RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15155
(185 letters)
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 189 bits (483), Expect = 3e-61
Identities = 69/157 (43%), Positives = 98/157 (62%), Gaps = 3/157 (1%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
IVLITG GSG+GR LALEF KRG++V+ DI + EET + + G Y D+
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAG-GKVHYYKCDVSK 59
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
V E K + ++ G V ILINNAG+++ K+L ++ DE+I++ F +N HF +A
Sbjct: 60 REEVYEAAKKIKKEVGDVTILINNAGVVSGKKLL--ELPDEEIEKTFEVNTLAHFWTTKA 117
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
FLPDM++RN GHIV I+S++ + A + Y ASK A
Sbjct: 118 FLPDMLERNHGHIVTIASVAGLISPAGLADYCASKAA 154
>gnl|CDD|212491 cd05233, SDR_c, classical (c) SDRs. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 234
Score = 165 bits (420), Expect = 9e-52
Identities = 60/156 (38%), Positives = 90/156 (57%), Gaps = 4/156 (2%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
L+TGA SG+GR +A + G++V+ AD E E E G+A A D+ +E
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLADRNEEALAELA--AIEALGGNAVAVQADVSDE 58
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
V+ L + +FG++DIL+NNAGI + ++TDE R+ ++N+TG F + RA
Sbjct: 59 EDVEALVEEALEEFGRLDILVNNAGIARPGPLE--ELTDEDWDRVLDVNLTGVFLLTRAA 116
Query: 144 LPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
LP M K+ G IV ISS++ + + +AYAASK A
Sbjct: 117 LPHMKKQGGGRIVNISSVAGLRPLPGQAAYAASKAA 152
>gnl|CDD|187632 cd05374, 17beta-HSD-like_SDR_c, 17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 139 bits (352), Expect = 2e-41
Identities = 56/158 (35%), Positives = 88/158 (55%), Gaps = 6/158 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+VLITG SG+G LAL +G +V+ N + + L E+ + + +D+
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVIATA----RNPDKLESLGELLNDNLEVLELDVT 56
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+E S+K K V FG++D+L+NNAG F L+ + + E+++ LF +N+ G R+ R
Sbjct: 57 DEESIKAAVKEVIERFGRIDVLVNNAGY-GLFGPLE-ETSIEEVRELFEVNVFGPLRVTR 114
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
AFLP M K+ G IV +SS++ + Y ASK A
Sbjct: 115 AFLPLMRKQGSGRIVNVSSVAGLVPTPFLGPYCASKAA 152
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 134 bits (341), Expect = 1e-39
Identities = 65/166 (39%), Positives = 96/166 (57%), Gaps = 4/166 (2%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCA-DIQNEPNEETVRMLNEIRQGSAKAYHV 78
K+ ++TGA G+GR +A K G++V+ A DI E +E + + E G A A
Sbjct: 4 MGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIKE-EGGDAIAVKA 62
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ +E V+ L + + FGK+DIL+NNAGI F L TD+TDE+ R+ ++N+TG
Sbjct: 63 DVSSEEDVENLVEQIVEKFGKIDILVNNAGISN-FG-LVTDMTDEEWDRVIDVNLTGVML 120
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+ R LP M+KR G IV ISS+ + G + Y+ASK A +T
Sbjct: 121 LTRYALPYMIKRKSGVIVNISSIWGLIGASCEVLYSASKGAVNAFT 166
>gnl|CDD|223959 COG1028, FabG, Dehydrogenases with different specificities (related
to short-chain alcohol dehydrogenases) [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 251
Score = 132 bits (333), Expect = 1e-38
Identities = 60/164 (36%), Positives = 90/164 (54%), Gaps = 7/164 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQ-VLCADIQNEPN-EETVRMLNEIRQGSAKAY 76
+ K+ L+TGA SG+GR +A + G++ V+ A E E + E G A A
Sbjct: 3 LSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGRAAAV 62
Query: 77 HVDIGN-EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITG 135
D+ + E SV+ L +FG++DIL+NNAGI L ++T+E R+ ++N+ G
Sbjct: 63 AADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPDAPL-EELTEEDWDRVIDVNLLG 121
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
F + RA LP M K+ IV ISS++ + G +AYAASK A
Sbjct: 122 AFLLTRAALPLMKKQ---RIVNISSVAGLGGPPGQAAYAASKAA 162
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 137 bits (347), Expect = 3e-38
Identities = 58/167 (34%), Positives = 89/167 (53%), Gaps = 4/167 (2%)
Query: 14 PPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSA 73
PR K+V++TGAGSG+GRE AL F + G++V+ +DI E T ++ A
Sbjct: 308 RPRGPFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELI-RAAGAVA 366
Query: 74 KAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINI 133
AY VD+ + +++ + V + G DI++NNAGI L T + E R+ ++N+
Sbjct: 367 HAYRVDVSDADAMEAFAEWVRAEHGVPDIVVNNAGIGMAGGFLDT--SAEDWDRVLDVNL 424
Query: 134 TGHFRMVRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASKWA 179
G R F MV+R GHIV ++S ++ + AYA SK A
Sbjct: 425 WGVIHGCRLFGRQMVERGTGGHIVNVASAAAYAPSRSLPAYATSKAA 471
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 126 bits (320), Expect = 1e-36
Identities = 56/167 (33%), Positives = 95/167 (56%), Gaps = 8/167 (4%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKA 75
++++ ++ L+TGA G+GR +A+ G++V+ DI + T ++ E G A+A
Sbjct: 1 TRDLEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELV-EAAGGKARA 59
Query: 76 YHVDIGNEASVKELGKNVHRDFGKVDILINNAGI--LTQFKILQTDITDEQIQRLFNINI 133
VD+ + A++K DFG++DIL+ NAGI LT F ++ DEQ +R+ ++N+
Sbjct: 60 RQVDVRDRAALKAAVAAGVEDFGRLDILVANAGIFPLTPF----AEMDDEQWERVIDVNL 115
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSMS-SMTGVANASAYAASKWA 179
TG F + +A LP +++ G IV SS++ G + YAASK
Sbjct: 116 TGTFLLTQAALPALIRAGGGRIVLTSSVAGPRVGYPGLAHYAASKAG 162
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 125 bits (317), Expect = 4e-36
Identities = 52/161 (32%), Positives = 89/161 (55%), Gaps = 5/161 (3%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+K K+ LITGA SG+G A + G++V+ A + E E + +EI G+A A +
Sbjct: 4 LKGKVALITGASSGIGEATARALAEAGAKVVLAARREERLEA---LADEIGAGAALALAL 60
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + A+V+ + + +FG++DIL+NNAG+ + + D+ + R+ + N+ G
Sbjct: 61 DVTDRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLDEADL--DDWDRMIDTNVKGLLN 118
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
RA LP MV+R GHI+ + S++ + Y A+K A
Sbjct: 119 GTRAVLPGMVERKSGHIINLGSIAGRYPYPGGAVYGATKAA 159
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 125 bits (316), Expect = 5e-36
Identities = 59/162 (36%), Positives = 90/162 (55%), Gaps = 7/162 (4%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYH 77
+ K L+TGA G+GR +AL G++V+ D E E E+R G A+
Sbjct: 4 QGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAA---ELRAAGGEARVLV 60
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ +EA+V+ L + FG +DIL+NNAGI + +++E R+ ++N+TG F
Sbjct: 61 FDVSDEAAVRALIEAAVEAFGALDILVNNAGITRDALLP--RMSEEDWDRVIDVNLTGTF 118
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+VRA LP M+K G IV ISS+S +TG + Y+A+K
Sbjct: 119 NVVRAALPPMIKARYGRIVNISSVSGVTGNPGQTNYSAAKAG 160
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 124 bits (314), Expect = 1e-35
Identities = 54/163 (33%), Positives = 86/163 (52%), Gaps = 6/163 (3%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAK 74
++ K+ L+TGA G+GR +A +G+ V+ +E E + + EI G A
Sbjct: 1 MSLEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEAL--VAEIGALGGKAL 58
Query: 75 AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
A D+ + SV+ +FG VDIL+NNAGI T+ +L + +E R+ + N+T
Sbjct: 59 AVQGDVSDAESVERAVDEAKAEFGGVDILVNNAGI-TRDNLL-MRMKEEDWDRVIDTNLT 116
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
G F + +A M+K+ G I+ ISS+ + G + YAASK
Sbjct: 117 GVFNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQANYAASK 159
>gnl|CDD|187593 cd05332, 11beta-HSD1_like_SDR_c, 11beta-hydroxysteroid
dehydrogenase type 1 (11beta-HSD1)-like, classical (c)
SDRs. Human 11beta_HSD1 catalyzes the NADP(H)-dependent
interconversion of cortisone and cortisol. This subgroup
also includes human dehydrogenase/reductase SDR family
member 7C (DHRS7C) and DHRS7B. These proteins have the
GxxxGxG nucleotide binding motif and S-Y-K catalytic
triad characteristic of the SDRs, but have an atypical
C-terminal domain that contributes to homodimerization
contacts. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 123 bits (312), Expect = 3e-35
Identities = 55/162 (33%), Positives = 90/162 (55%), Gaps = 4/162 (2%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQ-VLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
++ K+V+ITGA SG+G ELA + G++ VL A + EE E+ S
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREERL-EEVKSECLELGAPSPHVVP 59
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
+D+ + +++ + + FG +DILINNAGI + T I + +++ +N G
Sbjct: 60 LDMSDLEDAEQVVEEALKLFGGLDILINNAGISMRSLFHDTSI--DVDRKIMEVNYFGPV 117
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ +A LP +++R+QG IV +SS++ GV +AYAASK A
Sbjct: 118 ALTKAALPHLIERSQGSIVVVSSIAGKIGVPFRTAYAASKHA 159
>gnl|CDD|187594 cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase (BKR),
involved in Type II FAS, classical (c) SDRs. This
subgroup includes the Escherichai coli K12 BKR, FabG.
BKR catalyzes the NADPH-dependent reduction of ACP in
the first reductive step of de novo fatty acid synthesis
(FAS). FAS consists of four elongation steps, which are
repeated to extend the fatty acid chain through the
addition of two-carbo units from malonyl acyl-carrier
protein (ACP): condensation, reduction, dehydration, and
a final reduction. Type II FAS, typical of plants and
many bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 240
Score = 122 bits (309), Expect = 5e-35
Identities = 58/156 (37%), Positives = 89/156 (57%), Gaps = 3/156 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ L+TGA G+GR +AL G++V D E ETV + G+A A D+
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETV-EEIKALGGNAAALEADVS 59
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ +V+ L + V +FG VDIL+NNAGI T+ +L +++E + N+N+TG F + +
Sbjct: 60 DREAVEALVEKVEAEFGPVDILVNNAGI-TRDNLL-MRMSEEDWDAVINVNLTGVFNVTQ 117
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
A + M+KR G I+ ISS+ + G + YAASK
Sbjct: 118 AVIRAMIKRRSGRIINISSVVGLIGNPGQANYAASK 153
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase (KDSR)
and related proteins, classical (c) SDR. These proteins
include members identified as KDSR, ribitol type
dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 239
Score = 117 bits (295), Expect = 6e-33
Identities = 50/171 (29%), Positives = 81/171 (47%), Gaps = 23/171 (13%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVL------------CADIQNEPNEETVRMLNEI 68
K VLITG SG+G+ LA E VK G+ V+ +I+ E N ++
Sbjct: 1 GKHVLITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAEANASGQKVS--- 57
Query: 69 RQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRL 128
D+ + V++ G D+++N AGI + + D+T E+ +R
Sbjct: 58 ------YISADLSDYEEVEQAFAQAVEKGGPPDLVVNCAGISI-PGLFE-DLTAEEFERG 109
Query: 129 FNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
++N G + A LP M ++ GHIV +SS +++ G+ SAY SK+A
Sbjct: 110 MDVNYFGSLNVAHAVLPLMKEQRPGHIVFVSSQAALVGIYGYSAYCPSKFA 160
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 115 bits (289), Expect = 4e-32
Identities = 56/165 (33%), Positives = 85/165 (51%), Gaps = 9/165 (5%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAY 76
++ K LITGAG G+GR +A+ K G V L A + E N + V E+ K
Sbjct: 4 SLQGKNALITGAGRGIGRAVAIALAKEGVNVGLLA--RTEENLKAVA--EEVEAYGVKVV 59
Query: 77 H--VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
D+ + V + + + G +DILINNAGI K L ++ + +++ +N+
Sbjct: 60 IATADVSDYEEVTAAIEQLKNELGSIDILINNAGISKFGKFL--ELDPAEWEKIIQVNLM 117
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
G + RA LP M++R G I+ ISS + G A SAY+ASK+
Sbjct: 118 GVYYATRAVLPSMIERQSGDIINISSTAGQKGAAVTSAYSASKFG 162
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 114 bits (289), Expect = 5e-32
Identities = 52/159 (32%), Positives = 88/159 (55%), Gaps = 4/159 (2%)
Query: 22 KIVLITGAGSGLGRELALEFVKRG-SQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
++ L+TGA GLGR +AL + G V+ E EE V + + A+A D+
Sbjct: 7 RVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEAL-GRRAQAVQADV 65
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
++A+++ FG++DIL+NNAGI + D++D++ + ++N++G F ++
Sbjct: 66 TDKAALEAAVAAAVERFGRIDILVNNAGIFEDKPLA--DMSDDEWDEVIDVNLSGVFHLL 123
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
RA +P M K+ G IV ISS++ + G S YAA+K
Sbjct: 124 RAVVPPMRKQRGGRIVNISSVAGLPGWPGRSNYAAAKAG 162
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 113 bits (286), Expect = 1e-31
Identities = 56/168 (33%), Positives = 87/168 (51%), Gaps = 17/168 (10%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
+E K VLITGA SG+G A F+ +G+QV D Q++P+ G+
Sbjct: 1 QEFMTKTVLITGAASGIGLAQARAFLAQGAQVYGVDKQDKPDLS----------GNFHFL 50
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
+D+ ++ + + VDIL N AGIL +K L D + E+ Q +F+ N+T
Sbjct: 51 QLDLSDDL------EPLFDWVPSVDILCNTAGILDDYKPL-LDTSLEEWQHIFDTNLTST 103
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
F + RA+LP M++R G I+ + S++S +AY ASK A +T
Sbjct: 104 FLLTRAYLPQMLERKSGIIINMCSIASFVAGGGGAAYTASKHALAGFT 151
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 114 bits (287), Expect = 2e-31
Identities = 48/170 (28%), Positives = 79/170 (46%), Gaps = 11/170 (6%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+++ K+V ITG G+G A G++V D+ +ET L G
Sbjct: 2 DLRGKVVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAEL-----GLVVGGP 56
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGI--LTQFKILQTDITDEQIQRLFNINITG 135
+D+ + AS V D G +D+L+NNAG+ + F D D +R+ ++N+ G
Sbjct: 57 LDVTDPASFAAFLDAVEADLGPIDVLVNNAGVMPVGPF----LDEPDAVTRRILDVNVYG 112
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYTA 185
+ P MV R +GH+V ++S++ V + Y ASK A +T
Sbjct: 113 VILGSKLAAPRMVPRGRGHVVNVASLAGKIPVPGMATYCASKHAVVGFTD 162
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 113 bits (286), Expect = 2e-31
Identities = 47/156 (30%), Positives = 81/156 (51%), Gaps = 7/156 (4%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY--HVDIG 81
V+ITGA SGLGR +AL + + G ++ AD+ E EET L +R+ + D+
Sbjct: 3 VMITGAASGLGRAIALRWAREGWRLALADVNEEGGEET---LKLLREAGGDGFYQRCDVR 59
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ + + L + +G +D+++NNAG+ + + + D Q IN+ G + +
Sbjct: 60 DYSQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLEDWDWQ--IAINLMGVVKGCK 117
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
AFLP ++ G IV I+SM+ + S+Y +K
Sbjct: 118 AFLPLFKRQKSGRIVNIASMAGLMQGPAMSSYNVAK 153
>gnl|CDD|187600 cd05341, 3beta-17beta-HSD_like_SDR_c, 3beta17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs. This subgroup
includes members identified as 3beta17beta
hydroxysteroid dehydrogenase, 20beta hydroxysteroid
dehydrogenase, and R-alcohol dehydrogenase. These
proteins exhibit the canonical active site tetrad and
glycine rich NAD(P)-binding motif of the classical SDRs.
17beta-dehydrogenases are a group of isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 247
Score = 113 bits (285), Expect = 2e-31
Identities = 54/163 (33%), Positives = 88/163 (53%), Gaps = 6/163 (3%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
+K K+ ++TG GLG A V G++V+ +DI +E + L + +A+ +
Sbjct: 1 NRLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAELGD----AARFF 56
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
H+D+ +E + FG++D+L+NNAGILT + T E+ +RL +IN+TG
Sbjct: 57 HLDVTDEDGWTAVVDTAREAFGRLDVLVNNAGILTGGTV--ETTTLEEWRRLLDINLTGV 114
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
F RA +P M + G I+ +SS+ + G +AY ASK A
Sbjct: 115 FLGTRAVIPPMKEAGGGSIINMSSIEGLVGDPALAAYNASKGA 157
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 113 bits (285), Expect = 2e-31
Identities = 50/160 (31%), Positives = 76/160 (47%), Gaps = 5/160 (3%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGS-AKAYHVD 79
K+ ++TGA SG+G +A F G++V+ D E E EI G A A D
Sbjct: 5 GKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAA---EILAGGRAIAVAAD 61
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ +EA V+ FG VDIL+NNAG + L D+ + + R+F +N+ +
Sbjct: 62 VSDEADVEAAVAAALERFGSVDILVNNAGTTHRNGPL-LDVDEAEFDRIFAVNVKSPYLW 120
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+A +P M G IV ++S + + Y ASK A
Sbjct: 121 TQAAVPAMRGEGGGAIVNVASTAGLRPRPGLGWYNASKGA 160
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 113 bits (284), Expect = 4e-31
Identities = 46/171 (26%), Positives = 84/171 (49%), Gaps = 8/171 (4%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ---GSA 73
+K K LITGA SG+G ELA + +RG ++ + + E + E+
Sbjct: 2 GPMKGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEA---LAKELEDKTGVEV 58
Query: 74 KAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINI 133
+ D+ + +++ L + G +D+L+NNAG T L+ + +E+ + +NI
Sbjct: 59 EVIPADLSDPEALERLEDELKERGGPIDVLVNNAGFGTFGPFLELSLDEEE--EMIQLNI 116
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
R+ +A LP MV+R GHI+ I S + + + Y+A+K +++
Sbjct: 117 LALTRLTKAVLPGMVERGAGHIINIGSAAGLIPTPYMAVYSATKAFVLSFS 167
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 117 bits (296), Expect = 5e-31
Identities = 57/175 (32%), Positives = 86/175 (49%), Gaps = 9/175 (5%)
Query: 8 YSLISPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNE 67
L P K + K+ L+TGA G+G+ A G+ V+ AD+ E E L
Sbjct: 409 AKLQRMPKPKPLAGKVALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAELGG 468
Query: 68 IRQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQR 127
A D+ +EA+V+ + FG VDI+++NAGI I +T +DE +R
Sbjct: 469 --PDRALGVACDVTDEAAVQAAFEEAALAFGGVDIVVSNAGIAISGPIEET--SDEDWRR 524
Query: 128 LFNINITGHFRMVRAFLPDMVKRNQ---GHIVAISSMSSMTGVANASAYAASKWA 179
F++N TGHF + R + M + Q G IV I+S +++ N AY A+K A
Sbjct: 525 SFDVNATGHFLVAREAVRIM--KAQGLGGSIVFIASKNAVNPGPNFGAYGAAKAA 577
>gnl|CDD|233590 TIGR01830, 3oxo_ACP_reduc, 3-oxoacyl-(acyl-carrier-protein)
reductase. This model represents 3-oxoacyl-[ACP]
reductase, also called 3-ketoacyl-acyl carrier protein
reductase, an enzyme of fatty acid biosynthesis [Fatty
acid and phospholipid metabolism, Biosynthesis].
Length = 239
Score = 111 bits (281), Expect = 6e-31
Identities = 51/157 (32%), Positives = 86/157 (54%), Gaps = 6/157 (3%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHVDIG 81
L+TGA G+GR +AL+ K G++V+ +E E ++ E++ A D+
Sbjct: 1 ALVTGASRGIGRAIALKLAKEGAKVIITYRSSE--EGAEEVVEELKAYGVKALGVVCDVS 58
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ VK + + + + G +DIL+NNAGI T+ +L + +E + + N+TG F + +
Sbjct: 59 DREDVKAVVEEIEEELGPIDILVNNAGI-TRDNLL-MRMKEEDWDAVIDTNLTGVFNLTQ 116
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKW 178
A L M+K+ G I+ ISS+ + G A + YAASK
Sbjct: 117 AVLRIMIKQRSGRIINISSVVGLMGNAGQANYAASKA 153
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 109 bits (275), Expect = 9e-31
Identities = 38/160 (23%), Positives = 69/160 (43%), Gaps = 8/160 (5%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV--D 79
VLITG GLG LA G++ L + P ++ E+ A+ D
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEALGAEVTVAACD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + ++ L + G +D +++NAG+L L ++T E+ +R+ +TG + +
Sbjct: 61 VADRDALAALLAALPAALGPLDGVVHNAGVL-DDGPL-EELTPERFERVLAPKVTGAWNL 118
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ G V SS++ + G + YAA+ A
Sbjct: 119 HELTRD----LDLGAFVLFSSVAGVLGSPGQANYAAANAA 154
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 111 bits (281), Expect = 1e-30
Identities = 48/163 (29%), Positives = 84/163 (51%), Gaps = 14/163 (8%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+ K V +TGA G+G +AL FV+ G++V+ D E+ +
Sbjct: 5 DFSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGFDQAFLTQEDY----------PFATFV 54
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTD-ITDEQIQRLFNINITGH 136
+D+ + A+V ++ + + + G +D+L+N AGIL ++ TD ++DE Q+ F +N G
Sbjct: 55 LDVSDAAAVAQVCQRLLAETGPLDVLVNAAGIL---RMGATDSLSDEDWQQTFAVNAGGA 111
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
F + RA +P ++ G IV + S ++ +AY ASK A
Sbjct: 112 FNLFRAVMPQFRRQRSGAIVTVGSNAAHVPRIGMAAYGASKAA 154
>gnl|CDD|213929 TIGR04316, dhbA_paeA, 2,3-dihydro-2,3-dihydroxybenzoate
dehydrogenase. Members of this family are
2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase (EC
1.3.1.28), the third enzyme in the biosynthesis of
2,3-dihydroxybenzoic acid (DHB) from chorismate. The
first two enzymes are isochorismate synthase (EC
5.4.4.2) and isochorismatase (EC 3.3.2.1). Synthesis is
often followed by adenylation by the enzyme DHBA-AMP
ligase (EC 2.7.7.58) to activate (DHB) for a
non-ribosomal peptide synthetase.
Length = 250
Score = 111 bits (279), Expect = 1e-30
Identities = 52/156 (33%), Positives = 80/156 (51%), Gaps = 3/156 (1%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
VL+TGA G+G +A + G++V D E E V L Y +D+ +
Sbjct: 1 VLVTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRR-YGYPFATYKLDVADS 59
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
A+V E+ + + R++G +D+L+N AGIL I ++DE Q F +N G F + +A
Sbjct: 60 AAVDEVVQRLEREYGPIDVLVNVAGILRLGAI--DSLSDEDWQATFAVNTFGVFNVSQAV 117
Query: 144 LPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
P M +R G IV + S ++ +AYAASK A
Sbjct: 118 SPRMKRRRSGAIVTVGSNAANVPRMGMAAYAASKAA 153
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 113 bits (284), Expect = 2e-29
Identities = 60/175 (34%), Positives = 89/175 (50%), Gaps = 13/175 (7%)
Query: 11 ISPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ 70
R + K+VLITGA SG+GR A++ + G+ V E +E V + +
Sbjct: 361 RRRDLRGPLVGKVVLITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRA-KG 419
Query: 71 GSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITD--EQIQRL 128
G+A AY D+ + A+V K++ + G VD L+NNAG + + + TD +R
Sbjct: 420 GTAHAYTCDLTDSAAVDHTVKDILAEHGHVDYLVNNAGRSIRRSVENS--TDRFHDYERT 477
Query: 129 FNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGV-ANA---SAYAASKWA 179
+N G R++ LP M +R GH+V +SS+ GV NA SAY ASK A
Sbjct: 478 MAVNYFGAVRLILGLLPHMRERRFGHVVNVSSI----GVQTNAPRFSAYVASKAA 528
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 107 bits (270), Expect = 3e-29
Identities = 50/162 (30%), Positives = 83/162 (51%), Gaps = 6/162 (3%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGS-AKAYH 77
+ ++ ++TGAGSG+GR A F + G++V+ AD E E I G A A
Sbjct: 3 LAGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERV---AAAIAAGGRAFARQ 59
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+G+ +V+ L V +G++D+L+NNAG ++ TD + + +N+ G F
Sbjct: 60 GDVGSAEAVEALVDFVAARWGRLDVLVNNAGFGCGGTVVTTD--EADWDAVMRVNVGGVF 117
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ +P M ++ G IV +S ++ G +AY ASK A
Sbjct: 118 LWAKYAIPIMQRQGGGSIVNTASQLALAGGRGRAAYVASKGA 159
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 108 bits (272), Expect = 3e-29
Identities = 46/158 (29%), Positives = 75/158 (47%), Gaps = 6/158 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K LITG SG GR LA + G +V + +E + A A +D+
Sbjct: 5 KTWLITGVSSGFGRALAQAALAAGHRV----VGTVRSEAARADFEALHPDRALARLLDVT 60
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ ++ + + FG +D+L+NNAG ++ + +++R F +N+ G M +
Sbjct: 61 DFDAIDAVVADAEATFGPIDVLVNNAGY-GHEGAIE-ESPLAEMRRQFEVNVFGAVAMTK 118
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
A LP M R +GHIV I+SM + + Y SK+A
Sbjct: 119 AVLPGMRARRRGHIVNITSMGGLITMPGIGYYCGSKFA 156
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 108 bits (271), Expect = 4e-29
Identities = 51/161 (31%), Positives = 79/161 (49%), Gaps = 5/161 (3%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
VL+TG SG+GR +A F + G++V D+ T L + A D
Sbjct: 10 DGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAARLPGAKVT---ATVAD 66
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + A V+ + FG +D+L+NNAGI + +IT EQ ++ +N+ G F
Sbjct: 67 VADPAQVERVFDTAVERFGGLDVLVNNAGIAGPTGGID-EITPEQWEQTLAVNLNGQFYF 125
Query: 140 VRAFLPDMVKRNQG-HIVAISSMSSMTGVANASAYAASKWA 179
RA +P + G I+A+SS++ G + YAASKWA
Sbjct: 126 ARAAVPLLKASGHGGVIIALSSVAGRLGYPGRTPYAASKWA 166
>gnl|CDD|187626 cd05368, DHRS6_like_SDR_c, human DHRS6-like, classical (c) SDRs.
Human DHRS6, and similar proteins. These proteins are
classical SDRs, with a canonical active site tetrad and
a close match to the typical Gly-rich NAD-binding motif.
Human DHRS6 is a cytosolic type 2 (R)-hydroxybutyrate
dehydrogenase, which catalyses the conversion of
(R)-hydroxybutyrate to acetoacetate. Also included in
this subgroup is Escherichia coli UcpA (upstream cys P).
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction. Note: removed :
needed to make this chiodl smaller when drew final
trees: rmeoved text form description: Other proteins in
this subgroup include Thermoplasma acidophilum
aldohexose dehydrogenase, which has high dehydrogenase
activity against D-mannose, Bacillus subtilis BacC
involved in the biosynthesis of the dipeptide bacilysin
and its antibiotic moiety anticapsin, Sphingomonas
paucimobilis strain B90 LinC, involved in the
degradation of hexachlorocyclohexane isomers...... P).
Length = 241
Score = 107 bits (268), Expect = 5e-29
Identities = 54/159 (33%), Positives = 84/159 (52%), Gaps = 13/159 (8%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ LIT A G+GR +AL F + G+ V+ DI NEE ++ L R +D+
Sbjct: 3 KVALITAAAQGIGRAIALAFAREGANVIATDI----NEEKLKELE--RGPGITTRVLDVT 56
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
++ V L K + G++D+L N AG + IL D D+ N+N+ + M++
Sbjct: 57 DKEQVAALAK----EEGRIDVLFNCAGFVHHGSIL--DCEDDDWDFAMNLNVRSMYLMIK 110
Query: 142 AFLPDMVKRNQGHIVAISSM-SSMTGVANASAYAASKWA 179
A LP M+ R G I+ +SS+ SS+ GV N Y+ +K A
Sbjct: 111 AVLPKMLARKDGSIINMSSVASSIKGVPNRFVYSTTKAA 149
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 107 bits (269), Expect = 5e-29
Identities = 52/164 (31%), Positives = 74/164 (45%), Gaps = 3/164 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K L+TGA GLG A + G+ V D E L E G A A D+
Sbjct: 8 KRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAAL-EAAGGRAHAIAADLA 66
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ ASV+ G +D L+NNAGI T++ + + N+N+ G F M+R
Sbjct: 67 DPASVQRFFDAAAAALGGLDGLVNNAGITNSKSA--TELDIDTWDAVMNVNVRGTFLMLR 124
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYTA 185
A LP + +G IV ++S +++ G AY ASK A T
Sbjct: 125 AALPHLRDSGRGRIVNLASDTALWGAPKLGAYVASKGAVIGMTR 168
>gnl|CDD|187648 cd08944, SDR_c12, classical (c) SDR, subgroup 12. These are
classical SDRs, with the canonical active site tetrad
and glycine-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 246
Score = 106 bits (267), Expect = 8e-29
Identities = 53/162 (32%), Positives = 83/162 (51%), Gaps = 7/162 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
++ K+ ++TGAG+G+G A + G++V+ ADI + V + G A A V
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVAQIA----GGALALRV 56
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILT-QFKILQTDITDEQIQRLFNINITGHF 137
D+ +E V L + +FG +D+L+NNAG + I+ TD+ + IN+ G F
Sbjct: 57 DVTDEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIIDTDLAV--WDQTMAINLRGTF 114
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
R P M+ R G IV +SS++ +G AY ASK A
Sbjct: 115 LCCRHAAPRMIARGGGSIVNLSSIAGQSGDPGYGAYGASKAA 156
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 106 bits (267), Expect = 1e-28
Identities = 53/180 (29%), Positives = 93/180 (51%), Gaps = 19/180 (10%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
++KDK+++ITG GLGR +A ++G+++ D+ E EE V + Y
Sbjct: 2 DLKDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAEC-GALGTEVRGYA 60
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGI-----LTQFK--ILQTDITDEQIQRLFN 130
++ +E V+ + DFG+++ LINNAGI L + K + + ++ EQ Q + +
Sbjct: 61 ANVTDEEDVEATFAQIAEDFGQLNGLINNAGILRDGLLVKAKDGKVTSKMSLEQFQSVID 120
Query: 131 INITGHFRMVRAFLPDMVK-RNQGHIVAISSMSSMTGVANASAYAASK---------WAR 180
+N+TG F R M++ ++G I+ ISS+ + G + Y+ASK WA+
Sbjct: 121 VNLTGVFLCGREAAAKMIESGSKGVIINISSI-ARAGNMGQTNYSASKAGVAAMTVTWAK 179
>gnl|CDD|187644 cd08940, HBDH_SDR_c, d-3-hydroxybutyrate dehydrogenase (HBDH),
classical (c) SDRs. DHBDH, an NAD+ -dependent enzyme,
catalyzes the interconversion of D-3-hydroxybutyrate and
acetoacetate. It is a classical SDR, with the canonical
NAD-binding motif and active site tetrad. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 106 bits (266), Expect = 1e-28
Identities = 51/159 (32%), Positives = 79/159 (49%), Gaps = 3/159 (1%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH-V 78
K K+ L+TG+ SG+G +A G+ ++ + E VR + G YH
Sbjct: 1 KGKVALVTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEAVRAGLAAKHGVKVLYHGA 60
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ A+++++ R FG VDIL+NNAGI Q D E+ + +N++ F
Sbjct: 61 DLSKPAAIEDMVAYAQRQFGGVDILVNNAGI--QHVAPIEDFPTEKWDAIIALNLSAVFH 118
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
R LP M K+ G I+ I+S+ + AN SAY A+K
Sbjct: 119 TTRLALPHMKKQGWGRIINIASVHGLVASANKSAYVAAK 157
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 106 bits (266), Expect = 2e-28
Identities = 53/160 (33%), Positives = 91/160 (56%), Gaps = 5/160 (3%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG-SAKAYH 77
+K KI LITGA G+G +A + K G+ ++ DI E ++ + E G A Y
Sbjct: 8 LKGKIALITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRE--LGIEAHGYV 65
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ +E V+ + + ++ G +DIL+NNAGI+ + +L +++ E +++ +I++ F
Sbjct: 66 CDVTDEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPML--EMSAEDFRQVIDIDLNAPF 123
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ +A +P M+K+ G I+ I SM S G SAYAA+K
Sbjct: 124 IVSKAVIPSMIKKGHGKIINICSMMSELGRETVSAYAAAK 163
>gnl|CDD|212493 cd08932, HetN_like_SDR_c, HetN oxidoreductase-like, classical (c)
SDR. This subgroup includes Anabaena sp. strain PCC
7120 HetN, a putative oxidoreductase involved in
heterocyst differentiation, and related proteins. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 223
Score = 105 bits (263), Expect = 2e-28
Identities = 42/158 (26%), Positives = 76/158 (48%), Gaps = 7/158 (4%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ L+TGA G+G E+A + G +V E G +A D
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSLGLRNPEDLAALSA-----SGGDVEAVPYDAR 55
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ + L + FG++D+L++NAGI + + +D +++ F+IN+ + R
Sbjct: 56 DPEDARALVDALRDRFGRIDVLVHNAGIGRPTTLR--EGSDAELEAHFSINVIAPAELTR 113
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
A LP + + G +V ++S+S +A + Y+ASK+A
Sbjct: 114 ALLPALREAGSGRVVFLNSLSGKRVLAGNAGYSASKFA 151
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 105 bits (265), Expect = 3e-28
Identities = 51/160 (31%), Positives = 83/160 (51%), Gaps = 5/160 (3%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH- 77
+K K+ L+TGA SG+G E+AL K G++V+ AD+ +E L + G
Sbjct: 2 LKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQK--AGGKAIGVA 59
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
+D+ +E ++ FG VDIL+NNAGI Q D E+ +++ I + G F
Sbjct: 60 MDVTDEEAINAGIDYAVETFGGVDILVNNAGI--QHVAPIEDFPTEKWKKMIAIMLDGAF 117
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+A LP M + G I+ ++S+ + G A +AY ++K
Sbjct: 118 LTTKAALPIMKAQGGGRIINMASVHGLVGSAGKAAYVSAK 157
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 105 bits (263), Expect = 4e-28
Identities = 53/169 (31%), Positives = 88/169 (52%), Gaps = 7/169 (4%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
++ K+ L+TGA SG+G +A ++ G++V+ ADI+ EI A A
Sbjct: 2 MRLQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPARARLAAL---EIGPA-AIAV 57
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
+D+ + S+ + FG +DIL NNA + IL DI+ + RLF +N+ G
Sbjct: 58 SLDVTRQDSIDRIVAAAVERFGGIDILFNNAALFDMAPIL--DISRDSYDRLFAVNVKGL 115
Query: 137 FRMVRAFLPDMVKRNQG-HIVAISSMSSMTGVANASAYAASKWARYTYT 184
F +++A MV++ +G I+ ++S + G A S Y A+K A +YT
Sbjct: 116 FFLMQAVARHMVEQGRGGKIINMASQAGRRGEALVSHYCATKAAVISYT 164
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 105 bits (265), Expect = 4e-28
Identities = 55/177 (31%), Positives = 90/177 (50%), Gaps = 18/177 (10%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKA 75
+K K+ +ITG G LG +A E + G++V D E E V EI+ G A A
Sbjct: 7 SLKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVV---AEIKAAGGEALA 63
Query: 76 YHVDIGNEASVKELGKNVHRDFGKVDILINNAG--------ILTQFKILQT-----DITD 122
D+ ++ S+++ + + DFG DILIN AG ++++ D+ +
Sbjct: 64 VKADVLDKESLEQARQQILEDFGPCDILINGAGGNHPKATTDNEFHELIEPTKTFFDLDE 123
Query: 123 EQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
E + +F++N+ G + F DMV R G+I+ ISSM++ T + AY+A+K A
Sbjct: 124 EGFEFVFDLNLLGTLLPTQVFAKDMVGRKGGNIINISSMNAFTPLTKVPAYSAAKAA 180
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 105 bits (263), Expect = 5e-28
Identities = 57/169 (33%), Positives = 90/169 (53%), Gaps = 6/169 (3%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
K +++K+ +ITGA +G+G+ A+ + G+ VL DI E ETV + G AKAY
Sbjct: 2 KRLENKVAVITGASTGIGQASAIALAQEGAYVLAVDI-AEAVSETVDKIKS-NGGKAKAY 59
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQF-KILQTDITDEQIQRLFNINITG 135
HVDI +E VK+ + FG+VD+L NNAG+ +I + + + ++ +++ G
Sbjct: 60 HVDISDEQQVKDFASEIKEQFGRVDVLFNNAGVDNAAGRIHEYPV--DVFDKIMAVDMRG 117
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
F M + LP M++ G I+ SS S S Y A+K A +T
Sbjct: 118 TFLMTKMLLPLMME-QGGSIINTSSFSGQAADLYRSGYNAAKGAVINFT 165
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 104 bits (262), Expect = 6e-28
Identities = 51/162 (31%), Positives = 79/162 (48%), Gaps = 4/162 (2%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLN-EIRQGSAKAYHV 78
+++ ++ G G LG L + G +V ADI +E + +N E +G A +
Sbjct: 1 MNQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAEYGEGMAYGFGA 60
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D +E SV L + V FG+VD+L+ NAGI I TD R +N+ G+F
Sbjct: 61 DATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAFI--TDFQLGDFDRSLQVNLVGYFL 118
Query: 139 MVRAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWA 179
R F M++ QG I+ I+S S G + S Y+A+K+
Sbjct: 119 CAREFSRLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFG 160
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like,
classical (c) SDRs. Ga5DH catalyzes the NADP-dependent
conversion of carbon source D-gluconate and
5-keto-D-gluconate. This SDR subgroup has a classical
Gly-rich NAD(P)-binding motif and a conserved active
site tetrad pattern. However, it has been proposed that
Arg104 (Streptococcus suis Ga5DH numbering), as well as
an active site Ca2+, play a critical role in catalysis.
