RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12355
(112 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 = 145 bits (368), Expect = 5e-44
Identities = 51/101 (50%), Positives = 68/101 (67%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDALEMV 68
G E+C+ I T+ GG ++LVGMG V++PL A +EIDI FRY N YP A+E++
Sbjct: 243 GAESCIQTAIYATRPGGTVVLVGMGKPEVTLPLSAASLREIDIRGVFRYANTYPTAIELL 302
Query: 69 ASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMIHC 109
ASGK V+ LITH F LE+AVEAF+TA+K IK++I
Sbjct: 303 ASGKVDVKPLITHRFPLEDAVEAFETAAKGKKGVIKVVIEG 343
>gnl|CDD|215378 PLN02702, PLN02702, L-idonate 5-dehydrogenase.
Length = 364
Score = 91.0 bits (226), Expect = 5e-23
Identities = 43/104 (41%), Positives = 63/104 (60%), Gaps = 3/104 (2%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDA 64
D +G ++ + T+ GGK+ LVGMG ++VPL A A+E+D++ FRY N +P
Sbjct: 259 FDCVGFNKTMSTALEATRAGGKVCLVGMGHNEMTVPLTPAAAREVDVVGVFRYRNTWPLC 318
Query: 65 LEMVASGKCPVRKLITHNFKL--EEAVEAFKTASKKADDTIKIM 106
LE + SGK V+ LITH F +E EAF+T S + + IK+M
Sbjct: 319 LEFLRSGKIDVKPLITHRFGFSQKEVEEAFET-SARGGNAIKVM 361
>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 = 79.6 bits (197), Expect = 5e-19
Identities = 38/101 (37%), Positives = 58/101 (57%), Gaps = 5/101 (4%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDALEMV 68
G L + V + GG ++ VGM V +PL AKE+D+ FR+ +++ +A+ ++
Sbjct: 240 GAPAALASALRVVRPGGTVVQVGMLGGPVPLPLNALVAKELDLRGSFRFDDEFAEAVRLL 299
Query: 69 ASGKCPVRKLITHNFKLEEAVEAFKTASKKADDT--IKIMI 107
A+G+ VR LIT F LEEA EAF A AD T +K+ +
Sbjct: 300 AAGRIDVRPLITAVFPLEEAAEAFALA---ADRTRSVKVQL 337
>gnl|CDD|223991 COG1063, Tdh, Threonine dehydrogenase and related Zn-dependent
dehydrogenases [Amino acid transport and metabolism /
General function prediction only].
Length = 350
Score = 72.4 bits (178), Expect = 2e-16
Identities = 27/102 (26%), Positives = 52/102 (50%), Gaps = 3/102 (2%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNAC-AKEIDILSCFRYVN--DYPDAL 65
G+ L + + GG +++VG+ +KE+ + R D+ AL
Sbjct: 247 GSPPALDQALEALRPGGTVVVVGVYGGEDIPLPAGLVVSKELTLRGSLRPSGREDFERAL 306
Query: 66 EMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMI 107
+++ASGK KLITH L++A EA++ + + ++ IK+++
Sbjct: 307 DLLASGKIDPEKLITHRLPLDDAAEAYELFADRKEEAIKVVL 348
>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 = 70.7 bits (174), Expect = 1e-15
Identities = 29/96 (30%), Positives = 46/96 (47%), Gaps = 1/96 (1%)
Query: 14 LTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVN-DYPDALEMVASGK 72
+ + + GG+++LVG+ V+ P KE+ IL D+PD ++++ SGK
Sbjct: 241 MEEAVELVAHGGRVVLVGLSKGPVTFPDPEFHKKELTILGSRNATREDFPDVIDLLESGK 300
Query: 73 CPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMIH 108
LITH F E+ EAF IK++I
Sbjct: 301 VDPEALITHRFPFEDVPEAFDLWEAPPGGVIKVLIE 336
>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 = 67.6 bits (166), Expect = 1e-14
Identities = 32/103 (31%), Positives = 53/103 (51%), Gaps = 5/103 (4%)
Query: 9 GTENCLTLGINVTKMGGKLMLVG--MGPQMVSVPLVNACAKEIDILSCFRY-VNDYPDAL 65
G+ + + + GG+++ G V++ +EI I + DY +AL
Sbjct: 243 GSPEAQAQALELVRKGGRILFFGGLPKGSTVNIDPNLIHYREITITGSYAASPEDYKEAL 302
Query: 66 EMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMIH 108
E++ASGK V+ LITH F LE+ EAF+ A+ ++KI+I
Sbjct: 303 ELIASGKIDVKDLITHRFPLEDIEEAFELAADG--KSLKIVIT 343
>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 = 67.2 bits (165), Expect = 1e-14
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 4/94 (4%)
Query: 17 GINVTKMGGKLMLVGMGPQ--MVSVPLVNACAKEIDILSCFRYVNDYPDALEMVASGKCP 74
I + GG +++ G+ VS+ KE+ I+ F +P A+ ++ SGK
Sbjct: 243 AIEYARRGGTVLVFGVYAPDARVSISPFEIFQKELTIIGSFINPYTFPRAIALLESGKID 302
Query: 75 VRKLITHNFKLEEAVEAFKTASKKADDTIKIMIH 108
V+ L++H LEE EA + +K+++
Sbjct: 303 VKGLVSHRLPLEEVPEALEGMRSGG--ALKVVVV 334
>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 = 62.4 bits (152), Expect = 8e-13
Identities = 31/107 (28%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGM---GPQMVSVPLVNACAKEIDILSC-FR----YVND 60
G + L L + G+L++ G GP+ V N K ID+++ R +
Sbjct: 207 GHQWPLDLAGELVAERGRLVIFGYHQDGPRPVPFQTWNW--KGIDLINAVERDPRIGLEG 264
Query: 61 YPDALEMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMI 107
+A++++A G+ + L+TH F LEE +AF+ A ++ D IK +I
Sbjct: 265 MREAVKLIADGRLDLGSLLTHEFPLEELGDAFEAARRRPDGFIKGVI 311
>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 = 57.6 bits (140), Expect = 5e-11
Identities = 24/102 (23%), Positives = 45/102 (44%), Gaps = 2/102 (1%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYV-NDYPDALEM 67
G + L I+ + G + V + + +S + KE + Y D+ + +++
Sbjct: 250 GVQATLDTAIDALRPRGTAVNVAIWEKPISFNPNDLVLKEKTLTGSICYTREDFEEVIDL 309
Query: 68 VASGKCPVRKLITHNFKLEEAVE-AFKTASKKADDTIKIMIH 108
+ASGK LIT LE+ VE F+ + +KI++
Sbjct: 310 LASGKIDAEPLITSRIPLEDIVEKGFEELINDKEQHVKILVS 351
>gnl|CDD|182130 PRK09880, PRK09880, L-idonate 5-dehydrogenase; Provisional.
