RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14908
(61 letters)
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 243
Score = 56.1 bits (136), Expect = 2e-11
Identities = 26/46 (56%), Positives = 33/46 (71%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG G GIGR LAL++ GA VV +DI+EKG ETA +V++ G K
Sbjct: 4 ITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAGGK 49
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 53.1 bits (128), Expect = 3e-10
Identities = 20/44 (45%), Positives = 25/44 (56%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG G GIGRE AL + GA VV DI E TA+ ++ G
Sbjct: 320 VTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRAAG 363
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 48.1 bits (115), Expect = 2e-08
Identities = 18/52 (34%), Positives = 29/52 (55%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNF 52
R ITG G+GR +AL++ G + D++E+G ET + ++E G F
Sbjct: 1 NRVMITGAASGLGRAIALRWAREGWRLALADVNEEGGEETLKLLREAGGDGF 52
>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 = 43.3 bits (103), Expect = 7e-07
Identities = 18/46 (39%), Positives = 25/46 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG GIGR +AL+ + GA V D SE+ ET + +K G
Sbjct: 5 VTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIKALGGN 50
>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 = 43.3 bits (102), Expect = 7e-07
Identities = 19/44 (43%), Positives = 27/44 (61%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIGRE AL Y +GATV+ + +E+ + A H+ E G
Sbjct: 9 VTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEG 52
>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 = 43.0 bits (102), Expect = 9e-07
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIGR +A + GA VV D +E+ E A G
Sbjct: 3 VTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAAIEALGG 46
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 42.5 bits (101), Expect = 2e-06
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG GIGR +AL+ + GA VV D +E+ A ++ G +
Sbjct: 10 VTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAGGE 55
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 42.0 bits (99), Expect = 2e-06
Identities = 18/44 (40%), Positives = 22/44 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIGR AL + GA VV D G ET ++E G
Sbjct: 12 VTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREAG 55
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 41.4 bits (98), Expect = 3e-06
Identities = 16/24 (66%), Positives = 18/24 (75%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG G GIGRE AL Y HGATV+
Sbjct: 17 VTGAGDGIGREAALTYARHGATVI 40
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 41.6 bits (98), Expect = 3e-06
Identities = 15/48 (31%), Positives = 21/48 (43%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
R +TG GIGR AL+ + GA + D G +T + G
Sbjct: 1 KRCFVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARALG 48
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 41.0 bits (97), Expect = 4e-06
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNET 40
+TG GIG +AL + GA V+G D + +
Sbjct: 13 VTGAAQGIGYAVALAFVEAGAKVIGFDQAFLTQEDY 48
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 41.0 bits (97), Expect = 5e-06
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFH 53
+TG GIG E+AL GA VV D++++ A+ +++ G K
Sbjct: 9 VTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQKAGGKAIG 57
>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 = 40.3 bits (95), Expect = 9e-06
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDIS-EKGNNETAQHVKERGYK 50
+TG GIGR +AL+ GA V+ S E+G E + +K G K
Sbjct: 3 VTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELKAYGVK 49
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 40.2 bits (94), Expect = 9e-06
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG GIG +A + HGA ++ +DIS + + A + RG++
Sbjct: 11 ITGALQGIGEGIARVFARHGANLILLDISPEI-EKLADELCGRGHR 55
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 39.8 bits (94), Expect = 1e-05
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV-GVDISEKGNNETAQHVKERG 48
+TG GIGR +A GA VV DI+E+ E + +KE G
Sbjct: 10 VTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIKEEG 54
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 39.4 bits (92), Expect = 2e-05
Identities = 18/48 (37%), Positives = 29/48 (60%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNF 52
ITG G GIG+E+A+ + + GA+VV DI+ N +++ G + F
Sbjct: 16 ITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLGGQAF 63
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 39.1 bits (91), Expect = 2e-05