In addition to Ga5DHs this subgroup contains Erwinia
chrysanthemi KduD which is involved in pectin
degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 104 bits (261), Expect = 6e-28
Identities = 50/159 (31%), Positives = 85/159 (53%), Gaps = 3/159 (1%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+K K+ L+TGA G+G +A + G+ ++ NE E + L E A A+
Sbjct: 3 LKGKVALVTGASRGIGFGIASGLAEAGANIVINSR-NEEKAEEAQQLIEKEGVEATAFTC 61
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ +E ++K + + DFGK+DIL+NNAGI+ + + + + + + ++N+ G F
Sbjct: 62 DVSDEEAIKAAVEAIEEDFGKIDILVNNAGIIRRHPA--EEFPEAEWRDVIDVNLNGVFF 119
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ +A M+K+ G I+ I S+ S G AYAASK
Sbjct: 120 VSQAVARHMIKQGHGKIINICSLLSELGGPPVPAYAASK 158
>gnl|CDD|187604 cd05346, SDR_c5, classical (c) SDR, subgroup 5. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 104 bits (261), Expect = 9e-28
Identities = 49/159 (30%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K VLITGA SG+G A F K G++++ + E +E L +D+
Sbjct: 1 KTVLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKFPVKVLPLQLDVS 60
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGI-LTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ S++ +N+ +F +DIL+NNAG+ L + D+ D + + + N+ G +
Sbjct: 61 DRESIEAALENLPEEFRDIDILVNNAGLALGLDPAQEADLED--WETMIDTNVKGLLNVT 118
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
R LP M+ RNQGHI+ + S++ A + Y A+K A
Sbjct: 119 RLILPIMIARNQGHIINLGSIAGRYPYAGGNVYCATKAA 157
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 108 bits (271), Expect = 1e-27
Identities = 57/174 (32%), Positives = 90/174 (51%), Gaps = 4/174 (2%)
Query: 8 YSLISPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLN- 66
L P K + ++ +TG G+GRE A G+ V+ AD+ E E +N
Sbjct: 401 AKLRRMPKEKTLARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEING 460
Query: 67 EIRQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQ 126
+ G A A +D+ +E +VK +V +G VDI++NNAGI T +T T ++ Q
Sbjct: 461 QFGAGRAVALKMDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPFEET--TLQEWQ 518
Query: 127 RLFNINITGHFRMVRAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWA 179
+I TG+F + R M ++ G+IV I+S +++ NASAY+A+K A
Sbjct: 519 LNLDILATGYFLVAREAFRQMREQGLGGNIVFIASKNAVYAGKNASAYSAAKAA 572
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 103 bits (259), Expect = 2e-27
Identities = 53/162 (32%), Positives = 83/162 (51%), Gaps = 9/162 (5%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHV 78
K+V+ITGA G+GR LA+ + G+Q++ A + E+ G A
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQ---ELADHGGEALVVPT 57
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQI-QRLFNINITGHF 137
D+ + + + L + FG +DIL+NNAGI + + TD + +R+ +N G
Sbjct: 58 DVSDAEACERLIEAAVARFGGIDILVNNAGITMWSRFDEL--TDLSVFERVMRVNYLGAV 115
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
A LP + K ++G IV +SS++ +TGV S YAASK A
Sbjct: 116 YCTHAALPHL-KASRGQIVVVSSLAGLTGVPTRSGYAASKHA 156
>gnl|CDD|187610 cd05352, MDH-like_SDR_c, mannitol dehydrogenase (MDH)-like,
classical (c) SDRs. NADP-mannitol dehydrogenase
catalyzes the conversion of fructose to mannitol, an
acyclic 6-carbon sugar. MDH is a tetrameric member of
the SDR family. This subgroup also includes various
other tetrameric SDRs, including Pichia stipitis
D-arabinitol dehydrogenase (aka polyol dehydrogenase),
Candida albicans Sou1p, a sorbose reductase, and Candida
parapsilosis (S)-specific carbonyl reductase (SCR, aka
S-specific alcohol dehydrogenase) which catalyzes the
enantioselective reduction of 2-hydroxyacetophenone into
(S)-1-phenyl-1,2-ethanediol. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser).
Length = 252
Score = 102 bits (257), Expect = 3e-27
Identities = 52/164 (31%), Positives = 81/164 (49%), Gaps = 8/164 (4%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K K+ ++TG G+G +A + G+ V EE L + KAY D
Sbjct: 7 KGKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAKKYGVKTKAYKCD 66
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ ++ SV++ K + +DFGK+DILI NAGI L D T EQ ++ ++N+ G F
Sbjct: 67 VSSQESVEKTFKQIQKDFGKIDILIANAGITVHKPAL--DYTYEQWNKVIDVNLNGVFNC 124
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANA----SAYAASKWA 179
+A K+ +G ++ +SMS + N +AY ASK A
Sbjct: 125 AQAAAKIFKKQGKGSLIITASMSGT--IVNRPQPQAAYNASKAA 166
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 102 bits (257), Expect = 5e-27
Identities = 49/171 (28%), Positives = 77/171 (45%), Gaps = 13/171 (7%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAK-- 74
K+ K+ +ITGA SG G A G +++ AD+Q + + V E+R A+
Sbjct: 2 KDFAGKVAVITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVA---ELRAQGAEVL 58
Query: 75 AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
D+ + A V+ L FG V +L NNAG+ + + + D + + +N+
Sbjct: 59 GVRTDVSDAAQVEALADAALERFGAVHLLFNNAGVGAGGLVWENSLAD--WEWVLGVNLW 116
Query: 135 GHFRMVRAFLPDMVKRN------QGHIVAISSMSSMTGVANASAYAASKWA 179
G VRAF P M+ +GHIV +SM+ + Y SK A
Sbjct: 117 GVIHGVRAFTPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMGIYNVSKHA 167
>gnl|CDD|187584 cd05323, ADH_SDR_c_like, insect type alcohol dehydrogenase
(ADH)-like, classical (c) SDRs. This subgroup contains
insect type ADH, and 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) type I; these proteins are
classical SDRs. ADH catalyzes the NAD+-dependent
oxidation of alcohols to aldehydes/ketones. This
subgroup is distinct from the zinc-dependent alcohol
dehydrogenases of the medium chain
dehydrogenase/reductase family, and evolved in fruit
flies to allow the digestion of fermenting fruit.
15-PGDH catalyzes the NAD-dependent interconversion of
(5Z,13E)-(15S)-11alpha,15-dihydroxy-9-oxoprost-13-enoate
and (5Z,13E)-11alpha-hydroxy-9,15-dioxoprost-13-enoate,
and has a typical SDR glycine-rich NAD-binding motif,
which is not fully present in ADH. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 101 bits (255), Expect = 6e-27
Identities = 47/160 (29%), Positives = 69/160 (43%), Gaps = 6/160 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEI-RQGSAKAYHVDI 80
K+ +ITG SG+G A +K+G++V D P L I + A D+
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAA--ELQAINPKVKATFVQCDV 58
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ + K FG+VDILINNAGIL + L ++ ++N+TG
Sbjct: 59 TSWEQLAAAFKKAIEKFGRVDILINNAGILDEKSYLFAGKLPPPWEKTIDVNLTGVINTT 118
Query: 141 RAFLPDMVKRNQGH---IVAISSMSSMTGVANASAYAASK 177
L M K G IV I S++ + Y+ASK
Sbjct: 119 YLALHYMDKNKGGKGGVIVNIGSVAGLYPAPQFPVYSASK 158
>gnl|CDD|211705 TIGR01963, PHB_DH, 3-hydroxybutyrate dehydrogenase. This model
represents a subfamily of the short chain
dehydrogenases. Characterized members so far as
3-hydroxybutyrate dehydrogenases and are found in
species that accumulate ester polmers called
polyhydroxyalkanoic acids (PHAs) under certain
conditions. Several members of the family are from
species not known to accumulate PHAs, including
Oceanobacillus iheyensis and Bacillus subtilis. However,
polymer formation is not required for there be a role
for 3-hydroxybutyrate dehydrogenase; it may be members
of this family have the same function in those species.
Length = 255
Score = 102 bits (255), Expect = 6e-27
Identities = 48/157 (30%), Positives = 73/157 (46%), Gaps = 3/157 (1%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
K L+TGA SG+G +A G+ V+ D E E ++ + GS D+
Sbjct: 1 GKTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDAG-GSVIYLPADV 59
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
E + ++ +FG +DIL+NNAGI Q + E R+ + +T F +
Sbjct: 60 TKEDEIADMIAAAAAEFGGLDILVNNAGI--QHVAPIEEFPPEDWDRIIAVMLTSAFHTI 117
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
RA LP M K+ G I+ I+S + SAY A+K
Sbjct: 118 RAALPHMKKQGWGRIINIASAHGLVASPFKSAYVAAK 154
>gnl|CDD|187647 cd08943, R1PA_ADH_SDR_c, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase, classical (c) SDRs. This family has
bifunctional proteins with an N-terminal aldolase and a
C-terminal classical SDR domain. One member is
identified as a rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase. The SDR domain has a canonical SDR
glycine-rich NAD(P) binding motif and a match to the
characteristic active site triad. However, it lacks an
upstream active site Asn typical of SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 100 bits (252), Expect = 2e-26
Identities = 53/159 (33%), Positives = 83/159 (52%), Gaps = 5/159 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ L+TG SG+G +A G+ V+ ADI E E V + A D+
Sbjct: 2 KVALVTGGASGIGLAIAKRLAAEGAAVVVADIDPE-IAEKVAEAAQGGPR-ALGVQCDVT 59
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+EA V+ + +FG +DI+++NAGI T I +T + E R +IN+TGHF + R
Sbjct: 60 SEAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAET--SLEDWNRSMDINLTGHFLVSR 117
Query: 142 AFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWA 179
M + G+IV +S +++ NA+AY+A+K A
Sbjct: 118 EAFRIMKSQGIGGNIVFNASKNAVAPGPNAAAYSAAKAA 156
>gnl|CDD|187611 cd05353, hydroxyacyl-CoA-like_DH_SDR_c-like, (3R)-hydroxyacyl-CoA
dehydrogenase-like, classical(c)-like SDRs. Beta
oxidation of fatty acids in eukaryotes occurs by a
four-reaction cycle, that may take place in mitochondria
or in peroxisomes. (3R)-hydroxyacyl-CoA dehydrogenase is
part of rat peroxisomal multifunctional MFE-2, it is a
member of the NAD-dependent SDRs, but contains an
additional small C-terminal domain that completes the
active site pocket and participates in dimerization. The
atypical, additional C-terminal extension allows for
more extensive dimerization contact than other SDRs.
MFE-2 catalyzes the second and third reactions of the
peroxisomal beta oxidation cycle. Proteins in this
subgroup have a typical catalytic triad, but have a His
in place of the usual upstream Asn. This subgroup also
contains members identified as 17-beta-hydroxysteroid
dehydrogenases, including human peroxisomal
17-beta-hydroxysteroid dehydrogenase type 4 (17beta-HSD
type 4, aka MFE-2, encoded by HSD17B4 gene) which is
involved in fatty acid beta-oxidation and steroid
metabolism. This subgroup also includes two SDR domains
of the Neurospora crassa and Saccharomyces cerevisiae
multifunctional beta-oxidation protein (MFP, aka Fox2).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 250
Score = 100 bits (252), Expect = 2e-26
Identities = 53/167 (31%), Positives = 90/167 (53%), Gaps = 15/167 (8%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETV------RMLNEIRQGSA 73
++VL+TGAG GLGR AL F +RG++V+ D+ + ++++EI+
Sbjct: 4 DGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKAAGG 63
Query: 74 KAYHVDIGNEASVKE---LGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFN 130
KA + N SV++ + K FG+VDIL+NNAGIL + +++E +
Sbjct: 64 KA----VANYDSVEDGEKIVKTAIDAFGRVDILVNNAGILRDRSFAK--MSEEDWDLVMR 117
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+++ G F++ RA P M K+ G I+ SS + + G + Y+A+K
Sbjct: 118 VHLKGSFKVTRAAWPYMRKQKFGRIINTSSAAGLYGNFGQANYSAAK 164
>gnl|CDD|187618 cd05360, SDR_c3, classical (c) SDR, subgroup 3. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 233
Score = 98.2 bits (245), Expect = 1e-25
Identities = 54/157 (34%), Positives = 84/157 (53%), Gaps = 3/157 (1%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
+V+ITGA SG+GR AL F +RG++V+ A E E R + E G A A D+ +
Sbjct: 2 VVVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRE-LGGEAIAVVADVAD 60
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
A V+ FG++D +NNAG+ F + D+T E+ +R+F++N GH A
Sbjct: 61 AAQVERAADTAVERFGRIDTWVNNAGV-AVFGRFE-DVTPEEFRRVFDVNYLGHVYGTLA 118
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
LP + +R G ++ + S+ +AY+ASK A
Sbjct: 119 ALPHLRRRGGGALINVGSLLGYRSAPLQAAYSASKHA 155
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 98.9 bits (247), Expect = 1e-25
Identities = 50/174 (28%), Positives = 85/174 (48%), Gaps = 17/174 (9%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
++ KI+++TG SG+G + E + G+ V+ ADI + + + +
Sbjct: 6 NLQGKIIIVTGGSSGIGLAIVKELLANGANVVNADIHG----------GDGQHENYQFVP 55
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGI-----LTQFKIL--QTDITDEQIQRLFN 130
D+ + V + FG++D L+NNAGI L K + ++ + ++FN
Sbjct: 56 TDVSSAEEVNHTVAEIIEKFGRIDGLVNNAGINIPRLLVDEKDPAGKYELNEAAFDKMFN 115
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
IN G F M +A MVK++ G IV +SS + + G S YAA+K A ++T
Sbjct: 116 INQKGVFLMSQAVARQMVKQHDGVIVNMSSEAGLEGSEGQSCYAATKAALNSFT 169
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 228
Score = 97.8 bits (244), Expect = 2e-25
Identities = 49/168 (29%), Positives = 86/168 (51%), Gaps = 5/168 (2%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
++ VLITG SG+G LA +F++ G+ V+ + E E + L +
Sbjct: 1 MKLTGNTVLITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKEL-----PNIHTI 55
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
+D+G+ SV+ L + + ++ +DILINNAGI + ++ + N+ G
Sbjct: 56 VLDVGDAESVEALAEALLSEYPNLDILINNAGIQRPIDLRDPASDLDKADTEIDTNLIGP 115
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
R+++AFLP + K+ + IV +SS + +A Y A+K A ++YT
Sbjct: 116 IRLIKAFLPHLKKQPEATIVNVSSGLAFVPMAANPVYCATKAALHSYT 163
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 98.5 bits (246), Expect = 2e-25
Identities = 51/166 (30%), Positives = 75/166 (45%), Gaps = 15/166 (9%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLN----EIRQGSAKA 75
K K+V+++G G GLGR LA+ + G+ V+ A T L+ EI +A
Sbjct: 4 KGKVVVVSGVGPGLGRTLAVRAARAGADVVLA-------ARTAERLDEVAAEIDDLGRRA 56
Query: 76 YHV--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINI 133
V DI +E L FG+VD L+NNA + K L D + + +N+
Sbjct: 57 LAVPTDITDEDQCANLVALALERFGRVDALVNNAFRVPSMKPLA-DADFAHWRAVIELNV 115
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
G R+ +AF P + + G IV I+SM AY +K A
Sbjct: 116 LGTLRLTQAFTPAL-AESGGSIVMINSMVLRHSQPKYGAYKMAKGA 160
>gnl|CDD|187620 cd05362, THN_reductase-like_SDR_c,
tetrahydroxynaphthalene/trihydroxynaphthalene
reductase-like, classical (c) SDRs.
1,3,6,8-tetrahydroxynaphthalene reductase (4HNR) of
Magnaporthe grisea and the related
1,3,8-trihydroxynaphthalene reductase (3HNR) are typical
members of the SDR family containing the canonical
glycine rich NAD(P)-binding site and active site tetrad,
and function in fungal melanin biosynthesis. This
subgroup also includes an SDR from Norway spruce that
may function to protect against both biotic and abitoic
stress. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 97.7 bits (244), Expect = 2e-25
Identities = 51/167 (30%), Positives = 83/167 (49%), Gaps = 6/167 (3%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQN-EPNEETVRMLNEIRQGSAKAYH 77
+ K+ L+TGA G+GR +A + G+ V+ + EE V + G A A
Sbjct: 1 LAGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIEA-AGGKAIAVQ 59
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ + + V L + FG VDIL+NNAG++ K + + ++E+ R+F +N G F
Sbjct: 60 ADVSDPSQVARLFDAAEKAFGGVDILVNNAGVM-LKKPI-AETSEEEFDRMFTVNTKGAF 117
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+++ + R+ G I+ ISS + N AYA SK A +T
Sbjct: 118 FVLQEAAKRL--RDGGRIINISSSLTAAYTPNYGAYAGSKAAVEAFT 162
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 98.4 bits (246), Expect = 2e-25
Identities = 51/162 (31%), Positives = 77/162 (47%), Gaps = 15/162 (9%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVL--CADIQNEPNEETVRMLNEIRQGSAKAYH 77
K+ L+TGA SG+GR A + + G +V + V +L
Sbjct: 3 NSKVALVTGASSGIGRATAEKLARAGYRVFGTSRNPARAAPIPGVELL-----------E 51
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
+D+ ++ASV+ V G++D+L+NNAG+ ++ I Q Q LF+ N+ G
Sbjct: 52 LDVTDDASVQAAVDEVIARAGRIDVLVNNAGVGLAGAAEESSI--AQAQALFDTNVFGIL 109
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
RM RA LP M + G I+ ISS+ + YAASK A
Sbjct: 110 RMTRAVLPHMRAQGSGRIINISSVLGFLPAPYMALYAASKHA 151
>gnl|CDD|187613 cd05355, SDR_c1, classical (c) SDR, subgroup 1. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 270
Score = 97.7 bits (244), Expect = 3e-25
Identities = 57/169 (33%), Positives = 91/169 (53%), Gaps = 8/169 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQV--LCADIQNEPNEETVRMLNEIRQGSAKAY 76
+K K LITG SG+GR +A+ F + G+ V + + EET +++ E
Sbjct: 24 LKGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLI-EEEGRKCLLI 82
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGI-LTQFKILQTDITDEQIQRLFNINITG 135
D+G+E+ ++L K V ++FGK+DIL+NNA Q I DIT EQ+++ F NI
Sbjct: 83 PGDLGDESFCRDLVKEVVKEFGKLDILVNNAAYQHPQESI--EDITTEQLEKTFRTNIFS 140
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
F + +A LP + K I+ +S+++ G + YAA+K A +T
Sbjct: 141 MFYLTKAALPHLKK--GSSIINTTSVTAYKGSPHLLDYAATKGAIVAFT 187
>gnl|CDD|187640 cd08935, mannonate_red_SDR_c, putative D-mannonate oxidoreductase,
classical (c) SDR. D-mannonate oxidoreductase catalyzes
the NAD-dependent interconversion of D-mannonate and
D-fructuronate. This subgroup includes Bacillus
subtitils UxuB/YjmF, a putative D-mannonate
oxidoreductase; the B. subtilis UxuB gene is part of a
putative ten-gene operon (the Yjm operon) involved in
hexuronate catabolism. Escherichia coli UxuB does not
belong to this subgroup. This subgroup has a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 271
Score = 97.9 bits (244), Expect = 3e-25
Identities = 48/174 (27%), Positives = 87/174 (50%), Gaps = 13/174 (7%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+K+K+ +ITG LG +A + G++V E ++ + + + G A A
Sbjct: 2 SLKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITAL-GGRAIALA 60
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGIL----------TQFKILQT--DITDEQI 125
D+ + AS++ + + FG VDILIN AG + + Q D+ +E
Sbjct: 61 ADVLDRASLERAREEIVAQFGTVDILINGAGGNHPDATTDPEHYEPETEQNFFDLDEEGW 120
Query: 126 QRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ +F++N+ G F + F DM+++ G I+ ISSM++ + + AY+A+K A
Sbjct: 121 EFVFDLNLNGSFLPSQVFGKDMLEQKGGSIINISSMNAFSPLTKVPAYSAAKAA 174
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 97.8 bits (244), Expect = 4e-25
Identities = 46/160 (28%), Positives = 82/160 (51%), Gaps = 9/160 (5%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAK-AYH--V 78
K +TGA SG+GR AL +G+++ D + +TV + R H +
Sbjct: 1 KRCFVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVA---DARALGGTVPEHRAL 57
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
DI + +V ++H G +D+++N AGI + +T EQ +R+ ++N+ G
Sbjct: 58 DISDYDAVAAFAADIHAAHGSMDVVMNIAGISAWGTV--DRLTHEQWRRMVDVNLMGPIH 115
Query: 139 MVRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASK 177
++ F+P MV + GH+V +SS + + + +AY+ASK
Sbjct: 116 VIETFVPPMVAAGRGGHLVNVSSAAGLVALPWHAAYSASK 155
>gnl|CDD|187624 cd05366, meso-BDH-like_SDR_c, meso-2,3-butanediol
dehydrogenase-like, classical (c) SDRs. 2,3-butanediol
dehydrogenases (BDHs) catalyze the NAD+ dependent
conversion of 2,3-butanediol to acetonin; BDHs are
classified into types according to their
stereospecificity as to substrates and products.
Included in this subgroup are Klebsiella pneumonia
meso-BDH which catalyzes meso-2,3-butanediol to
D(-)-acetonin, and Corynebacterium glutamicum L-BDH
which catalyzes lX+)-2,3-butanediol to L(+)-acetonin.
This subgroup is comprised of classical SDRs with the
characteristic catalytic triad and NAD-binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 97.1 bits (242), Expect = 5e-25
Identities = 48/160 (30%), Positives = 85/160 (53%), Gaps = 5/160 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPN-EETVRMLNEIRQGSAKAYHVDI 80
K+ +ITGA G+GR +A G ++ AD+ E + T++ ++E +A A D+
Sbjct: 3 KVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEISE-AGYNAVAVGADV 61
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
++ V+ L FG D+++NNAGI +L IT+E +++++ +N+ G +
Sbjct: 62 TDKDDVEALIDQAVEKFGSFDVMVNNAGIAPITPLL--TITEEDLKKVYAVNVFGVLFGI 119
Query: 141 RAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWA 179
+A K G I+ SS++ + G N AY+ASK+A
Sbjct: 120 QAAARQFKKLGHGGKIINASSIAGVQGFPNLGAYSASKFA 159
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 100 bits (250), Expect = 5e-25
Identities = 54/159 (33%), Positives = 87/159 (54%), Gaps = 5/159 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
++VL+TGA G+GR F + G QV+ AD E E L A +D+
Sbjct: 6 RVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGP----DHHALAMDVS 61
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+EA ++E + +HR+FG++D+L+NNAG+ D T E+ RL IN+TG + + R
Sbjct: 62 DEAQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATLDTTLEEFARLQAINLTGAYLVAR 121
Query: 142 AFLPDMVKRNQGH-IVAISSMSSMTGVANASAYAASKWA 179
L M+++ G IV ++S + + + +AY+ASK A
Sbjct: 122 EALRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASKAA 160
Score = 93.0 bits (231), Expect = 2e-22
Identities = 49/158 (31%), Positives = 81/158 (51%), Gaps = 7/158 (4%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
++V ITG G+GR +A F G ++L D E ++ L E + DI
Sbjct: 270 RVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKK----LAEALGDEHLSVQADIT 325
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+EA+V+ + +G++D+L+NNAGI FK + + E R++++N++G F R
Sbjct: 326 DEAAVESAFAQIQARWGRLDVLVNNAGIAEVFKPS-LEQSAEDFTRVYDVNLSGAFACAR 384
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
A M G IV + S++S+ + +AY ASK A
Sbjct: 385 AAARLM--SQGGVIVNLGSIASLLALPPRNAYCASKAA 420
>gnl|CDD|187631 cd05373, SDR_c10, classical (c) SDR, subgroup 10. This subgroup
resembles the classical SDRs, but has an incomplete
match to the canonical glycine rich NAD-binding motif
and lacks the typical active site tetrad (instead of the
critical active site Tyr, it has Phe, but contains the
nearby Lys). SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 238
Score = 96.7 bits (241), Expect = 5e-25
Identities = 44/157 (28%), Positives = 73/157 (46%), Gaps = 2/157 (1%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
+ + GAG GLG +A F G V A + E + + GSAKA D +
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDAGGSAKAVPTDARD 60
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
E V L + + G +++L+ NAG F IL + T ++++ + G F R
Sbjct: 61 EDEVIALFDLIEEEIGPLEVLVYNAGANVWFPIL--ETTPRVFEKVWEMAAFGGFLAARE 118
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
M+ R +G I+ + +S+ G A +A+A +K+A
Sbjct: 119 AAKRMLARGRGTIIFTGATASLRGRAGFAAFAGAKFA 155
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 97.3 bits (243), Expect = 7e-25
Identities = 47/166 (28%), Positives = 88/166 (53%), Gaps = 9/166 (5%)
Query: 14 PPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSA 73
PP + K+V++TGA G+G ELA RG+++ D++ L G
Sbjct: 2 PPMTSLAGKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAELG----GDD 57
Query: 74 KAYHV--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNI 131
+ V D+ + A+++ + FG +D+++ NAGI + + Q D + +R+ ++
Sbjct: 58 RVLTVVADVTDLAAMQAAAEEAVERFGGIDVVVANAGIASGGSVAQVD--PDAFRRVIDV 115
Query: 132 NITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
N+ G F VRA LP +++R +G+++ +SS+++ +AY ASK
Sbjct: 116 NLLGVFHTVRATLPALIER-RGYVLQVSSLAAFAAAPGMAAYCASK 160
>gnl|CDD|131468 TIGR02415, 23BDH, acetoin reductases. One member of this family,
as characterized in Klebsiella terrigena, is described
as able to interconvert acetoin + NADH with
meso-2,3-butanediol + NAD(+). It is also called capable
of irreversible reduction of diacetyl with NADH to
acetoin. Blomqvist, et al. decline to specify either EC
1.1.1.4 which is (R,R)-butanediol dehydrogenase, or EC
1.1.1.5, which is acetoin dehydrogenase without a
specified stereochemistry, for this enzyme. This enzyme
is a homotetramer in the family of short chain
dehydrogenases (pfam00106). Another member of this
family, from Corynebacterium glutamicum, is called
L-2,3-butanediol dehydrogenase (PMID:11577733) [Energy
metabolism, Fermentation].
Length = 254
Score = 96.4 bits (240), Expect = 8e-25
Identities = 48/159 (30%), Positives = 87/159 (54%), Gaps = 4/159 (2%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ L+TG G+G+ +A K G V AD+ E +ET + +N+ G A AY +D+
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQ-AGGKAVAYKLDVS 59
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
++ V FG D+++NNAG+ IL +IT+E++++++N+N+ G ++
Sbjct: 60 DKDQVFSAIDQAAEKFGGFDVMVNNAGVAPITPIL--EITEEELKKVYNVNVKGVLFGIQ 117
Query: 142 AFLPDMVK-RNQGHIVAISSMSSMTGVANASAYAASKWA 179
A K + G I+ +S++ G SAY+++K+A
Sbjct: 118 AAARQFKKQGHGGKIINAASIAGHEGNPILSAYSSTKFA 156
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 96.4 bits (240), Expect = 1e-24
Identities = 60/169 (35%), Positives = 84/169 (49%), Gaps = 15/169 (8%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K LITGA G+G +A F + G+ ++ DI E E+ L R A D+
Sbjct: 7 KTALITGALQGIGEGIARVFARHGANLILLDISPEI-EKLADELCG-RGHRCTAVVADVR 64
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGI--LTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ ASV K G++DIL+NNAG+ L F + + D I INI G + +
Sbjct: 65 DPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFHID----INIKGVWNV 120
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTG--VANA--SAYAASKWARYTYT 184
+A LP+M+ R G IV MSS+TG VA+ +AYA +K A T
Sbjct: 121 TKAVLPEMIARKDGRIV---MMSSVTGDMVADPGETAYALTKAAIVGLT 166
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 95.7 bits (239), Expect = 1e-24
Identities = 47/168 (27%), Positives = 71/168 (42%), Gaps = 16/168 (9%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAK--AY 76
IK K+VL+TGA G+GR + + RG+ + A R + +
Sbjct: 4 IKGKVVLVTGANRGIGRAFVEQLLARGAAKVYA---------AARDPESVTDLGPRVVPL 54
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
+D+ + ASV V IL+NNAGI +L ++ ++ N G
Sbjct: 55 QLDVTDPASVAAAA----EAASDVTILVNNAGIFRTGSLLLEG-DEDALRAEMETNYFGP 109
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
M RAF P + G IV + S+ S N Y+ASK A ++ T
Sbjct: 110 LAMARAFAPVLAANGGGAIVNVLSVLSWVNFPNLGTYSASKAAAWSLT 157
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 96.4 bits (240), Expect = 1e-24
Identities = 49/163 (30%), Positives = 83/163 (50%), Gaps = 2/163 (1%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
K+ L+TG +G+GR AL F + G++V+ AD EETV ++ E G A
Sbjct: 3 MTFSGKVALVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREA-GGEALFV 61
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ +A VK L + +G++D NNAGI + L + ++ + + +N+ G
Sbjct: 62 ACDVTRDAEVKALVEQTIAAYGRLDYAFNNAGIEIEQGRL-AEGSEAEFDAIMGVNVKGV 120
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ ++ +P M+ + G IV +S++ + S YAASK A
Sbjct: 121 WLCMKYQIPLMLAQGGGAIVNTASVAGLGAAPKMSIYAASKHA 163
>gnl|CDD|187587 cd05326, secoisolariciresinol-DH_like_SDR_c, secoisolariciresinol
dehydrogenase (secoisolariciresinol-DH)-like, classical
(c) SDRs. Podophyllum secoisolariciresinol-DH is a homo
tetrameric, classical SDR that catalyzes the
NAD-dependent conversion of (-)-secoisolariciresinol to
(-)-matairesinol via a (-)-lactol intermediate.
(-)-Matairesinol is an intermediate to various
8'-lignans, including the cancer-preventive mammalian
lignan, and those involved in vascular plant defense.
This subgroup also includes rice momilactone A synthase
which catalyzes the conversion of
3beta-hydroxy-9betaH-pimara-7,15-dien-19,6beta-olide
into momilactone A, Arabidopsis ABA2 which during
abscisic acid (ABA) biosynthesis, catalyzes the
conversion of xanthoxin to abscisic aldehyde and, maize
Tasselseed2 which participate in the maize sex
determination pathway. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 96.0 bits (239), Expect = 1e-24
Identities = 50/163 (30%), Positives = 85/163 (52%), Gaps = 7/163 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ K+ +ITG SG+G A F K G++V+ ADI ++ + E+ H
Sbjct: 2 LDGKVAIITGGASGIGEATARLFAKHGARVVIADIDDDAGQAVA---AELGDPDISFVHC 58
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGIL--TQFKILQTDITDEQIQRLFNINITGH 136
D+ EA V+ FG++DI+ NNAG+L + IL+T + E+ +R+ ++N+ G
Sbjct: 59 DVTVEADVRAAVDTAVARFGRLDIMFNNAGVLGAPCYSILETSL--EEFERVLDVNVYGA 116
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
F + M+ +G IV+++S++ + G AY ASK A
Sbjct: 117 FLGTKHAARVMIPAKKGSIVSVASVAGVVGGLGPHAYTASKHA 159
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 95.6 bits (238), Expect = 2e-24
Identities = 60/169 (35%), Positives = 86/169 (50%), Gaps = 7/169 (4%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
K+++ITGA G+G AL +RG V ++N E V + G A A D+
Sbjct: 2 RKVMIITGASRGIGAATALLAAERGYAVCLNYLRNRDAAEAVVQAIRRQGGEALAVAADV 61
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGIL-TQFKILQTDITDEQIQRLFNINITGHFRM 139
+EA V L + V R+ G++D L+NNAGIL Q ++ Q D ++ R+F N+ G F
Sbjct: 62 ADEADVLRLFEAVDRELGRLDALVNNAGILEAQMRLEQMDAA--RLTRIFATNVVGSFLC 119
Query: 140 VRAFLPDMVKRNQGH---IVAISSMSSMTGVANASA-YAASKWARYTYT 184
R + M R+ G IV +SSM++ G YAASK A T T
Sbjct: 120 AREAVKRMSTRHGGRGGAIVNVSSMAARLGSPGEYIDYAASKGAIDTMT 168
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 95.1 bits (237), Expect = 3e-24
Identities = 45/159 (28%), Positives = 80/159 (50%), Gaps = 6/159 (3%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
K+ ++TG SG+G +A F +G++V D +E+ + ++ G+AK D+
Sbjct: 15 GKVAVVTGGASGIGHAIAELFAAKGARVALLDR----SEDVAEVAAQLLGGNAKGLVCDV 70
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ SV+ V FG++DIL+N+AG+ D+++E + +IN+ G F M
Sbjct: 71 SDSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAE--DVSEEDWDKTIDINLKGSFLMA 128
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+A M+ G IV ++S + + + AY ASK
Sbjct: 129 QAVGRHMIAAGGGKIVNLASQAGVVALERHVAYCASKAG 167
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 94.9 bits (236), Expect = 3e-24
Identities = 51/162 (31%), Positives = 87/162 (53%), Gaps = 14/162 (8%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+KDK+ ++TG G+G+ + + GS V+ DI+ EP+ V +
Sbjct: 3 GLKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINFDIK-EPSYNDV-----------DYFK 50
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
VD+ N+ V + V +G++DIL+NNAGI + I + ++ R+ N+N+ G F
Sbjct: 51 VDVSNKEQVIKGIDYVISKYGRIDILVNNAGIESYGAIHAVEE--DEWDRIINVNVNGIF 108
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
M + +P M+K+++G I+ I+S+ S NA+AY SK A
Sbjct: 109 LMSKYTIPYMLKQDKGVIINIASVQSFAVTRNAAAYVTSKHA 150
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 95.6 bits (238), Expect = 3e-24
Identities = 57/184 (30%), Positives = 94/184 (51%), Gaps = 8/184 (4%)
Query: 1 MTIPEFIYSLISPPPRK--EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPN 58
M P LI+ PPR+ ++ K +L+TGA SG+G A +F +RG+ V+ A + E
Sbjct: 18 MRPPISPQLLINRPPRQPVDLTGKRILLTGASSGIGEAAAEQFARRGATVV-AVARREDL 76
Query: 59 EETVRMLNEI--RQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKIL 116
+ V + I G A A D+ + +V L +V + G VDILINNAG + +
Sbjct: 77 LDAVA--DRITRAGGDAMAVPCDLSDLDAVDALVADVEKRIGGVDILINNAGRSIRRPLA 134
Query: 117 QTDITDEQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANA-SAYAA 175
++ ++R +N R++R P M++R GHI+ +++ ++ + S Y A
Sbjct: 135 ESLDRWHDVERTMVLNYYAPLRLIRGLAPGMLERGDGHIINVATWGVLSEASPLFSVYNA 194
Query: 176 SKWA 179
SK A
Sbjct: 195 SKAA 198
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 94.6 bits (236), Expect = 4e-24
Identities = 52/165 (31%), Positives = 80/165 (48%), Gaps = 18/165 (10%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLN-EIRQGSAKAYHVDI 80
K + ITGA SG+GR AL F G +V DI NE + L E+ G+A +D+
Sbjct: 2 KSIFITGAASGIGRATALLFAAEGWRVGAYDI----NEAGLAALAAELGAGNAWTGALDV 57
Query: 81 GN----EASVKELGKNVHRDFGKVDILINNAGILT--QFKILQTDITDEQIQRLFNINIT 134
+ +A++ + G++D+L NNAGIL F DI E R+ +IN+
Sbjct: 58 TDRAAWDAALADFAAATG---GRLDVLFNNAGILRGGPF----EDIPLEAHDRVIDINVK 110
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
G A LP + ++ SS S++ G + Y+A+K+A
Sbjct: 111 GVLNGAHAALPYLKATPGARVINTSSASAIYGQPGLAVYSATKFA 155
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 94.7 bits (236), Expect = 4e-24
Identities = 53/169 (31%), Positives = 85/169 (50%), Gaps = 7/169 (4%)
Query: 13 PPPRKEIKDKIVLITGA-GSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG 71
P + K+VL+T A G+G+G A ++ G++V+ +DI ET L G
Sbjct: 9 VPGHGLLAGKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELAAE-LG 67
Query: 72 SAKAYHV--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLF 129
+ V D+ +EA V L G++D+L+NNAG+ Q ++ D+TD++ R+
Sbjct: 68 LGRVEAVVCDVTSEAQVDALIDAAVERLGRLDVLVNNAGLGGQTPVV--DMTDDEWSRVL 125
Query: 130 NINITGHFRMVRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASK 177
++ +TG FR RA L M R G IV +S+ + YAA+K
Sbjct: 126 DVTLTGTFRATRAALRYMRARGHGGVIVNNASVLGWRAQHGQAHYAAAK 174
>gnl|CDD|187585 cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl
reductase (PTCR)-like, classical (c) SDRs. PTCR is a
classical SDR which catalyzes the NADPH-dependent
reduction of ketones on steroids and prostaglandins.
Unlike most SDRs, PTCR functions as a monomer. This
subgroup also includes human carbonyl reductase 1 (CBR1)
and CBR3. CBR1 is an NADPH-dependent SDR with broad
substrate specificity and may be responsible for the in
vivo reduction of quinones, prostaglandins, and other
carbonyl-containing compounds. In addition it includes
poppy NADPH-dependent salutaridine reductase which
catalyzes the stereospecific reduction of salutaridine
to 7(S)-salutaridinol in the biosynthesis of morphine,
and Arabidopsis SDR1,a menthone reductase, which
catalyzes the reduction of menthone to neomenthol, a
compound with antimicrobial activity; SDR1 can also
carry out neomenthol oxidation. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 225
Score = 93.5 bits (233), Expect = 5e-24
Identities = 52/163 (31%), Positives = 80/163 (49%), Gaps = 19/163 (11%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQ--VLCA-DIQNEPNEETVRMLNEIRQG--SAKAY 76
K+ L+TGA G+G E+ + K G +L A D+ E + V ++R S + +
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVILTARDV--ERGQAAV---EKLRAEGLSVRFH 55
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITD-EQIQRLFNINITG 135
+D+ ++AS++ V +G +DIL+NNAGI FK EQ + N G
Sbjct: 56 QLDVTDDASIEAAADFVEEKYGGLDILVNNAGIA--FKGFDDSTPTREQARETMKTNFFG 113
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISS-MSSMTGVANASAYAASK 177
+ +A LP + K G IV +SS + S+T SAY SK
Sbjct: 114 TVDVTQALLPLLKKSPAGRIVNVSSGLGSLT-----SAYGVSK 151
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 94.7 bits (236), Expect = 5e-24
Identities = 49/160 (30%), Positives = 80/160 (50%), Gaps = 6/160 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIR--QGSAKAYHVD 79
KI ++TGA SG G LE K+G V+ A ++N +E + Q + K +D
Sbjct: 4 KIAIVTGASSGFGLLTTLELAKKGYLVI-ATMRNPEKQENLLSQATQLNLQQNIKVQQLD 62
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ ++ S+ + G++D+L+NNAG +I E+ ++ F N+ G +
Sbjct: 63 VTDQNSIHNFQLVLKE-IGRIDLLVNNAG--YANGGFVEEIPVEEYRKQFETNVFGAISV 119
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+A LP M K+ G I+ ISS+S G S Y +SK+A
Sbjct: 120 TQAVLPYMRKQKSGKIINISSISGRVGFPGLSPYVSSKYA 159
>gnl|CDD|187597 cd05338, DHRS1_HSDL2-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) and human hydroxysteroid
dehydrogenase-like protein 2 (HSDL2), classical (c)
SDRs. This subgroup includes human DHRS1 and human
HSDL2 and related proteins. These are members of the
classical SDR family, with a canonical Gly-rich
NAD-binding motif and the typical YXXXK active site
motif. However, the rest of the catalytic tetrad is not
strongly conserved. DHRS1 mRNA has been detected in many
tissues, liver, heart, skeletal muscle, kidney and
pancreas; a longer transcript is predominantly expressed
in the liver , a shorter one in the heart. HSDL2 may
play a part in fatty acid metabolism, as it is found in
peroxisomes. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 246
Score = 93.6 bits (233), Expect = 7e-24
Identities = 54/175 (30%), Positives = 81/175 (46%), Gaps = 13/175 (7%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCA-----DIQNEPNEETV----RMLNEIRQ-- 70
K+ +TGA G+GR +AL K G+ V+ A + N + EI
Sbjct: 4 KVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIEAAG 63
Query: 71 GSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFN 130
G A VD+ +E V+ L + FG++DIL+NNAG + + T ++ +
Sbjct: 64 GQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNAGAIWLSLVEDT--PAKRFDLMQR 121
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYTA 185
+N+ G + + +A LP MVK QGHI+ IS S+ AYAA K T
Sbjct: 122 VNLRGTYLLSQAALPHMVKAGQGHILNISPPLSLRPARGDVAYAAGKAGMSRLTL 176
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 93.5 bits (233), Expect = 8e-24
Identities = 53/161 (32%), Positives = 86/161 (53%), Gaps = 7/161 (4%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAY 76
+K K+ LITG G+G +A + G +V + A Q E EE LN G+
Sbjct: 3 SLKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQKEL-EEAAAELNNK--GNVLGL 59
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ +EA V+ + FG +D+LI NAG+ F ++ ++T E+ + + + N+TG
Sbjct: 60 AADVRDEADVQRAVDAIVAAFGGLDVLIANAGV-GHFAPVE-ELTPEEWRLVIDTNLTGA 117
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
F ++A +P + KR G+I+ ISS++ A +AY ASK
Sbjct: 118 FYTIKAAVPAL-KRGGGYIINISSLAGTNFFAGGAAYNASK 157
>gnl|CDD|187639 cd08934, CAD_SDR_c, clavulanic acid dehydrogenase (CAD), classical
(c) SDR. CAD catalyzes the NADP-dependent reduction of
clavulanate-9-aldehyde to clavulanic acid, a
beta-lactamase inhibitor. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 93.4 bits (232), Expect = 9e-24
Identities = 51/158 (32%), Positives = 77/158 (48%), Gaps = 3/158 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ L+TGA SG+G A G+ V A + + E L E G A +D+
Sbjct: 4 KVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADEL-EAEGGKALVLELDVT 62
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+E V + G++DIL+NNAGI+ + D TD R+ + N+ G
Sbjct: 63 DEQQVDAAVERTVEALGRLDILVNNAGIMLLGPVEDADTTD--WTRMIDTNLLGLMYTTH 120
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
A LP + RN+G IV ISS++ V N++ Y A+K+
Sbjct: 121 AALPHHLLRNKGTIVNISSVAGRVAVRNSAVYNATKFG 158
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 94.6 bits (236), Expect = 1e-23
Identities = 50/165 (30%), Positives = 80/165 (48%), Gaps = 7/165 (4%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAK 74
K I ++V+ITGA +G+GR A F +RG++V+ E E EIR G A
Sbjct: 4 KPIGRQVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAA---EIRAAGGEAL 60
Query: 75 AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
A D+ + +V+ + G +D +NNA + T F + D+T E+ +R+ +
Sbjct: 61 AVVADVADAEAVQAAADRAEEELGPIDTWVNNAMV-TVFGPFE-DVTPEEFRRVTEVTYL 118
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
G A L M R++G I+ + S + + SAY A+K A
Sbjct: 119 GVVHGTLAALRHMRPRDRGAIIQVGSALAYRSIPLQSAYCAAKHA 163
>gnl|CDD|187591 cd05330, cyclohexanol_reductase_SDR_c, cyclohexanol reductases,
including levodione reductase, classical (c) SDRs.
