVNPSEDDAGAE---ILELTGGRGADVVIEAVGSPPALDQAL 256
Score = 78.2 bits (193), Expect = 6e-16
Identities = 43/108 (39%), Positives = 64/108 (59%), Gaps = 6/108 (5%)
Query: 127 EASGIVSKVGAKVKHLKATRPGGCLVIVG-AGSQDVKIPLVLTMTKEIDIRGVFRYAN-- 183
EA G A + L+A RPGG +V+VG G +D+ +P L ++KE+ +RG R +
Sbjct: 244 EAVGSPP---ALDQALEALRPGGTVVVVGVYGGEDIPLPAGLVVSKELTLRGSLRPSGRE 300
Query: 184 DYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
D+ AL ++ASGK+D +KLITH L+D A+E AIKV++
Sbjct: 301 DFERALDLLASGKIDPEKLITHRLPLDDAAEAYELFADRKEEAIKVVL 348
Score = 62.0 bits (151), Expect = 1e-10
Identities = 23/72 (31%), Positives = 32/72 (44%), Gaps = 2/72 (2%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
E+ P P +VL+ + GICGSD+H G+ F +I+GHE G V +
Sbjct: 12 DVRLEEPPPPIPGPGDVLIRVTATGICGSDLHIYRGGEP--FVPPGDIILGHEFVGEVVE 69
Query: 135 VGAKVKHLKATR 146
VG R
Sbjct: 70 VGVVRGFKVGDR 81
Score = 54.7 bits (132), Expect = 3e-08
Identities = 41/167 (24%), Positives = 57/167 (34%), Gaps = 34/167 (20%)
Query: 4 VGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVPEFRNV 63
GICGSD+H G+ F +I+GHE G V +VG V+ KV R V E
Sbjct: 35 TGICGSDLHIYRGGEP--FVPPGDIILGHEFVGEVVEVGV-VRGFKVG--DRVVVEPNIP 89
Query: 64 CLSPILRRRFSLRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFR------ 117
C R + + GI G Y+ +
Sbjct: 90 C-------GHCRYCRAGEYNLCENPGFYGYAGLGGGIDGGFAEYVRVPADFNLAKLPDGI 142
Query: 118 ------LSDPMIVGHEASGIVSKVGAKVKHLKATRPGGCLVIVGAGS 158
L++P+ + A RPGG +V+VGAG
Sbjct: 143 DEEAAALTEPLATAYHG----------HAERAAVRPGGTVVVVGAGP 179
>gnl|CDD|176198 cd08236, sugar_DH, NAD(P)-dependent sugar dehydrogenases. This
group contains proteins identified as sorbitol
dehydrogenases and other sugar dehydrogenases of the
medium-chain dehydrogenase/reductase family (MDR), which
includes zinc-dependent alcohol dehydrogenase and
related proteins. Sorbitol and aldose reductase are
NAD(+) binding proteins of the polyol pathway, which
interconverts glucose and fructose. Sorbitol
dehydrogenase is tetrameric and has a single catalytic
zinc per subunit. NAD(P)(H)-dependent oxidoreductases
are the major enzymes in the interconversion of alcohols
and aldehydes, or ketones. Related proteins include
threonine dehydrogenase, formaldehyde dehydrogenase, and
butanediol dehydrogenase. The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit. Horse
liver alcohol dehydrogenase is a dimeric enzyme and each
subunit has two domains. The NAD binding domain is in a
Rossmann fold and the catalytic domain contains a zinc
ion to which substrates bind. There is a cleft between
the domains that closes upon formation of the ternary
complex.
Length = 343
Score = 153 bits (390), Expect = 3e-43
Identities = 70/180 (38%), Positives = 99/180 (55%), Gaps = 22/180 (12%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLC--------RQIFFCATPPDHGNLSRYYRHAADFCH 285
DRVA+ P +PC C YCK+G Y+LC R+ G + Y A
Sbjct: 78 DRVAVNPLLPCGKCEYCKKGEYSLCSNYDYIGSRR---------DGAFAEYVSVPARNLI 128
Query: 286 KLPDHVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVV 345
K+PDHV EE A++EP +V +HA R AG+TLG V++ GAG IGL+ + + LGA RV+
Sbjct: 129 KIPDHVDYEEAAMIEPAAVALHAVRLAGITLGDTVVVIGAGTIGLLAIQWLKILGAKRVI 188
Query: 346 ITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKL 405
DI + KL A+E+GAD T+ + EE + EL +G D I+ +G +TI+
Sbjct: 189 AVDIDDEKLAVARELGADDTI-----NPKEEDVEKVRELTEGRGADLVIEAAGSPATIEQ 243
Score = 66.5 bits (163), Expect = 4e-12
Identities = 26/67 (38%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVH-YLTHGQIGDFRLSDPMIVGHEASGIVSKVGA 137
E P +P EVL+++ GICGSD+ YL G P+++GHE SG V +VG+
Sbjct: 15 EDIPKPEPGPGEVLVKVKACGICGSDIPRYLGTG-----AYHPPLVLGHEFSGTVEEVGS 69
Query: 138 KVKHLKA 144
V L
Sbjct: 70 GVDDLAV 76
Score = 65.3 bits (160), Expect = 9e-12
Identities = 36/114 (31%), Positives = 56/114 (49%), Gaps = 12/114 (10%)
Query: 127 EASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQDVKIPLVLT---MTKEIDIRGVFRY-- 181
EA+G + + L RPGG +V+VG DV + + KE+ I+G +
Sbjct: 233 EAAGSPATIEQA---LALARPGGKVVLVGIPYGDVTLSEEAFEKILRKELTIQGSWNSYS 289
Query: 182 ----ANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
+++ AL ++ASGK+ V+ LITH LED AFE + KV++
Sbjct: 290 APFPGDEWRTALDLLASGKIKVEPLITHRLPLEDGPAAFERLADREEFSGKVLL 343
Score = 57.2 bits (139), Expect = 5e-09
Identities = 21/50 (42%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 2 HCVGICGSDVH-YLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
GICGSD+ YL G P+++GHE SG V +VG+ V L V
Sbjct: 32 KACGICGSDIPRYLGTG-----AYHPPLVLGHEFSGTVEEVGSGVDDLAV 76
>gnl|CDD|176197 cd08235, iditol_2_DH_like, L-iditol 2-dehydrogenase. Putative
L-iditol 2-dehydrogenase based on annotation of some
members in this subgroup. L-iditol 2-dehydrogenase
catalyzes the NAD+-dependent conversion of L-iditol to
L-sorbose in fructose and mannose metabolism. This
enzyme is related to sorbitol dehydrogenase, alcohol
dehydrogenase, and other medium chain
dehydrogenase/reductases. The zinc-dependent alcohol
dehydrogenase (ADH-Zn)-like family of proteins is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. This group is
also called the medium chain dehydrogenases/reductase
family (MDR) to highlight its broad range of activities
and to distinguish 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 GroES-like catalytic
domain. 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. ADH-like
proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
generally have 2 tightly bound zinc atoms per subunit.
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.
Length = 343
Score = 136 bits (346), Expect = 6e-37
Identities = 64/182 (35%), Positives = 97/182 (53%), Gaps = 16/182 (8%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLC---RQIFFCATPPDHGNLSRYYR-----HAADFCH 285
DRV + P VPC C YC G N+C ++ G + Y R
Sbjct: 79 DRVFVAPHVPCGECHYCLRGNENMCPNYKKFGN----LYDGGFAEYVRVPAWAVKRGGVL 134
Query: 286 KLPDHVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVV 345
KLPD+VS EE AL+EPL+ ++A R+AG+ G VL+ GAGPIGL+ + A+A GA +V+
Sbjct: 135 KLPDNVSFEEAALVEPLACCINAQRKAGIKPGDTVLVIGAGPIGLLHAMLAKASGARKVI 194
Query: 346 ITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKL 405
++D+ E +L+ AK++GAD T+ + + E++ + EL G D I +G
Sbjct: 195 VSDLNEFRLEFAKKLGADYTI----DAAEEDLVEKVRELTDGRGADVVIVATGSPEAQAQ 250
Query: 406 GM 407
+
Sbjct: 251 AL 252
Score = 64.5 bits (158), Expect = 2e-11
Identities = 37/94 (39%), Positives = 51/94 (54%), Gaps = 5/94 (5%)
Query: 142 LKATRPGGCLVIVGA--GSQDVKIPLVLTMTKEIDIRGVFRYAN-DYPIALAMVASGKVD 198
L+ R GG ++ G V I L +EI I G + + DY AL ++ASGK+D
Sbjct: 252 LELVRKGGRILFFGGLPKGSTVNIDPNLIHYREITITGSYAASPEDYKEALELIASGKID 311
Query: 199 VKKLITHNYLLEDTLHAFETAKTGAGNAIKVMIH 232
VK LITH + LED AFE A G ++K++I
Sbjct: 312 VKDLITHRFPLEDIEEAFELAAD--GKSLKIVIT 343
Score = 58.0 bits (141), Expect = 2e-09
Identities = 24/66 (36%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E+ P+ +P EVL+++ GICG+DV + G L P I+GHE +G + +VG
Sbjct: 15 EEVPVPEPGPGEVLVKVRACGICGTDVKKIRGGH---TDLKPPRILGHEIAGEIVEVGDG 71
Query: 139 VKHLKA 144
V K
Sbjct: 72 VTGFKV 77
Score = 49.9 bits (120), Expect = 1e-06
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+ GICG+DV + G L P I+GHE +G + +VG V KV
Sbjct: 31 VRACGICGTDVKKIRGGH---TDLKPPRILGHEIAGEIVEVGDGVTGFKV 77
>gnl|CDD|176196 cd08234, threonine_DH_like, L-threonine dehydrogenase. L-threonine
dehydrogenase (TDH) catalyzes the zinc-dependent
formation of 2-amino-3-ketobutyrate from L-threonine,
via NAD(H)-dependent oxidation. THD is a member of the
zinc-requiring, medium chain NAD(H)-dependent alcohol
dehydrogenase family (MDR). MDRs have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The N-terminal region typically
has an all-beta catalytic domain. These proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and have 2 tightly
bound zinc atoms per subunit. Sorbitol and aldose
reductase are NAD(+) binding proteins of the polyol
pathway, which interconverts glucose and fructose.
Length = 334
Score = 135 bits (342), Expect = 2e-36
Identities = 62/172 (36%), Positives = 86/172 (50%), Gaps = 9/172 (5%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDH-GNLSRYYRHAADFCHKLPDHVS 292
DRVA++P + C C YC+ GR NLC A G + Y A +K+PD++S
Sbjct: 78 DRVAVDPNIYCGECFYCRRGRPNLCEN--LTAVGVTRNGGFAEYVVVPAKQVYKIPDNLS 135
Query: 293 LEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEH 352
EE AL EPLS VH G+ G VL+ GAGPIGL+ + GASRV + + E
Sbjct: 136 FEEAALAEPLSCAVHGLDLLGIKPGDSVLVFGAGPIGLLLAQLLKLNGASRVTVAEPNEE 195
Query: 353 KLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIK 404
KL+ AK++GA TV R + D I+ +G+ T++
Sbjct: 196 KLELAKKLGATETVDPSREDPEA------QKEDNPYGFDVVIEATGVPKTLE 241
Score = 65.6 bits (161), Expect = 7e-12
Identities = 34/108 (31%), Positives = 57/108 (52%), Gaps = 7/108 (6%)
Query: 127 EASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQD--VKIPLVLTMTKEIDIRGVFRYAND 184
EA+G+ + ++ R GG +++ G + D V I KE+ I G F
Sbjct: 232 EATGVPKTLEQAIE---YARRGGTVLVFGVYAPDARVSISPFEIFQKELTIIGSFINPYT 288
Query: 185 YPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMIH 232
+P A+A++ SGK+DVK L++H LE+ A E + +G A+KV++
Sbjct: 289 FPRAIALLESGKIDVKGLVSHRLPLEEVPEALEGMR--SGGALKVVVV 334
Score = 62.9 bits (154), Expect = 6e-11
Identities = 25/65 (38%), Positives = 40/65 (61%), Gaps = 4/65 (6%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E+ P+ +P EVL+++ GICG+D+H G+F + P++ GHE +G+V VG+K
Sbjct: 15 EEVPVPEPGPDEVLIKVAACGICGTDLHIYE----GEFGAAPPLVPGHEFAGVVVAVGSK 70
Query: 139 VKHLK 143
V K
Sbjct: 71 VTGFK 75
Score = 55.6 bits (135), Expect = 2e-08
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 4/46 (8%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
GICG+D+H G+F + P++ GHE +G+V VG+KV KV
Sbjct: 35 GICGTDLHIYE----GEFGAAPPLVPGHEFAGVVVAVGSKVTGFKV 76
>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 = 133 bits (337), Expect = 3e-36
Identities = 65/176 (36%), Positives = 85/176 (48%), Gaps = 13/176 (7%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
DRV + P + C TC C+E G + Y AD LPD +SL
Sbjct: 55 DRVVVLPNLGCGTCELCRE-----LCPGGGILGEGLDGGFAEYVVVPADNLVPLPDGLSL 109
Query: 294 EEGALL-EPLSVGVHACRRAG-VTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILE 351
EE ALL EPL+ HA RRAG + G VL+ GAG +GL+ A+A GA RV++TD +
Sbjct: 110 EEAALLPEPLATAYHALRRAGVLKPGDTVLVLGAGGVGLLAAQLAKAAGA-RVIVTDRSD 168
Query: 352 HKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLGM 407
KL+ AKE+GAD + EE + L G D ID G T+ +
Sbjct: 169 EKLELAKELGADHVI-----DYKEEDLEEELRLTGGGGADVVIDAVGGPETLAQAL 219
Score = 62.0 bits (151), Expect = 7e-11
Identities = 20/55 (36%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 90 EVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKA 144
EVL+ + G+CG+D+H G P+I+GHE +G+V +VG V +K
Sbjct: 1 EVLVRVEAAGLCGTDLHIRRGG--YPPPPKLPLILGHEGAGVVVEVGPGVTGVKV 53
Score = 56.2 bits (136), Expect = 7e-09
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+ G+CG+D+H G P+I+GHE +G+V +VG V +KV
Sbjct: 6 VEAAGLCGTDLHIRRGG--YPPPPKLPLILGHEGAGVVVEVGPGVTGVKV 53
Score = 39.6 bits (93), Expect = 0.002
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLT-MTKEIDIRGVFRYAN-DYPIALAMV 192
L+ RPGG +V+VG S + + + KE+ I G D+ AL ++
Sbjct: 219 LRLLRPGGRIVVVGGTSGGPPLDDLRRLLFKELTIIGSTGGTREDFEEALDLL 271
>gnl|CDD|176222 cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family. This
group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family. The medium chain
dehydrogenases/reductase (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 includes
various 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.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. 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.
Length = 337
Score = 128 bits (323), Expect = 1e-33
Identities = 66/175 (37%), Positives = 100/175 (57%), Gaps = 7/175 (4%)
Query: 233 CDRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVS 292
DRV ++P + C C C++GR N C + D G + Y AD +P+ +S
Sbjct: 78 GDRVVVDPYISCGECYACRKGRPNCCENLQVLGVHRD-GGFAEYIVVPAD-ALLVPEGLS 135
Query: 293 LEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEH 352
L++ AL+EPL++G HA RRAGVT G VL+ GAGPIGL + A+A GA RV++ DI +
Sbjct: 136 LDQAALVEPLAIGAHAVRRAGVTAGDTVLVVGAGPIGLGVIQVAKARGA-RVIVVDIDDE 194
Query: 353 KLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLGM 407
+L+ A+E+GAD T+ + + EL GE D ID +G ++++ +
Sbjct: 195 RLEFARELGADDTINVGDEDVAARLR----ELTDGEGADVVIDATGNPASMEEAV 245
Score = 64.5 bits (158), Expect = 2e-11
Identities = 33/89 (37%), Positives = 45/89 (50%), Gaps = 3/89 (3%)
Query: 146 RPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYAN--DYPIALAMVASGKVDVKKLI 203
GG +V+VG V P KE+ I G R A D+P + ++ SGKVD + LI
Sbjct: 249 AHGGRVVLVGLSKGPVTFPDPEFHKKELTILGS-RNATREDFPDVIDLLESGKVDPEALI 307
Query: 204 THNYLLEDTLHAFETAKTGAGNAIKVMIH 232
TH + ED AF+ + G IKV+I
Sbjct: 308 THRFPFEDVPEAFDLWEAPPGGVIKVLIE 336
Score = 53.7 bits (130), Expect = 6e-08
Identities = 27/77 (35%), Positives = 35/77 (45%), Gaps = 4/77 (5%)
Query: 68 ILRRRFSLRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHE 127
+ + L + EVL+ + VGICGSD+H F S P I+GHE
Sbjct: 5 VCEKPGRLEVVDIPEPVPGAG-EVLVRVKRVGICGSDLHIYHGRN--PF-ASYPRILGHE 60
Query: 128 ASGIVSKVGAKVKHLKA 144
SG V +VG V LK
Sbjct: 61 LSGEVVEVGEGVAGLKV 77
Score = 47.2 bits (113), Expect = 7e-06
Identities = 24/47 (51%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 4 VGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
VGICGSD+H F S P I+GHE SG V +VG V LKV
Sbjct: 34 VGICGSDLHIYHGRN--PF-ASYPRILGHELSGEVVEVGEGVAGLKV 77
>gnl|CDD|176219 cd08258, Zn_ADH4, Alcohol dehydrogenases of the MDR family. This
group shares the zinc coordination sites of the
zinc-dependent alcohol dehydrogenases. The medium chain
dehydrogenases/reductase (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 an
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. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 306
Score = 116 bits (293), Expect = 1e-29
Identities = 67/179 (37%), Positives = 97/179 (54%), Gaps = 13/179 (7%)
Query: 234 DRVAIEP-GVPCRTCTYCKEGRYNLC--RQIFFCATPPDHGNLSRYYRHAADFCHKLPDH 290
DRV E C C YC+ G YNLC R+ T D G + Y + H+LP++
Sbjct: 81 DRVVSETTFSTCGRCPYCRRGDYNLCPHRKGI--GTQAD-GGFAEYVLVPEESLHELPEN 137
Query: 291 VSLEEGALLEPLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI-TD 348
+SLE AL EPL+V VHA R+G+ G V++ G GPIGL+ A+ GA+ VV+ T+
Sbjct: 138 LSLEAAALTEPLAVAVHAVAERSGIRPGDTVVVFGPGPIGLLAAQVAKLQGATVVVVGTE 197
Query: 349 ILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLGM 407
E +L AKE+GADA N E+++ + E+ G+ D I+CSG ++ +
Sbjct: 198 KDEVRLDVAKELGADAV-----NGGEEDLAELVNEITDGDGADVVIECSGAVPALEQAL 251
Score = 48.9 bits (117), Expect = 2e-06
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 7/77 (9%)
Query: 71 RRFSLRFRE----QKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGH 126
+ + P +P EVL+++ GICGSD+H P+++GH
Sbjct: 5 VKTGPGPGNVELREVPEPEPGPGEVLIKVAAAGICGSDLHIYKGDYDPV---ETPVVLGH 61
Query: 127 EASGIVSKVGAKVKHLK 143
E SG + +VG V+ K
Sbjct: 62 EFSGTIVEVGPDVEGWK 78
Score = 42.3 bits (100), Expect = 2e-04
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 4 VGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
GICGSD+H P+++GHE SG + +VG V+ KV
Sbjct: 36 AGICGSDLHIYKGDYDPV---ETPVVLGHEFSGTIVEVGPDVEGWKV 79
>gnl|CDD|176218 cd08256, Zn_ADH2, Alcohol dehydrogenases of the MDR family. This
group has the characteristic catalytic and structural
zinc-binding sites of the zinc-dependent alcohol
dehydrogenases of the MDR family. The medium chain
dehydrogenases/reductase (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. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 350
Score = 107 bits (268), Expect = 6e-26
Identities = 53/176 (30%), Positives = 91/176 (51%), Gaps = 6/176 (3%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQ-IFFCATPPDHGNLSRYYRHAAD-FCHKLPDHV 291
DRV E VPC C +C G+Y +C++ + +G ++ Y R + HK+PD +
Sbjct: 90 DRVISEQIVPCWNCRFCNRGQYWMCQKHDLYGFQNNVNGGMAEYMRFPKEAIVHKVPDDI 149
Query: 292 SLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILE 351
E+ L+EPL+ +HA RA + V++ GAGP+GL + AR ++++ D+ +
Sbjct: 150 PPEDAILIEPLACALHAVDRANIKFDDVVVLAGAGPLGLGMIGAARLKNPKKLIVLDLKD 209
Query: 352 HKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLGM 407
+L A++ GAD + N ++ I EL G D I+ +G S ++ G+
Sbjct: 210 ERLALARKFGADVVL----NPPEVDVVEKIKELTGGYGCDIYIEATGHPSAVEQGL 261
Score = 48.9 bits (117), Expect = 2e-06
Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 170 TKEIDIRGVFRYANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKV 229
KE+D+ G YPIA+ ++ASG++ ++TH + LED AFE G ++IKV
Sbjct: 290 RKELDVLGSHLGPYCYPIAIDLIASGRLPTDGIVTHQFPLEDFEEAFELMARGD-DSIKV 348
Query: 230 MI 231
++
Sbjct: 349 VL 350
Score = 32.8 bits (75), Expect = 0.29
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 8/68 (11%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQI---GDFR----LSDPMIVGHEASGI 131
E+ P+ P E+L+++ GIC D+ HG GD + PMI GHE G
Sbjct: 15 EEVPVPRPGPGEILVKVEACGICAGDIKCY-HGAPSFWGDENQPPYVKPPMIPGHEFVGR 73
Query: 132 VSKVGAKV 139
V ++G
Sbjct: 74 VVELGEGA 81
>gnl|CDD|182130 PRK09880, PRK09880, L-idonate 5-dehydrogenase; Provisional.
Length = 343
Score = 106 bits (266), Expect = 9e-26
Identities = 48/136 (35%), Positives = 66/136 (48%), Gaps = 4/136 (2%)
Query: 235 RVAIEPGVPCRTCTYCKEGRYNLCRQI-FFCA---TPPDHGNLSRYYRHAADFCHKLPDH 290
VAI P PC C YC N C + FF + P G +RY C P+
Sbjct: 84 TVAINPSKPCGHCKYCLSHNENQCTTMRFFGSAMYFPHVDGGFTRYKVVDTAQCIPYPEK 143
Query: 291 VSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDIL 350
+ A EPL+V +HA +AG G +V ++G GPIG + + + LGA+ +V D+
Sbjct: 144 ADEKVMAFAEPLAVAIHAAHQAGDLQGKRVFVSGVGPIGCLIVAAVKTLGAAEIVCADVS 203
Query: 351 EHKLKTAKEMGADATV 366
L A+EMGAD V
Sbjct: 204 PRSLSLAREMGADKLV 219
Score = 64.7 bits (158), Expect = 2e-11
Identities = 18/52 (34%), Positives = 33/52 (63%)
Query: 87 DDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
+++ L+++ GICGSD+HY G++G+F + PM++GHE G + +
Sbjct: 26 NNNGTLVQITRGGICGSDLHYYQEGKVGNFVIKAPMVLGHEVIGKIVHSDSS 77
Score = 58.2 bits (141), Expect = 2e-09
Identities = 17/42 (40%), Positives = 26/42 (61%)
Query: 3 CVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 44
GICGSD+HY G++G+F + PM++GHE G + +
Sbjct: 36 RGGICGSDLHYYQEGKVGNFVIKAPMVLGHEVIGKIVHSDSS 77
Score = 55.1 bits (133), Expect = 2e-08
Identities = 31/108 (28%), Positives = 52/108 (48%), Gaps = 4/108 (3%)
Query: 124 VGHEASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYAN 183
V E SG S + L+ TR G +V VG G + P++ + KEI ++G FR+
Sbjct: 238 VSFEVSGHPSSI---NTCLEVTRAKGVMVQVGMGGAPPEFPMMTLIVKEISLKGSFRFTE 294
Query: 184 DYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
++ A++ +A+G ++ L++ Y D A A A KV +
Sbjct: 295 EFNTAVSWLANGVINPLPLLSAEYPFTDLEEALIFA-GDKTQAAKVQL 341
>gnl|CDD|182371 PRK10309, PRK10309, galactitol-1-phosphate dehydrogenase;
Provisional.
Length = 347
Score = 106 bits (265), Expect = 1e-25
Identities = 66/195 (33%), Positives = 97/195 (49%), Gaps = 7/195 (3%)
Query: 214 HAFETAKTGAGNAIKVMIHCDRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNL 273
H F G+ + + D VA P +PC TC C G Y+LC + F + D GN
Sbjct: 59 HEFSGYVEAVGSGVDDLHPGDAVACVPLLPCFTCPECLRGFYSLCAKYDFIGSRRDGGN- 117
Query: 274 SRYYRHAADFCHKLPDHVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTL 333
+ Y LP + +E+GA +EP++VG+HA A G V+I GAG IGL+ +
Sbjct: 118 AEYIVVKRKNLFALPTDMPIEDGAFIEPITVGLHAFHLAQGCEGKNVIIIGAGTIGLLAI 177
Query: 334 LTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKT 393
A ALGA V DI KL AK +GA T +S E + I +L+ + D+
Sbjct: 178 QCAVALGAKSVTAIDINSEKLALAKSLGAMQTF-----NSREMSAPQIQSVLRELRFDQL 232
Query: 394 I-DCSGIESTIKLGM 407
I + +G+ T++L +
Sbjct: 233 ILETAGVPQTVELAI 247
Score = 43.7 bits (103), Expect = 1e-04
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
I+ DD VL+++ G+CGSD+ + + P+ +GHE SG V VG+ V L
Sbjct: 22 IKHQDD--VLVKVASSGLCGSDIPRIFKNGAHYY----PITLGHEFSGYVEAVGSGVDDL 75
Score = 34.8 bits (80), Expect = 0.066
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVP 58
+ G+CGSD+ + + P+ +GHE SG V VG+ V L + VP
Sbjct: 32 VASSGLCGSDIPRIFKNGAHYY----PITLGHEFSGYVEAVGSGVDDLHPGDAVACVP 85
>gnl|CDD|176201 cd08239, THR_DH_like, L-threonine dehydrogenase (TDH)-like.
MDR/AHD-like proteins, including a protein annotated as
a threonine dehydrogenase. L-threonine dehydrogenase
(TDH) catalyzes the zinc-dependent formation of
2-amino-3-ketobutyrate from L-threonine via
NAD(H)-dependent oxidation. The zinc-dependent alcohol
dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent
interconversion of alcohols to aldehydes or ketones.
Zinc-dependent ADHs are medium chain
dehydrogenase/reductase type proteins (MDRs) and have a
NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. In addition to alcohol
dehydrogenases, this group includes quinone reductase,
sorbitol dehydrogenase, formaldehyde dehydrogenase,
butanediol DH, ketose reductase, cinnamyl reductase, and
numerous others. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 339
Score = 105 bits (265), Expect = 1e-25
Identities = 59/172 (34%), Positives = 77/172 (44%), Gaps = 16/172 (9%)
Query: 233 CDRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPD-----HGNLSRYYRHAADFCHKL 287
DRV + V C C C+ G LC G + Y L
Sbjct: 79 GDRVMVYHYVGCGACRNCRRGWMQLCTS-----KRAAYGWNRDGGHAEYMLVPEKTLIPL 133
Query: 288 PDHVSLEEGALL-EPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI 346
PD +S +GALL + HA RR GV+ VL+ GAGP+GL L+ ARALGA V+
Sbjct: 134 PDDLSFADGALLLCGIGTAYHALRRVGVSGRDTVLVVGAGPVGLGALMLARALGAEDVIG 193
Query: 347 TDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
D +L+ AK +GAD + S ++ I EL G D I+CSG
Sbjct: 194 VDPSPERLELAKALGADFVIN-----SGQDDVQEIRELTSGAGADVAIECSG 240
Score = 59.3 bits (144), Expect = 9e-10
Identities = 28/71 (39%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 71 RRFSLRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASG 130
R LR + P+ P EVLL + G+CGSD+HY HG +I GHE +G
Sbjct: 10 RTVELR---EFPVPVPGPGEVLLRVKASGLCGSDLHYYYHGHRAP--AYQGVIPGHEPAG 64
Query: 131 IVSKVGAKVKH 141
+V VG V H
Sbjct: 65 VVVAVGPGVTH 75
Score = 48.5 bits (116), Expect = 3e-06
Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+CGSD+HY HG +I GHE +G+V VG V H +V
Sbjct: 35 GLCGSDLHYYYHGHRAP--AYQGVIPGHEPAGVVVAVGPGVTHFRV 78
Score = 37.3 bits (87), Expect = 0.010
Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 3/91 (3%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYA-NDYPIALAMVASGKVDVK 200
L+A RP G LV+VG G + + K+ + G + ++ D +A K++V
Sbjct: 249 LEAVRPWGRLVLVGEGGELTIEVSNDLIRKQRTLIGSWYFSVPDMEECAEFLARHKLEVD 308
Query: 201 KLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
+L+TH + L+ A+ G + KV+
Sbjct: 309 RLVTHRFGLDQAPEAYALFA--QGESGKVVF 337
>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 = 105 bits (263), Expect = 3e-25
Identities = 55/183 (30%), Positives = 81/183 (44%), Gaps = 10/183 (5%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFF------CATPPDHGNLSRY-YRHAADFCHK 286
DRV G PC C C G C C P G + + Y +
Sbjct: 86 DRVTWSVGAPCGRCYRCLVGDPTKCENRKKYGHEASCDDPHLSGGYAEHIYLPPGTAIVR 145
Query: 287 LPDHVSLEEGAL-LEPLSVGVHACRRAG-VTLGSKVLITGAGPIGLVTLLTARALGASRV 344
+PD+V E A L+ + A RAG V G V++ GAGP+GL + A+ GA RV
Sbjct: 146 VPDNVPDEVAAPANCALATVLAALDRAGPVGAGDTVVVQGAGPLGLYAVAAAKLAGARRV 205
Query: 345 VITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIK 404
++ D +L+ A+E GADAT+ ID + + ++ G D I+ SG + +
Sbjct: 206 IVIDGSPERLELAREFGADATIDID-ELPDPQRRAIVRDITGGRGADVVIEASGHPAAVP 264
Query: 405 LGM 407
G+
Sbjct: 265 EGL 267
Score = 48.4 bits (116), Expect = 3e-06
Identities = 22/62 (35%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
+ P+ D + VL+ + G+CGSDVH G+ R+ P+I+GHE G V +G
Sbjct: 16 REVPLPDLEPGAVLVRVRLAGVCGSDVH-TVAGRRP--RVPLPIILGHEGVGRVVALGGG 72
Query: 139 VK 140
V
Sbjct: 73 VT 74
Score = 43.4 bits (103), Expect = 1e-04
Identities = 35/110 (31%), Positives = 54/110 (49%), Gaps = 10/110 (9%)
Query: 127 EASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQDVKIPL--VLTMTKEIDIRGVFRY-AN 183
EASG + V ++ L R GG V+VG+ + +PL + K + I GV Y +
Sbjct: 255 EASGHPAAVPEGLELL---RRGGTYVLVGSVAPAGTVPLDPERIVRKNLTIIGVHNYDPS 311
Query: 184 DYPIALAMVA--SGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
A+ + + +L+TH Y LED A E A+ +G A+KV+I
Sbjct: 312 HLYRAVRFLERTQDRFPFAELVTHRYPLEDINEALELAE--SGTALKVVI 359
Score = 37.6 bits (88), Expect = 0.008
Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVK 46
G+CGSDVH G+ R+ P+I+GHE G V +G V
Sbjct: 36 GVCGSDVH-TVAGRRP--RVPLPIILGHEGVGRVVALGGGVT 74
>gnl|CDD|176181 cd05278, FDH_like, Formaldehyde dehydrogenases. Formaldehyde
dehydrogenase (FDH) is a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. Formaldehyde dehydrogenase (aka ADH3) may be
the ancestral form of alcohol dehydrogenase, which
evolved to detoxify formaldehyde. This CD contains
glutathione dependant FDH, glutathione independent FDH,
and related alcohol dehydrogenases. FDH converts
formaldehyde and NAD(P) to formate and NAD(P)H. The
initial step in this process the spontaneous formation
of a S-(hydroxymethyl)glutathione adduct from
formaldehyde and glutathione, followed by FDH-mediated
oxidation (and detoxification) of the adduct to
S-formylglutathione. Unlike typical FDH, Pseudomonas
putida aldehyde-dismutating FDH (PFDH) is
glutathione-independent. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 347
Score = 102 bits (257), Expect = 2e-24
Identities = 55/176 (31%), Positives = 79/176 (44%), Gaps = 13/176 (7%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQ----IFFCATPPDHGNLSRYYR--HAADFCHKL 287
DRV++ C C +C+ G + C G + Y R +A K+
Sbjct: 80 DRVSVPCITFCGRCRFCRRGYHAHCENGLWGWKLGNRID--GGQAEYVRVPYADMNLAKI 137
Query: 288 PDHVSLEEGALL-EPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI 346
PD + E+ +L + L G H AG+ GS V + GAGP+GL + AR LGA+R++
Sbjct: 138 PDGLPDEDALMLSDILPTGFHGAELAGIKPGSTVAVIGAGPVGLCAVAGARLLGAARIIA 197
Query: 347 TDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIEST 402
D +L AKE GA + N +I I+EL G D I+ G E T
Sbjct: 198 VDSNPERLDLAKEAGATDII----NPKNGDIVEQILELTGGRGVDCVIEAVGFEET 249
Score = 51.5 bits (124), Expect = 3e-07
Identities = 30/94 (31%), Positives = 42/94 (44%), Gaps = 2/94 (2%)
Query: 142 LKATRPGGCLVIVGA-GSQDVKIPLVLTMTKEIDIR-GVFRYANDYPIALAMVASGKVDV 199
+K RPGG + VG G D L K + + G+ P L ++ GK+D
Sbjct: 254 VKVVRPGGTIANVGVYGKPDPLPLLGEWFGKNLTFKTGLVPVRARMPELLDLIEEGKIDP 313
Query: 200 KKLITHNYLLEDTLHAFETAKTGAGNAIKVMIHC 233
KLITH + L+D L A+ IKV+I
Sbjct: 314 SKLITHRFPLDDILKAYRLFDNKPDGCIKVVIRP 347
Score = 47.3 bits (113), Expect = 8e-06
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 10/81 (12%)
Query: 83 IEDP---DDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKV 139
+ DP H+ ++ + ICGSD+H + G + MI+GHE G V +VG+ V
Sbjct: 17 VPDPKIQGPHDAIVRVTATSICGSDLH-IYRGGV--PGAKHGMILGHEFVGEVVEVGSDV 73
Query: 140 KHLKATRPGGCLVIVGAGSQD 160
K LK G V V +
Sbjct: 74 KRLKP----GDRVSVPCITFC 90
Score = 43.8 bits (104), Expect = 9e-05
Identities = 20/45 (44%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 6 ICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICGSD+H + G + MI+GHE G V +VG+ VK LK
Sbjct: 37 ICGSDLH-IYRGGV--PGAKHGMILGHEFVGEVVEVGSDVKRLKP 78
>gnl|CDD|176184 cd05281, TDH, Threonine dehydrogenase. L-threonine dehydrogenase
(TDH) catalyzes the zinc-dependent formation of
2-amino-3-ketobutyrate from L-threonine via NAD(H)-
dependent oxidation. THD is a member of the
zinc-requiring, medium chain NAD(H)-dependent alcohol
dehydrogenase family (MDR). MDRs have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The N-terminal region typically
has an all-beta catalytic domain. These proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria) and have 2 tightly bound
zinc atoms per subunit. Sorbitol and aldose reductase
are NAD(+) binding proteins of the polyol pathway, which
interconverts glucose and fructose.