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKG 36
+TG G+G ++A Y + GATV+ V +K
Sbjct: 11 VTGASQGLGEQVAKAYAAAGATVILVARHQKK 42
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 39.1 bits (92), Expect = 3e-05
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIGR +A++ + GA V+ VDI TA+ V+ G
Sbjct: 11 VTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEAAG 54
>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 = 38.6 bits (90), Expect = 3e-05
Identities = 17/51 (33%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGV-DISEKGN-NETAQHVKERGYKNFH 53
+TG GIGR +A GA VV SE+ A +KE G
Sbjct: 10 VTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGRAA 60
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 38.3 bits (90), Expect = 4e-05
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIG +A ++ + GA VV D +E+ A + G
Sbjct: 10 VTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEILAGG 53
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 38.2 bits (89), Expect = 5e-05
Identities = 15/44 (34%), Positives = 19/44 (43%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG G GIGR A + GA VV D + A + G
Sbjct: 10 VTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAAGG 53
>gnl|CDD|187609 cd05351, XR_like_SDR_c, xylulose reductase-like, classical (c)
SDRs. Members of this subgroup include proteins
identified as L-xylulose reductase (XR) and carbonyl
reductase; they are members of the SDR family. XR,
catalyzes the NADP-dependent reduction of L-xyulose and
other sugars. Tetrameric mouse carbonyl reductase is
involved in the metabolism of biogenic and xenobiotic
carbonyl compounds. This subgroup also includes
tetrameric chicken liver D-erythrulose reductase, which
catalyzes the reduction of D-erythrulose to D-threitol.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser).
Length = 244
Score = 38.2 bits (89), Expect = 5e-05
Identities = 13/29 (44%), Positives = 14/29 (48%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVVGV 30
R +TG G GIGR GA VV V
Sbjct: 9 RALVTGAGKGIGRATVKALAKAGARVVAV 37
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 38.2 bits (89), Expect = 5e-05
Identities = 19/46 (41%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGN--NETAQHVKERG 48
+TG+G GIGR +A++ G+ VV V+ ++ NET + VKE G
Sbjct: 11 VTGSGRGIGRAIAVRLAKEGSLVV-VNAKKRAEEMNETLKMVKENG 55
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 38.0 bits (89), Expect = 5e-05
Identities = 13/46 (28%), Positives = 18/46 (39%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG G+G A GATV D E A ++ G +
Sbjct: 12 VTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEAAGGR 57
>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 = 38.2 bits (89), Expect = 5e-05
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG GIG+ +A + G V D++E+ ETA+ + + G K
Sbjct: 5 VTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQAGGK 50
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 37.9 bits (89), Expect = 6e-05
Identities = 13/44 (29%), Positives = 20/44 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIG+ A + + GA VV D+ E+ A +
Sbjct: 427 VTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAELGGPD 470
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 37.9 bits (88), Expect = 6e-05
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
+TG GIGRE A + + GA VV D++ + A + +
Sbjct: 419 VTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQ 461
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 37.8 bits (88), Expect = 6e-05
Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG GIG+ A+ GA V+ VDI+E +ET +K G K
Sbjct: 11 ITGASTGIGQASAIALAQEGAYVLAVDIAEAV-SETVDKIKSNGGK 55
>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 = 38.0 bits (89), Expect = 6e-05
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFTI 57
+TG GIG +A GA V VD + + E ++ GY F + +
Sbjct: 3 VTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRRYGYP-FATYKL 54
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 38.0 bits (89), Expect = 7e-05
Identities = 16/38 (42%), Positives = 19/38 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQ 42
ITG GIGR AL + + G V DI+E G A
Sbjct: 6 ITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAA 43
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 37.6 bits (88), Expect = 7e-05
Identities = 15/41 (36%), Positives = 19/41 (46%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVK 45
ITG GIG A + + GA V GVD +K + H
Sbjct: 10 ITGAASGIGLAQARAFLAQGAQVYGVDKQDKPDLSGNFHFL 50
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This
family appears to be have methyltransferase activity.