Cyloclohexanol reductases,including
(6R)-2,2,6-trimethyl-1,4-cyclohexanedione (levodione)
reductase of Corynebacterium aquaticum, catalyze the
reversible oxidoreduction of hydroxycyclohexanone
derivatives. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 93.4 bits (232), Expect = 1e-23
Identities = 54/159 (33%), Positives = 81/159 (50%), Gaps = 2/159 (1%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSA-KAYHV 78
KDK+VLITG GSGLG A+ K G+++ D+ E E L EI +
Sbjct: 2 KDKVVLITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLEIAPDAEVLLIKA 61
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ +EA V+ FG++D NNAGI + + L D ++ ++ +IN+ G F
Sbjct: 62 DVSDEAQVEAYVDATVEQFGRIDGFFNNAGIEGK-QNLTEDFGADEFDKVVSINLRGVFY 120
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ L M ++ G IV +S+ + GV N S YAA+K
Sbjct: 121 GLEKVLKVMREQGSGMIVNTASVGGIRGVGNQSGYAAAK 159
>gnl|CDD|187629 cd05371, HSD10-like_SDR_c, 17hydroxysteroid dehydrogenase type 10
(HSD10)-like, classical (c) SDRs. HSD10, also known as
amyloid-peptide-binding alcohol dehydrogenase (ABAD),
was previously identified as a L-3-hydroxyacyl-CoA
dehydrogenase, HADH2. In fatty acid metabolism, HADH2
catalyzes the third step of beta-oxidation, the
conversion of a hydroxyl to a keto group in the
NAD-dependent oxidation of L-3-hydroxyacyl CoA. In
addition to alcohol dehydrogenase and HADH2 activites,
HSD10 has steroid dehydrogenase activity. Although the
mechanism is unclear, HSD10 is implicated in the
formation of amyloid beta-petide in the brain (which is
linked to the development of Alzheimer's disease).
Although HSD10 is normally concentrated in the
mitochondria, in the presence of amyloid beta-peptide it
translocates into the plasma membrane, where it's action
may generate cytotoxic aldehydes and may lower estrogen
levels through its use of 17-beta-estradiol as a
substrate. HSD10 is a member of the SRD family, but
differs from other SDRs by the presence of two
insertions of unknown function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 252
Score = 93.1 bits (232), Expect = 2e-23
Identities = 47/169 (27%), Positives = 77/169 (45%), Gaps = 17/169 (10%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K + ++TG SGLG + +G++V+ D+ N P E + + VD
Sbjct: 1 KGLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGET-----VAKLGDNCRFVPVD 55
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITD----EQIQRLFNINITG 135
+ +E VK FG++DI++N AGI K E QR+ N+N+ G
Sbjct: 56 VTSEKDVKAALALAKAKFGRLDIVVNCAGIAVAAKTYNKKGQQPHSLELFQRVINVNLIG 115
Query: 136 HFRMVRAFLPDMVKRNQ-------GHIVAISSMSSMTGVANASAYAASK 177
F ++R M K N+ G I+ +S+++ G +AY+ASK
Sbjct: 116 TFNVIRLAAGAMGK-NEPDQGGERGVIINTASVAAFEGQIGQAAYSASK 163
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 93.2 bits (232), Expect = 2e-23
Identities = 51/165 (30%), Positives = 76/165 (46%), Gaps = 5/165 (3%)
Query: 14 PPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG-S 72
R + K+ L+TGA G+G +A F + G+ V AD+ E + G
Sbjct: 2 MNR--LAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGAR 59
Query: 73 AKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNIN 132
A D+ + ASV FG +D+L+NNAGI L TDE +R F ++
Sbjct: 60 VLAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNAGINVFADPLAM--TDEDWRRCFAVD 117
Query: 133 ITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ G + RA LP MV+R +G IV I+S + + Y +K
Sbjct: 118 LDGAWNGCRAVLPGMVERGRGSIVNIASTHAFKIIPGCFPYPVAK 162
>gnl|CDD|132250 TIGR03206, benzo_BadH, 2-hydroxycyclohexanecarboxyl-CoA
dehydrogenase. Members of this protein family are the
enzyme 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase.
The enzymatic properties were confirmed experimentally
in Rhodopseudomonas palustris; the enzyme is
homotetrameric, and not sensitive to oxygen. This enzyme
is part of proposed pathway for degradation of
benzoyl-CoA to 3-hydroxypimeloyl-CoA that differs from
the analogous in Thauera aromatica. It also may occur in
degradation of the non-aromatic compound
cyclohexane-1-carboxylate.
Length = 250
Score = 92.7 bits (230), Expect = 2e-23
Identities = 53/159 (33%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+KDK ++TG G G+G F + G++V D+ E E+ + + G+A+A+
Sbjct: 1 LKDKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRA-KGGNAQAFAC 59
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
DI + SV + G VD+L+NNAG +T+ +RL IN+TG
Sbjct: 60 DITDRDSVDTAVAAAEQALGPVDVLVNNAGWDKFGPFTKTE--PPLWERLIAINLTGALH 117
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
M A LP MV+R G IV I+S ++ G + + YAA K
Sbjct: 118 MHHAVLPGMVERGAGRIVNIASDAARVGSSGEAVYAACK 156
>gnl|CDD|187608 cd05350, SDR_c6, classical (c) SDR, subgroup 6. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a fairly well conserved typical
Gly-rich NAD-binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 239
Score = 92.4 bits (230), Expect = 2e-23
Identities = 49/164 (29%), Positives = 83/164 (50%), Gaps = 9/164 (5%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
VLITGA SG+GR LA EF K G V L A + + ++ S + +D+ +
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAA--RRTDRLDELKAELLNPNPSVEVEILDVTD 58
Query: 83 EASVKELGKNVHRDFGKVDILINNAGI--LTQFKILQTDITDEQIQRLFNINITGHFRMV 140
E + + + + G +D++I NAG+ T L + + + N+ G ++
Sbjct: 59 EERNQLVIAELEAELGGLDLVIINAGVGKGTSLGDLSF----KAFRETIDTNLLGAAAIL 114
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
A LP + +GH+V ISS++++ G+ A+AY+ASK A +
Sbjct: 115 EAALPQFRAKGRGHLVLISSVAALRGLPGAAAYSASKAALSSLA 158
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 248
Score = 92.5 bits (230), Expect = 3e-23
Identities = 50/164 (30%), Positives = 87/164 (53%), Gaps = 5/164 (3%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
K+ ++TGAGSG G +A F + G++V+ ADI + E + E +A A D+
Sbjct: 5 GKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAERVAADIGE----AAIAIQADV 60
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
A V+ + + FG++DIL+NNAGI + K + ++ +E+ R+F +N+ +
Sbjct: 61 TKRADVEAMVEAALSKFGRLDILVNNAGITHRNKPM-LEVDEEEFDRVFAVNVKSIYLSA 119
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+A +P M ++ G I+ I+S + + + Y ASK T T
Sbjct: 120 QALVPHMEEQGGGVIINIASTAGLRPRPGLTWYNASKGWVVTAT 163
>gnl|CDD|187592 cd05331, DH-DHB-DH_SDR_c, 2,3 dihydro-2,3 dihydrozybenzoate
dehydrogenases, classical (c) SDRs. 2,3 dihydro-2,3
dihydrozybenzoate dehydrogenase shares the
characteristics of the classical SDRs. This subgroup
includes Escherichai coli EntA which catalyzes the
NAD+-dependent oxidation of
2,3-dihydro-2,3-dihydroxybenzoate to
2,3-dihydroxybenzoate during biosynthesis of the
siderophore Enterobactin. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 92.1 bits (229), Expect = 3e-23
Identities = 46/157 (29%), Positives = 82/157 (52%), Gaps = 12/157 (7%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
V++TGA G+GR +A ++ G+ V+ D+ E L +D+ +
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIALDLPFVLLLEYGDPLRLTP--------LDVADA 52
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTD-ITDEQIQRLFNINITGHFRMVRA 142
A+V+E+ + + G +D L+N AG+L + TD ++ E ++ F +N+TG F +++A
Sbjct: 53 AAVREVCSRLLAEHGPIDALVNCAGVL---RPGATDPLSTEDWEQTFAVNVTGVFNLLQA 109
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
P M R G IV ++S ++ + +AY ASK A
Sbjct: 110 VAPHMKDRRTGAIVTVASNAAHVPRISMAAYGASKAA 146
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 92.4 bits (230), Expect = 3e-23
Identities = 55/163 (33%), Positives = 81/163 (49%), Gaps = 19/163 (11%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K +LITGAGSG GRE+AL ++G V+ A +Q P + +R +A+ G
Sbjct: 3 KTILITGAGSGFGREVALRLARKGHNVI-AGVQIAPQ------VTALRAEAARR-----G 50
Query: 82 NEASVKELGKNVHRDFGK-----VDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
V++L D + VD+L+NNAGI + DI E ++ LF N+ G
Sbjct: 51 LALRVEKLDLTDAIDRAQAAEWDVDVLLNNAGIGEAGAV--VDIPVELVRELFETNVFGP 108
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ + F+ MV R +G +V SSM+ + AY ASK A
Sbjct: 109 LELTQGFVRKMVARGKGKVVFTSSMAGLITGPFTGAYCASKHA 151
>gnl|CDD|187583 cd05322, SDH_SDR_c_like, Sorbitol 6-phosphate dehydrogenase (SDH),
classical (c) SDRs. Sorbitol 6-phosphate dehydrogenase
(SDH, aka glucitol 6-phosphate dehydrogenase) catalyzes
the NAD-dependent interconversion of D-fructose
6-phosphate to D-sorbitol 6-phosphate. SDH is a member
of the classical SDRs, with the characteristic catalytic
tetrad, but without a complete match to the typical
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 92.5 bits (230), Expect = 3e-23
Identities = 51/161 (31%), Positives = 76/161 (47%), Gaps = 3/161 (1%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
+++ ++ G G LG L + G V ADI +E E+ +N A + D
Sbjct: 1 MNQVAVVIGGGQTLGEFLCHGLAEAGYDVAVADINSENAEKVADEINAEYGEKAYGFGAD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
NE SV L K V F +VD+L+ +AGI KI TD R +N+ G+F
Sbjct: 61 ATNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKI--TDFELGDFDRSLQVNLVGYFLC 118
Query: 140 VRAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWA 179
R F M++ QG I+ I+S S G + S Y+A+K+
Sbjct: 119 AREFSKLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFG 159
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 91.8 bits (228), Expect = 4e-23
Identities = 44/169 (26%), Positives = 74/169 (43%), Gaps = 7/169 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
++ K+V ITG GLGR A RG++V P +T+ + + +
Sbjct: 5 LQGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQTLPGVPADA---LRIGGI 61
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + + + V+R FG++D L+N AG I D + R++ +N+
Sbjct: 62 DLVDPQAARRAVDEVNRQFGRLDALVNIAGAFVWGTI--ADGDADTWDRMYGVNVKTTLN 119
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK--WARYTYTA 185
+A LP + G IV I + +++ AYAA+K AR T
Sbjct: 120 ASKAALPALTASGGGRIVNIGAGAALKAGPGMGAYAAAKAGVARLTEAL 168
>gnl|CDD|187623 cd05365, 7_alpha_HSDH_SDR_c, 7 alpha-hydroxysteroid dehydrogenase
(7 alpha-HSDH), classical (c) SDRs. This bacterial
subgroup contains 7 alpha-HSDHs, including Escherichia
coli 7 alpha-HSDH. 7 alpha-HSDH, a member of the SDR
family, catalyzes the NAD+ -dependent dehydrogenation of
a hydroxyl group at position 7 of the steroid skeleton
of bile acids. In humans the two primary bile acids are
cholic and chenodeoxycholic acids, these are formed from
cholesterol in the liver. Escherichia coli 7 alpha-HSDH
dehydroxylates these bile acids in the human intestine.
Mammalian 7 alpha-HSDH activity has been found in
livers. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 91.9 bits (228), Expect = 4e-23
Identities = 49/159 (30%), Positives = 80/159 (50%), Gaps = 6/159 (3%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHVDI 80
+ ++TG +G+G+ +A K G+ V+ AD+++E E I+Q G A ++
Sbjct: 1 VAIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVA---AAIQQAGGQAIGLECNV 57
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+E ++ + K FG + IL+NNAG K +T+E + F +N+ FR+
Sbjct: 58 TSEQDLEAVVKATVSQFGGITILVNNAGGGGP-KPFDMPMTEEDFEWAFKLNLFSAFRLS 116
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ P M K G I+ ISSMSS +AY +SK A
Sbjct: 117 QLCAPHMQKAGGGAILNISSMSSENKNVRIAAYGSSKAA 155
>gnl|CDD|187586 cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase
sniffer-like, classical (c) SDRs. Sniffer is an
NADPH-dependent carbonyl reductase of the classical SDR
family. Studies in Drosophila melanogaster implicate
Sniffer in the prevention of neurodegeneration due to
aging and oxidative-stress. This subgroup also includes
Rhodococcus sp. AD45 IsoH, which is an NAD-dependent
1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase
involved in isoprene metabolism, Aspergillus nidulans
StcE encoded by a gene which is part of a proposed
sterigmatocystin biosynthesis gene cluster, Bacillus
circulans SANK 72073 BtrF encoded by a gene found in the
butirosin biosynthesis gene cluster, and Aspergillus
parasiticus nor-1 involved in the biosynthesis of
aflatoxins. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 233
Score = 91.2 bits (227), Expect = 5e-23
Identities = 45/163 (27%), Positives = 77/163 (47%), Gaps = 13/163 (7%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEI--RQGSAKAYHVDIG 81
VLITGA G+G EL + + RG+ + A ++ L + +D+
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVIATCRDP---SAATELAALGASHSRLHILELDVT 57
Query: 82 NE--ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+E S + + + + +D+LINNAGIL + + E + +F +N+ G +
Sbjct: 58 DEIAESAEAVAERLG--DAGLDVLINNAGILHSYGPASE-VDSEDLLEVFQVNVLGPLLL 114
Query: 140 VRAFLPDMVKRNQGHIVAISS-MSSMT--GVANASAYAASKWA 179
+AFLP ++K + I+ ISS + S+ +Y ASK A
Sbjct: 115 TQAFLPLLLKGARAKIINISSRVGSIGDNTSGGWYSYRASKAA 157
>gnl|CDD|187638 cd08933, RDH_SDR_c, retinal dehydrogenase-like, classical (c) SDR.
These classical SDRs includes members identified as
retinol dehydrogenases, which convert retinol to
retinal, a property that overlaps with 17betaHSD
activity. 17beta-dehydrogenases are a group of isozymes
that catalyze activation and inactivation of estrogen
and androgens, and include members of the short-chain
dehydrogenases/reductase family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 261
Score = 90.7 bits (225), Expect = 1e-22
Identities = 47/160 (29%), Positives = 79/160 (49%), Gaps = 2/160 (1%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
DK+V++TG G+GR + FV+ G++V+ + LN GS K D
Sbjct: 8 ADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRAGPGSCKFVPCD 67
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ E +K L FG++D L+NNAG + + + ++ + L N+N+ +F
Sbjct: 68 VTKEEDIKTLISVTVERFGRIDCLVNNAGWHPPHQTTD-ETSAQEFRDLLNLNLISYFLA 126
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ LP + K QG+I+ +SS+ G A+ Y A+K A
Sbjct: 127 SKYALPHLRKS-QGNIINLSSLVGSIGQKQAAPYVATKGA 165
>gnl|CDD|212492 cd05327, retinol-DH_like_SDR_c_like, retinol dehydrogenase
(retinol-DH), Light dependent Protochlorophyllide
(Pchlide) OxidoReductase (LPOR) and related proteins,
classical (c) SDRs. Classical SDR subgroup containing
retinol-DHs, LPORs, and related proteins. Retinol is
processed by a medium chain alcohol dehydrogenase
followed by retinol-DHs. Pchlide reductases act in
chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. This subgroup includes the human proteins: retinol
dehydrogenase -12, -13 ,and -14, dehydrogenase/reductase
SDR family member (DHRS)-12 , -13 and -X (a DHRS on
chromosome X), and WWOX (WW domain-containing
oxidoreductase), as well as a Neurospora crassa SDR
encoded by the blue light inducible bli-4 gene. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 269
Score = 90.7 bits (226), Expect = 1e-22
Identities = 52/152 (34%), Positives = 79/152 (51%), Gaps = 15/152 (9%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQV--LCADIQNEPNEETVRMLNEIRQ--GSAKAY 76
K+V+ITGA SG+G+E A E KRG+ V C +NE E EI++ G+AK
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIAC---RNEEKGEEAA--AEIKKETGNAKVE 55
Query: 77 HV--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
+ D+ + ASV++ + F ++DILINNAGI+ +T + + F +N
Sbjct: 56 VIQLDLSSLASVRQFAEEFLARFPRLDILINNAGIMA----PPRRLTKDGFELQFAVNYL 111
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTG 166
GHF + LP + IV +SS++ G
Sbjct: 112 GHFLLTNLLLPVLKASAPSRIVNVSSIAHRAG 143
>gnl|CDD|187616 cd05358, GlcDH_SDR_c, glucose 1 dehydrogenase (GlcDH), classical
(c) SDRs. GlcDH, is a tetrameric member of the SDR
family, it catalyzes the NAD(P)-dependent oxidation of
beta-D-glucose to D-glucono-delta-lactone. GlcDH has a
typical NAD-binding site glycine-rich pattern as well as
the canonical active site tetrad (YXXXK motif plus
upstream Ser and Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 89.8 bits (223), Expect = 3e-22
Identities = 49/162 (30%), Positives = 85/162 (52%), Gaps = 7/162 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPN--EETVRMLNEIRQGSAKAY 76
+K K+ L+TGA SG+G+ +A+ G+ V+ + +++ + EE V + + G A A
Sbjct: 1 LKGKVALVTGASSGIGKAIAIRLATAGANVV-VNYRSKEDAAEEVVEEIKAVG-GKAIAV 58
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ E V L ++ ++FG +DIL+NNAG+ Q ++T E ++ ++N+TG
Sbjct: 59 QADVSKEEDVVALFQSAIKEFGTLDILVNNAGL--QGDASSHEMTLEDWNKVIDVNLTGQ 116
Query: 137 FRMVRAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASK 177
F R + K +G I+ +SS+ YAASK
Sbjct: 117 FLCAREAIKRFRKSKIKGKIINMSSVHEKIPWPGHVNYAASK 158
>gnl|CDD|187625 cd05367, SPR-like_SDR_c, sepiapterin reductase (SPR)-like,
classical (c) SDRs. Human SPR, a member of the SDR
family, catalyzes the NADP-dependent reduction of
sepiaptern to 7,8-dihydrobiopterin (BH2). In addition to
SPRs, this subgroup also contains Bacillus cereus yueD,
a benzil reductase, which catalyzes the stereospecific
reduction of benzil to (S)-benzoin. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 241
Score = 88.9 bits (221), Expect = 4e-22
Identities = 49/161 (30%), Positives = 83/161 (51%), Gaps = 8/161 (4%)
Query: 24 VLITGAGSGLGRELALEFVKRG--SQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV-DI 80
+++TGA G+GR LA E +KRG S V+ EP +E E+R G D+
Sbjct: 2 IILTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQEL---KEELRPGLRVTTVKADL 58
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ A V++L + + + G+ D+LINNAG L ++ I +++Q+ F++N+T +
Sbjct: 59 SDAAGVEQLLEAIRKLDGERDLLINNAGSLGPVSKIE-FIDLDELQKYFDLNLTSPVCLT 117
Query: 141 RAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWAR 180
L KR + +V +SS +++ Y +SK AR
Sbjct: 118 STLLRAFKKRGLKKTVVNVSSGAAVNPFKGWGLYCSSKAAR 158
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 89.1 bits (221), Expect = 5e-22
Identities = 50/160 (31%), Positives = 81/160 (50%), Gaps = 9/160 (5%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
K K+ LITG G+GR +A F++ G++V + E + L E + K
Sbjct: 5 FKGKVALITGGTRGIGRAIAEAFLREGAKVA---VLYNSAENEAKELREKGVFTIKC--- 58
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+GN VK+ + V ++FG+VD+L+NNAGI+ + D +E+ ++ IN+ G
Sbjct: 59 DVGNRDQVKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFD--EEKYNKMIKINLNGAIY 116
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSM-TGVANASAYAASK 177
FLP + G IV I+S + + T + YA +K
Sbjct: 117 TTYEFLPLLKLSKNGAIVNIASNAGIGTAAEGTTFYAITK 156
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 88.9 bits (221), Expect = 7e-22
Identities = 52/170 (30%), Positives = 81/170 (47%), Gaps = 9/170 (5%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQ-VLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+ K+ L+TG GLG +A F +RG+ ++ E E E+ AKA
Sbjct: 4 LDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAA---ELEALGAKAVF 60
Query: 78 V--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITG 135
V D+ + + + FG++D L+N AG+ + IL T + E R F +N+
Sbjct: 61 VQADLSDVEDCRRVVAAADEAFGRLDALVNAAGLTDRGTILDT--SPELFDRHFAVNVRA 118
Query: 136 HFRMVRAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
F +++ + M +R +G IV I SMS+ G +AY ASK A T T
Sbjct: 119 PFFLMQEAIKLMRRRKAEGTIVNIGSMSAHGGQPFLAAYCASKGALATLT 168
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 87.6 bits (217), Expect = 2e-21
Identities = 53/164 (32%), Positives = 80/164 (48%), Gaps = 8/164 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ K ++TGA SG+G+E+ALE + G+ V AD+ N+ V +EI + KA V
Sbjct: 5 LNGKTAVVTGAASGIGKEIALELARAGAAVAIADL-NQDGANAV--ADEINKAGGKAIGV 61
Query: 79 --DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ NE +V V FG VDIL++NAGI I D +++ I++ G
Sbjct: 62 AMDVTNEDAVNAGIDKVAERFGSVDILVSNAGIQIVNPIENYSFAD--WKKMQAIHVDGA 119
Query: 137 FRMVRAFLPDMVK-RNQGHIVAISSMSSMTGVANASAYAASKWA 179
F +A L M K G ++ + S+ S SAY +K
Sbjct: 120 FLTTKAALKHMYKDDRGGVVIYMGSVHSHEASPLKSAYVTAKHG 163
>gnl|CDD|234422 TIGR03971, SDR_subfam_1, oxidoreductase, SDR family. Members of
this protein subfamily are putative oxidoreductases
belonging to the larger SDR family. Members of the
present subfamily may occur several to a genome and are
largely restricted to genomes that contain members of
families TIGR03962, TIGR03967, and TIGR03969. Many
members have been annotated by homology as carveol
dehydrogenases.
Length = 265
Score = 87.2 bits (216), Expect = 3e-21
Identities = 45/171 (26%), Positives = 88/171 (51%), Gaps = 17/171 (9%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPN-------------EETVRMLNEI 68
K+ ITGA G GR A+ G+ ++ D+ + +ET R++ E
Sbjct: 4 KVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLV-EA 62
Query: 69 RQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRL 128
A D+ + A V+ + ++ FG++D+++ NAG+L+ + + +++EQ +
Sbjct: 63 LGRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYGRSWE--LSEEQWDTV 120
Query: 129 FNINITGHFRMVRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASKW 178
+IN+TG +R +A +P M++R G I+ SS++ + + + YAA+K
Sbjct: 121 LDINLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALPGLAHYAAAKH 171
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 86.9 bits (216), Expect = 3e-21
Identities = 53/164 (32%), Positives = 82/164 (50%), Gaps = 9/164 (5%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQ-VLCADIQNEPNEETVRMLNEIRQ--GSAK 74
+ K+ +ITGA SG+GR A F + G++ V+ A Q E ++ ++ EIR G A
Sbjct: 3 RLNGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQ----LVAEIRAEGGEAV 58
Query: 75 AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
A D+ +EA K L FG +DI NNAG L + + +++ E + N+T
Sbjct: 59 ALAGDVRDEAYAKALVALAVERFGGLDIAFNNAGTLGEMGPV-AEMSLEGWRETLATNLT 117
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMT-GVANASAYAASK 177
F + +P M+ R G ++ S+ T G +AYAASK
Sbjct: 118 SAFLGAKHQIPAMLARGGGSLIFTSTFVGHTAGFPGMAAYAASK 161
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also an active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 235
Score = 86.3 bits (214), Expect = 4e-21
Identities = 45/166 (27%), Positives = 81/166 (48%), Gaps = 8/166 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
IKDK VL+TGA G+G+ + G++ + A +++ + L +
Sbjct: 1 IKDKTVLVTGANRGIGKAFVESLLAHGAKKVYAAVRDP---GSAAHLVAKYGDKVVPLRL 57
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + S+K VD++INNAG+L + L + E +++ ++N+ G R
Sbjct: 58 DVTDPESIKAAAAQAK----DVDVVINNAGVL-KPATLLEEGALEALKQEMDVNVFGLLR 112
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+ +AF P + G IV ++S++S+ Y+ASK A Y+ T
Sbjct: 113 LAQAFAPVLKANGGGAIVNLNSVASLKNFPAMGTYSASKSAAYSLT 158
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 86.6 bits (215), Expect = 4e-21
Identities = 51/161 (31%), Positives = 77/161 (47%), Gaps = 9/161 (5%)
Query: 22 KIVLITGAGSGLGRELALEFVKRG-SQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHV 78
LITGA SG+G+ AL F K G L A +++ E + E+R A AY +
Sbjct: 7 PRALITGASSGIGKATALAFAKAGWDLALVA--RSQDALEALA--AELRSTGVKAAAYSI 62
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ N ++ + FG D+LINNAG+ +L+ + Q + +N+T F+
Sbjct: 63 DLSNPEAIAPGIAELLEQFGCPDVLINNAGMAYTGPLLEMPL--SDWQWVIQLNLTSVFQ 120
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
A LP M R G I+ +SS+++ AY SK A
Sbjct: 121 CCSAVLPGMRARGGGLIINVSSIAARNAFPQWGAYCVSKAA 161
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 86.4 bits (214), Expect = 5e-21
Identities = 53/167 (31%), Positives = 77/167 (46%), Gaps = 5/167 (2%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
I L+TG G+GR AL + G V QN + V L G A DI
Sbjct: 2 AIALVTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQAGGKAFVLQADIS 61
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+E V + + + + L+NNAGIL ++ ++T E+I R+ + N+TG+F R
Sbjct: 62 DENQVVAMFTAIDQHDEPLAALVNNAGILFTQCTVE-NLTAERINRVLSTNVTGYFLCCR 120
Query: 142 AFLPDMVKRNQGH---IVAISSMSSMTGVANASA-YAASKWARYTYT 184
+ M ++ G IV +SS +S G YAASK A T T
Sbjct: 121 EAVKRMALKHGGSGGAIVNVSSAASRLGAPGEYVDYAASKGAIDTLT 167
>gnl|CDD|187614 cd05356, 17beta-HSD1_like_SDR_c, 17-beta-hydroxysteroid
dehydrogenases (17beta-HSDs) types -1, -3, and -12,
-like, classical (c) SDRs. This subgroup includes
various 17-beta-hydroxysteroid dehydrogenases and
3-ketoacyl-CoA reductase, these are members of the SDR
family, and contain the canonical active site tetrad and
glycine-rich NAD-binding motif of the classical SDRs.
3-ketoacyl-CoA reductase (KAR, aka 17beta-HSD type 12,
encoded by HSD17B12) acts in fatty acid elongation;
17beta- hydroxysteroid dehydrogenases are isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family.
17beta-estradiol dehydrogenase (aka 17beta-HSD type 1,
encoded by HSD17B1) converts estrone to estradiol.
Estradiol is the predominant female sex hormone.
17beta-HSD type 3 (aka testosterone
17-beta-dehydrogenase 3, encoded by HSD17B3) catalyses
the reduction of androstenedione to testosterone, it
also accepts estrogens as substrates. This subgroup also
contains a putative steroid dehydrogenase let-767 from
Caenorhabditis elegans, mutation in which results in
hypersensitivity to cholesterol limitation. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 239
Score = 86.1 bits (214), Expect = 5e-21
Identities = 42/161 (26%), Positives = 71/161 (44%), Gaps = 9/161 (5%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
++TGA G+G+ A E KRG V+ E + + + E K D
Sbjct: 1 GTWAVVTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEEKYGVETKTIAADF 60
Query: 81 GNEAS----VKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
+++ + + + IL+NN GI + ++++Q + N+N+
Sbjct: 61 SAGDDIYERIEKELEGLD-----IGILVNNVGISHSIPEYFLETPEDELQDIINVNVMAT 115
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+M R LP MVKR +G IV ISS + + + Y+ASK
Sbjct: 116 LKMTRLILPGMVKRKKGAIVNISSFAGLIPTPLLATYSASK 156
>gnl|CDD|187621 cd05363, SDH_SDR_c, Sorbitol dehydrogenase (SDH), classical (c)
SDR. This bacterial subgroup includes Rhodobacter
sphaeroides SDH, and other SDHs. SDH preferentially
interconverts D-sorbitol (D-glucitol) and D-fructose,
but also interconverts L-iditol/L-sorbose and
galactitol/D-tagatose. SDH is NAD-dependent and is a
dimeric member of the SDR family. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 254
Score = 86.5 bits (214), Expect = 6e-21
Identities = 54/167 (32%), Positives = 86/167 (51%), Gaps = 7/167 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ K LITG+ G+GR A +V+ G++V ADI N E R +A A +
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIADI----NLEAARATAAEIGPAACAISL 56
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ ++AS+ + +G +DIL+NNA + I+ DIT E RLF IN++G
Sbjct: 57 DVTDQASIDRCVAALVDRWGSIDILVNNAALFDLAPIV--DITRESYDRLFAINVSGTLF 114
Query: 139 MVRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASKWARYTYT 184
M++A M+ + + G I+ ++S + G A Y A+K A + T
Sbjct: 115 MMQAVARAMIAQGRGGKIINMASQAGRRGEALVGVYCATKAAVISLT 161
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 86.6 bits (215), Expect = 6e-21
Identities = 44/158 (27%), Positives = 79/158 (50%), Gaps = 6/158 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ ITGA G GR ++RG +V+ + T+ L E +D+
Sbjct: 4 KVWFITGASRGFGRAWTEAALERGDRVVAT----ARDTATLADLAEKYGDRLLPLALDVT 59
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ A+V + FG++DI++NNAG F +++ ++T+ + + + N G + +
Sbjct: 60 DRAAVFAAVETAVEHFGRLDIVVNNAGYG-LFGMIE-EVTESEARAQIDTNFFGALWVTQ 117
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
A LP + ++ GHI+ ISS+ ++ + Y ASKWA
Sbjct: 118 AVLPYLREQRSGHIIQISSIGGISAFPMSGIYHASKWA 155
>gnl|CDD|187635 cd08930, SDR_c8, classical (c) SDR, subgroup 8. This subgroup has
a fairly well conserved active site tetrad and domain
size of the classical SDRs, but has an atypical
NAD-binding motif ([ST]G[GA]XGXXG). SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 86.2 bits (214), Expect = 6e-21
Identities = 44/143 (30%), Positives = 76/143 (53%), Gaps = 1/143 (0%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
+DKI+LITGA +G+ + G++++ ADI E+ L + + A +D
Sbjct: 1 EDKIILITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELTNLYKNRVIALELD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQF-KILQTDITDEQIQRLFNINITGHFR 138
I ++ S+KEL ++ FG++DILINNA + + EQ + N+N+ G F
Sbjct: 61 ITSKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPYEQWNEVLNVNLGGAFL 120
Query: 139 MVRAFLPDMVKRNQGHIVAISSM 161
+AF+ K+ +G I+ I+S+
Sbjct: 121 CSQAFIKLFKKQGKGSIINIASI 143
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 86.4 bits (214), Expect = 6e-21
Identities = 47/165 (28%), Positives = 72/165 (43%), Gaps = 6/165 (3%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
+ L+TGA G+G+ LA F+ G +VL DI L + R D
Sbjct: 1 TKRTALVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFADALGDAR---FVPVACD 57
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + AS+ N + G VD+L+ NAG D T + +N+ +
Sbjct: 58 LTDAASLAAALANAAAERGPVDVLVANAG--AARAASLHDTTPASWRADNALNLEAAYLC 115
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
V A L M+KR++G +V I S++ M AY+A+K YT
Sbjct: 116 VEAVLEGMLKRSRGAVVNIGSVNGMA-ALGHPAYSAAKAGLIHYT 159
>gnl|CDD|187602 cd05344, BKR_like_SDR_like, putative beta-ketoacyl acyl carrier
protein [ACP] reductase (BKR)-like, SDR. This subgroup
resembles the SDR family, but does not have a perfect
match to the NAD-binding motif or the catalytic tetrad
characteristic of the SDRs. It includes the SDRs, Q9HYA2
from Pseudomonas aeruginosa PAO1 and APE0912 from
Aeropyrum pernix K1. BKR catalyzes the NADPH-dependent
reduction of ACP in the first reductive step of de novo
fatty acid synthesis (FAS). FAS consists of four
elongation steps, which are repeated to extend the fatty
acid chain through the addition of two-carbo units from
malonyl acyl-carrier protein (ACP): condensation,
reduction, dehydration, and a final reduction. Type II
FAS, typical of plants and many bacteria, maintains
these activities on discrete polypeptides, while type I
FAS utilizes one or two multifunctional polypeptides.
BKR resembles enoyl reductase, which catalyzes the
second reduction step in FAS. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 86.2 bits (214), Expect = 7e-21
Identities = 50/166 (30%), Positives = 76/166 (45%), Gaps = 13/166 (7%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K+ L+T A SG+G +A + G++V +CA +N N E A D
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICA--RNRENLERAASELRAGGAGVLAVVAD 58
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + + L + FG+VDIL+NNAG ++TDE F++ + R+
Sbjct: 59 LTDPEDIDRLVEKAGDAFGRVDILVNNAGGPPPGPFA--ELTDEDWLEAFDLKLLSVIRI 116
Query: 140 VRAFLPDMVKRNQGHIVAISSMS--------SMTGVANASAYAASK 177
VRA LP M +R G IV ISS++ ++ VA A K
Sbjct: 117 VRAVLPGMKERGWGRIVNISSLTVKEPEPNLVLSNVARAGLIGLVK 162
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 86.1 bits (214), Expect = 8e-21
Identities = 48/161 (29%), Positives = 79/161 (49%), Gaps = 5/161 (3%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+KDK VL+TGA G+G+ LA G+++L E E L + +
Sbjct: 3 LKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLPYPGR--HRWVVA 60
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ +EA + + G +++LINNAG+ F +L+ D E I+RL +N+T +
Sbjct: 61 DLTSEAGREAVLARARE-MGGINVLINNAGV-NHFALLE-DQDPEAIERLLALNLTAPMQ 117
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ RA LP + + +V + S G ++Y ASK+A
Sbjct: 118 LTRALLPLLRAQPSAMVVNVGSTFGSIGYPGYASYCASKFA 158
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 85.9 bits (213), Expect = 1e-20
Identities = 50/164 (30%), Positives = 87/164 (53%), Gaps = 7/164 (4%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAK 74
+++ K+V+ITG +GLGR +A+ F K ++V+ +E V EI++ G A
Sbjct: 3 SDLEGKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDV--AEEIKKAGGEAI 60
Query: 75 AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
A D+ E+ V L + ++FG +D++INNAGI + + +++ E ++ N N+T
Sbjct: 61 AVKGDVTVESDVVNLIQTAVKEFGTLDVMINNAGI--ENAVPSHEMSLEDWNKVINTNLT 118
Query: 135 GHFRMVRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASK 177
G F R + V+ + G+I+ +SS+ YAASK
Sbjct: 119 GAFLGSREAIKYFVEHDIKGNIINMSSVHEQIPWPLFVHYAASK 162
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 85.2 bits (211), Expect = 1e-20
Identities = 38/156 (24%), Positives = 73/156 (46%), Gaps = 2/156 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
KI L+TGA G+G +A E + G +V+ + + + +D+
Sbjct: 3 KIALVTGAKRGIGSAIARELLNDGYRVIATYFSGNDCAKDWFEEYGFTEDQVRLKELDVT 62
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ E + + G VDIL+NNAGI T+ + + ++ ++ + N N+ F + +
Sbjct: 63 DTEECAEALAEIEEEEGPVDILVNNAGI-TRDSVFK-RMSHQEWNDVINTNLNSVFNVTQ 120
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
M ++ G I+ ISS++ + G + Y+A+K
Sbjct: 121 PLFAAMCEQGYGRIINISSVNGLKGQFGQTNYSAAK 156
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 85.2 bits (211), Expect = 1e-20
Identities = 43/146 (29%), Positives = 66/146 (45%), Gaps = 6/146 (4%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
DK+ ++TGA G+G+ A + G+ V+ ADI E E + + G+A A
Sbjct: 3 RFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQIVA-DGGTAIAVQ 61
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKI---LQTDITDEQIQRLFNINIT 134
VD+ + S K + FG +D L+NNA I K+ + ++ ++N+
Sbjct: 62 VDVSDPDSAKAMADATVSAFGGIDYLVNNAAIYGGMKLDLLITVPWDY--YKKFMSVNLD 119
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISS 160
G RA M KR G IV SS
Sbjct: 120 GALVCTRAVYKHMAKRGGGAIVNQSS 145
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 85.2 bits (211), Expect = 2e-20
Identities = 50/177 (28%), Positives = 83/177 (46%), Gaps = 10/177 (5%)
Query: 1 MTIPEFIYSLISPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEE 60
M + +F S + K+ ++TG +GLG+ A+ K G+ ++ +E
Sbjct: 1 MELDKFSMDFFS------LDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTNWDE- 53
Query: 61 TVRMLNEIRQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDI 120
R L E VD+ S +++ K +FGK+DIL+NNAG + + +L +
Sbjct: 54 -TRRLIEKEGRKVTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNAGTIRRAPLL--EY 110
Query: 121 TDEQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
DE + +IN+ + + +A M K+ G I+ I+SM S G AY ASK
Sbjct: 111 KDEDWNAVMDINLNSVYHLSQAVAKVMAKQGSGKIINIASMLSFQGGKFVPAYTASK 167
>gnl|CDD|187617 cd05359, ChcA_like_SDR_c, 1-cyclohexenylcarbonyl_coenzyme
A_reductase (ChcA)_like, classical (c) SDRs. This
subgroup contains classical SDR proteins, including
members identified as 1-cyclohexenylcarbonyl coenzyme A
reductase. ChcA of Streptomyces collinus is implicated
in the final reduction step of shikimic acid to
ansatrienin. ChcA shows sequence similarity to the SDR
family of NAD-binding proteins, but it lacks the
conserved Tyr of the characteristic catalytic site. This
subgroup also contains the NADH-dependent
enoyl-[acyl-carrier-protein(ACP)] reductase FabL from
Bacillus subtilis. This enzyme participates in bacterial
fatty acid synthesis, in type II fatty-acid synthases
and catalyzes the last step in each elongation cycle.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 84.7 bits (210), Expect = 2e-20
Identities = 44/165 (26%), Positives = 76/165 (46%), Gaps = 11/165 (6%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHVDIG 81
L+TG G+G+ +AL +RG+ V+ +++ + + EI + G A D+
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYRKSK--DAAAEVAAEIEELGGKAVVVRADVS 58
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
V+E+ V FG++D+L++NA F+ L +++T N N+ +
Sbjct: 59 QPQDVEEMFAAVKERFGRLDVLVSNAAA-GAFRPL-SELTPAHWDAKMNTNLKALVHCAQ 116
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK-----WARY 181
M +R G IVAISS+ S+ + N A +K RY
Sbjct: 117 QAAKLMRERGGGRIVAISSLGSIRALPNYLAVGTAKAALEALVRY 161
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 84.4 bits (209), Expect = 3e-20
Identities = 53/163 (32%), Positives = 87/163 (53%), Gaps = 7/163 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ K +LITG+ G+G LA + G++++ DI E E V ++RQ KA+
Sbjct: 7 LAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAV---AKLRQEGIKAHAA 63
Query: 79 --DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
++ ++ V+ +++ +D G +D+LINNAGI Q + T+ +++ + +N T
Sbjct: 64 PFNVTHKQEVEAAIEHIEKDIGPIDVLINNAGI--QRRHPFTEFPEQEWNDVIAVNQTAV 121
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
F + +A MVKR G I+ I SM S G + YAASK A
Sbjct: 122 FLVSQAVARYMVKRQAGKIINICSMQSELGRDTITPYAASKGA 164
>gnl|CDD|187609 cd05351, XR_like_SDR_c, xylulose reductase-like, classical (c)
SDRs. Members of this subgroup include proteins
identified as L-xylulose reductase (XR) and carbonyl
reductase; they are members of the SDR family. XR,
catalyzes the NADP-dependent reduction of L-xyulose and
other sugars. Tetrameric mouse carbonyl reductase is
involved in the metabolism of biogenic and xenobiotic
carbonyl compounds. This subgroup also includes
tetrameric chicken liver D-erythrulose reductase, which
catalyzes the reduction of D-erythrulose to D-threitol.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser).