Length = 343
Score = 54.7 bits (132), Expect = 4e-10
Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 4/92 (4%)
Query: 7 PLGTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDALE 66
P CL VT+ G ++ VGMG P++ KEI + FR+ ++ A+
Sbjct: 246 PSSINTCL----EVTRAKGVMVQVGMGGAPPEFPMMTLIVKEISLKGSFRFTEEFNTAVS 301
Query: 67 MVASGKCPVRKLITHNFKLEEAVEAFKTASKK 98
+A+G L++ + + EA A K
Sbjct: 302 WLANGVINPLPLLSAEYPFTDLEEALIFAGDK 333
>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 = 50.2 bits (121), Expect = 2e-08
Identities = 29/90 (32%), Positives = 46/90 (51%), Gaps = 2/90 (2%)
Query: 18 INVTKMGGKLMLVGM-GPQMVSVPLVNACAKEIDILSCFRYVNDY-PDALEMVASGKCPV 75
I + GG + ++G+ G + P+ A K + + +V Y P LE++ SG+
Sbjct: 293 IQAVRKGGTVSIIGVYGGTVNKFPIGAAMNKGLTLRMGQTHVQRYLPRLLELIESGELDP 352
Query: 76 RKLITHNFKLEEAVEAFKTASKKADDTIKI 105
+ITH LE+A EA+K KK D IK+
Sbjct: 353 SFIITHRLPLEDAPEAYKIFDKKEDGCIKV 382
>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 = 49.1 bits (118), Expect = 4e-08
Identities = 25/99 (25%), Positives = 49/99 (49%), Gaps = 9/99 (9%)
Query: 18 INVTKMGGKLMLVGM---GPQMVSVPLVNACAKEIDILSCFRYV------NDYPDALEMV 68
+ + + GGK++LVG+ + KE+ I + +++ AL+++
Sbjct: 245 LALARPGGKVVLVGIPYGDVTLSEEAFEKILRKELTIQGSWNSYSAPFPGDEWRTALDLL 304
Query: 69 ASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMI 107
ASGK V LITH LE+ AF+ + + + + K+++
Sbjct: 305 ASGKIKVEPLITHRLPLEDGPAAFERLADREEFSGKVLL 343
>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 = 48.4 bits (116), Expect = 7e-08
Identities = 28/104 (26%), Positives = 47/104 (45%), Gaps = 4/104 (3%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGM--GPQMVSVPLVNACAKEIDILSCFRYVNDY-PDAL 65
G E + V + GG + VG+ P + L K + + V P+ L
Sbjct: 245 GFEETFEQAVKVVRPGGTIANVGVYGKPDPL-PLLGEWFGKNLTFKTGLVPVRARMPELL 303
Query: 66 EMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMIHC 109
+++ GK KLITH F L++ ++A++ K D IK++I
Sbjct: 304 DLIEEGKIDPSKLITHRFPLDDILKAYRLFDNKPDGCIKVVIRP 347
>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 = 48.1 bits (115), Expect = 9e-08
Identities = 28/90 (31%), Positives = 47/90 (52%), Gaps = 4/90 (4%)
Query: 8 LGTENCLTLGINVTKMGGKLMLVGMGP--QMVSVPLVNACAKEIDILSCF--RYVNDYPD 63
LG L ++V + GG+ ++VG+ P +P+ + I I+ + R D P+
Sbjct: 264 LGKPETFKLALDVVRDGGRAVVVGLAPGGATAEIPITRLVRRGIKIIGSYGARPRQDLPE 323
Query: 64 ALEMVASGKCPVRKLITHNFKLEEAVEAFK 93
+ + ASGK L+TH +KLEE EA++
Sbjct: 324 LVGLAASGKLDPEALVTHKYKLEEINEAYE 353
>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 = 47.8 bits (114), Expect = 1e-07
Identities = 23/61 (37%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 47 KEIDILSCFRYVNDYPDALEMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIM 106
KE+D+L YP A++++ASG+ P ++TH F LE+ EAF+ ++ DD+IK++
Sbjct: 291 KELDVLGSHLGPYCYPIAIDLIASGRLPTDGIVTHQFPLEDFEEAFELMARG-DDSIKVV 349
Query: 107 I 107
+
Sbjct: 350 L 350
>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 = 46.5 bits (111), Expect = 3e-07
Identities = 31/93 (33%), Positives = 46/93 (49%), Gaps = 1/93 (1%)
Query: 16 LGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDALEMVASGKCPV 75
L + GG + VG+ + V + L K I I + N P L++V+SGK
Sbjct: 251 LCQELVAPGGHIANVGVHGKPVDLHLEKLWIKNITITTGLVDTNTTPMLLKLVSSGKLDP 310
Query: 76 RKLITHNFKLEEAVEAFKTASKKADD-TIKIMI 107
KL+TH FKL E +A+ T S A +K++I
Sbjct: 311 SKLVTHRFKLSEIEKAYDTFSAAAKHKALKVII 343
>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 = 45.3 bits (108), Expect = 9e-07