Length = 151
Score = 37.4 bits (87), Expect = 7e-05
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 6 TGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFH 53
GTG+ + LA + GA VVG+DISE+ + ++ K+ GY+N
Sbjct: 12 CGTGY-LTFILAEKLGP-GAEVVGIDISEEAIEKAKENAKKLGYENVE 57
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 37.7 bits (88), Expect = 8e-05
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI 32
+TG G GIGR AL + + GA VV DI
Sbjct: 11 VTGAGGGIGRAHALAFAAEGARVVVNDI 38
>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 = 37.1 bits (86), Expect = 1e-04
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISE 34
IT GIGR +AL + GA V+ DI+E
Sbjct: 7 ITAAAQGIGRAIALAFAREGANVIATDINE 36
>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 = 37.0 bits (86), Expect = 1e-04
Identities = 15/46 (32%), Positives = 21/46 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG GIG +A + GA VV D E+G A+ + G
Sbjct: 6 VTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDAGGS 51
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 37.0 bits (86), Expect = 1e-04
Identities = 11/44 (25%), Positives = 16/44 (36%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIG +A + GA V D+ A +
Sbjct: 12 VTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDV 55
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 36.5 bits (85), Expect = 2e-04
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGN-NETAQHVKERGYK 50
ITG GIGR +A+ + GA + V + E + NET Q V++ G K
Sbjct: 51 ITGGDSGIGRAVAVLFAKEGADIAIVYLDEHEDANETKQRVEKEGVK 97
>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 = 36.3 bits (84), Expect = 2e-04
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKE 46
ITG G G+G A++ GA + VD++E+G + E
Sbjct: 8 ITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLE 49
>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 = 36.3 bits (84), Expect = 2e-04
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFTIPIRQ 61
+TG G+G+ +A+ GA +VG SE +ET Q V+ G + F + T +
Sbjct: 10 VTGANTGLGQGIAVGLAEAGADIVGAGRSEP--SETQQQVEALG-RRFLSLTADLSD 63
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 35.8 bits (83), Expect = 3e-04
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG +GIG +A Y GAT+V DI+++ ++ +E G +
Sbjct: 15 ITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRELGIE 60
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 35.9 bits (83), Expect = 3e-04
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEK-GNNETAQHVKERG 48
+TG G GIG+ +A+ GA V D+ G ETA+H++ G
Sbjct: 13 VTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAEHIEAAG 57
>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 = 36.0 bits (83), Expect = 3e-04
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNF 52
+TG GIG+ +A GA+VV D+ +G A +++ G +
Sbjct: 4 VTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAGGQAI 51
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 35.0 bits (81), Expect = 3e-04
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 7 GTGHG-IGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFH 53
G G G + ELA + GA V GVD+S + ++ K
Sbjct: 9 GCGTGSLAIELARLF--PGARVTGVDLSPEMLELARENAKLALGPRIT 54
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 35.7 bits (83), Expect = 4e-04
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG G+GR A + GA VV + E+G A ++ G
Sbjct: 13 ITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRAAG 56
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 35.3 bits (82), Expect = 4e-04
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG GIGR LA++ GA +V +E AQ + + G
Sbjct: 6 ITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADHG 49
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 35.3 bits (82), Expect = 4e-04
Identities = 16/30 (53%), Positives = 20/30 (66%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISE 34
+TG GIGR +AL+ + GA VV VD SE
Sbjct: 13 VTGAAQGIGRGVALRAAAEGARVVLVDRSE 42
>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 = 35.4 bits (82), Expect = 5e-04
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV----GVDISEKGNNETA 41
+TG G G+GR AL + GA VV G D G + +A
Sbjct: 10 VTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSA 50
>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 = 35.1 bits (81), Expect = 5e-04
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVD 31
+TG GIGR +A GATV+ +D
Sbjct: 3 VTGAAQGIGRAVARHLLQAGATVIALD 29
>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 = 35.0 bits (81), Expect = 6e-04
Identities = 10/49 (20%), Positives = 17/49 (34%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFH 53