Length = 244
Score = 84.1 bits (208), Expect = 3e-20
Identities = 45/161 (27%), Positives = 73/161 (45%), Gaps = 14/161 (8%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
K L+TGAG G+GR K G++V+ + VR I + VD+
Sbjct: 7 GKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVRECPGI-----EPVCVDL 61
Query: 81 G-NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+A+ + LG G VD+L+NNA + L+ +T E R F++N+ +
Sbjct: 62 SDWDATEEALGS-----VGPVDLLVNNAAVAILQPFLE--VTKEAFDRSFDVNVRAVIHV 114
Query: 140 VRAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWA 179
+ M+ R G IV +SS +S + N + Y ++K A
Sbjct: 115 SQIVARGMIARGVPGSIVNVSSQASQRALTNHTVYCSTKAA 155
>gnl|CDD|187606 cd05348, BphB-like_SDR_c,
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase
(BphB)-like, classical (c) SDRs.
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB) is
a classical SDR, it is of particular importance for its
role in the degradation of biphenyl/polychlorinated
biphenyls(PCBs); PCBs are a significant source of
environmental contamination. This subgroup also includes
Pseudomonas putida F1
cis-biphenyl-1,2-dihydrodiol-1,2-dehydrogenase (aka
cis-benzene glycol dehydrogenase, encoded by the bnzE
gene), which participates in benzene metabolism. In
addition it includes Pseudomonas sp. C18 putative
1,2-dihydroxy-1,2-dihydronaphthalene dehydrogenase (aka
dibenzothiophene dihydrodiol dehydrogenase, encoded by
the doxE gene) which participates in an upper
naphthalene catabolic pathway. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 83.9 bits (208), Expect = 5e-20
Identities = 49/164 (29%), Positives = 70/164 (42%), Gaps = 8/164 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+K ++ LITG GSGLGR L FV G++V D + E V L +
Sbjct: 2 LKGEVALITGGGSGLGRALVERFVAEGAKVAVLDR----SAEKVAELRADFGDAVVGVEG 57
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGI---LTQFKILQTDITDEQIQRLFNINITG 135
D+ + A + FGK+D I NAGI T + + DE LF+IN+ G
Sbjct: 58 DVRSLADNERAVARCVERFGKLDCFIGNAGIWDYSTSLVDIPEEKLDEAFDELFHINVKG 117
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ +A LP + G ++ S + Y ASK A
Sbjct: 118 YILGAKAALPALYATE-GSVIFTVSNAGFYPGGGGPLYTASKHA 160
>gnl|CDD|187622 cd05364, SDR_c11, classical (c) SDR, subgroup 11. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 253
Score = 83.6 bits (207), Expect = 6e-20
Identities = 46/167 (27%), Positives = 78/167 (46%), Gaps = 5/167 (2%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV- 78
K+ +ITG+ SG+G A+ F + G+++ E EET + + K V
Sbjct: 2 SGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAGVSEKKILLVV 61
Query: 79 -DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ E + FG++DIL+NNAGIL + DI E+ ++ N+N+
Sbjct: 62 ADLTEEEGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDI--EEYDKVMNLNLRAVI 119
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+ + +P ++K +G IV +SS++ Y SK A +T
Sbjct: 120 YLTKLAVPHLIK-TKGEIVNVSSVAGGRSFPGVLYYCISKAALDQFT 165
>gnl|CDD|187666 cd09806, type1_17beta-HSD-like_SDR_c, human estrogenic
17beta-hydroxysteroid dehydrogenase type 1 (type 1
17beta-HSD)-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. This classical SDR subgroup
includes human type 1 17beta-HSD, human retinol
dehydrogenase 8, zebrafish photoreceptor associated
retinol dehydrogenase type 2, and a chicken
ovary-specific 17beta-hydroxysteroid dehydrogenase. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 83.7 bits (207), Expect = 6e-20
Identities = 45/162 (27%), Positives = 83/162 (51%), Gaps = 9/162 (5%)
Query: 22 KIVLITGAGSGLGRELALEFV---KRGSQVLCADIQNEPNEET-VRMLNEIRQGSAKAYH 77
+VLITG SG+G LA+ + +V A +++ + + G+ +
Sbjct: 1 TVVLITGCSSGIGLHLAVRLASDPSKRFKVY-ATMRDLKKKGRLWEAAGALAGGTLETLQ 59
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
+D+ + SV + V + VD+L+ NAG+ + ++++ + +F++N+ G
Sbjct: 60 LDVCDSKSVAAAVERV-TE-RHVDVLVCNAGVGLLGPL--EALSEDAMASVFDVNVFGTV 115
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
RM++AFLPDM +R G I+ SS+ + G+ Y ASK+A
Sbjct: 116 RMLQAFLPDMKRRGSGRILVTSSVGGLQGLPFNDVYCASKFA 157
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 84.0 bits (208), Expect = 6e-20
Identities = 44/161 (27%), Positives = 76/161 (47%), Gaps = 18/161 (11%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVR---MLNEIRQGSAKAYHV--- 78
ITGA SG GR + + RG +V TVR L++++ V
Sbjct: 6 FITGASSGFGRGMTERLLARGDRVAA----------TVRRPDALDDLKARYGDRLWVLQL 55
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + A+V+ + G++D++++NAG +++D QI+R + N+ G +
Sbjct: 56 DVTDSAAVRAVVDRAFAALGRIDVVVSNAGYGLFGA--AEELSDAQIRRQIDTNLIGSIQ 113
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
++RA LP + ++ G IV +SS S Y A+KW
Sbjct: 114 VIRAALPHLRRQGGGRIVQVSSEGGQIAYPGFSLYHATKWG 154
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 83.9 bits (208), Expect = 7e-20
Identities = 55/187 (29%), Positives = 93/187 (49%), Gaps = 16/187 (8%)
Query: 9 SLISPPPRKE---------IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNE 59
SL++P P+ E +K K+ LITG SG+GR +A+ F K G+ + + +
Sbjct: 25 SLMNPLPQFEAPNYKGSGKLKGKVALITGGDSGIGRAVAVLFAKEGADIAIVYLDEHEDA 84
Query: 60 ETVRMLNEIRQGSAKAYHV--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQ 117
+ E + K + D+ +EA K+ + R+ G++DIL+NNA + L+
Sbjct: 85 NETKQRVE--KEGVKCLLIPGDVSDEAFCKDAVEETVRELGRLDILVNNAAFQYPQQSLE 142
Query: 118 TDITDEQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
DIT EQ+ + F NI +F M +A LP + + I+ S++ G Y+A+K
Sbjct: 143 -DITAEQLDKTFKTNIYSYFHMTKAALPHL--KQGSAIINTGSITGYEGNETLIDYSATK 199
Query: 178 WARYTYT 184
A + +T
Sbjct: 200 GAIHAFT 206
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 82.7 bits (205), Expect = 1e-19
Identities = 50/160 (31%), Positives = 80/160 (50%), Gaps = 8/160 (5%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
+ K LITG SG+G E A +F+ G++V + ++ SA D
Sbjct: 5 QGKTALITGGTSGIGLETARQFLAEGARV----AITGRDPASLEAARAELGESALVIRAD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
G+ A+ K L + + FG++D + NAG+ F L+ D + R FN N+ G + +
Sbjct: 61 AGDVAAQKALAQALAEAFGRLDAVFINAGVAK-FAPLE-DWDEAMFDRSFNTNVKGPYFL 118
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
++A LP + N IV S+++ G+ N+S YAASK A
Sbjct: 119 IQALLP--LLANPASIVLNGSINAHIGMPNSSVYAASKAA 156
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 82.5 bits (204), Expect = 2e-19
Identities = 47/162 (29%), Positives = 78/162 (48%), Gaps = 11/162 (6%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ ++ +ITG GSG+G A G+ V+ DI E + + +
Sbjct: 5 LAGRVAVITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEVGGL------FVPT 58
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGIL--TQFKILQTDITDEQIQRLFNINITGH 136
D+ +E +V L +G VDI NNAGI IL T + + QR+ ++N+T
Sbjct: 59 DVTDEDAVNALFDTAAETYGSVDIAFNNAGISPPEDDSILNTGL--DAWQRVQDVNLTSV 116
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANAS-AYAASK 177
+ +A LP MV++ +G I+ +S ++ G A + +Y ASK
Sbjct: 117 YLCCKAALPHMVRQGKGSIINTASFVAVMGSATSQISYTASK 158
>gnl|CDD|187665 cd09805, type2_17beta_HSD-like_SDR_c, human 17beta-hydroxysteroid
dehydrogenase type 2 (type 2 17beta-HSD)-like, classical
(c) SDRs. 17beta-hydroxysteroid dehydrogenases are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. This
classical-SDR subgroup includes the human proteins: type
2 17beta-HSD, type 6 17beta-HSD, type 2 11beta-HSD,
dehydrogenase/reductase SDR family member 9,
short-chain dehydrogenase/reductase family 9C member 7,
3-hydroxybutyrate dehydrogenase type 1, and retinol
dehydrogenase 5. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 281
Score = 82.3 bits (204), Expect = 2e-19
Identities = 46/160 (28%), Positives = 72/160 (45%), Gaps = 6/160 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K VLITG SG G LA + G VL N + L + + +D+
Sbjct: 1 KAVLITGCDSGFGNLLAKKLDSLGFTVLAG--CLTKNGPGAKELRRVCSDRLRTLQLDVT 58
Query: 82 NEASVKELGKNVHRDFGKVDI--LINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+K + V G+ + L+NNAGIL F + + + ++ +N+ G +
Sbjct: 59 KPEQIKRAAQWVKEHVGEKGLWGLVNNAGILG-FGGDEELLPMDDYRKCMEVNLFGTVEV 117
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+AFLP +++R +G +V +SSM AY ASK A
Sbjct: 118 TKAFLP-LLRRAKGRVVNVSSMGGRVPFPAGGAYCASKAA 156
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 81.8 bits (202), Expect = 3e-19
Identities = 53/163 (32%), Positives = 85/163 (52%), Gaps = 12/163 (7%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV-- 78
K +ITGAG+G+G+E+A+ F G+ V+ +DI + V +EI+Q +A+
Sbjct: 11 GKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVV---DEIQQLGGQAFACRC 67
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNA--GILTQFKILQTDITDEQIQRLFNINITGH 136
DI +E + L GKVDIL+NNA G F D+ +R + +N+
Sbjct: 68 DITSEQELSALADFALSKLGKVDILVNNAGGGGPKPF-----DMPMADFRRAYELNVFSF 122
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
F + + P+M K G I+ I+SM++ N ++YA+SK A
Sbjct: 123 FHLSQLVAPEMEKNGGGVILTITSMAAENKNINMTSYASSKAA 165
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 81.3 bits (201), Expect = 4e-19
Identities = 50/160 (31%), Positives = 81/160 (50%), Gaps = 6/160 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQ-NEPNEETVRMLNEIRQGSAKAY--HV 78
+ VLITG GLGR +A+ G+ V+ DI E + I KA
Sbjct: 7 RRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAAGGKALGLAF 66
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + A+ + +FG++DIL+NNAGI T + ++ E+ + ++N+ G F
Sbjct: 67 DVRDFAATRAALDAGVEEFGRLDILVNNAGIATDAAFAE--LSIEEWDDVIDVNLDGFFN 124
Query: 139 MVRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASK 177
+ +A LP M++ + G IV I+S++ + G YAASK
Sbjct: 125 VTQAALPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASK 164
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 81.2 bits (201), Expect = 5e-19
Identities = 49/167 (29%), Positives = 87/167 (52%), Gaps = 8/167 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGS-QVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+KDK+V++TG SG+G ++L + G+ V+ ++ P++E L Q A+
Sbjct: 5 LKDKVVIVTGGASGIGAAISLRLAEEGAIPVIFG--RSAPDDEFAEELRA-LQPRAEFVQ 61
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
VD+ ++A ++ + FG++D L+NNAG+ + + E N+ ++
Sbjct: 62 VDLTDDAQCRDAVEQTVAKFGRIDGLVNNAGVNDGVGL---EAGREAFVASLERNLIHYY 118
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
M LP + K ++G IV ISS +++TG S YAA+K A+ T
Sbjct: 119 VMAHYCLPHL-KASRGAIVNISSKTALTGQGGTSGYAAAKGAQLALT 164
>gnl|CDD|188170 TIGR01832, kduD, 2-deoxy-D-gluconate 3-dehydrogenase. This model
describes 2-deoxy-D-gluconate 3-dehydrogenase (also
called 2-keto-3-deoxygluconate oxidoreductase), a member
of the family of short-chain-alcohol dehydrogenases
(pfam00106). This protein has been characterized in
Erwinia chrysanthemi as an enzyme of pectin degradation
[Energy metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 248
Score = 81.0 bits (200), Expect = 6e-19
Identities = 44/164 (26%), Positives = 86/164 (52%), Gaps = 10/164 (6%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
++ K+ L+TGA +GLG+ +A+ + G+ ++ A +EP+E ++ + +
Sbjct: 3 LEGKVALVTGANTGLGQGIAVGLAEAGADIVGAGR-SEPSE----TQQQVEALGRRFLSL 57
Query: 79 --DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ + ++K L + +FG +DIL+NNAGI+ + + +++ + N+N+
Sbjct: 58 TADLSDIEAIKALVDSAVEEFGHIDILVNNAGIIRRADAE--EFSEKDWDDVMNVNLKSV 115
Query: 137 FRMVRAFLPDMVKR-NQGHIVAISSMSSMTGVANASAYAASKWA 179
F + +A +K+ G I+ I+SM S G +Y ASK A
Sbjct: 116 FFLTQAAAKHFLKQGRGGKIINIASMLSFQGGIRVPSYTASKHA 159
>gnl|CDD|187607 cd05349, BKR_2_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP]reductase (BKR), subgroup 2, classical (c) SDR.
This subgroup includes Rhizobium sp. NGR234 FabG1. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 246
Score = 80.6 bits (199), Expect = 7e-19
Identities = 44/167 (26%), Positives = 73/167 (43%), Gaps = 7/167 (4%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
++VL+TGA GLG +A F + G++V+ ++ + E V A A D+
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYYRSTESAEAVAAEA---GERAIAIQADVR 57
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQT----DITDEQIQRLFNINITGHF 137
+ V+ + + FG VD ++NNA I F Q I E Q+ + G
Sbjct: 58 DRDQVQAMIEEAKNHFGPVDTIVNNALIDFPFDPDQRKTFDTIDWEDYQQQLEGAVKGAL 117
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+++A LPD +R G ++ I + V Y +K A +T
Sbjct: 118 NLLQAVLPDFKERGSGRVINIGTNLFQNPVVPYHDYTTAKAALLGFT 164
>gnl|CDD|187599 cd05340, Ycik_SDR_c, Escherichia coli K-12 YCIK-like, classical (c)
SDRs. Escherichia coli K-12 YCIK and related proteins
have a canonical classical SDR nucleotide-binding motif
and active site tetrad. They are predicted oxoacyl-(acyl
carrier protein/ACP) reductases. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 236
Score = 80.3 bits (198), Expect = 9e-19
Identities = 46/163 (28%), Positives = 86/163 (52%), Gaps = 3/163 (1%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ D+I+L+TGA G+GRE AL + + G+ V+ E + +NE + + +
Sbjct: 2 LNDRIILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEGGRQPQWFIL 61
Query: 79 DIGNEAS--VKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ S ++L + + ++ ++D +++NAG+L L ++ + Q + +N+
Sbjct: 62 DLLTCTSENCQQLAQRIAVNYPRLDGVLHNAGLLGDVCPL-SEQNPQVWQDVXQVNVNAT 120
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
F + +A LP ++K + G +V SS G AN AYA SK+A
Sbjct: 121 FMLTQALLPLLLKSDAGSLVFTSSSVGRQGRANWGAYAVSKFA 163
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 80.1 bits (198), Expect = 1e-18
Identities = 49/163 (30%), Positives = 77/163 (47%), Gaps = 6/163 (3%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLC-ADIQNEPNEETVRMLNEIRQGSAKAY 76
+KDK+V++TG+G G+GR +A+ K GS V+ A + E ET++M+ E G
Sbjct: 3 SLKDKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEMNETLKMVKE-NGGEGIGV 61
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ + L K +G DIL+NNAG+ L D D+ I + + +
Sbjct: 62 LADVSTREGCETLAKATIDRYGVADILVNNAGLGLFSPFLNVD--DKLIDKHISTDFKSV 119
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ +M R G IV I+S++ + S Y A K A
Sbjct: 120 IYCSQELAKEM--REGGAIVNIASVAGIRPAYGLSIYGAMKAA 160
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 80.2 bits (198), Expect = 1e-18
Identities = 44/179 (24%), Positives = 79/179 (44%), Gaps = 19/179 (10%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPN-EETVRMLNEIRQGSAKAYH 77
+ ++ +TGAGSG+G+ +A+ + G+ V D++ + ET + A
Sbjct: 6 LDGQVAFVTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAEHIEAA-GRRAIQIA 64
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ ++A ++ + G + + +N AGI ++ +EQ Q + +IN+TG F
Sbjct: 65 ADVTSKADLRAAVARTEAELGALTLAVNAAGIANANPAE--EMEEEQWQTVMDINLTGVF 122
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMS---------------SMTGVANASAYAASKWARY 181
+A M++ G IV I+SMS S GV + S A +W
Sbjct: 123 LSCQAEARAMLENGGGSIVNIASMSGIIVNRGLLQAHYNASKAGVIHLSKSLAMEWVGR 181
>gnl|CDD|187662 cd09761, A3DFK9-like_SDR_c, Clostridium thermocellum A3DFK9-like, a
putative carbohydrate or polyalcohol metabolizing SDR,
classical (c) SDRs. This subgroup includes a putative
carbohydrate or polyalcohol metabolizing SDR (A3DFK9)
from Clostridium thermocellum. Its members have a
TGXXXGXG classical-SDR glycine-rich NAD-binding motif,
and some have a canonical SDR active site tetrad (A3DFK9
lacks the upstream Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 79.9 bits (197), Expect = 1e-18
Identities = 45/156 (28%), Positives = 87/156 (55%), Gaps = 7/156 (4%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ ++TG G G+G+++ L+F++ G +V+ ADI E + + H D+
Sbjct: 2 KVAIVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAEAEGP----NLFFVHGDVA 57
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+E VK + + G++D+L+NNA ++ IL + + E+ R+ ++N+TG + + R
Sbjct: 58 DETLVKFVVYAMLEKLGRIDVLVNNAARGSK-GILSS-LLLEEWDRILSVNLTGPYELSR 115
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+++K N+G I+ I+S + ++ AYAASK
Sbjct: 116 YCRDELIK-NKGRIINIASTRAFQSEPDSEAYAASK 150
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 79.4 bits (196), Expect = 3e-18
Identities = 51/161 (31%), Positives = 80/161 (49%), Gaps = 16/161 (9%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSA---KAYHV 78
+VLITG SG+GR LA F G +V T R ++ +A A +
Sbjct: 2 PVVLITGCSSGIGRALADAFKAAGYEVWA----------TARKAEDVEALAAAGFTAVQL 51
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + A++ L + + + G +D+LINNAG +L D E ++R F N+
Sbjct: 52 DVNDGAALARLAEELEAEHGGLDVLINNAGYGAMGPLL--DGGVEAMRRQFETNVFAVVG 109
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ RA P +++R++G +V I S+S + A AY ASK A
Sbjct: 110 VTRALFP-LLRRSRGLVVNIGSVSGVLVTPFAGAYCASKAA 149
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 79.4 bits (196), Expect = 3e-18
Identities = 41/168 (24%), Positives = 75/168 (44%), Gaps = 9/168 (5%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ----G 71
R + + LITGA G+G +A EF+ G+ VL I + + +E+ +
Sbjct: 4 RWRLDGQTALITGASKGIGLAIAREFLGLGADVL---IVARDADALAQARDELAEEFPER 60
Query: 72 SAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNI 131
D+ ++ + + V + + IL+NNAG + D T+++ + +F
Sbjct: 61 EVHGLAADVSDDEDRRAILDWVEDHWDGLHILVNNAGGNIRKAA--IDYTEDEWRGIFET 118
Query: 132 NITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
N+ F + R P + + IV I S+S +T V + + Y +K A
Sbjct: 119 NLFSAFELSRYAHPLLKQHASSAIVNIGSVSGLTHVRSGAPYGMTKAA 166
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 79.0 bits (195), Expect = 3e-18
Identities = 44/158 (27%), Positives = 81/158 (51%), Gaps = 11/158 (6%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV---D 79
IVL+TGA +G G + F+++G +V+ + E L E++ ++ D
Sbjct: 2 IVLVTGATAGFGECITRRFIQQGHKVIATGRRQE-------RLQELKDELGDNLYIAQLD 54
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ N A+++E+ ++ ++ +D+L+NNAG+ + ++ + + + N G M
Sbjct: 55 VRNRAAIEEMLASLPAEWRNIDVLVNNAGLALGLEPAHKASVEDW-ETMIDTNNKGLVYM 113
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
RA LP MV+RN GHI+ I S + A + Y A+K
Sbjct: 114 TRAVLPGMVERNHGHIINIGSTAGSWPYAGGNVYGATK 151
>gnl|CDD|226476 COG3967, DltE, Short-chain dehydrogenase involved in D-alanine
esterification of lipoteichoic acid and wall teichoic
acid (D-alanine transfer protein) [Cell envelope
biogenesis, outer membrane].
Length = 245
Score = 78.6 bits (194), Expect = 4e-18
Identities = 43/163 (26%), Positives = 80/163 (49%), Gaps = 9/163 (5%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG--SAKAYHVDIG 81
+LITG SG+G LA F++ G+ V I NEE L E + D+
Sbjct: 8 ILITGGASGIGLALAKRFLELGNTV----IICGRNEER---LAEAKAENPEIHTEVCDVA 60
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ S +EL + + +++ +++LINNAGI + + + ++ N+ R+
Sbjct: 61 DRDSRRELVEWLKKEYPNLNVLINNAGIQRNEDLTGAEDLLDDAEQEIATNLLAPIRLTA 120
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
LP ++++ + I+ +SS + +A+ Y A+K A ++YT
Sbjct: 121 LLLPHLLRQPEATIINVSSGLAFVPMASTPVYCATKAAIHSYT 163
>gnl|CDD|187627 cd05369, TER_DECR_SDR_a, Trans-2-enoyl-CoA reductase (TER) and
2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR.
TTER is a peroxisomal protein with a proposed role in
fatty acid elongation. Fatty acid synthesis is known to
occur in the both endoplasmic reticulum and
mitochondria; peroxisomal TER has been proposed as an
additional fatty acid elongation system, it reduces the
double bond at C-2 as the last step of elongation. This
system resembles the mitochondrial system in that
acetyl-CoA is used as a carbon donor. TER may also
function in phytol metabolism, reducting phytenoyl-CoA
to phytanoyl-CoA in peroxisomes. DECR processes double
bonds in fatty acids to increase their utility in fatty
acid metabolism; it reduces 2,4-dienoyl-CoA to an
enoyl-CoA. DECR is active in mitochondria and
peroxisomes. This subgroup has the Gly-rich NAD-binding
motif of the classical SDR family, but does not display
strong identity to the canonical active site tetrad, and
lacks the characteristic Tyr at the usual position. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 249
Score = 78.8 bits (195), Expect = 4e-18
Identities = 43/159 (27%), Positives = 76/159 (47%), Gaps = 3/159 (1%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K K+ ITG G+G+G+ +A F + G+ V A + E E ++ G A D
Sbjct: 2 KGKVAFITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSATGGRAHPIQCD 61
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + +V+ ++FGK+DILINNA F ++ + + +I++ G F
Sbjct: 62 VRDPEAVEAAVDETLKEFGKIDILINNAA--GNFLAPAESLSPNGFKTVIDIDLNGTFNT 119
Query: 140 VRAFLPDMVKR-NQGHIVAISSMSSMTGVANASAYAASK 177
+A +++ + G I+ IS+ + TG AA+K
Sbjct: 120 TKAVGKRLIEAKHGGSILNISATYAYTGSPFQVHSAAAK 158
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 78.6 bits (194), Expect = 5e-18
Identities = 45/161 (27%), Positives = 79/161 (49%), Gaps = 4/161 (2%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K+ L+TGAG G+G +A V+ G +V D E + L++ G A A D
Sbjct: 1 MSKVALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSK-DGGKAIAVKAD 59
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + V + V FG +++++NNAG+ I IT+EQ +++NIN+ G
Sbjct: 60 VSDRDQVFAAVRQVVDTFGDLNVVVNNAGVAPTTPI--ETITEEQFDKVYNINVGGVIWG 117
Query: 140 VRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASKWA 179
++A K G I+ +S + + G + Y+++K+A
Sbjct: 118 IQAAQEAFKKLGHGGKIINATSQAGVVGNPELAVYSSTKFA 158
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 78.7 bits (194), Expect = 5e-18
Identities = 44/170 (25%), Positives = 83/170 (48%), Gaps = 6/170 (3%)
Query: 12 SPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG 71
S P + + K+ L+TG +G+G + F K G++V D+Q++ + L +
Sbjct: 9 SSLPSQRLLGKVALVTGGATGIGESIVRLFHKHGAKVCIVDLQDDLGQNVCDSLGG--EP 66
Query: 72 SAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQ--FKILQTDITDEQIQRLF 129
+ +H D+ E V FG +DI++NNAG+ I ++++ +++F
Sbjct: 67 NVCFFHCDVTVEDDVSRAVDFTVDKFGTLDIMVNNAGLTGPPCPDIRNVELSE--FEKVF 124
Query: 130 NINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
++N+ G F ++ M+ +G IV++ S++S G AY SK A
Sbjct: 125 DVNVKGVFLGMKHAARIMIPLKKGSIVSLCSVASAIGGLGPHAYTGSKHA 174
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 77.7 bits (192), Expect = 1e-17
Identities = 50/172 (29%), Positives = 79/172 (45%), Gaps = 10/172 (5%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+ K L+TG GLG ++A + G++V L A E E E A
Sbjct: 10 LSGKTALVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEE--AAAHLEALGIDALWIA 67
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ +EA ++ L + FG VDIL+NNAG + D E ++ N+N+ G F
Sbjct: 68 ADVADEADIERLAEETLERFGHVDILVNNAG--ATWGAPAEDHPVEAWDKVMNLNVRGLF 125
Query: 138 RMVRAFLPD-MVKRNQGHIVAISSMSSMTG----VANASAYAASKWARYTYT 184
+ +A M+ R G I+ ++S++ + G V + AY SK A +T
Sbjct: 126 LLSQAVAKRSMIPRGYGRIINVASVAGLGGNPPEVMDTIAYNTSKGAVINFT 177
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 77.4 bits (191), Expect = 1e-17
Identities = 42/156 (26%), Positives = 73/156 (46%), Gaps = 3/156 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
++ L+TG+ GLG E+A G+ VL E V L G+A+A DI
Sbjct: 12 QVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRA-AGGAAEALAFDIA 70
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+E +V + + G++DIL+NN G + + ++ D I+ L ++ + R
Sbjct: 71 DEEAVAAAFARIDAEHGRLDILVNNVGARDRRPL--AELDDAAIRALLETDLVAPILLSR 128
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
M ++ G I+AI+S++ A + Y A+K
Sbjct: 129 LAAQRMKRQGYGRIIAITSIAGQVARAGDAVYPAAK 164
>gnl|CDD|187596 cd05337, BKR_1_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 1, classical (c) SDR.
This subgroup includes Escherichia coli CFT073 FabG. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 255
Score = 77.1 bits (190), Expect = 1e-17
Identities = 47/165 (28%), Positives = 75/165 (45%), Gaps = 14/165 (8%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHVDIGN 82
++TGA G+GR +A E RG + D+ ++ V + E+ A + DIG
Sbjct: 5 IVTGASRGIGRAIATELAARGFDIAINDLPDDDQATEV--VAEVLAAGRRAIYFQADIGE 62
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF----- 137
+ + L DFG++D L+NNAGI + + D+T++ RL IN+ G F
Sbjct: 63 LSDHEALLDQAWEDFGRLDCLVNNAGIAVRPRGDLLDLTEDSFDRLIAINLRGPFFLTQA 122
Query: 138 ---RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
RMV PD I+ ++S+++ N Y SK
Sbjct: 123 VARRMVEQ--PDRFDGPHRSIIFVTSINAYLVSPNRGEYCISKAG 165
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 76.7 bits (189), Expect = 2e-17
Identities = 47/160 (29%), Positives = 79/160 (49%), Gaps = 15/160 (9%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIR-QGSAKAYHVDI 80
K VL+TGA SG+GR A+ +RG++V+ A L+ + + + +D+
Sbjct: 10 KSVLVTGASSGIGRACAVALAQRGARVVAAAR-------NAAALDRLAGETGCEPLRLDV 62
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
G++A+++ G D L+N AGI + L D+T E R+ +N G +
Sbjct: 63 GDDAAIRAALA----AAGAFDGLVNCAGIASLESAL--DMTAEGFDRVMAVNARGAALVA 116
Query: 141 RAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASKWA 179
R M+ + G IV +SS +++ G+ + AY ASK A
Sbjct: 117 RHVARAMIAAGRGGSIVNVSSQAALVGLPDHLAYCASKAA 156
>gnl|CDD|187642 cd08937, DHB_DH-like_SDR_c,
1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase (DHB DH)-like, classical (c) SDR. DHB DH
(aka 1,2-dihydroxycyclohexa-3,5-diene-1-carboxylate
dehydrogenase) catalyzes the NAD-dependent conversion of
1,2-dihydroxycyclohexa-3,4-diene carboxylate to a
catechol. This subgroup also contains Pseudomonas putida
F1 CmtB, 2,3-dihydroxy-2,3-dihydro-p-cumate
dehydrogenase, the second enzyme in the pathway for
catabolism of p-cumate catabolism. This subgroup shares
the glycine-rich NAD-binding motif of the classical SDRs
and shares the same catalytic triad; however, the
upstream Asn implicated in cofactor binding or catalysis
in other SDRs is generally substituted by a Ser. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 76.8 bits (189), Expect = 2e-17
Identities = 48/161 (29%), Positives = 77/161 (47%), Gaps = 11/161 (6%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV- 78
+ K+V++TGA G+GR +A G++VL D E V + + A HV
Sbjct: 3 EGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDR-----SELVHEVLAEILAAGDAAHVH 57
Query: 79 --DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ A + + + FG+VD+LINN G K + +EQI+ ++
Sbjct: 58 TADLETYAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYE-HYEEEQIEAEIRRSLFPT 116
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
RA LP M++R QG IV +SS+++ Y+A+K
Sbjct: 117 LWCCRAVLPHMLERQQGVIVNVSSIATRGI--YRIPYSAAK 155
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup has
the canonical active site tetrad and NAD-binding motif
of the classical SDRs. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 76.3 bits (188), Expect = 2e-17
Identities = 46/165 (27%), Positives = 78/165 (47%), Gaps = 18/165 (10%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLN-EIRQGSAKAYHVDI 80
K + ITGA SG+GRE AL F + G V DI +E+ + L E+ + A +D+
Sbjct: 1 KAIFITGAASGIGRETALLFARNGWFVGLYDI----DEDGLAALAAELGAENVVAGALDV 56
Query: 81 ----GNEASVKELGKNVHRDFGKVDILINNAGILT--QFKILQTDITDEQIQRLFNINIT 134
A++ + G++D L NNAG+ F+ D+ R+ +IN+
Sbjct: 57 TDRAAWAAALADFAAATG---GRLDALFNNAGVGRGGPFE----DVPLAAHDRMVDINVK 109
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
G A LP + ++ +S S++ G + + Y+A+K+A
Sbjct: 110 GVLNGAYAALPYLKATPGARVINTASSSAIYGQPDLAVYSATKFA 154
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 76.3 bits (188), Expect = 3e-17
Identities = 44/164 (26%), Positives = 77/164 (46%), Gaps = 12/164 (7%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQN-EPNEETVRMLNEIRQGSAKAYHV- 78
K+ L+TG+ G+G+ +AL + G + ++ + EET EI KA V
Sbjct: 4 GKVALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETA---EEIEALGRKALAVK 60
Query: 79 -DIGNEASVKELGKNVHRDFGKVDILINNA--GILTQFKILQTDITDEQIQRLFNINITG 135
++G+ +KE+ + +FG++D+ +NNA G+L L+ D + NIN
Sbjct: 61 ANVGDVEKIKEMFAQIDEEFGRLDVFVNNAASGVLRPAMELEESHWDWTM----NINAKA 116
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ M K G I+++SS+ S+ + N + SK A
Sbjct: 117 LLFCAQEAAKLMEKVGGGKIISLSSLGSIRYLENYTTVGVSKAA 160
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 76.5 bits (189), Expect = 3e-17
Identities = 43/172 (25%), Positives = 74/172 (43%), Gaps = 11/172 (6%)
Query: 14 PPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSA 73
E+ K L+TG G+G ++ G++V+ T R +
Sbjct: 2 SFFLELAGKRALVTGGTKGIGAATVARLLEAGARVVT----------TARSRPDDLPEGV 51
Query: 74 KAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINI 133
+ D+ + + V G VDIL++ G + +TDE+ Q N+N+
Sbjct: 52 EFVAADLTTAEGCAAVARAVLERLGGVDILVHVLGGSSAPAGGFAALTDEEWQDELNLNL 111
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSM-SSMTGVANASAYAASKWARYTYT 184
R+ RA LP M+ R G I+ ++S+ + + +AYAA+K A TY+
Sbjct: 112 LAAVRLDRALLPGMIARGSGVIIHVTSIQRRLPLPESTTAYAAAKAALSTYS 163
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 76.1 bits (188), Expect = 4e-17
Identities = 47/169 (27%), Positives = 76/169 (44%), Gaps = 18/169 (10%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLN----EIRQGSAK 74
+ ++ LITG GSG+GR L F+ G++V + ++ ++R + +G
Sbjct: 4 LHGQVALITGGGSGIGRALVERFLAEGARVAVLE-RSAEKLASLRQRFGDHVLVVEGDVT 62
Query: 75 AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQI----QRLFN 130
+Y N+ +V + V FGK+D + NAGI L DI E + +FN
Sbjct: 63 SYA---DNQRAVDQ---TVDA-FGKLDCFVGNAGIWDYNTSLV-DIPAETLDTAFDEIFN 114
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+N+ G+ +A LP + I +S+ S G Y ASK A
Sbjct: 115 VNVKGYLLGAKAALPALKASGGSMIFTLSNSSFYPG-GGGPLYTASKHA 162
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 76.0 bits (187), Expect = 4e-17
Identities = 57/170 (33%), Positives = 82/170 (48%), Gaps = 11/170 (6%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNE-PNEETVRMLNEIRQGSAKAYHV-- 78
K+VLITGA G+GR A+ RG V ++ EET +R +A V
Sbjct: 3 KVVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETAD---AVRAAGGRACVVAG 59
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ NEA V + V FG++D L+NNAGI+ L D+ +++R+F+ N+ G +
Sbjct: 60 DVANEADVIAMFDAVQSAFGRLDALVNNAGIVAPSMPL-ADMDAARLRRMFDTNVLGAYL 118
Query: 139 MVRAFLPDMVKRNQGH---IVAISSMSSMTGVANASA-YAASKWARYTYT 184
R + G IV +SS++S G N YA SK A T T
Sbjct: 119 CAREAARRLSTDRGGRGGAIVNVSSIASRLGSPNEYVDYAGSKGAVDTLT 168
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 76.2 bits (188), Expect = 5e-17
Identities = 46/161 (28%), Positives = 79/161 (49%), Gaps = 11/161 (6%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
+ K+ L+TGA SG+G+ A +G V A V + ++ +D
Sbjct: 2 QKKVALVTGASSGIGKATARRLAAQGYTVYGA-------ARRVDKMEDLASLGVHPLSLD 54
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ +EAS+K + + G++D+L+NNAG + I D+ ++ +R F +N+ G R+
Sbjct: 55 VTDEASIKAAVDTIIAEEGRIDVLVNNAGYGSYGAI--EDVPIDEARRQFEVNLFGAARL 112
Query: 140 VRAFLPDMVKRNQGHIVAISSMSS-MTGVANASAYAASKWA 179
+ LP M + G I+ ISSM + A Y A+K+A
Sbjct: 113 TQLVLPHMRAQRSGRIINISSMGGKIYTPLGA-WYHATKFA 152
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 75.5 bits (186), Expect = 5e-17
Identities = 43/157 (27%), Positives = 68/157 (43%), Gaps = 6/157 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNE-PNEETVRMLNEIRQGSAKAYHVDI 80
K+ ++TGA G+G +A G V + +E V + E G A A D+
Sbjct: 6 KVAIVTGASRGIGAAIARRLAADGFAVAVNYAGSAAAADELVAEI-EAAGGRAIAVQADV 64
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ A+V L FG++D+L+NNAG++ I D E R N+ G F ++
Sbjct: 65 ADAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADFD--LEDFDRTIATNLRGAFVVL 122
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
R + G I+ +S+ + YAASK
Sbjct: 123 REAARHL--GQGGRIINLSTSVIALPLPGYGPYAASK 157
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 75.3 bits (186), Expect = 6e-17
Identities = 50/175 (28%), Positives = 89/175 (50%), Gaps = 16/175 (9%)
Query: 14 PPRKE-IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ-G 71
P+ + +KD+I+L+TGAG G+GRE AL + + G+ V+ + E E V +EI G
Sbjct: 4 QPKPDLLKDRIILVTGAGDGIGREAALTYARHGATVILLG-RTEEKLEAVY--DEIEAAG 60
Query: 72 SAKAYHVDI----GNEASVKELGKNVHRDFGKVDILINNAGIL---TQFKILQTDITDEQ 124
+ + + + ++L + FG++D +++NAG+L + ++ +
Sbjct: 61 GPQPAIIPLDLLTATPQNYQQLADTIEEQFGRLDGVLHNAGLLGELGPMEQQDPEVWQDV 120
Query: 125 IQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+Q +N+ F + +A LP ++K +V SS G AN AYA SK+A
Sbjct: 121 MQ----VNVNATFMLTQALLPLLLKSPAASLVFTSSSVGRQGRANWGAYAVSKFA 171
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 75.4 bits (186), Expect = 7e-17
Identities = 45/168 (26%), Positives = 77/168 (45%), Gaps = 17/168 (10%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
V ITGA SG+G+ LA E+ ++G+ + + + + L + Y D+ +
Sbjct: 4 KVFITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLPK--AARVSVYAADVRD 61
Query: 83 EASVKELGKNVHRDFGKVDILINNAGI----LTQFKILQTDITDEQIQRLFNINITGHFR 138
++ + G D++I NAGI LT+ + D+ + + + N G
Sbjct: 62 ADALAAAAADFIAAHGLPDVVIANAGISVGTLTEER---EDL--AVFREVMDTNYFG--- 113
Query: 139 MVRAFLP---DMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTY 183
MV F P M +G +V I+S++ + G+ A AY+ASK A Y
Sbjct: 114 MVATFQPFIAPMRAARRGTLVGIASVAGVRGLPGAGAYSASKAAAIKY 161
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 75.0 bits (184), Expect = 8e-17
Identities = 48/160 (30%), Positives = 78/160 (48%), Gaps = 6/160 (3%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
++ + L+TGA G+G E+A +G+ V + E E L E K +
Sbjct: 3 DLSGRKALVTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALAAELGE----RVKIFP 58
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
++ + VK LG+ D VDIL+NNAGI ++ ++DE + +N+T F
Sbjct: 59 ANLSDRDEVKALGQKAEADLEGVDILVNNAGITKDGLFVR--MSDEDWDSVLEVNLTATF 116
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
R+ R M++R G I+ I+S+ +TG + Y ASK
Sbjct: 117 RLTRELTHPMMRRRYGRIINITSVVGVTGNPGQANYCASK 156
>gnl|CDD|188169 TIGR01829, AcAcCoA_reduct, acetoacetyl-CoA reductase. This model
represent acetoacetyl-CoA reductase, a member of the
family short-chain-alcohol dehydrogenases. Note that,
despite the precision implied by the enzyme name, the
reaction of EC 1.1.1.36 is defined more generally as
(R)-3-hydroxyacyl-CoA + NADP+ = 3-oxoacyl-CoA + NADPH.