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 24 GGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRY-VNDYPDALEMVASGKCPVRKLITHN 82
GG++++VG+G ++V L + A+E+ I+ F D P+ L+++A GK
Sbjct: 256 GGRIVVVGLGRDKLTVDLSDLIARELRIIGSFGGTPEDLPEVLDLIAKGKL---DPQVET 312
Query: 83 FKLEEAVEAFK 93
L+E E +
Sbjct: 313 RPLDEIPEVLE 323
>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 = 45.3 bits (108), Expect = 9e-07
Identities = 22/93 (23%), Positives = 41/93 (44%), Gaps = 4/93 (4%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVGM---GPQMVSVPLVNACAKEIDILSCFRY-VND 60
+D LG + + G+ + VG+ V++P+ A+E++I+ +
Sbjct: 238 VDALGIPETCRNSVASLRKRGRHVQVGLTLGEEAGVALPMDRVVARELEIVGSHGMPAHR 297
Query: 61 YPDALEMVASGKCPVRKLITHNFKLEEAVEAFK 93
Y L ++ASGK L+ L+EA +A
Sbjct: 298 YDAMLALIASGKLDPEPLVGRTISLDEAPDALA 330
>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 = 44.0 bits (104), Expect = 2e-06
Identities = 19/46 (41%), Positives = 30/46 (65%)
Query: 61 YPDALEMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIM 106
+P ++++ASGK + K+IT F LE +EA K AS++ D I I+
Sbjct: 339 FPSVIKLMASGKIDMTKIITARFPLEGIMEAIKAASERTDGKITIL 384
>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 = 43.5 bits (103), Expect = 4e-06
Identities = 24/100 (24%), Positives = 48/100 (48%), Gaps = 3/100 (3%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRY-VNDYPDALEM 67
G L + + G+L+LVG G ++ + K+ ++ + + V D + E
Sbjct: 240 GNTAARRLALEAVRPWGRLVLVGEGGELTIEVSNDLIRKQRTLIGSWYFSVPDMEECAEF 299
Query: 68 VASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMI 107
+A K V +L+TH F L++A EA+ ++ + K++
Sbjct: 300 LARHKLEVDRLVTHRFGLDQAPEAYALFAQGE--SGKVVF 337
>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 = 43.0 bits (102), Expect = 6e-06
Identities = 26/102 (25%), Positives = 48/102 (47%), Gaps = 10/102 (9%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVGMG-PQMVSVPLVNACAKEIDILSCFRYV----- 58
L+ +G L L ++ + GG + VG+ + P ++A K + R+
Sbjct: 240 LEAVGGAAALDLAFDLVRPGGVISSVGVHTAEEFPFPGLDAYNKNLT----LRFGRCPVR 295
Query: 59 NDYPDALEMVASGKCPVRKLITHNFKLEEAVEAFKTASKKAD 100
+ +P+ L ++ SG+ + LI H LEEA EA++ K+
Sbjct: 296 SLFPELLPLLESGRLDLEFLIDHRMPLEEAPEAYRLFDKRKV 337
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 41.5 bits (98), Expect = 7e-06
Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 4 YLDPLGTENCLTLGINVTKMGGKLMLVGM-GPQMVSVPLVNACAKEIDILSCFRY-VNDY 61
+D +G L + + + GG++++VG+ G V PL + KE+ IL ++
Sbjct: 63 VIDCVGAPATLEQALELLRPGGRVVVVGLPGGAPVPFPLRDLLLKELTILGSLGGGREEF 122
Query: 62 PDALEMVAS 70
+ALE++AS
Sbjct: 123 EEALELLAS 131
>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 = 41.1 bits (97), Expect = 2e-05
Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 8/101 (7%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILS--CFRYVNDYPDALE 66
G+ + L L + + + G ++L S L A EI ++ C + AL
Sbjct: 223 GSPSGLELALRLVRPRGTVVLKSTYAGPASFDLTKAVVNEITLVGSRC----GPFAPALR 278
Query: 67 MVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMI 107
++ G V LIT + LEEA+EAF+ A++ +K+++
Sbjct: 279 LLRKGLVDVDPLITAVYPLEEALEAFERAAEP--GALKVLL 317
>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 = 40.7 bits (96), Expect = 3e-05
Identities = 22/109 (20%), Positives = 44/109 (40%), Gaps = 19/109 (17%)
Query: 14 LTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPD---------- 63
L + + + G+++LVG + K + I S V
Sbjct: 173 LETALRLLRDRGRVVLVGWYGLKPLLLGEEFHFKRLPIRS--SQVYGIGRYDRPRRWTEA 230
Query: 64 -----ALEMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMI 107
AL+++A G+ + LITH E+A EA++ + + +K+++