ITG IG+ S GA ++ DI+ + + +
Sbjct: 7 ITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELTNLYKNRVI 55
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 34.9 bits (80), Expect = 6e-04
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG G GIGR AL GA V+ DI ++ T + + G
Sbjct: 21 VTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEITNLG 64
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 35.1 bits (81), Expect = 6e-04
Identities = 17/40 (42%), Positives = 20/40 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHV 44
ITG G GIG A + + GATVV DI + A V
Sbjct: 12 ITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEV 51
>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 = 34.9 bits (81), Expect = 7e-04
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG ELA GA +V
Sbjct: 8 ITGASSGIGEELAYHLARLGARLV 31
>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 = 35.1 bits (81), Expect = 7e-04
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG GIGR +AL+ GATVV
Sbjct: 8 VTGASRGIGRAIALRLAKAGATVV 31
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 35.1 bits (81), Expect = 7e-04
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI 32
+TG GIGR A+ GA VV
Sbjct: 14 VTGASSGIGRACAVALAQRGARVVAAAR 41
>gnl|CDD|212492 cd05327, retinol-DH_like_SDR_c_like, retinol dehydrogenase
(retinol-DH), Light dependent Protochlorophyllide
(Pchlide) OxidoReductase (LPOR) and related proteins,
classical (c) SDRs. Classical SDR subgroup containing
retinol-DHs, LPORs, and related proteins. Retinol is
processed by a medium chain alcohol dehydrogenase
followed by retinol-DHs. Pchlide reductases act in
chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. This subgroup includes the human proteins: retinol
dehydrogenase -12, -13 ,and -14,
dehydrogenase/reductase SDR family member (DHRS)-12 ,
-13 and -X (a DHRS on chromosome X), and WWOX (WW
domain-containing oxidoreductase), as well as a
Neurospora crassa SDR encoded by the blue light
inducible bli-4 gene. SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 269
Score = 34.9 bits (81), Expect = 7e-04
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG+E A + GA V+
Sbjct: 6 ITGANSGIGKETARELAKRGAHVI 29
>gnl|CDD|187625 cd05367, SPR-like_SDR_c, sepiapterin reductase (SPR)-like,
classical (c) SDRs. Human SPR, a member of the SDR
family, catalyzes the NADP-dependent reduction of
sepiaptern to 7,8-dihydrobiopterin (BH2). In addition
to SPRs, this subgroup also contains Bacillus cereus
yueD, a benzil reductase, which catalyzes the
stereospecific reduction of benzil to (S)-benzoin. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 241
Score = 35.0 bits (81), Expect = 7e-04
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 5 ITGTGHGIGRELALQYCS--HGATVVGVDISEKGNNETAQHV 44
+TG GIGR LA + + VV + SE+ E + +
Sbjct: 4 LTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEEL 45
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 35.0 bits (81), Expect = 7e-04
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETA 41
+TG GIG +A +Y + GA VV DI A
Sbjct: 11 LTGAASGIGEAVAERYLAEGARVVIADIKPARARLAA 47
>gnl|CDD|187621 cd05363, SDH_SDR_c, Sorbitol dehydrogenase (SDH), classical (c)
SDR. This bacterial subgroup includes Rhodobacter
sphaeroides SDH, and other SDHs. SDH preferentially
interconverts D-sorbitol (D-glucitol) and D-fructose,
but also interconverts L-iditol/L-sorbose and
galactitol/D-tagatose. SDH is NAD-dependent and is a
dimeric member of the SDR family. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 254
Score = 34.9 bits (80), Expect = 7e-04
Identities = 16/45 (35%), Positives = 20/45 (44%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGY 49
ITG+ GIGR A Y GA V DI+ + TA +
Sbjct: 8 ITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGPAAC 52
>gnl|CDD|187589 cd05328, 3alpha_HSD_SDR_c, alpha hydroxysteroid dehydrogenase
(3alpha_HSD), classical (c) SDRs. Bacterial
3-alpha_HSD, which catalyzes the NAD-dependent
oxidoreduction of hydroxysteroids, is a dimeric member
of the classical SDR family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 34.4 bits (79), Expect = 0.001
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISE 34
ITG GIG A G TV+G+D+ E
Sbjct: 4 ITGAASGIGAATAELLEDAGHTVIGIDLRE 33
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 34.2 bits (79), Expect = 0.001
Identities = 12/46 (26%), Positives = 21/46 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG G+GR +A GA + +D++++ E G +
Sbjct: 10 ITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGALGTE 55
