RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16222
(146 letters)
>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 = 122 bits (307), Expect = 3e-35
Identities = 40/63 (63%), Positives = 54/63 (85%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
ILRD+SFA++S+ DW LV VHL G+F+V+RAAWP+M+KQ +GR++ T+S +GL GNFGQ
Sbjct: 98 ILRDRSFAKMSEEDWDLVMRVHLKGSFKVTRAAWPYMRKQKFGRIINTSSAAGLYGNFGQ 157
Query: 61 ANY 63
ANY
Sbjct: 158 ANY 160
Score = 94.7 bits (236), Expect = 9e-25
Identities = 31/48 (64%), Positives = 41/48 (85%)
Query: 85 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
LV VHL G+F+V+RAAWP+M+KQ +GR++ T+S +GL GNFGQANYS
Sbjct: 114 LVMRVHLKGSFKVTRAAWPYMRKQKFGRIINTSSAAGLYGNFGQANYS 161
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 83.7 bits (208), Expect = 1e-20
Identities = 34/63 (53%), Positives = 40/63 (63%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD R+S+ DW V DV+LTG F V RAA P M K YGR+V +S SG+ GN GQ
Sbjct: 92 ITRDALLPRMSEEDWDRVIDVNLTGTFNVVRAALPPMIKARYGRIVNISSVSGVTGNPGQ 151
Query: 61 ANY 63
NY
Sbjct: 152 TNY 154
Score = 68.3 bits (168), Expect = 8e-15
Identities = 28/47 (59%), Positives = 32/47 (68%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V DV+LTG F V RAA P M K YGR+V +S SG+ GN GQ NYS
Sbjct: 109 VIDVNLTGTFNVVRAALPPMIKARYGRIVNISSVSGVTGNPGQTNYS 155
>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 = 82.2 bits (204), Expect = 4e-20
Identities = 29/63 (46%), Positives = 40/63 (63%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD R+S+ DW V +V+LTG F V++A M K+ GR++ +S GL+GN GQ
Sbjct: 87 ITRDNLLMRMSEEDWDAVINVNLTGVFNVTQAVIRAMIKRRSGRIINISSVVGLIGNPGQ 146
Query: 61 ANY 63
ANY
Sbjct: 147 ANY 149
Score = 66.8 bits (164), Expect = 3e-14
Identities = 22/47 (46%), Positives = 32/47 (68%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V +V+LTG F V++A M K+ GR++ +S GL+GN GQANY+
Sbjct: 104 VINVNLTGVFNVTQAVIRAMIKRRSGRIINISSVVGLIGNPGQANYA 150
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 81.4 bits (202), Expect = 1e-19
Identities = 28/63 (44%), Positives = 38/63 (60%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD R+ + DW V D +LTG F +++A M KQ GR++ +S GL+GN GQ
Sbjct: 93 ITRDNLLMRMKEEDWDRVIDTNLTGVFNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQ 152
Query: 61 ANY 63
ANY
Sbjct: 153 ANY 155
Score = 62.9 bits (154), Expect = 9e-13
Identities = 22/49 (44%), Positives = 31/49 (63%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V D +LTG F +++A M KQ GR++ +S GL+GN GQANY+
Sbjct: 108 DRVIDTNLTGVFNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQANYA 156
>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 = 77.3 bits (191), Expect = 3e-18
Identities = 28/63 (44%), Positives = 38/63 (60%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD R+ + DW V D +LTG F +++A M KQ GR++ +S GL+GN GQ
Sbjct: 86 ITRDNLLMRMKEEDWDAVIDTNLTGVFNLTQAVLRIMIKQRSGRIINISSVVGLMGNAGQ 145
Query: 61 ANY 63
ANY
Sbjct: 146 ANY 148
Score = 63.8 bits (156), Expect = 4e-13
Identities = 22/47 (46%), Positives = 31/47 (65%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V D +LTG F +++A M KQ GR++ +S GL+GN GQANY+
Sbjct: 103 VIDTNLTGVFNLTQAVLRIMIKQRSGRIINISSVVGLMGNAGQANYA 149
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 77.2 bits (191), Expect = 4e-18
Identities = 29/63 (46%), Positives = 40/63 (63%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I DK A +SD +W V DV+L+G F + RA P M+KQ GR+V +S +GL G G+
Sbjct: 94 IFEDKPLADMSDDEWDEVIDVNLSGVFHLLRAVVPPMRKQRGGRIVNISSVAGLPGWPGR 153
Query: 61 ANY 63
+NY
Sbjct: 154 SNY 156
Score = 60.7 bits (148), Expect = 6e-12
Identities = 22/47 (46%), Positives = 32/47 (68%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V DV+L+G F + RA P M+KQ GR+V +S +GL G G++NY+
Sbjct: 111 VIDVNLSGVFHLLRAVVPPMRKQRGGRIVNISSVAGLPGWPGRSNYA 157
>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 = 73.9 bits (182), Expect = 6e-17
Identities = 35/86 (40%), Positives = 46/86 (53%), Gaps = 8/86 (9%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I R ++D DW V DV+LTG F ++RAA PHMKKQ GR+V +S +GL GQ
Sbjct: 84 IARPGPLEELTDEDWDRVLDVNLTGVFLLTRAALPHMKKQGGGRIVNISSVAGLRPLPGQ 143
Query: 61 ANY-------RFLSQQL-LEWCETNV 78
A Y L++ L LE +
Sbjct: 144 AAYAASKAALEGLTRSLALELAPYGI 169
Score = 60.8 bits (148), Expect = 4e-12
Identities = 26/49 (53%), Positives = 33/49 (67%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V DV+LTG F ++RAA PHMKKQ GR+V +S +GL GQA Y+
Sbjct: 99 DRVLDVNLTGVFLLTRAALPHMKKQGGGRIVNISSVAGLRPLPGQAAYA 147
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 66.9 bits (164), Expect = 3e-14
Identities = 25/64 (39%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL-LGNFG 59
I FA + D W+ V DV+LTG F +++AA P + + GR+V+T+S +G +G G
Sbjct: 93 IFPLTPFAEMDDEQWERVIDVNLTGTFLLTQAALPALIRAGGGRIVLTSSVAGPRVGYPG 152
Query: 60 QANY 63
A+Y
Sbjct: 153 LAHY 156
Score = 54.9 bits (133), Expect = 8e-10
Identities = 20/48 (41%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL-LGNFGQANYS 132
V DV+LTG F +++AA P + + GR+V+T+S +G +G G A+Y+
Sbjct: 110 VIDVNLTGTFLLTQAALPALIRAGGGRIVLTSSVAGPRVGYPGLAHYA 157
>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 = 64.8 bits (158), Expect = 2e-13
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD +F +++ W V D +L F V++ M+++ +GR++ +S +G G FGQ
Sbjct: 88 ITRDATFKKMTYEQWSAVIDTNLNSVFNVTQPVIDGMRERGWGRIINISSVNGQKGQFGQ 147
Query: 61 ANY 63
NY
Sbjct: 148 TNY 150
Score = 51.3 bits (123), Expect = 2e-08
Identities = 17/47 (36%), Positives = 28/47 (59%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V D +L F V++ M+++ +GR++ +S +G G FGQ NYS
Sbjct: 105 VIDTNLNSVFNVTQPVIDGMRERGWGRIINISSVNGQKGQFGQTNYS 151
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 62.9 bits (153), Expect = 8e-13
Identities = 25/63 (39%), Positives = 37/63 (58%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD F R+S +W V + +L F V++ + M +Q YGR++ +S +GL G FGQ
Sbjct: 90 ITRDSVFKRMSHQEWNDVINTNLNSVFNVTQPLFAAMCEQGYGRIINISSVNGLKGQFGQ 149
Query: 61 ANY 63
NY
Sbjct: 150 TNY 152
Score = 50.1 bits (120), Expect = 4e-08
Identities = 20/60 (33%), Positives = 34/60 (56%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
V + +L F V++ + M +Q YGR++ +S +GL G FGQ NYS G + +++
Sbjct: 107 VINTNLNSVFNVTQPLFAAMCEQGYGRIINISSVNGLKGQFGQTNYSAAKAGMIGFTKAL 166
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 61.5 bits (149), Expect = 3e-12
Identities = 28/63 (44%), Positives = 39/63 (61%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I +D F R+SD DW V +V+LT FR++R M ++ YGR++ S G+ GN GQ
Sbjct: 90 ITKDGLFVRMSDEDWDSVLEVNLTATFRLTRELTHPMMRRRYGRIINITSVVGVTGNPGQ 149
Query: 61 ANY 63
ANY
Sbjct: 150 ANY 152
Score = 44.1 bits (104), Expect = 4e-06
Identities = 22/60 (36%), Positives = 34/60 (56%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
V +V+LT FR++R M ++ YGR++ S G+ GN GQANY G + +S+
Sbjct: 107 VLEVNLTATFRLTRELTHPMMRRRYGRIINITSVVGVTGNPGQANYCASKAGMIGFSKSL 166
>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 = 61.2 bits (149), Expect = 4e-12
Identities = 23/50 (46%), Positives = 31/50 (62%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
DW + V LT AF RAA PHMKKQ +GR++ AS GL+ + ++ Y
Sbjct: 101 DWDRIIAVMLTSAFHTIRAALPHMKKQGWGRIINIASAHGLVASPFKSAY 150
Score = 55.8 bits (135), Expect = 3e-10
Identities = 21/47 (44%), Positives = 29/47 (61%)
Query: 85 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
+ V LT AF RAA PHMKKQ +GR++ AS GL+ + ++ Y
Sbjct: 104 RIIAVMLTSAFHTIRAALPHMKKQGWGRIINIASAHGLVASPFKSAY 150
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 60.7 bits (148), Expect = 6e-12
Identities = 21/50 (42%), Positives = 31/50 (62%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
W+ + + L GAF ++AA P MK Q GR++ AS GL+G+ G+A Y
Sbjct: 104 KWKKMIAIMLDGAFLTTKAALPIMKAQGGGRIINMASVHGLVGSAGKAAY 153
Score = 54.9 bits (133), Expect = 7e-10
Identities = 20/48 (41%), Positives = 30/48 (62%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
+ + + L GAF ++AA P MK Q GR++ AS GL+G+ G+A Y
Sbjct: 106 KKMIAIMLDGAFLTTKAALPIMKAQGGGRIINMASVHGLVGSAGKAAY 153
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 59.4 bits (144), Expect = 2e-11
Identities = 30/70 (42%), Positives = 39/70 (55%), Gaps = 7/70 (10%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAA---WPHMKKQN----YGRLVMTASNSG 53
I RD+ +SD +W V VHL G F ++R A W K YGR+V T+S +G
Sbjct: 99 ITRDRMLFNMSDEEWDAVIAVHLRGHFLLTRNAAAYWRAKAKAAGGPVYGRIVNTSSEAG 158
Query: 54 LLGNFGQANY 63
L+G GQANY
Sbjct: 159 LVGPVGQANY 168
Score = 45.5 bits (108), Expect = 2e-06
Identities = 26/63 (41%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 82 EQQLVQDVHLTGAFRVSRAA---WPHMKKQN----YGRLVMTASNSGLLGNFGQANYSFL 134
E V VHL G F ++R A W K YGR+V T+S +GL+G GQANY
Sbjct: 112 EWDAVIAVHLRGHFLLTRNAAAYWRAKAKAAGGPVYGRIVNTSSEAGLVGPVGQANYGAA 171
Query: 135 AGG 137
G
Sbjct: 172 KAG 174
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 58.1 bits (140), Expect = 5e-11
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 8/86 (9%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD++F +++ DW+ V DV+L+ F + A P++ + GR++ +S G G FGQ
Sbjct: 94 ITRDRTFKKLNREDWERVIDVNLSSVFNTTSAVLPYITEAEEGRIISISSIIGQAGGFGQ 153
Query: 61 ANYR--------FLSQQLLEWCETNV 78
NY F LE +TNV
Sbjct: 154 TNYSAAKAGMLGFTKSLALELAKTNV 179
Score = 43.5 bits (102), Expect = 1e-05
Identities = 21/60 (35%), Positives = 32/60 (53%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
V DV+L+ F + A P++ + GR++ +S G G FGQ NYS G L +S+
Sbjct: 111 VIDVNLSSVFNTTSAVLPYITEAEEGRIISISSIIGQAGGFGQTNYSAAKAGMLGFTKSL 170
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 57.8 bits (140), Expect = 8e-11
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMK------KQNYGRLVMTASNSGL 54
ILRD+ A +S+ +W V VHL G F R A + + + R++ T+S +GL
Sbjct: 102 ILRDRMIANMSEEEWDAVIAVHLKGHFATLRHAAAYWRAESKAGRAVDARIINTSSGAGL 161
Query: 55 LGNFGQANY 63
G+ GQ NY
Sbjct: 162 QGSVGQGNY 170
Score = 42.7 bits (101), Expect = 2e-05
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 6/53 (11%)
Query: 86 VQDVHLTGAFRVSRAAWPHMK------KQNYGRLVMTASNSGLLGNFGQANYS 132
V VHL G F R A + + + R++ T+S +GL G+ GQ NYS
Sbjct: 119 VIAVHLKGHFATLRHAAAYWRAESKAGRAVDARIINTSSGAGLQGSVGQGNYS 171
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 56.3 bits (136), Expect = 2e-10
Identities = 29/64 (45%), Positives = 40/64 (62%), Gaps = 1/64 (1%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHM-KKQNYGRLVMTASNSGLLGNFG 59
I D +FA +S +W V DV+L G F V++AA P M + + GR+V AS +G+ GN G
Sbjct: 97 IATDAAFAELSIEEWDDVIDVNLDGFFNVTQAALPPMIRARRGGRIVNIASVAGVRGNRG 156
Query: 60 QANY 63
Q NY
Sbjct: 157 QVNY 160
Score = 43.9 bits (104), Expect = 6e-06
Identities = 24/60 (40%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 86 VQDVHLTGAFRVSRAAWPHM-KKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERS 144
V DV+L G F V++AA P M + + GR+V AS +G+ GN GQ NY+ G + + ++
Sbjct: 114 VIDVNLDGFFNVTQAALPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASKAGLIGLTKT 173