Members of this family may act in the biosynthesis of
poly-beta-hydroxybutyrate (e.g. Rhizobium meliloti) and
related poly-beta-hydroxyalkanoates. Note that the
member of this family from Azospirillum brasilense,
designated NodG, appears to lack acetoacetyl-CoA
reductase activity and to act instead in the production
of nodulation factor. This family is downgraded to
subfamily for this NodG. Other proteins designated NodG,
as from Rhizobium, belong to related but distinct
protein families.
Length = 242
Score = 74.8 bits (184), Expect = 9e-17
Identities = 41/156 (26%), Positives = 69/156 (44%), Gaps = 2/156 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
+I L+TG G+G + K G +V NE E + D+
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGFDFRVVEGDVS 60
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ S K V + G +D+L+NNAGI T+ + +T EQ + + N+ F + +
Sbjct: 61 SFESCKAAVAKVEAELGPIDVLVNNAGI-TRDATFKK-MTYEQWSAVIDTNLNSVFNVTQ 118
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ M +R G I+ ISS++ G + Y+A+K
Sbjct: 119 PVIDGMRERGWGRIINISSVNGQKGQFGQTNYSAAK 154
>gnl|CDD|187601 cd05343, Mgc4172-like_SDR_c, human Mgc4172-like, classical (c)
SDRs. Human Mgc4172-like proteins, putative SDRs. These
proteins are members of the SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 74.5 bits (183), Expect = 2e-16
Identities = 45/165 (27%), Positives = 74/165 (44%), Gaps = 8/165 (4%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVL-CADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ ++ L+TGA G+G +A V+ G +V+ CA + E + Y
Sbjct: 5 RGRVALVTGASVGIGAAVARALVQHGMKVVGCARRV-DKIEALAAECQSAGYPTLFPYQC 63
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ NE + + + VD+ INNAG+ +L E + +F++N+
Sbjct: 64 DLSNEEQILSMFSAIRTQHQGVDVCINNAGLARPEPLL--SGKTEGWKEMFDVNVLALSI 121
Query: 139 MVRAFLPDMVKRN--QGHIVAISSMS--SMTGVANASAYAASKWA 179
R M +RN GHI+ I+SMS + V+ YAA+K A
Sbjct: 122 CTREAYQSMKERNVDDGHIININSMSGHRVPPVSVFHFYAATKHA 166
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 74.3 bits (183), Expect = 2e-16
Identities = 40/169 (23%), Positives = 70/169 (41%), Gaps = 20/169 (11%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
+ K+ ++TG + +G +A V G++V DI + L E A+
Sbjct: 2 IGLAGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGE----RARFI 57
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNA------GILTQFKILQTDITDEQIQRLFN 130
DI ++A+++ V FG+VDIL+N A G+ + + +
Sbjct: 58 ATDITDDAAIERAVATVVARFGRVDILVNLACTYLDDGLAS---------SRADWLAALD 108
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+N+ + +A P + R G IV +S+S+ Y ASK A
Sbjct: 109 VNLVSAAMLAQAAHPHLA-RGGGAIVNFTSISAKFAQTGRWLYPASKAA 156
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 74.8 bits (184), Expect = 2e-16
Identities = 54/165 (32%), Positives = 86/165 (52%), Gaps = 14/165 (8%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV--D 79
K+ ++TGA +GLGR AL + G+ V+ D+ + + V L+EIR AKA V D
Sbjct: 13 KVAVVTGAAAGLGRAEALGLARLGATVVVNDVASALDASDV--LDEIRAAGAKAVAVAGD 70
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
I A+ EL G +DI++NNAGI T+ ++L +++DE+ + +++ GHF +
Sbjct: 71 ISQRATADELVATA-VGLGGLDIVVNNAGI-TRDRML-FNMSDEEWDAVIAVHLRGHFLL 127
Query: 140 VR---AFLPDMVK----RNQGHIVAISSMSSMTGVANASAYAASK 177
R A+ K G IV SS + + G + Y A+K
Sbjct: 128 TRNAAAYWRAKAKAAGGPVYGRIVNTSSEAGLVGPVGQANYGAAK 172
>gnl|CDD|187649 cd08945, PKR_SDR_c, Polyketide ketoreductase, classical (c) SDR.
Polyketide ketoreductase (KR) is a classical SDR with a
characteristic NAD-binding pattern and active site
tetrad. Aromatic polyketides include various aromatic
compounds of pharmaceutical interest. Polyketide KR,
part of the type II polyketide synthase (PKS) complex,
is comprised of stand-alone domains that resemble the
domains found in fatty acid synthase and multidomain
type I PKS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 258
Score = 74.1 bits (182), Expect = 2e-16
Identities = 48/159 (30%), Positives = 76/159 (47%), Gaps = 7/159 (4%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG-SAKAYHVDI 80
++ L+TGA SG+G +A K G +V E TV+ L E G A D+
Sbjct: 4 EVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELRE--AGVEADGRTCDV 61
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ ++ L +G +D+L+NNAG ++ DE + N+TG FR+
Sbjct: 62 RSVPEIEALVAAAVARYGPIDVLVNNAGRSGGGAT--AELADELWLDVVETNLTGVFRVT 119
Query: 141 RAFLPD--MVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ L M++R G I+ I+S GV +A+ Y+ASK
Sbjct: 120 KEVLKAGGMLERGTGRIINIASTGGKQGVVHAAPYSASK 158
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 72.8 bits (179), Expect = 8e-16
Identities = 49/173 (28%), Positives = 78/173 (45%), Gaps = 22/173 (12%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADI---------QNEPNEETVRMLNEIRQ-- 70
++V++TGAG G+GR AL F G++V+ DI + V +EI
Sbjct: 7 RVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVV---DEIVAAG 63
Query: 71 GSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFN 130
G A A DI + L FG +D+L+NNAGIL I ++E+ +
Sbjct: 64 GEAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNAGILRDRMIANM--SEEEWDAVIA 121
Query: 131 INITGHFRMVR---AFLPDMVKRNQ---GHIVAISSMSSMTGVANASAYAASK 177
+++ GHF +R A+ K + I+ SS + + G Y+A+K
Sbjct: 122 VHLKGHFATLRHAAAYWRAESKAGRAVDARIINTSSGAGLQGSVGQGNYSAAK 174
>gnl|CDD|212495 cd09807, retinol-DH_like_SDR_c, retinol dehydrogenases
(retinol-DHs), classical (c) SDRs. Classical SDR-like
subgroup containing retinol-DHs and related proteins.
Retinol is processed by a medium chain alcohol
dehydrogenase followed by retinol-DHs. Proteins in this
subfamily share the glycine-rich NAD-binding motif of
the classical SDRs, have a partial match to the
canonical active site tetrad, but lack the typical
active site Ser. This subgroup includes the human
proteins: retinol dehydrogenase -12, -13 ,and -14. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 274
Score = 72.9 bits (179), Expect = 9e-16
Identities = 48/177 (27%), Positives = 79/177 (44%), Gaps = 19/177 (10%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVL--CADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K V+ITGA +G+G+E A E +RG++V+ C D+ + E + + H+D
Sbjct: 2 KTVIITGANTGIGKETARELARRGARVIMACRDM-AKCEEAAAEIRRDTLNHEVIVRHLD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + S++ + ++D+LINNAG++ D + Q F +N GHF +
Sbjct: 61 LASLKSIRAFAAEFLAEEDRLDVLINNAGVMRCPYSKTEDGFEMQ----FGVNHLGHFLL 116
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVAN------------ASAYAASKWARYTYT 184
L + K IV +SS++ G N AY SK A +T
Sbjct: 117 TNLLLDLLKKSAPSRIVNVSSLAHKAGKINFDDLNSEKSYNTGFAYCQSKLANVLFT 173
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 72.4 bits (178), Expect = 9e-16
Identities = 46/157 (29%), Positives = 75/157 (47%), Gaps = 4/157 (2%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPN-EETVRMLNEIR-QGSAKAYHVDIGN 82
ITGA GLGR +A ++G++V DI + + +N +G A A D+ +
Sbjct: 3 FITGAAGGLGRAIARRMAEQGAKVFLTDINDAAGLDAFAAEINAAHGEGVAFAAVQDVTD 62
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
EA + L G + +L+NNAG+ + I I ++ +R+ IN+ F +
Sbjct: 63 EAQWQALLAQAADAMGGLSVLVNNAGVGSFGAI--EQIELDEWRRVMAINVESIFLGCKH 120
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
LP + IV ISS+++ + +AY ASK A
Sbjct: 121 ALPYLRASQPASIVNISSVAAFKAEPDYTAYNASKAA 157
>gnl|CDD|187590 cd05329, TR_SDR_c, tropinone reductase-I and II (TR-1, and
TR-II)-like, classical (c) SDRs. This subgroup includes
TR-I and TR-II; these proteins are members of the SDR
family. TRs catalyze the NADPH-dependent reductions of
the 3-carbonyl group of tropinone, to a beta-hydroxyl
group. TR-I and TR-II produce different stereoisomers
from tropinone, TR-I produces tropine
(3alpha-hydroxytropane), and TR-II, produces
pseudotropine (sigma-tropine, 3beta-hydroxytropane).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 251
Score = 71.7 bits (176), Expect = 1e-15
Identities = 50/171 (29%), Positives = 82/171 (47%), Gaps = 16/171 (9%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRGSQVL-CADIQNEPNEETVRMLNEIRQGSAK 74
R ++ K L+TG G+G + E G++V CA Q E +E L E R+ K
Sbjct: 1 RWNLEGKTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDE----CLTEWRE---K 53
Query: 75 AYHV-----DIGNEASVKELGKNVHRDF-GKVDILINNAGILTQFKILQTDITDEQIQRL 128
+ V D+ + + +EL V F GK++IL+NNAG + + D T+E +
Sbjct: 54 GFKVEGSVCDVSSRSERQELMDTVASHFGGKLNILVNNAGTNIRKE--AKDYTEEDYSLI 111
Query: 129 FNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ N + + R P + G+IV ISS++ + V + + Y A+K A
Sbjct: 112 MSTNFEAAYHLSRLAHPLLKASGNGNIVFISSVAGVIAVPSGAPYGATKGA 162
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 71.3 bits (175), Expect = 2e-15
Identities = 47/166 (28%), Positives = 80/166 (48%), Gaps = 11/166 (6%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ L+TGA SGLG A + G++V+ A + E +E +R E G+A +D+
Sbjct: 10 KVALVTGASSGLGARFAQVLAQAGAKVVLASRRVERLKE-LRAEIEAEGGAAHVVSLDVT 68
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ S+K + + G +DIL+NN+G+ T K+ D+T +F+ N G F + +
Sbjct: 69 DYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKL--VDVTPADFDFVFDTNTRGAFFVAQ 126
Query: 142 AFLPDMVKRN--------QGHIVAISSMSSMTGVANASAYAASKWA 179
M+ R G I+ I+S++ + + Y SK A
Sbjct: 127 EVAKRMIARAKGAGNTKPGGRIINIASVAGLRVLPQIGLYCMSKAA 172
>gnl|CDD|132368 TIGR03325, BphB_TodD, cis-2,3-dihydrobiphenyl-2,3-diol
dehydrogenase. Members of this family occur as the BphD
protein of biphenyl catabolism and as the TodD protein
of toluene catabolism. Members catalyze the second step
in each pathway and proved interchangeable when tested;
the first and fourth enzymes in each pathway confer
metabolic specificity. In the context of biphenyl
degradation, the enzyme acts as
cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC
1.3.1.56), while in toluene degradation it acts as
cis-toluene dihydrodiol dehydrogenase.
Length = 262
Score = 71.4 bits (175), Expect = 2e-15
Identities = 57/176 (32%), Positives = 78/176 (44%), Gaps = 32/176 (18%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+K ++VL+TG SGLGR + FV G++V D ++ L E+ A H
Sbjct: 2 RLKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLD-------KSAAGLQELE-----AAH 49
Query: 78 VD--IGNEASVKELGKN---VHR---DFGKVDILINNAGI---LTQFKILQTDITDEQIQ 126
D +G E V+ L + V R FGK+D LI NAGI T + D DE
Sbjct: 50 GDAVVGVEGDVRSLDDHKEAVARCVAAFGKIDCLIPNAGIWDYSTALVDIPDDRIDEAFD 109
Query: 127 RLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYT 182
+F+IN+ G+ V+A LP +V I IS NA Y YT
Sbjct: 110 EVFHINVKGYLLAVKAALPALVASRGSVIFTIS---------NAGFYPNGGGPLYT 156
>gnl|CDD|187615 cd05357, PR_SDR_c, pteridine reductase (PR), classical (c) SDRs.
Pteridine reductases (PRs), members of the SDR family,
catalyzes the NAD-dependent reduction of folic acid,
dihydrofolate and related compounds. In Leishmania,
pteridine reductase (PTR1) acts to circumvent the
anti-protozoan drugs that attack dihydrofolate reductase
activity. Proteins in this subgroup have an N-terminal
NAD-binding motif and a YxxxK active site motif, but
have an Asp instead of the usual upstream catalytic Ser.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 234
Score = 70.0 bits (172), Expect = 5e-15
Identities = 42/165 (25%), Positives = 71/165 (43%), Gaps = 6/165 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEI--RQGSAKAYHVD 79
+ L+TGA +GR +A G +V+ N E R+ +E+ + SA D
Sbjct: 1 AVALVTGAAKRIGRAIAEALAAEGYRVVVH--YNRSEAEAQRLKDELNALRNSAVLVQAD 58
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + A+ +L R FG+ D+L+NNA + Q ++ LF IN+ + +
Sbjct: 59 LSDFAACADLVAAAFRAFGRCDVLVNNASAFYPTPLGQGS--EDAWAELFGINLKAPYLL 116
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
++AF + G I+ I + + AY SK A T
Sbjct: 117 IQAFARRLAGSRNGSIINIIDAMTDRPLTGYFAYCMSKAALEGLT 161
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 71.4 bits (176), Expect = 5e-15
Identities = 46/158 (29%), Positives = 80/158 (50%), Gaps = 10/158 (6%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEP--NEETVRMLNEIRQGSAKAYHVD 79
K+ L+TGA G+G +A + G+ V+C D+ P E + N + G+A A D
Sbjct: 211 KVALVTGAARGIGAAIAEVLARDGAHVVCLDV---PAAGEALAAVANRVG-GTALAL--D 264
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
I + + +++ G +DI+++NAGI T+ K L ++ + + + +N+ R+
Sbjct: 265 ITAPDAPARIAEHLAERHGGLDIVVHNAGI-TRDKTL-ANMDEARWDSVLAVNLLAPLRI 322
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
A L + G IV +SS+S + G + YAASK
Sbjct: 323 TEALLAAGALGDGGRIVGVSSISGIAGNRGQTNYAASK 360
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 70.9 bits (174), Expect = 6e-15
Identities = 53/169 (31%), Positives = 83/169 (49%), Gaps = 17/169 (10%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRGSQ-VLCADIQNEPNEETV-RMLNEIRQGSA 73
+ +V+ITGA SG+G+ A F +RG++ VL A +EE + + E R A
Sbjct: 2 MGPLHGAVVVITGASSGIGQATAEAFARRGARLVLAAR-----DEEALQAVAEECRALGA 56
Query: 74 KAYHV--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDI-TDEQIQRLFN 130
+ V D+ + VK L G++D+ +NN G+ + +T I EQ+ +
Sbjct: 57 EVLVVPTDVTDADQVKALATQAASFGGRIDVWVNNVGVGAVGRFEETPIEAHEQVIQ--- 113
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVAN--ASAYAASK 177
N+ G+ R A LP K QGH + I+ +S A A+AY+ASK
Sbjct: 114 TNLIGYMRDAHAALPIFKK--QGHGIFINMISLGGFAAQPYAAAYSASK 160
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 70.2 bits (172), Expect = 6e-15
Identities = 47/172 (27%), Positives = 80/172 (46%), Gaps = 8/172 (4%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKA 75
R + D++ ++TGAG GLG +AL F + G+ VL A +E +IR +A
Sbjct: 5 RFRLDDQVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVA---EQIRAAGRRA 61
Query: 76 YHV--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINI 133
+ V D+ + + L FG++DI++NN G +L T + + + F N+
Sbjct: 62 HVVAADLAHPEATAGLAGQAVEAFGRLDIVVNNVGGTMPNPLLST--STKDLADAFTFNV 119
Query: 134 TGHFRMVRAFLPDMVKRN-QGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+ A +P M++ + G ++ ISS +AY +K A YT
Sbjct: 120 ATAHALTVAAVPLMLEHSGGGSVINISSTMGRLAGRGFAAYGTAKAALAHYT 171
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 70.1 bits (171), Expect = 7e-15
Identities = 56/177 (31%), Positives = 89/177 (50%), Gaps = 16/177 (9%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNE-PNEETVRMLNEIRQGSAKA 75
K + K+ L+TGA G+GR +A+ G+ V +N+ +ET+R EI KA
Sbjct: 2 KNLDGKVALVTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIR---EIESNGGKA 58
Query: 76 YHV--DIGNEASVKELGKNVHRDF------GKVDILINNAGILTQFKILQTDITDEQIQR 127
+ + D+ + VK+L + + + ++DIL+NNAGI TQ I T T+E
Sbjct: 59 FLIEADLNSIDGVKKLVEQLKNELQIRVGTSEIDILVNNAGIGTQGTIENT--TEEIFDE 116
Query: 128 LFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+ +NI F +++ LP + R +G ++ ISS G + AY SK A T T
Sbjct: 117 IMAVNIKAPFFLIQQTLP--LLRAEGRVINISSAEVRLGFTGSIAYGLSKGALNTMT 171
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 70.2 bits (172), Expect = 8e-15
Identities = 44/156 (28%), Positives = 75/156 (48%), Gaps = 7/156 (4%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHVDIG 81
L+ GA SG+G A+E G V + E EE V +IR G A A+ +D+
Sbjct: 13 ALVAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVD---KIRADGGEAVAFPLDVT 69
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ SVK G++++L++ AG K+ + EQ + I++ G R+
Sbjct: 70 DPDSVKSFVAQAEEALGEIEVLVSGAGDTYFGKLHEIS--TEQFESQVQIHLVGANRLAT 127
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
A LP M++R +G ++ + S ++ + AY A+K
Sbjct: 128 AVLPGMIERRRGDLIFVGSDVALRQRPHMGAYGAAK 163
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 69.3 bits (169), Expect = 1e-14
Identities = 47/171 (27%), Positives = 83/171 (48%), Gaps = 10/171 (5%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
++ K+ ++TG G+G+ + + + G++V+ N E ++NE+ + Y
Sbjct: 3 QLNGKVAIVTGGAKGIGKAITVALAQEGAKVVIN--YNSSKEAAENLVNELGKEGHDVYA 60
Query: 78 V--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQ--FKILQTDITDEQIQRLFNINI 133
V D+ L + FGKVDIL+NNAGI FK L E +R+ ++N+
Sbjct: 61 VQADVSKVEDANRLVEEAVNHFGKVDILVNNAGITRDRTFKKL----NREDWERVIDVNL 116
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+ F A LP + + +G I++ISS+ G + Y+A+K +T
Sbjct: 117 SSVFNTTSAVLPYITEAEEGRIISISSIIGQAGGFGQTNYSAAKAGMLGFT 167
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 69.2 bits (169), Expect = 1e-14
Identities = 43/157 (27%), Positives = 78/157 (49%), Gaps = 8/157 (5%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV--DIGN 82
+ITG SG+G EF +RG++V+ D+ + V N +R + V D+ +
Sbjct: 10 VITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAV---NHLRAEGFDVHGVMCDVRH 66
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
V L R G VD++ +NAGI+ I ++T + + + ++++ G V A
Sbjct: 67 REEVTHLADEAFRLLGHVDVVFSNAGIVVGGPI--VEMTHDDWRWVIDVDLWGSIHTVEA 124
Query: 143 FLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASKW 178
FLP ++++ GH+V +S + + A AY +K+
Sbjct: 125 FLPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKY 161
>gnl|CDD|187634 cd08929, SDR_c4, classical (c) SDR, subgroup 4. This subgroup has
a canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 226
Score = 68.3 bits (167), Expect = 2e-14
Identities = 42/158 (26%), Positives = 72/158 (45%), Gaps = 8/158 (5%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
K L+TGA G+G A G +V +CA +E + D+
Sbjct: 1 KAALVTGASRGIGEATARLLHAEGYRVGICAR-----DEARLAAAAAQELEGVLGLAGDV 55
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+EA V+ + FG +D L+NNAG+ + + +T E+ + + + N+TG F +
Sbjct: 56 RDEADVRRAVDAMEEAFGGLDALVNNAGVGVMKPVEE--LTPEEWRLVLDTNLTGAFYCI 113
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKW 178
P +++R G IV + S++ +AY ASK+
Sbjct: 114 HKAAPALLRRGGGTIVNVGSLAGKNAFKGGAAYNASKF 151
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 67.8 bits (166), Expect = 4e-14
Identities = 53/163 (32%), Positives = 78/163 (47%), Gaps = 18/163 (11%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K VLITG SG+G E ALE +RG +VL A ++ RM +D+
Sbjct: 3 KSVLITGCSSGIGLEAALELKRRGYRVLAA---CRKPDDVARM----NSLGFTGILLDLD 55
Query: 82 NEASVKELGKNV-----HRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
+ SV+ V +R +G L NNAG + L T I+ +Q+++ F+ N G
Sbjct: 56 DPESVERAADEVIALTDNRLYG----LFNNAGFGV-YGPLST-ISRQQMEQQFSTNFFGT 109
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
++ LP M+ +G IV SS+ + AYAASK+A
Sbjct: 110 HQLTMLLLPAMLPHGEGRIVMTSSVMGLISTPGRGAYAASKYA 152
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 68.0 bits (167), Expect = 5e-14
Identities = 47/173 (27%), Positives = 74/173 (42%), Gaps = 24/173 (13%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPN-------EETVRMLNEIRQ-- 70
K + ITGA G+G +AL + G+ ++ A EP+ EI
Sbjct: 5 SGKTLFITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAE---EIEAAG 61
Query: 71 GSAKAYHVDIGNEASVKE-LGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQR-- 127
G A D+ +E V + K V R FG +DI +NNA + T ++R
Sbjct: 62 GQALPLVGDVRDEDQVAAAVAKAVER-FGGIDICVNNASAINLTGTEDTP-----MKRFD 115
Query: 128 -LFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSM--TGVANASAYAASK 177
+ IN+ G F + +A LP + K HI+ +S ++ A +AY +K
Sbjct: 116 LMQQINVRGTFLVSQACLPHLKKSENPHILTLSPPLNLDPKWFAPHTAYTMAK 168
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 67.4 bits (165), Expect = 7e-14
Identities = 40/165 (24%), Positives = 72/165 (43%), Gaps = 11/165 (6%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAY 76
+++ ++ ++TG SG+G ++ G+ V +C + R+ + A
Sbjct: 5 QLEGRVAVVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKFPGARLLAA 64
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAG--ILTQFKILQTDITDEQIQRLFNINIT 134
D+ +EA V V FG VD+L+NNAG ++ F D TD+ + +
Sbjct: 65 RCDVLDEADVAAFAAAVEARFGGVDMLVNNAGQGRVSTFA----DTTDDAWRDELELKYF 120
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTG----VANASAYAA 175
RAFLP + IV ++S+ ++ VA ++A A
Sbjct: 121 SVINPTRAFLPLLRASAAASIVCVNSLLALQPEPHMVATSAARAG 165
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 66.9 bits (164), Expect = 9e-14
Identities = 51/182 (28%), Positives = 76/182 (41%), Gaps = 52/182 (28%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAYHVDI 80
+ +LITGA SGLG +A EF +G + LCA L E++ A + I
Sbjct: 3 QKILITGASSGLGAGMAREFAAKGRDLALCA--------RRTDRLEELKA-ELLARYPGI 53
Query: 81 GNEASVKELGKNVH-----------RDFGKVDILINNAGILTQFKI--------LQTDIT 121
+ +V L N H + G +D +I NAGI ++ T T
Sbjct: 54 --KVAVAALDVNDHDQVFEVFAEFRDELGGLDRVIVNAGIGKGARLGTGKFWANKATAET 111
Query: 122 D-----EQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGV-ANASAYAA 175
+ Q + I FR ++ GH+V ISS+S++ G+ +AYAA
Sbjct: 112 NFVAALAQCEAAMEI-----FR----------EQGSGHLVLISSVSAVRGLPGVKAAYAA 156
Query: 176 SK 177
SK
Sbjct: 157 SK 158
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 66.7 bits (163), Expect = 1e-13
Identities = 38/148 (25%), Positives = 67/148 (45%), Gaps = 8/148 (5%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+I ++ VL+TG GLG +A F + G++V+ + +E+ L + A A
Sbjct: 2 QISEQTVLVTGGSRGLGAAIARAFAREGARVV---VNYHQSEDAAEALADELGDRAIALQ 58
Query: 78 VDIGNEASVKELGKNVHRDFGK-VDILINNAGILTQFKILQ----TDITDEQIQRLFNIN 132
D+ + V+ + FGK + ++NNA F DIT E Q+ +
Sbjct: 59 ADVTDREQVQAMFATATEHFGKPITTVVNNALADFSFDGDARKKADDITWEDFQQQLEGS 118
Query: 133 ITGHFRMVRAFLPDMVKRNQGHIVAISS 160
+ G ++A LP M ++ G I+ I +
Sbjct: 119 VKGALNTIQAALPGMREQGFGRIINIGT 146
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 66.8 bits (163), Expect = 1e-13
Identities = 50/163 (30%), Positives = 80/163 (49%), Gaps = 8/163 (4%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPN--EETVRMLN-EIRQGSAKAYHVDIG 81
LITGA SG+GR A+ F + G+ + + E E V+++ E R+ A A D+
Sbjct: 59 LITGADSGIGRATAIAFAREGADIALNYLPEEEQDAAEVVQLIQAEGRK--AVALPGDLK 116
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+EA ++L + ++ G +DIL+N AG T K + DIT EQ F N+ F + +
Sbjct: 117 DEAFCRQLVERAVKELGGLDILVNIAGKQTAVKDIA-DITTEQFDATFKTNVYAMFWLCK 175
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
A +P + I+ S+ S YA++K A +T
Sbjct: 176 AAIPHL--PPGASIINTGSIQSYQPSPTLLDYASTKAAIVAFT 216
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 66.1 bits (162), Expect = 2e-13
Identities = 39/166 (23%), Positives = 74/166 (44%), Gaps = 14/166 (8%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV--D 79
+ L+TG G+G +A G + D ++ EE E+R + D
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAINDRPDD--EELAATQQELRALGVEVIFFPAD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGI--LTQFKILQTDITDEQIQRLFNINITGHF 137
+ + ++ + + +G++D L+NNAG+ + +L D+T E R+ IN+ G F
Sbjct: 61 VADLSAHEAMLDAAQAAWGRIDCLVNNAGVGVKVRGDLL--DLTPESFDRVLAINLRGPF 118
Query: 138 RMVRAFLPDMVKRNQGH------IVAISSMSSMTGVANASAYAASK 177
+ +A M+ + + IV +SS++++ N Y SK
Sbjct: 119 FLTQAVAKRMLAQPEPEELPHRSIVFVSSVNAIMVSPNRGEYCISK 164
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 66.2 bits (162), Expect = 2e-13
Identities = 34/144 (23%), Positives = 59/144 (40%), Gaps = 6/144 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ K VLITGA G+G A F G + + E L + +
Sbjct: 5 LAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVDVAVHAL 64
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + + ++L + G +DIL+NNAG + + D+ D + + + + G+
Sbjct: 65 DLSSPEAREQL----AAEAGDIDILVNNAGAIPGGGLD--DVDDAAWRAGWELKVFGYID 118
Query: 139 MVRAFLPDMVKRNQGHIVAISSMS 162
+ R P M R G IV + +
Sbjct: 119 LTRLAYPRMKARGSGVIVNVIGAA 142
>gnl|CDD|187663 cd09762, HSDL2_SDR_c, human hydroxysteroid dehydrogenase-like
protein 2 (HSDL2), classical (c) SDRs. This subgroup
includes human HSDL2 and related protens. These are
members of the classical SDR family, with a canonical
Gly-rich NAD-binding motif and the typical YXXXK active
site motif. However, the rest of the catalytic tetrad is
not strongly conserved. HSDL2 may play a part in fatty
acid metabolism, as it is found in peroxisomes. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 65.2 bits (159), Expect = 4e-13
Identities = 47/168 (27%), Positives = 81/168 (48%), Gaps = 10/168 (5%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEE---TV-RMLNEIRQGSAK 74
+ K + ITGA G+G+ +AL+ + G+ V+ A EP+ + T+ EI K
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTIYTAAEEIEAAGGK 60
Query: 75 AYH--VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNIN 132
A VDI +E V+ + FG +DIL+NNA ++ L T + ++ + +N
Sbjct: 61 ALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNASAISLTGTLDTPM--KRYDLMMGVN 118
Query: 133 ITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGV--ANASAYAASKW 178
G + +A LP + K HI+ +S ++ N +AY +K+
Sbjct: 119 TRGTYLCSKACLPYLKKSKNPHILNLSPPLNLNPKWFKNHTAYTMAKY 166
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 65.2 bits (159), Expect = 4e-13
Identities = 45/180 (25%), Positives = 80/180 (44%), Gaps = 22/180 (12%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
++ + L+TG+ G+G LA + G++V I N + + E +G + H
Sbjct: 7 DLTGRRALVTGSSQGIGYALAEGLAQAGAEV----ILNGRDPAKLAAAAESLKGQGLSAH 62
Query: 78 V---DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINIT 134
D+ + +V+ + G +DIL+NNAG+ QF+ D + +RL NI+
Sbjct: 63 ALAFDVTDHDAVRAAIDAFEAEIGPIDILVNNAGM--QFRTPLEDFPADAFERLLRTNIS 120
Query: 135 GHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK-------------WARY 181
F + +A M+ R G I+ I+S+ S + Y A+K WA++
Sbjct: 121 SVFYVGQAVARHMIARGAGKIINIASVQSALARPGIAPYTATKGAVGNLTKGMATDWAKH 180
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 64.8 bits (158), Expect = 5e-13
Identities = 41/166 (24%), Positives = 78/166 (46%), Gaps = 9/166 (5%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ KIVL+TG G+GR +A F++ G++V+ + + E + L+ G A
Sbjct: 4 VAGKIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSAY--GECIAIPA 61
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ +E ++ L V ++D+L+NNAG + + ++ +IN+ F
Sbjct: 62 DLSSEEGIEALVARVAERSDRLDVLVNNAG--ATWGAPLEAFPESGWDKVMDINVKSVFF 119
Query: 139 MVRAFLPDMVK----RNQGHIVAISSMSSMTGVANAS-AYAASKWA 179
+ +A LP + N ++ I S++ + + +Y ASK A
Sbjct: 120 LTQALLPLLRAAATAENPARVINIGSIAGIVVSGLENYSYGASKAA 165
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 65.0 bits (159), Expect = 5e-13
Identities = 51/164 (31%), Positives = 81/164 (49%), Gaps = 17/164 (10%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYH 77
K+V++TGA G+GR +AL G++V+ D ++E E E+R G A A
Sbjct: 7 AGKVVVVTGAAQGIGRGVALRAAAEGARVVLVD-RSELVHEVA---AELRAAGGEALALT 62
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAG--ILTQ-FKILQTDITDEQIQR-LFNINI 133
D+ A + FG++D+LINN G I + F+ + + + +I+R LF
Sbjct: 63 ADLETYAGAQAAMAAAVEAFGRIDVLINNVGGTIWAKPFEEYEEEQIEAEIRRSLFPT-- 120
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
RA LP M+ + G IV +SS++ T N Y+A+K
Sbjct: 121 ---LWCCRAVLPHMLAQGGGAIVNVSSIA--TRGINRVPYSAAK 159
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 63.2 bits (154), Expect = 1e-12
Identities = 39/160 (24%), Positives = 73/160 (45%), Gaps = 16/160 (10%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
+ VL+TGA G+G L+L G QV+ I ++ + + D
Sbjct: 2 SSRTVLVTGATKGIGLALSLRLANLGHQVI--GIARSAIDDF----------PGELFACD 49
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + ++ VD ++NN GI + + D+ +Q ++++N+ ++
Sbjct: 50 LADIEQTAATLAQINEIHP-VDAIVNNVGIALPQPLGKIDLAA--LQDVYDLNVRAAVQV 106
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+AFL M R QG IV I S ++ G + ++Y+A+K A
Sbjct: 107 TQAFLEGMKLREQGRIVNICSR-AIFGALDRTSYSAAKSA 145
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 63.4 bits (154), Expect = 2e-12
Identities = 45/164 (27%), Positives = 82/164 (50%), Gaps = 8/164 (4%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG-SAKAY 76
++ K+ ++TG +GLG+ +AL + G ++ +I EP E ++ R+ S A
Sbjct: 7 SLEGKVAVVTGCDTGLGQGMALGLAEAGCDIVGINIV-EPTETIEQVTALGRRFLSLTA- 64
Query: 77 HVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ + L + +FG +DIL+NNAG++ + + + +++ + N+NI
Sbjct: 65 --DLRKIDGIPALLERAVAEFGHIDILVNNAGLIRREDAI--EFSEKDWDDVMNLNIKSV 120
Query: 137 FRMVRAFLPDMVKR-NQGHIVAISSMSSMTGVANASAYAASKWA 179
F M +A + + N G I+ I+SM S G +Y ASK
Sbjct: 121 FFMSQAAAKHFIAQGNGGKIINIASMLSFQGGIRVPSYTASKSG 164
>gnl|CDD|187535 cd02266, SDR, Short-chain dehydrogenases/reductases (SDR). SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase (KR) domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 186
Score = 62.1 bits (151), Expect = 2e-12
Identities = 37/156 (23%), Positives = 59/156 (37%), Gaps = 47/156 (30%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
VL+TG G+G +A RGS K V
Sbjct: 1 VLVTGGSGGIGGAIARWLASRGS--------------------------PKVLVVS---- 30
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
+ D++++NA IL +++ D+T +I+R N+ G R++ A
Sbjct: 31 ---------------RRDVVVHNAAILDDGRLI--DLTGSRIERAIRANVVGTRRLLEAA 73
Query: 144 LPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
M + G + ISS++ + G YAASK A
Sbjct: 74 RELMKAKRLGRFILISSVAGLFGAPGLGGYAASKAA 109
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 62.6 bits (153), Expect = 2e-12
Identities = 37/163 (22%), Positives = 69/163 (42%), Gaps = 13/163 (7%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
LITGA G+G +A E + +L E + L A + VD+
Sbjct: 4 PTALITGASRGIGAAIARELAPTHTLLLGGR-----PAERLDEL-AAELPGATPFPVDLT 57
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ ++ G++D+L++NAG+ + + T ++ + +N+ + R
Sbjct: 58 DPEAIAA----AVEQLGRLDVLVHNAGVADLGPV--AESTVDEWRATLEVNVVAPAELTR 111
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
LP ++ GH+V I+S + + +YAASK+A
Sbjct: 112 LLLP-ALRAAHGHVVFINSGAGLRANPGWGSYAASKFALRALA 153
>gnl|CDD|187656 cd08953, KR_2_SDR_x, ketoreductase (KR), subgroup 2, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
both KR domains of the Bacillus subtilis Pks J,-L, and
PksM, and all three KR domains of PksN, components of
the megacomplex bacillaene synthase, which synthesizes
the antibiotic bacillaene. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 436
Score = 63.2 bits (154), Expect = 5e-12
Identities = 40/178 (22%), Positives = 71/178 (39%), Gaps = 26/178 (14%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKR--------GSQVLCADIQNEPNEETVRMLNEIRQ 70
+ L+TG G+GR LA +R G L + + + + L +
Sbjct: 203 KPGGVYLVTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKA-----QTLAALEA 257
Query: 71 GSAKAYH--VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRL 128
A+ + D+ + A+V+ L + V +G +D +I+ AG+L + Q T E + +
Sbjct: 258 LGARVLYISADVTDAAAVRRLLEKVRERYGAIDGVIHAAGVLRDALLAQK--TAEDFEAV 315
Query: 129 FNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAA-----SKWARY 181
+ G + +A V SS+S+ G A + YAA +A Y
Sbjct: 316 LAPKVDGLLNLAQAL----ADEPLDFFVLFSSVSAFFGGAGQADYAAANAFLDAFAAY 369
>gnl|CDD|187664 cd09763, DHRS1-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) -like, classical (c) SDRs.
This subgroup includes human DHRS1 and related proteins.