>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 = 33.8 bits (78), Expect = 0.001
Identities = 12/37 (32%), Positives = 14/37 (37%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETA 41
ITG GIG A GA V +D +E
Sbjct: 5 ITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAAE 41
>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 = 33.9 bits (78), Expect = 0.002
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI----SEKGNNETAQHVKERGYKNF 52
+TG GIG+ +AL+ GA VV I S+ E A ++E G K
Sbjct: 3 VTGGSRGIGKAIALRLAERGADVV---INYRKSKDAAAEVAAEIEELGGKAV 51
>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 = 33.7 bits (78), Expect = 0.002
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVG 29
ITG GIG LAL + G V+
Sbjct: 5 ITGCSSGIGLALALALAAQGYRVIA 29
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 33.7 bits (77), Expect = 0.002
Identities = 17/49 (34%), Positives = 26/49 (53%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFH 53
+TG GIG+E+AL+ GA V D+++ G N A + + G K
Sbjct: 12 VTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEINKAGGKAIG 60
>gnl|CDD|187664 cd09763, DHRS1-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) -like, classical (c) SDRs.
This subgroup includes human DHRS1 and related
proteins. These are members of the classical SDR
family, with a canonical Gly-rich NAD-binding motif
and the typical YXXXK active site motif. However, the
rest of the catalytic tetrad is not strongly conserved.
DHRS1 mRNA has been detected in many tissues, liver,
heart, skeletal muscle, kidney and pancreas; a longer
transcript is predominantly expressed in the liver , a
shorter one in the heart. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 265
Score = 33.6 bits (77), Expect = 0.002
Identities = 20/48 (41%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATV--VGVDISEKGNNETAQHVKERGYK 50
+TG GIGR +ALQ GATV G I TA+ ++ RG K
Sbjct: 8 VTGASRGIGRGIALQLGEAGATVYITGRTI-LPQLPGTAEEIEARGGK 54
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 33.6 bits (77), Expect = 0.002
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIG+ A GA+VV DI+ +G A+ + G
Sbjct: 11 VTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQIVADG 54
>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 = 33.3 bits (76), Expect = 0.002
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIGR +A + GA V+ VD SE +E + G
Sbjct: 9 VTGAAQGIGRGVAERLAGEGARVLLVDRSELV-HEVLAEILAAG 51
>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 = 33.1 bits (76), Expect = 0.003
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFT 56
+TG GIG +A GA +V +E+ E AQ + E+ FT
Sbjct: 10 VTGASRGIGFGIASGLAEAGANIVINSRNEE-KAEEAQQLIEKEGVEATAFT 60
>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 = 33.1 bits (76), Expect = 0.003
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI-SEKGNNETAQHVKERGYK 50
ITG GIGR +A + + G +V D+ E+ T Q + E GY
Sbjct: 7 ITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEISEAGYN 53
>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 = 32.8 bits (75), Expect = 0.003
Identities = 16/32 (50%), Positives = 18/32 (56%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKG 36
ITG GIGRE AL + +G V DI E G
Sbjct: 5 ITGAASGIGRETALLFARNGWFVGLYDIDEDG 36
>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 = 32.7 bits (75), Expect = 0.004
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFTIPI 59
+TG GIG +A + + GA VV DI + E A+ V E +
Sbjct: 6 VTGGASGIGLAIAKRLAAEGAAVVVADI----DPEIAEKVAEAAQGGPRALGVQC 56
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 32.8 bits (75), Expect = 0.004
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG+ GIG LA +GA ++ DI+ + +++ G K
Sbjct: 11 NILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGIK 59
>gnl|CDD|187613 cd05355, SDR_c1, classical (c) SDR, subgroup 1. These proteins
are members of the classical SDR family, with a
canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 270
Score = 32.6 bits (75), Expect = 0.004
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGN--NETAQHVKERGYK 50
ITG GIGR +A+ + GA V + E+ + ET + ++E G K
Sbjct: 31 ITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLIEEEGRK 78
>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 = 32.6 bits (75), Expect = 0.004
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEK 35
ITG GIG+ LA + GA V+ V SE
Sbjct: 6 ITGGSSGIGKALAKELVKEGANVIIVARSES 36
>gnl|CDD|234094 TIGR03026, NDP-sugDHase, nucleotide sugar dehydrogenase. Enzymes
in this family catalyze the NAD-dependent
alcohol-to-acid oxidation of nucleotide-linked sugars.