Length = 341
Score = 101 bits (254), Expect = 5e-24
Identities = 54/175 (30%), Positives = 83/175 (47%), Gaps = 11/175 (6%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCR--QIFFCATPPDHGNLSRYYRHAADFCHKLPDHV 291
D V+ E + C C C+ G Y++C+ +I T G + Y + K +
Sbjct: 83 DYVSAETHIVCGKCYQCRTGNYHVCQNTKILGVDTD---GCFAEYVVVPEENLWKNDKDI 139
Query: 292 SLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILE 351
E ++ EPL VH V+ G VLITG GPIGL+ + A+A GAS V+ +D
Sbjct: 140 PPEIASIQEPLGNAVHTVLAGDVS-GKSVLITGCGPIGLMAIAVAKAAGASLVIASDPNP 198
Query: 352 HKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLG 406
++L+ AK+MGAD + + EE + + G D ++ SG I+ G
Sbjct: 199 YRLELAKKMGADVVI-----NPREEDVVEVKSVTDGTGVDVVLEMSGNPKAIEQG 248
Score = 55.7 bits (135), Expect = 1e-08
Identities = 23/65 (35%), Positives = 35/65 (53%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
+ P+ P EVL+++ ICG+DVH + R+ P+I GHE +G V +VG
Sbjct: 16 VEVPVPKPGPGEVLIKVLAASICGTDVHIYEWDEWAQSRIKPPLIFGHEFAGEVVEVGEG 75
Query: 139 VKHLK 143
V +K
Sbjct: 76 VTRVK 80
Score = 45.7 bits (109), Expect = 2e-05
Identities = 19/47 (40%), Positives = 26/47 (55%)
Query: 4 VGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICG+DVH + R+ P+I GHE +G V +VG V +KV
Sbjct: 35 ASICGTDVHIYEWDEWAQSRIKPPLIFGHEFAGEVVEVGEGVTRVKV 81
Score = 43.0 bits (102), Expect = 2e-04
Identities = 31/102 (30%), Positives = 45/102 (44%), Gaps = 21/102 (20%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYANDYPI-----------ALA 190
LKA PGG + I+G V I L + +F+ I A
Sbjct: 249 LKALTPGGRVSILGLPPGPVDIDL----NNLV----IFKGLTVQGITGRKMFETWYQVSA 300
Query: 191 MVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMIH 232
++ SGKVD+ +ITH LED AFE + +G KV+++
Sbjct: 301 LLKSGKVDLSPVITHKLPLEDFEEAFELMR--SGKCGKVVLY 340
>gnl|CDD|129775 TIGR00692, tdh, L-threonine 3-dehydrogenase. This protein is a
tetrameric, zinc-binding, NAD-dependent enzyme of
threonine catabolism. Closely related proteins include
sorbitol dehydrogenase, xylitol dehydrogenase, and
benzyl alcohol dehydrogenase. Eukaryotic examples of
this enzyme have been demonstrated experimentally but do
not appear in database search results.E. coli His-90
modulates substrate specificity and is believed part of
the active site [Energy metabolism, Amino acids and
amines].
Length = 340
Score = 99 bits (249), Expect = 2e-23
Identities = 61/196 (31%), Positives = 97/196 (49%), Gaps = 10/196 (5%)
Query: 214 HAFETAKTGAGNAIKVMIHCDRVAIEPGVPCRTCTYCKEGRYNLCRQ--IFFCATPPDHG 271
H G G ++ + D V++E + C C C+ G+Y++C+ IF T G
Sbjct: 61 HEVAGEVVGIGPGVEGIKVGDYVSVETHIVCGKCYACRRGQYHVCQNTKIFGVDTD---G 117
Query: 272 NLSRYYRHAADFCHKLPDHVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLV 331
+ Y A K P + E + EPL VH AG G VL+TGAGPIGL+
Sbjct: 118 CFAEYAVVPAQNIWKNPKSIPPEYATIQEPLGNAVHTVL-AGPISGKSVLVTGAGPIGLM 176
Query: 332 TLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPD 391
+ A+A GA V+++D E++L+ AK+MGA V + ++E++ +L GE D
Sbjct: 177 AIAVAKASGAYPVIVSDPNEYRLELAKKMGATYVVNPFKEDVVKEVA----DLTDGEGVD 232
Query: 392 KTIDCSGIESTIKLGM 407
++ SG ++ G+
Sbjct: 233 VFLEMSGAPKALEQGL 248
Score = 57.2 bits (138), Expect = 4e-09
Identities = 22/62 (35%), Positives = 35/62 (56%)
Query: 82 PIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 141
P+ +P EVL+++ ICG+DVH + R+ P +VGHE +G V +G V+
Sbjct: 17 PVPEPGPGEVLIKVLATSICGTDVHIYNWDEWAQSRIKPPQVVGHEVAGEVVGIGPGVEG 76
Query: 142 LK 143
+K
Sbjct: 77 IK 78
Score = 46.0 bits (109), Expect = 2e-05
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 6 ICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICG+DVH + R+ P +VGHE +G V +G V+ +KV
Sbjct: 35 ICGTDVHIYNWDEWAQSRIKPPQVVGHEVAGEVVGIGPGVEGIKV 79
Score = 34.8 bits (80), Expect = 0.065
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 8/103 (7%)
Query: 124 VGHEASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQDVKIPLV-LTMTKEIDIRGVF--- 179
V E SG A + L+A PGG + ++G V I + K + I G+
Sbjct: 233 VFLEMSGAPK---ALEQGLQAVTPGGRVSLLGLPPGKVTIDFTNKVIFKGLTIYGITGRH 289
Query: 180 RYANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTG 222
+ Y ++ ++ SGK+D+ +ITH + + FE ++G
Sbjct: 290 MFETWYTVS-RLIQSGKLDLDPIITHKFKFDKFEKGFELMRSG 331
>gnl|CDD|176223 cd08262, Zn_ADH8, Alcohol dehydrogenases of the MDR family. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 341
Score = 97.0 bits (242), Expect = 2e-22
Identities = 49/166 (29%), Positives = 70/166 (42%), Gaps = 12/166 (7%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
RV P + C C G P G + Y + ++PD +S+
Sbjct: 90 TRVTSLPLLLCGQGASCGIGLSP--------EAP---GGYAEYMLLSEALLLRVPDGLSM 138
Query: 294 EEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHK 353
E+ AL EPL+VG+HA RRA +T G L+ G GPIGL + +A G +V +D +
Sbjct: 139 EDAALTEPLAVGLHAVRRARLTPGEVALVIGCGPIGLAVIAALKARGVGPIVASDFSPER 198
Query: 354 LKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGI 399
A MGAD V+ S + G +P +C G
Sbjct: 199 RALALAMGADI-VVDPAADSPFAAWAAELARAGGPKPAVIFECVGA 243
Score = 48.5 bits (116), Expect = 3e-06
Identities = 26/93 (27%), Positives = 45/93 (48%), Gaps = 4/93 (4%)
Query: 142 LKATRPGGCLVIVGA-GSQDVKIPLVLTMTKEIDIRGVFRYA-NDYPIALAMVASGKVDV 199
++ PGG +V+VG D P L + KE+ ++ Y ++ AL +A GKVDV
Sbjct: 251 IEGAPPGGRIVVVGVCMESDNIEPA-LAIRKELTLQFSLGYTPEEFADALDALAEGKVDV 309
Query: 200 KKLITHNYLLEDTLHAFETAKTGAGNAIKVMIH 232
++T L+ AFE + + K+++
Sbjct: 310 APMVTGTVGLDGVPDAFEALRDPEHH-CKILVD 341
Score = 39.6 bits (93), Expect = 0.002
Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 8/71 (11%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTH--------GQIGDFRLSDPMIVGHEASG 130
P +P +VL+++ GICGSD+H H G L +++GHE G
Sbjct: 14 RDVPDPEPGPGQVLVKVLACGICGSDLHATAHPEAMVDDAGGPSLMDLGADIVLGHEFCG 73
Query: 131 IVSKVGAKVKH 141
V G +
Sbjct: 74 EVVDYGPGTER 84
Score = 34.2 bits (79), Expect = 0.098
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 8/51 (15%)
Query: 5 GICGSDVHYLTH--------GQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 47
GICGSD+H H G L +++GHE G V G +
Sbjct: 34 GICGSDLHATAHPEAMVDDAGGPSLMDLGADIVLGHEFCGEVVDYGPGTER 84
>gnl|CDD|180054 PRK05396, tdh, L-threonine 3-dehydrogenase; Validated.
Length = 341
Score = 95.3 bits (238), Expect = 7e-22
Identities = 49/135 (36%), Positives = 72/135 (53%), Gaps = 6/135 (4%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCR--QIFFCATPPDHGNLSRYYRHAADFCHKLPDHV 291
DRV+ E + C C C+ GR +LCR + P G + Y A K+PD +
Sbjct: 83 DRVSGEGHIVCGHCRNCRAGRRHLCRNTKGVGVNRP---GAFAEYLVIPAFNVWKIPDDI 139
Query: 292 SLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILE 351
+ A+ +P VH + +G VLITGAGPIG++ A+ +GA VVITD+ E
Sbjct: 140 PDDLAAIFDPFGNAVH-TALSFDLVGEDVLITGAGPIGIMAAAVAKHVGARHVVITDVNE 198
Query: 352 HKLKTAKEMGADATV 366
++L+ A++MGA V
Sbjct: 199 YRLELARKMGATRAV 213
Score = 51.7 bits (125), Expect = 3e-07
Identities = 22/65 (33%), Positives = 36/65 (55%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
P+ +P ++VL+++ ICG+DVH + + PM+VGHE G V +VG++
Sbjct: 16 TDVPVPEPGPNDVLIKVKKTAICGTDVHIYNWDEWAQKTIPVPMVVGHEFVGEVVEVGSE 75
Query: 139 VKHLK 143
V K
Sbjct: 76 VTGFK 80
Score = 43.7 bits (104), Expect = 9e-05
Identities = 19/46 (41%), Positives = 26/46 (56%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICG+DVH + + PM+VGHE G V +VG++V KV
Sbjct: 36 AICGTDVHIYNWDEWAQKTIPVPMVVGHEFVGEVVEVGSEVTGFKV 81
Score = 36.0 bits (84), Expect = 0.027
Identities = 24/92 (26%), Positives = 48/92 (52%), Gaps = 7/92 (7%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVF-R--YANDYPIALAMVASGKVD 198
L GG + ++G D+ I + K + I+G++ R + Y ++ A++ SG +D
Sbjct: 250 LDNMNHGGRIAMLGIPPGDMAIDWNKVIFKGLTIKGIYGREMFETWYKMS-ALLQSG-LD 307
Query: 199 VKKLITHNYLLEDTLHAFETAKTGAGNAIKVM 230
+ +ITH + ++D FE + +G + KV+
Sbjct: 308 LSPIITHRFPIDDFQKGFEAMR--SGQSGKVI 337
>gnl|CDD|176216 cd08254, hydroxyacyl_CoA_DH, 6-hydroxycyclohex-1-ene-1-carboxyl-CoA
dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase,
and other MDR family members. This group contains
enzymes of the zinc-dependent alcohol dehydrogenase
family, including members (aka MDR) identified as
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase and
N-benzyl-3-pyrrolidinol dehydrogenase.
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase
catalyzes the conversion of
6-Hydroxycyclohex-1-enecarbonyl-CoA and NAD+ to
6-Ketoxycyclohex-1-ene-1-carboxyl-CoA,NADH, and H+. This
group displays the characteristic catalytic and
structural zinc sites of the zinc-dependent alcohol
dehydrogenases. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 338
Score = 95.0 bits (237), Expect = 9e-22
Identities = 56/178 (31%), Positives = 75/178 (42%), Gaps = 17/178 (9%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
DRVA+ +PC C C+ GR NLC D G A +PD V
Sbjct: 82 DRVAVPAVIPCGACALCRRGRGNLCLNQGMPGLGIDGGFAEYIVVPARALVP-VPDGVPF 140
Query: 294 EEG-----ALLEPLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVIT 347
+ A+L P HA R V G VL+ G G +GL + A+A+GA V+
Sbjct: 141 AQAAVATDAVLTPY----HAVVRAGEVKPGETVLVIGLGGLGLNAVQIAKAMGA-AVIAV 195
Query: 348 DILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKL 405
DI E KL+ AKE+GAD + SL++ G D D G + T +
Sbjct: 196 DIKEEKLELAKELGADEVLN-----SLDDSPKDKKAAGLGGGFDVIFDFVGTQPTFED 248
Score = 65.3 bits (160), Expect = 8e-12
Identities = 28/80 (35%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 78 REQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGA 137
E+ P+ +P EVL+++ G+C SD+H L G P+ +GHE +G V +VGA
Sbjct: 16 LEEVPVPEPGPGEVLVKVKAAGVCHSDLHILDGG--VPTLTKLPLTLGHEIAGTVVEVGA 73
Query: 138 KVKHLKATRPGGCLVIVGAG 157
V + K G V V A
Sbjct: 74 GVTNFKV----GDRVAVPAV 89
Score = 56.9 bits (138), Expect = 6e-09
Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVPEFRNVC 64
G+C SD+H L G P+ +GHE +G V +VGA V + KV + R C
Sbjct: 37 GVCHSDLHILDGG--VPTLTKLPLTLGHEIAGTVVEVGAGVTNFKVGD--RVAVPAVIPC 92
Query: 65 LSPILRRR 72
+ L RR
Sbjct: 93 GACALCRR 100
Score = 49.2 bits (118), Expect = 2e-06
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYA-NDYPIALAMVASGKVDVK 200
KA +PGG +V+VG G + + L + +E+ I G F D P L ++A GK+D +
Sbjct: 250 QKAVKPGGRIVVVGLGRDKLTVDLSDLIARELRIIGSFGGTPEDLPEVLDLIAKGKLDPQ 309
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 92.3 bits (230), Expect = 8e-21
Identities = 44/137 (32%), Positives = 66/137 (48%), Gaps = 8/137 (5%)
Query: 234 DRVAIE-PGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVS 292
DRV + + C C YC+ G NLC G + Y A + K+P+ +
Sbjct: 83 DRVGVGWLVISCGECEYCRSGNENLCPNQKI-TGYTTDGGYAEYVVVPARYVVKIPEGLD 141
Query: 293 LEEGALLEPLSVGV---HACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDI 349
L E A L L G+ A ++A V G V + GAG +G + + A+A+GA V+
Sbjct: 142 LAEAAPL--LCAGITTYRALKKANVKPGKWVAVVGAGGLGHMAVQYAKAMGA-EVIAITR 198
Query: 350 LEHKLKTAKEMGADATV 366
E KL+ AK++GAD +
Sbjct: 199 SEEKLELAKKLGADHVI 215
Score = 61.1 bits (149), Expect = 2e-10
Identities = 28/77 (36%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E+ P+ +P EVL+++ G+C +D+H + G +L P+I GHE G V +VG
Sbjct: 19 EEVPVPEPGPGEVLIKVEACGVCHTDLH-VAKGDWPVPKL--PLIPGHEIVGTVVEVGEG 75
Query: 139 VKHLKATRPGGCLVIVG 155
V LK G V VG
Sbjct: 76 VTGLKV----GDRVGVG 88
Score = 51.0 bits (123), Expect = 4e-07
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+ G+C +D+H + G +L P+I GHE G V +VG V LKV
Sbjct: 35 VEACGVCHTDLH-VAKGDWPVPKL--PLIPGHEIVGTVVEVGEGVTGLKV 81
Score = 41.4 bits (98), Expect = 5e-04
Identities = 36/109 (33%), Positives = 46/109 (42%), Gaps = 8/109 (7%)
Query: 115 DFRLSDPM-IVGHEASGIVSKVGAKV--KHLKATRPGGCLVIVG--AGSQDVKIPLVLTM 169
+ SD + V A I+ VG LKA R GG LV+VG G +P L +
Sbjct: 216 NSSDSDALEAVKEIADAIIDTVGPATLEPSLKALRRGGTLVLVGLPGGGPIPLLPAFLLI 275
Query: 170 TKEIDIRGVFRY-ANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFE 217
KEI I G D AL A GK +K I L++ A+E
Sbjct: 276 LKEISIVGSLVGTRADLEEALDFAAEGK--IKPEILETIPLDEINEAYE 322
>gnl|CDD|176246 cd08286, FDH_like_ADH2, formaldehyde dehydrogenase (FDH)-like.
This group is related to formaldehyde dehydrogenase
(FDH), which is a member of the zinc-dependent/medium
chain alcohol dehydrogenase family. This family uses
NAD(H) as a cofactor in the interconversion of alcohols
and aldehydes, or ketones. Another member is identified
as a dihydroxyacetone reductase. Like the zinc-dependent
alcohol dehydrogenases (ADH) of the medium chain alcohol
dehydrogenase/reductase family (MDR), tetrameric FDHs
have a catalytic zinc that resides between the catalytic
and NAD(H)binding domains and a structural zinc in a
lobe of the catalytic domain. Unlike ADH, where
NAD(P)(H) acts as a cofactor, NADH in FDH is a tightly
bound redox cofactor (similar to nicotinamide proteins).
The medium chain alcohol dehydrogenase family (MDR) has
a NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit.
Length = 345
Score = 91.2 bits (227), Expect = 2e-20
Identities = 60/185 (32%), Positives = 90/185 (48%), Gaps = 24/185 (12%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQ---IFFCATPPDHGNL-----SRYYR--HAADF 283
DRV I C TC YC++G Y+ C I GNL + Y R HA +
Sbjct: 80 DRVLISCISSCGTCGYCRKGLYSHCESGGWIL--------GNLIDGTQAEYVRIPHADNS 131
Query: 284 CHKLPDHVSLEEGALLEPLSVGVHAC--RRAGVTLGSKVLITGAGPIGLVTLLTARALGA 341
+KLP+ V E +L + + C V G V I GAGP+GL LLTA+
Sbjct: 132 LYKLPEGVDEEAAVMLSDILPTGYECGVLNGKVKPGDTVAIVGAGPVGLAALLTAQLYSP 191
Query: 342 SRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIES 401
S++++ D+ +++L+ AK++GA TV N + + ++EL G D I+ GI +
Sbjct: 192 SKIIMVDLDDNRLEVAKKLGATHTV----NSAKGDAIEQVLELTDGRGVDVVIEAVGIPA 247
Query: 402 TIKLG 406
T +L
Sbjct: 248 TFELC 252
Score = 49.6 bits (119), Expect = 1e-06
Identities = 30/87 (34%), Positives = 45/87 (51%), Gaps = 1/87 (1%)
Query: 146 RPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYANDYPIALAMVASGKVDVKKLITH 205
PGG + VG + V + L K I I N P+ L +V+SGK+D KL+TH
Sbjct: 257 APGGHIANVGVHGKPVDLHLEKLWIKNITITTGLVDTNTTPMLLKLVSSGKLDPSKLVTH 316
Query: 206 NYLLEDTLHAFETAKTGAGN-AIKVMI 231
+ L + A++T A + A+KV+I
Sbjct: 317 RFKLSEIEKAYDTFSAAAKHKALKVII 343
Score = 39.2 bits (92), Expect = 0.003
Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 13/79 (16%)
Query: 79 EQKP---IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDP-MIVGHEASGIVSK 134
E +P I++P D +++M ICG+D+H L GD P I+GHE G+V +
Sbjct: 15 EDRPKPTIQEPTD--AIVKMLKTTICGTDLHILK----GDVPTVTPGRILGHEGVGVVEE 68
Query: 135 VGAKVKHLKATRPGGCLVI 153
VG+ V + K G ++I
Sbjct: 69 VGSAVTNFK---VGDRVLI 84
Score = 37.6 bits (88), Expect = 0.009
Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 5/46 (10%)
Query: 6 ICGSDVHYLTHGQIGDFRLSDP-MIVGHEASGIVSKVGAKVKHLKV 50
ICG+D+H L GD P I+GHE G+V +VG+ V + KV
Sbjct: 37 ICGTDLHILK----GDVPTVTPGRILGHEGVGVVEEVGSAVTNFKV 78
>gnl|CDD|176221 cd08260, Zn_ADH6, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. This group has the characteristic
catalytic and structural zinc sites of the
zinc-dependent alcohol dehydrogenases. Alcohol
dehydrogenase in the liver converts ethanol and NAD+ to
acetaldehyde and NADH, while in yeast and some other
microorganisms ADH catalyzes the conversion acetaldehyde
to ethanol in alcoholic fermentation. ADH is a member of
the medium chain alcohol dehydrogenase family (MDR),
which has a NAD(P)(H)-binding domain in a Rossmann fold
of a beta-alpha form. The NAD(H)-binding region is
comprised of 2 structurally similar halves, each of
which contacts a mononucleotide. A GxGxxG motif after
the first mononucleotide contact half allows the close
contact of the coenzyme with the ADH backbone. The
N-terminal catalytic domain has a distant homology to
GroES. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and 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. NAD(H)-binding occurs
in the cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 345
Score = 87.7 bits (218), Expect = 4e-19
Identities = 59/184 (32%), Positives = 79/184 (42%), Gaps = 32/184 (17%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIF---FCATPPDHGNLSRYYR-HAADF-CHKLP 288
DRV + + C TC YC+ G N+C F G+ + Y AD +LP
Sbjct: 80 DRVTVPFVLGCGTCPYCRAGDSNVCEHQVQPGFTH----PGSFAEYVAVPRADVNLVRLP 135
Query: 289 DHVSLEEGALLEPLSVGVHACR----------RAGVTLGSKVLITGAGPIGLVTLLTARA 338
D V A L CR +A V G V + G G +GL ++ A A
Sbjct: 136 DDVDFVTAAGL--------GCRFATAFRALVHQARVKPGEWVAVHGCGGVGLSAVMIASA 187
Query: 339 LGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
LGA RV+ DI + KL+ A+E+GA ATV N S E + L G ++D G
Sbjct: 188 LGA-RVIAVDIDDDKLELARELGAVATV----NASEVEDVAAAVRDLTGGGAHVSVDALG 242
Query: 399 IEST 402
I T
Sbjct: 243 IPET 246
Score = 42.6 bits (101), Expect = 2e-04
Identities = 27/92 (29%), Positives = 42/92 (45%), Gaps = 7/92 (7%)
Query: 124 VGHEASGIVSKVGAKVKHLKATRPGGCLVIVG---AGSQDVKIPLVLTMTKEIDIRGVFR 180
V +A GI V L R G V VG V +P+ + +E++I G
Sbjct: 236 VSVDALGIPETCRNSVASL---RKRGRHVQVGLTLGEEAGVALPMDRVVARELEIVGSHG 292
Query: 181 Y-ANDYPIALAMVASGKVDVKKLITHNYLLED 211
A+ Y LA++ASGK+D + L+ L++
Sbjct: 293 MPAHRYDAMLALIASGKLDPEPLVGRTISLDE 324
Score = 38.7 bits (91), Expect = 0.004
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 13/67 (19%)
Query: 82 PIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIV-----GHEASGIVSKVG 136
P +P V++E+ G+C SD HG G DP + GHE +G+V +VG
Sbjct: 19 PDPEPPPDGVVVEVEACGVCRSD----WHGWQGH----DPDVTLPHVPGHEFAGVVVEVG 70
Query: 137 AKVKHLK 143
V +
Sbjct: 71 EDVSRWR 77
Score = 31.0 bits (71), Expect = 1.1
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 13/51 (25%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIV-----GHEASGIVSKVGAKVKHLKV 50
G+C SD HG G DP + GHE +G+V +VG V +V
Sbjct: 36 GVCRSD----WHGWQGH----DPDVTLPHVPGHEFAGVVVEVGEDVSRWRV 78
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 342
Score = 85.0 bits (211), Expect = 2e-18
Identities = 54/170 (31%), Positives = 75/170 (44%), Gaps = 19/170 (11%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQI----FFCATPPDHGNLSRYYRHAADFCHKLPD 289
RV I PG+ C C YC GR NLC Q G + Y A +PD
Sbjct: 83 QRVVIYPGISCGRCEYCLAGRENLCAQYGILGEHV-----DGGYAEYVAVPARNLLPIPD 137
Query: 290 HVSLEEGALLEPLSVGV--HACR-RAGVTLGSKVLITGAGP-IGLVTLLTARALGASRVV 345
++S EE A PL+ H RA + G VL+ GAG +G + A+ GA V+
Sbjct: 138 NLSFEEAAAA-PLTFLTAWHMLVTRARLRPGETVLVHGAGSGVGSAAIQIAKLFGA-TVI 195
Query: 346 ITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTID 395
T E KL+ AKE+GAD + ++ E+ + EL D ++
Sbjct: 196 ATAGSEDKLERAKELGADYVI----DYRKEDFVREVRELTGKRGVDVVVE 241
Score = 32.2 bits (74), Expect = 0.49
Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
L + + P +P EVL+ + + D+ ++ G G +L P I+G + +G+V
Sbjct: 15 LEYGD-LPEPEPGPDEVLVRVKAAALNHLDL-WVRRGMPG-IKLPLPHILGSDGAGVVEA 71
Query: 135 VGAKVKHLK 143
VG V ++K
Sbjct: 72 VGPGVTNVK 80
Score = 31.1 bits (71), Expect = 0.90
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 23 RLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+L P I+G + +G+V VG V ++K
Sbjct: 54 KLPLPHILGSDGAGVVEAVGPGVTNVKP 81
Score = 29.9 bits (68), Expect = 2.5
Identities = 27/91 (29%), Positives = 39/91 (42%), Gaps = 6/91 (6%)
Query: 131 IVSKVGAKV--KHLKATRPGGCLVIVGAGS-QDVKIPLVLTMTKEIDIRGVFRYAND-YP 186
+V VGA K LK+ GG LV GA + + I L +++ I G
Sbjct: 239 VVEHVGAATWEKSLKSLARGGRLVTCGATTGYEAPIDLRHVFWRQLSILGSTMGTKAELD 298
Query: 187 IALAMVASGKVDVKKLITHNYLLEDTLHAFE 217
AL +V GK +K +I + LE+ A
Sbjct: 299 EALRLVFRGK--LKPVIDSVFPLEEAAEAHR 327
>gnl|CDD|176240 cd08279, Zn_ADH_class_III, Class III alcohol dehydrogenase.
Glutathione-dependent formaldehyde dehydrogenases (FDHs,
Class III ADH) are members of the zinc-dependent/medium
chain alcohol dehydrogenase family. FDH converts
formaldehyde and NAD(P) to formate and NAD(P)H. The
initial step in this process the spontaneous formation
of a S-(hydroxymethyl)glutathione adduct from
formaldehyde and glutathione, followed by FDH-mediated
oxidation (and detoxification) of the adduct to
S-formylglutathione. NAD(P)(H)-dependent oxidoreductases
are the major enzymes in the interconversion of alcohols
and aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. Class III ADH are also known as
glutathione-dependent formaldehyde dehydrogenase (FDH),
which convert aldehydes to corresponding carboxylic acid
and alcohol. ADH is a member of the medium chain
alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Length = 363
Score = 85.3 bits (212), Expect = 3e-18
Identities = 51/194 (26%), Positives = 71/194 (36%), Gaps = 31/194 (15%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAAD---FCH----- 285
D V + C TC YC G+ NLC R+ C
Sbjct: 79 DHVVLSWIPACGTCRYCSRGQPNLCDLGAGILGGQLPDGTRRFTADGEPVGAMCGLGTFA 138
Query: 286 -----------KLPDHVSLEEGALLEPLSVGV-----HACRRAGVTLGSKVLITGAGPIG 329
K+ D + L+ ALL GV A V G V + G G +G
Sbjct: 139 EYTVVPEASVVKIDDDIPLDRAALL---GCGVTTGVGAVVNTARVRPGDTVAVIGCGGVG 195
Query: 330 LVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQ 389
L + AR GASR++ D + KL+ A+ GA TV N S ++ + +L G
Sbjct: 196 LNAIQGARIAGASRIIAVDPVPEKLELARRFGATHTV----NASEDDAVEAVRDLTDGRG 251
Query: 390 PDKTIDCSGIESTI 403
D + G +TI
Sbjct: 252 ADYAFEAVGRAATI 265
Score = 66.4 bits (163), Expect = 5e-12
Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 4/61 (6%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
++DP EVL+ + G+C SD+H +T GD P ++GHE +G+V +VG V +
Sbjct: 20 LDDPGPGEVLVRIAAAGLCHSDLHVVT----GDLPAPLPAVLGHEGAGVVEEVGPGVTGV 75
Query: 143 K 143
K
Sbjct: 76 K 76
Score = 54.9 bits (133), Expect = 3e-08
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+ G+C SD+H +T GD P ++GHE +G+V +VG V +K
Sbjct: 32 IAAAGLCHSDLHVVT----GDLPAPLPAVLGHEGAGVVEEVGPGVTGVKP 77
Score = 43.7 bits (104), Expect = 1e-04
Identities = 27/104 (25%), Positives = 44/104 (42%), Gaps = 9/104 (8%)
Query: 127 EASGIVSKVGAKVKHLKATRPGGCLVIVGAG--SQDVKIPLVLTMTKEIDIRGVF----R 180
EA G + + L TR GG V+VG G + V +P + E ++G
Sbjct: 257 EAVGRAATIRQA---LAMTRKGGTAVVVGMGPPGETVSLPALELFLSEKRLQGSLYGSAN 313
Query: 181 YANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAG 224
D P L + +G++ + +L+T Y L++ AF G
Sbjct: 314 PRRDIPRLLDLYRAGRLKLDELVTRRYSLDEINEAFADMLAGEN 357
>gnl|CDD|176243 cd08283, FDH_like_1, Glutathione-dependent formaldehyde
dehydrogenase related proteins, child 1. Members
identified as glutathione-dependent formaldehyde
dehydrogenase(FDH), a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. FDH converts formaldehyde and NAD(P) to formate
and NAD(P)H. The initial step in this process the
spontaneous formation of a S-(hydroxymethyl)glutathione
adduct from formaldehyde and glutathione, followed by
FDH-mediated oxidation (and detoxification) of the
adduct to S-formylglutathione. MDH family uses NAD(H)
as a cofactor in the interconversion of alcohols and
aldehydes, or ketones. Like many zinc-dependent alcohol
dehydrogenases (ADH) of the medium chain alcohol
dehydrogenase/reductase family (MDR), these FDHs form
dimers, with 4 zinc ions per dimer. The medium chain
alcohol dehydrogenase family (MDR) has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit.
Length = 386
Score = 85.3 bits (212), Expect = 3e-18
Identities = 57/195 (29%), Positives = 83/195 (42%), Gaps = 37/195 (18%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHA------------- 280
DRV + + C C YCK G Y+ C T P +++ Y HA
Sbjct: 80 DRVVVPFTIACGECFYCKRGLYSQCDN-----TNP-SAEMAKLYGHAGAGIFGYSHLTGG 133
Query: 281 -------------ADF-CHKLPDHVSLEEGALL-EPLSVGVHACRRAGVTLGSKVLITGA 325
AD K+PD +S E+ L + L G HA A V G V + G
Sbjct: 134 YAGGQAEYVRVPFADVGPFKIPDDLSDEKALFLSDILPTGYHAAELAEVKPGDTVAVWGC 193
Query: 326 GPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELL 385
GP+GL +A+ LGA RV+ D + +L+ A+ A I+ ++++ + EL
Sbjct: 194 GPVGLFAARSAKLLGAERVIAIDRVPERLEMARSH-LGAET-INFEE-VDDVVEALRELT 250
Query: 386 QGEQPDKTIDCSGIE 400
G PD ID G+E
Sbjct: 251 GGRGPDVCIDAVGME 265
Score = 53.3 bits (129), Expect = 1e-07
Identities = 26/61 (42%), Positives = 37/61 (60%), Gaps = 5/61 (8%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
IEDP D ++ + ICGSD+H L HG I + I+GHE G+V +VG +V++L
Sbjct: 22 IEDPTD--AIVRVTATAICGSDLH-LYHGYIPGMK--KGDILGHEFMGVVEEVGPEVRNL 76
Query: 143 K 143
K
Sbjct: 77 K 77
Score = 51.0 bits (123), Expect = 5e-07
Identities = 22/45 (48%), Positives = 30/45 (66%), Gaps = 3/45 (6%)
Query: 6 ICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICGSD+H L HG I + I+GHE G+V +VG +V++LKV
Sbjct: 37 ICGSDLH-LYHGYIPGMK--KGDILGHEFMGVVEEVGPEVRNLKV 78
Score = 47.9 bits (115), Expect = 5e-06
Identities = 30/93 (32%), Positives = 44/93 (47%), Gaps = 8/93 (8%)
Query: 142 LKATRPGGCLVIVGA-GSQDVKIPLVLTMTKEIDIRG----VFRYANDYPIALAMVASGK 196
++A R GG + I+G G K P+ M K + +R V RY P L ++ SG+
Sbjct: 293 IQAVRKGGTVSIIGVYGGTVNKFPIGAAMNKGLTLRMGQTHVQRY---LPRLLELIESGE 349
Query: 197 VDVKKLITHNYLLEDTLHAFETAKTGAGNAIKV 229
+D +ITH LED A++ IKV
Sbjct: 350 LDPSFIITHRLPLEDAPEAYKIFDKKEDGCIKV 382
>gnl|CDD|176220 cd08259, Zn_ADH5, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. This group contains proteins that
share the characteristic catalytic and structural
zinc-binding sites of the zinc-dependent alcohol
dehydrogenase family. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine
(His-51), the ribose of NAD, a serine (Ser-48), then the
alcohol, which allows the transfer of a hydride to NAD+,
creating NADH and a zinc-bound aldehyde or ketone. In
yeast and some bacteria, the active site zinc binds an
aldehyde, polarizing it, and leading to the reverse
reaction.