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 50.6 bits (122), Expect = 2e-08
Identities = 19/52 (36%), Positives = 30/52 (57%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
++D +W V DV+LTG ++R A P+M K+ G +V +S GL+G
Sbjct: 97 GLVTDMTDEEWDRVIDVNLTGVMLLTRYALPYMIKRKSGVIVNISSIWGLIG 148
Score = 41.8 bits (99), Expect = 3e-05
Identities = 19/50 (38%), Positives = 28/50 (56%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGG 137
DV+LTG ++R A P+M K+ G +V +S GL+G + YS G
Sbjct: 112 DVNLTGVMLLTRYALPYMIKRKSGVIVNISSIWGLIGASCEVLYSASKGA 161
>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 = 51.0 bits (122), Expect = 2e-08
Identities = 28/61 (45%), Positives = 37/61 (60%), Gaps = 3/61 (4%)
Query: 3 RDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQAN 62
D +++ DW V DV+L GAF ++RAA P MKKQ R+V +S +GL G GQA
Sbjct: 99 PDAPLEELTEEDWDRVIDVNLLGAFLLTRAALPLMKKQ---RIVNISSVAGLGGPPGQAA 155
Query: 63 Y 63
Y
Sbjct: 156 Y 156
Score = 42.5 bits (100), Expect = 2e-05
Identities = 24/45 (53%), Positives = 31/45 (68%), Gaps = 3/45 (6%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
DV+L GAF ++RAA P MKKQ R+V +S +GL G GQA Y+
Sbjct: 116 DVNLLGAFLLTRAALPLMKKQ---RIVNISSVAGLGGPPGQAAYA 157
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 49.5 bits (119), Expect = 3e-08
Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
+L D ++ ++ V +TGA+ + + + G V+ +S +G+LG+ GQ
Sbjct: 90 VLDDGPLEELTPERFERVLAPKVTGAWNLHEL----TRDLDLGAFVLFSSVAGVLGSPGQ 145
Query: 61 ANY 63
ANY
Sbjct: 146 ANY 148
Score = 38.7 bits (91), Expect = 2e-04
Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V +TGA+ + + + G V+ +S +G+LG+ GQANY+
Sbjct: 107 VLAPKVTGAWNLHEL----TRDLDLGAFVLFSSVAGVLGSPGQANYA 149
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 50.4 bits (120), Expect = 3e-08
Identities = 23/63 (36%), Positives = 36/63 (57%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RD F +++ DW V D +LT F V++ M ++ +GR++ +S +G G FGQ
Sbjct: 91 ITRDVVFRKMTREDWTAVIDTNLTSLFNVTKQVIDGMVERGWGRIINISSVNGQKGQFGQ 150
Query: 61 ANY 63
NY
Sbjct: 151 TNY 153
Score = 38.5 bits (89), Expect = 5e-04
Identities = 19/54 (35%), Positives = 29/54 (53%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGG 137
V D +LT F V++ M ++ +GR++ +S +G G FGQ NYS G
Sbjct: 106 TAVIDTNLTSLFNVTKQVIDGMVERGWGRIINISSVNGQKGQFGQTNYSTAKAG 159
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 50.2 bits (121), Expect = 5e-08
Identities = 23/63 (36%), Positives = 33/63 (52%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I RDK+ A + + W V V+L R++ A + GR+V +S SG+ GN GQ
Sbjct: 294 ITRDKTLANMDEARWDSVLAVNLLAPLRITEALLAAGALGDGGRIVGVSSISGIAGNRGQ 353
Query: 61 ANY 63
NY
Sbjct: 354 TNY 356
Score = 33.7 bits (78), Expect = 0.024
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 111 GRLVMTASNSGLLGNFGQANY 131
GR+V +S SG+ GN GQ NY
Sbjct: 336 GRIVGVSSISGIAGNRGQTNY 356
>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 = 48.5 bits (116), Expect = 2e-07
Identities = 23/60 (38%), Positives = 30/60 (50%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I K + W V DV+L G F ++AA KKQ G L++TAS SG + N Q
Sbjct: 96 ITVHKPALDYTYEQWNKVIDVNLNGVFNCAQAAAKIFKKQGKGSLIITASMSGTIVNRPQ 155
Score = 44.6 bits (106), Expect = 3e-06
Identities = 20/43 (46%), Positives = 26/43 (60%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 128
V DV+L G F ++AA KKQ G L++TAS SG + N Q
Sbjct: 113 VIDVNLNGVFNCAQAAAKIFKKQGKGSLIITASMSGTIVNRPQ 155
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 47.4 bits (113), Expect = 4e-07
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMT-ASNSGLLGNFGQANY 63
I+ W+ V+L G F +RAA P +K +G +++ +S +G LG G+ Y
Sbjct: 106 ITPEQWEQTLAVNLNGQFYFARAAVPLLKASGHGGVIIALSSVAGRLGYPGRTPY 160
Score = 39.3 bits (92), Expect = 2e-04
Identities = 18/56 (32%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 79 LNVEQ-QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMT-ASNSGLLGNFGQANYS 132
+ EQ + V+L G F +RAA P +K +G +++ +S +G LG G+ Y+
Sbjct: 106 ITPEQWEQTLAVNLNGQFYFARAAVPLLKASGHGGVIIALSSVAGRLGYPGRTPYA 161
>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 = 47.1 bits (112), Expect = 5e-07
Identities = 18/49 (36%), Positives = 30/49 (61%)
Query: 15 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
W + ++L+ F +R A PHMKKQ +GR++ AS GL+ + ++ Y
Sbjct: 105 WDAIIALNLSAVFHTTRLALPHMKKQGWGRIINIASVHGLVASANKSAY 153
Score = 45.5 bits (108), Expect = 2e-06
Identities = 17/43 (39%), Positives = 28/43 (65%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
++L+ F +R A PHMKKQ +GR++ AS GL+ + ++ Y
Sbjct: 111 LNLSAVFHTTRLALPHMKKQGWGRIINIASVHGLVASANKSAY 153
>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 = 46.4 bits (110), Expect = 7e-07
Identities = 24/64 (37%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSR-AAWPHMKKQNYGRLVMTASNSGLLGNFG 59
I RD +F +S+ DW +V +L G + V P ++ + GR++ AS SG++GN G
Sbjct: 86 ITRDAAFPALSEEDWDIVIHTNLDGFYNVIHPCTMPMIRARQGGRIITLASVSGVMGNRG 145
Query: 60 QANY 63
Q NY
Sbjct: 146 QVNY 149
Score = 34.1 bits (78), Expect = 0.013
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 6/46 (13%)
Query: 103 PHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGG------ALKIE 142
P ++ + GR++ AS SG++GN GQ NYS G AL +E
Sbjct: 121 PMIRARQGGRIITLASVSGVMGNRGQVNYSAAKAGLIGATKALAVE 166
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 46.4 bits (111), Expect = 8e-07
Identities = 20/52 (38%), Positives = 28/52 (53%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNS 52
ILR + +SD DWQ V+ GAF + RA P ++Q G +V SN+
Sbjct: 86 ILRMGATDSLSDEDWQQTFAVNAGGAFNLFRAVMPQFRRQRSGAIVTVGSNA 137
Score = 35.6 bits (83), Expect = 0.005
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNS 120
V+ GAF + RA P ++Q G +V SN+
Sbjct: 105 AVNAGGAFNLFRAVMPQFRRQRSGAIVTVGSNA 137
>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 = 46.5 bits (111), Expect = 8e-07
Identities = 21/52 (40%), Positives = 29/52 (55%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNS 52
ILR + +SD DWQ V+ G F VS+A P MK++ G +V SN+
Sbjct: 85 ILRLGAIDSLSDEDWQATFAVNTFGVFNVSQAVSPRMKRRRSGAIVTVGSNA 136
Score = 34.2 bits (79), Expect = 0.014
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNS 120
V+ G F VS+A P MK++ G +V SN+
Sbjct: 104 AVNTFGVFNVSQAVSPRMKRRRSGAIVTVGSNA 136
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 46.4 bits (111), Expect = 1e-06
Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 11 SDTDWQLVQDVHLTGAFRVSRAAWPHMKKQN-YGRLVMTAS 50
SD DW+ DV+ TG F V+R A MK Q G +V AS
Sbjct: 518 SDEDWRRSFDVNATGHFLVAREAVRIMKAQGLGGSIVFIAS 558
Score = 38.3 bits (90), Expect = 7e-04
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQN-YGRLVMTAS 118
+ DV+ TG F V+R A MK Q G +V AS
Sbjct: 523 RRSFDVNATGHFLVAREAVRIMKAQGLGGSIVFIAS 558
>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 = 45.7 bits (109), Expect = 1e-06
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
DV+ G+ V+ A P MK+Q G +V +S + L+G +G + Y
Sbjct: 111 DVNYFGSLNVAHAVLPLMKEQRPGHIVFVSSQAALVGIYGYSAYC 155
Score = 44.9 bits (107), Expect = 2e-06
Identities = 17/57 (29%), Positives = 32/57 (56%)
Query: 7 FARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
F ++ +++ DV+ G+ V+ A P MK+Q G +V +S + L+G +G + Y
Sbjct: 98 FEDLTAEEFERGMDVNYFGSLNVAHAVLPLMKEQRPGHIVFVSSQAALVGIYGYSAY 154
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 45.8 bits (109), Expect = 1e-06
Identities = 23/61 (37%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 4 DKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQAN 62
++D +W V DV LTG FR +RAA +M+ + + G +V AS G GQA+
Sbjct: 110 QTPVVDMTDDEWSRVLDVTLTGTFRATRAALRYMRARGHGGVIVNNASVLGWRAQHGQAH 169
Query: 63 Y 63
Y
Sbjct: 170 Y 170
Score = 40.4 bits (95), Expect = 9e-05
Identities = 21/47 (44%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANY 131
V DV LTG FR +RAA +M+ + + G +V AS G GQA+Y
Sbjct: 124 VLDVTLTGTFRATRAALRYMRARGHGGVIVNNASVLGWRAQHGQAHY 170
>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 = 45.3 bits (108), Expect = 2e-06
Identities = 17/52 (32%), Positives = 27/52 (51%)
Query: 3 RDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 54
FA ++D DW D+ L R+ RA P MK++ +GR+V +S +
Sbjct: 90 PPGPFAELTDEDWLEAFDLKLLSVIRIVRAVLPGMKERGWGRIVNISSLTVK 141
Score = 36.1 bits (84), Expect = 0.003
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 122
D+ L R+ RA P MK++ +GR+V +S +
Sbjct: 107 DLKLLSVIRIVRAVLPGMKERGWGRIVNISSLTVK 141
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 45.0 bits (107), Expect = 2e-06
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 1 ILRD-KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFG 59
IL D K S +WQ + D +LT F ++RA P M ++ G ++ S + + G
Sbjct: 77 ILDDYKPLLDTSLEEWQHIFDTNLTSTFLLTRAYLPQMLERKSGIIINMCSIASFVAGGG 136
Query: 60 QANY 63
A Y
Sbjct: 137 GAAY 140
Score = 34.9 bits (81), Expect = 0.007
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
Q + D +LT F ++RA P M ++ G ++ S + + G A Y
Sbjct: 93 QHIFDTNLTSTFLLTRAYLPQMLERKSGIIINMCSIASFVAGGGGAAY 140
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 44.9 bits (106), Expect = 2e-06
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKK-QNYGRLVMTASNSGLLGNFGQANY 63
DW+ +Q +H+ GAF ++AA HM K G ++ S + ++ Y
Sbjct: 107 DWKKMQAIHVDGAFLTTKAALKHMYKDDRGGVVIYMGSVHSHEASPLKSAY 157
Score = 39.9 bits (93), Expect = 2e-04
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKK-QNYGRLVMTASNSGLLGNFGQANY 131
+Q +H+ GAF ++AA HM K G ++ S + ++ Y
Sbjct: 111 MQAIHVDGAFLTTKAALKHMYKDDRGGVVIYMGSVHSHEASPLKSAY 157
>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 = 45.1 bits (107), Expect = 2e-06
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGL 54
I A S DW D++LTG F VSR A+ MK Q G +V AS + +
Sbjct: 87 IATSSPIAETSLEDWNRSMDINLTGHFLVSREAFRIMKSQGIGGNIVFNASKNAV 141
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 45.0 bits (107), Expect = 3e-06
Identities = 16/54 (29%), Positives = 32/54 (59%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+++ + + +++ G F +S+A M KQ+ G +V +S +GL G+ GQ+ Y
Sbjct: 105 LNEAAFDKMFNINQKGVFLMSQAVARQMVKQHDGVIVNMSSEAGLEGSEGQSCY 158
Score = 42.3 bits (100), Expect = 2e-05
Identities = 16/45 (35%), Positives = 28/45 (62%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
+++ G F +S+A M KQ+ G +V +S +GL G+ GQ+ Y+
Sbjct: 115 NINQKGVFLMSQAVARQMVKQHDGVIVNMSSEAGLEGSEGQSCYA 159
>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 = 44.4 bits (105), Expect = 3e-06
Identities = 17/63 (26%), Positives = 29/63 (46%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
IL D ++ + + ++ G R+ AA MK + GR ++ +S +GL G G
Sbjct: 41 ILDDGRLIDLTGSRIERAIRANVVGTRRLLEAARELMKAKRLGRFILISSVAGLFGAPGL 100
Query: 61 ANY 63
Y
Sbjct: 101 GGY 103
Score = 40.6 bits (95), Expect = 6e-05
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 85 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
++ G R+ AA MK + GR ++ +S +GL G G Y+
Sbjct: 57 RAIRANVVGTRRLLEAARELMKAKRLGRFILISSVAGLFGAPGLGGYA 104