Examples include UDP-glucose 6-dehydrogenase (1.1.1.22)
, GDP-mannose 6-dehydrogenase (1.1.1.132) ,
UDP-N-acetylglucosamine 6-dehydrogenase (1.1.1.136),
UDP-N-acetyl-D-galactosaminuronic acid dehydrogenase
and UDP-N-acetyl-D-mannosaminuronic acid dehydrogenase.
These enzymes are most often involved in the
biosynthesis of polysaccharides and are often found in
operons devoted to that purpose. All of these enzymes
contain three Pfam domains, pfam03721, pfam00984, and
pfam03720 for the N-terminal, central, and C-terminal
regions respectively.
Length = 409
Score = 32.6 bits (75), Expect = 0.005
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVDISEK 35
M+ + G G+ +G LA G V GVDI ++
Sbjct: 1 MKIAVIGLGY-VGLPLAALLADLGHDVTGVDIDQE 34
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 32.6 bits (75), Expect = 0.005
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 5 ITGTGHGIGRELALQYCSHGATV 27
ITG GIG+ LA +Y GAT+
Sbjct: 7 ITGASSGIGQALAREYARQGATL 29
>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 = 32.6 bits (74), Expect = 0.005
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQ 42
+TG GHGIG+++ L + G VV DI E+ + A+
Sbjct: 6 VTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAE 43
>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 = 32.4 bits (74), Expect = 0.005
Identities = 19/46 (41%), Positives = 25/46 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG GIGR AL + GA VV S + +E A+ V+E G +
Sbjct: 5 ITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRELGGE 50
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 32.4 bits (74), Expect = 0.005
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG G G+G +AL + GA V+ +E +E A+ ++ G
Sbjct: 15 VTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAAG 58
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 32.2 bits (74), Expect = 0.007
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEK 35
+TG GIG ELA + + GA + VD+ E
Sbjct: 14 VTGAARGIGAELARRLHARGAKLALVDLEEA 44
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 32.1 bits (74), Expect = 0.008
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV-GVDISEKGNNETAQHVKERGYK 50
+TG GIGR +A + + GA VV SE G + G K
Sbjct: 10 VTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGALGGK 56
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 31.8 bits (73), Expect = 0.008
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG +AL+ GA +V
Sbjct: 11 ITGASRGIGLAIALRAARDGANIV 34
>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 = 31.8 bits (73), Expect = 0.010
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG G GIG+ +A + GA+V
Sbjct: 8 ITGGGTGIGKAIAKAFAELGASVA 31
>gnl|CDD|219760 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 30.8 bits (70), Expect = 0.010
Identities = 13/56 (23%), Positives = 19/56 (33%), Gaps = 3/56 (5%)
Query: 7 GTGHG-IGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFTIPIRQ 61
G G G + R L G GVDIS A+ + G + + +
Sbjct: 4 GCGTGTLLRALLEAL--PGLEYTGVDISPAALEAAAERLAALGLLDAVRVRLDVLD 57
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 31.6 bits (72), Expect = 0.010
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 3/52 (5%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK-NFHNF 55
ITGT G+G +A Q G V+ IS N E + ++ FH+
Sbjct: 6 ITGTSQGLGEAIANQLLEKGTHVIS--ISRTENKELTKLAEQYNSNLTFHSL 55
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 31.6 bits (72), Expect = 0.010
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISE 34
+TG GIG +A + + GA V +D SE
Sbjct: 20 VTGGASGIGHAIAELFAAKGARVALLDRSE 49
>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 = 31.7 bits (72), Expect = 0.011
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG GIG + + GA V ++K +E +E+G+K
Sbjct: 11 VTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWREKGFK 56