These are members of the classical SDR family, with a
canonical Gly-rich NAD-binding motif and the typical
YXXXK active site motif. However, the rest of the
catalytic tetrad is not strongly conserved. DHRS1 mRNA
has been detected in many tissues, liver, heart,
skeletal muscle, kidney and pancreas; a longer
transcript is predominantly expressed in the liver , a
shorter one in the heart. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 265
Score = 62.1 bits (151), Expect = 5e-12
Identities = 50/171 (29%), Positives = 74/171 (43%), Gaps = 15/171 (8%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+ KI L+TGA G+GR +AL+ + G+ V P E R G
Sbjct: 1 LSGKIALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEARGGKCIPVRC 60
Query: 79 DIGNEASVKELGKNVHRDF-GKVDILINNA---------GILTQFKILQTDITDEQIQRL 128
D ++ V+ L + V R+ G++DIL+NNA G+ F I D+ +
Sbjct: 61 DHSDDDEVEALFERVAREQQGRLDILVNNAYAAVQLILVGVAKPFWEEPPTIWDD----I 116
Query: 129 FNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
N+ + H+ P MVK +G IV ISS + + N AY K A
Sbjct: 117 NNVGLRAHYACSVYAAPLMVKAGKGLIVIISSTGGLEYLFNV-AYGVGKAA 166
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 62.0 bits (151), Expect = 6e-12
Identities = 41/142 (28%), Positives = 70/142 (49%), Gaps = 8/142 (5%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHVD 79
KI L+TGA G+G +A ++G+ V+ + + + + + + I G A+A
Sbjct: 9 KIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQ---AVADAIVAAGGKAEALACH 65
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQF-KILQTDITDEQIQRLFNINITGHFR 138
IG + L ++ G++DIL+NNA F IL TD+ Q+ ++NI G+F
Sbjct: 66 IGEMEQIDALFAHIRERHGRLDILVNNAAANPYFGHILDTDLG--AFQKTVDVNIRGYFF 123
Query: 139 MVRAFLPDMVKRNQGHIVAISS 160
M M ++ G IV ++S
Sbjct: 124 MSVEAGKLMKEQGGGSIVNVAS 145
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 61.8 bits (150), Expect = 6e-12
Identities = 45/162 (27%), Positives = 77/162 (47%), Gaps = 12/162 (7%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+ +ITG +GLG+ +A+ K G+ ++ + P + + + +H
Sbjct: 9 KVAIITGCNTGLGQGMAIGLAKAGADIVGVGVAEAPETQ------AQVEALGRKFHFITA 62
Query: 82 NEASVKELGKNVHRD---FGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
+ K++ V + G +DILINNAGI+ + +L+ ++ + NIN F
Sbjct: 63 DLIQQKDIDSIVSQAVEVMGHIDILINNAGIIRRQDLLE--FGNKDWDDVININQKTVFF 120
Query: 139 MVRAFLPDMVKR-NQGHIVAISSMSSMTGVANASAYAASKWA 179
+ +A VK+ N G I+ I+SM S G +Y ASK A
Sbjct: 121 LSQAVAKQFVKQGNGGKIINIASMLSFQGGIRVPSYTASKSA 162
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 61.9 bits (150), Expect = 7e-12
Identities = 46/169 (27%), Positives = 82/169 (48%), Gaps = 8/169 (4%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNE-ETVRMLNEIRQGSAKAYH 77
+KD+ L+TG SG+GR A+ + + G+ V + + E + + V+ + I + KA
Sbjct: 47 LKDRKALVTGGDSGIGRAAAIAYAREGADVAISYLPVEEEDAQDVKKI--IEECGRKAVL 104
Query: 78 V--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITG 135
+ D+ +E + L H+ G +DI+ AG + D+T EQ Q+ F IN+
Sbjct: 105 LPGDLSDEKFARSLVHEAHKALGGLDIMALVAGKQVAIPDI-ADLTSEQFQKTFAINVFA 163
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
F + + +P + K I+ SS+ + + YAA+K A Y+
Sbjct: 164 LFWLTQEAIPLLPK--GASIITTSSIQAYQPSPHLLDYAATKAAILNYS 210
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 61.6 bits (150), Expect = 7e-12
Identities = 41/161 (25%), Positives = 82/161 (50%), Gaps = 5/161 (3%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
++ ++T + SG+G+ AL ++G + + E +ET + A+ +D
Sbjct: 2 AQVAIVTASDSGIGKACALLLAQQGFDIGITWHSDEEGAKETAEEVRSHGV-RAEIRQLD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + + + + G++D+L+NNAG +T+ L D ++ +++F +++ G F
Sbjct: 61 LSDLPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDMDF--DEWRKIFTVDVDGAFLC 118
Query: 140 VRAFLPDMVKRNQ-GHIVAISSMSSMTGVANASAYAASKWA 179
+ MVK+ Q G I+ I+S+ T + ASAY A+K A
Sbjct: 119 SQIAARHMVKQGQGGRIINITSVHEHTPLPGASAYTAAKHA 159
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 61.4 bits (149), Expect = 8e-12
Identities = 43/156 (27%), Positives = 74/156 (47%), Gaps = 5/156 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
++ L+TGA G+G +A + G QV+ AD+ E + + L E +A +D+
Sbjct: 11 RVALVTGAARGIGLGIAAWLIAEGWQVVLADLDRERGSKVAKALGE----NAWFIAMDVA 66
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+EA V V FG++D L+ NA I ++ R+ +N+TG + +
Sbjct: 67 DEAQVAAGVAEVLGQFGRLDALVCNAAIADPHNTTLESLSLAHWNRVLAVNLTGPMLLAK 126
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
P ++ + G IV ++S + + AYAASK
Sbjct: 127 HCAP-YLRAHNGAIVNLASTRARQSEPDTEAYAASK 161
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 61.2 bits (148), Expect = 1e-11
Identities = 59/169 (34%), Positives = 88/169 (52%), Gaps = 14/169 (8%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
++ K LITGA +G+G+ +AL +V+ G+QV A + E ++ +EI K
Sbjct: 6 DLHGKRALITGASTGIGKRVALAYVEAGAQVAIAARHLDALE---KLADEIGTSGGKVVP 62
Query: 78 V--DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITG 135
V D+ V + V + G +DI + NAGI+T +L D+ E+ QRL N N+TG
Sbjct: 63 VCCDVSQHQQVTSMLDQVTAELGGIDIAVCNAGIITVTPML--DMPLEEFQRLQNTNVTG 120
Query: 136 HFRMVRAFLPDMVKRNQGHIVAISSMSSMTG-VAN----ASAYAASKWA 179
F +A MVK+ QG I + +SM+G + N S Y ASK A
Sbjct: 121 VFLTAQAAAKAMVKQGQGG--VIINTASMSGHIINVPQQVSHYCASKAA 167
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 59.6 bits (145), Expect = 4e-11
Identities = 38/148 (25%), Positives = 66/148 (44%), Gaps = 10/148 (6%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRML-NEIRQGSAKAYH 77
+K K +LITGAG +G L ++ G V+ ADI E E + L E +
Sbjct: 2 LKGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLSLVE 61
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNA-----GILTQFKILQTDITDEQIQRLFNIN 132
+DI ++ S++E +GK+D +N A +F D++ + +++
Sbjct: 62 LDITDQESLEEFLSKSAEKYGKIDGAVNCAYPRNKDYGKKFF----DVSLDDFNENLSLH 117
Query: 133 ITGHFRMVRAFLPDMVKRNQGHIVAISS 160
+ F + F K+ G++V ISS
Sbjct: 118 LGSSFLFSQQFAKYFKKQGGGNLVNISS 145
>gnl|CDD|187641 cd08936, CR_SDR_c, Porcine peroxisomal carbonyl reductase like,
classical (c) SDR. This subgroup contains porcine
peroxisomal carbonyl reductase and similar proteins. The
porcine enzyme efficiently reduces retinals. This
subgroup also includes human dehydrogenase/reductase
(SDR family) member 4 (DHRS4), and human DHRS4L1. DHRS4
is a peroxisomal enzyme with 3beta-hydroxysteroid
dehydrogenase activity; it catalyzes the reduction of
3-keto-C19/C21-steroids into 3beta-hydroxysteroids more
efficiently than it does the retinal reduction. The
human DHRS4 gene cluster contains DHRS4, DHRS4L2 and
DHRS4L1. DHRS4L2 and DHRS4L1 are paralogs of DHRS4,
DHRS4L2 being the most recent member. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 59.5 bits (144), Expect = 5e-11
Identities = 43/166 (25%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLN-EIRQGSAK 74
R + +K+ L+T + G+G +A + G+ V+ + + + + V L E +
Sbjct: 5 RDPLANKVALVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQGEGLSVTGT 64
Query: 75 AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGI-LTQFKILQTDITDEQIQRLFNINI 133
HV G + L G VDIL++NA + IL D T+E ++ ++N+
Sbjct: 65 VCHV--GKAEDRERLVATAVNLHGGVDILVSNAAVNPFFGNIL--DSTEEVWDKILDVNV 120
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
M +A +P+M KR G +V +SS+++ Y SK A
Sbjct: 121 KATALMTKAVVPEMEKRGGGSVVIVSSVAAFHPFPGLGPYNVSKTA 166
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 58.4 bits (142), Expect = 9e-11
Identities = 43/160 (26%), Positives = 71/160 (44%), Gaps = 6/160 (3%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVL--CADIQNEPNEETVRMLNEIRQGSAKAYH 77
K+ LITG +G +A G +V E + LN +R GSA A
Sbjct: 5 SAKVALITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEA-DALAAELNALRPGSAAALQ 63
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ + ++ EL FG++D L+NNA + + IT+ Q LF N+ F
Sbjct: 64 ADLLDPDALPELVAACVAAFGRLDALVNNAS--SFYPTPLGSITEAQWDDLFASNLKAPF 121
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ +A P + ++ +G IV I+ + + + Y A+K
Sbjct: 122 FLSQAAAPQL-RKQRGAIVNITDIHAERPLKGYPVYCAAK 160
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 56.8 bits (138), Expect = 2e-10
Identities = 42/156 (26%), Positives = 72/156 (46%), Gaps = 11/156 (7%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQ--VLCADIQNEPNEETVRMLNEIRQGSAKAYHV--D 79
L+TG GLG ELA +RG++ VL + P+ E +L E+ A+ V D
Sbjct: 3 YLVTGGLGGLGLELARWLAERGARHLVLLSR-SGAPDPEAEALLAELEARGAEVTVVACD 61
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + +V+ L + D + +I+ AG+L + +L ++T E R+ +TG + +
Sbjct: 62 VSDRDAVRALLAEIRADGPPLRGVIHAAGVL-RDALLA-NMTAEDFARVLAPKVTGAWNL 119
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAA 175
A R V SS++ + G + YAA
Sbjct: 120 HEATRD----RPLDFFVLFSSIAGVLGSPGQANYAA 151
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 57.8 bits (139), Expect = 2e-10
Identities = 53/175 (30%), Positives = 83/175 (47%), Gaps = 16/175 (9%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQV-LCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+K K+ L+TGA G+GR +A G+ V + + E EETV EI+ A+
Sbjct: 2 LKGKVALVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETV---YEIQSNGGSAFS 58
Query: 78 VDI------GNEASVKELGKNVHRDFG--KVDILINNAGILTQFKILQTDITDEQIQRLF 129
+ G EA L + G K DILINNAGI I +T T++ R+
Sbjct: 59 IGANLESLHGVEALYSSLDNELQNRTGSTKFDILINNAGIGPGAFIEET--TEQFFDRMV 116
Query: 130 NINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
++N F +++ L + R+ I+ ISS ++ + + AY+ +K A T T
Sbjct: 117 SVNAKAPFFIIQQALSRL--RDNSRIINISSAATRISLPDFIAYSMTKGAINTMT 169
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 57.2 bits (139), Expect = 3e-10
Identities = 37/141 (26%), Positives = 54/141 (38%), Gaps = 13/141 (9%)
Query: 13 PPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVL--CADIQNEPNEETVRMLNEIRQ 70
PP + L+TGA +GR +AL+ G V ++E E EIR
Sbjct: 1 SPPMSMAAPRAALVTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEA-EALAA---EIRA 56
Query: 71 --GSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRL 128
A A D+ +EA V+ L G + +L+NNA + T R
Sbjct: 57 LGRRAVALQADLADEAEVRALVARASAALGPITLLVNNASLFEYDSA--ASFTRASWDRH 114
Query: 129 FNINITGHFRMVRAF---LPD 146
N+ F + +AF LP
Sbjct: 115 MATNLRAPFVLAQAFARALPA 135
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 57.3 bits (139), Expect = 4e-10
Identities = 35/140 (25%), Positives = 63/140 (45%), Gaps = 5/140 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETV-RMLNEIRQGSAKAYHVDI 80
++ ++TGA +GLG E A +G+ V+ A + + R+ +D+
Sbjct: 17 RVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADVTLQELDL 76
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ ASV+ + + ++D+LINNAG++ K D + Q F N GHF +
Sbjct: 77 TSLASVRAAADALRAAYPRIDLLINNAGVMYTPKQTTADGFELQ----FGTNHLGHFALT 132
Query: 141 RAFLPDMVKRNQGHIVAISS 160
L ++ +V +SS
Sbjct: 133 GLLLDRLLPVPGSRVVTVSS 152
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 375
Score = 57.0 bits (138), Expect = 5e-10
Identities = 38/159 (23%), Positives = 66/159 (41%), Gaps = 13/159 (8%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQ--VLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
D LITG GLG +A RG++ VL + + P +R G A+ V
Sbjct: 150 DGTYLITGGLGGLGLLVARWLAARGARHLVLLS--RRGPAPRAAARAALLRAGGARVSVV 207
Query: 79 --DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGH 136
D+ + A++ L + G + +I+ AG+L +L ++T + + G
Sbjct: 208 RCDVTDPAALAALLAELAAG-GPLAGVIHAAGVLR-DALLA-ELTPAAFAAVLAAKVAGA 264
Query: 137 FRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAA 175
+ + V SS++++ G A +AYAA
Sbjct: 265 LNLHELTPDLPLDF----FVLFSSVAALLGGAGQAAYAA 299
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 55.4 bits (134), Expect = 2e-09
Identities = 45/162 (27%), Positives = 69/162 (42%), Gaps = 16/162 (9%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEI---RQGSAKAYHV 78
+ +LITG SG+G A G +V T R ++ +A+ +
Sbjct: 5 RSILITGCSSGIGAYCARALQSDGWRVFA----------TCRKEEDVAALEAEGLEAFQL 54
Query: 79 DIGNEASVKELGKNV-HRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D S+ L V G++D L NN G Q ++ D+ E ++ F N G
Sbjct: 55 DYAEPESIAALVAQVLELSGGRLDALFNN-GAYGQPGAVE-DLPTEALRAQFEANFFGWH 112
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ R +P M K+ QG IV SS+ + + AY ASK+A
Sbjct: 113 DLTRRVIPVMRKQGQGRIVQCSSILGLVPMKYRGAYNASKFA 154
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 55.0 bits (132), Expect = 2e-09
Identities = 42/165 (25%), Positives = 77/165 (46%), Gaps = 6/165 (3%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAK--AYHVD 79
+I +TG G+G + K G +V+ N P V+ L + + A +
Sbjct: 4 RIAYVTGGMGGIGTSICQRLHKDGFKVVAGCGPNSPRR--VKWLEDQKALGFDFIASEGN 61
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+G+ S K V + G++D+L+NNAGI ++ +T E + + N+T F +
Sbjct: 62 VGDWDSTKAAFDKVKAEVGEIDVLVNNAGITRD--VVFRKMTREDWTAVIDTNLTSLFNV 119
Query: 140 VRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTYT 184
+ + MV+R G I+ ISS++ G + Y+ +K + +T
Sbjct: 120 TKQVIDGMVERGWGRIINISSVNGQKGQFGQTNYSTAKAGIHGFT 164
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 55.1 bits (133), Expect = 2e-09
Identities = 35/139 (25%), Positives = 61/139 (43%), Gaps = 9/139 (6%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K ++TG SGLG E + G+ V+ + + E + ++ + +D+
Sbjct: 27 KTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGIDGVEVVM-----LDLA 81
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ SV+ + ++DILINNAG++ + D + Q F N GHF +V
Sbjct: 82 DLESVRAFAERFLDSGRRIDILINNAGVMACPETRVGDGWEAQ----FATNHLGHFALVN 137
Query: 142 AFLPDMVKRNQGHIVAISS 160
P + +VA+SS
Sbjct: 138 LLWPALAAGAGARVVALSS 156
>gnl|CDD|187668 cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase SDR
family member (DHRS)-12/FLJ13639-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
human DHRS-12/FLJ13639, the 36K protein of zebrafish CNS
myelin, and related proteins. DHRS-12/FLJ13639 is
expressed in neurons and oligodendrocytes in the human
cerebral cortex. Proteins in this subgroup share the
glycine-rich NAD-binding motif of the classical SDRs,
have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 255
Score = 54.5 bits (131), Expect = 2e-09
Identities = 40/140 (28%), Positives = 69/140 (49%), Gaps = 11/140 (7%)
Query: 25 LITGAGSGLGRELALEFVKRGSQV--LCADIQNEPNEETVRMLNEIRQGSAKAY-H-VDI 80
LITGA SG+G+ AL KRG V +C +N+ E R E G+ + H VD+
Sbjct: 5 LITGANSGIGKAAALAIAKRGGTVHMVC---RNQTRAEEARKEIETESGNQNIFLHIVDM 61
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ V E + + K+ +LINNAG + + ++T++ +++ F N G + +
Sbjct: 62 SDPKQVWEFVEEFKEEGKKLHVLINNAGCMVN----KRELTEDGLEKNFATNTLGTYILT 117
Query: 141 RAFLPDMVKRNQGHIVAISS 160
+P + K ++ +SS
Sbjct: 118 THLIPVLEKEEDPRVITVSS 137
>gnl|CDD|187669 cd09809, human_WWOX_like_SDR_c-like, human WWOX (WW
domain-containing oxidoreductase)-like, classical
(c)-like SDRs. Classical-like SDR domain of human WWOX
and related proteins. Proteins in this subfamily share
the glycine-rich NAD-binding motif of the classical
SDRs, have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 284
Score = 54.9 bits (132), Expect = 2e-09
Identities = 38/144 (26%), Positives = 72/144 (50%), Gaps = 7/144 (4%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCA-DIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K+++ITGA SG+G E A F G+ V+ A + + R+L E + +A +D
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKARVEAMTLD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + SV+ + + +L+ NA + L T++ ++ F +N GHF +
Sbjct: 61 LASLRSVQRFAEAFKAKNSPLHVLVCNAAVFALPWTL----TEDGLETTFQVNHLGHFYL 116
Query: 140 VRAFLPDMVKRNQ-GHIVAISSMS 162
V+ L D+++R+ ++ +SS S
Sbjct: 117 VQ-LLEDVLRRSAPARVIVVSSES 139
>gnl|CDD|187670 cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide
reductase (LPOR)-like, classical (c)-like SDRs.
Classical SDR-like subgroup containing LPOR and related
proteins. Protochlorophyllide (Pchlide) reductases act
in chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 311
Score = 54.4 bits (131), Expect = 3e-09
Identities = 38/163 (23%), Positives = 62/163 (38%), Gaps = 8/163 (4%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
V+ITGA SGLG A +RG + ++ E + + S H D+
Sbjct: 2 GTVVITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEVGMPKDSYSVLHCDLA 61
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ SV++ N R +D L+ NA + + T + + +N GHF +
Sbjct: 62 SLDSVRQFVDNFRRTGRPLDALVCNAAV-YLPTAKEPRFTADGFELTVGVNHLGHFLLTN 120
Query: 142 AFLPDMVKRNQGH--IVAISSMSSMTGVANASAYAASKWARYT 182
L D+ + IV + S N + A + R T
Sbjct: 121 LLLEDLQRSENASPRIVIVGS-----ITHNPNTLAGNVPPRAT 158
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 54.3 bits (131), Expect = 4e-09
Identities = 46/174 (26%), Positives = 78/174 (44%), Gaps = 23/174 (13%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKA----YH 77
K ++TGA GLG LA G++V+ ++N E + IR A
Sbjct: 15 KRAVVTGASDGLGLGLARRLAAAGAEVILP-VRNRAKGE--AAVAAIRTAVPDAKLSLRA 71
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
+D+ + ASV LG+ + + + +LINNAG++T + T + + F N GHF
Sbjct: 72 LDLSSLASVAALGEQLRAEGRPIHLLINNAGVMTP---PERQTTADGFELQFGTNHLGHF 128
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVAN------------ASAYAASKWA 179
+ LP +++ + + + SS+++ G N AY+ SK A
Sbjct: 129 ALTAHLLP-LLRAGRARVTSQSSIAARRGAINWDDLNWERSYAGMRAYSQSKIA 181
>gnl|CDD|212497 cd11731, Lin1944_like_SDR_c, Lin1944 and related proteins,
classical (c) SDRs. Lin1944 protein from Listeria
Innocua is a classical SDR, it contains a glycine-rich
motif similar to the canonical motif of the SDR
NAD(P)-binding site. However, the typical SDR active
site residues are absent in this subgroup of proteins of
undetermined function. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 198
Score = 53.0 bits (128), Expect = 5e-09
Identities = 39/153 (25%), Positives = 61/153 (39%), Gaps = 28/153 (18%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAK-AYHVDIGN 82
+++ GA +G +A G +V I G + Y VDI +
Sbjct: 1 IIVIGATGTIGLAVAQLLSAHGHEV-------------------ITAGRSSGDYQVDITD 41
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
EAS+K L + V G D +++ AG F L ++TD QR N + G +VR
Sbjct: 42 EASIKALFEKV----GHFDAIVSTAGDAE-FAPL-AELTDADFQRGLNSKLLGQINLVRH 95
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAA 175
LP + G I S + + + +A A
Sbjct: 96 GLPYLNDG--GSITLTSGILAQRPIPGGAAAAT 126
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 53.5 bits (129), Expect = 5e-09
Identities = 35/165 (21%), Positives = 74/165 (44%), Gaps = 17/165 (10%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
+ V+ITG GLG +A + +++G+ V+ I N+E + L E + + +D+
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVIS--ISRTENKELTK-LAEQYNSNLTFHSLDLQ 58
Query: 82 NEASVKELGKNVHRDFGKVDI----LINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
+ ++ + + ++ LINNAG++ K ++ E++ ++N+
Sbjct: 59 DVHELETNFNEILSSIQEDNVSSIHLINNAGMVAPIKPIE-KAESEELITNVHLNLLAPM 117
Query: 138 RMVRAFLPDMVKRNQGH-----IVAISSMSSMTGVANASAYAASK 177
+ F+ K + ++ ISS ++ SAY +SK
Sbjct: 118 ILTSTFM----KHTKDWKVDKRVINISSGAAKNPYFGWSAYCSSK 158
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 54.3 bits (131), Expect = 5e-09
Identities = 38/134 (28%), Positives = 61/134 (45%), Gaps = 17/134 (12%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+K K V +TGA LG+ L E ++G++V + N + + + K H
Sbjct: 176 LKGKTVAVTGASGTLGQALLKELHQQGAKV----VALTSNSDKITLEINGEDLPVKTLHW 231
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
+G EA++ EL KVDILI N GI + + T E I + + +N +R
Sbjct: 232 QVGQEAALAEL-------LEKVDILIINHGI-----NVHGERTPEAINKSYEVNTFSAWR 279
Query: 139 MVRAFLPDMVKRNQ 152
++ F VK N+
Sbjct: 280 LMELFF-TTVKTNR 292
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 53.7 bits (129), Expect = 6e-09
Identities = 40/159 (25%), Positives = 82/159 (51%), Gaps = 9/159 (5%)
Query: 25 LITGAGSGLGRELALEFVKRG-SQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
L+TG G+G+ A + ++G + VL A ++ + + + ++ + K VD +
Sbjct: 57 LVTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQSKYSKTQIKTVVVDFSGD 116
Query: 84 AS--VKELGKNVH-RDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
VK + + + D G +LINN G+ + ++ +E ++ L +N+ G ++
Sbjct: 117 IDEGVKRIKETIEGLDVG---VLINNVGVSYPYARFFHEVDEELLKNLIKVNVEGTTKVT 173
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANA--SAYAASK 177
+A LP M+KR +G I+ I S +++ ++ + YAA+K
Sbjct: 174 QAVLPGMLKRKKGAIINIGSGAAIVIPSDPLYAVYAATK 212
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to reduce
the keto group to a hydroxy group.
Length = 180
Score = 52.5 bits (127), Expect = 7e-09
Identities = 33/157 (21%), Positives = 59/157 (37%), Gaps = 13/157 (8%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQ--VLC--ADIQNEPNEETVRMLNEIRQGSAKAYHV- 78
LITG GLGR LA +RG++ VL + + L G+
Sbjct: 3 YLITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAEL--EAAGARVTVVAC 60
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFR 138
D+ + ++ + + G + +I+ AG+L +L +T E+ + G +
Sbjct: 61 DVADRDALAAVLAAIPAVEGPLTGVIHAAGVL-DDGVLA-SLTPERFAAVLAPKAAGAWN 118
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAA 175
+ V SS++ + G + YAA
Sbjct: 119 LHELTAD----LPLDFFVLFSSIAGVLGSPGQANYAA 151
>gnl|CDD|236173 PRK08177, PRK08177, short chain dehydrogenase; Provisional.
Length = 225
Score = 53.1 bits (128), Expect = 7e-09
Identities = 46/164 (28%), Positives = 71/164 (43%), Gaps = 18/164 (10%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
+ LI GA GLG L ++RG QV A ++ + ++ L + +D+
Sbjct: 2 RTALIIGASRGLGLGLVDRLLERGWQVT-ATVRGPQQDTALQALPGVH-----IEKLDMN 55
Query: 82 NEASVKELGKNVHRDFGKV-DILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ AS+ +L + R G+ D+L NAGI D T +I +LF N R+
Sbjct: 56 DPASLDQL---LQRLQGQRFDLLFVNAGISGPAHQSAADATAAEIGQLFLTNAIAPIRLA 112
Query: 141 RAFLPDMVKRNQGHIVAISS-MSSMTGVANASA----YAASKWA 179
R L V+ QG + +SS + S+ Y ASK A
Sbjct: 113 RRLLG-QVRPGQGVLAFMSSQLGSVE--LPDGGEMPLYKASKAA 153
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 52.8 bits (127), Expect = 9e-09
Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K+V+ITG SG+G+ +A F + G+ V+ E EE + + G +D+
Sbjct: 2 KVVIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQF-PGQVLTVQMDVR 60
Query: 82 NEASVKELGKNVHRDFGKVDILINNA 107
N V+++ + + FG++D LINNA
Sbjct: 61 NPEDVQKMVEQIDEKFGRIDALINNA 86
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 52.6 bits (127), Expect = 1e-08
Identities = 39/163 (23%), Positives = 69/163 (42%), Gaps = 20/163 (12%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRGSQVL-CADIQNEPNEETVRMLNEIRQGSAKAYH- 77
++VL+TG G+G +A F+ G+ V+ C + P G +H
Sbjct: 5 TGRVVLVTGGTRGIGAGIARAFLAAGATVVVCG--RRAPETV---------DGRPAEFHA 53
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ + V L + G++D+L+NNAG L + + +++ +N+
Sbjct: 54 ADVRDPDQVAALVDAIVERHGRLDVLVNNAGGSPY--ALAAEASPRFHEKIVELNLLAPL 111
Query: 138 RMVRAFLPDMVKRNQ---GHIVAISSMSSMTGVANASAYAASK 177
+ +A M + Q G IV I S+S +AY A+K
Sbjct: 112 LVAQAANAVM--QQQPGGGSIVNIGSVSGRRPSPGTAAYGAAK 152
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 52.5 bits (126), Expect = 1e-08
Identities = 33/96 (34%), Positives = 51/96 (53%), Gaps = 5/96 (5%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG---SA 73
E+K K ++I+G G+G+ + EF + G V A N EE ++ ++ Q A
Sbjct: 4 NEMKGKTLVISGGTRGIGKAIVYEFAQSG--VNIAFTYNSNVEEANKIAEDLEQKYGIKA 61
Query: 74 KAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGI 109
KAY ++I + KEL K + DF +VD I+NA I
Sbjct: 62 KAYPLNILEPETYKELFKKIDEDFDRVDFFISNAII 97
>gnl|CDD|233441 TIGR01500, sepiapter_red, sepiapterin reductase. This model
describes sepiapterin reductase, a member of the short
chain dehydrogenase/reductase family. The enzyme
catalyzes the last step in the biosynthesis of
tetrahydrobiopterin. A similar enzyme in Bacillus cereus
was isolated for its ability to convert benzil to
(S)-benzoin, a property sepiapterin reductase also
shares. Cutoff scores for this model are set such that
benzil reductase scores between trusted and noise
cutoffs.
Length = 256
Score = 52.2 bits (125), Expect = 2e-08
Identities = 48/175 (27%), Positives = 75/175 (42%), Gaps = 16/175 (9%)
Query: 23 IVLITGAGSGLGRELALEFVKR----GSQ-VLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+ L+TGA G GR +A E K GS VL A + + E
Sbjct: 2 VCLVTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLRVVRVS 61
Query: 78 VDIGNEASVKELGKNVHRDFGKVD----ILINNAGILTQFKILQTDITD-EQIQRLFNIN 132
+D+G EA +++L K + +LINNAG L D++D Q+Q + +N
Sbjct: 62 LDLGAEAGLEQLLKALRELPRPKGLQRLLLINNAGTLGDVSKGFVDLSDSTQVQNYWALN 121
Query: 133 ITGHF----RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTY 183
+T +++AF D N+ +V ISS+ ++ + Y A K AR
Sbjct: 122 LTSMLCLTSSVLKAF-KDSPGLNR-TVVNISSLCAIQPFKGWALYCAGKAARDML 174
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 51.6 bits (124), Expect = 2e-08
Identities = 43/161 (26%), Positives = 72/161 (44%), Gaps = 13/161 (8%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
K VLI GA G+GRE ++ G +V+ A ++ ++ L A+A +D+
Sbjct: 2 KTVLIVGASRGIGREFVRQYRADGWRVI-ATARDAAALAALQALG------AEALALDVA 54
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ ASV L + D +D + AG+ IT E + + N+ G +++
Sbjct: 55 DPASVAGLAWKL--DGEALDAAVYVAGVYGPRTEGVEPITREDFDAVMHTNVLGPMQLLP 112
Query: 142 AFLPDMVKRNQGHIVAISS-MSSMTGVANASA--YAASKWA 179
LP +V+ G + +SS M S+ + Y ASK A
Sbjct: 113 ILLP-LVEAAGGVLAVLSSRMGSIGDATGTTGWLYRASKAA 152
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 52.3 bits (126), Expect = 2e-08
Identities = 43/180 (23%), Positives = 79/180 (43%), Gaps = 21/180 (11%)
Query: 14 PPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLC---------ADIQN-EPNEETVR 63
P K ++ K+ L+ GA G GR +A+E G+ V ++ E EET
Sbjct: 1 PMMKPLRGKVALVAGATRGAGRGIAVELGAAGATVYVTGRSTRARRSEYDRPETIEETAE 60
Query: 64 MLNEIRQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINN---AGILTQF--KILQT 118
++ G A VD V+ L + + R+ G++DIL+N+ L ++ + +
Sbjct: 61 LVTAA-GGRGIAVQVDHLVPEQVRALVERIDREQGRLDILVNDIWGGEKLFEWGKPVWEH 119
Query: 119 DITDEQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKW 178
+ ++ R+ + I H LP +++R G +V ++ T NA+ Y S +
Sbjct: 120 SL--DKGLRMLRLAIDTHLITSHFALPLLIRRPGGLVV---EITDGTAEYNATHYRLSVF 174
>gnl|CDD|212496 cd11730, Tthb094_like_SDR_c, Tthb094 and related proteins,
classical (c) SDRs. Tthb094 from Thermus Thermophilus
is a classical SDR which binds NADP. Members of this
subgroup contain the YXXXK active site characteristic of
SDRs. Also, an upstream Asn residue of the canonical
catalytic tetrad is partially conserved in this subgroup
of proteins of undetermined function. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 206
Score = 51.0 bits (122), Expect = 3e-08
Identities = 38/157 (24%), Positives = 67/157 (42%), Gaps = 16/157 (10%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEI-RQGSAKAYHVDIGN 82
LI GA G+GR LA RG ++L + L + + A A D+
Sbjct: 1 ALILGATGGIGRALARALAGRGWRLLLSG-------RDAGALAGLAAEVGALARPADVAA 53
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
E V L + + G +D+L+ AG + + +T +R+ + N+TG +++
Sbjct: 54 ELEVWALAQEL----GPLDLLVYAAGAILGKPLART--KPAAWRRILDANLTGAALVLKH 107
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
L + +V + + + + SAYAA+K A
Sbjct: 108 ALALLAA--GARLVFLGAYPELVMLPGLSAYAAAKAA 142
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 51.4 bits (123), Expect = 3e-08
Identities = 48/160 (30%), Positives = 77/160 (48%), Gaps = 20/160 (12%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV--DIG 81
VLITGA SG+G++LAL++ K+G QV I N+ +L+E+ SA + + D+
Sbjct: 4 VLITGATSGIGKQLALDYAKQGWQV----IACGRNQS---VLDELHTQSANIFTLAFDVT 56
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQI-QRLFNINITGHFRMV 140
+ K + ++ I NAG + + D + R+FN+N+ G +
Sbjct: 57 DHPGTKAALSQLPF---IPELWIFNAG---DCEYMDDGKVDATLMARVFNVNVLGVANCI 110
Query: 141 RAFLPDMVKRNQGHIVAI-SSMSSMTGVANASAYAASKWA 179
P + + GH V I S++S + A AY ASK A
Sbjct: 111 EGIQPHL---SCGHRVVIVGSIASELALPRAEAYGASKAA 147
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 50.9 bits (122), Expect = 5e-08
Identities = 23/90 (25%), Positives = 48/90 (53%), Gaps = 2/90 (2%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
+IK I+LIT AGS LGR ++ F + G+ ++ D ++T + + + ++
Sbjct: 2 DIKSSIILITSAGSVLGRTISCHFARLGATLILCDQDQSALKDTYEQCSAL-TDNVYSFQ 60
Query: 78 VDIGNEASVKELGKNVHRDFGKV-DILINN 106
+ ++ S++ L + + F + D+L+NN
Sbjct: 61 LKDFSQESIRHLFDAIEQQFNRAPDVLVNN 90
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 50.2 bits (120), Expect = 8e-08
Identities = 42/185 (22%), Positives = 78/185 (42%), Gaps = 24/185 (12%)
Query: 17 KEIKDKIVLITGAG--SGLGRELALEFVKRGSQVLCADI---------QNEP----NEET 61
++K+K+ ++TG G+G + E + G ADI + P +E
Sbjct: 2 NQLKNKVAVVTGVSRLDGIGAAICKELAEAG-----ADIFFTYWTAYDKEMPWGVDQDEQ 56
Query: 62 VRMLNEIRQGSAK--AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTD 119
+++ E+ + K + +D+ + KEL V G IL+NNA T
Sbjct: 57 IQLQEELLKNGVKVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNNDFSN-- 114
Query: 120 ITDEQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+T E++ + + +N+ + F K++ G I+ ++S + AYAA+K A
Sbjct: 115 LTAEELDKHYMVNVRATTLLSSQFARGFDKKSGGRIINMTSGQFQGPMVGELAYAATKGA 174
Query: 180 RYTYT 184
T
Sbjct: 175 IDALT 179
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 49.7 bits (119), Expect = 1e-07
Identities = 27/89 (30%), Positives = 40/89 (44%), Gaps = 4/89 (4%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV-- 78
K L+TG+ G+G + A G+ V+ Q P V + EI +A V
Sbjct: 6 GKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKV--VAEIEAAGGRASAVGA 63
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNA 107
D+ +E SV L +FG +D L+ NA
Sbjct: 64 DLTDEESVAALMDTAREEFGGLDALVLNA 92
>gnl|CDD|187619 cd05361, haloalcohol_DH_SDR_c-like, haloalcohol dehalogenase,
classical (c) SDRs. Dehalogenases cleave carbon-halogen
bonds. Haloalcohol dehalogenase show low sequence
similarity to short-chain dehydrogenases/reductases
(SDRs). Like the SDRs, haloalcohol dehalogenases have a
conserved catalytic triad (Ser-Tyr-Lys/Arg), and form a
Rossmann fold. However, the normal classical SDR
NAD(P)-binding motif (TGXXGXG) and NAD-binding function
is replaced with a halide binding site, allowing the
enzyme to catalyze a dehalogenation reaction. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 49.5 bits (118), Expect = 1e-07
Identities = 36/157 (22%), Positives = 61/157 (38%), Gaps = 8/157 (5%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
I L+T A G A + G V+C D E +E A +
Sbjct: 3 IALVTHARHFAGPASAEALTEDGYTVVCHDASFADAAERQAFESENPGTKALS------- 55
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRA 142
E +EL V + G +D+L++N I + ++ I++ F F +++A
Sbjct: 56 EQKPEELVDAVLQAGGAIDVLVSNDYIPRPMNPID-GTSEADIRQAFEALSIFPFALLQA 114
Query: 143 FLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ M K G I+ I+S +A S Y ++ A
Sbjct: 115 AIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAA 151
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 48.6 bits (116), Expect = 3e-07
Identities = 39/161 (24%), Positives = 69/161 (42%), Gaps = 11/161 (6%)
Query: 19 IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
+K K V I G GLG +A +K G+QV C + +NE + RM + + Y V
Sbjct: 3 LKGKKVAIIGVSEGLGYAVAYFALKEGAQV-CINSRNE--NKLKRMKKTLSKYGNIHYVV 59
Query: 79 -DIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ + S + + + + +D L+ G + + + +E + +I
Sbjct: 60 GDVSSTESARNVIEKAAKVLNAIDGLVVTVGGYVEDTVEEFSGLEEMLTN----HIKIPL 115
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSM-TGVANASAYAASK 177
V A L + + IV +SSMS + + +YA +K
Sbjct: 116 YAVNASLRFL--KEGSSIVLVSSMSGIYKASPDQLSYAVAK 154
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 260
Score = 48.6 bits (116), Expect = 3e-07
Identities = 33/124 (26%), Positives = 55/124 (44%), Gaps = 17/124 (13%)
Query: 12 SPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG 71
SPPP K I ITG+ GLG A + +G +V+ +++ + + +
Sbjct: 3 SPPPMKRI-----FITGSSDGLGLAAARTLLHQGHEVV-LHARSQ------KRAADAKAA 50
Query: 72 SAKAYHVDIGNEASVKELGKNVHR--DFGKVDILINNAGILTQFKILQTDITDEQIQRLF 129
A V IG+ +S+ E K + G+ D +I+NAGIL+ D I +
Sbjct: 51 CPGAAGVLIGDLSSLAETRKLADQVNAIGRFDAVIHNAGILSGPNRKT---PDTGIPAMV 107
Query: 130 NINI 133
+N+
Sbjct: 108 AVNV 111
>gnl|CDD|187589 cd05328, 3alpha_HSD_SDR_c, alpha hydroxysteroid dehydrogenase
(3alpha_HSD), classical (c) SDRs. Bacterial
3-alpha_HSD, which catalyzes the NAD-dependent
oxidoreduction of hydroxysteroids, is a dimeric member
of the classical SDR family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 48.3 bits (115), Expect = 4e-07
Identities = 30/142 (21%), Positives = 49/142 (34%), Gaps = 29/142 (20%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
++ITGA SG+G A G V+ D +R+ A D+
Sbjct: 1 TIVITGAASGIGAATAELLEDAGHTVIGID---------------LREADVIA---DLST 42
Query: 83 EASVKELGKNVHRDFGKV-DILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+V V D L+N AG+ + +N G ++
Sbjct: 43 PEGRAAAIADVLARCSGVLDGLVNCAGVGGT---TVAGLV-------LKVNYFGLRALME 92
Query: 142 AFLPDMVKRNQGHIVAISSMSS 163
A LP + K + V +SS++
Sbjct: 93 ALLPRLRKGHGPAAVVVSSIAG 114
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 48.2 bits (115), Expect = 4e-07
Identities = 42/170 (24%), Positives = 78/170 (45%), Gaps = 21/170 (12%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETV-RMLNEIRQGSAKA- 75
+K K+VLI G LG +A + +G++ + + ++ + ++ AKA
Sbjct: 5 SLKGKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKADAEETVAAVKAAGAKAV 64
Query: 76 -YHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQ---TDITDEQIQRLFNI 131
+ D+ A+V++L + FG+ DI IN G K+L+ +I++ + +F +
Sbjct: 65 AFQADLTTAAAVEKLFDDAKAAFGRPDIAINTVG-----KVLKKPIVEISEAEYDEMFAV 119
Query: 132 NITGHFRMVRAFLPDMVKR--NQGHIVAI--SSMSSMTGVANASAYAASK 177
N F F+ + + + G IV + S + + T SAYA SK
Sbjct: 120 NSKSAF----FFIKEAGRHLNDNGKIVTLVTSLLGAFTPF--YSAYAGSK 163
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 47.6 bits (113), Expect = 5e-07
Identities = 34/164 (20%), Positives = 63/164 (38%), Gaps = 4/164 (2%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
+ DK +L+TGA GLG ++A + G+ V+ + E+ + E A
Sbjct: 2 ATLSDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAI 61
Query: 77 HVDIGN--EASVKELGKNVHRDF-GKVDILINNAGILTQFKILQTDITDEQIQRLFNINI 133
D+ + E ++ + GK+D +++ AG L T + + IN
Sbjct: 62 RFDLMSAEEKEFEQFAATIAEATQGKLDGIVHCAGYFYALSPL-DFQTVAEWVNQYRINT 120
Query: 134 TGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASK 177
+ RA P + + ++ + T A + ASK
Sbjct: 121 VAPMGLTRALFPLLKQSPDASVIFVGESHGETPKAYWGGFGASK 164
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 47.4 bits (113), Expect = 6e-07
Identities = 49/163 (30%), Positives = 69/163 (42%), Gaps = 14/163 (8%)
Query: 18 EIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
K VL+ G G+G + FV G+ V ++ E + ++ A A
Sbjct: 3 AFTGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAGSKDAAERL-----AQETGATAVQ 57
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D + +V + V R G +DIL+ NAGI L+ D D I RLF INI +
Sbjct: 58 TDSADRDAVID----VVRKSGALDILVVNAGIAVFGDALELDADD--IDRLFKINIHAPY 111
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSS-MTGVANASAYAASKWA 179
M G I+ I S++ VA +AYAASK A
Sbjct: 112 HASVEAARQM--PEGGRIIIIGSVNGDRMPVAGMAAYAASKSA 152
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 47.2 bits (112), Expect = 9e-07
Identities = 29/171 (16%), Positives = 49/171 (28%), Gaps = 36/171 (21%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
+L+TG +G L + G V D + + + +D+
Sbjct: 1 MRILVTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGLDP--------LLSGVEFVVLDLT 52
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
+ V EL K G D +I+ A D ++N+ G ++
Sbjct: 53 DRDLVDELAK------GVPDAVIHLAAQ-----SSVPDSNASDPAEFLDVNVDGTLNLLE 101
Query: 142 AFLPDMVKRNQGHIVAISSMS-------------SMTGVANASAYAASKWA 179
A V SS+S + + Y SK A
Sbjct: 102 A----ARAAGVKRFVFASSVSVVYGDPPPLPIDEDLGPPRPLNPYGVSKLA 148
>gnl|CDD|187595 cd05334, DHPR_SDR_c_like, dihydropteridine reductase (DHPR),
classical (c) SDRs. Dihydropteridine reductase is an
NAD-binding protein related to the SDRs. It converts
dihydrobiopterin into tetrahydrobiopterin, a cofactor
necessary in catecholamines synthesis. Dihydropteridine
reductase has the YXXXK of these tyrosine-dependent
oxidoreductases, but lacks the typical upstream Asn and
Ser catalytic residues. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 221
Score = 46.9 bits (112), Expect = 1e-06
Identities = 31/158 (19%), Positives = 51/158 (32%), Gaps = 14/158 (8%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
++VL+ G LG + F RG V D E E ++
Sbjct: 2 RVVLVYGGRGALGSAVVQAFKSRGWWVASID-LAENEEADASII-------VLDSDSFTE 53
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVR 141
V V R GKVD LI AG ++ + ++ N+ F
Sbjct: 54 QAKQVVAS---VARLSGKVDALICVAGGW-AGGSAKSKSFVKNWDLMWKQNLWTSFIASH 109
Query: 142 AFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ + G +V + +++ Y A+K A
Sbjct: 110 LATKHL--LSGGLLVLTGAKAALEPTPGMIGYGAAKAA 145
>gnl|CDD|187645 cd08941, 3KS_SDR_c, 3-keto steroid reductase, classical (c) SDRs.