Length = 332
Score = 82.0 bits (203), Expect = 3e-17
Identities = 56/137 (40%), Positives = 69/137 (50%), Gaps = 8/137 (5%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
DRV + +PC C YC G NLCR D G + Y + KLPD+VS
Sbjct: 80 DRVILYYYIPCGKCEYCLSGEENLCRNRAEYGEEVD-GGFAEYVKVPERSLVKLPDNVSD 138
Query: 294 EEGALLE-PLSVGVHACRRAGVTLGSKVLITGAGP---IGLVTLLTARALGASRVVITDI 349
E AL + VHA +RAGV G VL+TGAG I + L A+ALGA RV+
Sbjct: 139 ESAALAACVVGTAVHALKRAGVKKGDTVLVTGAGGGVGIHAIQL--AKALGA-RVIAVTR 195
Query: 350 LEHKLKTAKEMGADATV 366
KLK KE+GAD +
Sbjct: 196 SPEKLKILKELGADYVI 212
Score = 51.5 bits (124), Expect = 3e-07
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 5/81 (6%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDF-RLSDPMIVGHEASGIVSKVGA 137
E+ P +P EVL+++ G+C D+ + G F R P+I+GHE G V +VG
Sbjct: 16 EEVPDPEPGPGEVLIKVKAAGVCYRDLLFWK----GFFPRGKYPLILGHEIVGTVEEVGE 71
Query: 138 KVKHLKATRPGGCLVIVGAGS 158
V+ K + G
Sbjct: 72 GVERFKPGDRVILYYYIPCGK 92
Score = 44.2 bits (105), Expect = 7e-05
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 5 GICGSDVHYLTHGQIGDF-RLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+C D+ + G F R P+I+GHE G V +VG V+ K
Sbjct: 36 GVCYRDLLFWK----GFFPRGKYPLILGHEIVGTVEEVGEGVERFKP 78
Score = 38.8 bits (91), Expect = 0.003
Identities = 27/83 (32%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 142 LKATRPGGCLVIVG-AGSQDVKIPLVLTMTKEIDIRGVFRYA-NDYPIALAMVASGKVDV 199
L++ GG LV++G + L + KEI I G D AL +V GK +
Sbjct: 243 LRSLNKGGRLVLIGNVTPDPAPLRPGLLILKEIRIIGSISATKADVEEALKLVKEGK--I 300
Query: 200 KKLITHNYLLEDTLHAFETAKTG 222
K +I LED A E K+G
Sbjct: 301 KPVIDRVVSLEDINEALEDLKSG 323
>gnl|CDD|176217 cd08255, 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_like,
2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and
other MDR family members. This subgroup of the medium
chain dehydrogenases/reductase (MDR)/zinc-dependent
alcohol dehydrogenase-like family has members identified
as 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A
dehydrogenase and alcohol dehydrogenases. The medium
chain dehydrogenases/reductase (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. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 277
Score = 81.2 bits (201), Expect = 3e-17
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 17/138 (12%)
Query: 276 YYRHA------ADFCHKLPDHVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIG 329
+ HA A+ LPD + E AL + ++ R A LG +V + G G +G
Sbjct: 51 FGPHAERVVVPANLLVPLPDGLPPERAALTALAATALNGVRDAEPRLGERVAVVGLGLVG 110
Query: 330 LVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQ 389
L+ A+A GA VV D + + A+ +G V D + ++
Sbjct: 111 LLAAQLAKAAGAREVVGVDPDAARRELAEALGPADPVAADTADEIGGRGADVV------- 163
Query: 390 PDKTIDCSGIESTIKLGM 407
I+ SG S ++ +
Sbjct: 164 ----IEASGSPSALETAL 177
Score = 35.7 bits (83), Expect = 0.035
Identities = 25/103 (24%), Positives = 40/103 (38%), Gaps = 15/103 (14%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIR-----GVFRYANDYPI--------A 188
L+ R G +V+VG + K + IR G+ RY A
Sbjct: 177 LRLLRDRGRVVLVGWYGLKPLLLGEEFHFKRLPIRSSQVYGIGRYDRPRRWTEARNLEEA 236
Query: 189 LAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
L ++A G+++ LITH ED A+ +KV++
Sbjct: 237 LDLLAEGRLE--ALITHRVPFEDAPEAYRLLFEDPPECLKVVL 277
Score = 32.2 bits (74), Expect = 0.41
Identities = 10/34 (29%), Positives = 16/34 (47%)
Query: 18 QIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVD 51
G +L P+ G+ + G V +VG+ V K
Sbjct: 12 STGTEKLPLPLPPGYSSVGRVVEVGSGVTGFKPG 45
Score = 30.7 bits (70), Expect = 1.3
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 112 QIGDFRLSDPMIVGHEASGIVSKVGAKVKHLK 143
G +L P+ G+ + G V +VG+ V K
Sbjct: 12 STGTEKLPLPLPPGYSSVGRVVEVGSGVTGFK 43
>gnl|CDD|176242 cd08282, PFDH_like, Pseudomonas putida aldehyde-dismutating
formaldehyde dehydrogenase (PFDH). Formaldehyde
dehydrogenase (FDH) is a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. Unlike typical FDH, Pseudomonas putida
aldehyde-dismutating FDH (PFDH) is
glutathione-independent. PFDH converts 2 molecules of
aldehydes to corresponding carboxylic acid and alcohol.
MDH family uses NAD(H) as a cofactor in the
interconversion of alcohols and aldehydes, or ketones.
Like the zinc-dependent alcohol dehydrogenases (ADH) of
the medium chain alcohol dehydrogenase/reductase family
(MDR), these tetrameric FDHs have a catalytic zinc that
resides between the catalytic and NAD(H)binding domains
and a structural zinc in a lobe of the catalytic domain.
Unlike ADH, where NAD(P)(H) acts as a cofactor, NADH in
FDH is a tightly bound redox cofactor (similar to
nicotinamide proteins). The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of an beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 375
Score = 81.5 bits (202), Expect = 5e-17
Identities = 56/182 (30%), Positives = 76/182 (41%), Gaps = 21/182 (11%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLC---------RQIFFCATPPDHGNLSRYYR--HAAD 282
DRV + V C C CK G +C + P G + Y R +A
Sbjct: 79 DRVVVPFNVACGRCRNCKRGLTGVCLTVNPGRAGGAYGYVDMGPYGGGQAEYLRVPYADF 138
Query: 283 FCHKLPDHVSLEEGALLEPLS----VGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARA 338
KLPD +E LS G H AGV G V + GAGP+GL+ +A
Sbjct: 139 NLLKLPDRDGAKEKDDYLMLSDIFPTGWHGLELAGVQPGDTVAVFGAGPVGLMAAYSAIL 198
Query: 339 LGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
GASRV + D + +L A+ +GA I + S + I+ L G D+ +DC G
Sbjct: 199 RGASRVYVVDHVPERLDLAESIGA-----IPIDFSDGDPVEQILGLEPGGV-DRAVDCVG 252
Query: 399 IE 400
E
Sbjct: 253 YE 254
Score = 49.5 bits (119), Expect = 1e-06
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 10/72 (13%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
IE P D ++ + ICGSD+H + G+ G +++GHEA G V +VG+ V+ L
Sbjct: 22 IEHPTD--AIVRITTTAICGSDLH-MYRGRTGA---EPGLVLGHEAMGEVEEVGSAVESL 75
Query: 143 KATRPGGCLVIV 154
K G V+V
Sbjct: 76 KV----GDRVVV 83
Score = 47.6 bits (114), Expect = 7e-06
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 4/46 (8%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICGSD+H + G+ G +++GHEA G V +VG+ V+ LKV
Sbjct: 36 AICGSDLH-MYRGRTGA---EPGLVLGHEAMGEVEEVGSAVESLKV 77
>gnl|CDD|176226 cd08265, Zn_ADH3, Alcohol dehydrogenases of the MDR family. This
group resembles the zinc-dependent alcohol dehydrogenase
and has the catalytic and structural zinc-binding sites
characteristic of this group. The medium chain
dehydrogenases/reductase (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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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 = 384
Score = 80.3 bits (198), Expect = 1e-16
Identities = 51/175 (29%), Positives = 81/175 (46%), Gaps = 13/175 (7%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHV-- 291
D V E + C C C+ G N C+ + D G + Y A + ++ +
Sbjct: 113 DPVTAEEMMWCGMCRACRSGSPNHCKNLKELGFSAD-GAFAEYIAVNARYAWEINELREI 171
Query: 292 -----SLEEGALLEPLSVGVHAC--RRAGVTLGSKVLITGAGPIGLVTLLTARALGASRV 344
+ E GAL+EP SV + R G G+ V++ GAGPIGL + A+A GAS+V
Sbjct: 172 YSEDKAFEAGALVEPTSVAYNGLFIRGGGFRPGAYVVVYGAGPIGLAAIALAKAAGASKV 231
Query: 345 VITDILEHKLKTAKEMGADATVLIDRNH-SLEEISTHIIELLQGEQPDKTIDCSG 398
+ +I E + AKEMGAD + + ++E+ +G D ++ +G
Sbjct: 232 IAFEISEERRNLAKEMGAD--YVFNPTKMRDCLSGEKVMEVTKGWGADIQVEAAG 284
Score = 52.1 bits (125), Expect = 2e-07
Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSD----PMIVGHEASGIVSK 134
E P+ + E+L+ + GICGSD+H + G P+++GHE SG+V K
Sbjct: 42 EDVPVPNLKPDEILIRVKACGICGSDIHLYETDKDGYILYPGLTEFPVVIGHEFSGVVEK 101
Query: 135 VGAKVKHLKATRP 147
G VK+ + P
Sbjct: 102 TGKNVKNFEKGDP 114
Score = 42.5 bits (100), Expect = 3e-04
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 4 VGICGSDVHYLTHGQIGDFRLSD----PMIVGHEASGIVSKVGAKVKHLKV 50
GICGSD+H + G P+++GHE SG+V K G VK+ +
Sbjct: 61 CGICGSDIHLYETDKDGYILYPGLTEFPVVIGHEFSGVVEKTGKNVKNFEK 111
Score = 37.5 bits (87), Expect = 0.010
Identities = 28/126 (22%), Positives = 56/126 (44%), Gaps = 14/126 (11%)
Query: 108 LTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQDVKIPLVL 167
+T G D ++ EA+G +++ K+ G +V +G + V + L +
Sbjct: 270 VTKGWGADIQV--------EAAGAPPATIPQME--KSIAINGKIVYIGRAATTVPLHLEV 319
Query: 168 TMTKEIDI---RGVFRYANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAG 224
+ I +G + +P + ++ASGK+D+ K+IT + LE + A + A
Sbjct: 320 LQVRRAQIVGAQGHSGHGI-FPSVIKLMASGKIDMTKIITARFPLEGIMEAIKAASERTD 378
Query: 225 NAIKVM 230
I ++
Sbjct: 379 GKITIL 384
>gnl|CDD|182229 PRK10083, PRK10083, putative oxidoreductase; Provisional.
Length = 339
Score = 79.8 bits (197), Expect = 2e-16
Identities = 43/145 (29%), Positives = 70/145 (48%), Gaps = 3/145 (2%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
+RVA++P + C C C G+ N+C + D G S Y A H++PD ++
Sbjct: 79 ERVAVDPVISCGHCYPCSIGKPNVCTSLVVLGVHRD-GGFSEYAVVPAKNAHRIPDAIAD 137
Query: 294 EEGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTL-LTARALGASRVVITDILEH 352
+ ++EP ++ + R G T LI GAGP+GL + + V++ D ++
Sbjct: 138 QYAVMVEPFTIAANVTGRTGPTEQDVALIYGAGPVGLTIVQVLKGVYNVKAVIVADRIDE 197
Query: 353 KLKTAKEMGADATVLIDRNHSLEEI 377
+L AKE GAD V+ + L E
Sbjct: 198 RLALAKESGAD-WVINNAQEPLGEA 221
Score = 40.9 bits (96), Expect = 7e-04
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 6/78 (7%)
Query: 65 LSPILRRRFSLRFREQKPIEDPDDHEVLLEMHCVGICGSDVH-YLTHGQIGDFRLSDPMI 123
S ++ + SL E +PI P EV +++ GICGSD H Y H + P +
Sbjct: 2 KSIVIEKPNSLAIEE-RPIPQPAAGEVRVKVKLAGICGSDSHIYRGHNPFAKY----PRV 56
Query: 124 VGHEASGIVSKVGAKVKH 141
+GHE G++ VG V
Sbjct: 57 IGHEFFGVIDAVGEGVDA 74
Score = 37.0 bits (86), Expect = 0.013
Identities = 22/85 (25%), Positives = 41/85 (48%)
Query: 147 PGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYANDYPIALAMVASGKVDVKKLITHN 206
P +V++G S+ +I KE+ I AN +P+ + ++ G +D +KLITH
Sbjct: 251 PAARIVLMGFSSEPSEIVQQGITGKELSIFSSRLNANKFPVVIDWLSKGLIDPEKLITHT 310
Query: 207 YLLEDTLHAFETAKTGAGNAIKVMI 231
+ + A E + + KV++
Sbjct: 311 FDFQHVADAIELFEKDQRHCCKVLL 335
Score = 34.7 bits (80), Expect = 0.067
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 5 GICGSDVH-YLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
GICGSD H Y H + P ++GHE G++ VG V ++
Sbjct: 35 GICGSDSHIYRGHNPFAKY----PRVIGHEFFGVIDAVGEGVDAARI 77
>gnl|CDD|176187 cd05284, arabinose_DH_like, D-arabinose dehydrogenase. This group
contains arabinose dehydrogenase (AraDH) and related
alcohol dehydrogenases. AraDH is a member of the medium
chain dehydrogenase/reductase family and catalyzes the
NAD(P)-dependent oxidation of D-arabinose and other
pentoses, the initial step in the metabolism of
d-arabinose into 2-oxoglutarate. Like the alcohol
dehydrogenases, AraDH binds a zinc in the catalytic
cleft as well as a distal structural zinc. AraDH forms
homotetramers as a dimer of dimers. AraDH replaces a
conserved catalytic His with replace with Arg, compared
to the canonical ADH site. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and 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.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 340
Score = 78.4 bits (194), Expect = 4e-16
Identities = 58/182 (31%), Positives = 81/182 (44%), Gaps = 21/182 (11%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLC-RQIFFCATPPD--HGNLSRYYRHAADFCHKLPDH 290
D V + P C TC YC+ G N C F P G + Y + KLP
Sbjct: 83 DPVVVHPPWGCGTCRYCRRGEENYCENARF----PGIGTDGGFAEYLLVPSRRLVKLPRG 138
Query: 291 VSLEEGALLEPLS-VGV---HACRRAGVTL--GSKVLITGAGPIGLVTLLTARALGASRV 344
+ E A PL+ G+ HA ++A L GS V++ G G +G + + RAL + V
Sbjct: 139 LDPVEAA---PLADAGLTAYHAVKKALPYLDPGSTVVVIGVGGLGHIAVQILRALTPATV 195
Query: 345 VITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIK 404
+ D E LK A+ +GAD VL + +EE+ EL G D ID G + T+
Sbjct: 196 IAVDRSEEALKLAERLGAD-HVLNASDDVVEEVR----ELTGGRGADAVIDFVGSDETLA 250
Query: 405 LG 406
L
Sbjct: 251 LA 252
Score = 51.8 bits (125), Expect = 2e-07
Identities = 23/64 (35%), Positives = 37/64 (57%), Gaps = 4/64 (6%)
Query: 82 PIEDPDDHEVLLEMHCVGICGSDVHYLTH--GQIGDFRLSDPMIVGHEASGIVSKVGAKV 139
P+ +P +VL+ + G+C SD+H + G I ++L P +GHE +G V +VG+ V
Sbjct: 19 PVPEPGPGQVLVRVGGAGVCHSDLHVIDGVWGGILPYKL--PFTLGHENAGWVEEVGSGV 76
Query: 140 KHLK 143
LK
Sbjct: 77 DGLK 80
Score = 44.9 bits (107), Expect = 4e-05
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 4 VGICGSDVHYLTH--GQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+C SD+H + G I ++L P +GHE +G V +VG+ V LK
Sbjct: 35 AGVCHSDLHVIDGVWGGILPYKL--PFTLGHENAGWVEEVGSGVDGLKE 81
Score = 34.8 bits (81), Expect = 0.058
Identities = 29/103 (28%), Positives = 43/103 (41%), Gaps = 10/103 (9%)
Query: 125 GHEASGIVSKVGAK---VKHLKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVF-- 179
G A ++ VG+ K GG VIVG G ++P + EI + G
Sbjct: 233 GRGADAVIDFVGSDETLALAAKLLAKGGRYVIVGYGG-HGRLPTSDLVPTEISVIGSLWG 291
Query: 180 RYANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTG 222
+ +A+ SGKV V+ IT + LED A + + G
Sbjct: 292 TR-AELVEVVALAESGKVKVE--ITK-FPLEDANEALDRLREG 330
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 72.7 bits (179), Expect = 1e-15
Identities = 30/81 (37%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 327 PIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQ 386
+GL + A+ALGA+RV+ D E KL+ AKE+GAD + N+ E+ + EL
Sbjct: 1 GVGLAAVQLAKALGAARVIAVDRSEEKLELAKELGADHVI----NYRDEDFVERVRELTG 56
Query: 387 GEQPDKTIDCSGIESTIKLGM 407
G D IDC G +T++ +
Sbjct: 57 GRGVDVVIDCVGAPATLEQAL 77
Score = 40.8 bits (96), Expect = 2e-04
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 142 LKATRPGGCLVIVGA-GSQDVKIPLVLTMTKEIDIRGVFRYA-NDYPIALAMVAS 194
L+ RPGG +V+VG G V PL + KE+ I G ++ AL ++AS
Sbjct: 77 LELLRPGGRVVVVGLPGGAPVPFPLRDLLLKELTILGSLGGGREEFEEALELLAS 131
>gnl|CDD|176244 cd08284, FDH_like_2, Glutathione-dependent formaldehyde
dehydrogenase related proteins, child 2.
Glutathione-dependent formaldehyde dehydrogenases (FDHs)
are members of the zinc-dependent/medium chain alcohol
dehydrogenase family. Formaldehyde dehydrogenase (FDH)
is a member of the zinc-dependent/medium chain alcohol
dehydrogenase family. FDH converts formaldehyde and NAD
to formate and NADH. The initial step in this process
the spontaneous formation of a
S-(hydroxymethyl)glutathione adduct from formaldehyde
and glutathione, followed by FDH-mediated oxidation (and
detoxification) of the adduct to S-formylglutathione.
These tetrameric FDHs have a catalytic zinc that resides
between the catalytic and NAD(H)binding domains and a
structural zinc in a lobe of the catalytic domain. The
medium chain alcohol dehydrogenase family (MDR) has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit.
Length = 344
Score = 75.4 bits (186), Expect = 4e-15
Identities = 54/180 (30%), Positives = 80/180 (44%), Gaps = 11/180 (6%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLC-RQIFFC--ATPPDHGNLSRYYR--HAADFCHKLP 288
DRV + C C YC+ G+ C + F +P G + Y R A KLP
Sbjct: 79 DRVVSPFTIACGECFYCRRGQSGRCAKGGLFGYAGSPNLDGAQAEYVRVPFADGTLLKLP 138
Query: 289 DHVSLEEGALL-EPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVIT 347
D +S E LL + L G +RA V G V + G GP+GL +L+A+ LGA+RV
Sbjct: 139 DGLSDEAALLLGDILPTGYFGAKRAQVRPGDTVAVIGCGPVGLCAVLSAQVLGAARVFAV 198
Query: 348 DILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKLGM 407
D + +L+ A +GA+ N E + E +G D ++ G + + L
Sbjct: 199 DPVPERLERAAALGAEPI-----NFEDAEPVERVREATEGRGADVVLEAVGGAAALDLAF 253
Score = 47.6 bits (114), Expect = 5e-06
Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 6/61 (9%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
I+DP D ++++ ICGSD+H G I + ++GHE G V +VG +V+ L
Sbjct: 22 IQDPTD--AIVKVTAAAICGSDLHIY-RGHIP---STPGFVLGHEFVGEVVEVGPEVRTL 75
Query: 143 K 143
K
Sbjct: 76 K 76
Score = 41.1 bits (97), Expect = 6e-04
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICGSD+H G I + ++GHE G V +VG +V+ LKV
Sbjct: 36 AICGSDLHIY-RGHIP---STPGFVLGHEFVGEVVEVGPEVRTLKV 77
Score = 34.2 bits (79), Expect = 0.12
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 4/90 (4%)
Query: 142 LKATRPGGCLVIVGAG-SQDVKIPLVLTMTKEIDIR-GVFRYANDYPIALAMVASGKVDV 199
RPGG + VG +++ P + K + +R G + +P L ++ SG++D+
Sbjct: 253 FDLVRPGGVISSVGVHTAEEFPFPGLDAYNKNLTLRFGRCPVRSLFPELLPLLESGRLDL 312
Query: 200 KKLITHNYLLEDTLHAFETAKTGAGNAIKV 229
+ LI H LE+ A+ +KV
Sbjct: 313 EFLIDHRMPLEEAPEAYRLFDKRK--VLKV 340
>gnl|CDD|176241 cd08281, liver_ADH_like1, Zinc-dependent alcohol dehydrogenases
(ADH) and class III ADG (AKA formaldehyde
dehydrogenase). NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. This group contains members
identified as zinc dependent alcohol dehydrogenases
(ADH), and class III ADG (aka formaldehyde
dehydrogenase, FDH). Alcohol dehydrogenase in the liver
converts ethanol and NAD+ to acetaldehyde and NADH,
while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation.
Class III ADH are also know as glutathione-dependent
formaldehyde dehydrogenase (FDH), which convert
aldehydes to the corresponding carboxylic acid and
alcohol. ADH is a member of the medium chain alcohol
dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 371
Score = 75.9 bits (187), Expect = 4e-15
Identities = 53/159 (33%), Positives = 71/159 (44%), Gaps = 23/159 (14%)
Query: 242 VP-CRTCTYCKEGRYNLC----------------RQIFFCATP-PDHGNLSRYYRHA--- 280
VP C C C EGR LC R++ H +S + +A
Sbjct: 94 VPSCGHCRPCAEGRPALCEPGAAANGAGTLLSGGRRLRLRGGEINHHLGVSAFAEYAVVS 153
Query: 281 ADFCHKLPDHVSLEEGALLE-PLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARA 338
K+ V LE AL + GV A AGV G V + G G +GL LL A A
Sbjct: 154 RRSVVKIDKDVPLEIAALFGCAVLTGVGAVVNTAGVRPGQSVAVVGLGGVGLSALLGAVA 213
Query: 339 LGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEI 377
GAS+VV D+ E KL A+E+GA ATV +++E++
Sbjct: 214 AGASQVVAVDLNEDKLALARELGATATVNAGDPNAVEQV 252
Score = 42.4 bits (100), Expect = 3e-04
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 11/75 (14%)
Query: 77 FREQKPIE-------DPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEAS 129
+ + +P+ P EVL+++ G+C SD+ + GD PM +GHEA+
Sbjct: 15 YADSRPLVIEEVELDPPGPGEVLVKIAAAGLCHSDLSVIN----GDRPRPLPMALGHEAA 70
Query: 130 GIVSKVGAKVKHLKA 144
G+V +VG V L+
Sbjct: 71 GVVVEVGEGVTDLEV 85
Score = 36.6 bits (85), Expect = 0.018
Identities = 22/56 (39%), Positives = 31/56 (55%), Gaps = 6/56 (10%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQT--RFVP 58
G+C SD+ + GD PM +GHEA+G+V +VG V L+V + FVP
Sbjct: 44 GLCHSDLSVIN----GDRPRPLPMALGHEAAGVVVEVGEGVTDLEVGDHVVLVFVP 95
Score = 28.9 bits (65), Expect = 4.7
Identities = 26/96 (27%), Positives = 47/96 (48%), Gaps = 8/96 (8%)
Query: 142 LKATRPGGCLVIVG--AGSQDVKIPLVLTMTKEIDIRGVFRYA----NDYPIALAMVASG 195
+ TR GG V G + +P + + +E ++G + + D P LA+ SG
Sbjct: 277 YEITRRGGTTVTAGLPDPEARLSVPALSLVAEERTLKGSYMGSCVPRRDIPRYLALYLSG 336
Query: 196 KVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
++ V KL+TH L++ F+ + AG A++ +I
Sbjct: 337 RLPVDKLLTHRLPLDEINEGFD--RLAAGEAVRQVI 370
>gnl|CDD|176245 cd08285, NADP_ADH, NADP(H)-dependent alcohol dehydrogenases. This
group is predominated by atypical alcohol
dehydrogenases; they exist as tetramers and exhibit
specificity for NADP(H) as a cofactor in the
interconversion of alcohols and aldehydes, or ketones.
Like other zinc-dependent alcohol dehydrogenases (ADH)
of the medium chain alcohol dehydrogenase/reductase
family (MDR), tetrameric ADHs have a catalytic zinc that
resides between the catalytic and NAD(H)binding domains;
however, they do not have and a structural zinc in a
lobe of the catalytic domain. The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 351
Score = 75.0 bits (185), Expect = 8e-15
Identities = 46/177 (25%), Positives = 79/177 (44%), Gaps = 13/177 (7%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIF----FCATPPDHGNLSRYYR-HAADF-CHKL 287
DRV + P + G + + F + D G + Y+ + AD L
Sbjct: 79 DRVIVPAITPDWRSVAAQRGYPSQSGGMLGGWKF-SNFKD-GVFAEYFHVNDADANLAPL 136
Query: 288 PDHVSLEEGALL-EPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI 346
PD ++ E+ +L + +S G H A + LG V + G GP+GL+ + AR GA R++
Sbjct: 137 PDGLTDEQAVMLPDMMSTGFHGAELANIKLGDTVAVFGIGPVGLMAVAGARLRGAGRIIA 196
Query: 347 TDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTI 403
++++ AKE GA V ++ ++ I++L G+ D I G + T
Sbjct: 197 VGSRPNRVELAKEYGATDIV----DYKNGDVVEQILKLTGGKGVDAVIIAGGGQDTF 249
Score = 54.2 bits (131), Expect = 5e-08
Identities = 30/80 (37%), Positives = 42/80 (52%), Gaps = 7/80 (8%)
Query: 81 KPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVK 140
KPI ++ ++ V C SDVH + G G+ MI+GHEA G+V +VG++VK
Sbjct: 17 KPIPVCGPNDAIVRPTAVAPCTSDVHTVWGGAPGERH---GMILGHEAVGVVEEVGSEVK 73
Query: 141 HLKATRPGGCLVIVGAGSQD 160
K G VIV A + D
Sbjct: 74 DFKP----GDRVIVPAITPD 89
Score = 47.6 bits (114), Expect = 6e-06
Identities = 21/47 (44%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 4 VGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
V C SDVH + G G+ MI+GHEA G+V +VG++VK K
Sbjct: 34 VAPCTSDVHTVWGGAPGERH---GMILGHEAVGVVEEVGSEVKDFKP 77
Score = 38.4 bits (90), Expect = 0.005
Identities = 26/107 (24%), Positives = 41/107 (38%), Gaps = 23/107 (21%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLT-----MTKEIDIRGVF---------RYANDYPI 187
LK +PGG + V +D +P+ M I G R A
Sbjct: 253 LKVLKPGGTISNVNYYGEDDYLPIPREEWGVGMG-HKTINGGLCPGGRLRMERLA----- 306
Query: 188 ALAMVASGKVDVKKLITHNYL-LEDTLHAFETAKTGAGNAIKVMIHC 233
+++ G+VD KL+TH++ +D A K + IK +I
Sbjct: 307 --SLIEYGRVDPSKLLTHHFFGFDDIEEALMLMKDKPDDLIKPVIIF 351
>gnl|CDD|219758 pfam08240, ADH_N, Alcohol dehydrogenase GroES-like domain. This is
the catalytic domain of alcohol dehydrogenases. Many of
them contain an inserted zinc binding domain. This
domain has a GroES-like structure.
Length = 108
Score = 68.8 bits (169), Expect = 1e-14
Identities = 23/56 (41%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 88 DHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLK 143
EVL+ + GICGSD+H + P+I+GHE +GIV +VG V LK
Sbjct: 1 PGEVLVRVKAAGICGSDLHIYRGEP---PPVKLPLILGHEGAGIVEEVGPGVTGLK 53
Score = 61.1 bits (149), Expect = 8e-12
Identities = 21/50 (42%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+ GICGSD+H + P+I+GHE +GIV +VG V LKV
Sbjct: 8 VKAAGICGSDLHIYRGEP---PPVKLPLILGHEGAGIVEEVGPGVTGLKV 54
Score = 52.2 bits (126), Expect = 1e-08
Identities = 20/54 (37%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKL 287
DRV + P +PC C C+EGR NLC F D G + Y A L
Sbjct: 56 DRVVVYPLIPCGKCAACREGRENLCPNGKFLGVHLD-GGFAEYVVVPARNLVPL 108
>gnl|CDD|176182 cd05279, Zn_ADH1, Liver alcohol dehydrogenase and related
zinc-dependent alcohol dehydrogenases.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. There are 7 vertebrate ADH 7
classes, 6 of which have been identified in humans.
Class III, glutathione-dependent formaldehyde
dehydrogenase, has been identified as the primordial
form and exists in diverse species, including plants,
micro-organisms, vertebrates, and invertebrates. Class
I, typified by liver dehydrogenase, is an evolving
form. Gene duplication and functional specialization of
ADH into ADH classes and subclasses created numerous
forms in vertebrates. For example, the A, B and C
(formerly alpha, beta, gamma) human class I subunits
have high overall structural similarity, but differ in
the substrate binding pocket and therefore in substrate
specificity. In human ADH catalysis, the zinc ion helps
coordinate the alcohol, followed by deprotonation of a
histidine (His-51), the ribose of NAD, a serine
(Ser-48), then the alcohol, which allows the transfer of
a hydride to NAD+, creating NADH and a zinc-bound
aldehyde or ketone. In yeast and some bacteria, the
active site zinc binds an aldehyde, polarizing it, and
leading to the reverse reaction. ADH is a member of the
medium chain alcohol dehydrogenase family (MDR), which
has a NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Length = 365
Score = 72.5 bits (178), Expect = 6e-14
Identities = 47/183 (25%), Positives = 69/183 (37%), Gaps = 25/183 (13%)
Query: 244 CRTCTYCKEGRYNLCRQIF-FCATPPDHGNLSRYYRHAADFCH----------------- 285
C C C R NLC + SR+ H
Sbjct: 89 CGKCKQCLNPRPNLCSKSRGTNGRGLMSDGTSRFTCKGKPIHHFLGTSTFAEYTVVSEIS 148
Query: 286 --KLPDHVSLEEGALLE-PLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGA 341
K+ LE+ L+ S G A A VT GS + G G +GL ++ +A GA
Sbjct: 149 LAKIDPDAPLEKVCLIGCGFSTGYGAAVNTAKVTPGSTCAVFGLGGVGLSVIMGCKAAGA 208
Query: 342 SRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIES 401
SR++ DI + K + AK++G AT I+ + I + E+ G D + G
Sbjct: 209 SRIIAVDINKDKFEKAKQLG--ATECINPRDQDKPIVEVLTEMTDG-GVDYAFEVIGSAD 265
Query: 402 TIK 404
T+K
Sbjct: 266 TLK 268
Score = 49.7 bits (119), Expect = 1e-06
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
+ P EV +++ G+C +D+H + G P+I+GHE +GIV +G V L
Sbjct: 20 VAPPKAGEVRIKVVATGVCHTDLHVID----GKLPTPLPVILGHEGAGIVESIGPGVTTL 75
Query: 143 KA 144
K
Sbjct: 76 KP 77
Score = 44.0 bits (104), Expect = 8e-05
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 12/69 (17%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVPEFR--- 61
G+C +D+H + G P+I+GHE +GIV +G V LK ++ +P F
Sbjct: 36 GVCHTDLHVID----GKLPTPLPVILGHEGAGIVESIGPGVTTLKPGDKV--IPLFGPQC 89
Query: 62 ---NVCLSP 67
CL+P
Sbjct: 90 GKCKQCLNP 98
Score = 30.9 bits (70), Expect = 1.1
Identities = 22/87 (25%), Positives = 36/87 (41%), Gaps = 6/87 (6%)
Query: 142 LKATRP-GGCLVIVGAGSQDVKIPL-VLTMTKEIDIRGVF----RYANDYPIALAMVASG 195
L ATR GG V+VG + L + I+G + + P +A+
Sbjct: 271 LDATRLGGGTSVVVGVPPSGTEATLDPNDLLTGRTIKGTVFGGWKSKDSVPKLVALYRQK 330
Query: 196 KVDVKKLITHNYLLEDTLHAFETAKTG 222
K + +LITH E+ F+ ++G
Sbjct: 331 KFPLDELITHVLPFEEINDGFDLMRSG 357
>gnl|CDD|176230 cd08269, Zn_ADH9, Alcohol dehydrogenases of the MDR family. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 312
Score = 71.6 bits (176), Expect = 7e-14
Identities = 36/107 (33%), Positives = 50/107 (46%), Gaps = 4/107 (3%)
Query: 299 LEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAK 358
EPL ++ RR + G V + GAG IGL+ L A A GA RV+ D +L A+
Sbjct: 112 GEPLGCALNVFRRGWIRAGKTVAVIGAGFIGLLFLQLAAAAGARRVIAIDRRPARLALAR 171
Query: 359 EMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKL 405
E+GA V D +E + EL G D I+ G + + L
Sbjct: 172 ELGATEVVTDDSEAIVERVR----ELTGGAGADVVIEAVGHQWPLDL 214
Score = 52.7 bits (127), Expect = 1e-07
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 4/80 (5%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E+ P P +VL+ + G+CGSD+ G+ ++P GHE G V +G
Sbjct: 10 EEHPRPTPGPGQVLVRVEGCGVCGSDLPAFNQGRPWFVYPAEPGGPGHEGWGRVVALGPG 69
Query: 139 VKHLKATRPGG-CLVIVGAG 157
V+ L G + G
Sbjct: 70 VRGL---AVGDRVAGLSGGA 86
Score = 50.4 bits (121), Expect = 7e-07
Identities = 28/95 (29%), Positives = 41/95 (43%), Gaps = 6/95 (6%)
Query: 143 KATRPGGCLVIVG-AGSQDVKIPLVLTMTKEID-IRGVFR----YANDYPIALAMVASGK 196
+ G LVI G +P K ID I V R A+ ++A G+
Sbjct: 217 ELVAERGRLVIFGYHQDGPRPVPFQTWNWKGIDLINAVERDPRIGLEGMREAVKLIADGR 276
Query: 197 VDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
+D+ L+TH + LE+ AFE A+ IK +I
Sbjct: 277 LDLGSLLTHEFPLEELGDAFEAARRRPDGFIKGVI 311
Score = 42.0 bits (99), Expect = 3e-04
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+CGSD+ G+ ++P GHE G V +G V+ L V
Sbjct: 30 GVCGSDLPAFNQGRPWFVYPAEPGGPGHEGWGRVVALGPGVRGLAV 75
>gnl|CDD|176258 cd08298, CAD2, Cinnamyl alcohol dehydrogenases (CAD). These
alcohol dehydrogenases are related to the cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Cinnamyl alcohol dehydrogenases
(CAD) reduce cinnamaldehydes to cinnamyl alcohols in the
last step of monolignal metabolism in plant cells walls.