>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 = 44.8 bits (106), Expect = 3e-06
Identities = 19/52 (36%), Positives = 30/52 (57%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNS 52
+LR + +S DW+ V++TG F + +A PHMK + G +V ASN+
Sbjct: 78 VLRPGATDPLSTEDWEQTFAVNVTGVFNLLQAVAPHMKDRRTGAIVTVASNA 129
Score = 33.2 bits (76), Expect = 0.030
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNS 120
V++TG F + +A PHMK + G +V ASN+
Sbjct: 97 AVNVTGVFNLLQAVAPHMKDRRTGAIVTVASNA 129
>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 = 44.7 bits (106), Expect = 3e-06
Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 7/77 (9%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I R + SD + + +++ ++RA P +++ GR+V S SG G
Sbjct: 83 IGRPTTLREGSDAELEAHFSINVIAPAELTRALLPALREAGSGRVVFLNSLSGKRVLAGN 142
Query: 61 ANY-------RFLSQQL 70
A Y R L+ L
Sbjct: 143 AGYSASKFALRALAHAL 159
Score = 37.0 bits (86), Expect = 0.001
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
+++ ++RA P +++ GR+V S SG G A YS
Sbjct: 102 SINVIAPAELTRALLPALREAGSGRVVFLNSLSGKRVLAGNAGYS 146
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 44.3 bits (105), Expect = 4e-06
Identities = 14/58 (24%), Positives = 28/58 (48%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
F + +W+ + V+L G + +RA P M ++ G ++ +S +G G + Y
Sbjct: 99 KFLELDPAEWEKIIQVNLMGVYYATRAVLPSMIERQSGDIINISSTAGQKGAAVTSAY 156
Score = 42.8 bits (101), Expect = 2e-05
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 11/80 (13%)
Query: 54 LLGNFGQANY-RFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGR 112
L+ N G + + +FL EW ++++Q V+L G + +RA P M ++ G
Sbjct: 88 LINNAGISKFGKFLELDPAEW---------EKIIQ-VNLMGVYYATRAVLPSMIERQSGD 137
Query: 113 LVMTASNSGLLGNFGQANYS 132
++ +S +G G + YS
Sbjct: 138 IINISSTAGQKGAAVTSAYS 157
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 44.0 bits (104), Expect = 5e-06
Identities = 21/50 (42%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 10 ISDTD---WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
I +T WQ VQDV+LT + +AA PHM +Q G ++ TAS ++G
Sbjct: 97 ILNTGLDAWQRVQDVNLTSVYLCCKAALPHMVRQGKGSIINTASFVAVMG 146
Score = 43.2 bits (102), Expect = 1e-05
Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGN-FGQANYSFLAGGALKIE 142
Q VQDV+LT + +AA PHM +Q G ++ TAS ++G+ Q +Y+ GG L +
Sbjct: 106 QRVQDVNLTSVYLCCKAALPHMVRQGKGSIINTASFVAVMGSATSQISYTASKGGVLAMS 165
Query: 143 R 143
R
Sbjct: 166 R 166
>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 = 43.5 bits (103), Expect = 8e-06
Identities = 17/51 (33%), Positives = 24/51 (47%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
F W V +V+L GAF S+A KKQ G ++ AS G++
Sbjct: 98 RFEEFPYEQWNEVLNVNLGGAFLCSQAFIKLFKKQGKGSIINIASIYGVIA 148
Score = 36.2 bits (84), Expect = 0.003
Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 124
V +V+L GAF S+A KKQ G ++ AS G++
Sbjct: 108 NEVLNVNLGGAFLCSQAFIKLFKKQGKGSIINIASIYGVIA 148
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 43.6 bits (103), Expect = 8e-06
Identities = 20/54 (37%), Positives = 29/54 (53%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+ DW V V++ G F ++ A P M++Q G +V TAS L G G+A Y
Sbjct: 100 TDEADWDAVMRVNVGGVFLWAKYAIPIMQRQGGGSIVNTASQLALAGGRGRAAY 153
Score = 40.1 bits (94), Expect = 1e-04
Identities = 20/60 (33%), Positives = 31/60 (51%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
V V++ G F ++ A P M++Q G +V TAS L G G+A Y G + R++
Sbjct: 108 VMRVNVGGVFLWAKYAIPIMQRQGGGSIVNTASQLALAGGRGRAAYVASKGAIASLTRAM 167
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 43.4 bits (103), Expect = 9e-06
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 54
DW + D ++ G +RA P M ++ G ++ S +G
Sbjct: 104 DWDRMIDTNVKGLLNGTRAVLPGMVERKSGHIINLGSIAGR 144
Score = 38.8 bits (91), Expect = 3e-04
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 122
D ++ G +RA P M ++ G ++ S +G
Sbjct: 110 DTNVKGLLNGTRAVLPGMVERKSGHIINLGSIAGR 144
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 43.0 bits (102), Expect = 1e-05
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 9/72 (12%)
Query: 1 ILRD---------KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASN 51
ILRD K +++S +Q V DV+LTG F R A M + +++ S+
Sbjct: 92 ILRDGLLVKAKDGKVTSKMSLEQFQSVIDVNLTGVFLCGREAAAKMIESGSKGVIINISS 151
Query: 52 SGLLGNFGQANY 63
GN GQ NY
Sbjct: 152 IARAGNMGQTNY 163
Score = 38.8 bits (91), Expect = 3e-04
Identities = 19/49 (38%), Positives = 25/49 (51%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
Q V DV+LTG F R A M + +++ S+ GN GQ NYS
Sbjct: 116 QSVIDVNLTGVFLCGREAAAKMIESGSKGVIINISSIARAGNMGQTNYS 164
>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 = 42.9 bits (101), Expect = 1e-05
Identities = 21/55 (38%), Positives = 35/55 (63%), Gaps = 1/55 (1%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHM-KKQNYGRLVMTASNSGLLGNFGQANY 63
+S+ W V D++LTG +R +A PHM ++ N G +++T+S +GL G A+Y
Sbjct: 112 LSEEQWDTVLDINLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALPGLAHY 166
Score = 40.2 bits (94), Expect = 1e-04
Identities = 28/93 (30%), Positives = 49/93 (52%), Gaps = 18/93 (19%)
Query: 42 YGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQ-QLVQDVHLTGAFRVSRA 100
+GRL + +N+G+L + + L+ EQ V D++LTG +R +A
Sbjct: 91 FGRLDVVVANAGVLS----------------YGRSWELSEEQWDTVLDINLTGVWRTCKA 134
Query: 101 AWPHM-KKQNYGRLVMTASNSGLLGNFGQANYS 132
PHM ++ N G +++T+S +GL G A+Y+
Sbjct: 135 VVPHMIERGNGGSIIITSSVAGLKALPGLAHYA 167
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 42.3 bits (100), Expect = 2e-05
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
+S+ DW D++L G+F +++A HM G++V AS +G++
Sbjct: 108 VSEEDWDKTIDINLKGSFLMAQAVGRHMIAAGGGKIVNLASQAGVVA 154
Score = 36.6 bits (85), Expect = 0.002
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 87 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 124
D++L G+F +++A HM G++V AS +G++
Sbjct: 117 IDINLKGSFLMAQAVGRHMIAAGGGKIVNLASQAGVVA 154
>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 = 42.0 bits (99), Expect = 2e-05
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
I R + +W+ V DV+L G F VS+A HM KQ +G+++ S LG
Sbjct: 93 IRRHP-AEEFPEAEWRDVIDVNLNGVFFVSQAVARHMIKQGHGKIINICSLLSELGGPPV 151
Query: 61 ANY 63
Y
Sbjct: 152 PAY 154
Score = 37.7 bits (88), Expect = 8e-04
Identities = 20/60 (33%), Positives = 31/60 (51%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
V DV+L G F VS+A HM KQ +G+++ S LG Y+ GG + +++
Sbjct: 109 VIDVNLNGVFFVSQAVARHMIKQGHGKIINICSLLSELGGPPVPAYAASKGGVAGLTKAL 168
>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 = 42.2 bits (99), Expect = 3e-05
Identities = 18/57 (31%), Positives = 34/57 (59%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
++LTGA + A P M ++ GR+V AS++ +G+ G+A Y+ GG + +++
Sbjct: 110 INLTGALHMHHAVLPGMVERGAGRIVNIASDAARVGSSGEAVYAACKGGLVAFSKTM 166
Score = 41.4 bits (97), Expect = 4e-05
Identities = 20/72 (27%), Positives = 37/72 (51%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYR 64
F + W+ + ++LTGA + A P M ++ GR+V AS++ +G+ G+A Y
Sbjct: 94 GPFTKTEPPLWERLIAINLTGALHMHHAVLPGMVERGAGRIVNIASDAARVGSSGEAVYA 153
Query: 65 FLSQQLLEWCET 76
L+ + +T
Sbjct: 154 ACKGGLVAFSKT 165
>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 = 41.8 bits (99), Expect = 3e-05
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
S + + + +V++ G RV+RA P M+KQ GR+V +S +GL+ Y
Sbjct: 93 TSIEEVRELFEVNVFGPLRVTRAFLPLMRKQGSGRIVNVSSVAGLVPTPFLGPY 146
Score = 41.1 bits (97), Expect = 6e-05
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 81 VEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V + +V++ G RV+RA P M+KQ GR+V +S +GL+ Y
Sbjct: 98 VRELF--EVNVFGPLRVTRAFLPLMRKQGSGRIVNVSSVAGLVPTPFLGPYC 147
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 41.7 bits (98), Expect = 3e-05
Identities = 20/64 (31%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG-LLGNFG 59
+ R SF +SD D D+++ G + V++A P M + GR+VM +S +G ++ + G
Sbjct: 92 VCRLGSFLDMSDEDRDFHIDINIKGVWNVTKAVLPEMIARKDGRIVMMSSVTGDMVADPG 151
Query: 60 QANY 63
+ Y
Sbjct: 152 ETAY 155
Score = 37.9 bits (88), Expect = 9e-04
Identities = 14/46 (30%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG-LLGNFGQANYS 132
D+++ G + V++A P M + GR+VM +S +G ++ + G+ Y+
Sbjct: 111 DINIKGVWNVTKAVLPEMIARKDGRIVMMSSVTGDMVADPGETAYA 156
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 41.9 bits (99), Expect = 3e-05
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 15 WQLVQDVHLTGAFRVSRAAWPH-MKKQNYGRLVMTASNSGLLGN 57
W V ++++ G F +S+A M + YGR++ AS +GL GN
Sbjct: 113 WDKVMNLNVRGLFLLSQAVAKRSMIPRGYGRIINVASVAGLGGN 156
Score = 38.0 bits (89), Expect = 8e-04
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 86 VQDVHLTGAFRVSRAAWPH-MKKQNYGRLVMTASNSGLLGN 125
V ++++ G F +S+A M + YGR++ AS +GL GN
Sbjct: 116 VMNLNVRGLFLLSQAVAKRSMIPRGYGRIINVASVAGLGGN 156
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 42.1 bits (99), Expect = 3e-05
Identities = 28/107 (26%), Positives = 49/107 (45%), Gaps = 14/107 (13%)
Query: 40 QNYGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSR 99
+ +GR+ + +N+G+ A LE E +Q ++LTGA+ V+R
Sbjct: 75 REFGRIDVLVNNAGVTDPTMTA----TLDTTLE---------EFARLQAINLTGAYLVAR 121
Query: 100 AAWPHMKKQNYGR-LVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
A M +Q +G +V AS +GL+ + YS + + RS+
Sbjct: 122 EALRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASKAAVISLTRSL 168
Score = 35.2 bits (81), Expect = 0.007
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGR-LVMTASNSGLLGNFGQANY 63
++ +Q ++LTGA+ V+R A M +Q +G +V AS +GL+ + Y
Sbjct: 104 EFARLQAINLTGAYLVAREALRLMIEQGHGAAIVNVASGAGLVALPKRTAY 154
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 41.6 bits (98), Expect = 4e-05
Identities = 38/116 (32%), Positives = 54/116 (46%), Gaps = 23/116 (19%)
Query: 8 ARISDTDWQLVQDVHLTGAFR--VSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYRF 65
AR D W L DV + A R V RA GR+ + SN+G G FG A
Sbjct: 44 ARYGDRLWVLQLDVTDSAAVRAVVDRAF------AALGRIDVVVSNAGY-GLFGAAE--- 93
Query: 66 LSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 121
E + + +Q+ D +L G+ +V RAA PH+++Q GR+V +S G
Sbjct: 94 ---------ELSDAQIRRQI--DTNLIGSIQVIRAALPHLRRQGGGRIVQVSSEGG 138
>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 = 41.2 bits (97), Expect = 5e-05
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 15 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+ L+Q V+L G + +S+AA PHM K G ++ + L G Y
Sbjct: 116 FDLMQRVNLRGTYLLSQAALPHMVKAGQGHILNISPPLSLRPARGDVAY 164
Score = 37.8 bits (88), Expect = 7e-04
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
L+Q V+L G + +S+AA PHM K G ++ + L G Y
Sbjct: 117 DLMQRVNLRGTYLLSQAALPHMVKAGQGHILNISPPLSLRPARGDVAY 164
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 41.1 bits (97), Expect = 5e-05
Identities = 20/56 (35%), Positives = 30/56 (53%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
I KS + W V +V++ G F + RAA PH++ GR+V AS++ L G
Sbjct: 94 ITNSKSATELDIDTWDAVMNVNVRGTFLMLRAALPHLRDSGRGRIVNLASDTALWG 149