3-keto steroid reductase (in concert with other enzymes)
catalyzes NADP-dependent sterol C-4 demethylation, as
part of steroid biosynthesis. 3-keto reductase is a
classical SDR, with a well conserved canonical active
site tetrad and fairly well conserved characteristic
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 290
Score = 47.4 bits (113), Expect = 1e-06
Identities = 41/204 (20%), Positives = 72/204 (35%), Gaps = 59/204 (28%)
Query: 22 KIVLITGAGSGLGRELAL----EFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH 77
K+VL+TGA SGLG + E + L +N E + A H
Sbjct: 2 KVVLVTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAAC--RAL-----LASH 54
Query: 78 -----------VDIGNEASVKELGKNVHRDFGKVDILINNAGI--------LTQFKILQT 118
VD+ N SV K + + + ++D L NAGI + K + T
Sbjct: 55 PDARVVFDYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPNPGIDWIGAIKEVLT 114
Query: 119 D-----------------------ITDEQIQRLFNINITGHFRMVRAFLPDMVKRNQ-GH 154
+ T++ + +F N+ GH+ ++R P + + +
Sbjct: 115 NPLFAVTNPTYKIQAEGLLSQGDKATEDGLGEVFQTNVFGHYYLIRELEPLLCRSDGGSQ 174
Query: 155 IVAISSMSSMTGVANASAYAASKW 178
I+ SS+ A+ ++
Sbjct: 175 IIWTSSL-----NASPKYFSLEDI 193
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 47.1 bits (112), Expect = 1e-06
Identities = 37/161 (22%), Positives = 70/161 (43%), Gaps = 4/161 (2%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH-VD 79
D+ L+TG GSG+G+ +A V G+ V+ + + ++ A Y D
Sbjct: 7 DRTYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGAGAVRYEPAD 66
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNA-GILTQFKILQTDITDEQIQRLFNINITGHFR 138
+ +E V G++ +++ A G T I Q D + +R ++N+ G
Sbjct: 67 VTDEDQVARAVDAATAWHGRLHGVVHCAGGSETIGPITQIDS--DAWRRTVDLNVNGTMY 124
Query: 139 MVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+++ ++V+ G V ISS+++ AY +K A
Sbjct: 125 VLKHAARELVRGGGGSFVGISSIAASNTHRWFGAYGVTKSA 165
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 46.6 bits (111), Expect = 1e-06
Identities = 42/171 (24%), Positives = 74/171 (43%), Gaps = 16/171 (9%)
Query: 22 KIVLITGA--GSGLGRELALEFVKRGSQVLC----ADIQNEP----NEETVRMLNEIRQG 71
KI L+TGA +G+G + +G + + P ++E V + EI
Sbjct: 6 KIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEIESY 65
Query: 72 SAKAYHVDIG---NEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRL 128
+ H++I A + R G ILINNA T ++ ++T EQ+ +
Sbjct: 66 GVRCEHMEIDLSQPYAPNRVFYAVSER-LGDPSILINNAAYSTHTRL--EELTAEQLDKH 122
Query: 129 FNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ +N+ + AF + G I+ ++S S+ + + AYAA+K A
Sbjct: 123 YAVNVRATMLLSSAFAKQYDGKAGGRIINLTSGQSLGPMPDELAYAATKGA 173
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 46.1 bits (109), Expect = 1e-06
Identities = 26/94 (27%), Positives = 48/94 (51%), Gaps = 1/94 (1%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKA 75
+ ++ K+ ++TG G G+GR AL K+G++V+ DI E + TV + + G A
Sbjct: 11 KMKLAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEITNL-GGEALF 69
Query: 76 YHVDIGNEASVKELGKNVHRDFGKVDILINNAGI 109
D+ + + + F ++D+L NAG+
Sbjct: 70 VSYDMEKQGDWQRVISITLNAFSRIDMLFQNAGL 103
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 45.7 bits (109), Expect = 3e-06
Identities = 39/163 (23%), Positives = 63/163 (38%), Gaps = 7/163 (4%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV-DI 80
K +LI GA S + R A + G+++ A ++ E + R A + H DI
Sbjct: 2 KKILIIGATSDIARACARRYAAAGARLYLAA-RDVERLERLADDLRARGAVAVSTHELDI 60
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ AS ++ DI++ G L + D R F N G ++
Sbjct: 61 LDTASHAAFLDSLP---ALPDIVLIAVGTLGDQAACEADP--ALALREFRTNFEGPIALL 115
Query: 141 RAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWARYTY 183
R G IV ISS++ G A+ Y ++K A +
Sbjct: 116 TLLANRFEARGSGTIVGISSVAGDRGRASNYVYGSAKAALTAF 158
>gnl|CDD|131732 TIGR02685, pter_reduc_Leis, pteridine reductase. Pteridine
reductase is an enzyme used by trypanosomatids
(including Trypanosoma cruzi and Leishmania major) to
obtain reduced pteridines by salvage rather than
biosynthetic pathways. Enzymes in T. cruzi described as
pteridine reductase 1 (PTR1) and pteridine reductase 2
(PTR2) have different activity profiles. PTR1 is more
active with with fully oxidized biopterin and folate
than with reduced forms, while PTR2 reduces
dihydrobiopterin and dihydrofolate but not oxidized
pteridines. T. cruzi PTR1 and PTR2 are more similar to
each other in sequence than either is to the pteridine
reductase of Leishmania major, and all are included in
this family.
Length = 267
Score = 45.7 bits (108), Expect = 4e-06
Identities = 32/133 (24%), Positives = 58/133 (43%), Gaps = 14/133 (10%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEET-VRMLNEIRQGSAKAYHVDIGNE 83
++TGA +G +A+ + G +V+ ++ T LN R SA D+ N
Sbjct: 5 VVTGAAKRIGSSIAVALHQEGYRVVLHYHRSAAAASTLAAELNARRPNSAVTCQADLSNS 64
Query: 84 ASV----KELGKNVHRDFGKVDILINNAGILTQFKILQTDITDE---------QIQRLFN 130
A++ + + R FG+ D+L+NNA +L+ D + Q+ LF
Sbjct: 65 ATLFSRCEAIIDACFRAFGRCDVLVNNASAFYPTPLLRGDAGEGVGDKKSLEVQVAELFG 124
Query: 131 INITGHFRMVRAF 143
N + +++AF
Sbjct: 125 SNAIAPYFLIKAF 137
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 45.4 bits (108), Expect = 5e-06
Identities = 29/89 (32%), Positives = 42/89 (47%), Gaps = 7/89 (7%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNE--IRQGSAKAYHVDIG 81
V+ITGA SG+G A KRG V+ A ++ E I S H+D+G
Sbjct: 9 VIITGASSGVGLYAAKALAKRGWHVIMA---CRNLKKAEAAAQELGIPPDSYTIIHIDLG 65
Query: 82 NEASVKELGKNVHRDFGK-VDILINNAGI 109
+ SV+ + R GK +D L+ NA +
Sbjct: 66 DLDSVRRFVDDF-RALGKPLDALVCNAAV 93
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 44.6 bits (106), Expect = 6e-06
Identities = 39/162 (24%), Positives = 61/162 (37%), Gaps = 17/162 (10%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH-VDIGNE 83
++TG GLG LA + ++ G VL P+ G A +D+ +
Sbjct: 5 IVTGHSRGLGAALAEQLLQPGIAVLGVARSRHPSLAA-------AAGERLAEVELDLSDA 57
Query: 84 ASV-----KELGKNVHRDFGKVDILINNAGILTQFKILQTDITDE-QIQRLFNINITGHF 137
A+ +L +V +LINNAG + I D I R +N+
Sbjct: 58 AAAAAWLAGDLLAAFVDGASRV-LLINNAGTVE--PIGPLATLDAAAIARAVGLNVAAPL 114
Query: 138 RMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKWA 179
+ A + I+ ISS ++ A S Y A+K A
Sbjct: 115 MLTAALAQAASDAAERRILHISSGAARNAYAGWSVYCATKAA 156
>gnl|CDD|187630 cd05372, ENR_SDR, Enoyl acyl carrier protein (ACP) reductase (ENR),
divergent SDR. This bacterial subgroup of ENRs includes
Escherichia coli ENR. ENR catalyzes the
NAD(P)H-dependent reduction of enoyl-ACP in the last
step of fatty acid biosynthesis. De novo fatty acid
biosynthesis is catalyzed by the fatty acid synthetase
complex, through the serial addition of 2-carbon
subunits. In bacteria and plants,ENR catalyzes one of
six synthetic steps in this process. Oilseed rape ENR,
and also apparently the NADH-specific form of
Escherichia coli ENR, is tetrameric. Although similar
to the classical SDRs, this group does not have the
canonical catalytic tetrad, nor does it have the typical
Gly-rich NAD-binding pattern. Such so-called divergent
SDRs have a GXXXXXSXA NAD-binding motif and a YXXMXXXK
(or YXXXMXXXK) active site motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 44.9 bits (107), Expect = 6e-06
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 3/85 (3%)
Query: 22 KIVLITGAGS--GLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
K +LITG + + +A + G+++ Q E + V L E SA D
Sbjct: 2 KRILITGIANDRSIAWGIAKALHEAGAELAFT-YQPEALRKRVEKLAERLGESALVLPCD 60
Query: 80 IGNEASVKELGKNVHRDFGKVDILI 104
+ N+ +KEL V +D+GK+D L+
Sbjct: 61 VSNDEEIKELFAEVKKDWGKLDGLV 85
>gnl|CDD|130890 TIGR01831, fabG_rel, 3-oxoacyl-(acyl-carrier-protein) reductase,
putative. This model represents a small, very well
conserved family of proteins closely related to the FabG
family, TIGR01830, and possibly equal in function. In
all completed genomes with a member of this family, a
FabG in TIGR01830 is also found [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 239
Score = 43.0 bits (101), Expect = 3e-05
Identities = 37/159 (23%), Positives = 74/159 (46%), Gaps = 11/159 (6%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQ--GSAKAYHVDIG 81
VL+TGA G+GR +A G ++ + E+V ++ I+ G+A+ D+
Sbjct: 1 VLVTGASRGIGRAIANRLAADGFEICVHYHSGRSDAESV--VSAIQAQGGNARLLQFDVA 58
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGIL--TQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + + L + + G ++ NAGI F L ++E + + N+ G + +
Sbjct: 59 DRVACRTLLEADIAEHGAYYGVVLNAGITRDAAFPAL----SEEDWDIVIHTNLDGFYNV 114
Query: 140 VRAFLPDMVK-RNQGHIVAISSMSSMTGVANASAYAASK 177
+ M++ R G I+ ++S+S + G Y+A+K
Sbjct: 115 IHPCTMPMIRARQGGRIITLASVSGVMGNRGQVNYSAAK 153
>gnl|CDD|180586 PRK06483, PRK06483, dihydromonapterin reductase; Provisional.
Length = 236
Score = 42.6 bits (101), Expect = 3e-05
Identities = 37/160 (23%), Positives = 64/160 (40%), Gaps = 14/160 (8%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
+LITGAG +G LA + +G V+ + + P ++ +RQ A+ D
Sbjct: 5 ILITGAGQRIGLALAWHLLAQGQPVIVSYRTHYPA------IDGLRQAGAQCIQADFSTN 58
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
A + + + + +I+NA K + + R+ I++ + + A
Sbjct: 59 AGIMAFIDELKQHTDGLRAIIHNASDWLAEK--PGAPLADVLARMMQIHVNAPYLLNLAL 116
Query: 144 LPDMVKRNQGH----IVAISSMSSMTGVANASAYAASKWA 179
+ R GH I+ I+ G AYAASK A
Sbjct: 117 EDLL--RGHGHAASDIIHITDYVVEKGSDKHIAYAASKAA 154
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 42.4 bits (100), Expect = 5e-05
Identities = 40/153 (26%), Positives = 62/153 (40%), Gaps = 12/153 (7%)
Query: 25 LITGAGSGLGRELALEFVKRGS-QVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
+ITGA SGLG A + G V+ A E + + + S H+D+ +
Sbjct: 1 IITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAKSAG-MPKDSYTVMHLDLASL 59
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
SV++ N R +D+L+ NA + + T + + N GHF + R
Sbjct: 60 DSVRQFVDNFRRSGRPLDVLVCNAAVY-LPTAKEPTFTADGFELSVGTNHLGHFLLSRLL 118
Query: 144 LPDMVKRNQGH----IVAISSMSSMTGVANASA 172
L D+ K + IV S+TG N A
Sbjct: 119 LDDLKKSDYPSKRLIIVG-----SITGNTNTLA 146
>gnl|CDD|187658 cd08955, KR_2_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 2, complex (x).
Ketoreductase, a module of the multidomain polyketide
synthase, has 2 subdomains, each corresponding to a
short-chain dehydrogenases/reductase (SDR) family
monomer. The C-terminal subdomain catalyzes the
NADPH-dependent reduction of the beta-carbonyl of a
polyketide to a hydroxyl group, a step in the
biosynthesis of polyketides, such as erythromycin. The
N-terminal subdomain, an interdomain linker, is a
truncated Rossmann fold which acts to stabilizes the
catalytic subdomain. Unlike typical SDRs, the isolated
domain does not oligomerizes but is composed of 2
subdomains, each resembling an SDR monomer. In some
instances, as in porcine FAS, an enoyl reductase (a
Rossman fold NAD binding domain of the MDR family)
module is inserted between the sub-domains. The active
site resembles that of typical SDRs, except that the
usual positions of the catalytic asparagine and tyrosine
are swapped, so that the canonical YXXXK motif changes
to YXXXN. Modular polyketide synthases are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
fatty acid synthase. In some instances, such as
porcine FAS , an enoyl reductase module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER).
Polyketide syntheses also proceeds via the addition of
2-carbon units as in fatty acid synthesis. The complex
SDR NADP binding motif, GGXGXXG, is often present, but
is not strictly conserved in each instance of the
module. This subfamily includes the KR domain of the
Lyngbya majuscule Jam J, -K, and #L which are encoded
on the jam gene cluster and are involved in the
synthesis of the Jamaicamides (neurotoxins); Lyngbya
majuscule Jam P belongs to a different KR_FAS_SDR_x
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 376
Score = 40.0 bits (94), Expect = 3e-04
Identities = 36/167 (21%), Positives = 69/167 (41%), Gaps = 14/167 (8%)
Query: 14 PPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSA 73
P R D LITG GLG +A V+RG++ L + P+ + + + + A
Sbjct: 142 PARPLRPDATYLITGGLGGLGLLVAEWLVERGARHLVLTGRRAPSAAARQAIAALEEAGA 201
Query: 74 K--AYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNI 131
+ D+ + ++ + + +I+ AG+L +L + E+ +++
Sbjct: 202 EVVVLAADVSDRDALAAALAQIRASLPPLRGVIHAAGVL-DDGVLA-NQDWERFRKVLAP 259
Query: 132 NITG--HFRMVRAFLP-DMVKRNQGHIVAISSMSSMTGVANASAYAA 175
+ G + + LP D V SS++S+ G + YAA
Sbjct: 260 KVQGAWNLHQLTQDLPLDF-------FVLFSSVASLLGSPGQANYAA 299
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 39.8 bits (93), Expect = 4e-04
Identities = 27/87 (31%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRM-LNEIRQ-GSAKAYHVDIG 81
VL+T + G+G +A E +K+G++V+ + NEE + L E+++ G A D+
Sbjct: 3 VLVTASSRGIGFNVARELLKKGARVVIS----SRNEENLEKALKELKEYGEVYAVKADLS 58
Query: 82 NEASVKELGKNVHRDFGKVDILINNAG 108
++ +K L K G +D L+ NAG
Sbjct: 59 DKDDLKNLVKEAWELLGGIDALVWNAG 85
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 39.6 bits (93), Expect = 4e-04
Identities = 32/140 (22%), Positives = 66/140 (47%), Gaps = 8/140 (5%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV--D 79
K V++ G SG+ +A F + G+ V A E + V +++Q + V D
Sbjct: 10 KNVVVVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVA---QLQQAGPEGLGVSAD 66
Query: 80 IGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRM 139
+ + A+V+ + +FG +D+L+ +G F ++ + + +I++ G F +
Sbjct: 67 VRDYAAVEAAFAQIADEFGPIDVLV--SGAAGNFPAPAAGMSANGFKTVVDIDLLGTFNV 124
Query: 140 VRAFLPDMVKRNQGHIVAIS 159
++A P + +R I+ IS
Sbjct: 125 LKAAYPLL-RRPGASIIQIS 143
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 37.3 bits (87), Expect = 0.002
Identities = 29/137 (21%), Positives = 47/137 (34%), Gaps = 22/137 (16%)
Query: 9 SLISPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQV--LCADIQNEPNEETVRMLN 66
P + + K + ITGA LG+ L F +G++V L N
Sbjct: 2 PQADPMAQSTWQGKRIGITGASGALGKALTKAFRAKGAKVIGLTHSKINNSESND----- 56
Query: 67 EIRQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQ 126
+ + + G E S+ + +D+LI N GI E I
Sbjct: 57 ---ESPNEWIKWECGKEESLDK-------QLASLDVLILNHGINP-----GGRQDPENIN 101
Query: 127 RLFNINITGHFRMVRAF 143
+ IN +R++ F
Sbjct: 102 KALEINALSSWRLLELF 118
>gnl|CDD|236057 PRK07578, PRK07578, short chain dehydrogenase; Provisional.
Length = 199
Score = 36.7 bits (86), Expect = 0.002
Identities = 33/122 (27%), Positives = 52/122 (42%), Gaps = 28/122 (22%)
Query: 22 KIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG-SAKAYHVDI 80
KI++I GA +GR + E KR ++ I G S+ VDI
Sbjct: 2 KILVI-GASGTIGRAVVAELSKR------HEV--------------ITAGRSSGDVQVDI 40
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMV 140
+ AS++ L + V GKVD +++ AG + F L ++TDE + G +V
Sbjct: 41 TDPASIRALFEKV----GKVDAVVSAAGKVH-FAPL-AEMTDEDFNVGLQSKLMGQVNLV 94
Query: 141 RA 142
Sbjct: 95 LI 96
>gnl|CDD|223696 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 36.8 bits (86), Expect = 0.003
Identities = 26/117 (22%), Positives = 49/117 (41%), Gaps = 12/117 (10%)
Query: 71 GSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGIL--TQFKILQTDITDEQIQRL 128
GS D+ N+ S+ L + + +GK+D L+++ + K D + E
Sbjct: 56 GSDLVLPCDVTNDESIDALFATIKKKWGKLDGLVHSIAFAPKEELKGDYLDTSREGFLIA 115
Query: 129 FNINITGHFRMVRAFLPDMVKRNQGHIVAISSMSSM--------TGVANASAYAASK 177
+I+ + +A P M N G I+ ++ + S GVA A+ A+ +
Sbjct: 116 MDISAYSFTALAKAARPLM--NNGGSILTLTYLGSERVVPNYNVMGVAKAALEASVR 170
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase, extended
(e) SDRs. UDP-Glcnac inverting 4,6-dehydratase was
identified in Helicobacter pylori as the hexameric flaA1
gene product (FlaA1). FlaA1 is hexameric, possesses
UDP-GlcNAc-inverting 4,6-dehydratase activity, and
catalyzes the first step in the creation of a
pseudaminic acid derivative in protein glycosylation.
Although this subgroup has the NADP-binding motif
characteristic of extended SDRs, its members tend to
have a Met substituted for the active site Tyr found in
most SDR families. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 287
Score = 36.8 bits (86), Expect = 0.003
Identities = 19/90 (21%), Positives = 36/90 (40%), Gaps = 7/90 (7%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKRG-SQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
K K +L+TG +G EL + +K G +++ D E VR L + +
Sbjct: 1 KGKTILVTGGAGSIGSELVRQILKFGPKKLIVFDRDENKLHELVRELRSRFPHDKLRFII 60
Query: 79 -DIGNEASVKELGKNVHRDFGKVDILINNA 107
D+ ++ ++ DI+ + A
Sbjct: 61 GDVRDKERLRRA-----FKERGPDIVFHAA 85
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 36.4 bits (85), Expect = 0.004
Identities = 21/93 (22%), Positives = 44/93 (47%), Gaps = 4/93 (4%)
Query: 73 AKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGI--LTQFKILQTDITDEQIQRLFN 130
A +D+ ++ + EL + V D GK+D L+++ + + D + E + +
Sbjct: 46 ADVIPLDVTSDEDIDELFEKVKEDGGKIDFLVHSIAMSPEIRKGKPYLDTSREGFLKALD 105
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSS 163
I+ + +A P M + G IVA+S +++
Sbjct: 106 ISAYSFISLAKAAKPLMNE--GGSIVALSYIAA 136
>gnl|CDD|200089 TIGR01289, LPOR, light-dependent protochlorophyllide reductase.
This model represents the light-dependent,
NADPH-dependent form of protochlorophyllide reductase.
It belongs to the short chain alcohol dehydrogenase
family, in contrast to the nitrogenase-related
light-independent form [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 314
Score = 36.0 bits (83), Expect = 0.006
Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 5/126 (3%)
Query: 24 VLITGAGSGLGRELALEFVKRGS-QVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
V+ITGA SGLG A G V+ A E+ + L + + S H+D+G+
Sbjct: 6 VIITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSLG-MPKDSYTIMHLDLGS 64
Query: 83 EASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDI-TDEQIQRLFNINITGHFRMVR 141
SV++ + +D L+ NA + F + T + + N GHF +
Sbjct: 65 LDSVRQFVQQFRESGRPLDALVCNAAVY--FPTAKEPRFTADGFELSVGTNHLGHFLLCN 122
Query: 142 AFLPDM 147
L D+
Sbjct: 123 LLLDDL 128
>gnl|CDD|233006 TIGR00521, coaBC_dfp, phosphopantothenoylcysteine decarboxylase /
phosphopantothenate--cysteine ligase. This model
represents a bifunctional enzyme that catalyzes the
second and third steps (cysteine ligation, EC 6.3.2.5,
and decarboxylation, EC 4.1.1.36) in the biosynthesis of
coenzyme A (CoA) from pantothenate in bacteria. In early
descriptions of this flavoprotein, a ts mutation in one
region of the protein appeared to cause a defect in DNA
metaobolism rather than an increased need for the
pantothenate precursor beta-alanine. This protein was
then called dfp, for DNA/pantothenate metabolism
flavoprotein. The authors responsible for detecting
phosphopantothenate--cysteine ligase activity suggest
renaming this bifunctional protein coaBC for its role in
CoA biosynthesis. This enzyme contains the FMN cofactor,
but no FAD or pyruvoyl group. The amino-terminal region
contains the phosphopantothenoylcysteine decarboxylase
activity [Biosynthesis of cofactors, prosthetic groups,
and carriers, Pantothenate and coenzyme A].
Length = 390
Score = 36.2 bits (84), Expect = 0.007
Identities = 28/101 (27%), Positives = 44/101 (43%), Gaps = 15/101 (14%)
Query: 10 LISPPPRKEIKDKIVLITGAGSG-LGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEI 68
LI+ P +E D + I+ SG +G LA KRG+ V I + T + I
Sbjct: 189 LITAGPTREPIDPVRFISNLSSGKMGLALAEAAYKRGADVTL--ITGPVSLLTPPGVKSI 246
Query: 69 RQGSAKAYHVDIGNEASVKELGKNVHRDFGKVDILINNAGI 109
+ +A+ EA++ EL K+ DI I+ A +
Sbjct: 247 KVSTAEEML-----EAALNELAKD-------FDIFISAAAV 275
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 35.7 bits (83), Expect = 0.009
Identities = 29/143 (20%), Positives = 53/143 (37%), Gaps = 38/143 (26%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQV--LCADIQNEPNEETVRMLN----EIRQGSAKAYH 77
+L+TGA LG L + +G +V L + +L+ E+ +G
Sbjct: 1 ILVTGATGFLGSNLVRALLAQGYRVRALVRSGSD------AVLLDGLPVEVVEG------ 48
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHF 137
D+ + AS + D + + A T + + + L+ N+ G
Sbjct: 49 -DLTDAAS-------LAAAMKGCDRVFHLAAF--------TSLWAKDRKELYRTNVEGTR 92
Query: 138 RMVRAFLPDMVKRNQGHIVAISS 160
++ A L V+R +V SS
Sbjct: 93 NVLDAALEAGVRR----VVHTSS 111
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 34.6 bits (80), Expect = 0.012
Identities = 22/137 (16%), Positives = 37/137 (27%), Gaps = 40/137 (29%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
+ + GA GR L E + RG QV R ++ D+ +
Sbjct: 1 IAVIGATGKTGRRLVKELLARGHQVTAL----------SRNPSKAPAPGVTPVQKDLFDL 50
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
A + E VD +++ G V+
Sbjct: 51 ADLAEALAG-------VDAVVDAFG-----------------------ARPDDSDGVKHL 80
Query: 144 LPDMVKRNQGHIVAISS 160
L + IV +S+
Sbjct: 81 LDAAARAGVRRIVVVSA 97
>gnl|CDD|223749 COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase
[Cell envelope biogenesis, outer membrane].
Length = 436
Score = 35.3 bits (82), Expect = 0.013
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 16 RKEIKDKIVLITGAGSG-LGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAK 74
++IK+ I G G +G LA F G +V+ DI N++ V LN +
Sbjct: 2 AEKIKNMSATIGVIGLGYVGLPLAAAFASAGFKVIGVDI----NQKKVDKLN-----RGE 52
Query: 75 AYHVDIGNEASVKEL 89
+Y + + VKE
Sbjct: 53 SYIEEPDLDEVVKEA 67
>gnl|CDD|181416 PRK08415, PRK08415, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 274
Score = 35.1 bits (81), Expect = 0.013
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 71 GSAKAYHVDIGNEASVKELGKNVHRDFGKVDILI 104
GS Y +D+ K L +++ +D GK+D ++
Sbjct: 55 GSDYVYELDVSKPEHFKSLAESLKKDLGKIDFIV 88
>gnl|CDD|112562 pfam03753, HHV6-IE, Human herpesvirus 6 immediate early protein.
The proteins in this family are poorly characterized,
but an investigation has indicated that the immediate
early protein is required the down-regulation of MHC
class I expression in dendritic cells. Human herpesvirus
6 immediate early protein is also referred to as U90.
Length = 993
Score = 35.4 bits (81), Expect = 0.013
Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 2/50 (4%)
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINI 133
ASVK K D D LIN+AG+LT + + TD+ EQ+ +L NIN+
Sbjct: 30 ASVKAAMKQEQSDME--DCLINHAGLLTNDRSMLTDLALEQLSQLININL 77
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 34.9 bits (81), Expect = 0.019
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKRG-SQVLCADIQNEPNEETVRM-LNEIRQG-S 72
+ K VL+TG G +G EL + +K +++ +E + M L E
Sbjct: 245 GAMLTGKTVLVTGGGGSIGSELCRQILKFNPKEIILFSR-DEYKLYLIDMELREKFPELK 303
Query: 73 AKAYHVDIGNEASVKELGKNVHRDFGKVDILINNA 107
+ Y D+ + V+ KVDI+ + A
Sbjct: 304 LRFYIGDVRDRDRVER----AMEGH-KVDIVFHAA 333
>gnl|CDD|187579 cd05271, NDUFA9_like_SDR_a, NADH dehydrogenase (ubiquinone) 1 alpha
subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical
(a) SDRs. This subgroup of extended SDR-like proteins
are atypical SDRs. They have a glycine-rich
NAD(P)-binding motif similar to the typical SDRs,
GXXGXXG, and have the YXXXK active site motif (though
not the other residues of the SDR tetrad). Members
identified include NDUFA9 (mitochondrial) and putative
nucleoside-diphosphate-sugar epimerase. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 273
Score = 34.5 bits (80), Expect = 0.020
Identities = 21/94 (22%), Positives = 35/94 (37%), Gaps = 16/94 (17%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY---HVDI 80
V + GA +GR + KRGSQV+ P + G D+
Sbjct: 3 VTVFGATGFIGRYVVNRLAKRGSQVIV------PYRCEAYARRLLVMGDLGQVLFVEFDL 56
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQFK 114
++ S+++ D++IN G L + K
Sbjct: 57 RDDESIRKA-------LEGSDVVINLVGRLYETK 83
>gnl|CDD|148849 pfam07475, Hpr_kinase_C, HPr Serine kinase C-terminal domain.
This family represents the C terminal kinase domain of
Hpr Serine/threonine kinase PtsK. This kinase is the
sensor in a multicomponent phosphorelay system in
control of carbon catabolic repression in bacteria.
This kinase in unusual in that it recognises the
tertiary structure of its target and is a member of a
novel family unrelated to any previously described
protein phosphorylating enzymes. X-ray analysis of the
full-length crystalline enzyme from Staphylococcus
xylosus at a resolution of 1.95 A shows the enzyme to
consist of two clearly separated domains that are
assembled in a hexameric structure resembling a
three-bladed propeller.
Length = 171
Score = 33.6 bits (78), Expect = 0.029
Identities = 18/30 (60%), Positives = 22/30 (73%), Gaps = 3/30 (10%)
Query: 24 VLITGAGSGLGR-ELALEFVKRGSQVLCAD 52
VLITG SG+G+ E ALE +KRG + L AD
Sbjct: 21 VLITGE-SGIGKSETALELIKRGHR-LVAD 48
>gnl|CDD|235459 PRK05428, PRK05428, HPr kinase/phosphorylase; Provisional.
Length = 308
Score = 34.0 bits (79), Expect = 0.032
Identities = 18/30 (60%), Positives = 22/30 (73%), Gaps = 3/30 (10%)
Query: 24 VLITGAGSGLGR-ELALEFVKRGSQVLCAD 52
VLITG SG+G+ E ALE +KRG + L AD
Sbjct: 149 VLITGE-SGIGKSETALELIKRGHR-LVAD 176
>gnl|CDD|224410 COG1493, HprK, Serine kinase of the HPr protein, regulates
carbohydrate metabolism [Signal transduction
mechanisms].
Length = 308
Score = 33.0 bits (76), Expect = 0.066
Identities = 19/30 (63%), Positives = 21/30 (70%), Gaps = 3/30 (10%)
Query: 24 VLITGAGSGLGR-ELALEFVKRGSQVLCAD 52
VLITG SG G+ ELALE +KRG L AD
Sbjct: 148 VLITGP-SGAGKSELALELIKRGH-RLVAD 175
>gnl|CDD|177823 PLN02165, PLN02165, adenylate isopentenyltransferase.
Length = 334
Score = 32.1 bits (73), Expect = 0.13
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 12 SPPPRKEIKDKIVLITGA-GSGLGR---ELALEF 41
S + KDK+V+I GA GSG R +LA F
Sbjct: 34 SVAMEQNCKDKVVVIMGATGSGKSRLSVDLATRF 67
>gnl|CDD|233088 TIGR00679, hpr-ser, Hpr(Ser) kinase/phosphatase. Members of this
family are the bifunctional enzyme, HPr
kinase/phosphatase. All members of the seed alignment
(n=57) have a gene tightly clustered with a gene for the
phospocarrier protein HPr, its target [Regulatory
functions, Protein interactions, Signal transduction,
PTS].
Length = 300
Score = 31.7 bits (73), Expect = 0.16
Identities = 19/30 (63%), Positives = 23/30 (76%), Gaps = 3/30 (10%)
Query: 24 VLITGAGSGLGR-ELALEFVKRGSQVLCAD 52
VLITG SG+G+ ELALE +KRG + L AD
Sbjct: 146 VLITGE-SGIGKSELALELIKRGHR-LVAD 173
>gnl|CDD|187568 cd05258, CDP_TE_SDR_e, CDP-tyvelose 2-epimerase, extended (e)
SDRs. CDP-tyvelose 2-epimerase is a tetrameric SDR
that catalyzes the conversion of CDP-D-paratose to
CDP-D-tyvelose, the last step in tyvelose biosynthesis.
This subgroup is a member of the extended SDR
subfamily, with a characteristic active site tetrad and
NAD-binding motif. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 337
Score = 31.9 bits (73), Expect = 0.18
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCAD----IQNEPNEETVRMLNEIRQGSAKAYHVD 79
VLITG +G LA F+K+G +V+ D + N ++ G + H D
Sbjct: 3 VLITGGAGFIGSNLARFFLKQGWEVIGFDNLMRRGSFGNLAWLK--ANREDGGVRFVHGD 60
Query: 80 IGNEASVKELGKNVH 94
I N +++L +++
Sbjct: 61 IRNRNDLEDLFEDID 75
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended
or atypical short-chain dehydrogenases/reductases
(SDRs, aka tyrosine-dependent oxidoreductases) are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
Atypical SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Atypical
SDRs include biliverdin IX beta reductase (BVR-B,aka
flavin reductase), NMRa (a negative transcriptional
regulator of various fungi), progesterone
5-beta-reductase like proteins, phenylcoumaran benzylic
ether and pinoresinol-lariciresinol reductases,
phenylpropene synthases, eugenol synthase,
triphenylmethane reductase, isoflavone reductases, and
others. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 176
Score = 31.2 bits (71), Expect = 0.18
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQV 48
+LI GA +GR LA E +++G +V
Sbjct: 1 ILILGATGFIGRALARELLEQGHEV 25
>gnl|CDD|238899 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the
phosphorylation state of the phosphocarrier protein HPr
and regulates the utilization of carbon sources by
gram-positive bacteria. It catalyzes both the
ATP-dependent phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter
reaction uses inorganic phosphate as substrate and
produces pyrophosphate. Phosphoenolpyruvate
carboxykinase (PEPCK) and the C-terminal catalytic
domain of HprK/P are structurally similar with
conserved active site residues suggesting these two
phosphotransferases have related functions. The HprK/P
N-terminal domain is structurally similar to the
N-terminal domains of the MurE and MurF amino acid
ligases.