CAD binds 2 zinc ions and is NADPH- dependent. CAD
family members are also found in non-plant species, e.g.
in yeast where they have an aldehyde reductase activity.
The medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 329
Score = 70.3 bits (173), Expect = 2e-13
Identities = 45/140 (32%), Positives = 60/140 (42%), Gaps = 14/140 (10%)
Query: 234 DRVAIEPGVP-----CRTCTYCKEGRYNLCRQIFFCATPPD-HGNLSRYYRHAADFCHKL 287
DRV GVP C C YC+ GR NLC T G + Y F + +
Sbjct: 84 DRV----GVPWLGSTCGECRYCRSGRENLCDN--ARFTGYTVDGGYAEYMVADERFAYPI 137
Query: 288 PDHVSLEEGA-LLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI 346
P+ EE A LL +G A + AG+ G ++ + G G + L AR GA
Sbjct: 138 PEDYDDEEAAPLLCAGIIGYRALKLAGLKPGQRLGLYGFGASAHLALQIARYQGAEVFAF 197
Query: 347 TDILEHKLKTAKEMGADATV 366
T EH + A+E+GAD
Sbjct: 198 TRSGEH-QELARELGADWAG 216
Score = 50.6 bits (122), Expect = 6e-07
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
LR E P+ +P EVL+++ G+C +D+H + G + +L P+I GHE G V
Sbjct: 17 LRLTE-VPVPEPGPGEVLIKVEACGVCRTDLH-IVEGDLPPPKL--PLIPGHEIVGRVEA 72
Query: 135 VGAKVKHLK 143
VG V
Sbjct: 73 VGPGVTRFS 81
Score = 36.4 bits (85), Expect = 0.018
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 2 HCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+C +D+H + G + +L P+I GHE G V VG V V
Sbjct: 37 EACGVCRTDLH-IVEGDLPPPKL--PLIPGHEIVGRVEAVGPGVTRFSV 82
>gnl|CDD|176257 cd08297, CAD3, Cinnamyl alcohol dehydrogenases (CAD). These
alcohol dehydrogenases are related to the cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Cinnamyl alcohol dehydrogenases
(CAD) reduce cinnamaldehydes to cinnamyl alcohols in the
last step of monolignal metabolism in plant cells walls.
CAD binds 2 zinc ions and is NADPH- dependent. CAD
family members are also found in non-plant species, e.g.
in yeast where they have an aldehyde reductase activity.
The medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 341
Score = 70.6 bits (174), Expect = 2e-13
Identities = 52/170 (30%), Positives = 80/170 (47%), Gaps = 13/170 (7%)
Query: 234 DRVAIEP-GVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVS 292
DRV ++ C C YC+ G LC D G + Y A + +PD +S
Sbjct: 82 DRVGVKWLYDACGKCEYCRTGDETLCPNQKNSGYTVD-GTFAEYAIADARYVTPIPDGLS 140
Query: 293 LEEGALLEPLSVGV---HACRRAGVTLGSKVLITGA-GPIGLVTLLTARALGASRVVITD 348
E+ A L L GV A ++AG+ G V+I+GA G +G + + A+A+G RV+ D
Sbjct: 141 FEQAAPL--LCAGVTVYKALKKAGLKPGDWVVISGAGGGLGHLGVQYAKAMGL-RVIAID 197
Query: 349 ILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
+ + KL+ AKE+GADA V + + + EL G + +
Sbjct: 198 VGDEKLELAKELGADAFVDFKK----SDDVEAVKELTGGGGAHAVVVTAV 243
Score = 57.5 bits (140), Expect = 3e-09
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 6/68 (8%)
Query: 78 REQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSD--PMIVGHEASGIVSKV 135
+ P+ +P EVL+++ G+C +D+H GD+ + P+I GHE +G+V V
Sbjct: 16 VKDVPVPEPGPGEVLVKLEASGVCHTDLHAAL----GDWPVKPKLPLIGGHEGAGVVVAV 71
Query: 136 GAKVKHLK 143
G V LK
Sbjct: 72 GPGVSGLK 79
Score = 46.8 bits (112), Expect = 1e-05
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSD--PMIVGHEASGIVSKVGAKVKHLKV 50
+ G+C +D+H GD+ + P+I GHE +G+V VG V LKV
Sbjct: 33 LEASGVCHTDLHAAL----GDWPVKPKLPLIGGHEGAGVVVAVGPGVSGLKV 80
>gnl|CDD|176224 cd08263, Zn_ADH10, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 367
Score = 68.6 bits (168), Expect = 1e-12
Identities = 57/200 (28%), Positives = 80/200 (40%), Gaps = 37/200 (18%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNL----SRYYRHA--------- 280
DRV +PC C YC G+ NLC F A G L +R +R
Sbjct: 82 DRVVGSFIMPCGKCRYCARGKENLCED--FFAYNRLKGTLYDGTTRLFRLDGGPVYMYSM 139
Query: 281 ---ADFC-------HKLPDHVSLEEGALLEPLSVGV----HACRRAG-VTLGSKVLITGA 325
A++ LP+ + E A L A + A V G V + G
Sbjct: 140 GGLAEYAVVPATALAPLPESLDYTESA---VLGCAGFTAYGALKHAADVRPGETVAVIGV 196
Query: 326 GPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELL 385
G +G + A+A GAS ++ D+ + KL AKE+GA TV N + E+ I E+
Sbjct: 197 GGVGSSAIQLAKAFGASPIIAVDVRDEKLAKAKELGATHTV----NAAKEDAVAAIREIT 252
Query: 386 QGEQPDKTIDCSGIESTIKL 405
G D ++ G T KL
Sbjct: 253 GGRGVDVVVEALGKPETFKL 272
Score = 49.3 bits (118), Expect = 2e-06
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E+ P+ P + E+L+ + G+C SD+H L G+ P ++GHE SG V +VG
Sbjct: 16 EEIPVPRPKEGEILIRVAACGVCHSDLHVLK----GELPFPPPFVLGHEISGEVVEVGPN 71
Query: 139 VKHLKATRPG 148
V++ G
Sbjct: 72 VENPYGLSVG 81
Score = 45.8 bits (109), Expect = 2e-05
Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 4/81 (4%)
Query: 146 RPGGCLVIVGAGSQDVKIPLVLT--MTKEIDIRGVF--RYANDYPIALAMVASGKVDVKK 201
R GG V+VG + +T + + I I G + R D P + + ASGK+D +
Sbjct: 278 RDGGRAVVVGLAPGGATAEIPITRLVRRGIKIIGSYGARPRQDLPELVGLAASGKLDPEA 337
Query: 202 LITHNYLLEDTLHAFETAKTG 222
L+TH Y LE+ A+E + G
Sbjct: 338 LVTHKYKLEEINEAYENLRKG 358
Score = 38.5 bits (90), Expect = 0.005
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 47
G+C SD+H L G+ P ++GHE SG V +VG V++
Sbjct: 36 GVCHSDLHVLK----GELPFPPPFVLGHEISGEVVEVGPNVEN 74
>gnl|CDD|176202 cd08240, 6_hydroxyhexanoate_dh_like, 6-hydroxyhexanoate
dehydrogenase. 6-hydroxyhexanoate dehydrogenase, an
enzyme of the zinc-dependent alcohol dehydrogenase-like
family of medium chain dehydrogenases/reductases
catalyzes the conversion of 6-hydroxyhexanoate and
NAD(+) to 6-oxohexanoate + NADH and H+.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding
domains, at the active site, and coenzyme binding
induces a conformational closing of this cleft. Coenzyme
binding typically precedes and contributes to substrate
binding. In human ADH catalysis, the zinc ion helps
coordinate the alcohol, followed by deprotonation of a
histidine, the ribose of NAD, a serine, then the
alcohol, which allows the transfer of a hydride to NAD+,
creating NADH and a zinc-bound aldehyde or ketone. In
yeast and some bacteria, the active site zinc binds an
aldehyde, polarizing it, and leading to the reverse
reaction.
Length = 350
Score = 66.9 bits (164), Expect = 3e-12
Identities = 52/183 (28%), Positives = 76/183 (41%), Gaps = 22/183 (12%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQ-----IFFCATPPDHGNLSRYYRHAADFCHKLP 288
D+V + P + C C C G NLC + IF G + Y P
Sbjct: 92 DKVLVYPWIGCGECPVCLAGDENLCAKGRALGIF------QDGGYAEYVIVPHSRYLVDP 145
Query: 289 DHVSLEEGALLEPLSVGV---HACRRAGVTLGSK-VLITGAGPIGLVTLLTARALGASRV 344
+ A L S G+ A ++ + + V+I GAG +GL+ L +ALG + +
Sbjct: 146 GGLDPALAATL-ACS-GLTAYSAVKKLMPLVADEPVVIIGAGGLGLMALALLKALGPANI 203
Query: 345 VITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIK 404
++ DI E KL+ AK GAD V N S + + II+ G D ID +T
Sbjct: 204 IVVDIDEAKLEAAKAAGADVVV----NGSDPDAAKRIIKAAGG-GVDAVIDFVNNSATAS 258
Query: 405 LGM 407
L
Sbjct: 259 LAF 261
Score = 38.4 bits (90), Expect = 0.005
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 80 QKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQI---GDFRLSD-------PMIVGHEAS 129
+ P EVL+++ G+C SD+H + G G +S P+++GHE
Sbjct: 17 EIDTPKPPGTEVLVKVTACGVCHSDLH-IWDGGYDLGGGKTMSLDDRGVKLPLVLGHEIV 75
Query: 130 GIVSKVGAKVKHLKA 144
G V VG +K
Sbjct: 76 GEVVAVGPDAADVKV 90
Score = 34.1 bits (79), Expect = 0.12
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 12/60 (20%)
Query: 1 MHCVGICGSDVHYLTHGQI---GDFRLSD-------PMIVGHEASGIVSKVGAKVKHLKV 50
C G+C SD+H + G G +S P+++GHE G V VG +KV
Sbjct: 33 TAC-GVCHSDLH-IWDGGYDLGGGKTMSLDDRGVKLPLVLGHEIVGEVVAVGPDAADVKV 90
Score = 28.0 bits (63), Expect = 9.8
Identities = 12/55 (21%), Positives = 21/55 (38%), Gaps = 3/55 (5%)
Query: 128 ASGIVSKVGAKVKH---LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVF 179
++ V GG LV+VG + +PL L + + I+G +
Sbjct: 244 VDAVIDFVNNSATASLAFDILAKGGKLVLVGLFGGEATLPLPLLPLRALTIQGSY 298
>gnl|CDD|176192 cd08230, glucose_DH, Glucose dehydrogenase. Glucose dehydrogenase
(GlcDH), a member of the medium chain
dehydrogenase/zinc-dependent alcohol dehydrogenase-like
family, catalyzes the NADP(+)-dependent oxidation of
glucose to gluconate, the first step in the
Entner-Doudoroff pathway, an alternative to or
substitute for glycolysis or the pentose phosphate
pathway. The medium chain dehydrogenases/reductase
(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-Rossman 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 = 355
Score = 66.1 bits (162), Expect = 6e-12
Identities = 45/178 (25%), Positives = 70/178 (39%), Gaps = 33/178 (18%)
Query: 243 PCRTCTYCKEGRYNLCRQIFFCATPP--------DHGNLSRYYRHAADFCHKLPDHVSLE 294
P C C+ GR + FC T HG + Y+ ++ K+P ++ +
Sbjct: 91 PPGKCLNCRIGRPD------FCETGEYTERGIKGLHGFMREYFVDDPEYLVKVPPSLA-D 143
Query: 295 EGALLEPLSVGVHA-------CRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI- 346
G LLEPLSV A +R + L+ GAGPIGL+ L R G V+
Sbjct: 144 VGVLLEPLSVVEKAIEQAEAVQKRLPTWNPRRALVLGAGPIGLLAALLLRLRGFEVYVLN 203
Query: 347 -TDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTI 403
D + K +E+G AT + + E+ + D I+ +G+
Sbjct: 204 RRDPPDPKADIVEELG--ATYVNSSKTPVAEVKLV-------GEFDLIIEATGVPPLA 252
Score = 39.9 bits (94), Expect = 0.002
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDF-RLSDPMIVGHEASGIVSKVG 136
P +P EVL+ VG+CG+D + G+ G D +++GHEA G+V +VG
Sbjct: 16 VDIPEPEPTPGEVLVRTLEVGVCGTD-REIVAGEYGTAPPGEDFLVLGHEALGVVEEVG 73
Score = 31.4 bits (72), Expect = 0.73
Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 2/41 (4%)
Query: 3 CVGICGSDVHYLTHGQIGDF-RLSDPMIVGHEASGIVSKVG 42
VG+CG+D + G+ G D +++GHEA G+V +VG
Sbjct: 34 EVGVCGTD-REIVAGEYGTAPPGEDFLVLGHEALGVVEEVG 73
>gnl|CDD|176239 cd08278, benzyl_alcohol_DH, Benzyl alcohol dehydrogenase. Benzyl
alcohol dehydrogenase is similar to liver alcohol
dehydrogenase, but has some amino acid substitutions
near the active site, which may determine the enzyme's
specificity of oxidizing aromatic substrates. Also
known as aryl-alcohol dehydrogenases, they catalyze the
conversion of an aromatic alcohol + NAD+ to an aromatic
aldehyde + NADH + H+. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and 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.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 365
Score = 66.0 bits (162), Expect = 6e-12
Identities = 43/191 (22%), Positives = 70/191 (36%), Gaps = 35/191 (18%)
Query: 244 CRTCTYCKEGRYNLCRQI----FFCATP------------PDHGN------LSRYYRHAA 281
C C C G C F P P HG+ + Y
Sbjct: 90 CGECANCLSGHPAYCENFFPLNFSGRRPDGSTPLSLDDGTPVHGHFFGQSSFATYAVVHE 149
Query: 282 DFCHKLPDHVSLEEGALLEPLSVGVHA-----CRRAGVTLGSKVLITGAGPIGLVTLLTA 336
K+ V LE LL PL G+ GS + + GAG +GL ++ A
Sbjct: 150 RNVVKVDKDVPLE---LLAPLGCGIQTGAGAVLNVLKPRPGSSIAVFGAGAVGLAAVMAA 206
Query: 337 RALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDC 396
+ G + ++ DI++ +L+ AKE+GA + + I + G D +D
Sbjct: 207 KIAGCTTIIAVDIVDSRLELAKELGATHVINPKEEDLVAAIR-----EITGGGVDYALDT 261
Query: 397 SGIESTIKLGM 407
+G+ + I+ +
Sbjct: 262 TGVPAVIEQAV 272
Score = 61.4 bits (150), Expect = 2e-10
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 4/62 (6%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
++DP EVL+ + GIC +D+ + G P ++GHE +G+V VG+ V L
Sbjct: 22 LDDPRPDEVLVRIVATGICHTDLV----VRDGGLPTPLPAVLGHEGAGVVEAVGSAVTGL 77
Query: 143 KA 144
K
Sbjct: 78 KP 79
Score = 48.6 bits (117), Expect = 3e-06
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+ GIC +D+ + G P ++GHE +G+V VG+ V LK
Sbjct: 34 IVATGICHTDLV----VRDGGLPTPLPAVLGHEGAGVVEAVGSAVTGLKP 79
Score = 31.7 bits (73), Expect = 0.75
Identities = 25/97 (25%), Positives = 41/97 (42%), Gaps = 9/97 (9%)
Query: 142 LKATRPGGCLVIVGAGS--QDVKIPLVLTMTKEIDIRGV---FRYANDY-PIALAMVASG 195
+ A P G L +VGA +V + + + IRGV ++ P + + G
Sbjct: 272 VDALAPRGTLALVGAPPPGAEVTLDVNDLLVSGKTIRGVIEGDSVPQEFIPRLIELYRQG 331
Query: 196 KVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMIH 232
K KL+T Y ED A +++G IK ++
Sbjct: 332 KFPFDKLVTF-YPFEDINQAIADSESGK--VIKPVLR 365
>gnl|CDD|176238 cd08277, liver_alcohol_DH_like, Liver alcohol dehydrogenase.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. There are 7 vertebrate ADH 7
classes, 6 of which have been identified in humans.
Class III, glutathione-dependent formaldehyde
dehydrogenase, has been identified as the primordial
form and exists in diverse species, including plants,
micro-organisms, vertebrates, and invertebrates. Class
I, typified by liver dehydrogenase, is an evolving
form. Gene duplication and functional specialization of
ADH into ADH classes and subclasses created numerous
forms in vertebrates. For example, the A, B and C
(formerly alpha, beta, gamma) human class I subunits
have high overall structural similarity, but differ in
the substrate binding pocket and therefore in substrate
specificity. In human ADH catalysis, the zinc ion helps
coordinate the alcohol, followed by deprotonation of a
histidine (His-51), the ribose of NAD, a serine
(Ser-48) , then the alcohol, which allows the transfer
of a hydride to NAD+, creating NADH and a zinc-bound
aldehyde or ketone. In yeast and some bacteria, the
active site zinc binds an aldehyde, polarizing it, and
leading to the reverse reaction. ADH is a member of the
medium chain alcohol dehydrogenase family (MDR), which
has a NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Length = 365
Score = 65.8 bits (161), Expect = 8e-12
Identities = 53/182 (29%), Positives = 78/182 (42%), Gaps = 24/182 (13%)
Query: 244 CRTCTYCKEGRYNLCRQ--IFFCATPPD-------------H----GNLSRYYRHAADFC 284
C C+ C+ G+ NLC++ PD H S+Y ++
Sbjct: 91 CGECSNCRSGKTNLCQKYRANESGLMPDGTSRFTCKGKKIYHFLGTSTFSQYTVVDENYV 150
Query: 285 HKLPDHVSLEEGALLE-PLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGAS 342
K+ LE LL S G A A V GS V + G G +GL ++ A+ GAS
Sbjct: 151 AKIDPAAPLEHVCLLGCGFSTGYGAAWNTAKVEPGSTVAVFGLGAVGLSAIMGAKIAGAS 210
Query: 343 RVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIEST 402
R++ DI E K + AKE G AT I+ S + +S I E+ G D + +C+G
Sbjct: 211 RIIGVDINEDKFEKAKEFG--ATDFINPKDSDKPVSEVIREMTGG-GVDYSFECTGNADL 267
Query: 403 IK 404
+
Sbjct: 268 MN 269
Score = 50.4 bits (121), Expect = 8e-07
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 18/87 (20%)
Query: 86 PDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKAT 145
P +EV ++M +C +D+ + + F P+I+GHE +GIV VG V +LK
Sbjct: 25 PKANEVRIKMLATSVCHTDILAIEGFKATLF----PVILGHEGAGIVESVGEGVTNLK-- 78
Query: 146 RPGGCLVIVGAGSQDVKIPLVLTMTKE 172
PG D IPL + E
Sbjct: 79 -PG-----------DKVIPLFIGQCGE 93
Score = 42.7 bits (101), Expect = 2e-04
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 8/71 (11%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQT--RFVP 58
M +C +D+ + + F P+I+GHE +GIV VG V +LK ++ F+
Sbjct: 34 MLATSVCHTDILAIEGFKATLF----PVILGHEGAGIVESVGEGVTNLKPGDKVIPLFIG 89
Query: 59 EFR--NVCLSP 67
+ + C S
Sbjct: 90 QCGECSNCRSG 100
Score = 38.9 bits (91), Expect = 0.003
Identities = 26/95 (27%), Positives = 44/95 (46%), Gaps = 7/95 (7%)
Query: 142 LKATRPG-GCLVIVGAGSQD----VKIPLVLTMTKEIDIRGVFRYANDYPIALAMVASGK 196
L++T+ G G V+VG L+L T + G F+ +D P ++ + K
Sbjct: 272 LESTKLGWGVSVVVGVPPGAELSIRPFQLILGRTWKGSFFGGFKSRSDVPKLVSKYMNKK 331
Query: 197 VDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
D+ +LITH E+ F+ K+ G I+ +I
Sbjct: 332 FDLDELITHVLPFEEINKGFDLMKS--GECIRTVI 364
>gnl|CDD|176207 cd08245, CAD, Cinnamyl alcohol dehydrogenases (CAD) and related
proteins. Cinnamyl alcohol dehydrogenases (CAD),
members of the medium chain dehydrogenase/reductase
family, reduce cinnamaldehydes to cinnamyl alcohols in
the last step of monolignal metabolism in plant cells
walls. CAD binds 2 zinc ions and is NADPH- dependent.
CAD family members are also found in non-plant species,
e.g. in yeast where they have an aldehyde reductase
activity. The medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 330
Score = 65.0 bits (159), Expect = 1e-11
Identities = 46/141 (32%), Positives = 65/141 (46%), Gaps = 16/141 (11%)
Query: 234 DRVAIEPGVP-----CRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLP 288
DRV GV C C YC+ G NLC++ G + Y A++ LP
Sbjct: 79 DRV----GVGWLVGSCGRCEYCRRGLENLCQKAVNTGYTTQ-GGYAEYMVADAEYTVLLP 133
Query: 289 DHVSLEEGALLEPLSVGV---HACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVV 345
D + L + A L L G+ A R AG G +V + G G +G + + ARA+G V
Sbjct: 134 DGLPLAQAAPL--LCAGITVYSALRDAGPRPGERVAVLGIGGLGHLAVQYARAMGFETVA 191
Query: 346 ITDILEHKLKTAKEMGADATV 366
IT K + A+++GAD V
Sbjct: 192 IT-RSPDKRELARKLGADEVV 211
Score = 55.0 bits (133), Expect = 2e-08
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E+ P+ +P EVL+++ G+C +D+H G G P++ GHE G V +VGA
Sbjct: 15 EEVPVPEPGPGEVLIKIEACGVCHTDLH-AAEGDWGG--SKYPLVPGHEIVGEVVEVGAG 71
Query: 139 VKHLKA 144
V+ K
Sbjct: 72 VEGRKV 77
Score = 44.2 bits (105), Expect = 7e-05
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+C +D+H G G P++ GHE G V +VGA V+ KV
Sbjct: 35 GVCHTDLH-AAEGDWGG--SKYPLVPGHEIVGEVVEVGAGVEGRKV 77
>gnl|CDD|223990 COG1062, AdhC, Zn-dependent alcohol dehydrogenases, class III
[Energy production and conversion].
Length = 366
Score = 65.3 bits (160), Expect = 1e-11
Identities = 50/183 (27%), Positives = 66/183 (36%), Gaps = 34/183 (18%)
Query: 243 PCRTCTYCKEGRYNLCRQIF---FCATPPD-----HGNLSRYYRHA------ADF----- 283
C C +C G+ NLC I T PD GN H A++
Sbjct: 90 ECGQCKFCLSGKPNLCEAIRATQGKGTMPDGTTRLSGN-GVPVYHYLGCSTFAEYTVVHE 148
Query: 284 --CHKLPDHVSLEEGALLEPLSVGV-----HACRRAGVTLGSKVLITGAGPIGLVTLLTA 336
K+ LE+ LL GV A V G V + G G +GL + A
Sbjct: 149 ISLVKIDPDAPLEKACLL---GCGVTTGIGAVVNTAKVEPGDTVAVFGLGGVGLAAIQGA 205
Query: 337 RALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDC 396
+A GA R++ DI KL+ AK+ GA V N + I L D +C
Sbjct: 206 KAAGAGRIIAVDINPEKLELAKKFGATHFV----NPKEVDDVVEAIVELTDGGADYAFEC 261
Query: 397 SGI 399
G
Sbjct: 262 VGN 264
Score = 54.5 bits (132), Expect = 3e-08
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
++ P EVL+ + G+C +D H L+ GD P ++GHE +GIV VG V +
Sbjct: 22 LDPPRAGEVLVRITATGVCHTDAHTLS----GDDPEGFPAVLGHEGAGIVEAVGEGVTSV 77
Query: 143 K 143
K
Sbjct: 78 K 78
Score = 46.8 bits (112), Expect = 1e-05
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVPEFRNVC 64
G+C +D H L+ GD P ++GHE +GIV VG V +K + + F C
Sbjct: 38 GVCHTDAHTLS----GDDPEGFPAVLGHEGAGIVEAVGEGVTSVKPGD--HVILLFTPEC 91
Score = 43.7 bits (104), Expect = 1e-04
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 7/96 (7%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTM-TKEIDIRGVF----RYANDYPIALAMVASGK 196
L+AT GG VI+G +I +G R +D P + + +GK
Sbjct: 272 LEATHRGGTSVIIGVAGAGQEISTRPFQLVTGRVWKGSAFGGARPRSDIPRLVDLYMAGK 331
Query: 197 VDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMIH 232
+ + +L+TH LED AF+ G +I+ +I
Sbjct: 332 LPLDRLVTHTIPLEDINEAFDLMH--EGKSIRSVIR 365
>gnl|CDD|234025 TIGR02819, fdhA_non_GSH, formaldehyde dehydrogenase,
glutathione-independent. Members of this family
represent a distinct clade within the larger family of
zinc-dependent dehydrogenases of medium chain alcohols,
a family that also includes the so-called
glutathione-dependent formaldehyde dehydrogenase.
Members of this protein family have a tightly bound NAD
that can act as a true cofactor, rather than a
cosubstrate in dehydrogenase reactions, in dismutase
reactions for some aldehydes. The name given to this
family, however, is formaldehyde dehydrogenase,
glutathione-independent [Central intermediary
metabolism, One-carbon metabolism].
Length = 393
Score = 64.9 bits (158), Expect = 2e-11
Identities = 60/192 (31%), Positives = 86/192 (44%), Gaps = 36/192 (18%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDH--------------GNLSRY--- 276
D V++ + C C CKEG +C + P G S Y
Sbjct: 87 DIVSVPFNIACGRCRNCKEGHTGVCLNV-----NPARAGAAYGYVDMGGWVGGQSEYVMV 141
Query: 277 -YRHAADF-CHKLPDH-VSLEEGALLEPLS----VGVHACRRAGVTLGSKVLITGAGPIG 329
Y ADF K PD +LE+ L LS G H AGV GS V I GAGP+G
Sbjct: 142 PY---ADFNLLKFPDRDQALEKIRDLTMLSDIFPTGYHGAVTAGVGPGSTVYIAGAGPVG 198
Query: 330 LVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQ 389
L +A+ LGA+ V++ D+ +L A+ G + TV + ++ +L E I ++L +
Sbjct: 199 LAAAASAQLLGAAVVIVGDLNPARLAQARSFGCE-TVDLSKDATLPE---QIEQILGEPE 254
Query: 390 PDKTIDCSGIES 401
D +DC G E+
Sbjct: 255 VDCAVDCVGFEA 266
Score = 34.8 bits (80), Expect = 0.074
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 14/73 (19%)
Query: 74 SLRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYL---THGQIGDFRLSDPMIVGHEASG 130
L + + E H V+L++ ICGSD H + T G +++GHE +G
Sbjct: 23 KLELPDGRKCE----HGVILKVVTTNICGSDQHMVRGRTTAPTG-------LVLGHEITG 71
Query: 131 IVSKVGAKVKHLK 143
V + G V+ +K
Sbjct: 72 EVIEKGRDVEFIK 84
Score = 31.0 bits (70), Expect = 1.3
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 10/48 (20%)
Query: 6 ICGSDVHYL---THGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
ICGSD H + T G +++GHE +G V + G V+ +K+
Sbjct: 45 ICGSDQHMVRGRTTAPTG-------LVLGHEITGEVIEKGRDVEFIKI 85
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 64.3 bits (157), Expect = 2e-11
Identities = 44/142 (30%), Positives = 63/142 (44%), Gaps = 8/142 (5%)
Query: 262 FFCATPPDHGNLSRYYRHAADFCHKLPDHVSLEEGALL--EPLSVGVHACRRAGVTLGSK 319
G + Y AD+ LPD +S EE A L L+ + RAG+ G
Sbjct: 86 AALGGVGRDGGYAEYVVVPADWLVPLPDGLSFEEAAALPLAGLTAWLALFDRAGLKPGET 145
Query: 320 VLITGA-GPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEIS 378
VL+ GA G +G + A+ALGA VV KL+ KE+GAD + +E++
Sbjct: 146 VLVHGAAGGVGSAAIQLAKALGA-TVVAVVSSSEKLELLKELGADHVINYREEDFVEQVR 204
Query: 379 THIIELLQGEQPDKTIDCSGIE 400
EL G+ D +D G +
Sbjct: 205 ----ELTGGKGVDVVLDTVGGD 222
Score = 52.0 bits (125), Expect = 2e-07
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
+ P +P EVL+ + G+ DV + G R P I G EA+G+V VG+
Sbjct: 18 VEVPEPEPGPGEVLVRVKAAGVNPIDV-LVRQGLAPPVR-PLPFIPGSEAAGVVVAVGSG 75
Query: 139 VKHLKA 144
V K
Sbjct: 76 VTGFKV 81
Score = 41.2 bits (97), Expect = 5e-04
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 2/49 (4%)
Query: 2 HCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+ DV + G R P I G EA+G+V VG+ V KV
Sbjct: 35 KAAGVNPIDV-LVRQGLAPPVR-PLPFIPGSEAAGVVVAVGSGVTGFKV 81
Score = 36.6 bits (85), Expect = 0.021
Identities = 27/99 (27%), Positives = 40/99 (40%), Gaps = 13/99 (13%)
Query: 125 GHEASGIVSKVGAKV--KHLKATRPGGCLVIVGA--GSQDVKIPLVLTMTKEIDIRGVFR 180
G ++ VG L A PGG LV +GA G V + L+ + K + +RGV
Sbjct: 209 GKGVDVVLDTVGGDTFAASLAALAPGGRLVSIGALSGGPPVPLNLLPLLGKRLTLRGVTL 268
Query: 181 YANDYPIA-------LAMVASGKVDVKKLITHNYLLEDT 212
+ D ++ASGK+ I Y L +
Sbjct: 269 GSRDPEALAEALAELFDLLASGKLKPV--IDRVYPLAEA 305
>gnl|CDD|176204 cd08242, MDR_like, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family, including threonine dehydrogenase.
The medium chain dehydrogenases/reductase
(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 includes
various 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.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. 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.