Score = 32.3 bits (74), Expect = 0.068
Identities = 16/39 (41%), Positives = 25/39 (64%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 124
V +V++ G F + RAA PH++ GR+V AS++ L G
Sbjct: 111 VMNVNVRGTFLMLRAALPHLRDSGRGRIVNLASDTALWG 149
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 40.8 bits (96), Expect = 7e-05
Identities = 18/58 (31%), Positives = 29/58 (50%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
F +S DW ++L G + +A P K+Q GR+V AS +GL+ ++Y
Sbjct: 92 FFEELSLEDWDWQIAINLMGVVKGCKAFLPLFKRQKSGRIVNIASMAGLMQGPAMSSY 149
Score = 31.9 bits (73), Expect = 0.075
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
++L G + +A P K+Q GR+V AS +GL+ ++Y
Sbjct: 102 DWQIAINLMGVVKGCKAFLPLFKRQKSGRIVNIASMAGLMQGPAMSSY 149
>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 = 40.4 bits (95), Expect = 8e-05
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 3 RDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQN 41
D S ++ DW V DV+LTG F +R A +K
Sbjct: 93 GDASSHEMTLEDWNKVIDVNLTGQFLCAREAIKRFRKSK 131
Score = 31.2 bits (71), Expect = 0.14
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQN-YGRLVMTASNSGLLGNFGQANYSFLAGG 137
V DV+LTG F +R A +K G+++ +S + G NY+ GG
Sbjct: 106 NKVIDVNLTGQFLCAREAIKRFRKSKIKGKIINMSSVHEKIPWPGHVNYAASKGG 160
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 40.2 bits (94), Expect = 1e-04
Identities = 13/58 (22%), Positives = 22/58 (37%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+ A W + V++ S+AA P + GR+V + + L G Y
Sbjct: 97 TIADGDADTWDRMYGVNVKTTLNASKAALPALTASGGGRIVNIGAGAALKAGPGMGAY 154
Score = 35.5 bits (82), Expect = 0.004
Identities = 11/47 (23%), Positives = 20/47 (42%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
+ V++ S+AA P + GR+V + + L G Y+
Sbjct: 109 MYGVNVKTTLNASKAALPALTASGGGRIVNIGAGAALKAGPGMGAYA 155
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 40.3 bits (95), Expect = 1e-04
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 8/81 (9%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
ILR F I V D+++ G + AA P++K R++ T+S S + G G
Sbjct: 87 ILRGGPFEDIPLEAHDRVIDINVKGVLNGAHAALPYLKATPGARVINTSSASAIYGQPGL 146
Query: 61 ANY-------RFLSQQL-LEW 73
A Y R L++ L LEW
Sbjct: 147 AVYSATKFAVRGLTEALDLEW 167
Score = 34.5 bits (80), Expect = 0.011
Identities = 32/116 (27%), Positives = 47/116 (40%), Gaps = 24/116 (20%)
Query: 24 TGAFRVS-RAAWPHMKKQ----NYGRLVMTASNSGLL--GNFGQANYRFLSQQLLEWCET 76
TGA V+ RAAW GRL + +N+G+L G F
Sbjct: 52 TGALDVTDRAAWDAALADFAAATGGRLDVLFNNAGILRGGPFEDIPLE------------ 99
Query: 77 NVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V D+++ G + AA P++K R++ T+S S + G G A YS
Sbjct: 100 -----AHDRVIDINVKGVLNGAHAALPYLKATPGARVINTSSASAIYGQPGLAVYS 150
>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 = 39.7 bits (93), Expect = 2e-04
Identities = 21/81 (25%), Positives = 37/81 (45%), Gaps = 8/81 (9%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
+ R F + + D+++ G + AA P++K R++ TAS+S + G
Sbjct: 86 VGRGGPFEDVPLAAHDRMVDINVKGVLNGAYAALPYLKATPGARVINTASSSAIYGQPDL 145
Query: 61 ANY-------RFLSQQL-LEW 73
A Y R L++ L +EW
Sbjct: 146 AVYSATKFAVRGLTEALDVEW 166
Score = 34.3 bits (79), Expect = 0.011
Identities = 15/51 (29%), Positives = 26/51 (50%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
+ D+++ G + AA P++K R++ TAS+S + G A YS
Sbjct: 99 AHDRMVDINVKGVLNGAYAALPYLKATPGARVINTASSSAIYGQPDLAVYS 149
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 38.7 bits (90), Expect = 6e-04
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 11 SDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANY 63
+ +WQL D+ TG F V+R A+ M++Q G +V AS + + + Y
Sbjct: 513 TLQEWQLNLDILATGYFLVAREAFRQMREQGLGGNIVFIASKNAVYAGKNASAY 566
Score = 32.5 bits (74), Expect = 0.055
Identities = 25/92 (27%), Positives = 40/92 (43%), Gaps = 16/92 (17%)
Query: 42 YGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAA 101
YG + + +N+G+ + F L EW QL D+ TG F V+R A
Sbjct: 491 YGGVDIVVNNAGIA-----TSSPFEETTLQEW----------QLNLDILATGYFLVAREA 535
Query: 102 WPHMKKQNY-GRLVMTASNSGLLGNFGQANYS 132
+ M++Q G +V AS + + + YS
Sbjct: 536 FRQMREQGLGGNIVFIASKNAVYAGKNASAYS 567
>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 = 38.3 bits (89), Expect = 6e-04
Identities = 17/51 (33%), Positives = 25/51 (49%)
Query: 13 TDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
TDW + D +L G + AA PH +N G +V +S +G + A Y
Sbjct: 102 TDWTRMIDTNLLGLMYTTHAALPHHLLRNKGTIVNISSVAGRVAVRNSAVY 152
Score = 33.3 bits (76), Expect = 0.030
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
D +L G + AA PH +N G +V +S +G + A Y+
Sbjct: 109 DTNLLGLMYTTHAALPHHLLRNKGTIVNISSVAGRVAVRNSAVYN 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 = 38.1 bits (89), Expect = 6e-04
Identities = 20/63 (31%), Positives = 34/63 (53%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
IL + + +W+ + D++LTG F +RA P MK+ G ++ +S GL+G+
Sbjct: 89 ILTGGTVETTTLEEWRRLLDINLTGVFLGTRAVIPPMKEAGGGSIINMSSIEGLVGDPAL 148
Query: 61 ANY 63
A Y
Sbjct: 149 AAY 151
Score = 34.7 bits (80), Expect = 0.010
Identities = 28/103 (27%), Positives = 45/103 (43%), Gaps = 15/103 (14%)
Query: 42 YGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAA 101
+GRL L+ N G + LE E + + D++LTG F +RA
Sbjct: 77 FGRL------DVLVNNAGILTGGTVETTTLE---------EWRRLLDINLTGVFLGTRAV 121
Query: 102 WPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERS 144
P MK+ G ++ +S GL+G+ A Y+ G + +S
Sbjct: 122 IPPMKEAGGGSIINMSSIEGLVGDPALAAYNASKGAVRGLTKS 164
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 37.9 bits (88), Expect = 6e-04
Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 5 KSFARISDTD---WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
+S+ I + W + +V++ G F +S+ P+M KQ+ G ++ AS
Sbjct: 83 ESYGAIHAVEEDEWDRIINVNVNGIFLMSKYTIPYMLKQDKGVIINIAS 131
Score = 30.6 bits (69), Expect = 0.22
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 118
+V++ G F +S+ P+M KQ+ G ++ AS
Sbjct: 101 NVNVNGIFLMSKYTIPYMLKQDKGVIINIAS 131
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 37.6 bits (88), Expect = 8e-04
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 3 RDKSFARISDTD---WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
R S ++D D W+ V ++++ G R+++A P + + G +VM S
Sbjct: 92 RVPSMKPLADADFAHWRAVIELNVLGTLRLTQAFTPALAESG-GSIVMINS 141
Score = 29.2 bits (66), Expect = 0.75
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALK 140
++++ G R+++A P + + G +VM S Y +A GAL
Sbjct: 112 ELNVLGTLRLTQAFTPALAESG-GSIVMINSMVLRHSQPKYGAYK-MAKGALL 162
>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 = 37.0 bits (86), Expect = 0.001
Identities = 30/118 (25%), Positives = 48/118 (40%), Gaps = 19/118 (16%)
Query: 15 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYRFLSQQLLEWC 74
+V DV A +V RAA + +GR+ +N+G+ FG+
Sbjct: 52 IAVVADV--ADAAQVERAA--DTAVERFGRIDTWVNNAGV-AVFGRFE------------ 94
Query: 75 ETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
+ + V DV+ G + AA PH++++ G L+ S G QA YS
Sbjct: 95 DVTPEEFRR--VFDVNYLGHVYGTLAALPHLRRRGGGALINVGSLLGYRSAPLQAAYS 150
>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 = 36.7 bits (85), Expect = 0.002
Identities = 27/92 (29%), Positives = 43/92 (46%), Gaps = 13/92 (14%)
Query: 41 NYGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRA 100
+GRL + +N+G+LG Y L L E+ + V DV++ GAF ++
Sbjct: 76 RFGRLDIMFNNAGVLGAP---CYSILETSLEEF----------ERVLDVNVYGAFLGTKH 122
Query: 101 AWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
A M G +V AS +G++G G Y+
Sbjct: 123 AARVMIPAKKGSIVSVASVAGVVGGLGPHAYT 154
Score = 35.5 bits (82), Expect = 0.005
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 9 RISDT---DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
I +T +++ V DV++ GAF ++ A M G +V AS +G++G G Y
Sbjct: 96 SILETSLEEFERVLDVNVYGAFLGTKHAARVMIPAKKGSIVSVASVAGVVGGLGPHAY 153
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 36.4 bits (85), Expect = 0.002
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL 123
+ Q + D ++ G R++RA PHM+ Q GR++ +S G L
Sbjct: 96 QAQALFDTNVFGILRMTRAVLPHMRAQGSGRIINISSVLGFL 137
Score = 35.6 bits (83), Expect = 0.004
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL 55
D ++ G R++RA PHM+ Q GR++ +S G L
Sbjct: 102 DTNVFGILRMTRAVLPHMRAQGSGRIINISSVLGFL 137
>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 = 36.1 bits (84), Expect = 0.003
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQ------NYGRLVMTASNSGLLGNFGQANY 63
+Q V +V+L G F V R A M K G ++ TAS + G GQA Y
Sbjct: 104 LFQRVINVNLIGTFNVIRLAAGAMGKNEPDQGGERGVIINTASVAAFEGQIGQAAY 159
Score = 34.6 bits (80), Expect = 0.009
Identities = 23/60 (38%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQ------NYGRLVMTASNSGLLGNFGQANYSFLAGG 137
Q V +V+L G F V R A M K G ++ TAS + G GQA YS GG
Sbjct: 106 QRVINVNLIGTFNVIRLAAGAMGKNEPDQGGERGVIINTASVAAFEGQIGQAAYSASKGG 165
>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 = 35.8 bits (83), Expect = 0.004
Identities = 8/46 (17%), Positives = 21/46 (45%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
+ + ++ W + +L ++ A M+++ GR+V +S
Sbjct: 90 RPLSELTPAHWDAKMNTNLKALVHCAQQAAKLMRERGGGRIVAISS 135
Score = 28.5 bits (64), Expect = 1.3
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 118
+ +L ++ A M+++ GR+V +S
Sbjct: 105 NTNLKALVHCAQQAAKLMRERGGGRIVAISS 135
>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 = 35.7 bits (83), Expect = 0.004
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 3/55 (5%)
Query: 3 RDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNY---GRLVMTASNSGL 54
+ FA W+ DV+LTG + A +M K G +V S +GL
Sbjct: 91 KSYLFAGKLPPPWEKTIDVNLTGVINTTYLALHYMDKNKGGKGGVIVNIGSVAGL 145
Score = 30.7 bits (70), Expect = 0.21
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNY---GRLVMTASNSGL 122
DV+LTG + A +M K G +V S +GL
Sbjct: 108 DVNLTGVINTTYLALHYMDKNKGGKGGVIVNIGSVAGL 145
>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 = 35.6 bits (82), Expect = 0.005
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V ++L G F M++Q G +V TAS G+ G Q+ Y+
Sbjct: 110 VVSINLRGVFYGLEKVLKVMREQGSGMIVNTASVGGIRGVGNQSGYA 156
Score = 35.6 bits (82), Expect = 0.005
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 18 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
V ++L G F M++Q G +V TAS G+ G Q+ Y
Sbjct: 110 VVSINLRGVFYGLEKVLKVMREQGSGMIVNTASVGGIRGVGNQSGY 155
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 35.3 bits (82), Expect = 0.005
Identities = 23/75 (30%), Positives = 43/75 (57%), Gaps = 8/75 (10%)
Query: 74 CETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS- 132
E L+V +++++ V+ GA + AA PH+K + G++V+ +S +GL G ++ Y+
Sbjct: 95 DELTDLSVFERVMR-VNYLGAVYCTHAALPHLKA-SRGQIVVVSSLAGLTGVPTRSGYAA 152
Query: 133 ---FLAG--GALKIE 142
L G +L+IE
Sbjct: 153 SKHALHGFFDSLRIE 167
Score = 33.4 bits (77), Expect = 0.024
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 7 FARISDTDW-QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
F ++D + V V+ GA + AA PH+K + G++V+ +S +GL G ++ Y