Length = 149
Score = 30.7 bits (70), Expect = 0.22
Identities = 17/31 (54%), Positives = 23/31 (74%), Gaps = 2/31 (6%)
Query: 24 VLITGAGSGLGR-ELALEFVKRGSQVLCADI 53
VLITG SG+G+ ELALE +KRG +++ D
Sbjct: 17 VLITGP-SGIGKSELALELIKRGHRLVADDR 46
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 30.8 bits (70), Expect = 0.29
Identities = 29/152 (19%), Positives = 55/152 (36%), Gaps = 14/152 (9%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG-SAKAYHVDIGNE 83
L+ G SG+G LA F G++V I + + + G + +DI +E
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVT---IASRSRDRLAAAARALGGGAPVRTAALDITDE 57
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
A+V + G D ++ A + + Q + G +R+ RA
Sbjct: 58 AAVDAF----FAEAGPFDHVVITAADTPGGPVRALPLAAA--QAAMDSKFWGAYRVARA- 110
Query: 144 LPDMVKRNQGHIVAISSMSSMTGVANASAYAA 175
+ G + +S +++ A+ A
Sbjct: 111 -ARI--APGGSLTFVSGFAAVRPSASGVLQGA 139
>gnl|CDD|187564 cd05254, dTDP_HR_like_SDR_e, dTDP-6-deoxy-L-lyxo-4-hexulose
reductase and related proteins, extended (e) SDRs.
dTDP-6-deoxy-L-lyxo-4-hexulose reductase, an extended
SDR, synthesizes dTDP-L-rhamnose from
alpha-D-glucose-1-phosphate, providing the precursor of
L-rhamnose, an essential cell wall component of many
pathogenic bacteria. This subgroup has the
characteristic active site tetrad and NADP-binding
motif. This subgroup also contains human MAT2B, the
regulatory subunit of methionine adenosyltransferase
(MAT); MAT catalyzes S-adenosylmethionine synthesis. The
human gene encoding MAT2B encodes two major splicing
variants which are induced in human cell liver cancer
and regulate HuR, an mRNA-binding protein which
stabilizes the mRNA of several cyclins, to affect cell
proliferation. Both MAT2B variants include this extended
SDR domain. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 280
Score = 31.1 bits (71), Expect = 0.29
Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 22/86 (25%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
+LITGA LGR L +RG +V+ T R A + +D+ +
Sbjct: 2 ILITGATGMLGRALVRLLKERGYEVIG----------TGR-------SRASLFKLDLTDP 44
Query: 84 ASVKELGKNVHRDFGKVDILINNAGI 109
+V+E ++ K D++IN A
Sbjct: 45 DAVEEAIRDY-----KPDVIINCAAY 65
>gnl|CDD|187563 cd05253, UDP_GE_SDE_e, UDP glucuronic acid epimerase, extended (e)
SDRs. This subgroup contains UDP-D-glucuronic acid
4-epimerase, an extended SDR, which catalyzes the
conversion of UDP-alpha-D-glucuronic acid to
UDP-alpha-D-galacturonic acid. This group has the SDR's
canonical catalytic tetrad and the TGxxGxxG NAD-binding
motif of the extended SDRs. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 332
Score = 30.8 bits (70), Expect = 0.31
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 5/89 (5%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQN---EPNEETVRMLNEIRQGSAKAYHVDI 80
+L+TGA +G +A ++RG +V+ D N + + R+ + G K D+
Sbjct: 3 ILVTGAAGFIGFHVAKRLLERGDEVVGIDNLNDYYDVRLKEARLELLGKSGGFKFVKGDL 62
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGI 109
+ +++ L K+ F V L AG+
Sbjct: 63 EDREALRRLFKDHE--FDAVIHLAAQAGV 89
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 30.9 bits (70), Expect = 0.39
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 11/68 (16%)
Query: 9 SLISPPPRKEIKDKIVLITG-AGSGLGRELALEFVKR-GSQVLCADIQNEPNEETVRMLN 66
+L K K+K+++I+G G+G R LALE KR +++ AD +V++
Sbjct: 9 ALSGSGASKTKKEKVIVISGPTGAGKSR-LALELAKRLNGEIISAD--------SVQVYR 59
Query: 67 EIRQGSAK 74
+ GSAK
Sbjct: 60 GLDVGSAK 67
>gnl|CDD|187581 cd05273, GME-like_SDR_e, Arabidopsis thaliana
GDP-mannose-3',5'-epimerase (GME)-like, extended (e)
SDRs. This subgroup of NDP-sugar
epimerase/dehydratases are extended SDRs; they have the
characteristic active site tetrad, and an NAD-binding
motif: TGXXGXX[AG], which is a close match to the
canonical NAD-binding motif. Members include
Arabidopsis thaliana GDP-mannose-3',5'-epimerase (GME)
which catalyzes the epimerization of two positions of
GDP-alpha-D-mannose to form GDP-beta-L-galactose.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 328
Score = 30.5 bits (69), Expect = 0.41
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADI 53
L+TGAG +G LA G V AD
Sbjct: 3 ALVTGAGGFIGSHLAERLKAEGHYVRGADW 32
>gnl|CDD|233687 TIGR02021, BchM-ChlM, magnesium protoporphyrin
O-methyltransferase. This model represents the
S-adenosylmethionine-dependent O-methyltransferase
responsible for methylation of magnesium protoporphyrin
IX. This step is essentiasl for the biosynthesis of
both chlorophyll and bacteriochlorophyll. This model
encompasses two closely related clades, from
cyanobacteria (and plants) where it is called ChlM and
other photosynthetic bacteria where it is known as BchM
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 219
Score = 30.1 bits (68), Expect = 0.45
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 15 PRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADI 53
P+ +K K VL G G+GL L++E KRG+ V DI
Sbjct: 50 PKDPLKGKRVLDAGCGTGL---LSIELAKRGAIVKAVDI 85
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 30.3 bits (69), Expect = 0.45
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADI 53
+L+TG +G L ++RG +V+ D
Sbjct: 1 ILVTGGAGFIGSHLVRRLLERGHEVVVIDR 30
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 29.9 bits (68), Expect = 0.50
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLC 50
VL+ GA +GR + E + RG QV
Sbjct: 2 VLVVGATGKVGRHVVRELLDRGYQVRA 28
>gnl|CDD|181609 PRK09009, PRK09009, C factor cell-cell signaling protein;
Provisional.
Length = 235
Score = 30.0 bits (68), Expect = 0.53
Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 4/35 (11%)
Query: 76 YHVDIGNEASVKELGKNVHRDFGKVDILINNAGIL 110
+ +D+ +EA +K+L + F ++D LIN G+L
Sbjct: 48 HALDVTDEAEIKQLSEQ----FTQLDWLINCVGML 78
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like
proteins, NMRa-like, atypical (a) SDRs. TMR is an
atypical NADP-binding protein of the SDR family. It
lacks the active site residues of the SDRs but has a
glycine rich NAD(P)-binding motif that matches the
extended SDRs. Proteins in this subgroup however, are
more similar in length to the classical SDRs. TMR was
identified as a reducer of triphenylmethane dyes,
important environmental pollutants. This subgroup also
includes Escherichia coli NADPH-dependent quinine
oxidoreductase (QOR2), which catalyzes two-electron
reduction of quinone; but is unlikely to play a major
role in protecting against quinone cytotoxicity.
Atypical SDRs are distinct from classical SDRs.
Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 29.9 bits (68), Expect = 0.65
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 25 LITGAGSGLGRELALEFVKRGSQVLCA 51
L+TGA LG + + + + V+
Sbjct: 2 LVTGATGKLGTAVVELLLAKVASVVAL 28
>gnl|CDD|219722 pfam08124, Lyase_8_N, Polysaccharide lyase family 8, N terminal
alpha-helical domain. This family consists of a group
of secreted bacterial lyase enzymes EC:4.2.2.1 capable
of acting on hyaluronan and chondroitin in the
extracellular matrix of host tissues, contributing to
the invasive capacity of the pathogen.
Length = 319
Score = 29.9 bits (68), Expect = 0.71
Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 14/85 (16%)
Query: 107 AGILTQFKILQ---TDITDEQIQRLFNINITGHFR--MVRAFLPDMVK-------RNQGH 154
G+ +LQ I+D + Q L++ I F + + + DMV+ H
Sbjct: 230 EGLSQLLPLLQGTPWAISDPKRQNLYDW-IEDSFLPLIYKGEMMDMVRGRSISRANATDH 288
Query: 155 IVAISSMSSMTGVAN-ASAYAASKW 178
+ ++S+ +A+ A A++
Sbjct: 289 VAGAEILASILRLADGAPENTAARL 313
>gnl|CDD|187580 cd05272, TDH_SDR_e, L-threonine dehydrogenase, extended (e) SDRs.
This subgroup contains members identified as L-threonine
dehydrogenase (TDH). TDH catalyzes the zinc-dependent
formation of 2-amino-3-ketobutyrate from L-threonine via
NAD(H)-dependent oxidation. This group is distinct from
TDHs that are members of the medium chain
dehydrogenase/reductase family. This group has the
NAD-binding motif and active site tetrad of the extended
SDRs. Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 308
Score = 30.0 bits (68), Expect = 0.72
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 16/90 (17%)
Query: 24 VLITGAGSGLGRELALEFVKR-GSQ-VLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIG 81
+LITG +G ELA KR G V+ +DI+ P + E +D+
Sbjct: 2 ILITGGLGQIGSELAKLLRKRYGKDNVIASDIRKPPAHVVLSGPFEY---------LDVL 52
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILT 111
+ S++E+ N K+ +I+ A +L+
Sbjct: 53 DFKSLEEIVVN-----HKITWIIHLAALLS 77
>gnl|CDD|218026 pfam04321, RmlD_sub_bind, RmlD substrate binding domain.
L-rhamnose is a saccharide required for the virulence
of some bacteria. Its precursor, dTDP-L-rhamnose, is
synthesised by four different enzymes the final one of
which is RmlD. The RmlD substrate binding domain is
responsible for binding a sugar nucleotide.
Length = 284
Score = 29.9 bits (68), Expect = 0.74
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 13/66 (19%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVL-----CADIQNEPNEETVR-MLNEIRQG---SAK 74
+L+TGA LGREL +RG +V+ D+ + E V ++ E R +A
Sbjct: 1 ILVTGANGQLGRELTRLLAERGVEVVALDRPELDLT---DPEAVAALVREARPDVVVNAA 57
Query: 75 AYH-VD 79
AY VD
Sbjct: 58 AYTAVD 63
>gnl|CDD|200085 TIGR01214, rmlD, dTDP-4-dehydrorhamnose reductase. This enzyme
catalyzes the last of 4 steps in making dTDP-rhamnose,
a precursor of LPS core antigen, O-antigen, etc [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides].
Length = 287
Score = 29.7 bits (67), Expect = 0.77
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLC 50
+LITGA LGREL + G V+
Sbjct: 2 ILITGANGQLGRELVQQLSPEGRVVVA 28
>gnl|CDD|187672 cd09812, 3b-HSD_like_1_SDR_e, 3beta-hydroxysteroid dehydrogenase
(3b-HSD)-like, subgroup1, extended (e) SDRs. An
uncharacterized subgroup of the 3b-HSD-like
extended-SDR family. Proteins in this subgroup have the
characteristic active site tetrad and NAD(P)-binding
motif of extended-SDRs. 3 beta-HSD catalyzes the
oxidative conversion of delta 5-3 beta-hydroxysteroids
to the delta 4-3-keto configuration; this activity is
essential for the biosynthesis of all classes of
hormonal steroids. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid sythase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 339
Score = 29.8 bits (67), Expect = 0.78
Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 3/53 (5%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADI---QNEPNEETVRMLNEIRQGSA 73
VLITG G G L K G V+ DI Q E E + ++R S
Sbjct: 2 VLITGGGGYFGFRLGCALAKSGVHVILFDIRRPQQELPEGIKFIQADVRDLSQ 54
>gnl|CDD|216461 pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.
This family of proteins utilise NAD as a cofactor. The
proteins in this family use nucleotide-sugar substrates
for a variety of chemical reactions.
Length = 233
Score = 29.6 bits (67), Expect = 0.83
Identities = 30/166 (18%), Positives = 55/166 (33%), Gaps = 36/166 (21%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
+L+TG +G L ++ G +V+ R + G + + D+ +
Sbjct: 1 ILVTGGTGFIGSHLVRRLLQEGYEVI--------VLGRRRRSESLNTGRIRFHEGDLTDP 52
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAF 143
+++ L V + D +I+ A + E N+ G R++ A
Sbjct: 53 DALERLLAEV-----QPDAVIHLAA------QSGVGASFEDPADFIRANVLGTLRLLEA- 100
Query: 144 LPDMVKRNQGHIVAISSMSSMTGVAN------------ASAYAASK 177
+ V SS S + G S YAA+K
Sbjct: 101 ---ARRAGVKRFVFASS-SEVYGDVADPPITEDTPLGPLSPYAAAK 142
>gnl|CDD|178331 PLN02730, PLN02730, enoyl-[acyl-carrier-protein] reductase.
Length = 303
Score = 29.7 bits (67), Expect = 0.86
Identities = 10/25 (40%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 81 GNEA-SVKELGKNVHRDFGKVDILI 104
G+ +V+E+ ++V DFG +DIL+
Sbjct: 101 GSSNWTVQEVAESVKADFGSIDILV 125
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 29.6 bits (67), Expect = 0.90
Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 18/93 (19%)
Query: 20 KDKIVLITGAGSGLGRELALEFVKR-GSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHV 78
K + VL+TGAG G+G A++ K G++V I +E +++++ A +V
Sbjct: 162 KGETVLVTGAGGGVGIH-AIQVAKALGAKV----IAVTSSESKAKIVSKY------ADYV 210
Query: 79 DIGNEASVKELGKNVHRDFGKVDILINNAGILT 111
+G++ S +E+ K G DI+I G T
Sbjct: 211 IVGSKFS-EEVKK-----IGGADIVIETVGTPT 237
>gnl|CDD|187633 cd08928, KR_fFAS_like_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS)-like, classical
(c)-like SDRs. KR domain of FAS, including the
fungal-type multidomain FAS alpha chain, and the single
domain daunorubicin C-13 ketoreductase. Fungal-type FAS
is a heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the classical SDR and has partial
identity of the active site tetrad, but the upstream Asn
is replaced in KR by Met. As in other SDRs, there is a
glycine rich NAD(P)-binding motif, but the pattern found
in KR does not match the classical SDRs, and is not
strictly conserved within this group. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Single domain daunorubicin C-13
ketoreductase is member of the classical SDR family with
a canonical glycine-rich NAD(P)-binding motif, but
lacking a complete match to the active site tetrad
characteristic of this group. The critical Tyr, plus the
Lys and upstream Asn are present, but the catalytic Ser
is replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 248
Score = 29.6 bits (66), Expect = 0.94
Identities = 24/106 (22%), Positives = 40/106 (37%), Gaps = 5/106 (4%)
Query: 24 VLITGAGSG-LGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYH--VDI 80
VLITGAG G +G E+ + G++V + T + A V
Sbjct: 1 VLITGAGDGSIGAEVLQGLLNGGAKVYVT-TSRFSRQVTKYYQDIYAACGAAGSVLIVVP 59
Query: 81 GNEASVKELGKNVHRDFGKVDILINNAGILTQF-KILQTDITDEQI 125
N+ S +++ + V+ L + + F I +T I I
Sbjct: 60 FNQGSKQDVEALAIGIYDTVNGLGWDLDLYGPFAAIPETGIEIPAI 105
>gnl|CDD|131312 TIGR02259, benz_CoA_red_A, benzoyl-CoA reductase, bcr type, subunit
A. This model describes A, or gamma, subunit of the bcr
type of benzoyl-CoA reductase, a 4-subunit enzyme. Many
aromatic compounds are metabolized by way of
benzoyl-CoA. This family shows strong sequence
similarity to the 2-hydroxyglutaryl-CoA dehydratase
alpha chain and to subunits of different types of
benzoyl-CoA reductase (such as the bzd type).
Length = 432
Score = 29.2 bits (65), Expect = 1.2
Identities = 14/30 (46%), Positives = 20/30 (66%)
Query: 82 NEASVKELGKNVHRDFGKVDILINNAGILT 111
NEA+VKEL K + ++G+V I I+ I T
Sbjct: 394 NEAAVKELRKLIKENYGEVQINIDPDSIYT 423
>gnl|CDD|217692 pfam03721, UDPG_MGDP_dh_N, UDP-glucose/GDP-mannose dehydrogenase
family, NAD binding domain. The
UDP-glucose/GDP-mannose dehydrogenaseses are a small
group of enzymes which possesses the ability to
catalyze the NAD-dependent 2-fold oxidation of an
alcohol to an acid without the release of an aldehyde
intermediate.
Length = 188
Score = 28.8 bits (65), Expect = 1.3
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 26 ITGAGSG-LGRELALEFVKRGSQVLCADIQNEPNEETVRMLNE 67
I G G +G A+ + G V+ DI N+ + LN
Sbjct: 3 IAVIGLGYVGLPTAVCLAEIGHDVVGVDI----NQSKIDKLNN 41
>gnl|CDD|180660 PRK06696, PRK06696, uridine kinase; Validated.
Length = 223
Score = 28.8 bits (65), Expect = 1.3
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 7/67 (10%)
Query: 26 ITGAG-SGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQG--SAKAYHVDIGN 82
IT +G + ELA E KRG V+ A I + N +R R+G SA+ Y+ D +
Sbjct: 30 ITASGKTTFADELAEEIKKRGRPVIRASIDDFHNPRVIRY----RRGRESAEGYYEDAYD 85
Query: 83 EASVKEL 89
+++ L
Sbjct: 86 YTALRRL 92
>gnl|CDD|215858 pfam00324, AA_permease, Amino acid permease.
Length = 473
Score = 28.8 bits (65), Expect = 1.5
Identities = 6/48 (12%), Positives = 15/48 (31%), Gaps = 9/48 (18%)
Query: 131 INITGHFRMVRAFLPDMVKRNQGHIVAISSMSSMTGVANASAYAASKW 178
I + ++ +++ AN+S Y+ S+
Sbjct: 272 FVIFFKSLGISGL---------APLINAVILTAALSAANSSLYSGSRV 310
>gnl|CDD|187540 cd05229, SDR_a3, atypical (a) SDRs, subgroup 3. These atypical
SDR family members of unknown function have a
glycine-rich NAD(P)-binding motif consensus that is
very similar to the extended SDRs, GXXGXXG. Generally,
this group has poor conservation of the active site
tetrad, However, individual sequences do contain
matches to the YXXXK active site motif, and generally
Tyr or Asn in place of the upstream Ser found in most
SDRs. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 302
Score = 28.8 bits (65), Expect = 1.6
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQV 48
+ GA +GRE+A E +RG V
Sbjct: 2 AHVLGASGPIGREVARELRRRGWDV 26
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 28.3 bits (64), Expect = 1.6
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADI 53
+ K VL G GSG+ +A+ K G +V+ DI
Sbjct: 20 VDKKGDRVLEVGTGSGI---VAIVAAKNGKKVVGVDI 53
>gnl|CDD|234929 PRK01259, PRK01259, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 309
Score = 28.5 bits (65), Expect = 1.6
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 103 LINNAGILTQFKILQTDITDEQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISSMS 162
L+ AG ++L D+ +QIQ F+I + L D+ ++N ++V +S
Sbjct: 112 LLETAGAD---RVLTMDLHADQIQGFFDIP-VDNLYGSPILLEDIKQKNLENLVVVS--P 165
Query: 163 SMTGVANASAYA 174
+ GV A A A
Sbjct: 166 DVGGVVRARALA 177
>gnl|CDD|240625 cd05300, 2-Hacid_dh_1, Putative D-isomer specific 2-hydroxyacid
dehydrogenase. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomains but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric. Formate dehydrogenase (FDH) catalyzes the
NAD+-dependent oxidation of formate ion to carbon
dioxide with the concomitant reduction of NAD+ to NADH.
FDHs of this family contain no metal ions or prosthetic
groups. Catalysis occurs though direct transfer of the
hydride ion to NAD+ without the stages of acid-base
catalysis typically found in related dehydrogenases.
FDHs are found in all methylotrophic microorganisms in
energy production and in the stress responses of plants.
Length = 313
Score = 28.3 bits (64), Expect = 2.1
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 13 PPPRKEIKDKIVLITGAGSGLGRELA 38
P +E+ K VLI G G +GRE+A
Sbjct: 126 RGPVRELAGKTVLIVGLGD-IGREIA 150
>gnl|CDD|187659 cd08956, KR_3_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 3, complex (x).
Ketoreductase, a module of the multidomain polyketide
synthase (PKS), has 2 subdomains, each corresponding to
a SDR family monomer. The C-terminal subdomain catalyzes
the NADPH-dependent reduction of the beta-carbonyl of a
polyketide to a hydroxyl group, a step in the
biosynthesis of polyketides, such as erythromycin. The
N-terminal subdomain, an interdomain linker, is a
truncated Rossmann fold which acts to stabilizes the
catalytic subdomain. Unlike typical SDRs, the isolated
domain does not oligomerize but is composed of 2
subdomains, each resembling an SDR monomer. The active
site resembles that of typical SDRs, except that the
usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. In some instances, such as
porcine FAS, an enoyl reductase (ER) module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta- ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
This subfamily includes KR domains found in many
multidomain PKSs, including six of seven Sorangium
cellulosum PKSs (encoded by spiDEFGHIJ) which
participate in the synthesis of the polyketide scaffold
of the cytotoxic spiroketal polyketide spirangien. These
seven PKSs have either a single PKS module (SpiF), two
PKR modules (SpiD,-E,-I,-J), or three PKS modules
(SpiG,-H). This subfamily includes the second KR domains
of SpiE,-G, I, and -J, both KR domains of SpiD, and the
third KR domain of SpiH. The single KR domain of SpiF,
the first and second KR domains of SpiH, the first KR
domains of SpiE,-G,- I, and -J, and the third KR domain
of SpiG, belong to a different KR_FAS_SDR subfamily.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 448
Score = 28.4 bits (64), Expect = 2.1
Identities = 9/15 (60%), Positives = 9/15 (60%)
Query: 24 VLITGAGSGLGRELA 38
VLITG LG LA
Sbjct: 196 VLITGGTGTLGALLA 210
>gnl|CDD|233570 TIGR01777, yfcH, TIGR01777 family protein. This model represents
a clade of proteins of unknown function including the
E. coli yfcH protein [Hypothetical proteins,
Conserved].
Length = 291
Score = 28.4 bits (64), Expect = 2.2
Identities = 14/58 (24%), Positives = 20/58 (34%), Gaps = 2/58 (3%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQV--LCADIQNEPNEETVRMLNEIRQGSAKAYHVD 79
+LITG +GR L KRG +V L N + + + D
Sbjct: 1 ILITGGTGFIGRALTQRLTKRGHEVTILTRSPPPGANTKWEGYKPWAGEDADSLEGAD 58
>gnl|CDD|215691 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 82
Score = 26.4 bits (59), Expect = 3.2
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 3/71 (4%)
Query: 24 VLITGAG-SGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGN 82
V++ G G GL E A K GS+V + ++ + +I Q + +++
Sbjct: 2 VVVVGGGYIGL--EFASALAKLGSKVTVVERRDRLLRGFDEEIAKILQEKLEKNGIEVLL 59
Query: 83 EASVKELGKNV 93
+V+E+ N
Sbjct: 60 NTTVEEIEGNG 70
>gnl|CDD|187655 cd08952, KR_1_SDR_x, ketoreductase (KR), subgroup 1, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
KR domains found in many multidomain PKSs, including six
of seven Sorangium cellulosum PKSs (encoded by
spiDEFGHIJ) which participate in the synthesis of the
polyketide scaffold of the cytotoxic spiroketal
polyketide spirangien. These seven PKSs have either a
single PKS module (SpiF), two PKR modules
(SpiD,-E,-I,-J), or three PKS modules (SpiG,-H). This
subfamily includes the single KR domain of SpiF, the
first KR domains of SpiE,-G,H,-I,and #J, the third KR
domain of SpiG, and the second KR domain of SpiH. The
second KR domains of SpiE,-G, I, and #J, and the KR
domains of SpiD, belong to a different KR_FAS_SDR
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 480
Score = 27.5 bits (62), Expect = 3.9
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 24 VLITGAGSGLGRELALEFVKRG 45
VL+TG LG +A +RG
Sbjct: 233 VLVTGGTGALGAHVARWLARRG 254
>gnl|CDD|233557 TIGR01746, Thioester-redct, thioester reductase domain. This
model includes the terminal domain from the fungal
alpha aminoadipate reductase enzyme (also known as
aminoadipate semialdehyde dehydrogenase) which is
involved in the biosynthesis of lysine , as well as the
reductase-containing component of the myxochelin
biosynthetic gene cluster, MxcG. The mechanism of
reduction involves activation of the substrate by
adenylation and transfer to a covalently-linked
pantetheine cofactor as a thioester. This thioester is
then reduced to give an aldehyde (thus releasing the
product) and a regenerated pantetheine thiol. (In
myxochelin biosynthesis this aldehyde is further
reduced to an alcohol or converted to an amine by an
aminotransferase.) This is a fundamentally different
reaction than beta-ketoreductase domains of polyketide
synthases which act at a carbonyl two carbons removed
from the thioester and forms an alcohol as a product.
This domain is invariably found at the C-terminus of
the proteins which contain it (presumably because it
results in the release of the product). The majority of
hits to this model are non-ribosomal peptide
synthetases in which this domain is similarly located
proximal to a thiolation domain (pfam00550). In some
cases this domain is found at the end of a polyketide
synthetase enzyme, but is unlike ketoreductase domains
which are found before the thiolase domains. Exceptions
to this observed relationship with the thiolase domain
include three proteins which consist of stand-alone
reductase domains (GP|466833 from M. leprae, GP|435954
from Anabaena and OMNI|NTL02SC1199 from Strep.
coelicolor) and one protein (OMNI|NTL01NS2636 from
Nostoc) which contains N-terminal homology with a small
group of hypothetical proteins but no evidence of a
thiolation domain next to the putative reductase
domain. Below the noise cutoff to this model are
proteins containing more distantly related
ketoreductase and dehydratase/epimerase domains. It has
been suggested that a NADP-binding motif can be found
in the N-terminal portion of this domain that may form
a Rossman-type fold.
Length = 367
Score = 27.8 bits (62), Expect = 4.1
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 23 IVLITGAGSGLGRELALEFVKRGSQ--VLC 50
VL+TGA LG L E ++R +Q V+C
Sbjct: 1 TVLLTGATGFLGAYLLEELLRRSTQAKVIC 30
>gnl|CDD|178263 PLN02657, PLN02657, 3,8-divinyl protochlorophyllide a 8-vinyl
reductase.
Length = 390
Score = 27.4 bits (61), Expect = 4.3
Identities = 25/94 (26%), Positives = 45/94 (47%), Gaps = 14/94 (14%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLC-----ADIQNEPN-EETVRMLNEIRQ 70
KE KD VL+ GA +G+ + E V+RG V+ + I+ + E+T + L
Sbjct: 56 KEPKDVTVLVVGATGYIGKFVVRELVRRGYNVVAVAREKSGIRGKNGKEDTKKEL----P 111
Query: 71 GSAKAYHVDIGNEASVKELGKNVHRDFGKVDILI 104
G+ + D+ + S L K + + VD+++
Sbjct: 112 GAEVVFG-DVTDADS---LRKVLFSEGDPVDVVV 141
>gnl|CDD|216814 pfam01965, DJ-1_PfpI, DJ-1/PfpI family. The family includes the
protease PfpI. This domain is also found in
transcriptional regulators. This N-terminal region of
the full-length AdpA proteins is necessary for
dimerisation of the molecule.
Length = 142
Score = 26.9 bits (60), Expect = 4.9
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 16 RKEIKDKIVLITGAGSGLGRELALEFVKR 44
+ + D L+T AG G E ALE ++
Sbjct: 112 QPVVVDGNKLVTSAGPGSAEEFALELLEA 140
>gnl|CDD|135642 PRK05884, PRK05884, short chain dehydrogenase; Provisional.
Length = 223
Score = 27.1 bits (60), Expect = 5.0
Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
VL+TG + LGR +A F G +V + + E + L+ A D +
Sbjct: 3 VLVTGGDTDLGRTIAEGFRNDGHKVTLVGARRDDLEVAAKELD------VDAIVCDNTDP 56
Query: 84 ASVKEL 89
AS++E
Sbjct: 57 ASLEEA 62
>gnl|CDD|192933 pfam12076, Wax2_C, WAX2 C-terminal domain. This presumed domain
is functionally uncharacterized. This domain is found
in eukaryotes. This domain is about 170 amino acids in
length. This domain is found associated with pfam04116.
This domain has a conserved LEGW sequence motif. This
region has similarity to short chain dehydrogenases.
Length = 164
Score = 26.6 bits (59), Expect = 5.4
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 8/71 (11%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCAD------IQNEPNEETVRMLNEIRQGSAKAYH 77
VL+ G S + R +AL K+G +V+ ++ E E L +AK +
Sbjct: 1 VLLRGNTSKVARAIALALCKKGVKVVMLSKEEYEKLKPEAPPEVQDNLVLSTSYTAKVWL 60
Query: 78 VDIGNEASVKE 88
V G+ S +E
Sbjct: 61 V--GDGLSPEE 69
>gnl|CDD|240622 cd05198, formate_dh_like, Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxy acid
dehydrogenase family. Formate dehydrogenase, D-specific
2-hydroxy acid dehydrogenase, Phosphoglycerate
Dehydrogenase, Lactate dehydrogenase, Thermostable
Phosphite Dehydrogenase, and Hydroxy(phenyl)pyruvate
reductase, among others, share a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. 2-hydroxyacid
dehydrogenases are enzymes that catalyze the conversion
of a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
The NAD+ binding domain is inserted within the linear
sequence of the mostly N-terminal catalytic domain,
which has a similar domain structure to the internal NAD
binding domain. Structurally, these domains are
connected by extended alpha helices and create a cleft
in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. Formate dehydrogenase
(FDH) catalyzes the NAD+-dependent oxidation of formate
ion to carbon dioxide with the concomitant reduction of
NAD+ to NADH. FDHs of this family contain no metal ions
or prosthetic groups. Catalysis occurs though direct
transfer of hydride ion to NAD+ without the stages of
acid-base catalysis typically found in related
dehydrogenases. FDHs are found in all methylotrophic
microorganisms in energy production and in the stress
responses of plants. Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase,
among others. While many members of this family are
dimeric, alanine DH is hexameric and phosphoglycerate DH
is tetrameric.
Length = 302
Score = 27.2 bits (61), Expect = 5.6
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 17 KEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEE 60
E++ K V I G G +G+ +A G +VL D +P E
Sbjct: 136 YELEGKTVGIVGLGR-IGQRVAKRLQAFGMKVLYYDRTRKPEPE 178
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 309
Score = 27.1 bits (61), Expect = 5.6
Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 19/91 (20%)
Query: 20 KDKIVLITGAGSGLGRELALEFVK-RGSQVL-CADIQNEPNEETVRMLNEIRQGSAKAYH 77
+ VLI GA G+G A++ K RG++V+ A + N + +R L G+ +
Sbjct: 144 AGQTVLIHGAAGGVGS-FAVQLAKARGARVIATA---SAANADFLRSL-----GADE--V 192
Query: 78 VDIGNEASVKELGKNVHRDFGKVDILINNAG 108
+D + G VD +++ G
Sbjct: 193 IDYTKGDFERAAAP------GGVDAVLDTVG 217
>gnl|CDD|172477 PRK13974, PRK13974, thymidylate kinase; Provisional.
Length = 212
Score = 26.5 bits (59), Expect = 6.6
Identities = 16/69 (23%), Positives = 26/69 (37%), Gaps = 10/69 (14%)
Query: 5 EFIYSLISPPPRKE---IKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNE----- 56
+ + +I P I D+ T A G GR L LE +K + + +
Sbjct: 82 QHVSKIIRPALENGDWVISDRFSGSTLAYQGYGRGLDLELIKNLESIATQGLSPDLTFFL 141
Query: 57 --PNEETVR 63
EE++R
Sbjct: 142 EISVEESIR 150
>gnl|CDD|238378 cd00737, endolysin_autolysin, Endolysins and autolysins are found
in viruses and bacteria, respectively. The ds DNA phages
of eubacteria use endolysins or muralytic enzymes in
conjunction with hollin, a small membrane protein, to
degrade the peptidoglycan found in bacterial cell walls.
Similarly, bacteria produce autolysins to facilitate the
biosynthesis of its cell wall hetropolymer peptidoglycan
and cell division. Both endolysin and autolysin enzymes
cleave the glycosidic beta 1,4-bonds between the
N-acetylmuramic acid and the N-acetylglucosamine of the
peptidoglycan.
Length = 133
Score = 26.1 bits (58), Expect = 7.2
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 120 ITDEQIQRLFNINITGHFRMVRAFLPDMVKRNQGHIVAISS 160
IT+EQ L ++ R V + V Q A+ S
Sbjct: 43 ITEEQADALLAKDLAKAERAVNRAVK--VPLTQNQFDALVS 81
>gnl|CDD|218510 pfam05226, CHASE2, CHASE2 domain. CHASE2 is an extracellular
sensory domain, which is present in various classes of
transmembrane receptors that are parts of signal
transduction pathways in bacteria. Specifically, CHASE2
domains are found in histidine kinases, adenylate
cyclases, serine/threonine kinases and predicted
diguanylate cyclases/phosphodiesterases. Environmental
factors that are recognised by CHASE2 domains are not
known at this time.
Length = 305
Score = 26.9 bits (60), Expect = 7.4
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 15 PRKEIKDKIVLITGAGSGLG 34
P + ++ KIVLI +GLG
Sbjct: 233 PPELLRGKIVLIGATAAGLG 252
>gnl|CDD|173942 cd08183, Fe-ADH2, Iron-containing alcohol dehydrogenases-like.
Iron-containing alcohol dehydrogenases (Fe-ADH).
Alcohol dehydrogenase catalyzes the reduction of
acetaldehyde to alcohol with NADP as cofactor. Its
activity requires iron ions. The protein structure
represents a dehydroquinate synthase-like fold and is a
member of the iron-activated alcohol dehydrogenase-like
family. They are distinct from other alcohol
dehydrogenases which contains different protein domain.
Proteins of this family have not been characterized.
Their specific function is unknown. They are mainly
found in bacteria.
Length = 374
Score = 26.8 bits (60), Expect = 7.8
Identities = 19/75 (25%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 21 DKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVD- 79
+++L+TGA S L G +V + EP +V +++ A+ D
Sbjct: 23 RRVLLVTGASSLRAAWLIEALRAAGIEVTHVVVAGEP---SVELVDAAVA-EARNAGCDV 78
Query: 80 ---IGNEASVKELGK 91
IG SV + GK
Sbjct: 79 VIAIGG-GSVIDAGK 92
>gnl|CDD|99968 cd03794, GT1_wbuB_like, This family is most closely related to
the GT1 family of glycosyltransferases. wbuB in E. coli
is involved in the biosynthesis of the O26 O-antigen.
It has been proposed to function as an
N-acetyl-L-fucosamine (L-FucNAc) transferase.
Length = 394
Score = 26.8 bits (60), Expect = 8.2
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 7/34 (20%)
Query: 22 KIVLIT-------GAGSGLGRELALEFVKRGSQV 48
KI++++ G G+ ELA E VKRG +V
Sbjct: 1 KILILSQYFPPELGGGAFRTTELAEELVKRGHEV 34
>gnl|CDD|176208 cd08246, crotonyl_coA_red, crotonyl-CoA reductase. Crotonyl-CoA
reductase, a member of the medium chain
dehydrogenase/reductase family, catalyzes the
NADPH-dependent conversion of crotonyl-CoA to
butyryl-CoA, a step in (2S)-methylmalonyl-CoA
production for straight-chain fatty acid biosynthesis.
Like enoyl reductase, another enzyme in fatty acid
synthesis, crotonyl-CoA reductase is a member of the
zinc-dependent alcohol dehydrogenase-like medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 393
Score = 26.6 bits (59), Expect = 8.3
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 1/56 (1%)
Query: 10 LISPPPRKEIKDKIVLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRML 65
L P VLI GA GLG +A++ + A + +E E R L
Sbjct: 183 LFGWNPNTVKPGDNVLIWGASGGLG-SMAIQLARAAGANPVAVVSSEEKAEYCRAL 237
>gnl|CDD|187653 cd08950, KR_fFAS_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS), classical
(c)-like SDRs. KR domain of fungal-type fatty acid
synthase (FAS), type I. Fungal-type FAS is a
heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member, is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the Classical SDR and has partial
identity of the active site tetrad, but the upstream
Asn is replaced in KR by Met. As in other SDRs, there
is a glycine rich NAD-binding motif, but the pattern
found in KR does not match the classical SDRs, and is
not strictly conserved within this group. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 259
Score = 26.4 bits (59), Expect = 8.5
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 21 DKIVLITGAGSG-LGRELALEFVKRGSQVL 49
K+ L+TGAG G +G E+ + G+ V+
Sbjct: 7 GKVALVTGAGPGSIGAEVVAGLLAGGATVI 36
>gnl|CDD|233602 TIGR01856, hisJ_fam, histidinol phosphate phosphatase, HisJ family.
This model represents the histidinol phosphate
phosphatase HisJ of Bacillus subtilis, and related
proteins from a number of species within a larger family
of phosphatases in the PHP hydrolase family. HisJ
catalyzes the penultimate step of histidine biosynthesis
but shows no homology to the functionally equivalent
sequence in E. coli, a domain of the bifunctional HisB
protein. Note, however, that many species have two
members and that Clostridium perfringens, predicted not
to make histidine, has five members of this family; this
family is designated subfamily rather than equivalog to
indicate that members may not all act as HisJ.
Length = 253
Score = 26.6 bits (59), Expect = 8.7
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 125 IQRLFNINITGHFRMVRAFLP 145
IQ LF + GH +V+ F P
Sbjct: 151 IQALFKPLVIGHIDLVQKFGP 171
>gnl|CDD|187553 cd05242, SDR_a8, atypical (a) SDRs, subgroup 8. This subgroup
contains atypical SDRs of unknown function. Proteins in
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that resembles that of the extended SDRs,
(GXXGXXG or GGXGXXG), but lacks the characteristic
active site residues of the SDRs. A Cys often replaces
the usual Lys of the YXXXK active site motif, while the
upstream Ser is generally present and Arg replaces the
usual Asn. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 296
Score = 26.4 bits (59), Expect = 8.9
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVL 49
++ITG +GR L G +V+
Sbjct: 2 IVITGGTGFIGRALTRRLTAAGHEVV 27
>gnl|CDD|176122 cd08431, PBP2_HupR, The C-terminal substrate binding domain of
LysR-type transcriptional regulator, HupR, which
regulates expression of the heme uptake receptor HupA;
contains the type 2 periplasmic binding fold. HupR, a
member of the LysR family, activates hupA transcription
under low-iron conditions in the presence of hemin. The
expression of many iron-uptake genes, such as hupA, is
regulated at the transcriptional level by iron and an
iron-binding repressor protein called Fur (ferric uptake
regulation). Under iron-abundant conditions with heme,
the active Fur repressor protein represses transcription
of the iron-uptake gene hupA, and prevents
transcriptional activation via HupR. Under low-iron
conditions with heme, the Fur repressor is inactive and
transcription of the hupA is allowed. This
substrate-binding domain shows significant homology to
the type 2 periplasmic binding proteins (PBP2), which
are responsible for the uptake of a variety of
substrates such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis.
Length = 195
Score = 26.1 bits (58), Expect = 9.2
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 19 IKDKI-VLITGAGSG-LGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAY 76
++ KI + G G G L R LA + G V A P +E + ++G A A+
Sbjct: 131 MQAKIDAQVLGLGVGYLPRHLAKPELASGELVEKALEDPRPPQELFLAWRKDQRGKALAW 190
Query: 77 HVD 79
V
Sbjct: 191 FVQ 193
>gnl|CDD|187549 cd05238, Gne_like_SDR_e, Escherichia coli Gne (a
nucleoside-diphosphate-sugar 4-epimerase)-like,
extended (e) SDRs. Nucleoside-diphosphate-sugar
4-epimerase has the characteristic active site tetrad
and NAD-binding motif of the extended SDR, and is
related to more specifically defined epimerases such as
UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), which catalyzes the
NAD-dependent conversion of UDP-galactose to
UDP-glucose, the final step in Leloir galactose
synthesis. This subgroup includes Escherichia coli
055:H7 Gne, a UDP-GlcNAc 4-epimerase, essential for O55
antigen synthesis. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 26.6 bits (59), Expect = 9.3
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 24 VLITGAGSGLGRELALEFVKRGS--QVLCADIQNE--PNEET 61
VLITGA +G+ LA + +++ D+ + P+
Sbjct: 3 VLITGASGFVGQRLAERLLSDVPNERLILIDVVSPKAPSGAP 44
>gnl|CDD|224016 COG1091, RfbD, dTDP-4-dehydrorhamnose reductase [Cell envelope
biogenesis, outer membrane].
Length = 281
Score = 26.5 bits (59), Expect = 9.3
Identities = 28/120 (23%), Positives = 42/120 (35%), Gaps = 36/120 (30%)
Query: 24 VLITGAGSGLGRELALEFVKRGSQVLCADIQNEPNEETVRMLNEIRQGSAKAYHVDIGNE 83
+LITGA LG EL + +V+ D +DI +
Sbjct: 3 ILITGANGQLGTELR-RALPGEFEVIATDRAE----------------------LDITDP 39
Query: 84 ASVKELGKNVHRDFGKVDILINNAGILTQFKILQTDITDEQIQRL-FNINITGHFRMVRA 142
+V E+ + + D++IN A K E L F +N TG + RA
Sbjct: 40 DAVLEVIRET-----RPDVVINAAAYTAVDK-------AESEPELAFAVNATGAENLARA 87
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
0.319 0.134 0.379
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,453,008
Number of extensions: 881869
Number of successful extensions: 1976
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1473
Number of HSP's successfully gapped: 374
Length of query: 185
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 94
Effective length of database: 6,901,388
Effective search space: 648730472
Effective search space used: 648730472
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.4 bits)