Sbjct: 231 RNLEEALDLLAEGR--LEALITHRVPFEDAPEAYRLLFEDPPECLKVVL 277
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 39.9 bits (94), Expect = 8e-05
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 5/75 (6%)
Query: 22 KMGGKLMLVGMGPQ--MVSVPLVNACAKEIDILSCFRY-VNDYPDALEMVASGKCPVRKL 78
+ GG L+LVG+ + +P KEI I+ D +AL+ A GK ++
Sbjct: 250 RRGGTLVLVGLPGGGPIPLLPAFLLILKEISIVGSLVGTRADLEEALDFAAEGK--IKPE 307
Query: 79 ITHNFKLEEAVEAFK 93
I L+E EA++
Sbjct: 308 ILETIPLDEINEAYE 322
>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 = 39.5 bits (92), Expect = 1e-04
Identities = 26/104 (25%), Positives = 45/104 (43%), Gaps = 2/104 (1%)
Query: 6 DPLGTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVN-DYPDA 64
D G + + + GG+++L G + V+ V A KE + + D
Sbjct: 206 DASGDPSLIDTLVRRLAKGGEIVLAGFYTEPVNFDFVPAFMKEARLRIAAEWQPGDLHAV 265
Query: 65 LEMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIKIMIH 108
E++ SG + LITH +A EA+ TA D +K+++
Sbjct: 266 RELIESGALSLDGLITHQRPASDAAEAYMTAFSDP-DCLKMILD 308
>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 = 38.5 bits (90), Expect = 2e-04
Identities = 21/74 (28%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 22 KMGGKLMLVG-MGPQMVSVPLVNACAKEIDILSCFRYV-NDYPDALEMVASGKCPVRKLI 79
GG+L+L+G + P + KEI I+ D +AL++V GK ++ +I
Sbjct: 247 NKGGRLVLIGNVTPDPAPLRPGLLILKEIRIIGSISATKADVEEALKLVKEGK--IKPVI 304
Query: 80 THNFKLEEAVEAFK 93
LE+ EA +
Sbjct: 305 DRVVSLEDINEALE 318
>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 = 38.1 bits (89), Expect = 3e-04
Identities = 22/87 (25%), Positives = 45/87 (51%), Gaps = 2/87 (2%)
Query: 23 MGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYV-NDYPDALEMVASGKCPVRKLITH 81
GG++++VG+ + ++ A KE+ + Y ++ DAL+ +A GK V ++T
Sbjct: 256 PGGRIVVVGVCMESDNIEPALAIRKELTLQFSLGYTPEEFADALDALAEGKVDVAPMVTG 315
Query: 82 NFKLEEAVEAFKTASKKADDTIKIMIH 108
L+ +AF+ A + + KI++
Sbjct: 316 TVGLDGVPDAFE-ALRDPEHHCKILVD 341
>gnl|CDD|223990 COG1062, AdhC, Zn-dependent alcohol dehydrogenases, class III
[Energy production and conversion].
Length = 366
Score = 37.6 bits (88), Expect = 5e-04
Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 5/94 (5%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVGMGP--QMVSVPLVNACAKEIDILSCFRYVN--- 59
+ +G + + T GG +++G+ Q +S + S F
Sbjct: 259 FECVGNVEVMRQALEATHRGGTSVIIGVAGAGQEISTRPFQLVTGRVWKGSAFGGARPRS 318
Query: 60 DYPDALEMVASGKCPVRKLITHNFKLEEAVEAFK 93
D P +++ +GK P+ +L+TH LE+ EAF
Sbjct: 319 DIPRLVDLYMAGKLPLDRLVTHTIPLEDINEAFD 352
>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 = 36.1 bits (84), Expect = 0.002
Identities = 25/116 (21%), Positives = 40/116 (34%), Gaps = 21/116 (18%)
Query: 8 LGTENCLTLGINVTKMGGKLMLVGM--GPQMVSVPLVNACA----KEIDILSCFRYVNDY 61
G ++ + V K GG + V + +P K I+ C
Sbjct: 243 GGGQDTFEQALKVLKPGGTISNVNYYGEDDYLPIPREEWGVGMGHKTINGGLC------- 295
Query: 62 PDA-------LEMVASGKCPVRKLITHNF-KLEEAVEAFKTASKKADDTIKIMIHC 109
P ++ G+ KL+TH+F ++ EA K DD IK +I
Sbjct: 296 PGGRLRMERLASLIEYGRVDPSKLLTHHFFGFDDIEEALMLMKDKPDDLIKPVIIF 351
>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 = 35.8 bits (83), Expect = 0.002
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 10/81 (12%)
Query: 20 VTKMGGKLMLVGMGP--QMVSVPLVNACAKEIDILSCFRYVN------DYPDALEMVASG 71
+T+ GG + G+ +SVP ++ A+E + Y+ D P L + SG
Sbjct: 279 ITRRGGTTVTAGLPDPEARLSVPALSLVAEERTLKGS--YMGSCVPRRDIPRYLALYLSG 336
Query: 72 KCPVRKLITHNFKLEEAVEAF 92
+ PV KL+TH L+E E F
Sbjct: 337 RLPVDKLLTHRLPLDEINEGF 357
>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 = 35.6 bits (83), Expect = 0.002