Sbjct: 94 FDELTDLSVFERVMRVNYLGAVYCTHAALPHLKA-SRGQIVVVSSLAGLTGVPTRSGY 150
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 35.5 bits (82), Expect = 0.005
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL-GNF---GQANYRFLSQQ 69
++ V+L GA +RA + HM K+ G +V +S + L NF + L+QQ
Sbjct: 109 YYKKFMSVNLDGALVCTRAVYKHMAKRGGGAIVNQSSTAAWLYSNFYGLAKVGLNGLTQQ 168
Query: 70 L 70
L
Sbjct: 169 L 169
Score = 33.2 bits (76), Expect = 0.034
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL-GNF 126
V+L GA +RA + HM K+ G +V +S + L NF
Sbjct: 116 VNLDGALVCTRAVYKHMAKRGGGAIVNQSSTAAWLYSNF 154
>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 = 35.5 bits (82), Expect = 0.005
Identities = 9/48 (18%), Positives = 21/48 (43%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
S D DW ++++ + + +A P M + G ++ +S +
Sbjct: 85 SILDCEDDDWDFAMNLNVRSMYLMIKAVLPKMLARKDGSIINMSSVAS 132
Score = 28.2 bits (63), Expect = 1.3
Identities = 5/34 (14%), Positives = 17/34 (50%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 121
++++ + + +A P M + G ++ +S +
Sbjct: 99 NLNVRSMYLMIKAVLPKMLARKDGSIINMSSVAS 132
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 35.0 bits (81), Expect = 0.007
Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 7 FARISDTD---WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 54
F I DTD +Q DV++ G F +S A MK+Q G +V AS +G+
Sbjct: 99 FGHILDTDLGAFQKTVDVNIRGYFFMSVEAGKLMKEQGGGSIVNVASVNGV 149
Score = 30.8 bits (70), Expect = 0.22
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
DV++ G F +S A MK+Q G +V AS +G+ Q YS
Sbjct: 115 DVNIRGYFFMSVEAGKLMKEQGGGSIVNVASVNGVSPGDFQGIYS 159
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 35.0 bits (81), Expect = 0.007
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 11 SDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
+D DW+ V L GA+ RA P M ++ G +V AS
Sbjct: 106 TDEDWRRCFAVDLDGAWNGCRAVLPGMVERGRGSIVNIAS 145
Score = 27.3 bits (61), Expect = 2.8
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 118
V L GA+ RA P M ++ G +V AS
Sbjct: 115 AVDLDGAWNGCRAVLPGMVERGRGSIVNIAS 145
>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 = 34.4 bits (80), Expect = 0.008
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
+LRD A ++ D+ V +TGA+ + A + + V+ +S +G+LG+ GQ
Sbjct: 91 VLRDALLANMTAEDFARVLAPKVTGAWNLHEAT----RDRPLDFFVLFSSIAGVLGSPGQ 146
Query: 61 ANY 63
ANY
Sbjct: 147 ANY 149
Score = 31.7 bits (73), Expect = 0.075
Identities = 12/25 (48%), Positives = 18/25 (72%), Gaps = 2/25 (8%)
Query: 114 VMTASNSGLLGNFGQANYSFLAGGA 138
V+ +S +G+LG+ GQANY+ A A
Sbjct: 132 VLFSSIAGVLGSPGQANYA--AANA 154
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 35.0 bits (80), Expect = 0.008
Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 19/97 (19%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYRFLSQQLLE 72
++Q +Q+ ++TG F ++AA M KQ G ++ TAS SG + N + QQ+
Sbjct: 109 EFQRLQNTNVTGVFLTAQAAAKAMVKQGQGGVIINTASMSGHIIN--------VPQQVSH 160
Query: 73 WCETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQN 109
+C + +HLT A V A PH + N
Sbjct: 161 YCASK--------AAVIHLTKAMAVELA--PHKIRVN 187
Score = 31.9 bits (72), Expect = 0.076
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQ 128
E Q +Q+ ++TG F ++AA M KQ G ++ TAS SG + N Q
Sbjct: 109 EFQRLQNTNVTGVFLTAQAAAKAMVKQGQGGVIINTASMSGHIINVPQ 156
>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 = 35.0 bits (81), Expect = 0.009
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 4/63 (6%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
+LRD A+ + D++ V + G +++A + V+ +S S G GQ
Sbjct: 298 VLRDALLAQKTAEDFEAVLAPKVDGLLNLAQAL----ADEPLDFFVLFSSVSAFFGGAGQ 353
Query: 61 ANY 63
A+Y
Sbjct: 354 ADY 356
Score = 27.3 bits (61), Expect = 3.5
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 113 LVMTASNSGLLGNFGQANYS 132
V+ +S S G GQA+Y+
Sbjct: 338 FVLFSSVSAFFGGAGQADYA 357
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 34.7 bits (80), Expect = 0.009
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 3 RD-KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQA 61
RD + A + D + + + L +SR A MK+Q YGR++ S +G + G A
Sbjct: 99 RDRRPLAELDDAAIRALLETDLVAPILLSRLAAQRMKRQGYGRIIAITSIAGQVARAGDA 158
Query: 62 NY 63
Y
Sbjct: 159 VY 160
Score = 32.0 bits (73), Expect = 0.077
Identities = 16/50 (32%), Positives = 23/50 (46%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGG 137
+ L +SR A MK+Q YGR++ S +G + G A Y G
Sbjct: 117 ETDLVAPILLSRLAAQRMKRQGYGRIIAITSIAGQVARAGDAVYPAAKQG 166
>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 = 34.7 bits (80), Expect = 0.009
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 124
V DV++ G R+ +A P MK++ GR+++T+S GL G
Sbjct: 102 AMASVFDVNVFGTVRMLQAFLPDMKRRGSGRILVTSSVGGLQG 144
Score = 34.0 bits (78), Expect = 0.016
Identities = 17/47 (36%), Positives = 29/47 (61%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
+S+ V DV++ G R+ +A P MK++ GR+++T+S GL G
Sbjct: 98 LSEDAMASVFDVNVFGTVRMLQAFLPDMKRRGSGRILVTSSVGGLQG 144
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 34.6 bits (80), Expect = 0.010
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 4/60 (6%)
Query: 8 ARISD---TDWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANY 63
A I+D D+ V+L G F +R M + GR++ S SG +G+ + Y
Sbjct: 95 AFITDFQLGDFDRSLQVNLVGYFLCAREFSRLMIRDGIQGRIIQINSKSGKVGSKHNSGY 154
Score = 29.2 bits (66), Expect = 0.67
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYS 132
V+L G F +R M + GR++ S SG +G+ + YS
Sbjct: 106 DRSLQVNLVGYFLCAREFSRLMIRDGIQGRIIQINSKSGKVGSKHNSGYS 155
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 34.4 bits (80), Expect = 0.010
Identities = 14/61 (22%), Positives = 29/61 (47%)
Query: 3 RDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQAN 62
R+ + + ++ + V++ + ++AA P M+ + G +V AS +GL G
Sbjct: 94 RNGPLLDVDEAEFDRIFAVNVKSPYLWTQAAVPAMRGEGGGAIVNVASTAGLRPRPGLGW 153
Query: 63 Y 63
Y
Sbjct: 154 Y 154
Score = 32.9 bits (76), Expect = 0.039
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
V++ + ++AA P M+ + G +V AS +GL G Y+
Sbjct: 111 AVNVKSPYLWTQAAVPAMRGEGGGAIVNVASTAGLRPRPGLGWYN 155
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 34.6 bits (80), Expect = 0.011
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 16/72 (22%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQ-----NYGRLVMT----------A 49
++ +W+LV D +LTGAF +AA P +K+ N L T A
Sbjct: 96 APVEELTPEEWRLVIDTNLTGAFYTIKAAVPALKRGGGYIINISSLAGTNFFAGGAAYNA 155
Query: 50 SNSGLLGNFGQA 61
S GL+G F +A
Sbjct: 156 SKFGLVG-FSEA 166
Score = 28.4 bits (64), Expect = 1.3
Identities = 22/57 (38%), Positives = 31/57 (54%), Gaps = 10/57 (17%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGA 138
E +LV D +LTGAF +AA P +K+ G ++ +S +G N F AGGA
Sbjct: 105 EWRLVIDTNLTGAFYTIKAAVPALKRGG-GYIINISSLAG-------TN--FFAGGA 151
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 34.3 bits (79), Expect = 0.012
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 11 SDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
D DW V D++L + +S+A M KQ G+++ AS
Sbjct: 111 KDEDWNAVMDINLNSVYHLSQAVAKVMAKQGSGKIINIAS 150
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 34.0 bits (78), Expect = 0.017
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 15 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFG--QANY 63
WQ V D++LTG F +A M + G +V AS SG++ N G QA+Y
Sbjct: 110 WQTVMDINLTGVFLSCQAEARAMLENGGGSIVNIASMSGIIVNRGLLQAHY 160
Score = 30.5 bits (69), Expect = 0.22
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFG--QANYSFLAGGALKI 141
Q V D++LTG F +A M + G +V AS SG++ N G QA+Y+ G + +
Sbjct: 111 QTVMDINLTGVFLSCQAEARAMLENGGGSIVNIASMSGIIVNRGLLQAHYNASKAGVIHL 170
Query: 142 ERSV 145
+S+
Sbjct: 171 SKSL 174
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 33.7 bits (78), Expect = 0.017
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 17/66 (25%)
Query: 8 ARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMT-----------------AS 50
A +S W+ +LT AF ++ P M + G L+ T AS
Sbjct: 101 AEMSLEGWRETLATNLTSAFLGAKHQIPAMLARGGGSLIFTSTFVGHTAGFPGMAAYAAS 160
Query: 51 NSGLLG 56
+GL+G
Sbjct: 161 KAGLIG 166
Score = 26.8 bits (60), Expect = 4.3
Identities = 25/102 (24%), Positives = 37/102 (36%), Gaps = 31/102 (30%)
Query: 40 QNYGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSR 99
+ +G L + +N+G LG G L W ET +LT AF ++
Sbjct: 79 ERFGGLDIAFNNAGTLGEMGPV----AEMSLEGWRET----------LATNLTSAFLGAK 124
Query: 100 AAWPHMKKQNYGRLVMT-----------------ASNSGLLG 124
P M + G L+ T AS +GL+G
Sbjct: 125 HQIPAMLARGGGSLIFTSTFVGHTAGFPGMAAYAASKAGLIG 166
>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 = 33.8 bits (78), Expect = 0.017
Identities = 17/63 (26%), Positives = 33/63 (52%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
++ K + D + + +V+ F ++A P M ++N+G +V AS +GL+ G
Sbjct: 86 VVSGKKLLELPDEEIEKTFEVNTLAHFWTTKAFLPDMLERNHGHIVTIASVAGLISPAGL 145
Query: 61 ANY 63
A+Y
Sbjct: 146 ADY 148
Score = 31.1 bits (71), Expect = 0.15
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
+ +V+ F ++A P M ++N+G +V AS +GL+ G A+Y
Sbjct: 101 EKTFEVNTLAHFWTTKAFLPDMLERNHGHIVTIASVAGLISPAGLADYC 149
>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 = 33.7 bits (77), Expect = 0.017
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 8 ARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+ + WQ V V++ F +++A P + K + G LV T+S+ +G G+AN+
Sbjct: 102 SEQNPQVWQDVXQVNVNATFMLTQALLPLLLKSDAGSLVFTSSS---VGRQGRANW 154
Score = 30.2 bits (68), Expect = 0.27
Identities = 29/91 (31%), Positives = 46/91 (50%), Gaps = 17/91 (18%)
Query: 41 NYGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRA 100
NY RL N+GLLG+ LS+Q + V Q + Q V++ F +++A
Sbjct: 81 NYPRLDGVLHNAGLLGDVCP-----LSEQNPQ--------VWQDVXQ-VNVNATFMLTQA 126
Query: 101 AWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
P + K + G LV T+S+ +G G+AN+
Sbjct: 127 LLPLLLKSDAGSLVFTSSS---VGRQGRANW 154
>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 = 33.6 bits (77), Expect = 0.019
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQ-NYGRLVMTAS 50
I+R S+ DW V +V+L F +++AA H KQ G+++ AS
Sbjct: 90 IIRRADAEEFSEKDWDDVMNVNLKSVFFLTQAAAKHFLKQGRGGKIINIAS 140
>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 = 33.7 bits (77), Expect = 0.020
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 8 ARISDTDWQLVQDVHLTGAFRVSRA--AWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
A ++D W V + +LTG FRV++ M ++ GR++ AS G G A Y
Sbjct: 97 AELADELWLDVVETNLTGVFRVTKEVLKAGGMLERGTGRIINIASTGGKQGVVHAAPY 154
Score = 30.2 bits (68), Expect = 0.32
Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 17/93 (18%)
Query: 42 YGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRA- 100
YG + + +N+G G A L+ +L W + V + +LTG FRV++
Sbjct: 78 YGPIDVLVNNAGRSGGGATAE---LADEL--WLD----------VVETNLTGVFRVTKEV 122
Query: 101 -AWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
M ++ GR++ AS G G A YS
Sbjct: 123 LKAGGMLERGTGRIINIASTGGKQGVVHAAPYS 155