Length = 319
Score = 64.2 bits (157), Expect = 2e-11
Identities = 39/171 (22%), Positives = 65/171 (38%), Gaps = 14/171 (8%)
Query: 235 RVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSLE 294
RV E + C C YC+ G Y C G + Y + H +PD V E
Sbjct: 74 RVVGEINIACGRCEYCRRGLYTHCPNRTVLGIVDRDGAFAEYLTLPLENLHVVPDLVPDE 133
Query: 295 EGALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKL 354
+ EPL+ + + +T G KV + G G +GL+ G V++ KL
Sbjct: 134 QAVFAEPLAAALEILEQVPITPGDKVAVLGDGKLGLLIAQVLALTGPDVVLVGR-HSEKL 192
Query: 355 KTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKL 405
A+ +G + + + +G D ++ +G S ++L
Sbjct: 193 ALARRLGVETVLPDE-------------AESEGGGFDVVVEATGSPSGLEL 230
Score = 43.4 bits (103), Expect = 1e-04
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
E P +P E L+ + GIC +D+ G + P + GHE GIV +
Sbjct: 11 DLRVEDLPKPEPPPGEALVRVLLAGICNTDLEIYK----GYYPF--PGVPGHEFVGIVEE 64
Query: 135 VG 136
Sbjct: 65 GP 66
Score = 39.9 bits (94), Expect = 0.001
Identities = 29/90 (32%), Positives = 42/90 (46%), Gaps = 4/90 (4%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYANDYPIALAMVASGKVDVKK 201
L+ RP G +V+ + L + EI + G + AL ++ G VDV
Sbjct: 232 LRLVRPRGTVVLKSTYAGPASFDLTKAVVNEITLVG--SRCGPFAPALRLLRKGLVDVDP 289
Query: 202 LITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
LIT Y LE+ L AFE A A+KV++
Sbjct: 290 LITAVYPLEEALEAFERAAE--PGALKVLL 317
Score = 30.7 bits (70), Expect = 1.2
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 6/42 (14%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVG 42
+ GIC +D+ G + P + GHE GIV +
Sbjct: 31 VLLAGICNTDLEIYK----GYYPF--PGVPGHEFVGIVEEGP 66
>gnl|CDD|176186 cd05283, CAD1, Cinnamyl alcohol dehydrogenases (CAD). Cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family, reduce
cinnamaldehydes to cinnamyl alcohols in the last step of
monolignal metabolism in plant cells walls. CAD binds 2
zinc ions and is NADPH- dependent. CAD family members
are also found in non-plant species, e.g. in yeast where
they have an aldehyde reductase activity. The medium
chain dehydrogenases/reductase (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. Active site zinc
has a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 337
Score = 64.1 bits (157), Expect = 3e-11
Identities = 40/149 (26%), Positives = 62/149 (41%), Gaps = 23/149 (15%)
Query: 234 DRVAIEPGV-----PCRTCTYCKEGRYNLCRQ--IFFCATPPD----HGNLSRYYRHAAD 282
DRV GV C TC CK G C + + + PD G + +
Sbjct: 79 DRV----GVGCQVDSCGTCEQCKSGEEQYCPKGVVTYNGKYPDGTITQGGYADHIVVDER 134
Query: 283 FCHKLPDHVSLEEGALLEPLSVG---VHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARA 338
F K+P+ + A PL V++ +R GV G +V + G G +G + + A+A
Sbjct: 135 FVFKIPEGLDSAAAA---PLLCAGITVYSPLKRNGVGPGKRVGVVGIGGLGHLAVKFAKA 191
Query: 339 LGASRVVITDILEHKLKTAKEMGADATVL 367
LGA + K + A ++GAD +
Sbjct: 192 LGAEVTAFSRS-PSKKEDALKLGADEFIA 219
Score = 63.3 bits (155), Expect = 4e-11
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 79 EQKPIE--DPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSD-PMIVGHEASGIVSKV 135
E E +V +++ G+C SD+H L ++ + P++ GHE GIV V
Sbjct: 13 EPFTFERRPLGPDDVDIKITYCGVCHSDLHTLR----NEWGPTKYPLVPGHEIVGIVVAV 68
Query: 136 GAKVKHLK 143
G+KV K
Sbjct: 69 GSKVTKFK 76
Score = 59.4 bits (145), Expect = 8e-10
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 6/50 (12%)
Query: 2 HCVGICGSDVHYLTHGQIGDFRLSD-PMIVGHEASGIVSKVGAKVKHLKV 50
+C G+C SD+H L ++ + P++ GHE GIV VG+KV KV
Sbjct: 33 YC-GVCHSDLHTLR----NEWGPTKYPLVPGHEIVGIVVAVGSKVTKFKV 77
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 61.2 bits (149), Expect = 2e-10
Identities = 41/119 (34%), Positives = 58/119 (48%), Gaps = 9/119 (7%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLC--RQIFFCATPPDHGNLSRYYRHAADFCHKLPDHV 291
DRVA P TC YC+ G C R + G + Y + K+P +V
Sbjct: 80 DRVASLLYAPDGTCEYCRSGEEAYCKNRLGYGEELD---GFFAEYAKVKVTSLVKVPPNV 136
Query: 292 SLEEGALLEP--LSVGVHACRRAGVTLGSKVLITGA-GPIGLVTLLTARALGASRVVIT 347
S +EGA++ P + RRAGV G VL+TGA G +G+ + A+ALGA + +T
Sbjct: 137 S-DEGAVIVPCVTGMVYRGLRRAGVKKGETVLVTGAGGGVGIHAIQVAKALGAKVIAVT 194
Score = 37.3 bits (87), Expect = 0.011
Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 7/67 (10%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDF--RLSDPMIVGHEASGIVSKVG 136
E+ P P EV+++++ G+C D L Q+ F R+ P+I+GHE G V +VG
Sbjct: 16 EEVPDPKPGKDEVVIKVNYAGLCYRD--LL---QLQGFYPRMKYPVILGHEVVGTVEEVG 70
Query: 137 AKVKHLK 143
VK K
Sbjct: 71 ENVKGFK 77
Score = 33.9 bits (78), Expect = 0.14
Identities = 26/99 (26%), Positives = 42/99 (42%), Gaps = 7/99 (7%)
Query: 127 EASGIVSKVGAKV--KHLKATRPGGCLVIVG--AGSQDVKIPLVLTMTKEIDIRGVFRYA 182
A ++ VG + L++ GG ++ +G S + L + K+I+I G
Sbjct: 225 GADIVIETVGTPTLEESLRSLNMGGKIIQIGNVDPSPTYSLRLGYIILKDIEIIGHISAT 284
Query: 183 -NDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAK 220
D AL +VA GK +K +I L + A E K
Sbjct: 285 KRDVEEALKLVAEGK--IKPVIGAEVSLSEIDKALEELK 321
Score = 32.7 bits (75), Expect = 0.31
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 23 RLSDPMIVGHEASGIVSKVGAKVKHLKV 50
R+ P+I+GHE G V +VG VK K
Sbjct: 51 RMKYPVILGHEVVGTVEEVGENVKGFKP 78
>gnl|CDD|188504 TIGR03989, Rxyl_3153, oxidoreductase, Rxyl_3153 family. This model
describes a clade within the family pfam00107 of
zinc-binding dehydrogenases. The family pfam00107
contains class III alcohol dehydrogenases, including
enzymes designated S-(hydroxymethyl)glutathione
dehydrogenase and NAD/mycothiol-dependent formaldehyde
dehydrogenase. Members of the current family occur only
in species that contain the very small protein
mycofactocin (TIGR03969), a possible cofactor precursor,
and radical SAM protein TIGR03962. We name this family
for Rxyl_3153, where the lone member of the family
co-clusters with these markers in Rubrobacter
xylanophilus [Unknown function, Enzymes of unknown
specificity].
Length = 369
Score = 60.8 bits (148), Expect = 3e-10
Identities = 45/177 (25%), Positives = 66/177 (37%), Gaps = 33/177 (18%)
Query: 243 PCRTCTYCKEGRYNLC---RQIFFCATPPDH-----------------GNLSRYYRHAAD 282
C C +C G NLC + + D G S Y
Sbjct: 90 ACGRCRWCSTGLQNLCDLGAALLTGSQISDGTYRFHADGQDVGQMCLLGTFSEYTVVPEA 149
Query: 283 FCHKLPDHVSLEEGALLEPLSVGV-----HACRRAGVTLGSKVLITGAGPIGLVTLLTAR 337
K+ D + L++ L+ GV A A V G V++ G G +G+ + A
Sbjct: 150 SVVKIDDDIPLDKACLV---GCGVPTGWGSAVNIADVRPGDTVVVMGIGGVGINAVQGAA 206
Query: 338 ALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTI 394
GA +V+ D +E K + A + GA S+EE + EL G+ DKTI
Sbjct: 207 VAGARKVIAVDPVEFKREQALKFGATHAF-----ASMEEAVQLVRELTNGQGADKTI 258
Score = 51.5 bits (124), Expect = 4e-07
Identities = 24/62 (38%), Positives = 38/62 (61%), Gaps = 5/62 (8%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSD-PMIVGHEASGIVSKVGAKVKH 141
++DP EVL+++ G+C SD H +T GD + P++ GHE +G+V+KVG V
Sbjct: 21 LDDPKAGEVLVKLVASGLCHSDEHLVT----GDLPMPRYPILGGHEGAGVVTKVGPGVTG 76
Query: 142 LK 143
+K
Sbjct: 77 VK 78
Score = 41.9 bits (99), Expect = 4e-04
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 5/51 (9%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSD-PMIVGHEASGIVSKVGAKVKHLKV 50
+ G+C SD H +T GD + P++ GHE +G+V+KVG V +K
Sbjct: 33 LVASGLCHSDEHLVT----GDLPMPRYPILGGHEGAGVVTKVGPGVTGVKP 79
Score = 38.1 bits (89), Expect = 0.006
Identities = 29/78 (37%), Positives = 45/78 (57%), Gaps = 9/78 (11%)
Query: 142 LKATRPGGCLVIVGAG---SQDVKIPLV-LTMTKEIDIRG-VFRYAN---DYPIALAMVA 193
L ATR GG +V+ G G DVK+ L LT+ ++ +++G +F AN D P L +
Sbjct: 273 LSATRKGGRVVVTGLGPMADVDVKVNLFELTLLQK-ELQGTLFGGANPRADIPRLLELYR 331
Query: 194 SGKVDVKKLITHNYLLED 211
+GK+ + +LIT Y L+
Sbjct: 332 AGKLKLDELITRTYTLDQ 349
>gnl|CDD|176247 cd08287, FDH_like_ADH3, formaldehyde dehydrogenase (FDH)-like.
This group contains proteins identified as alcohol
dehydrogenases and glutathione-dependant formaldehyde
dehydrogenases (FDH) of the zinc-dependent/medium chain
alcohol dehydrogenase family. The MDR family uses
NAD(H) as a cofactor in the interconversion of alcohols
and aldehydes, or ketones. FDH converts formaldehyde
and NAD to formate and NADH. The initial step in this
process the spontaneous formation of a
S-(hydroxymethyl)glutathione adduct from formaldehyde
and glutathione, followed by FDH-mediated oxidation (and
detoxification) of the adduct to S-formylglutathione.
The medium chain alcohol dehydrogenase family (MDR) has
a NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit.
Length = 345
Score = 59.2 bits (144), Expect = 9e-10
Identities = 51/168 (30%), Positives = 73/168 (43%), Gaps = 13/168 (7%)
Query: 244 CRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYR--HAADFCHKLPDHVSLEEG----- 296
TC +C+ G C F D G Y R A K+P S +E
Sbjct: 89 DGTCPFCRAGFTTSCVHGGFWGAFVD-GGQGEYVRVPLADGTLVKVPGSPSDDEDLLPSL 147
Query: 297 -ALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLK 355
AL + + G HA AGV GS V++ G G +GL +L A+ LGA R++ E +
Sbjct: 148 LALSDVMGTGHHAAVSAGVRPGSTVVVVGDGAVGLCAVLAAKRLGAERIIAMSRHEDRQA 207
Query: 356 TAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTI 403
A+E GA V +R EE + EL G D ++C G + ++
Sbjct: 208 LAREFGATDIV-AERG---EEAVARVRELTGGVGADAVLECVGTQESM 251
Score = 35.4 bits (82), Expect = 0.047
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 6/61 (9%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
IE+P D + + CV CGSD+ G P +GHE G+V +VG++V +
Sbjct: 22 IEEPTDAVIRVVATCV--CGSDLWPYR----GVSPTRAPAPIGHEFVGVVEEVGSEVTSV 75
Query: 143 K 143
K
Sbjct: 76 K 76
Score = 33.4 bits (77), Expect = 0.16
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 6 ICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+CGSD+ G P +GHE G+V +VG++V +K
Sbjct: 37 VCGSDLWPYR----GVSPTRAPAPIGHEFVGVVEEVGSEVTSVKP 77
Score = 31.5 bits (72), Expect = 0.67
Identities = 20/94 (21%), Positives = 39/94 (41%), Gaps = 9/94 (9%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRG----VFRYANDYPIALAMVASGKV 197
+ RPGG + VG V++ + + + + G V RY P L V +G++
Sbjct: 255 IAIARPGGRVGYVGVPHGGVELDVRELFFRNVGLAGGPAPVRRYL---PELLDDVLAGRI 311
Query: 198 DVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMI 231
+ ++ L++ + AIKV++
Sbjct: 312 NPGRVFDLTLPLDEVAEGYRAMDE--RRAIKVLL 343
>gnl|CDD|176203 cd08241, QOR1, Quinone oxidoreductase (QOR). QOR catalyzes the
conversion of a quinone + NAD(P)H to a hydroquinone +
NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR acts in the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 58.3 bits (142), Expect = 2e-09
Identities = 39/101 (38%), Positives = 52/101 (51%), Gaps = 6/101 (5%)
Query: 281 ADFCHKLPDHVSLEEGALLEPLSVGV--HAC-RRAGVTLGSKVLITGA-GPIGLVTLLTA 336
A LPD +S EE A L P++ G HA RRA + G VL+ GA G +GL + A
Sbjct: 102 AAAVFPLPDGLSFEEAAAL-PVTYGTAYHALVRRARLQPGETVLVLGAAGGVGLAAVQLA 160
Query: 337 RALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEI 377
+ALGA RV+ E KL A+ +GAD + E +
Sbjct: 161 KALGA-RVIAAASSEEKLALARALGADHVIDYRDPDLRERV 200
Score = 42.5 bits (101), Expect = 2e-04
Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 13/92 (14%)
Query: 142 LKATRPGGCLVIVGAGSQDV-KIPLVLTMTKEIDIRGVF--RYANDYPIALA-------- 190
L++ GG L+++G S ++ +IP L + K I + GV+ YA P L
Sbjct: 225 LRSLAWGGRLLVIGFASGEIPQIPANLLLLKNISVVGVYWGAYARREPELLRANLAELFD 284
Query: 191 MVASGKVDVKKLITHNYLLEDTLHAFETAKTG 222
++A GK ++ ++ + LE A
Sbjct: 285 LLAEGK--IRPHVSAVFPLEQAAEALRALADR 314
Score = 32.5 bits (75), Expect = 0.39
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 3/70 (4%)
Query: 74 SLRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVS 133
L E P EV + + G+ D+ + G+ + P + G E +G+V
Sbjct: 14 DLVLEEVPPEPGAPG-EVRIRVEAAGVNFPDL-LMIQGKYQ-VKPPLPFVPGSEVAGVVE 70
Query: 134 KVGAKVKHLK 143
VG V K
Sbjct: 71 AVGEGVTGFK 80
Score = 30.5 bits (70), Expect = 1.6
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P + G E +G+V VG V KV
Sbjct: 58 PFVPGSEVAGVVEAVGEGVTGFKV 81
>gnl|CDD|176260 cd08300, alcohol_DH_class_III, class III alcohol dehydrogenases.
Members identified as glutathione-dependent formaldehyde
dehydrogenase(FDH), a member of the zinc
dependent/medium chain alcohol dehydrogenase family.
FDH converts formaldehyde and NAD(P) to formate and
NAD(P)H. The initial step in this process the
spontaneous formation of a S-(hydroxymethyl)glutathione
adduct from formaldehyde and glutathione, followed by
FDH-mediated oxidation (and detoxification) of the
adduct to S-formylglutathione. MDH family uses NAD(H)
as a cofactor in the interconversion of alcohols and
aldehydes or ketones. Like many zinc-dependent alcohol
dehydrogenases (ADH) of the medium chain alcohol
dehydrogenase/reductase family (MDR), these FDHs form
dimers, with 4 zinc ions per dimer. The medium chain
alcohol dehydrogenase family (MDR) have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit. Alcohol dehydrogenase in the liver
converts ethanol and NAD+ to acetaldehyde and NADH,
while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Length = 368
Score = 55.3 bits (134), Expect = 2e-08
Identities = 51/177 (28%), Positives = 76/177 (42%), Gaps = 25/177 (14%)
Query: 244 CRTCTYCKEGRYNLCRQI---------------FFCATPPDH-----GNLSRYYRHAADF 283
C C +CK G+ NLC++I F C P + S Y A
Sbjct: 92 CGECKFCKSGKTNLCQKIRATQGKGLMPDGTSRFSCKGKPIYHFMGTSTFSEYTVVAEIS 151
Query: 284 CHKLPDHVSLEEGALLE-PLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGA 341
K+ L++ LL ++ G A A V GS V + G G +GL + A+A GA
Sbjct: 152 VAKINPEAPLDKVCLLGCGVTTGYGAVLNTAKVEPGSTVAVFGLGAVGLAVIQGAKAAGA 211
Query: 342 SRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
SR++ DI K + AK+ G AT ++ + I ++E+ G D T +C G
Sbjct: 212 SRIIGIDINPDKFELAKKFG--ATDCVNPKDHDKPIQQVLVEMTDG-GVDYTFECIG 265
Score = 37.6 bits (88), Expect = 0.009
Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 12/71 (16%)
Query: 81 KP--IED-----PDDHEVLLEMHCVGICGSDVHYLT-HGQIGDFRLSDPMIVGHEASGIV 132
KP IE+ P EV +++ G+C +D + L+ G F P+I+GHE +GIV
Sbjct: 13 KPLSIEEVEVAPPKAGEVRIKILATGVCHTDAYTLSGADPEGLF----PVILGHEGAGIV 68
Query: 133 SKVGAKVKHLK 143
VG V +K
Sbjct: 69 ESVGEGVTSVK 79
Score = 31.8 bits (73), Expect = 0.57
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKVDNQT--RFVPEFRNV--CLSP 67
P+I+GHE +GIV VG V +K + + PE C S
Sbjct: 57 PVILGHEGAGIVESVGEGVTSVKPGDHVIPLYTPECGECKFCKSG 101
>gnl|CDD|176259 cd08299, alcohol_DH_class_I_II_IV, class I, II, IV alcohol
dehydrogenases. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. This group includes alcohol
dehydrogenases corresponding to mammalian classes I, II,
IV. Alcohol dehydrogenase in the liver converts ethanol
and NAD+ to acetaldehyde and NADH, while in yeast and
some other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which have a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and 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.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine (His-51), the
ribose of NAD, a serine (Ser-48) , then the alcohol,
which allows the transfer of a hydride to NAD+, creating
NADH and a zinc-bound aldehyde or ketone. In yeast and
some bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 373
Score = 54.2 bits (131), Expect = 4e-08
Identities = 26/63 (41%), Positives = 35/63 (55%), Gaps = 7/63 (11%)
Query: 86 PDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKAT 145
P HEV +++ GIC SD H ++ G P+I+GHEA+GIV VG V +K
Sbjct: 30 PKAHEVRIKIVATGICRSDDHVVS----GKLVTPFPVILGHEAAGIVESVGEGVTTVK-- 83
Query: 146 RPG 148
PG
Sbjct: 84 -PG 85
Score = 48.8 bits (117), Expect = 2e-06
Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 8/71 (11%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQ--TRFVP 58
+ GIC SD H ++ G P+I+GHEA+GIV VG V +K ++ FVP
Sbjct: 39 IVATGICRSDDHVVS----GKLVTPFPVILGHEAAGIVESVGEGVTTVKPGDKVIPLFVP 94
Query: 59 EFR--NVCLSP 67
+ CL+P
Sbjct: 95 QCGKCRACLNP 105
Score = 42.7 bits (101), Expect = 2e-04
Identities = 41/141 (29%), Positives = 54/141 (38%), Gaps = 22/141 (15%)
Query: 244 CRTCTYCKEGRYNLCRQI---------------FFCATPPDH-----GNLSRYYRHAADF 283
C C C NLC + F C P H S Y
Sbjct: 96 CGKCRACLNPESNLCLKNDLGKPQGLMQDGTSRFTCKGKPIHHFLGTSTFSEYTVVDEIA 155
Query: 284 CHKLPDHVSLEEGALLE-PLSVGV-HACRRAGVTLGSKVLITGAGPIGLVTLLTARALGA 341
K+ LE+ L+ S G A A VT GS + G G +GL ++ +A GA
Sbjct: 156 VAKIDAAAPLEKVCLIGCGFSTGYGAAVNTAKVTPGSTCAVFGLGGVGLSAIMGCKAAGA 215
Query: 342 SRVVITDILEHKLKTAKEMGA 362
SR++ DI + K AKE+GA
Sbjct: 216 SRIIAVDINKDKFAKAKELGA 236
>gnl|CDD|176215 cd08253, zeta_crystallin, Zeta-crystallin with NADP-dependent
quinone reductase activity (QOR). Zeta-crystallin is a
eye lens protein with NADP-dependent quinone reductase
activity (QOR). It has been cited as a structural
component in mammalian eyes, but also has homology to
quinone reductases in unrelated species. QOR catalyzes
the conversion of a quinone and NAD(P)H to a
hydroquinone and NAD(P+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR acts
in the respiratory chains of bacteria and mitochondria,
while soluble QOR acts to protect from toxic quinones
(e.g. DT-diaphorase) or as a soluble eye-lens protein in
some vertebrates (e.g. zeta-crystalin). QOR reduces
quinones through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 53.4 bits (129), Expect = 8e-08
Identities = 38/124 (30%), Positives = 57/124 (45%), Gaps = 18/124 (14%)
Query: 280 AADFCHKLPDHVSLEEGALLEPLSVGVHAC-------RRAGVTLGSKVLITG-AGPIGLV 331
AD LPD VS E+GA ++G+ A RAG G VL+ G +G +G
Sbjct: 106 PADQLVPLPDGVSFEQGA-----ALGIPALTAYRALFHRAGAKAGETVLVHGGSGAVGHA 160
Query: 332 TLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPD 391
+ AR GA RV+ T + ++ GADA N+ E+++ I+ G+ D
Sbjct: 161 AVQLARWAGA-RVIATASSAEGAELVRQAGADAVF----NYRAEDLADRILAATAGQGVD 215
Query: 392 KTID 395
I+
Sbjct: 216 VIIE 219
Score = 36.8 bits (86), Expect = 0.014
Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 3/70 (4%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
LR + P+ P EVL+ +H G+ D Y+ G P + G + +G+V
Sbjct: 15 LRLGD-LPVPTPGPGEVLVRVHASGVNPVDT-YIRAGAYPG-LPPLPYVPGSDGAGVVEA 71
Query: 135 VGAKVKHLKA 144
VG V LK
Sbjct: 72 VGEGVDGLKV 81
Score = 35.3 bits (82), Expect = 0.047
Identities = 27/83 (32%), Positives = 35/83 (42%), Gaps = 9/83 (10%)
Query: 142 LKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRY-------ANDYPIALAMVAS 194
L PGG +V+ G+G IP+ M KE IRGV Y A A +A
Sbjct: 230 LDVLAPGGRIVVYGSGGLRGTIPINPLMAKEASIRGVLLYTATPEERAAAAEAIAAGLAD 289
Query: 195 GKVDVKKLITHNYLLEDTLHAFE 217
G + +I Y LE+ A E
Sbjct: 290 GALRP--VIAREYPLEEAAAAHE 310
>gnl|CDD|176225 cd08264, Zn_ADH_like2, Alcohol dehydrogenases of the MDR family.
This group resembles the zinc-dependent alcohol
dehydrogenases of the medium chain dehydrogenase family.
However, this subgroup does not contain the
characteristic catalytic zinc site. Also, it contains an
atypical structural zinc-binding pattern:
DxxCxxCxxxxxxxC. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 53.1 bits (128), Expect = 1e-07
Identities = 46/156 (29%), Positives = 66/156 (42%), Gaps = 22/156 (14%)
Query: 223 AGNAIKVMIHCDRVAIEPGVPCRTCTYCKEGRYNLCRQ--IFFCATPPDHGNLSRYYRHA 280
G+ +K + DRV + V TC C G LCR I + +G + Y
Sbjct: 69 VGDHVKGVKKGDRVVVYNRVFDGTCDMCLSGNEMLCRNGGIIGVVS---NGGYAEYIVVP 125
Query: 281 ADFCHKLPDHVSLEEGALLEPLSVGV----HACRRAGVTLGSKVLITGA-GPIGLVTLLT 335
K+PD +S E A L V HA + AG+ G V++ GA G G+ +
Sbjct: 126 EKNLFKIPDSISDELAA---SLPVAALTAYHALKTAGLGPGETVVVFGASGNTGIFAVQL 182
Query: 336 ARALGASRVVIT--DILEHKLKTAKEMGADATVLID 369
A+ +GA + ++ D L KE GAD V D
Sbjct: 183 AKMMGAEVIAVSRKDWL-------KEFGADEVVDYD 211
Score = 33.9 bits (78), Expect = 0.13
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 13/73 (17%)
Query: 75 LRFREQKPIEDPD--DHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPM--IVGHEASG 130
L+ + ++DP EVL+ + G+ + V Y + PM I G E +G
Sbjct: 14 LKVED---VKDPKPGPGEVLIRVKMAGV--NPVDYNVINAVK----VKPMPHIPGAEFAG 64
Query: 131 IVSKVGAKVKHLK 143
+V +VG VK +K
Sbjct: 65 VVEEVGDHVKGVK 77
Score = 30.4 bits (69), Expect = 1.6
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P I G E +G+V +VG VK +K
Sbjct: 55 PHIPGAEFAGVVEEVGDHVKGVKK 78
>gnl|CDD|132245 TIGR03201, dearomat_had, 6-hydroxycyclohex-1-ene-1-carbonyl-CoA
dehydrogenase. Members of this protein family are
6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase, an
enzyme in the anaerobic metabolism of aromatic enzymes
by way of benzoyl-CoA, as seen in Thauera aromatica,
Geobacter metallireducens, and Azoarcus sp. The
experimentally characterized form from T. aromatica uses
only NAD+, not NADP+. Note that Rhodopseudomonas
palustris uses a different pathway to perform a similar
degradation of benzoyl-CoA to 3-hydroxpimelyl-CoA.
Length = 349
Score = 52.6 bits (126), Expect = 1e-07
Identities = 48/141 (34%), Positives = 63/141 (44%), Gaps = 12/141 (8%)
Query: 235 RVAIEPGV-PCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
+ I P V PC C CK GR +CR G S A C + D L
Sbjct: 78 KAVIVPAVIPCGECELCKTGRGTICRAQKMPGNDMQGGFASHIVVPAKGLC--VVDEARL 135
Query: 294 EEGAL-LEPLSV-------GVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVV 345
L LE +SV A +AG+ G V++ GAG +G + TA+A+GA+ VV
Sbjct: 136 AAAGLPLEHVSVVADAVTTPYQAAVQAGLKKGDLVIVIGAGGVGGYMVQTAKAMGAA-VV 194
Query: 346 ITDILEHKLKTAKEMGADATV 366
DI KL+ K GAD T+
Sbjct: 195 AIDIDPEKLEMMKGFGADLTL 215
Score = 33.7 bits (77), Expect = 0.14
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 78 REQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGA 137
+ + I + +V++++ G+C +D+ Y G + L P+ +GHE SG V + GA
Sbjct: 13 KTRVEIPELGAGDVVVKVAGCGVCHTDLSYYYMGVRTNHAL--PLALGHEISGRVIQAGA 70
Score = 29.1 bits (65), Expect = 4.4
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 148 GGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYAND-YPIALAMVASGKVDVKKLI 203
GG LV+VG + L M G + D YP AL +V GK+ + +
Sbjct: 265 GGTLVVVGYTMAKTEYRLSNLMAFHARALGNWGCPPDRYPAALDLVLDGKIQLGPFV 321
>gnl|CDD|132409 TIGR03366, HpnZ_proposed, putative phosphonate catabolism
associated alcohol dehydrogenase. This clade of
zinc-binding alcohol dehydrogenases (members of
pfam00107) are repeatedly associated with genes proposed
to be involved with the catabolism of phosphonate
compounds.
Length = 280
Score = 51.7 bits (124), Expect = 2e-07
Identities = 48/186 (25%), Positives = 65/186 (34%), Gaps = 28/186 (15%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIF---FCATPPDHGNLSRYYRHAADFCH----- 285
RV VPC C C+ G C + A Y H CH
Sbjct: 30 QRVVWSVTVPCGRCFRCRRGLPQKCDSLRKYGHEALDSGWPLSGGYAEH----CHLPAGT 85
Query: 286 ---KLPDHVSLEEGALLEPLSVGV----HACRRAGVTLGSKVLITGAGPIGLVTLLTARA 338
+PD + A+ P A AG G +VL+ GAG +GL A A
Sbjct: 86 AIVPVPDDLP---DAVAAPAGCATATVMAALEAAGDLKGRRVLVVGAGMLGLTAAAAAAA 142
Query: 339 LGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
GA+RVV D + + A G AT L + E L G D ++ SG
Sbjct: 143 AGAARVVAADPSPDRRELALSFG--ATALAEPEVLAERQGG----LQNGRGVDVALEFSG 196
Query: 399 IESTIK 404
+ ++
Sbjct: 197 ATAAVR 202
>gnl|CDD|181842 PRK09422, PRK09422, ethanol-active
dehydrogenase/acetaldehyde-active reductase;
Provisional.
Length = 338
Score = 51.2 bits (123), Expect = 4e-07
Identities = 42/134 (31%), Positives = 60/134 (44%), Gaps = 22/134 (16%)
Query: 244 CRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSLEEGALLEPLS 303
C C YC GR LCR + D G ++ AD+ K+P+ L+P
Sbjct: 90 CGHCEYCTTGRETLCRSVKNAGYTVD-GGMAEQCIVTADYAVKVPEG--------LDPAQ 140
Query: 304 VGVHACRRAGVTL-----------GSKVLITGAGPIGLVTLLTARALGASRVVITDILEH 352
C AGVT G + I GAG +G + L A+ + ++V+ DI +
Sbjct: 141 ASSITC--AGVTTYKAIKVSGIKPGQWIAIYGAGGLGNLALQYAKNVFNAKVIAVDINDD 198
Query: 353 KLKTAKEMGADATV 366
KL AKE+GAD T+
Sbjct: 199 KLALAKEVGADLTI 212
Score = 46.2 bits (110), Expect = 2e-05
Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 90 EVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLK 143
E L++M G+C +D+H GDF I+GHE GIV +VG V LK
Sbjct: 27 EALVKMEYCGVCHTDLHVAN----GDFGDKTGRILGHEGIGIVKEVGPGVTSLK 76
Score = 42.3 bits (100), Expect = 3e-04
Identities = 21/50 (42%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
M G+C +D+H GDF I+GHE GIV +VG V LKV
Sbjct: 32 MEYCGVCHTDLHVAN----GDFGDKTGRILGHEGIGIVKEVGPGVTSLKV 77
>gnl|CDD|176237 cd08276, MDR7, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 336
Score = 50.6 bits (122), Expect = 6e-07
Identities = 34/93 (36%), Positives = 45/93 (48%), Gaps = 23/93 (24%)
Query: 286 KLPDHVSLEEGALLEPLSVGVHACRRAGVT----L--------GSKVLITGAGPIGLVTL 333
+ PDH+S EE A L C AG+T L G VL+ G G + L L
Sbjct: 128 RAPDHLSFEEAATL--------PC--AGLTAWNALFGLGPLKPGDTVLVQGTGGVSLFAL 177
Query: 334 LTARALGASRVVITDILEHKLKTAKEMGADATV 366
A+A GA RV+ T + KL+ AK +GAD +
Sbjct: 178 QFAKAAGA-RVIATSSSDEKLERAKALGADHVI 209
Score = 34.4 bits (80), Expect = 0.092
Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 74 SLRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVS 133
+L+ E +P+ +P EVL+ +H V + D+ + +G+ + DP+I + +G V
Sbjct: 14 NLKLVE-EPVPEPGPGEVLVRVHAVSLNYRDL-LILNGRYP-PPVKDPLIPLSDGAGEVV 70
Query: 134 KVGAKVKHLK 143
VG V K
Sbjct: 71 AVGEGVTRFK 80
Score = 34.0 bits (79), Expect = 0.13
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 142 LKATRPGGCLVIVGA-GSQDVKIPLVLTMTKEIDIRGVF 179
+KA PGG + ++G + + L+ +TK +RG+
Sbjct: 246 IKAVAPGGVISLIGFLSGFEAPVLLLPLLTKGATLRGIA 284
>gnl|CDD|132492 TIGR03451, mycoS_dep_FDH, S-(hydroxymethyl)mycothiol dehydrogenase.
Members of this protein family are mycothiol-dependent
formaldehyde dehydrogenase (EC 1.2.1.66). This protein
is found, so far, only in the Actinobacteria
(Mycobacterium sp., Streptomyces sp., Corynebacterium
sp., and related species), where mycothione replaces
glutathione [Cellular processes, Detoxification].
Length = 358
Score = 50.6 bits (121), Expect = 6e-07
Identities = 33/97 (34%), Positives = 43/97 (44%), Gaps = 4/97 (4%)
Query: 308 ACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVL 367
A GV G V + G G +G + A GAS+++ DI + KL+ A+E GA TV
Sbjct: 168 AVNTGGVKRGDSVAVIGCGGVGDAAIAGAALAGASKIIAVDIDDRKLEWAREFGATHTV- 226
Query: 368 IDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIK 404
N S + I L G D ID G T K
Sbjct: 227 ---NSSGTDPVEAIRALTGGFGADVVIDAVGRPETYK 260
Score = 48.3 bits (115), Expect = 3e-06
Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 4/60 (6%)
Query: 83 IEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHL 142
+ DP EV++++ G+C +D+HY G +F P ++GHEA+G+V VG V +
Sbjct: 21 VPDPGPGEVIVDIQACGVCHTDLHYREGGINDEF----PFLLGHEAAGVVEAVGEGVTDV 76
Score = 43.6 bits (103), Expect = 1e-04
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVPEFRNVC 64
G+C +D+HY G +F P ++GHEA+G+V VG V + + V +R VC
Sbjct: 37 GVCHTDLHYREGGINDEF----PFLLGHEAAGVVEAVGEGVTDVAPGD--YVVLNWRAVC 90
>gnl|CDD|131865 TIGR02818, adh_III_F_hyde, S-(hydroxymethyl)glutathione
dehydrogenase/class III alcohol dehydrogenase. The
members of this protein family show dual function.