Identities = 27/91 (29%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDA 64
+D +G++ L L + GG+ ++VG G +P + EI ++ +
Sbjct: 240 IDFVGSDETLALAAKLLAKGGRYVIVGYGGH-GRLPTSDLVPTEISVIG--SLWGTRAEL 296
Query: 65 LEMVA---SGKCPVRKLITHNFKLEEAVEAF 92
+E+VA SGK V+ IT F LE+A EA
Sbjct: 297 VEVVALAESGK--VKVEITK-FPLEDANEAL 324
>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 = 35.0 bits (81), Expect = 0.004
Identities = 13/68 (19%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 3 LYLDPLGTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNAC-AKEIDILSCFRYVN-D 60
+ +D +G L + + + GG++++VG + + KE+ I+ D
Sbjct: 204 VVIDAVGGPETLAQALRLLRPGGRIVVVGGTSGGPPLDDLRRLLFKELTIIGSTGGTRED 263
Query: 61 YPDALEMV 68
+ +AL+++
Sbjct: 264 FEEALDLL 271
>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 = 34.2 bits (79), Expect = 0.008
Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 9/86 (10%)
Query: 17 GINVTKMGGKLMLVGM----GPQMVSVPLVNACAKEIDILSCFRY-VNDYPDALEMVA-- 69
G+ + + GG +LVG G + + K + I+ Y + A+ +
Sbjct: 266 GLELLRRGGTYVLVGSVAPAGTVPLDPERI--VRKNLTIIGVHNYDPSHLYRAVRFLERT 323
Query: 70 SGKCPVRKLITHNFKLEEAVEAFKTA 95
+ P +L+TH + LE+ EA + A
Sbjct: 324 QDRFPFAELVTHRYPLEDINEALELA 349
>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 = 33.7 bits (78), Expect = 0.010
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 6/82 (7%)
Query: 17 GINVTKMGGKLMLVGMGP--QMVSVPLVNACAKEIDILSCF----RYVNDYPDALEMVAS 70
+ +T+ GG ++VGMGP + VS+P + E + D P L++ +
Sbjct: 268 ALAMTRKGGTAVVVGMGPPGETVSLPALELFLSEKRLQGSLYGSANPRRDIPRLLDLYRA 327
Query: 71 GKCPVRKLITHNFKLEEAVEAF 92
G+ + +L+T + L+E EAF
Sbjct: 328 GRLKLDELVTRRYSLDEINEAF 349
>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 = 33.0 bits (76), Expect = 0.021
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 60 DYPDALEMVASGKCP----VRKLITHNFKLEEAVEAFKTASKKADDTIKIMIH 108
+ A+E +A K + +LIT LEE EA +K D IK++I
Sbjct: 305 HFEQAVEDLAQWKYRWPGVLERLITRRVPLEEFAEALT---EKPDGEIKVVIE 354
>gnl|CDD|182229 PRK10083, PRK10083, putative oxidoreductase; Provisional.
Length = 339
Score = 32.4 bits (74), Expect = 0.027
Identities = 18/83 (21%), Positives = 36/83 (43%)
Query: 25 GKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDALEMVASGKCPVRKLITHNFK 84
+++L+G + + KE+ I S N +P ++ ++ G KLITH F
Sbjct: 253 ARIVLMGFSSEPSEIVQQGITGKELSIFSSRLNANKFPVVIDWLSKGLIDPEKLITHTFD 312
Query: 85 LEEAVEAFKTASKKADDTIKIMI 107
+ +A + K K+++
Sbjct: 313 FQHVADAIELFEKDQRHCCKVLL 335
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 32.3 bits (74), Expect = 0.035
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 22 KMGGKLMLVG-MGPQMV-SVPLVNACAKEIDILSCFRYV-NDYPDALEMVASGKCPVRKL 78
MGGK++ +G + P S+ L K+I+I+ D +AL++VA GK ++ +
Sbjct: 246 NMGGKIIQIGNVDPSPTYSLRLGYIILKDIEIIGHISATKRDVEEALKLVAEGK--IKPV 303
Query: 79 ITHNFKLEEAVEAFKTASKKADDTIKIMI 107
I L E +A + K KI++
Sbjct: 304 IGAEVSLSEIDKALE-ELKDKSRIGKILV 331
>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 = 31.8 bits (73), Expect = 0.045
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 55 FRYVNDYPDALEMVASGKCPVRKLITHNFKLEEAVEAF 92
++ + P +E GK V + ITH L+E EAF
Sbjct: 317 WKSRSQVPKLVEDYMKGKIKVDEFITHTMPLDEINEAF 354
>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 = 30.7 bits (70), Expect = 0.11
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 66 EMVASGKCPVRKLITHNFKLEEAVEAF 92
++ SGK + +ITH LE+ EAF
Sbjct: 300 ALLKSGKVDLSPVITHKLPLEDFEEAF 326
>gnl|CDD|222256 pfam13602, ADH_zinc_N_2, Zinc-binding dehydrogenase.