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 33.8 bits (77), Expect = 0.022
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 8 ARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYG-RLVMTASNSGLLGNFGQANY 63
++ DW+ V DV L G+ A P + +Q G +V TAS +GL+ N G Y
Sbjct: 100 VEMTHDDWRWVIDVDLWGSIHTVEAFLPRLLEQGTGGHVVFTASFAGLVPNAGLGAY 156
Score = 26.1 bits (57), Expect = 7.2
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYG-RLVMTASNSGL-----LGNFGQANYSFLAGGAL 139
V DV L G+ A P + +Q G +V TAS +GL LG +G A Y + G A
Sbjct: 110 VIDVDLWGSIHTVEAFLPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKYG-VVGLAE 168
Query: 140 KIERSV 145
+ R V
Sbjct: 169 TLAREV 174
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 33.6 bits (77), Expect = 0.024
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 11 SDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 54
++ +W+ + + +L AF +SR A P +K+ +V S SGL
Sbjct: 108 TEDEWRGIFETNLFSAFELSRYAHPLLKQHASSAIVNIGSVSGL 151
Score = 31.6 bits (72), Expect = 0.11
Identities = 18/63 (28%), Positives = 29/63 (46%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKI 141
E + + + +L AF +SR A P +K+ +V S SGL A Y L++
Sbjct: 111 EWRGIFETNLFSAFELSRYAHPLLKQHASSAIVNIGSVSGLTHVRSGAPYGMTKAALLQM 170
Query: 142 ERS 144
R+
Sbjct: 171 TRN 173
>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 = 32.8 bits (76), Expect = 0.029
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
+L D A ++ + V GA+ + V+ +S +G+LG+ GQ
Sbjct: 91 VLDDGVLASLTPERFAAVLAPKAAGAWNLHELT----ADLPLDFFVLFSSIAGVLGSPGQ 146
Query: 61 ANY 63
ANY
Sbjct: 147 ANY 149
Score = 30.1 bits (69), Expect = 0.24
Identities = 10/19 (52%), Positives = 16/19 (84%)
Query: 114 VMTASNSGLLGNFGQANYS 132
V+ +S +G+LG+ GQANY+
Sbjct: 132 VLFSSIAGVLGSPGQANYA 150
>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 = 33.2 bits (76), Expect = 0.032
Identities = 15/50 (30%), Positives = 22/50 (44%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
W ++L G F R A P M + G +V +S +G G+ G Y
Sbjct: 101 VWDQTMAINLRGTFLCCRHAAPRMIARGGGSIVNLSSIAGQSGDPGYGAY 150
Score = 28.6 bits (64), Expect = 0.94
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
++L G F R A P M + G +V +S +G G+ G Y
Sbjct: 108 INLRGTFLCCRHAAPRMIARGGGSIVNLSSIAGQSGDPGYGAY 150
>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 = 33.1 bits (76), Expect = 0.035
Identities = 14/52 (26%), Positives = 29/52 (55%)
Query: 3 RDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 54
R+K + + ++ V V++ + ++A PHM++Q G ++ AS +GL
Sbjct: 92 RNKPMLEVDEEEFDRVFAVNVKSIYLSAQALVPHMEEQGGGVIINIASTAGL 143
Score = 25.8 bits (57), Expect = 9.5
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 85 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 122
V V++ + ++A PHM++Q G ++ AS +GL
Sbjct: 106 RVFAVNVKSIYLSAQALVPHMEEQGGGVIINIASTAGL 143
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 33.1 bits (76), Expect = 0.037
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 9/71 (12%)
Query: 54 LLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRL 113
L+ N G AN F+ + +E +Q + ++ GA V++A P+M+KQ G++
Sbjct: 85 LVNNAGYANGGFVEEIPVE-------EYRKQF--ETNVFGAISVTQAVLPYMRKQKSGKI 135
Query: 114 VMTASNSGLLG 124
+ +S SG +G
Sbjct: 136 INISSISGRVG 146
Score = 32.7 bits (75), Expect = 0.048
Identities = 13/37 (35%), Positives = 25/37 (67%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
+ ++ GA V++A P+M+KQ G+++ +S SG +G
Sbjct: 110 ETNVFGAISVTQAVLPYMRKQKSGKIINISSISGRVG 146
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 33.1 bits (76), Expect = 0.037
Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 13/79 (16%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY- 63
+S I+ ++ F +++AA PH+K+ ++ T S +G GN +Y
Sbjct: 139 QSLEDITAEQLDKTFKTNIYSYFHMTKAALPHLKQG--SAIINTGSITGYEGNETLIDYS 196
Query: 64 ----------RFLSQQLLE 72
R L+Q L++
Sbjct: 197 ATKGAIHAFTRSLAQSLVQ 215
Score = 32.3 bits (74), Expect = 0.061
Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 91 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGG 137
+ F +++AA PH+K+ ++ T S +G GN +YS G
Sbjct: 157 IYSYFHMTKAALPHLKQG--SAIINTGSITGYEGNETLIDYSATKGA 201
>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 = 32.5 bits (74), Expect = 0.047
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+++ D++ ++L AFR+S+ PHM+K G ++ +S S N A Y
Sbjct: 96 MTEEDFEWAFKLNLFSAFRLSQLCAPHMQKAGGGAILNISSMSSENKNVRIAAY 149
Score = 31.0 bits (70), Expect = 0.17
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
++L AFR+S+ PHM+K G ++ +S S N A Y
Sbjct: 107 LNLFSAFRLSQLCAPHMQKAGGGAILNISSMSSENKNVRIAAY 149
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 32.2 bits (74), Expect = 0.057
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
DWQ V ++LT F+ A P M+ + G ++ +S
Sbjct: 106 DWQWVIQLNLTSVFQCCSAVLPGMRARGGGLIINVSS 142
Score = 26.1 bits (58), Expect = 7.4
Identities = 10/36 (27%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 83 QQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 118
Q ++Q ++LT F+ A P M+ + G ++ +S
Sbjct: 108 QWVIQ-LNLTSVFQCCSAVLPGMRARGGGLIINVSS 142
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 32.3 bits (74), Expect = 0.058
Identities = 17/56 (30%), Positives = 29/56 (51%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
I++ +S D++ V D+ L F VS+A P M K+ +G+++ S LG
Sbjct: 97 IIKRIPMLEMSAEDFRQVIDIDLNAPFIVSKAVIPSMIKKGHGKIINICSMMSELG 152
Score = 28.9 bits (65), Expect = 0.80
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKI 141
V D+ L F VS+A P M K+ +G+++ S LG + Y+ A G LK+
Sbjct: 114 VIDIDLNAPFIVSKAVIPSMIKKGHGKIINICSMMSELGRETVSAYA-AAKGGLKM 168
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 32.2 bits (74), Expect = 0.060
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
+V+L GA R+++ PHM+ Q GR++ +S G
Sbjct: 103 EVNLFGAARLTQLVLPHMRAQRSGRIINISSMGG 136
Score = 32.2 bits (74), Expect = 0.060
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 121
+V+L GA R+++ PHM+ Q GR++ +S G
Sbjct: 103 EVNLFGAARLTQLVLPHMRAQRSGRIINISSMGG 136
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 32.3 bits (74), Expect = 0.062
Identities = 11/45 (24%), Positives = 22/45 (48%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
D + GA V++A P++++Q G ++ +S G+ Y
Sbjct: 106 DTNFFGALWVTQAVLPYLREQRSGHIIQISSIGGISAFPMSGIYH 150
Score = 31.9 bits (73), Expect = 0.084
Identities = 10/38 (26%), Positives = 21/38 (55%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGN 57
D + GA V++A P++++Q G ++ +S G+
Sbjct: 106 DTNFFGALWVTQAVLPYLREQRSGHIIQISSIGGISAF 143
>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 = 32.3 bits (74), Expect = 0.066
Identities = 14/60 (23%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANY 63
I++ D + V V++ G +AA KK + G+++ +S +G+ G Y
Sbjct: 94 TPLLTITEEDLKKVYAVNVFGVLFGIQAAARQFKKLGHGGKIINASSIAGVQGFPNLGAY 153
Score = 31.6 bits (72), Expect = 0.10
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYS 132
V++ G +AA KK + G+++ +S +G+ G YS
Sbjct: 110 VNVFGVLFGIQAAARQFKKLGHGGKIINASSIAGVQGFPNLGAYS 154
>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 = 31.8 bits (73), Expect = 0.070
Identities = 19/88 (21%), Positives = 35/88 (39%), Gaps = 16/88 (18%)
Query: 39 KQNYGRLVMTASNSGLLGNFGQANYRFLSQQLLEWC-ETNVLNVEQQLVQDVHLTGAFRV 97
++ YG L + +N+G+ + ++ +TN G V
Sbjct: 73 EEKYGGLDILVNNAGIAFKGFDDSTPT--REQARETMKTNF-------------FGTVDV 117
Query: 98 SRAAWPHMKKQNYGRLVMTASNSGLLGN 125
++A P +KK GR+V +S G L +
Sbjct: 118 TQALLPLLKKSPAGRIVNVSSGLGSLTS 145
Score = 30.3 bits (69), Expect = 0.26
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGN 57
+ G V++A P +KK GR+V +S G L +
Sbjct: 108 KTNFFGTVDVTQALLPLLKKSPAGRIVNVSSGLGSLTS 145
>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 = 31.5 bits (72), Expect = 0.12
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
D +L GA + AA P + + G LV+ +S + L G G A YS
Sbjct: 104 DTNLLGAAAILEAALPQFRAKGRGHLVLISSVAALRGLPGAAAYS 148
Score = 29.6 bits (67), Expect = 0.42
Identities = 16/44 (36%), Positives = 23/44 (52%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
D +L GA + AA P + + G LV+ +S + L G G A Y
Sbjct: 104 DTNLLGAAAILEAALPQFRAKGRGHLVLISSVAALRGLPGAAAY 147
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 31.4 bits (72), Expect = 0.12
Identities = 13/47 (27%), Positives = 22/47 (46%)
Query: 7 FARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
+ WQ V V++ F +++A P + K LV T+S+ G
Sbjct: 109 MEQQDPEVWQDVMQVNVNATFMLTQALLPLLLKSPAASLVFTSSSVG 155
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 31.3 bits (71), Expect = 0.13
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL 123
E Q+ +HL GA R++ A P M ++ G L+ S+ L
Sbjct: 112 ESQV--QIHLVGANRLATAVLPGMIERRRGDLIFVGSDVALR 151
Score = 30.5 bits (69), Expect = 0.25
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL 55
+HL GA R++ A P M ++ G L+ S+ L
Sbjct: 116 QIHLVGANRLATAVLPGMIERRRGDLIFVGSDVALR 151
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 31.4 bits (72), Expect = 0.14
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 6 SFARISDTD---WQLVQDVHLTGAFRVSRAAWPHMKK 39
+ DT + L+Q +++ G F VS+A PH+KK
Sbjct: 102 NLTGTEDTPMKRFDLMQQINVRGTFLVSQACLPHLKK 138
Score = 30.3 bits (69), Expect = 0.28
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 85 LVQDVHLTGAFRVSRAAWPHMKK 107
L+Q +++ G F VS+A PH+KK
Sbjct: 116 LMQQINVRGTFLVSQACLPHLKK 138
>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 = 31.0 bits (71), Expect = 0.17
Identities = 13/55 (23%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 5 KSFARISDTDWQLVQ---DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
+ DT + + +V+ G +++AA PH+ +++ G +V+ +S +G +G
Sbjct: 92 SMRSLFHDTSIDVDRKIMEVNYFGPVALTKAALPHLIERSQGSIVVVSSIAGKIG 146
Score = 29.1 bits (66), Expect = 0.80
Identities = 12/36 (33%), Positives = 22/36 (61%), Gaps = 6/36 (16%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 124
V LT +AA PH+ +++ G +V+ +S +G +G
Sbjct: 117 VALT------KAALPHLIERSQGSIVVVSSIAGKIG 146
>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 = 30.9 bits (70), Expect = 0.18
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASN 51
K+F I D+Q + + GA + +A P K++ GR++ +N
Sbjct: 95 KTFDTIDWEDYQQQLEGAVKGALNLLQAVLPDFKERGSGRVINIGTN 141
Score = 30.5 bits (69), Expect = 0.24
Identities = 11/52 (21%), Positives = 21/52 (40%)
Query: 93 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERS 144
GA + +A P K++ GR++ +N +Y+ L R+
Sbjct: 115 GALNLLQAVLPDFKERGSGRVINIGTNLFQNPVVPYHDYTTAKAALLGFTRN 166
>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 = 30.8 bits (70), Expect = 0.19
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 4/63 (6%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
+LRD A ++ + V + GA + V+ +S + LLG GQ
Sbjct: 239 VLRDALLAELTPAAFAAVLAAKVAGALNLHELTPDLPLD----FFVLFSSVAALLGGAGQ 294
Query: 61 ANY 63
A Y
Sbjct: 295 AAY 297
Score = 26.6 bits (59), Expect = 4.9
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 112 RLVMTASNSGLLGNFGQANYS 132