First, they remove formaldehyde, a toxic metabolite, by
acting as S-(hydroxymethyl)glutathione dehydrogenase
(1.1.1.284). S-(hydroxymethyl)glutathione can form
spontaneously from formaldehyde and glutathione, and so
this enzyme previously was designated
glutathione-dependent formaldehyde dehydrogenase. These
same proteins are also designated alcohol dehydrogenase
(EC 1.1.1.1) of class III, for activities that do not
require glutathione; they tend to show poor activity for
ethanol among their various substrate alcohols [Cellular
processes, Detoxification, Energy metabolism,
Fermentation].
Length = 368
Score = 50.6 bits (121), Expect = 6e-07
Identities = 49/177 (27%), Positives = 71/177 (40%), Gaps = 25/177 (14%)
Query: 244 CRTCTYCKEGRYNLCRQI---------------FFCATPPDH-----GNLSRYYRHAADF 283
C C +C G+ NLC + F P + S Y
Sbjct: 91 CGECKFCLSGKTNLCVAVRETQGKGLMPDGTSRFSKDGQPIYHYMGCSTFSEYTVVPEIS 150
Query: 284 CHKLPDHVSLEEGALLE-PLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGA 341
K+ LEE LL ++ G+ A A V G V + G G IGL + AR A
Sbjct: 151 LAKINPAAPLEEVCLLGCGVTTGIGAVLNTAKVEEGDTVAVFGLGGIGLSVIQGARMAKA 210
Query: 342 SRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
SR++ DI K + AK++G AT ++ N + I I+E+ G D + +C G
Sbjct: 211 SRIIAIDINPAKFELAKKLG--ATDCVNPNDYDKPIQEVIVEITDG-GVDYSFECIG 264
Score = 36.0 bits (83), Expect = 0.035
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQI-GDFRLSDPMIVGHEASGIVSKVGA 137
E+ +E P EVL+ + G+C +D L+ G F P+I+GHE +GIV VG
Sbjct: 17 EEVDVEMPQKGEVLVRIVATGVCHTDAFTLSGADPEGVF----PVILGHEGAGIVEAVGE 72
Query: 138 KVKHLK 143
V +K
Sbjct: 73 GVTSVK 78
Score = 30.2 bits (68), Expect = 1.9
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 5/47 (10%)
Query: 5 GICGSDVHYLTHGQI-GDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+C +D L+ G F P+I+GHE +GIV VG V +KV
Sbjct: 37 GVCHTDAFTLSGADPEGVF----PVILGHEGAGIVEAVGEGVTSVKV 79
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 49.7 bits (120), Expect = 1e-06
Identities = 37/121 (30%), Positives = 55/121 (45%), Gaps = 8/121 (6%)
Query: 281 ADFCHKLPDHVSLEEGA-LLEPLSVGVHA-CRRAGVTLGSKVLIT-GAGPIGLVTLLTAR 337
A +P+ +SL E A L E + G+ G VLI GA +G + A+
Sbjct: 102 AGQLLPVPEGLSLVEAAALPEVFFTAWQNLFQLGGLKAGETVLIHGGASGVGTAAIQLAK 161
Query: 338 ALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCS 397
ALGA RV+ T E KL+ + +GAD + N+ E+ + + E G D +D
Sbjct: 162 ALGA-RVIATAGSEEKLEACRALGADVAI----NYRTEDFAEEVKEATGGRGVDVILDMV 216
Query: 398 G 398
G
Sbjct: 217 G 217
Score = 28.6 bits (65), Expect = 6.3
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 29 IVGHEASGIVSKVGAKVKHLKV 50
I+G E +G+V VG V KV
Sbjct: 60 ILGLEVAGVVVAVGPGVTGWKV 81
Score = 28.6 bits (65), Expect = 6.6
Identities = 18/76 (23%), Positives = 27/76 (35%), Gaps = 24/76 (31%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDV-----HYLTHGQIGDFRLSDPM------IVGHE 127
+ P P EVL+ + G+ +D+ Y P I+G E
Sbjct: 18 GEVPKPAPGPGEVLIRVAAAGVNRADLLQRQGLY-------------PPPPGASDILGLE 64
Query: 128 ASGIVSKVGAKVKHLK 143
+G+V VG V K
Sbjct: 65 VAGVVVAVGPGVTGWK 80
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 309
Score = 49.5 bits (119), Expect = 1e-06
Identities = 20/62 (32%), Positives = 31/62 (50%)
Query: 82 PIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 141
P +P EVL+++H G+ D+ F L+ P+I GH+ +G+V VG V
Sbjct: 21 PTPEPGPGEVLVKVHAAGVNPVDLKIREGLLKAAFPLTLPLIPGHDVAGVVVAVGPGVTG 80
Query: 142 LK 143
K
Sbjct: 81 FK 82
Score = 39.5 bits (93), Expect = 0.002
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+H G+ D+ F L+ P+I GH+ +G+V VG V KV
Sbjct: 34 VHAAGVNPVDLKIREGLLKAAFPLTLPLIPGHDVAGVVVAVGPGVTGFKV 83
Score = 36.4 bits (85), Expect = 0.020
Identities = 28/92 (30%), Positives = 39/92 (42%), Gaps = 11/92 (11%)
Query: 281 ADFCHKLPDHVSLEEGALLEPLSV-----GVHACRRAGVTLGSKVLITGA-GPIGLVTLL 334
AD P ++S EE A L PL+ + G+ G VLI GA G +G +
Sbjct: 107 ADELALKPANLSFEEAAAL-PLAGLTAWQALF--ELGGLKAGQTVLIHGAAGGVGSFAVQ 163
Query: 335 TARALGASRVVITDILEHKLKTAKEMGADATV 366
A+A GA VI + +GAD +
Sbjct: 164 LAKARGAR--VIATASAANADFLRSLGADEVI 193
>gnl|CDD|176256 cd08296, CAD_like, Cinnamyl alcohol dehydrogenases (CAD). Cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family, reduce
cinnamaldehydes to cinnamyl alcohols in the last step of
monolignal metabolism in plant cells walls. CAD binds 2
zinc ions and is NADPH- dependent. CAD family members
are also found in non-plant species, e.g. in yeast where
they have an aldehyde reductase activity. The medium
chain dehydrogenases/reductase (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 (ADHs), 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. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 333
Score = 48.0 bits (115), Expect = 4e-06
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 80 QKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKV 139
++ + P EVL+++ G+C SD G LS P + GHE G + VG V
Sbjct: 17 ERDVPLPGPGEVLIKVEACGVCHSDAFVKEGAMPG---LSYPRVPGHEVVGRIDAVGEGV 73
Query: 140 KHLK 143
K
Sbjct: 74 SRWK 77
Score = 36.8 bits (86), Expect = 0.016
Identities = 38/138 (27%), Positives = 54/138 (39%), Gaps = 16/138 (11%)
Query: 234 DRVAIEPGVP-----CRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLP 288
DRV GV C TC C+ G + C D G A +P
Sbjct: 80 DRV----GVGWHGGHCGTCDACRRGDFVHCENGKVTGVTRDGGYAEYMLAPAEALAR-IP 134
Query: 289 DHVSLEEGALLEPLSVGV---HACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVV 345
D + E A L L GV +A R +G G V + G G +G + + A +G V
Sbjct: 135 DDLDAAEAAPL--LCAGVTTFNALRNSGAKPGDLVAVQGIGGLGHLAVQYAAKMGFRTVA 192
Query: 346 ITDILEHKLKTAKEMGAD 363
I+ + K A+++GA
Sbjct: 193 ISRGSD-KADLARKLGAH 209
Score = 35.3 bits (82), Expect = 0.041
Identities = 17/46 (36%), Positives = 20/46 (43%), Gaps = 3/46 (6%)
Query: 5 GICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G+C SD G LS P + GHE G + VG V KV
Sbjct: 36 GVCHSDAFVKEGAMPG---LSYPRVPGHEVVGRIDAVGEGVSRWKV 78
>gnl|CDD|176261 cd08301, alcohol_DH_plants, Plant alcohol dehydrogenase.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and aldehydes
or ketones. Alcohol dehydrogenase in the liver converts
ethanol and NAD+ to acetaldehyde and NADH, while in
yeast and some other microorganisms ADH catalyzes the
conversion acetaldehyde to ethanol in alcoholic
fermentation. There are 7 vertebrate ADH 7 classes, 6
of which have been identified in humans. Class III,
glutathione-dependent formaldehyde dehydrogenase, has
been identified as the primordial form and exists in
diverse species, including plants, micro-organisms,
vertebrates, and invertebrates. Class I, typified by
liver dehydrogenase, is an evolving form. Gene
duplication and functional specialization of ADH into
ADH classes and subclasses created numerous forms in
vertebrates. For example, the A, B and C (formerly
alpha, beta, gamma) human class I subunits have high
overall structural similarity, but differ in the
substrate binding pocket and therefore in substrate
specificity. In human ADH catalysis, the zinc ion helps
coordinate the alcohol, followed by deprotonation of a
histidine (His-51), the ribose of NAD, a serine
(Ser-48) , then the alcohol, which allows the transfer
of a hydride to NAD+, creating NADH and a zinc-bound
aldehyde or ketone. In yeast and some bacteria, the
active site zinc binds an aldehyde, polarizing it, and
leading to the reverse reaction. ADH is a member of the
medium chain alcohol dehydrogenase family (MDR), which
has a NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Length = 369
Score = 48.1 bits (115), Expect = 5e-06
Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 86 PDDHEVLLEMHCVGICGSDVHYLTH-GQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKA 144
P EV +++ +C +DV++ GQ F P I+GHEA+GIV VG V LK
Sbjct: 25 PQAMEVRIKILHTSLCHTDVYFWEAKGQTPLF----PRILGHEAAGIVESVGEGVTDLKP 80
Score = 41.9 bits (99), Expect = 5e-04
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 2 HCVGICGSDVHYLTH-GQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLK 49
+C +DV++ GQ F P I+GHEA+GIV VG V LK
Sbjct: 35 LHTSLCHTDVYFWEAKGQTPLF----PRILGHEAAGIVESVGEGVTDLK 79
Score = 41.1 bits (97), Expect = 6e-04
Identities = 45/178 (25%), Positives = 72/178 (40%), Gaps = 26/178 (14%)
Query: 244 CRTCTYCKEGRYNLCR--QIFFCATPPDHGNLSRYYRHAADFCH---------------- 285
C+ C +CK + N+C +I + SR+ + H
Sbjct: 92 CKECRHCKSEKSNMCDLLRINTDRGVMINDGKSRFSINGKPIYHFVGTSTFSEYTVVHVG 151
Query: 286 ---KLPDHVSLEEGALLE-PLSVGVHACRR-AGVTLGSKVLITGAGPIGLVTLLTARALG 340
K+ L++ LL +S G+ A A V GS V I G G +GL AR G
Sbjct: 152 CVAKINPEAPLDKVCLLSCGVSTGLGAAWNVAKVKKGSTVAIFGLGAVGLAVAEGARIRG 211
Query: 341 ASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSG 398
ASR++ D+ K + AK+ G T ++ + + I E+ G D + +C+G
Sbjct: 212 ASRIIGVDLNPSKFEQAKKFG--VTEFVNPKDHDKPVQEVIAEMTGG-GVDYSFECTG 266
>gnl|CDD|176211 cd08249, enoyl_reductase_like, enoyl_reductase_like. Member
identified as possible enoyl reductase of the MDR
family. 2-enoyl thioester reductase (ETR) catalyzes the
NADPH-dependent dependent conversion of trans-2-enoyl
acyl carrier protein/coenzyme A (ACP/CoA) to
acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and 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. NAD(H)-binding occurs in the cleft between the
catalytic and coenzyme-binding domains at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding. Candida
tropicalis enoyl thioester reductase (Etr1p) catalyzes
the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 339
Score = 46.0 bits (110), Expect = 2e-05
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 82 PIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 141
P+ P EVL+++ V + D + +G F S P I+G + +G V +VG+ V
Sbjct: 20 PVPKPGPDEVLVKVKAVALNPVDWKHQDYG----FIPSYPAILGCDFAGTVVEVGSGVTR 75
Query: 142 LK 143
K
Sbjct: 76 FK 77
Score = 37.6 bits (88), Expect = 0.009
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 2 HCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
V + D + +G F S P I+G + +G V +VG+ V KV
Sbjct: 34 KAVALNPVDWKHQDYG----FIPSYPAILGCDFAGTVVEVGSGVTRFKV 78
Score = 34.9 bits (81), Expect = 0.068
Identities = 41/172 (23%), Positives = 57/172 (33%), Gaps = 57/172 (33%)
Query: 270 HGNLSRYYRHAA---------DFCHKLPDHVSLEEGALLEPLSVGVHACRRAGVTL---- 316
HG R+ A D K+PD++S EE A L VG+ A + L
Sbjct: 87 HGGNPNDPRNGAFQEYVVADADLTAKIPDNISFEEAA---TLPVGLVT---AALALFQKL 140
Query: 317 --------------GSKVLITGAG-PIGLVTLLTARALGASRVVITDILEHKLKTA---- 357
G VLI G +G + + A+ G VIT TA
Sbjct: 141 GLPLPPPKPSPASKGKPVLIWGGSSSVGTLAIQLAKLAGYK--VIT--------TASPKN 190
Query: 358 ----KEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGIESTIKL 405
K +GADA D + I G + +DC + +L
Sbjct: 191 FDLVKSLGADAVF--DYHDPDVVE---DIRAATGGKLRYALDCISTPESAQL 237
>gnl|CDD|166227 PLN02586, PLN02586, probable cinnamyl alcohol dehydrogenase.
Length = 360
Score = 46.0 bits (109), Expect = 2e-05
Identities = 40/162 (24%), Positives = 67/162 (41%), Gaps = 13/162 (8%)
Query: 214 HAFETAKTGAGNAIKVMIHCDRVAIEPGV---PCRTCTYCKEGRYNLCRQIFFCATPPDH 270
H T G +K DRV + GV C++C C + N C ++ F H
Sbjct: 72 HEIVGIVTKLGKNVKKFKEGDRVGV--GVIVGSCKSCESCDQDLENYCPKMIFTYNSIGH 129
Query: 271 GNLSRYYRHA------ADFCHKLPDHVSLEEGALLEPLSVGVHA-CRRAGVTLGSKVL-I 322
Y ++ F + PD++ L+ GA L + V++ + G+T K L +
Sbjct: 130 DGTKNYGGYSDMIVVDQHFVLRFPDNLPLDAGAPLLCAGITVYSPMKYYGMTEPGKHLGV 189
Query: 323 TGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADA 364
G G +G V + +A G VI+ + + +GAD+
Sbjct: 190 AGLGGLGHVAVKIGKAFGLKVTVISSSSNKEDEAINRLGADS 231
Score = 39.9 bits (93), Expect = 0.002
Identities = 24/73 (32%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Query: 85 DPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSD-PMIVGHEASGIVSKVGAKVKHLK 143
+ D +V +++ G+C SD+H + + ++ + P++ GHE GIV+K+G VK K
Sbjct: 34 ENGDEDVTVKILYCGVCHSDLHTIKN----EWGFTRYPIVPGHEIVGIVTKLGKNVKKFK 89
Query: 144 ATRPGGCLVIVGA 156
G VIVG+
Sbjct: 90 EGDRVGVGVIVGS 102
Score = 37.6 bits (87), Expect = 0.009
Identities = 17/50 (34%), Positives = 30/50 (60%), Gaps = 5/50 (10%)
Query: 5 GICGSDVHYLTHGQIGDFRLSD-PMIVGHEASGIVSKVGAKVKHLKVDNQ 53
G+C SD+H + + ++ + P++ GHE GIV+K+G VK K ++
Sbjct: 48 GVCHSDLHTIKN----EWGFTRYPIVPGHEIVGIVTKLGKNVKKFKEGDR 93
>gnl|CDD|176233 cd08272, MDR6, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 326
Score = 46.0 bits (110), Expect = 2e-05
Identities = 38/113 (33%), Positives = 51/113 (45%), Gaps = 11/113 (9%)
Query: 270 HGNLSRYYRHAADFCHKLPDHVSLEEGALLEPLSVGVHA----CRRAGVTLGSKVLI-TG 324
G+L+ Y A P ++S+ E A L PL VG+ A RA V G VLI G
Sbjct: 96 QGSLAEYAVVDARLLALKPANLSMREAAAL-PL-VGITAWEGLVDRAAVQAGQTVLIHGG 153
Query: 325 AGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEI 377
AG +G V + A+A GA V K A+ +GAD I ++ E
Sbjct: 154 AGGVGHVAVQLAKAAGAR--VYATASSEKAAFARSLGADPI--IYYRETVVEY 202
>gnl|CDD|178341 PLN02740, PLN02740, Alcohol dehydrogenase-like.
Length = 381
Score = 45.9 bits (109), Expect = 2e-05
Identities = 39/109 (35%), Positives = 55/109 (50%), Gaps = 5/109 (4%)
Query: 293 LEEGALLE-PLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDIL 350
L++ +LL +S GV A A V GS V I G G +GL ARA GAS+++ DI
Sbjct: 173 LKKMSLLSCGVSTGVGAAWNTANVQAGSSVAIFGLGAVGLAVAEGARARGASKIIGVDIN 232
Query: 351 EHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCSGI 399
K + KEMG T I+ S + + I E+ G D + +C+G
Sbjct: 233 PEKFEKGKEMG--ITDFINPKDSDKPVHERIREMTGG-GVDYSFECAGN 278
Score = 32.8 bits (75), Expect = 0.27
Identities = 15/24 (62%), Positives = 18/24 (75%)
Query: 121 PMIVGHEASGIVSKVGAKVKHLKA 144
P I+GHEA+GIV VG V+ LKA
Sbjct: 66 PRILGHEAAGIVESVGEGVEDLKA 89
Score = 32.5 bits (74), Expect = 0.37
Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKVDNQTRFVPEFRNVC 64
P I+GHEA+GIV VG V+ LK + +P F C
Sbjct: 66 PRILGHEAAGIVESVGEGVEDLKAGDHV--IPIFNGEC 101
>gnl|CDD|131869 TIGR02822, adh_fam_2, zinc-binding alcohol dehydrogenase family
protein. Members of this model form a distinct subset
of the larger family of oxidoreductases that includes
zinc-binding alcohol dehydrogenases and NADPH:quinone
reductases (pfam00107). The gene neighborhood of members
of this family is not conserved and it appears that no
members are characterized. The sequence of the family
includes 6 invariant cysteine residues and one invariant
histidine. It appears that no member is characterized
[Energy metabolism, Fermentation].
Length = 329
Score = 45.3 bits (107), Expect = 3e-05
Identities = 33/105 (31%), Positives = 46/105 (43%), Gaps = 2/105 (1%)
Query: 244 CRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSLEEGA-LLEPL 302
C C YC+ G NLC + D G + Y A F ++LP E A LL
Sbjct: 93 CGVCRYCRRGAENLCPASRYTGWDTD-GGYAEYTTVPAAFAYRLPTGYDDVELAPLLCAG 151
Query: 303 SVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVIT 347
+G A RA + G ++ + G G +T A A GA+ V+T
Sbjct: 152 IIGYRALLRASLPPGGRLGLYGFGGSAHLTAQVALAQGATVHVMT 196
Score = 34.5 bits (79), Expect = 0.072
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 78 REQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIV-GHEASGIVSKVG 136
++P+ P E+L+ + G+C +D+H GD + P + GHE G V+ G
Sbjct: 17 FVERPVPRPGPGELLVRVRACGVCRTDLHVSE----GDLPVHRPRVTPGHEVVGEVAGRG 72
Query: 137 A 137
A
Sbjct: 73 A 73
>gnl|CDD|176179 cd05195, enoyl_red, enoyl reductase of polyketide synthase.
Putative enoyl reductase of polyketide synthase.
Polyketide synthases produce polyketides in step by step
mechanism that is similar to fatty acid synthesis. Enoyl
reductase reduces a double to single bond. Erythromycin
is one example of a polyketide generated by 3 complex
enzymes (megasynthases). 2-enoyl thioester reductase
(ETR) catalyzes the NADPH-dependent dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes or ketones. Alcohol dehydrogenase in the liver
converts ethanol and NAD+ to acetaldehyde and NADH,
while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the cleft between the
catalytic and coenzyme-binding domains, at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding.
Length = 293
Score = 42.6 bits (101), Expect = 2e-04
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 13/80 (16%)
Query: 270 HGNLSRYYRHAADFCHKLPDHVSLEEGALLEPLSVGVHAC-------RRAGVTLGSKVLI 322
G + + R A K+PD +S EE A ++ V A + G VLI
Sbjct: 60 PGAFATHVRVDARLVVKIPDSLSFEEAA-----TLPVAYLTAYYALVDLARLQKGESVLI 114
Query: 323 T-GAGPIGLVTLLTARALGA 341
AG +G + A+ LGA
Sbjct: 115 HAAAGGVGQAAIQLAQHLGA 134
Score = 39.9 bits (94), Expect = 0.001
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 5/55 (9%)
Query: 89 HEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLK 143
EV +E+ G+ DV G + D +G E SGIV++VG+ V LK
Sbjct: 1 DEVEVEVKAAGLNFRDVLVAL-GLLPG----DETPLGLECSGIVTRVGSGVTGLK 50
Score = 36.0 bits (84), Expect = 0.024
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 26 DPMIVGHEASGIVSKVGAKVKHLKV 50
D +G E SGIV++VG+ V LKV
Sbjct: 27 DETPLGLECSGIVTRVGSGVTGLKV 51
>gnl|CDD|176212 cd08250, Mgc45594_like, Mgc45594 gene product and other MDR family
members. Includes Human Mgc45594 gene product of
undetermined function. The medium chain
dehydrogenases/reductase (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.
Length = 329
Score = 42.6 bits (101), Expect = 2e-04
Identities = 27/79 (34%), Positives = 34/79 (43%), Gaps = 7/79 (8%)
Query: 71 RRFSLRFREQKPIED-----PDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVG 125
R S FRE I D P EVL++ VGI SD+++ T G+ + P G
Sbjct: 8 HRLSPNFREATSIVDVPVPLPGPGEVLVKNRFVGINASDINF-TAGRYDPG-VKPPFDCG 65
Query: 126 HEASGIVSKVGAKVKHLKA 144
E G V VG V K
Sbjct: 66 FEGVGEVVAVGEGVTDFKV 84
Score = 30.7 bits (70), Expect = 1.5
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 4 VGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
VGI SD+++ T G+ + P G E G V VG V KV
Sbjct: 40 VGINASDINF-TAGRYDPG-VKPPFDCGFEGVGEVVAVGEGVTDFKV 84
>gnl|CDD|176189 cd05286, QOR2, Quinone oxidoreductase (QOR). Quinone
oxidoreductase (QOR) and 2-haloacrylate reductase. QOR
catalyzes the conversion of a quinone + NAD(P)H to a
hydroquinone + NAD(P)+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR
actin the respiratory chains of bacteria and
mitochondria, while soluble QOR acts to protect from
toxic quinones (e.g. DT-diaphorase) or as a soluble
eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. 2-haloacrylate reductase,
a member of this subgroup, catalyzes the NADPH-dependent
reduction of a carbon-carbon double bond in
organohalogen compounds. Although similar to QOR,
Burkholderia 2-haloacrylate reductase does not act on
the quinones 1,4-benzoquinone and 1,4-naphthoquinone.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 320
Score = 42.0 bits (100), Expect = 3e-04
Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
L + + P+ +P EVL+ +G+ D ++ + G + L P ++G E +G+V
Sbjct: 14 LEYEDV-PVPEPGPGEVLVRNTAIGVNFIDTYFRS----GLYPLPLPFVLGVEGAGVVEA 68
Query: 135 VGAKVKHLKATRPG---GCLVIVGAGSQDVKIP 164
VG V K G GA ++ +P
Sbjct: 69 VGPGVTGFK---VGDRVAYAGPPGAYAEYRVVP 98
Score = 40.5 bits (96), Expect = 0.001
Identities = 42/123 (34%), Positives = 56/123 (45%), Gaps = 12/123 (9%)
Query: 281 ADFCHKLPDHVSLEEGA--LLEPLSVGVHACRRAGVTLGSKVLITG-AGPIGLVTLLT-- 335
A KLPD +S E A LL+ L+ V G VL+ AG +GL LLT
Sbjct: 99 ASRLVKLPDGISDETAAALLLQGLTAHYLLRETYPVKPGDTVLVHAAAGGVGL--LLTQW 156
Query: 336 ARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTID 395
A+ALGA V+ T E K + A+ GAD + N+ E+ + E+ G D D
Sbjct: 157 AKALGA-TVIGTVSSEEKAELARAAGADHVI----NYRDEDFVERVREITGGRGVDVVYD 211
Query: 396 CSG 398
G
Sbjct: 212 GVG 214
Score = 35.9 bits (84), Expect = 0.026
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 20 GDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
G + L P ++G E +G+V VG V KV
Sbjct: 48 GLYPLPLPFVLGVEGAGVVEAVGPGVTGFKV 78
>gnl|CDD|176208 cd08246, crotonyl_coA_red, crotonyl-CoA reductase. Crotonyl-CoA
reductase, a member of the medium chain
dehydrogenase/reductase family, catalyzes the
NADPH-dependent conversion of crotonyl-CoA to
butyryl-CoA, a step in (2S)-methylmalonyl-CoA
production for straight-chain fatty acid biosynthesis.
Like enoyl reductase, another enzyme in fatty acid
synthesis, crotonyl-CoA reductase is a member of the
zinc-dependent alcohol dehydrogenase-like medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (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.
Length = 393
Score = 42.4 bits (100), Expect = 3e-04
Identities = 34/110 (30%), Positives = 53/110 (48%), Gaps = 14/110 (12%)
Query: 270 HGNLSRYYRHAADFCHKLPDHVSLEEGALLEPLSVGVHACRR------AGVTLGSKVLIT 323
+G+ +++ A P H+S EE A + VG A R V G VLI
Sbjct: 143 YGSFAQFALVQATQLMPKPKHLSWEEAAA--YMLVGATAYRMLFGWNPNTVKPGDNVLIW 200
Query: 324 GA-GPIGLVTLLTARALGASRV-VITDILEHKLKTAKEMGADATVLIDRN 371
GA G +G + + ARA GA+ V V++ E K + + +GA+ +I+R
Sbjct: 201 GASGGLGSMAIQLARAAGANPVAVVSS--EEKAEYCRALGAEG--VINRR 246
Score = 35.9 bits (83), Expect = 0.031
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 11/89 (12%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYL------THGQIGDFRLSDPM-IVGHEASGI 131
E P+ + EVL+ + G+ ++V T +P I G +ASGI
Sbjct: 33 EDVPVPELGPGEVLVAVMAAGVNYNNVWAALGEPVSTFAARQRRGRDEPYHIGGSDASGI 92
Query: 132 VSKVGAKVKHLKATRPGGCLVIVGAGSQD 160
V VG VK+ K G V+V D
Sbjct: 93 VWAVGEGVKNWKV----GDEVVVHCSVWD 117
Score = 34.3 bits (79), Expect = 0.10
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 29 IVGHEASGIVSKVGAKVKHLKV 50
I G +ASGIV VG VK+ KV
Sbjct: 84 IGGSDASGIVWAVGEGVKNWKV 105
>gnl|CDD|176228 cd08267, MDR1, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 319
Score = 41.8 bits (99), Expect = 4e-04
Identities = 22/84 (26%), Positives = 31/84 (36%), Gaps = 7/84 (8%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
+ PI P EVL+++H + D P I G + +G V VG+
Sbjct: 17 VEVPIPTPKPGEVLVKVHAASVNPVDWKLRRGPPKLLLGRPFPPIPGMDFAGEVVAVGSG 76
Query: 139 VKHLKATRPG----GCLVIVGAGS 158
V K G G L G G+
Sbjct: 77 VTRFK---VGDEVFGRLPPKGGGA 97
Score = 41.4 bits (98), Expect = 5e-04
Identities = 36/111 (32%), Positives = 51/111 (45%), Gaps = 7/111 (6%)
Query: 260 QIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSLEEGALLEPLS--VGVHACRRAG-VTL 316
++F P G L+ Y K P+ VS EE A L P++ + A R AG V
Sbjct: 85 EVFGRLPPKGGGALAEYVVAPESGLAKKPEGVSFEEAAAL-PVAGLTALQALRDAGKVKP 143
Query: 317 GSKVLITGA-GPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATV 366
G +VLI GA G +G + A+ALGA V + + +GAD +
Sbjct: 144 GQRVLINGASGGVGTFAVQIAKALGA-HVTGVCS-TRNAELVRSLGADEVI 192
Score = 29.5 bits (67), Expect = 2.9
Identities = 12/50 (24%), Positives = 17/50 (34%)
Query: 1 MHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+H + D P I G + +G V VG+ V KV
Sbjct: 33 VHAASVNPVDWKLRRGPPKLLLGRPFPPIPGMDFAGEVVAVGSGVTRFKV 82
>gnl|CDD|182701 PRK10754, PRK10754, quinone oxidoreductase, NADPH-dependent;
Provisional.
Length = 327
Score = 41.6 bits (98), Expect = 4e-04
Identities = 25/60 (41%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 85 DPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKA 144
DP ++EV +E +GI D Y+ G L P +G EA+G+VSKVG+ VKH+K
Sbjct: 25 DPAENEVQVENKAIGINYIDT-YIRSGLYPPPSL--PSGLGTEAAGVVSKVGSGVKHIKV 81
Score = 37.0 bits (86), Expect = 0.014
Identities = 15/24 (62%), Positives = 20/24 (83%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P +G EA+G+VSKVG+ VKH+KV
Sbjct: 58 PSGLGTEAAGVVSKVGSGVKHIKV 81
Score = 36.2 bits (84), Expect = 0.025
Identities = 30/106 (28%), Positives = 51/106 (48%), Gaps = 8/106 (7%)
Query: 287 LPDHVSLEEGA--LLEPLSVGVHACRRAGVTLGSKVLI-TGAGPIGLVTLLTARALGASR 343
LPD +S E+ A L+ L+V + + + L AG +GL+ A+ALGA +
Sbjct: 109 LPDAISFEQAAASFLKGLTVYYLLRKTYEIKPDEQFLFHAAAGGVGLIACQWAKALGA-K 167
Query: 344 VVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQ 389
++ T K + AK+ GA + N+ E I + E+ G++
Sbjct: 168 LIGTVGSAQKAQRAKKAGAWQVI----NYREENIVERVKEITGGKK 209
>gnl|CDD|234027 TIGR02824, quinone_pig3, putative NAD(P)H quinone oxidoreductase,
PIG3 family. Members of this family are putative
quinone oxidoreductases that belong to the broader
superfamily (modeled by Pfam pfam00107) of
zinc-dependent alcohol (of medium chain length)
dehydrogenases and quinone oxiooreductases. The
alignment shows no motif of conserved Cys residues as
are found in zinc-binding members of the superfamily,
and members are likely to be quinone oxidoreductases
instead. A member of this family in Homo sapiens, PIG3,
is induced by p53 but is otherwise uncharacterized
[Unknown function, Enzymes of unknown specificity].
Length = 325
Score = 41.5 bits (98), Expect = 4e-04
Identities = 30/90 (33%), Positives = 43/90 (47%), Gaps = 6/90 (6%)
Query: 281 ADFCHKLPDHVSLEEGALLEP---LSVGVHACRRAGVTLGSKVLI-TGAGPIGLVTLLTA 336
A +P+ +SL E A L P +V + +R G+ G VLI GA IG + A
Sbjct: 102 AGQVLPVPEGLSLVEAAAL-PETFFTVWSNLFQRGGLKAGETVLIHGGASGIGTTAIQLA 160
Query: 337 RALGASRVVITDILEHKLKTAKEMGADATV 366
+A GA RV T + K + +GAD +
Sbjct: 161 KAFGA-RVFTTAGSDEKCAACEALGADIAI 189
>gnl|CDD|176206 cd08244, MDR_enoyl_red, Possible enoyl reductase. Member
identified as possible enoyl reductase of the MDR
family. 2-enoyl thioester reductase (ETR) catalyzes the
NADPH-dependent dependent conversion of trans-2-enoyl
acyl carrier protein/coenzyme A (ACP/CoA) to
acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the cleft between the
catalytic and coenzyme-binding domains at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding. Candida
tropicalis enoyl thioester reductase (Etr1p) catalyzes
the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 324
Score = 40.8 bits (96), Expect = 8e-04
Identities = 35/125 (28%), Positives = 52/125 (41%), Gaps = 15/125 (12%)
Query: 280 AADFCHKLPDHVSLEEGALLEPLSVGVHAC---RRAGVTLGSKVLITGA-GPIGLVTLLT 335
D H +PD + LE + + G A A +T G VL+T A G +G +LL
Sbjct: 105 DVDSLHPVPDGLDLEAAVAV--VHDGRTALGLLDLATLTPGDVVLVTAAAGGLG--SLLV 160
Query: 336 --ARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKT 393
A+A GA VV K + +GAD V +++ + + E L G
Sbjct: 161 QLAKAAGA-TVVGAAGGPAKTALVRALGADVAV----DYTRPDWPDQVREALGGGGVTVV 215
Query: 394 IDCSG 398
+D G
Sbjct: 216 LDGVG 220
>gnl|CDD|176251 cd08291, ETR_like_1, 2-enoyl thioester reductase (ETR) like
proteins, child 1. 2-enoyl thioester reductase (ETR)
like proteins. ETR catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity has
been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the 2-enoyl
thioester reductase (ETR) like proteins. ETR catalyzes
the NADPH-dependent dependent conversion of
trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA)
to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the cleft between the
catalytic and coenzyme-binding domains at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding. Candida
tropicalis enoyl thioester reductase (Etr1p) catalyzes
the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 324
Score = 40.7 bits (96), Expect = 0.001
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
+ + +P EVL+++ I SD+ +L GQ + P+ G E SG V G
Sbjct: 21 PEPEVPEPGPGEVLIKVEAAPINPSDLGFL-KGQY-GSTKALPVPPGFEGSGTVVAAGGG 78
Query: 139 VKH 141
Sbjct: 79 PLA 81
Score = 29.9 bits (68), Expect = 2.1
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 9 SDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 47
SD+ +L GQ + P+ G E SG V G
Sbjct: 45 SDLGFL-KGQY-GSTKALPVPPGFEGSGTVVAAGGGPLA 81
>gnl|CDD|215442 PLN02827, PLN02827, Alcohol dehydrogenase-like.