Length = 129
Score = 30.0 bits (68), Expect = 0.12
Identities = 28/93 (30%), Positives = 43/93 (46%), Gaps = 9/93 (9%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVNDYPDA 64
LD +G E L + + K GG+L+ +G ++SV A + + + F A
Sbjct: 27 LDTVGGETLLRALLAL-KPGGRLVSIGGPDLLLSVAA-KAGGRGVRGVFLFPVSPGEAGA 84
Query: 65 -----LEMVASGKCPVRKLITHNFKLEEAVEAF 92
E+V +GK +R +I F LEEA EA
Sbjct: 85 DLAELAELVEAGK--LRPVIDRVFPLEEAAEAH 115
>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 = 30.2 bits (69), Expect = 0.15
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 23/118 (19%)
Query: 5 LDPLG---TENCLTLGINVTKMGGKLMLVGM-GPQMVSVPLVNACAKEIDILSCF--RYV 58
DP+G E L GG+L+++G ++ +P K I ++ + Y
Sbjct: 213 YDPVGGDVFEASL----RSLAWGGRLLVIGFASGEIPQIPANLLLLKNISVVGVYWGAYA 268
Query: 59 NDYPDA--------LEMVASGKCPVRKLITHNFKLEEAVEAFKT-ASKKADDTIKIMI 107
P+ +++A GK +R ++ F LE+A EA + A +KA T K+++
Sbjct: 269 RREPELLRANLAELFDLLAEGK--IRPHVSAVFPLEQAAEALRALADRKA--TGKVVL 322
>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 = 30.0 bits (68), Expect = 0.21
Identities = 22/82 (26%), Positives = 41/82 (50%), Gaps = 7/82 (8%)
Query: 19 NVTKMGGKLMLVGMGP---QMVSVPLVNACAKEIDILSC-FRYVN---DYPDALEMVASG 71
+ T+ GG++++ G+GP V V L + ++ F N D P LE+ +G
Sbjct: 274 SATRKGGRVVVTGLGPMADVDVKVNLFELTLLQKELQGTLFGGANPRADIPRLLELYRAG 333
Query: 72 KCPVRKLITHNFKLEEAVEAFK 93
K + +LIT + L++ E ++
Sbjct: 334 KLKLDELITRTYTLDQINEGYQ 355
>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 = 29.0 bits (66), Expect = 0.44
Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 9/81 (11%)
Query: 17 GINVTKMGGKLMLVGMGPQ-MVSVPLVNACAKEIDILSCFRYV---NDYPDALEMVASGK 72
++ + GG L+ VG+ P + + + + I I+ V D +ALE A GK
Sbjct: 251 ALDYLRPGGTLVCVGLPPGGFIPLDPFDLVLRGITIVG--SLVGTRQDLQEALEFAARGK 308
Query: 73 CPVRKLITHNFKLEEAVEAFK 93
V+ I LE+ E F+
Sbjct: 309 --VKPHIQ-VVPLEDLNEVFE 326
>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 = 28.8 bits (65), Expect = 0.48
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 21 TKMG-GKLMLVGMGPQ----MVSVPLVNACAKEIDILSCFRYVNDYPDALEMVASGKCPV 75
TK+G G ++VG+ P + L+ + F+ +D P + + K +
Sbjct: 275 TKLGWGVSVVVGVPPGAELSIRPFQLILGRTWKGSFFGGFKSRSDVPKLVSKYMNKKFDL 334
Query: 76 RKLITHNFKLEEAVEAF 92
+LITH EE + F
Sbjct: 335 DELITHVLPFEEINKGF 351
>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 = 28.9 bits (65), Expect = 0.55
Identities = 21/94 (22%), Positives = 39/94 (41%), Gaps = 6/94 (6%)
Query: 5 LDPLGTENCLTLGINVTKM-GGKLMLVGMGPQMVSVPL-VNACAKEIDILSCF----RYV 58
+ +G+ + L ++ T++ GG ++VG+ P L N I +
Sbjct: 258 FEVIGSADTLKQALDATRLGGGTSVVVGVPPSGTEATLDPNDLLTGRTIKGTVFGGWKSK 317
Query: 59 NDYPDALEMVASGKCPVRKLITHNFKLEEAVEAF 92
+ P + + K P+ +LITH EE + F
Sbjct: 318 DSVPKLVALYRQKKFPLDELITHVLPFEEINDGF 351
>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 = 28.4 bits (64), Expect = 0.63
Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 14 LTLGINVTKMGGKLMLVGMG-PQMVSVPLVNACAKEIDILSCFRY-VNDYPDALEMVASG 71
L + + + GG+++ VG+ P S+ + KE+ ++ + AL ++ASG
Sbjct: 247 LEQALELLRKGGRIVQVGIFGPLAASIDVERIIQKELSVIGSRSSTPASWETALRLLASG 306
>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 = 27.5 bits (62), Expect = 1.3
Identities = 24/99 (24%), Positives = 38/99 (38%), Gaps = 19/99 (19%)
Query: 17 GINVTKMGGKLMLVGMGPQMVSVPL-VNACAKEIDILSCFRYV---------NDY-PDAL 65
++ G L LVG P V L VN ++S ++ P +
Sbjct: 271 AVDALAPRGTLALVGAPPPGAEVTLDVND-----LLVSGKTIRGVIEGDSVPQEFIPRLI 325
Query: 66 EMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADDTIK 104
E+ GK P KL+T + E+ +A A ++ IK
Sbjct: 326 ELYRQGKFPFDKLVTF-YPFEDINQAI--ADSESGKVIK 361
>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18. All proteins in this
family for which functions are known are involved in
nucleotide excision repair.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 397
Score = 26.9 bits (59), Expect = 2.2
Identities = 16/73 (21%), Positives = 31/73 (42%), Gaps = 15/73 (20%)
Query: 39 VPLVNACAKEIDILSCFRYVNDYPDALEMVASGKCPV------RKLITHNFKLEEAVEAF 92
VP++ +C+ L R +++ P KCP+ + N+ + E VE+F
Sbjct: 38 VPVLTSCSHTFCSLCIRRCLSNQP---------KCPLCRAEDQESKLRSNWLVSEIVESF 88
Query: 93 KTASKKADDTIKI 105
K + ++I
Sbjct: 89 KNLRPSLLEFLRI 101
>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 = 26.9 bits (60), Expect = 2.4