V+ +S + LLG GQA Y+
Sbjct: 278 FFVLFSSVAALLGGAGQAAYA 298
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 30.9 bits (70), Expect = 0.20
Identities = 13/58 (22%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
++L A+ A M K++ G +V S +G + G YS G + + +
Sbjct: 106 ALNLEAAYLCVEAVLEGMLKRSRGAVVNIGSVNG-MAALGHPAYSAAKAGLIHYTKLL 162
Score = 30.1 bits (68), Expect = 0.37
Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 12 DTD---WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 54
DT W+ ++L A+ A M K++ G +V S +G+
Sbjct: 95 DTTPASWRADNALNLEAAYLCVEAVLEGMLKRSRGAVVNIGSVNGM 140
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 30.5 bits (69), Expect = 0.25
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQN 41
DW V + +LTGAF SR A + + +
Sbjct: 108 DWNKVINTNLTGAFLGSREAIKYFVEHD 135
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 30.5 bits (69), Expect = 0.28
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
I R F + +W V V+ T F VS+A +M K+ G+++ S LG
Sbjct: 96 IQRRHPFTEFPEQEWNDVIAVNQTAVFLVSQAVARYMVKRQAGKIINICSMQSELG 151
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 30.3 bits (69), Expect = 0.29
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 7 FARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
FA ++D +WQ +++L A R+ RA P M + G ++ S
Sbjct: 95 FAALTDEEWQDELNLNLLAAVRLDRALLPGMIARGSGVIIHVTS 138
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 30.3 bits (69), Expect = 0.29
Identities = 9/40 (22%), Positives = 21/40 (52%)
Query: 7 FARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLV 46
F ++ +++ V +V G + AA HM+ ++ G ++
Sbjct: 101 FEDVTPEEFRRVTEVTYLGVVHGTLAALRHMRPRDRGAII 140
Score = 28.3 bits (64), Expect = 1.6
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLV 114
E + V +V G + AA HM+ ++ G ++
Sbjct: 108 EFRRVTEVTYLGVVHGTLAALRHMRPRDRGAII 140
>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 = 30.3 bits (69), Expect = 0.32
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 114 VMTASNSGLLGNFGQANYS 132
V+ +S + LLG+ GQANY+
Sbjct: 280 VLFSSVASLLGSPGQANYA 298
Score = 29.2 bits (66), Expect = 0.80
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 46 VMTASNSGLLGNFGQANY 63
V+ +S + LLG+ GQANY
Sbjct: 280 VLFSSVASLLGSPGQANY 297
>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 = 29.9 bits (68), Expect = 0.34
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
DW+ + D ++ G V+R P M +N G ++ S +G
Sbjct: 102 DWETMIDTNVKGLLNVTRLILPIMIARNQGHIINLGSIAG 141
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 29.9 bits (68), Expect = 0.34
Identities = 11/60 (18%), Positives = 26/60 (43%), Gaps = 3/60 (5%)
Query: 7 FARISDTDWQLVQD---VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
F + ++ +++ R+++A P M ++ G ++ S +GL+ A Y
Sbjct: 97 FGPFLELSLDEEEEMIQLNILALTRLTKAVLPGMVERGAGHIINIGSAAGLIPTPYMAVY 156
Score = 28.8 bits (65), Expect = 1.0
Identities = 13/59 (22%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 74 CETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
E ++ E+ + +++ R+++A P M ++ G ++ S +GL+ A YS
Sbjct: 101 LELSLDEEEEMI--QLNILALTRLTKAVLPGMVERGAGHIINIGSAAGLIPTPYMAVYS 157
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 30.2 bits (68), Expect = 0.35
Identities = 13/45 (28%), Positives = 25/45 (55%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
F +S DW+ + L A ++RA P M+++ +GR++ + S
Sbjct: 100 YFMEMSMEDWEGAVKLLLYPAVYLTRALVPAMERKGFGRIIYSTS 144
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 29.9 bits (68), Expect = 0.35
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPH 36
S A++ ++ V DV+L G F RA P
Sbjct: 100 SVAQVDPDAFRRVIDVNLLGVFHTVRATLPA 130
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 29.9 bits (68), Expect = 0.37
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 18 VQDVHLTGAFRVSRAAWPHMKK 39
V D+ L G F V +AA+P +++
Sbjct: 113 VVDIDLLGTFNVLKAAYPLLRR 134
Score = 29.9 bits (68), Expect = 0.37
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKK 107
V D+ L G F V +AA+P +++
Sbjct: 113 VVDIDLLGTFNVLKAAYPLLRR 134
>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 = 29.9 bits (68), Expect = 0.38
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
+F + D + + ++ G V AA + R+V T+S
Sbjct: 71 AFTSLWAKDRKELYRTNVEGTRNVLDAAL----EAGVRRVVHTSS 111
>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 = 29.6 bits (67), Expect = 0.40
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 15 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYR 64
W L+ +L +F S A H+ G LV+T + + L G Y
Sbjct: 93 WDLMWKQNLWTSFIASHLATKHLLS--GGLLVLTGAKAALEPTPGMIGYG 140
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 29.4 bits (66), Expect = 0.57
Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 89 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
V + G F +++ P M +Q G ++ T+S SG + ++ Y+ G + +S+
Sbjct: 113 VDMRGTFLMTKMLLPLMMEQG-GSIINTSSFSGQAADLYRSGYNAAKGAVINFTKSI 168
>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 = 29.3 bits (66), Expect = 0.58
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL 55
D+ L+ + A+ +SR A P +K G +V +S +G++
Sbjct: 107 DYSLIMSTNFEAAYHLSRLAHPLLKASGNGNIVFISSVAGVI 148
Score = 27.8 bits (62), Expect = 2.1
Identities = 16/63 (25%), Positives = 29/63 (46%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKI 141
+ L+ + A+ +SR A P +K G +V +S +G++ A Y G ++
Sbjct: 107 DYSLIMSTNFEAAYHLSRLAHPLLKASGNGNIVFISSVAGVIAVPSGAPYGATKGALNQL 166
Query: 142 ERS 144
RS
Sbjct: 167 TRS 169
>gnl|CDD|180961 PRK07402, PRK07402, precorrin-6B methylase; Provisional.
Length = 196
Score = 29.2 bits (66), Expect = 0.62
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 31 RAAWPHMKKQNYGRLVMTASN 51
+A W ++K GRLV TAS+
Sbjct: 126 QAVWQYLKPG--GRLVATASS 144
Score = 29.2 bits (66), Expect = 0.62
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 99 RAAWPHMKKQNYGRLVMTASN 119
+A W ++K GRLV TAS+
Sbjct: 126 QAVWQYLKPG--GRLVATASS 144
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 29.2 bits (66), Expect = 0.66
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTAS 50
+W+ + V + GAF S+ A HM KQ GR++ S
Sbjct: 103 EWRKIFTVDVDGAFLCSQIAARHMVKQGQGGRIINITS 140
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 28.9 bits (65), Expect = 0.76
Identities = 22/104 (21%), Positives = 38/104 (36%), Gaps = 14/104 (13%)
Query: 42 YGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAA 101
YGRL +N+G+ R E+ + V++ G + +
Sbjct: 82 YGRLDYAFNNAGI----EIEQGRLAEGSEAEF----------DAIMGVNVKGVWLCMKYQ 127
Query: 102 WPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERSV 145
P M Q G +V TAS +GL + Y+ + + +S
Sbjct: 128 IPLMLAQGGGAIVNTASVAGLGAAPKMSIYAASKHAVIGLTKSA 171
Score = 28.6 bits (64), Expect = 1.0
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 11 SDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG 56
S+ ++ + V++ G + + P M Q G +V TAS +GL
Sbjct: 105 SEAEFDAIMGVNVKGVWLCMKYQIPLMLAQGGGAIVNTASVAGLGA 150
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 28.9 bits (65), Expect = 0.84
Identities = 14/47 (29%), Positives = 25/47 (53%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASN 51
K I+ D+Q + + GA +AA P M++Q +GR++ +N
Sbjct: 101 KKADDITWEDFQQQLEGSVKGALNTIQAALPGMREQGFGRIINIGTN 147
Score = 27.0 bits (60), Expect = 4.1
Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASN 119
+QQL + + GA +AA P M++Q +GR++ +N
Sbjct: 112 QQQL--EGSVKGALNTIQAALPGMREQGFGRIINIGTN 147
>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 = 28.4 bits (64), Expect = 1.2
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
K A S+ ++ + V+ GAF V + A ++ GR++ +S
Sbjct: 95 KPIAETSEEEFDRMFTVNTKGAFFVLQEAAKRLRDG--GRIINISS 138
>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 = 28.6 bits (64), Expect = 1.3
Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANY 63
I++ + + V +V++ G +AA KKQ + G+++ AS +G GN + Y
Sbjct: 91 TPILEITEEELKKVYNVNVKGVLFGIQAAARQFKKQGHGGKIINAASIAGHEGNPILSAY 150
Score = 26.6 bits (59), Expect = 4.3
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 86 VQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYS 132
V +V++ G +AA KKQ + G+++ AS +G GN + YS
Sbjct: 104 VYNVNVKGVLFGIQAAARQFKKQGHGGKIINAASIAGHEGNPILSAYS 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 = 28.2 bits (63), Expect = 1.3
Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 12/83 (14%)
Query: 8 ARISD---TDWQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLG---NFGQ 60
A+I+D D+ V+L G F +R M + GR++ S SG +G N G
Sbjct: 94 AKITDFELGDFDRSLQVNLVGYFLCAREFSKLMIRDGIQGRIIQINSKSGKVGSKHNSGY 153
Query: 61 ANYRF----LSQQL-LEWCETNV 78
+ +F L+Q L L+ E +
Sbjct: 154 SAAKFGGVGLTQSLALDLAEHGI 176
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 28.4 bits (64), Expect = 1.3
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 91 LTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYS 132
L V++AA M++Q G +V S SG + G A Y
Sbjct: 107 LLAPLLVAQAANAVMQQQPGGGSIVNIGSVSGRRPSPGTAAYG 149
Score = 28.0 bits (63), Expect = 1.9
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 23 LTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANY 63
L V++AA M++Q G +V S SG + G A Y
Sbjct: 107 LLAPLLVAQAANAVMQQQPGGGSIVNIGSVSGRRPSPGTAAY 148
>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 = 28.3 bits (63), Expect = 1.4
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 82 EQQLVQDVH--LTGAFRVSRAAWPHMKKQNYGRLVMTASNS 120
E+Q+ ++ L RA PHM ++ G +V +S +
Sbjct: 102 EEQIEAEIRRSLFPTLWCCRAVLPHMLERQQGVIVNVSSIA 142
Score = 26.3 bits (58), Expect = 7.0
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 16 QLVQDVH--LTGAFRVSRAAWPHMKKQNYGRLVMTASNS 52
Q+ ++ L RA PHM ++ G +V +S +
Sbjct: 104 QIEAEIRRSLFPTLWCCRAVLPHMLERQQGVIVNVSSIA 142
>gnl|CDD|187657 cd08954, KR_1_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 1, complex (x) SDRs.
NADP-dependent KR domain of the multidomain type I FAS,
a complex SDR family. This subfamily also includes
proteins identified as polyketide synthase (PKS), a
protein with related modular protein architecture and
similar function. It includes the KR domains of
mammalian and chicken FAS, and Dictyostelium discoideum
putative polyketide synthases (PKSs). These KR domains
contain two subdomains, each of which is related to SDR
Rossmann fold domains. However, while the C-terminal
subdomain has an active site similar to the other SDRs
and a NADP-binding capability, the N-terminal SDR-like
subdomain is truncated and lacks these functions,
serving a supportive structural role. In some instances,
such as porcine FAS, an enoyl reductase (a Rossman fold
NAD-binding domain of the medium-chain
dehydrogenase/reductase, MDR family) 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-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);
this KR and ER are members of the SDR family. This KR
subfamily has an active site tetrad with a similar 3D
orientation compared to archetypical SDRs, but the
active site Lys and Asn residue positions are swapped.