Length = 378
Score = 40.7 bits (95), Expect = 0.001
Identities = 46/181 (25%), Positives = 74/181 (40%), Gaps = 33/181 (18%)
Query: 244 CRTCTYCKEGRYNLCRQI------------------------FFCATPPDHGNLSRYYRH 279
C +C +C G+ N+C+ + +CA + S Y
Sbjct: 99 CGSCRHCISGKSNMCQVLGLERKGVMHSDQKTRFSIKGKPVYHYCAV----SSFSEYTVV 154
Query: 280 AADFCHKLPDHVSLEEGALLE-PLSVGVHAC-RRAGVTLGSKVLITGAGPIGLVTLLTAR 337
+ K+ L + LL ++ G+ A A V+ GS V+I G G +GL A+
Sbjct: 155 HSGCAVKVDPLAPLHKICLLSCGVAAGLGAAWNVADVSKGSSVVIFGLGTVGLSVAQGAK 214
Query: 338 ALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTIDCS 397
GAS+++ DI K + AK G T I+ N E I +I+ + G D + +C
Sbjct: 215 LRGASQIIGVDINPEKAEKAKTFG--VTDFINPNDLSEPIQ-QVIKRMTGGGADYSFECV 271
Query: 398 G 398
G
Sbjct: 272 G 272
Score = 34.9 bits (80), Expect = 0.073
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E+ + P E+ +++ +C SD+ + P I GHEASGIV +G
Sbjct: 28 EEVEVSPPQPLEIRIKVVSTSLCRSDLSAWESQALF------PRIFGHEASGIVESIGEG 81
Query: 139 V 139
V
Sbjct: 82 V 82
Score = 31.0 bits (70), Expect = 1.1
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 3 CVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKV 50
+C SD+ + P I GHEASGIV +G V +
Sbjct: 46 STSLCRSDLSAWESQALF------PRIFGHEASGIVESIGEGVTEFEK 87
>gnl|CDD|176200 cd08238, sorbose_phosphate_red, L-sorbose-1-phosphate reductase.
L-sorbose-1-phosphate reductase, a member of the MDR
family, catalyzes the NADPH-dependent conversion of
l-sorbose 1-phosphate to d-glucitol 6-phosphate in the
metabolism of L-sorbose to (also converts d-fructose
1-phosphate to d-mannitol 6-phosphate). The medium
chain dehydrogenases/reductase (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 an
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 = 410
Score = 40.1 bits (94), Expect = 0.002
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 86 PDDHEVLLEMHCVGICGSDVHYLT----HGQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 141
D E+L+ + +C S H ++ + +P+I+GHE +G + KVG K +
Sbjct: 24 IADDEILVRVISDSLCFSTWKLALQGSDHKKVPNDLAKEPVILGHEFAGTILKVGKKWQG 83
Score = 38.2 bits (89), Expect = 0.007
Identities = 26/82 (31%), Positives = 40/82 (48%), Gaps = 19/82 (23%)
Query: 295 EGALLEPLS--VG-VHACR---------RAGVTLGSKVLITG-AGPIGLVTLLTARAL-- 339
E +L+EPLS +G A R G+ G I G AGP+GL+ + A+
Sbjct: 142 EASLVEPLSCVIGAYTANYHLQPGEYRHRMGIKPGGNTAILGGAGPMGLMAI--DYAIHG 199
Query: 340 --GASRVVITDILEHKLKTAKE 359
G S +V+TD+ + +L A+
Sbjct: 200 PIGPSLLVVTDVNDERLARAQR 221
Score = 34.3 bits (79), Expect = 0.093
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 4 VGICGSDVHYLT----HGQIGDFRLSDPMIVGHEASGIVSKVGAKVKH 47
+C S H ++ + +P+I+GHE +G + KVG K +
Sbjct: 36 DSLCFSTWKLALQGSDHKKVPNDLAKEPVILGHEFAGTILKVGKKWQG 83
>gnl|CDD|188164 TIGR01751, crot-CoA-red, crotonyl-CoA reductase. The enzyme
modelled by This model is responsible for the conversion
of crotonyl-CoA reductase to butyryl-CoA. In serine
cycle methylotrophic bacteria this enzyme is involved in
the process of acetyl-CoA to glyoxylate. In other
bacteria the enzyme is used to produce butyrate for
incorporation into polyketides such as tylosin from
Streptomyces fradiae and coronatine from Pseudomonas
syringae.
Length = 398
Score = 39.8 bits (93), Expect = 0.002
Identities = 32/109 (29%), Positives = 46/109 (42%), Gaps = 14/109 (12%)
Query: 271 GNLSRYYRHAADFCHKLPDHVSLEEGALLEPLSVGVHACR----RAGVTL--GSKVLITG 324
G+ + + P H++ EE A P G A R + G VLI G
Sbjct: 140 GSFAEFALVKDYQLMPKPKHLTWEEAAC--PGLTGATAYRQLVGWNPAAVKPGDNVLIWG 197
Query: 325 A-GPIGLVTLLTARALGASRV-VITDILEHKLKTAKEMGADATVLIDRN 371
A G +G ARA G + V V++ K + + +GA+A IDRN
Sbjct: 198 AAGGLGSYATQLARAGGGNPVAVVSS--PEKAEYCRSLGAEAV--IDRN 242
Score = 32.1 bits (73), Expect = 0.52
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 23 RLSDPM-IVGHEASGIVSKVGAKVKHLKV 50
+L P I+G +ASG+V +VG V KV
Sbjct: 73 KLDLPFHIIGSDASGVVWRVGPGVTRWKV 101
Score = 30.5 bits (69), Expect = 1.4
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 117 RLSDPM-IVGHEASGIVSKVGAKVKHLK 143
+L P I+G +ASG+V +VG V K
Sbjct: 73 KLDLPFHIIGSDASGVVWRVGPGVTRWK 100
>gnl|CDD|214966 smart01002, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. Alanine dehydrogenase catalyzes the
NAD-dependent reversible reductive amination of pyruvate
into alanine.
Length = 149
Score = 37.9 bits (89), Expect = 0.003
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 319 KVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKE-MGADATVLIDRNHSLEEI 377
KV++ GAG +GL TA+ LGA V + D+ +L+ + +GA T L + LEE
Sbjct: 22 KVVVIGAGVVGLGAAATAKGLGA-EVTVLDVRPARLRQLESLLGARFTTLYSQAELLEEA 80
>gnl|CDD|166155 PLN02514, PLN02514, cinnamyl-alcohol dehydrogenase.
Length = 357
Score = 38.6 bits (90), Expect = 0.004
Identities = 27/72 (37%), Positives = 39/72 (54%), Gaps = 9/72 (12%)
Query: 86 PDDHEVLLEMHCVGICGSDVHYLTHGQI-GDFRLSD-PMIVGHEASGIVSKVGAKVKHLK 143
P+D V++++ GIC +D+H QI D +S+ PM+ GHE G V +VG+ V
Sbjct: 34 PED--VVIKVIYCGICHTDLH-----QIKNDLGMSNYPMVPGHEVVGEVVEVGSDVSKFT 86
Query: 144 ATRPGGCLVIVG 155
G VIVG
Sbjct: 87 VGDIVGVGVIVG 98
Score = 34.0 bits (78), Expect = 0.12
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 3 CVGICGSDVHYLTHGQI-GDFRLSD-PMIVGHEASGIVSKVGAKVKHLKV 50
GIC +D+H QI D +S+ PM+ GHE G V +VG+ V V
Sbjct: 43 YCGICHTDLH-----QIKNDLGMSNYPMVPGHEVVGEVVEVGSDVSKFTV 87
>gnl|CDD|176645 cd05282, ETR_like, 2-enoyl thioester reductase-like. 2-enoyl
thioester reductase (ETR) catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity has
been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the alcohol
dehydrogenases in this family. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Candida tropicalis enoyl thioester reductase (Etr1p)
catalyzes the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 323
Score = 38.0 bits (89), Expect = 0.005
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 2/66 (3%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
PI P EVL+ M I SD+ ++ G G R P + G+E G+V +VG+
Sbjct: 17 VSLPIPPPGPGEVLVRMLAAPINPSDLITIS-GAYG-SRPPLPAVPGNEGVGVVVEVGSG 74
Query: 139 VKHLKA 144
V L
Sbjct: 75 VSGLLV 80
Score = 33.8 bits (78), Expect = 0.14
Identities = 32/128 (25%), Positives = 48/128 (37%), Gaps = 12/128 (9%)
Query: 280 AADFCHKLPDHVSLEEGALL--EPLSVGVHACRRAGVTLGSKVLITGAGP-IG--LVTLL 334
AD +PD +S E+ A+L PL+ + + G V+ A +G L+ L
Sbjct: 100 PADDLIPVPDSISDEQAAMLYINPLTAWLMLTEYLKLPPGDWVIQNAANSAVGRMLIQLA 159
Query: 335 TARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEEISTHIIELLQGEQPDKTI 394
VV D +L K +GAD V+ L + + E G +
Sbjct: 160 KLLGFKTINVVRRDEQVEEL---KALGADE-VIDSSPEDLAQR---VKEATGGAGARLAL 212
Query: 395 DCSGIEST 402
D G ES
Sbjct: 213 DAVGGESA 220
Score = 29.2 bits (66), Expect = 4.4
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 9 SDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKVDNQTRFVP 58
SD+ ++ G G R P + G+E G+V +VG+ V L V R +P
Sbjct: 41 SDLITIS-GAYG-SRPPLPAVPGNEGVGVVVEVGSGVSGLLVGQ--RVLP 86
>gnl|CDD|177834 PLN02178, PLN02178, cinnamyl-alcohol dehydrogenase.
Length = 375
Score = 38.1 bits (88), Expect = 0.007
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 88 DHEVLLEMHCVGICGSDVHYL-THGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLKATR 146
+++V +++ G+C SD+H + H + P+I GHE GI +KVG V K
Sbjct: 31 ENDVTVKILFCGVCHSDLHTIKNHWGFSRY----PIIPGHEIVGIATKVGKNVTKFKEGD 86
Query: 147 PGGCLVIVGA 156
G VI+G+
Sbjct: 87 RVGVGVIIGS 96
Score = 33.1 bits (75), Expect = 0.28
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 5 GICGSDVHYL-THGQIGDFRLSDPMIVGHEASGIVSKVGAKVKHLK 49
G+C SD+H + H + P+I GHE GI +KVG V K
Sbjct: 42 GVCHSDLHTIKNHWGFSRY----PIIPGHEIVGIATKVGKNVTKFK 83
Score = 32.7 bits (74), Expect = 0.32
Identities = 38/175 (21%), Positives = 71/175 (40%), Gaps = 14/175 (8%)
Query: 214 HAFETAKTGAGNAIKVMIHCDRVAIEPGV---PCRTCTYCKEGRYNLCRQIFFCATPP-- 268
H T G + DRV + GV C++C C + N C ++ F
Sbjct: 66 HEIVGIATKVGKNVTKFKEGDRVGV--GVIIGSCQSCESCNQDLENYCPKVVFTYNSRSS 123
Query: 269 ----DHGNLSRYYRHAADFCHKLPDHVSLEEGALLEPLSVGVHA-CRRAGVT--LGSKVL 321
+ G S F +PD + + GA L + V++ + G+T G ++
Sbjct: 124 DGTRNQGGYSDVIVVDHRFVLSIPDGLPSDSGAPLLCAGITVYSPMKYYGMTKESGKRLG 183
Query: 322 ITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEE 376
+ G G +G + + +A G VI+ E + + +GAD+ ++ + ++E
Sbjct: 184 VNGLGGLGHIAVKIGKAFGLRVTVISRSSEKEREAIDRLGADSFLVTTDSQKMKE 238
>gnl|CDD|176199 cd08237, ribitol-5-phosphate_DH, ribitol-5-phosphate dehydrogenase.
NAD-linked ribitol-5-phosphate dehydrogenase, a member
of the MDR/zinc-dependent alcohol dehydrogenase-like
family, oxidizes the phosphate ester of
ribitol-5-phosphate to xylulose-5-phosphate of the
pentose phosphate pathway. The medium chain
dehydrogenases/reductase (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. Active site zinc has a
catalytic role, while structural zinc aids in stability.
Length = 341
Score = 37.7 bits (88), Expect = 0.007
Identities = 44/155 (28%), Positives = 64/155 (41%), Gaps = 13/155 (8%)
Query: 234 DRVAIEPGVPCRTCTYCKEGRYNLCRQIFFCATPPDHGNLSRYYRHAADFCHKLPDHVSL 293
+V + P P E N F ++ D G + Y D KLPD+V
Sbjct: 82 TKVVMVPNTPVEKDEIIPE---NYLPSSRFRSSGYD-GFMQDYVFLPPDRLVKLPDNVDP 137
Query: 294 EEGALLEPLSVGVHACRRAGVTLGSK---VLITGAGPIGLVT-LLTARALGASRVVITDI 349
E A E +SVGVHA R + + G G +G +T LL + S++V+
Sbjct: 138 EVAAFTELVSVGVHAISRFEQIAHKDRNVIGVWGDGNLGYITALLLKQIYPESKLVV--F 195
Query: 350 LEHKLKTAKEMGADATVLIDRNHSLEEIST-HIIE 383
+H+ K AD T LID E+++ H E
Sbjct: 196 GKHQEKLDLFSFADETYLID--DIPEDLAVDHAFE 228
>gnl|CDD|176235 cd08274, MDR9, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 350
Score = 37.7 bits (88), Expect = 0.007
Identities = 29/86 (33%), Positives = 39/86 (45%), Gaps = 9/86 (10%)
Query: 311 RAGVTLGSKVLITGA-GPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLID 369
RAGV G VL+TGA G +G + A+ GA +VI K + + +GAD I
Sbjct: 172 RAGVGAGETVLVTGASGGVGSALVQLAKRRGA--IVIAVAGAAKEEAVRALGADTV--IL 227
Query: 370 RNHSLEEISTHIIELLQGEQPDKTID 395
R+ L + L GE D D
Sbjct: 228 RDAPLLA----DAKALGGEPVDVVAD 249
>gnl|CDD|176213 cd08251, polyketide_synthase, polyketide synthase. Polyketide
synthases produce polyketides in step by step mechanism
that is similar to fatty acid synthesis. Enoyl reductase
reduces a double to single bond. Erythromycin is one
example of a polyketide generated by 3 complex enzymes
(megasynthases). 2-enoyl thioester reductase (ETR)
catalyzes the NADPH-dependent dependent conversion of
trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA)
to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and 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.
NAD(H)-binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding.
Length = 303
Score = 37.8 bits (88), Expect = 0.007
Identities = 36/119 (30%), Positives = 52/119 (43%), Gaps = 11/119 (9%)
Query: 288 PDHVSLEEGALLEPLSVGV-HACRRAGVTLGSKVLI-TGAGPIGLVTLLTARALGASRVV 345
P +S EE L + + V A RAG+ G +LI T G GL+ + AR GA +
Sbjct: 91 PASLSFEEACALPVVFLTVIDAFARAGLAKGEHILIQTATGGTGLMAVQLARLKGAE-IY 149
Query: 346 ITDILEHKLKTAKEMGADATVLIDRNHSLEEIS--TH------IIELLQGEQPDKTIDC 396
T + KL+ K++G + EEI T +I L GE K ++C
Sbjct: 150 ATASSDDKLEYLKQLGVPHVINYVEEDFEEEIMRLTGGRGVDVVINTLSGEAIQKGLNC 208
Score = 32.8 bits (75), Expect = 0.26
Identities = 16/38 (42%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 121 PMIVGHEASGIVSKVGAKVKHLKATRPGGCLVIVGAGS 158
P G EASG+V VG V L G VI G G
Sbjct: 38 PFTPGFEASGVVRAVGPHVTRLAV----GDEVIAGTGE 71
Score = 30.5 bits (69), Expect = 1.5
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P G EASG+V VG V L V
Sbjct: 38 PFTPGFEASGVVRAVGPHVTRLAV 61
>gnl|CDD|214840 smart00829, PKS_ER, Enoylreductase. Enoylreductase in Polyketide
synthases.
Length = 287
Score = 37.4 bits (88), Expect = 0.010
Identities = 23/69 (33%), Positives = 29/69 (42%), Gaps = 13/69 (18%)
Query: 281 ADFCHKLPDHVSLEEGALLEPLSVGV------HA-CRRAGVTLGSKVLI-TGAGPIGLVT 332
A +PD S EE A +V V +A A + G VLI AG +G
Sbjct: 66 ARLVVPIPDGWSFEEAA-----TVPVVFLTAYYALVDLARLRPGESVLIHAAAGGVGQAA 120
Query: 333 LLTARALGA 341
+ AR LGA
Sbjct: 121 IQLARHLGA 129
Score = 36.2 bits (85), Expect = 0.023
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 23 RLSDPMIVGHEASGIVSKVGAKVKHLKV 50
++G E +G+V++VG V L V
Sbjct: 19 LYPGEAVLGGECAGVVTRVGPGVTGLAV 46
Score = 33.9 bits (79), Expect = 0.11
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 117 RLSDPMIVGHEASGIVSKVGAKVKHLK 143
++G E +G+V++VG V L
Sbjct: 19 LYPGEAVLGGECAGVVTRVGPGVTGLA 45
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 305
Score = 37.0 bits (86), Expect = 0.012
Identities = 27/83 (32%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 287 LPDHVSLEEGALLEPL--SVGVHACRRAGVTLGSKVLITGA-GPIGLVTLLTARALGASR 343
LPD VS + A L P+ + A RR G LG +VL+TGA G +G + A GA
Sbjct: 102 LPDGVSFAQAATL-PVAGVTALRALRRGGPLLGRRVLVTGASGGVGRFAVQLAALAGAHV 160
Query: 344 VVITDILEHKLKTAKEMGADATV 366
V + + A+ V
Sbjct: 161 VAVVGSPARAEGLRELGAAEVVV 183
>gnl|CDD|240631 cd12154, FDH_GDH_like, Formate/glycerate dehydrogenases, D-specific
2-hydroxy acid dehydrogenases and related
dehydrogenases. The formate/glycerate dehydrogenase
like family contains a diverse group of enzymes such as
formate dehydrogenase (FDH), glycerate dehydrogenase
(GDH), D-lactate dehydrogenase, L-alanine dehydrogenase,
and S-Adenosylhomocysteine hydrolase, that share a
common 2-domain structure. Despite often low sequence
identity, these proteins typically have a characteristic
arrangement of 2 similar domains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD(P) binding
domain is inserted within the linear sequence of the
mostly N-terminal catalytic domain. Structurally, these
domains are connected by extended alpha helices and
create a cleft in which NAD(P) is bound, primarily to
the C-terminal portion of the 2nd (internal) domain.
While many members of this family are dimeric, alanine
DH is hexameric and phosphoglycerate DH is tetrameric.
2-hydroxyacid dehydrogenases are enzymes that catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate dehydrogenase (FDH) catalyzes the NAD+-dependent
oxidation of formate ion to carbon dioxide with the
concomitant reduction of NAD+ to NADH. FDHs of this
family contain no metal ions or prosthetic groups.
Catalysis occurs though direct transfer of a hydride ion
to NAD+ without the stages of acid-base catalysis
typically found in related dehydrogenases.
Length = 310
Score = 36.4 bits (84), Expect = 0.022
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 311 RAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDR 370
A G V++ GAG +G R LGA +V+ITDI L+ +E+G ++
Sbjct: 154 GAPDVAGKTVVVVGAGVVGKEAAQMLRGLGA-QVLITDINVEALEQLEELGGKNVEELEE 212
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 328
Score = 36.0 bits (84), Expect = 0.025
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSK 134
LR E P+ P EVL+ + +G+ +D + I L P +G+EA+G+V
Sbjct: 15 LRIEEL-PVPAPGAGEVLIRVEAIGLNRADAMFRRGAYIEPPPL--PARLGYEAAGVVEA 71
Query: 135 VGAKVKHLK 143
VGA V
Sbjct: 72 VGAGVTGFA 80
Score = 30.6 bits (70), Expect = 1.6
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P +G+EA+G+V VGA V V
Sbjct: 58 PARLGYEAAGVVEAVGAGVTGFAV 81
>gnl|CDD|176232 cd08271, MDR5, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 325
Score = 36.1 bits (84), Expect = 0.026
Identities = 44/149 (29%), Positives = 60/149 (40%), Gaps = 23/149 (15%)
Query: 270 HGNLSR------YYRHAADFCHKLPDHVSLEEGA-LLEPLSVGVHA-----CRRAGVTLG 317
H +L+R Y A LPD +S EE A L A AG T
Sbjct: 87 HASLARGGSFAEYTVVDARAVLPLPDSLSFEEAAALPCAGLTAYQALFKKLRIEAGRT-- 144
Query: 318 SKVLITGA-GPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEE 376
+LITG G +G + A+ G VIT + + K +GAD +ID N E+
Sbjct: 145 --ILITGGAGGVGSFAVQLAKRAGL--RVITTCSKRNFEYVKSLGAD--HVIDYND--ED 196
Query: 377 ISTHIIELLQGEQPDKTIDCSGIESTIKL 405
+ I E+ G D +D G E+ L
Sbjct: 197 VCERIKEITGGRGVDAVLDTVGGETAAAL 225
Score = 34.2 bits (79), Expect = 0.10
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 78 REQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGA 137
E+ I P EVL+++H G+ D + G S P + G + +G+V VGA
Sbjct: 17 LEEIEIPGPGAGEVLVKVHAAGLNPVDWKVIAWGPPAW---SYPHVPGVDGAGVVVAVGA 73
Query: 138 KV 139
KV
Sbjct: 74 KV 75
>gnl|CDD|176248 cd08288, MDR_yhdh, Yhdh putative quinone oxidoreductases. Yhdh
putative quinone oxidoreductases (QOR). QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 324
Score = 35.6 bits (83), Expect = 0.035
Identities = 29/107 (27%), Positives = 42/107 (39%), Gaps = 36/107 (33%)
Query: 270 HGNLSRYYRHAADFCHKLPDHVSLEEGALLEPLSVG---------VHACRRAGVTLGS-K 319
G ++ R AD+ LP+ +S + ++G V A GVT G
Sbjct: 95 WGGYAQRARVKADWLVPLPEGLSARQAM-----AIGTAGFTAMLCVMALEDHGVTPGDGP 149
Query: 320 VLITGA-GPIG--LVTLLTA------------------RALGASRVV 345
VL+TGA G +G V LL R+LGAS ++
Sbjct: 150 VLVTGAAGGVGSVAVALLARLGYEVVASTGRPEEADYLRSLGASEII 196
>gnl|CDD|130269 TIGR01202, bchC, 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide
A dehydrogenase. [Biosynthesis of cofactors, prosthetic
groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 308
Score = 35.2 bits (81), Expect = 0.043
Identities = 27/107 (25%), Positives = 46/107 (42%), Gaps = 5/107 (4%)
Query: 127 EASGIVSKVGAKVKHLKATRPGGCLVIVGAGSQDVKIPLVLTMTKEIDIRGVFRYAN-DY 185
+ASG S + V+ L GG +V+ G ++ V V KE +R + D
Sbjct: 206 DASGDPSLIDTLVRRLAK---GGEIVLAGFYTEPVNFDFVPAFMKEARLRIAAEWQPGDL 262
Query: 186 PIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTGAGNAIKVMIH 232
++ SG + + LITH D A+ TA + +K+++
Sbjct: 263 HAVRELIESGALSLDGLITHQRPASDAAEAYMTA-FSDPDCLKMILD 308
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 34.5 bits (80), Expect = 0.068
Identities = 29/106 (27%), Positives = 43/106 (40%), Gaps = 25/106 (23%)
Query: 302 LSVGVH------ACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLK 355
+S G+H G+ G KVL G G + LL A+++G VV DI E L+
Sbjct: 31 MSFGLHRLWRRALISLLGIKPGDKVLDVACG-TGDMALLLAKSVGTGEVVGLDISESMLE 89
Query: 356 TAKEMGADATVLIDRNHSLEEISTHIIELLQG--EQ---PDKTIDC 396
A+E L++ +E + G E PD + D
Sbjct: 90 VARE-------------KLKKKGVQNVEFVVGDAENLPFPDNSFDA 122
>gnl|CDD|176236 cd08275, MDR3, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 337
Score = 33.7 bits (78), Expect = 0.14
Identities = 27/97 (27%), Positives = 37/97 (38%), Gaps = 10/97 (10%)
Query: 280 AADFCHKLPDHVSLEEGALLEPLSVGVHA----CRRAGVTLGSKVLI-TGAGPIGLVTLL 334
AD LPD +S EE A + A + G VL+ + AG +GL
Sbjct: 100 PADQVFPLPDGMSFEEAAAF--PVNYLTAYYALFELGNLRPGQSVLVHSAAGGVGLAAGQ 157
Query: 335 TARALGASRVVITDILEHKLKTAKEMGADATVLIDRN 371
+ + VV T K + KE G T +ID
Sbjct: 158 LCKTVPNVTVVGTAS-ASKHEALKENG--VTHVIDYR 191
Score = 31.8 bits (73), Expect = 0.60
Identities = 21/92 (22%), Positives = 35/92 (38%), Gaps = 2/92 (2%)
Query: 79 EQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMIVGHEASGIVSKVGAK 138
E++ + +P EV + + G+ +D+ G P + G E +G V VG
Sbjct: 17 EKEALPEPSSGEVRVRVEACGLNFADL-MARQGLYDSA-PKPPFVPGFECAGTVEAVGEG 74
Query: 139 VKHLKATRPGGCLVIVGAGSQDVKIPLVLTMT 170
VK K L G ++ V +P
Sbjct: 75 VKDFKVGDRVMGLTRFGGYAEVVNVPADQVFP 106
Score = 30.6 bits (70), Expect = 1.5
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P + G E +G V VG VK KV
Sbjct: 57 PFVPGFECAGTVEAVGEGVKDFKV 80
>gnl|CDD|216396 pfam01262, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. This family now also contains the lysine
2-oxoglutarate reductases.
Length = 150
Score = 32.5 bits (75), Expect = 0.17
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 319 KVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGA-DATVLIDRNHSLEEI 377
KV++ G G +GL TA+ LGA V I D+ +L+ + A I N E +
Sbjct: 22 KVVVIGGGVVGLGAAATAKGLGA-PVTILDVRPERLEQLDSLFAEFVETDIFSNC--EYL 78
Query: 378 STHI 381
+ I
Sbjct: 79 AEAI 82
>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 = 33.0 bits (76), Expect = 0.22
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 11/84 (13%)
Query: 301 PLSVGVHACRRA----GVTLGSKVLITGAGPIGLVTLLTARAL---GASRVVITD-ILEH 352
+S+ A A G G KVL+ GAG +G L A+ L G + + I + E
Sbjct: 158 AVSISSAAVELAEKIFGNLKGKKVLVIGAGEMG---ELAAKHLAAKGVAEITIANRTYER 214
Query: 353 KLKTAKEMGADATVLIDRNHSLEE 376
+ AKE+G +A L + L E
Sbjct: 215 AEELAKELGGNAVPLDELLELLNE 238
>gnl|CDD|221878 pfam12974, Phosphonate-bd, ABC transporter, phosphonate,
periplasmic substrate-binding protein. This is a family
of periplasmic proteins which are part of the transport
system for alkylphosphonate uptake.
Length = 242
Score = 32.6 bits (75), Expect = 0.28
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 164 PLVLTMTKEIDIRGVFRYANDYPIALAMVASGKVDV 199
PL +++E+ + A DY + + SG+VD+
Sbjct: 18 PLADYLSEELGVPVELVVATDYAALIEALRSGRVDI 53
>gnl|CDD|240621 cd01620, Ala_dh_like, Alanine dehydrogenase and related
dehydrogenases. Alanine dehydrogenase/Transhydrogenase,
such as the hexameric L-alanine dehydrogenase of
Phormidium lapideum, contain 2 Rossmann fold-like
domains linked by an alpha helical region. Related
proteins include Saccharopine Dehydrogenase (SDH),
bifunctional lysine ketoglutarate reductase
/saccharopine dehydrogenase enzyme,
N(5)-(carboxyethyl)ornithine synthase, and Rubrum
transdehydrogenase. Alanine dehydrogenase (L-AlaDH)
catalyzes the NAD-dependent conversion of pyrucate to
L-alanine via reductive amination. Transhydrogenases
found in bacterial and inner mitochondrial membranes
link NAD(P)(H)-dependent redox reactions to proton
translocation. The energy of the proton electrochemical
gradient (delta-p), generated by the respiratory
electron transport chain, is consumed by
transhydrogenase in NAD(P)+ reduction. Transhydrogenase
is likely involved in the regulation of the citric acid
cycle. Rubrum transhydrogenase has 3 components, dI,
dII, and dIII. dII spans the membrane while dI and dIII
protrude on the cytoplasmic/matirx side. DI contains 2
domains with Rossmann folds, linked by a long alpha
helix, and contains a NAD binding site. Two dI
polypeptides (represented in this sub-family)
spontaneously form a heterotrimer with one dIII in the
absence of dII. In the heterotrimer, both dI chains may
bind NAD, but only one is well-ordered. dIII also binds
a well-ordered NADP, but in a different orientation than
classical Rossmann domains.
Length = 317
Score = 32.8 bits (75), Expect = 0.31
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 11/81 (13%)
Query: 317 GSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEE 376
+KVLI GAG +GL A+ LGA+ V++ DI E KLK + +G + +E
Sbjct: 162 PAKVLIIGAGVVGLGAAKIAKKLGAN-VLVYDIKEEKLKGVETLGGSRLRYSQKEELEKE 220
Query: 377 ISTHIIELLQGEQPDKTIDCS 397
+ +Q D I+
Sbjct: 221 L----------KQTDILINAI 231
>gnl|CDD|225826 COG3288, PntA, NAD/NADP transhydrogenase alpha subunit [Energy
production and conversion].
Length = 356
Score = 32.7 bits (75), Expect = 0.33
Identities = 23/67 (34%), Positives = 30/67 (44%), Gaps = 1/67 (1%)
Query: 296 GALLEPLSVGVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLK 355
GA L AG +KVL+ GAG GL + TA LGA V D+ K +
Sbjct: 143 GAALAYGRFFPMQITAAGTVSPAKVLVIGAGVAGLAAIATAVRLGA-IVTARDLRMFKKE 201
Query: 356 TAKEMGA 362
+ +GA
Sbjct: 202 QVESLGA 208
>gnl|CDD|176234 cd08273, MDR8, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(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. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. 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.
Length = 331
Score = 32.2 bits (74), Expect = 0.47
Identities = 29/99 (29%), Positives = 37/99 (37%), Gaps = 12/99 (12%)
Query: 280 AADFCHKLPDHVSLEEGALLEPLSVGVHAC----RRAGVTLGSKVLITGA-GPIGLVTLL 334
A + +P+ V E L + V A R A V G +VLI GA G +G L
Sbjct: 101 DAKYLVPVPEGVDAAEAVCL--VLNYVTAYQMLHRAAKVLTGQRVLIHGASGGVGQALLE 158
Query: 335 TARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHS 373
A GA V E +E+GA ID
Sbjct: 159 LALLAGAE--VYGTASERNHAALRELGA---TPIDYRTK 192
>gnl|CDD|176249 cd08289, MDR_yhfp_like, Yhfp putative quinone oxidoreductases.
yhfp putative quinone oxidoreductases (QOR). QOR
catalyzes the conversion of a quinone + NAD(P)H to a
hydroquinone + NAD(P)+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR
actin the respiratory chains of bacteria and
mitochondria, while soluble QOR acts to protect from
toxic quinones (e.g. DT-diaphorase) or as a soluble
eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and 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.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 326
Score = 31.9 bits (73), Expect = 0.50
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 10/79 (12%)
Query: 270 HGNLSRYYRHAADFCHKLPDHVSLEEGALL------EPLSVGVHACRRAGVTL-GSKVLI 322
HG S Y R A++ LP ++L+E +L LS +H G+T VL+
Sbjct: 95 HGGYSEYARVPAEWVVPLPKGLTLKEAMILGTAGFTAALS--IHRLEENGLTPEQGPVLV 152
Query: 323 TGA-GPIGLVTLLTARALG 340
TGA G +G + + LG
Sbjct: 153 TGATGGVGSLAVSILAKLG 171
>gnl|CDD|236720 PRK10577, PRK10577, iron-hydroxamate transporter permease subunit;
Provisional.
Length = 668
Score = 32.1 bits (74), Expect = 0.59
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 302 LSVGVHACRRAGVTLG---SKVLITGAGPI---GLVTLLTARALGASR 343
L + V R A + L S +++ GPI GL AR LGA R
Sbjct: 230 LGLAVSLTRLAALALAVLLSAAVVSAVGPIGFIGLAAPNLARLLGARR 277
>gnl|CDD|223450 COG0373, HemA, Glutamyl-tRNA reductase [Coenzyme metabolism].