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 60 DYPDALEMVASGKCPVRKLITHNFKLEEAVEAFK 93
D P+ +E + + K ITH E +AF
Sbjct: 323 DLPNLVEKYMKKELELEKFITHELPFSEINKAFD 356
>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 = 26.8 bits (59), Expect = 2.4
Identities = 18/72 (25%), Positives = 30/72 (41%), Gaps = 1/72 (1%)
Query: 9 GTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNACAKEIDILSCFRYVND-YPDALEM 67
G++ +++ GG L++VG L N A L + D YP AL++
Sbjct: 250 GSKPGQESALSLLSHGGTLVVVGYTMAKTEYRLSNLMAFHARALGNWGCPPDRYPAALDL 309
Query: 68 VASGKCPVRKLI 79
V GK + +
Sbjct: 310 VLDGKIQLGPFV 321
>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 = 26.7 bits (59), Expect = 2.5
Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 3/93 (3%)
Query: 3 LYLDPLGTENCLTLGINVTKMGGKLMLVGMGPQMVSVPLVNAC---AKEIDILSCFRYVN 59
++L+ G L G+ GG++ L+G+ P V++ N I ++
Sbjct: 233 VFLEMSGAPKALEQGLQAVTPGGRVSLLGLPPGKVTIDFTNKVIFKGLTIYGITGRHMFE 292
Query: 60 DYPDALEMVASGKCPVRKLITHNFKLEEAVEAF 92
+ ++ SGK + +ITH FK ++ + F
Sbjct: 293 TWYTVSRLIQSGKLDLDPIITHKFKFDKFEKGF 325
>gnl|CDD|153353 cd07669, BAR_SNX33, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexin 33. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions. Sorting nexins (SNXs)
are Phox homology (PX) domain containing proteins that
are involved in regulating membrane traffic and protein
sorting in the endosomal system. SNXs differ from each
other in their lipid-binding specificity, subcellular
localization and specific function in the endocytic
pathway. A subset of SNXs also contain BAR domains. The
PX-BAR structural unit determines the specific membrane
targeting of SNXs. SNX33 interacts with Wiskott-Aldrich
syndrome protein (WASP) and plays a role in the
maintenance of cell shape and cell cycle progression. It
modulates the shedding and endocytosis of cellular prion
protein (PrP(c)) and amyloid precursor protein (APP).
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 207
Score = 26.5 bits (58), Expect = 2.8
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 85 LEEAVEAFKTASKKADDTI 103
+EE V+ FK SKK DD++
Sbjct: 10 VEERVDVFKAFSKKMDDSV 28
>gnl|CDD|215452 PLN02843, PLN02843, isoleucyl-tRNA synthetase.
Length = 974
Score = 26.7 bits (59), Expect = 2.8
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 69 ASGKCPVRKLITHNFKLEE 87
GK P + ++TH F L+E
Sbjct: 589 TKGKAPYKSVLTHGFVLDE 607
>gnl|CDD|151029 pfam10456, BAR_3_WASP_bdg, WASP-binding domain of Sorting nexin
protein. The C-terminal region of the Sorting nexin
group of proteins appears to carry a BAR-like
(Bin/amphiphysin/Rvs) domain. This domain is very
diverse and the similarities with other BAR domains are
few. In the Sorting nexins it is associated with family
PX, pfam00787.13, and in combination with PX appears to
be necessary to bind WASP along with p85 to form a
multimeric signalling complex.
Length = 237
Score = 26.3 bits (58), Expect = 3.3
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 86 EEAVEAFKTASKKADDTIKIM 106
E+ VE FK +KK D+ +K++
Sbjct: 40 EQKVEGFKRFTKKMDEGVKVL 60
>gnl|CDD|153310 cd07626, BAR_SNX9_like, The Bin/Amphiphysin/Rvs (BAR) domain of
Sorting Nexin 9 and Similar Proteins. BAR domains are
dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions. Sorting nexins (SNXs) are Phox homology (PX)
domain containing proteins that are involved in
regulating membrane traffic and protein sorting in the
endosomal system. SNXs differ from each other in their
lipid-binding specificity, subcellular localization and
specific function in the endocytic pathway. A subset of
SNXs also contain BAR domains. The PX-BAR structural
unit determines the specific membrane targeting of SNXs.
This subfamily consists of SNX9, SNX18, SNX33, and
similar proteins. SNX9 is localized to plasma membrane
endocytic sites and acts primarily in clathrin-mediated
endocytosis, while SNX18 is localized to peripheral
endosomal structures, and acts in a trafficking pathway
that is clathrin-independent but relies on AP-1 and
PACS1. BAR domains form dimers that bind to membranes,
induce membrane bending and curvature, and may also be
involved in protein-protein interactions.