The characteristic NADP-binding is typical of the
multidomain complex SDRs, with a GGXGXXG NADP 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
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 = 452
Score = 28.6 bits (64), Expect = 1.4
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ 60
+L DK +++ + V + GA + + K +Y V+ +S S + G+ GQ
Sbjct: 311 VLIDKVLEIDTESLFISVNKAKVMGAINLHNQSIKRCWKLDY--FVLFSSVSSIRGSAGQ 368
Query: 61 ANY 63
NY
Sbjct: 369 CNY 371
Score = 25.9 bits (57), Expect = 9.4
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 114 VMTASNSGLLGNFGQANYSF 133
V+ +S S + G+ GQ NY
Sbjct: 354 VLFSSVSSIRGSAGQCNYVC 373
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 28.1 bits (63), Expect = 1.5
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 35 PHMKKQNYGRLVMTASNSGLLG 56
P M+KQ GR+V S +LG
Sbjct: 120 PVMRKQGQGRIV---QCSSILG 138
Score = 28.1 bits (63), Expect = 1.5
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 103 PHMKKQNYGRLVMTASNSGLLG 124
P M+KQ GR+V S +LG
Sbjct: 120 PVMRKQGQGRIV---QCSSILG 138
>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 = 28.1 bits (63), Expect = 1.6
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 93 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGG 137
G F +R A M + G ++ T + + L G+A ++ AG
Sbjct: 111 GGFLAAREAAKRMLARGRGTIIFTGATASLR---GRAGFAAFAGA 152
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 28.1 bits (63), Expect = 1.6
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
DW DV+L A +++AA PH+ + G +V S S G+ Y
Sbjct: 102 DWLAALDVNLVSAAMLAQAAHPHLARGG-GAIVNFTSISAKFAQTGRWLY 150
Score = 25.7 bits (57), Expect = 9.4
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
DV+L A +++AA PH+ + G +V S S G+ Y
Sbjct: 108 DVNLVSAAMLAQAAHPHLARGG-GAIVNFTSISAKFAQTGRWLY 150
>gnl|CDD|225962 COG3428, COG3428, Predicted membrane protein [Function unknown].
Length = 494
Score = 28.2 bits (63), Expect = 2.0
Identities = 20/66 (30%), Positives = 25/66 (37%), Gaps = 5/66 (7%)
Query: 41 NYGRLVMTASNSGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQD----VHLTGAFR 96
N G L++ AS G +G G A LS QL E L V V + A
Sbjct: 182 NKGELLIAASTGGGIG-TGLAVLLPLSGQLREAIPAAWLEGVFLFVPVTGVIVVVVLAVL 240
Query: 97 VSRAAW 102
+ AW
Sbjct: 241 LLLVAW 246
>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 = 27.7 bits (62), Expect = 2.4
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
+++ G ++AA P + G ++ T SN+G
Sbjct: 112 HINVKGYILGAKAALPALYATE-GSVIFTVSNAG 144
Score = 27.7 bits (62), Expect = 2.4
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 121
+++ G ++AA P + G ++ T SN+G
Sbjct: 112 HINVKGYILGAKAALPALYATE-GSVIFTVSNAG 144
>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 = 27.4 bits (61), Expect = 2.5
Identities = 12/49 (24%), Positives = 26/49 (53%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
++F + + W+ V D++L G+F S+ M +Q G ++ +S +
Sbjct: 110 QNFFDLDEEGWEFVFDLNLNGSFLPSQVFGKDMLEQKGGSIINISSMNA 158
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 27.6 bits (62), Expect = 2.6
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+V++ GA +++A P M+ + G +V S GL+ G Y
Sbjct: 107 EVNVFGAVAMTKAVLPGMRARRRGHIVNITSMGGLITMPGIGYY 150
Score = 27.6 bits (62), Expect = 2.6
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 131
+V++ GA +++A P M+ + G +V S GL+ G Y
Sbjct: 107 EVNVFGAVAMTKAVLPGMRARRRGHIVNITSMGGLITMPGIGYY 150
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 27.6 bits (62), Expect = 2.6
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
DV++ G S+ A P M + G +V AS +G + G A Y
Sbjct: 107 DVNVYGVILGSKLAAPRMVPRGRGHVVNVASLAGKIPVPGMATYC 151
Score = 27.6 bits (62), Expect = 2.7
Identities = 17/58 (29%), Positives = 26/58 (44%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
F D + + DV++ G S+ A P M + G +V AS +G + G A Y
Sbjct: 93 PFLDEPDAVTRRILDVNVYGVILGSKLAAPRMVPRGRGHVVNVASLAGKIPVPGMATY 150
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 27.3 bits (61), Expect = 2.7
Identities = 18/48 (37%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQN------YGRLVMTASNSGLL 55
DW+ V V+L G RA P M G +V TAS +GLL
Sbjct: 106 DWEWVLGVNLWGVIHGVRAFTPLMLAAAEKDPAYEGHIVNTASMAGLL 153
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 27.4 bits (61), Expect = 3.0
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 20 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 54
++L GA + P +K G +V ASN+G+
Sbjct: 108 KINLNGAIYTTYEFLPLLKLSKNGAIVNIASNAGI 142
Score = 27.4 bits (61), Expect = 3.0
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL 122
++L GA + P +K G +V ASN+G+
Sbjct: 108 KINLNGAIYTTYEFLPLLKLSKNGAIVNIASNAGI 142
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 27.0 bits (60), Expect = 4.0
Identities = 14/50 (28%), Positives = 24/50 (48%)
Query: 1 ILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
I + +I Q V D+++ A +V++A MK + GR+V S
Sbjct: 78 IALPQPLGKIDLAALQDVYDLNVRAAVQVTQAFLEGMKLREQGRIVNICS 127
Score = 25.8 bits (57), Expect = 9.3
Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 84 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYS 132
Q V D+++ A +V++A MK + GR+V S + + G + +YS
Sbjct: 93 QDVYDLNVRAAVQVTQAFLEGMKLREQGRIVNICSRA-IFGALDRTSYS 140
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 26.8 bits (60), Expect = 4.0
Identities = 21/81 (25%), Positives = 37/81 (45%), Gaps = 9/81 (11%)
Query: 52 SGLLGNFGQANYRFLSQQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQNYG 111
+ L+ N G ++ L Q E +E+ L ++LT +++RA P ++ Q
Sbjct: 82 NVLINNAGVNHFALLEDQDPE-------AIERLL--ALNLTAPMQLTRALLPLLRAQPSA 132
Query: 112 RLVMTASNSGLLGNFGQANYS 132
+V S G +G G A+Y
Sbjct: 133 MVVNVGSTFGSIGYPGYASYC 153
>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 = 26.8 bits (60), Expect = 4.4
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 4/27 (14%)
Query: 114 VMTASNSGLLGNFGQANY----SFLAG 136
V+ +S +G+LG+ GQANY +FL
Sbjct: 325 VLFSSAAGVLGSPGQANYAAANAFLDA 351
Score = 26.5 bits (59), Expect = 6.2
Identities = 10/18 (55%), Positives = 15/18 (83%)
Query: 46 VMTASNSGLLGNFGQANY 63
V+ +S +G+LG+ GQANY
Sbjct: 325 VLFSSAAGVLGSPGQANY 342
>gnl|CDD|184104 PRK13513, PRK13513, putative outer membrane receptor; Provisional.
Length = 659
Score = 27.0 bits (60), Expect = 4.7
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 7/38 (18%)
Query: 6 SFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYG 43
S+A ++ +WQ+ D LTG R+ + QNYG
Sbjct: 363 SWALFAEDEWQMTNDFALTGGIRMD-------QDQNYG 393
>gnl|CDD|216946 pfam02247, Como_LCP, Large coat protein. This family contains the
large coat protein (LCP) of the comoviridae viral
family.
Length = 351
Score = 26.7 bits (59), Expect = 4.8
Identities = 13/41 (31%), Positives = 16/41 (39%), Gaps = 3/41 (7%)
Query: 41 NYGRLVMTASNSGLLGNFGQANYRFLSQQLLEW---CETNV 78
N G + NSG G Y SQ ++W CE V
Sbjct: 64 NTGCGLAICFNSGNRGAASTDIYTTCSQDAIKWNPACEKAV 104
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 26.5 bits (59), Expect = 5.2
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 8/54 (14%)
Query: 7 FARISDTDWQLVQ-------DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
+ D + + +V++ G ++AA P +K G ++ T SNS
Sbjct: 94 NTSLVDIPAETLDTAFDEIFNVNVKGYLLGAKAALPALKASG-GSMIFTLSNSS 146
Score = 25.7 bits (57), Expect = 9.9
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 88 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 121
+V++ G ++AA P +K G ++ T SNS
Sbjct: 114 NVNVKGYLLGAKAALPALKASG-GSMIFTLSNSS 146
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 26.2 bits (58), Expect = 6.1
Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 17/84 (20%)
Query: 53 GLLGNFGQANYRFLS----QQLLEWCETNVLNVEQQLVQDVHLTGAFRVSRAAWPHMKKQ 108
GL N G Y LS QQ+ EQQ + G +++ P M
Sbjct: 77 GLFNNAGFGVYGPLSTISRQQM-----------EQQF--STNFFGTHQLTMLLLPAMLPH 123
Query: 109 NYGRLVMTASNSGLLGNFGQANYS 132
GR+VMT+S GL+ G+ Y+
Sbjct: 124 GEGRIVMTSSVMGLISTPGRGAYA 147
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 26.3 bits (58), Expect = 7.0
Identities = 18/64 (28%), Positives = 27/64 (42%)
Query: 82 EQQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKI 141
E + V DV++ G F + A M G +V S + +G G Y+ L +
Sbjct: 119 EFEKVFDVNVKGVFLGMKHAARIMIPLKKGSIVSLCSVASAIGGLGPHAYTGSKHAVLGL 178
Query: 142 ERSV 145
RSV
Sbjct: 179 TRSV 182
Score = 25.9 bits (57), Expect = 10.0
Identities = 13/54 (24%), Positives = 24/54 (44%)
Query: 10 ISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANY 63
+ ++++ V DV++ G F + A M G +V S + +G G Y
Sbjct: 115 VELSEFEKVFDVNVKGVFLGMKHAARIMIPLKKGSIVSLCSVASAIGGLGPHAY 168
>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 = 26.0 bits (57), Expect = 7.6
Identities = 10/39 (25%), Positives = 22/39 (56%)
Query: 15 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
W + DV++ +++A P M+K+ G +V+ +S +
Sbjct: 112 WDKILDVNVKATALMTKAVVPEMEKRGGGSVVIVSSVAA 150
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 25.9 bits (57), Expect = 8.0
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 14 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
DW+ + D + G ++RA P M ++N+G ++ S +G
Sbjct: 98 DWETMIDTNNKGLVYMTRAVLPGMVERNHGHIINIGSTAG 137
>gnl|CDD|130850 TIGR01790, carotene-cycl, lycopene cyclase family protein. This
family includes lycopene beta and epsilion cyclases
(which form beta and delta carotene, respectively) from
bacteria and plants as well as the plant
capsanthin/capsorubin and neoxanthin cyclases which
appear to have evolved from the plant lycopene cyclases.
The plant lycopene epsilon cyclases also transform
neurosporene to alpha zeacarotene.
Length = 388
Score = 26.2 bits (58), Expect = 8.4
Identities = 8/38 (21%), Positives = 13/38 (34%)
Query: 107 KQNYGRLVMTASNSGLLGNFGQANYSFLAGGALKIERS 144
YG + T + LL + +L A+ E
Sbjct: 76 GTAYGSVDSTRLHEELLQKCPEGGVLWLERKAIHAEAD 113
>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 = 25.9 bits (57), Expect = 8.5
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLV 46
K AR W+ + D +LTGA V + A + RLV
Sbjct: 80 KPLARTKPAAWRRILDANLTGAALVLKHALALLAAG--ARLV 119
>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 = 25.9 bits (57), Expect = 8.6
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 53
K ++ +W+LV D +LTGAF A P + ++ G +V S +G
Sbjct: 88 KPVEELTPEEWRLVLDTNLTGAFYCIHKAAPALLRRGGGTIVNVGSLAG 136
>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 = 26.0 bits (58), Expect = 9.0
Identities = 9/45 (20%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 7 FARISDTDWQLVQDVHLTGAFRVSRAAWPH-MKKQNYGRLV-MTA 49
+S ++ V D+ L G F ++A ++ ++ G ++ ++A
Sbjct: 97 AESLSPNGFKTVIDIDLNGTFNTTKAVGKRLIEAKHGGSILNISA 141
>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 = 26.0 bits (57), Expect = 9.3
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 5 KSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 50
+ + +W + V+LTG + +SR + K GR++ AS
Sbjct: 89 GILSSLLLEEWDRILSVNLTGPYELSRYCRDELIKNK-GRIINIAS 133
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
0.321 0.133 0.404
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,127,473
Number of extensions: 598451
Number of successful extensions: 800
Number of sequences better than 10.0: 1
Number of HSP's gapped: 774
Number of HSP's successfully gapped: 308
Length of query: 146
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 58
Effective length of database: 7,034,450
Effective search space: 407998100
Effective search space used: 407998100
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 (21.9 bits)
S2: 54 (24.4 bits)