Length = 414
Score = 31.8 bits (73), Expect = 0.69
Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 18/91 (19%)
Query: 301 PLSVGVHACRRAGVTLGS----KVLITGAGPIGLVTLLTARAL---GASRVVITD-ILEH 352
+S+ A A GS KVL+ GAG +G L A+ L G ++ I + LE
Sbjct: 158 AVSISSAAVELAKRIFGSLKDKKVLVIGAGEMG---ELVAKHLAEKGVKKITIANRTLER 214
Query: 353 KLKTAKEMGADATVLIDRNHSLEEISTHIIE 383
+ AK++GA+A +LEE+ + E
Sbjct: 215 AEELAKKLGAEA-------VALEELLEALAE 238
>gnl|CDD|176250 cd08290, ETR, 2-enoyl thioester reductase (ETR). 2-enoyl thioester
reductase (ETR) catalyzes the NADPH-dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and 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.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains, at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters in
mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 341
Score = 31.4 bits (72), Expect = 0.70
Identities = 24/87 (27%), Positives = 35/87 (40%), Gaps = 16/87 (18%)
Query: 75 LRFREQKPIEDPDDHEVLLEMHCVGICGSDVHYLTHGQIG-------DFRLSDPMIVGHE 127
L+ + +EVL++M I +D++ QI P + G+E
Sbjct: 16 LQLESYEIPPPGPPNEVLVKMLAAPINPADIN-----QIQGVYPIKPPTTPEPPAVGGNE 70
Query: 128 ASGIVSKVGAKVKHLKATRPGGCLVIV 154
G V KVG+ VK LK G VI
Sbjct: 71 GVGEVVKVGSGVKSLKP----GDWVIP 93
>gnl|CDD|240630 cd05305, L-AlaDH, Alanine dehydrogenase NAD-binding and catalytic
domains. Alanine dehydrogenase (L-AlaDH) catalyzes the
NAD-dependent conversion of pyruvate to L-alanine via
reductive amination. Like formate dehydrogenase and
related enzymes, L-AlaDH is comprised of 2 domains
connected by a long alpha helical stretch, each
resembling a Rossmann fold NAD-binding domain. The
NAD-binding domain is inserted within the linear
sequence of the more divergent catalytic domain. Ligand
binding and active site residues are found in the cleft
between the subdomains. L-AlaDH is typically hexameric
and is critical in carbon and nitrogen metabolism in
micro-organisms.
Length = 359
Score = 31.2 bits (72), Expect = 0.84
Identities = 25/72 (34%), Positives = 33/72 (45%), Gaps = 9/72 (12%)
Query: 313 GVTLG-------SKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKE-MGADA 364
GV LG +KV+I GAG +G A LGA V + DI +L+ + G
Sbjct: 157 GVLLGGVPGVPPAKVVILGAGVVGENAARVALGLGA-EVTVLDINLERLRYLDDIFGGRV 215
Query: 365 TVLIDRNHSLEE 376
T L +LEE
Sbjct: 216 TTLYSNPANLEE 227
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 30.9 bits (71), Expect = 0.87
Identities = 16/44 (36%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 317 GSKVLITGA-GPIGLVTLLTARALGASRVVITDILEHKLKTAKE 359
G L+TGA IG L A GA +VVI D E +
Sbjct: 5 GKTALVTGASRGIGRAIALRLAADGA-KVVIYDSNEEAAEALAA 47
>gnl|CDD|234906 PRK01123, PRK01123, shikimate kinase; Provisional.
Length = 282
Score = 31.0 bits (71), Expect = 0.88
Identities = 27/76 (35%), Positives = 32/76 (42%), Gaps = 16/76 (21%)
Query: 296 GALLEPLSV---GVHACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEH 352
G L+ L + GV A R AGVT +TGA A G V +TD E
Sbjct: 109 GEDLDDLDILRLGVKASRDAGVT------VTGA-----FDDACASYFG--GVTVTDNREM 155
Query: 353 KLKTAKEMGADATVLI 368
KL E+ D VLI
Sbjct: 156 KLLKRDEVELDVLVLI 171
>gnl|CDD|187618 cd05360, SDR_c3, classical (c) SDR, subgroup 3. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 233
Score = 30.8 bits (70), Expect = 0.91
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 320 VLITGAGP-IGLVTLLTARALGASRVVI---TDILEHKLKTAKEMGADATVLI 368
V+ITGA IG T L GA V+ + L + +E+G +A ++
Sbjct: 3 VVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRELGGEAIAVV 55
>gnl|CDD|216527 pfam01488, Shikimate_DH, Shikimate / quinate 5-dehydrogenase. This
family contains both shikimate and quinate
dehydrogenases. Shikimate 5-dehydrogenase catalyzes 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 catalyzes 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 = 133
Score = 30.0 bits (68), Expect = 1.0
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 6/77 (7%)
Query: 308 ACRRAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITD-ILEHKLKTAKEMGADATV 366
A + G G KVL+ GAG + + + GA ++ I + LE + A+E
Sbjct: 3 AKKIFGDLKGKKVLLIGAGEMARLAAKHLLSKGAKKITIANRTLEKAKELAEEFPVGGEA 62
Query: 367 LIDRNHSLEEISTHIIE 383
L L+E+ + E
Sbjct: 63 L-----PLDELEELLAE 74
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 30.7 bits (70), Expect = 1.1
Identities = 17/42 (40%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 320 VLITGAGP-IGLVTLLTARALGASRVVITDILEHKLKTAKEM 360
VLITG G IG + L GA VVI DI E +
Sbjct: 2 VLITGGGSGIGRLLALEFAKRGAK-VVILDINEKGAEETANN 42
>gnl|CDD|235181 PRK03958, PRK03958, tRNA 2'-O-methylase; Reviewed.
Length = 176
Score = 30.3 bits (69), Expect = 1.2
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 334 LTARALGASRVVITDILEH 352
LTARALGA ++++ EH
Sbjct: 24 LTARALGADKIILASNDEH 42
>gnl|CDD|234026 TIGR02823, oxido_YhdH, putative quinone oxidoreductase, YhdH/YhfP
family. This model represents a subfamily of pfam00107
as defined by Pfam, a superfamily in which some members
are zinc-binding medium-chain alcohol dehydrogenases
while others are quinone oxidoreductases with no bound
zinc. This subfamily includes proteins studied
crystallographically for insight into function: YhdH
from Escherichia coli and YhfP from Bacillus subtilis.
Members bind NADPH or NAD, but not zinc [Unknown
function, Enzymes of unknown specificity].
Length = 323
Score = 30.6 bits (70), Expect = 1.5
Identities = 35/114 (30%), Positives = 46/114 (40%), Gaps = 30/114 (26%)
Query: 270 HGNLSRYYRHAADFCHKLPDHVSLEEGALL------EPLSVGVHACRRAGVTLGS-KVLI 322
G S+Y R AD+ LP+ +SL E L LS V A R G+T VL+
Sbjct: 94 DGGYSQYARVPADWLVPLPEGLSLREAMALGTAGFTAALS--VMALERNGLTPEDGPVLV 151
Query: 323 TGA----GPIGL---------VTLLTARA--------LGASRVVITDILEHKLK 355
TGA G + + V T +A LGAS V+ + L K
Sbjct: 152 TGATGGVGSLAVAILSKLGYEVVASTGKAEEEDYLKELGASEVIDREDLSPPGK 205
>gnl|CDD|188533 TIGR04018, Bthiol_YpdA, putative bacillithiol system
oxidoreductase, YpdA family. Members of this protein
family, including YpdA from Bacillus subtilis, are
apparent oxidoreductases present only in species with an
active bacillithiol system. They have been suggested
actually to be thiol disulfide oxidoreductases (TDOR),
although the evidence is incomplete [Unknown function,
Enzymes of unknown specificity].
Length = 316
Score = 30.2 bits (69), Expect = 1.7
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 319 KVLITGAGPIGLVTLLTARALGASRVVI 346
V+I GAGP GL + A+ G S ++I
Sbjct: 1 DVIIIGAGPCGLACAIEAQKAGLSYLII 28
>gnl|CDD|233382 TIGR01372, soxA, sarcosine oxidase, alpha subunit family,
heterotetrameric form. This model describes the alpha
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason.Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms [Energy metabolism, Amino acids and amines].
Length = 985
Score = 30.5 bits (69), Expect = 1.8
Identities = 15/29 (51%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 320 VLITGAGPIGLVTLLTARALGASRVVITD 348
VL+ GAGP GL L A GA RV++ D
Sbjct: 166 VLVVGAGPAGLAAALAAARAGA-RVILVD 193
>gnl|CDD|216121 pfam00790, VHS, VHS domain. Domain present in VPS-27, Hrs and
STAM.
Length = 136
Score = 29.2 bits (66), Expect = 1.8
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 10/68 (14%)
Query: 81 KPIEDPDDHEVLLEMH----CVGICGSDVHYLTHGQIGDFRLSDPMI--VGHEASGIVSK 134
K I P+ H LL + CV CGS H +I + ++ + ++ G +K
Sbjct: 45 KRINSPNPHVALLALTLLDACVKNCGSKFHL----EIASKEFLNELVKLIPNKPYGKPAK 100
Query: 135 VGAKVKHL 142
V K+ L
Sbjct: 101 VKKKILEL 108
>gnl|CDD|235711 PRK06136, PRK06136, uroporphyrin-III C-methyltransferase; Reviewed.
Length = 249
Score = 29.8 bits (68), Expect = 2.0
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 8/43 (18%)
Query: 318 SKVLITGAGP--IGLVTLLTARALGASRVVITD------ILEH 352
KV + GAGP L+TL R L + VV+ D IL +
Sbjct: 3 GKVYLVGAGPGDPDLITLKGVRLLEQADVVLYDDLVSPEILAY 45
>gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 450
Score = 30.3 bits (69), Expect = 2.1
Identities = 25/79 (31%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 317 GSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHSLEE 376
G KVL+ GAG GL + LGA +V++TD K ++ LEE
Sbjct: 5 GKKVLVVGAGVSGLALAKFLKKLGA-KVILTDE-----KEEDQLKEA----------LEE 48
Query: 377 ISTHIIELLQGEQPDKTID 395
+ IEL+ GE P++ ++
Sbjct: 49 LGELGIELVLGEYPEEFLE 67
>gnl|CDD|233426 TIGR01469, cobA_cysG_Cterm, uroporphyrin-III C-methyltransferase.
This model represents enzymes, or enzyme domains, with
uroporphyrin-III C-methyltransferase activity. This
enzyme catalyzes the first step committed to the
biosynthesis of either siroheme or cobalamin (vitamin
B12) rather than protoheme (heme). Cobalamin contains
cobalt while siroheme contains iron. Siroheme is a
cofactor for nitrite and sulfite reductases and
therefore plays a role in cysteine biosynthesis; many
members of this family are CysG, siroheme synthase, with
an additional N-terminal domain and with additional
oxidation and iron insertion activities [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 236
Score = 29.9 bits (68), Expect = 2.3
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 319 KVLITGAGP--IGLVTLLTARALGASRVVITDIL 350
KV + GAGP L+TL R L + VV+ D L
Sbjct: 1 KVYLVGAGPGDPELLTLKALRLLQEADVVLYDAL 34
>gnl|CDD|176252 cd08292, ETR_like_2, 2-enoyl thioester reductase (ETR) like
proteins, child 2. 2-enoyl thioester reductase (ETR)
like proteins. ETR catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity
has been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the 2-enoyl
thioester reductase (ETR) like proteins. ETR catalyzes
the NADPH-dependent dependent conversion of
trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA)
to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is
comprised of 2 structurally similar halves, each of
which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
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. NAD(H) binding
occurs in the cleft between the catalytic and
coenzyme-binding domains, at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters
in mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 324
Score = 30.0 bits (68), Expect = 2.3
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P I G EA G+V VG VK L+V
Sbjct: 59 PAIGGSEAVGVVDAVGEGVKGLQV 82
>gnl|CDD|214497 smart00062, PBPb, Bacterial periplasmic substrate-binding proteins.
bacterial proteins, eukaryotic ones are in PBPe.
Length = 219
Score = 29.6 bits (67), Expect = 2.5
Identities = 17/89 (19%), Positives = 32/89 (35%), Gaps = 20/89 (22%)
Query: 116 FRLSDP-MIVGHEASGIVSKVGA---KVKHLKATRPGGCLVIVGAGS-QDVKIPLVLTMT 170
SDP G I+ + + ++ LK + V V AG+ + +
Sbjct: 77 VDFSDPYYRSGQ---VILVRKDSPIKSLEDLKGKK-----VAVVAGTTAEELL------- 121
Query: 171 KEIDIRGVFRYANDYPIALAMVASGKVDV 199
K++ + ALA + +G+ D
Sbjct: 122 KKLYPEAKIVSYDSNAEALAALKAGRADA 150
>gnl|CDD|170080 PRK09754, PRK09754, phenylpropionate dioxygenase ferredoxin
reductase subunit; Provisional.
Length = 396
Score = 29.9 bits (67), Expect = 2.6
Identities = 12/36 (33%), Positives = 15/36 (41%)
Query: 311 RAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI 346
R + V+I GAG IGL +A VI
Sbjct: 138 REVLQPERSVVIVGAGTIGLELAASATQRRCKVTVI 173
>gnl|CDD|236507 PRK09424, pntA, NAD(P) transhydrogenase subunit alpha; Provisional.
Length = 509
Score = 29.8 bits (68), Expect = 2.9
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 319 KVLITGAGPIGLVTLLTARALGA 341
KVL+ GAG GL + A +LGA
Sbjct: 167 KVLVIGAGVAGLAAIGAAGSLGA 189
>gnl|CDD|181371 PRK08306, PRK08306, dipicolinate synthase subunit A; Reviewed.
Length = 296
Score = 29.4 bits (67), Expect = 3.0
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 11/69 (15%)
Query: 295 EGALLEPLSVGVHACRRAGVTL-GSKVLITGAGPIGLVTLLTARALGAS-RVVITDILEH 352
EGA++ A +T+ GS VL+ G G G+ T +ALGA+ V H
Sbjct: 136 EGAIMM-------AIEHTPITIHGSNVLVLGFGRTGMTLARTLKALGANVTVGARKS-AH 187
Query: 353 KLKTAKEMG 361
L EMG
Sbjct: 188 -LARITEMG 195
>gnl|CDD|163679 cd07941, DRE_TIM_LeuA3, Desulfobacterium autotrophicum LeuA3 and
related proteins, N-terminal catalytic TIM barrel
domain. Desulfobacterium autotrophicum LeuA3 is
sequence-similar to alpha-isopropylmalate synthase
(LeuA) but its exact function is unknown. Members of
this family have an N-terminal TIM barrel domain that
belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 273
Score = 29.3 bits (67), Expect = 3.1
Identities = 17/39 (43%), Positives = 19/39 (48%), Gaps = 5/39 (12%)
Query: 354 LKTAKEMGADATVLIDRN-----HSLEEISTHIIELLQG 387
LK A E GAD VL D N H + EI + E L G
Sbjct: 157 LKAAAEAGADWLVLCDTNGGTLPHEIAEIVKEVRERLPG 195
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 29.5 bits (66), Expect = 3.2
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 311 RAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVI 346
+ G V++ GAGPIGL A G +I
Sbjct: 130 KGGAEPPKDVVVVGAGPIGLEAAEAAAKRGKKVTLI 165
>gnl|CDD|223086 COG0007, CysG, Uroporphyrinogen-III methylase [Coenzyme
metabolism].
Length = 244
Score = 29.1 bits (66), Expect = 3.2
Identities = 17/34 (50%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 319 KVLITGAGP--IGLVTLLTARALGASRVVITDIL 350
KV + GAGP GL+TL RAL + VV+ D L
Sbjct: 5 KVYLVGAGPGDPGLLTLRALRALQEADVVLYDRL 38
>gnl|CDD|176210 cd08248, RTN4I1, Human Reticulon 4 Interacting Protein 1. Human
Reticulon 4 Interacting Protein 1 is a member of the
medium chain dehydrogenase/ reductase (MDR) family.
Riticulons are endoplasmic reticulum associated
proteins involved in membrane trafficking and
neuroendocrine secretion. The 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.
Length = 350
Score = 29.5 bits (67), Expect = 3.3
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 27 PMIVGHEASGIVSKVGAKVKHLKV 50
P+ +G + SG+V +G+ VK ++
Sbjct: 74 PLTLGRDCSGVVVDIGSGVKSFEI 97
Score = 28.3 bits (64), Expect = 8.3
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 121 PMIVGHEASGIVSKVGAKVKHLK 143
P+ +G + SG+V +G+ VK +
Sbjct: 74 PLTLGRDCSGVVVDIGSGVKSFE 96
>gnl|CDD|240636 cd12159, 2-Hacid_dh_2, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 303
Score = 29.5 bits (67), Expect = 3.4
Identities = 21/59 (35%), Positives = 24/59 (40%), Gaps = 10/59 (16%)
Query: 317 GSKVLITGAGPIG--LVTLLTARALGASRVVITDILEHKLKTAKEMGADATVLIDRNHS 373
GS V I GAG IG L+ LL GA + + GAD TV DR
Sbjct: 125 GSTVAIVGAGGIGRALIPLL--APFGAKVIAVN------RSGRPVEGADETVPADRLDE 175
>gnl|CDD|234265 TIGR03570, NeuD_NnaD, sugar O-acyltransferase, sialic acid
O-acetyltransferase NeuD family. This family of
proteins includes the characterized NeuD sialic acid
O-acetyltransferase enzymes from E. coli and
Streptococcus agalactiae (group B strep). These two are
quite closely related to one another, so extension of
this annotation to other members of the family in
unsupported without additional independent evidence. The
neuD gene is often observed in close proximity to the
neuABC genes for the biosynthesis of
CMP-N-acetylneuraminic acid (CMP-sialic acid), and NeuD
sequences from these organisms were used to construct
the seed for this model. Nevertheless, there are
numerous instances of sequences identified by this model
which are observed in a different genomic context
(although almost universally in exopolysaccharide
biosynthesis-related loci), as well as in genomes for
which the biosynthesis of sialic acid (SA) is
undemonstrated. Even in the cases where the association
with SA biosynthesis is strong, it is unclear in the
literature whether the biological substrate is SA
iteself, CMP-SA, or a polymer containing SA. Similarly,
it is unclear to what extent the enzyme has a preference
for acetylation at the 7, 8 or 9 positions. In the
absence of evidence of association with SA, members of
this family may be involved with the acetylation of
differring sugar substrates, or possibly the delivery of
alternative acyl groups. The closest related sequences
to this family (and those used to root the phylogenetic
tree constructed to create this model) are believed to
be succinyltransferases involved in lysine biosynthesis.
These proteins contain repeats of the bacterial
transferase hexapeptide (pfam00132), although often
these do not register above the trusted cutoff.
Length = 193
Score = 29.0 bits (66), Expect = 3.7
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 11/50 (22%)
Query: 282 DFCHKLPD-----HVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAG 326
D+ H P V + EG +G A GVT+G+ ++ GAG
Sbjct: 131 DYVHIAPGVTLSGGVVIGEGVF-----IGAGATIIQGVTIGAGAVV-GAG 174
>gnl|CDD|240629 cd05304, Rubrum_tdh, Rubrum transdehydrogenase NAD-binding and
catalytic domains. Transhydrogenases found in bacterial
and inner mitochondrial membranes link
NAD(P)(H)-dependent redox reactions to proton
translocation. The energy of the proton electrochemical
gradient (delta-p), generated by the respiratory
electron transport chain, is consumed by
transhydrogenase in NAD(P)+ reduction. Transhydrogenase
is likely involved in the regulation of the citric acid
cycle. Rubrum transhydrogenase has 3 components, dI,
dII, and dIII. dII spans the membrane while dI and dIII
protrude on the cytoplasmic/matrix side. DI contains 2
domains in Rossmann-like folds, linked by a long alpha
helix, and contains a NAD binding site. Two dI
polypeptides (represented in this sub-family)
spontaneously form a heterotrimer with dIII in the
absence of dII. In the heterotrimer, both dI chains may
bind NAD, but only one is well-ordered. dIII also binds
a well-ordered NADP, but in a different orientation than
a classical Rossmann domain.
Length = 363
Score = 29.3 bits (67), Expect = 4.2
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 9/49 (18%)
Query: 318 SKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKE----MGA 362
+KVL+ GAG GL + TA+ LGA V D+ AKE +GA
Sbjct: 167 AKVLVIGAGVAGLQAIATAKRLGA-VVEAFDV----RPAAKEQVESLGA 210
>gnl|CDD|237200 PRK12778, PRK12778, putative bifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta;
Provisional.
Length = 752
Score = 29.3 bits (66), Expect = 4.2
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 314 VTLGSKVLITGAGPIGLVTLLTARALGASRVVI 346
+ G KV + G G + + TA+ LGA RV I
Sbjct: 567 IKFGKKVAVVGGGNTAMDSARTAKRLGAERVTI 599
>gnl|CDD|176214 cd08252, AL_MDR, Arginate lyase and other MDR family members. This
group contains a structure identified as an arginate
lyase. Other members are identified quinone reductases,
alginate lyases, and other proteins related to the
zinc-dependent dehydrogenases/reductases. QOR catalyzes
the conversion of a quinone and NAD(P)H to a
hydroquinone and NAD(P+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR acts
in the respiratory chains of bacteria and mitochondria,
while soluble QOR acts to protect from toxic quinones
(e.g. DT-diaphorase) or as a soluble eye-lens protein in
some vertebrates (e.g. zeta-crystalin). QOR reduces
quinones through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and 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. NAD(H) binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 336
Score = 29.0 bits (66), Expect = 4.2
Identities = 25/95 (26%), Positives = 36/95 (37%), Gaps = 26/95 (27%)
Query: 77 FREQKPIEDPD-------------DHEVLLEMHCVGICGSDVHYLTHGQIGDFRLSDPMI 123
F + PI DPD ++L+ + V + D G P I
Sbjct: 6 FTQPLPITDPDSLIDIELPKPVPGGRDLLVRVEAVSVNPVDTKVRAGGAPV---PGQPKI 62
Query: 124 VGHEASGIVSKVGAKVKHLKA----------TRPG 148
+G +ASG+V VG++V K TRPG
Sbjct: 63 LGWDASGVVEAVGSEVTLFKVGDEVYYAGDITRPG 97
Score = 28.3 bits (64), Expect = 8.8
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 24 LSDPMIVGHEASGIVSKVGAKVKHLKV 50
P I+G +ASG+V VG++V KV
Sbjct: 57 PGQPKILGWDASGVVEAVGSEVTLFKV 83
>gnl|CDD|219686 pfam07992, Pyr_redox_2, 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 = 283
Score = 28.9 bits (65), Expect = 5.3
Identities = 17/78 (21%), Positives = 25/78 (32%), Gaps = 7/78 (8%)
Query: 319 KVLITGAGPIGLVTLLTARALGASRVVITDILEHKL-------KTAKEMGADATVLIDRN 371
V+I G GP GL + LG +I K E+ + I
Sbjct: 1 DVVIIGGGPAGLAAAIRLARLGLKVALIEREGGTCYNRGCLPKKLLLEVAEGLELAIGLA 60
Query: 372 HSLEEISTHIIELLQGEQ 389
E +E+L G +
Sbjct: 61 LPEEVYKEFGVEVLLGTE 78
Score = 28.1 bits (63), Expect = 7.7
Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 5/81 (6%)
Query: 305 GVHACR--RAGVTLGSKVLITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGA 362
GV + L +V++ G G IGL LG V + + + L A+
Sbjct: 128 GVIDSDEILELLELPKRVVVVGGGYIGLELAAALAKLG-KEVTVVERRDRLL--ARADDE 184
Query: 363 DATVLIDRNHSLEEISTHIIE 383
+ L+++ L T ++
Sbjct: 185 ISAALLEKLEKLLLGVTVLLV 205
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and related
FAD-dependent oxidoreductases [Coenzyme metabolism /
Energy production and conversion].
Length = 387
Score = 28.9 bits (65), Expect = 5.3
Identities = 16/46 (34%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 319 KVLITGAGPIGLVTLLTARALGAS--RVVITDILEHKLKTAKEMGA 362
V I GAGP G L A AL + V +LE + E G
Sbjct: 4 DVAIVGAGPAG---LALALALARAGLDVT---LLERAPRELLERGR 43
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 28.5 bits (64), Expect = 5.8
Identities = 22/56 (39%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 313 GVTLGSKVLIT---GAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGADAT 365
G+ G VL+T G G IG T A GA RVVI+DI E +L + A
Sbjct: 13 GLLAGKVVLVTAAAGTG-IGSATARRALEEGA-RVVISDIHERRLGETADELAAEL 66
>gnl|CDD|100050 cd03360, LbH_AT_putative, Putative Acyltransferase (AT),
Left-handed parallel beta-Helix (LbH) domain; This group
is composed of mostly uncharacterized proteins
containing an N-terminal helical subdomain followed by a
LbH domain. The alignment contains 6 turns, each
containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).
Proteins containing hexapeptide repeats are often
enzymes showing acyltransferase activity. A few members
are identified as NeuD, a sialic acid (Sia)
O-acetyltransferase that is required for Sia synthesis
and surface polysaccharide sialylation.
Length = 197
Score = 28.2 bits (64), Expect = 6.1
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 11/50 (22%)
Query: 282 DFCH-----KLPDHVSLEEGALLEPLSVGVHACRRAGVTLGSKVLITGAG 326
DF H L V++ EGA +G A GVT+G+ +I GAG
Sbjct: 137 DFVHIAPGVVLSGGVTIGEGAF-----IGAGATIIQGVTIGAGAII-GAG 180
>gnl|CDD|226364 COG3845, COG3845, ABC-type uncharacterized transport systems,
ATPase components [General function prediction only].
Length = 501
Score = 28.7 bits (65), Expect = 6.2
Identities = 12/38 (31%), Positives = 15/38 (39%), Gaps = 4/38 (10%)
Query: 330 LVTLLTARALGASRVVITDILEHKLKTAKEMGADATVL 367
L A G + + IT HKLK + TVL
Sbjct: 180 FEILRRLAAEGKTIIFIT----HKLKEVMAIADRVTVL 213
>gnl|CDD|178232 PLN02625, PLN02625, uroporphyrin-III C-methyltransferase.
Length = 263
Score = 28.4 bits (64), Expect = 6.6
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 319 KVLITGAGP--IGLVTLLTARALGASRVVITDIL 350
V + G GP L+TL R L + VV+ D L
Sbjct: 16 NVFLVGTGPGDPDLLTLKALRLLQTADVVLYDRL 49
>gnl|CDD|130050 TIGR00977, LeuA_rel, 2-isopropylmalate synthase/homocitrate
synthase family protein. This model represents
uncharacterized proteins related to 2-isopropylmalate
synthases and homocitrate synthases but phylogenetically
distint. Each species represented in the seed alignment
also has a member of a known family of 2-isopropylmalate
synthases [Unknown function, General].
Length = 526
Score = 28.7 bits (64), Expect = 6.7
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 354 LKTAKEMGADATVLIDRN-----HSLEEISTHIIELLQGEQ 389
L TA++ GAD VL D N H + EI+T + L+ Q
Sbjct: 160 LATAQQAGADWLVLCDTNGGTLPHEISEITTKVKRSLKQPQ 200
>gnl|CDD|163687 cd08056, MPN_PRP8, Mpr1p, Pad1p N-terminal (MPN) domains without
isopeptidase activity found in splicing factor Prp8.
Members of this family are found in pre-mRNA-processing
factor 8 (Prp8) which is a critical splicing factor,
interacting with several other spliceosomal proteins,
snRNAs, and the pre-mRNA, thus organizing and
stabilizing the spliceosome catalytic core. Prp8 is one
of the largest and most highly conserved of nuclear
proteins, occupying a central position in the catalytic
core of the spliceosome. Its C-terminal domain exhibits
a JAB1/MPN-like core similar to deubiquitinating
enzymes, but does not show catalytic isopeptidase
activity, possibly because the putative isopeptidase
center is covered by insertions and terminal appendices
that are grafted onto this core, thus impairing the
metal binding site. It is proposed that this domain is a
protein interaction domain instead of a Zn(2+)-dependent
metalloenzyme as proposed for some MPN proteins. The
DEAD-box protein Brr2 and the GTPase Snu114 bind to the
Prp8 C-terminus, a region where mutations in human Prp8
(hPrp8) cause a severe form of the genetic disorder
retinitis pigmentosa, RP13, which leads to progressive
photoreceptor degeneration in the retina and eventual
blindness. At the N-terminus of Prp8, there are several
domains, including a highly variable nuclear
localization signal (NLS) motif rich in prolines, a
conserved RNA recognition motif (RRM), and U5 and U6
snRNA binding sites.
Length = 252
Score = 28.4 bits (64), Expect = 6.8
Identities = 11/36 (30%), Positives = 13/36 (36%), Gaps = 8/36 (22%)
Query: 267 PPDHGNLSRYYRHAADFCHKLPDHVSLEEGALLEPL 302
P G +LP H LE+ LEPL
Sbjct: 82 VPQLGT-----HQTVTLPQQLPQHEYLED---LEPL 109
>gnl|CDD|184931 PRK14967, PRK14967, putative methyltransferase; Provisional.
Length = 223
Score = 28.1 bits (63), Expect = 6.9
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 306 VHACRRAGVTLGSKV--LITGAGPIGLVTLLTARALGASRVVITDILEHKLKTAKEMGAD 363
A G+ G +V L TG+G + A A GA V DI +++A+
Sbjct: 26 ADALAAEGLGPGRRVLDLCTGSG----ALAVAAAAAGAGSVTAVDISRRAVRSARLNALL 81
Query: 364 ATVLID 369
A V +D
Sbjct: 82 AGVDVD 87
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 375
Score = 28.1 bits (63), Expect = 8.0
Identities = 17/64 (26%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 289 DHVSLEEGAL----LEPLSVGVHACRRAGVTLGSKVLITGA-GPIGLVTLLTARALGASR 343
D ++L G L A L LITG G +GL+ A GA
Sbjct: 118 DELALRGGQRLVPRLVRAPAAALELAAAPGGLDGTYLITGGLGGLGLLVARWLAARGARH 177
Query: 344 VVIT 347
+V+
Sbjct: 178 LVLL 181
>gnl|CDD|212501 cd11642, SUMT, Uroporphyrin-III C-methyltransferase
(S-Adenosyl-L-methionine:uroporphyrinogen III
methyltransferase, SUMT). SUMT, an enzyme of the
cobalamin and siroheme biosynthetic pathway, catalyzes
the transformation of uroporphyrinogen III into
precorrin-2. It transfers two methyl groups from
S-adenosyl-L-methionine to the C-2 and C-7 atoms of
uroporphyrinogen III to yield precorrin-2 via the
intermediate formation of precorrin-1. SUMT is the first
enzyme committed to the biosynthesis of siroheme or
cobalamin (vitamin B12), and precorrin-2 is a common
intermediate in the biosynthesis of corrinoids such as
vitamin B12, siroheme and coenzyme F430. In some
organisms, the SUMT domain is fused to the precorrin-2
oxidase/ferrochelatase domain to form siroheme synthase
or to uroporphyrinogen-III synthase to form bifunctional
uroporphyrinogen-III methylase/uroporphyrinogen-III
synthase.
Length = 233
Score = 27.8 bits (63), Expect = 8.4
Identities = 26/83 (31%), Positives = 36/83 (43%), Gaps = 23/83 (27%)
Query: 319 KVLITGAGP--IGLVTLLTARALGASRVVITD------ILEHKLKTAKEMGADATVLID- 369
KV + GAGP L+TL R L + VV+ D IL+ A+ LI
Sbjct: 1 KVYLVGAGPGDPELLTLKALRLLQEADVVLYDRLVSPEILDLAPPDAE--------LIYV 52
Query: 370 ----RNHSL--EEISTHIIELLQ 386
HSL EEI+ ++E +
Sbjct: 53 GKRPGKHSLPQEEINELLVEYAR 75
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 27.7 bits (62), Expect = 8.6
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 321 LITGAGPIGLVTLLTARALGASRVVITD 348
L+ GAG G+ LG + V+I D
Sbjct: 1 LVVGAGAAGMAFADHLLDLGDAPVIIVD 28
>gnl|CDD|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like. The
Rop (Rho-related protein from plants) subfamily plays a
role in diverse cellular processes, including
cytoskeletal organization, pollen and vegetative cell
growth, hormone responses, stress responses, and
pathogen resistance. Rops are able to regulate several
downstream pathways to amplify a specific signal by
acting as master switches early in the signaling
cascade. They transmit a variety of extracellular and
intracellular signals. Rops are involved in establishing
cell polarity in root-hair development, root-hair
elongation, pollen-tube growth, cell-shape formation,
responses to hormones such as abscisic acid (ABA) and
auxin, responses to abiotic stresses such as oxygen
deprivation, and disease resistance and disease
susceptibility. An individual Rop can have a unique
function or an overlapping function shared with other
Rop proteins; in addition, a given Rop-regulated
function can be controlled by one or multiple Rop
proteins. For example, Rop1, Rop3, and Rop5 are all
involved in pollen-tube growth; Rop2 plays a role in
response to low-oxygen environments, cell-morphology,
and root-hair development; root-hair development is also
regulated by Rop4 and Rop6; Rop6 is also responsible for
ABA response, and ABA response is also regulated by
Rop10. Plants retain some of the regulatory mechanisms
that are shared by other members of the Rho family, but
have also developed a number of unique modes for
regulating Rops. Unique RhoGEFs have been identified
that are exclusively active toward Rop proteins, such as
those containing the domain PRONE (plant-specific Rop
nucleotide exchanger). Most Rho proteins contain a lipid
modification site at the C-terminus, with a typical
sequence motif CaaX, where a = an aliphatic amino acid
and X = any amino acid. Lipid binding is essential for
membrane attachment, a key feature of most Rho proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 173
Score = 27.5 bits (61), Expect = 8.6
Identities = 18/69 (26%), Positives = 36/69 (52%), Gaps = 1/69 (1%)
Query: 163 IPLVLTMTKEIDIRGVFRYANDYPIALAMVASGKVDVKKLITHNYLLEDTLHAFETAKTG 222
+P+VL TK +D+R ++ D+P A+ + + +++K I +E + + K
Sbjct: 106 VPIVLVGTK-LDLRDDKQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAV 164
Query: 223 AGNAIKVMI 231
AIKV++
Sbjct: 165 FDAAIKVVL 173
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.140 0.424
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,902,155
Number of extensions: 2082685
Number of successful extensions: 2979
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2724
Number of HSP's successfully gapped: 437
Length of query: 408
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 309
Effective length of database: 6,546,556
Effective search space: 2022885804
Effective search space used: 2022885804
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (26.7 bits)