Length = 199
Score = 26.1 bits (58), Expect = 4.2
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 84 KLEEAVEAFKTASKKADDTIKIMIHC 109
+E+ V+AFK K DD++K +I+
Sbjct: 1 DVEQQVDAFKKFVKSMDDSVKNLINI 26
>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 = 25.7 bits (57), Expect = 5.6
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 15/101 (14%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVG-MGPQMVSVPLVNACAKEIDIL-SCFRYVND-- 60
LD +G + L I + G+++ +G G + + L AK + I S R
Sbjct: 213 LDIVGG-SYLNRNIKALALDGRIVQIGFQGGRKAELDLGPLLAKRLTITGSTLRARPVAE 271
Query: 61 ---YPDALE-----MVASGKCPVRKLITHNFKLEEAVEAFK 93
L ++ASG+ VR +I F LE+A +A
Sbjct: 272 KAAIAAELREHVWPLLASGR--VRPVIDKVFPLEDAAQAHA 310
>gnl|CDD|223327 COG0249, MutS, Mismatch repair ATPase (MutS family) [DNA
replication, recombination, and repair].
Length = 843
Score = 25.7 bits (57), Expect = 6.5
Identities = 20/98 (20%), Positives = 34/98 (34%), Gaps = 21/98 (21%)
Query: 20 VTKMGGKLMLVGMGPQMVSVPLVN------------ACAKEIDILSCFRY----VNDYPD 63
VT MG +L+ + + PL++ ++ R V D
Sbjct: 293 VTPMGSRLLK-----RWLLQPLLDKEEIEERLDAVEELKDNPELREKLREMLKKVPDLER 347
Query: 64 ALEMVASGKCPVRKLITHNFKLEEAVEAFKTASKKADD 101
L ++ G+ R L+ LE+ E FK S +
Sbjct: 348 LLSRLSLGRASPRDLLRLRDSLEKIPEIFKLLSSLKSE 385
>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 = 25.8 bits (57), Expect = 6.5
Identities = 26/92 (28%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 5 LDPLGTENCLTLGINVTKMGGKLMLVG-MGPQMVSVPLVNACAKEIDILSCFRYVNDYPD 63
++ LG + L ++V GG+L+ G + V + L + +K+I I+ +
Sbjct: 228 INSLG-SSFWDLSLSVLGRGGRLVTFGTLTGGEVKLDLSDLYSKQISIIGSTG--GTRKE 284
Query: 64 ALEMVA-SGKCPVRKLITHN-FKLEEAVEAFK 93
LE+V + V+ FKLEEA EA K
Sbjct: 285 LLELVKIAKDLKVK---VWKTFKLEEAKEALK 313
>gnl|CDD|180054 PRK05396, tdh, L-threonine 3-dehydrogenase; Validated.
Length = 341
Score = 25.6 bits (57), Expect = 7.0
Identities = 7/29 (24%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 67 MVASGKCPVRKLITHNFKLEEAVEAFKTA 95
++ SG + +ITH F +++ + F+
Sbjct: 301 LLQSGL-DLSPIITHRFPIDDFQKGFEAM 328
>gnl|CDD|222901 PHA02597, 30.2, hypothetical protein; Provisional.
Length = 197
Score = 25.4 bits (56), Expect = 7.1
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 52 LSCFRYVNDYPDALEMV 68
RY++ Y DAL+++
Sbjct: 67 SDFIRYLSAYDDALDVI 83
>gnl|CDD|215950 pfam00497, SBP_bac_3, Bacterial extracellular solute-binding
proteins, family 3.
Length = 220
Score = 25.3 bits (56), Expect = 7.2
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 46 AKEIDILSCFRYVNDYPDALEMVASGKC 73
KE+ + +D +AL+ +A+G+
Sbjct: 121 LKELLPGAEIVLYDDLAEALQALAAGRV 148
>gnl|CDD|178943 PRK00239, rpsT, 30S ribosomal protein S20; Reviewed.
Length = 88
Score = 24.7 bits (55), Expect = 7.7
Identities = 11/26 (42%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 75 VRKLITHNFKLEEAVEAFKTASKKAD 100
V I K E A EA K A K D
Sbjct: 35 VEAAIAAGDK-EAAEEALKAAQSKID 59
>gnl|CDD|215264 PLN02475, PLN02475,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase.
Length = 766
Score = 25.5 bits (56), Expect = 9.1
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 74 PVRKLITHNFKLEEAVEAFKTASKKADDTIKIMIH 108
P+RK H F L+ AV +F+ + DT +I H
Sbjct: 615 PLRK-SEHAFYLDWAVHSFRITNCGVQDTTQIHTH 648
>gnl|CDD|235367 PRK05222, PRK05222,
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase; Provisional.
Length = 758
Score = 25.1 bits (56), Expect = 9.5
Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 4/25 (16%)
Query: 85 LEEAVEAFK-TASKKADDTIKIMIH 108
L+ AVEAF+ S D+T IH
Sbjct: 620 LDWAVEAFRLATSGVKDET---QIH 641
>gnl|CDD|240364 PTZ00332, PTZ00332, paraflagellar rod protein; Provisional.
Length = 589
Score = 25.3 bits (55), Expect = 10.0
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 76 RKLITHNFKLEEAVEAFKTASKKADDTIKIMIHCRQG 112
R + T + +LE VE F +KK D K + RQG
Sbjct: 452 RNIRTTHIQLEFCVETFDPNAKKHADMKKELYKLRQG 488
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 0.138 0.411
Gapped
Lambda K H
0.267 0.0695 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,452,714
Number of extensions: 454374
Number of successful extensions: 542
Number of sequences better than 10.0: 1
Number of HSP's gapped: 526
Number of HSP's successfully gapped: 81
Length of query: 112
Length of database: 10,937,602
Length adjustment: 76
Effective length of query: 36
Effective length of database: 7,566,698
Effective search space: 272401128
Effective search space used: 272401128
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 (22.0 bits)
S2: 53 (24.3 bits)