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 31.6 bits (72), Expect = 0.012
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
ITG G GIGR +A+ G V + +E+ A+ V+ G K
Sbjct: 12 ITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAYGVK 57
>gnl|CDD|187614 cd05356, 17beta-HSD1_like_SDR_c, 17-beta-hydroxysteroid
dehydrogenases (17beta-HSDs) types -1, -3, and -12,
-like, classical (c) SDRs. This subgroup includes
various 17-beta-hydroxysteroid dehydrogenases and
3-ketoacyl-CoA reductase, these are members of the SDR
family, and contain the canonical active site tetrad
and glycine-rich NAD-binding motif of the classical
SDRs. 3-ketoacyl-CoA reductase (KAR, aka 17beta-HSD
type 12, encoded by HSD17B12) acts in fatty acid
elongation; 17beta- hydroxysteroid dehydrogenases are
isozymes that catalyze activation and inactivation of
estrogen and androgens, and include members of the SDR
family. 17beta-estradiol dehydrogenase (aka 17beta-HSD
type 1, encoded by HSD17B1) converts estrone to
estradiol. Estradiol is the predominant female sex
hormone. 17beta-HSD type 3 (aka testosterone
17-beta-dehydrogenase 3, encoded by HSD17B3) catalyses
the reduction of androstenedione to testosterone, it
also accepts estrogens as substrates. This subgroup
also contains a putative steroid dehydrogenase let-767
from Caenorhabditis elegans, mutation in which results
in hypersensitivity to cholesterol limitation. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 239
Score = 31.4 bits (72), Expect = 0.013
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKE 46
+TG GIG+ A + G V+ + +++ + A+ ++E
Sbjct: 6 VTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEE 47
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 31.4 bits (71), Expect = 0.015
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFT 56
ITG G+G+ +A+ GA +VGV ++E ET V+ G K FH T
Sbjct: 13 ITGCNTGLGQGMAIGLAKAGADIVGVGVAEA--PETQAQVEALGRK-FHFIT 61
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 228
Score = 31.1 bits (71), Expect = 0.015
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGV 30
ITG GIG LA ++ G TV+
Sbjct: 10 ITGGTSGIGLALARKFLEAGNTVIIT 35
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 31.1 bits (71), Expect = 0.015
Identities = 10/44 (22%), Positives = 18/44 (40%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG G G A + G +V D+ + + ++ +G
Sbjct: 11 ITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQG 54
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 31.1 bits (70), Expect = 0.015
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGY 49
ITG GIG ++ GA VV D+ + G + H++ G+
Sbjct: 11 ITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGF 55
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 31.0 bits (70), Expect = 0.016
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG++LAL Y G V+
Sbjct: 6 ITGATSGIGKQLALDYAKQGWQVI 29
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 31.1 bits (71), Expect = 0.018
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKE 46
ITG GIGR A + GA VV + + E Q V E
Sbjct: 11 ITGASSGIGRAAAKLFAREGAKVV---VGARRQAELDQLVAE 49
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 30.7 bits (70), Expect = 0.020
Identities = 15/38 (39%), Positives = 17/38 (44%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQ 42
ITG GIG A + GA V D+ E ETA
Sbjct: 10 ITGGARGIGLATARALAALGARVAIGDLDEALAKETAA 47
>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 = 0.020
Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFH 53
+TG G+G +A + GA VV ++ + E+A+ V +
Sbjct: 5 VTGASRGLGAAIARSFAREGARVV---VNYYRSTESAEAVAAEAGERAI 50
>gnl|CDD|223749 COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase
[Cell envelope biogenesis, outer membrane].
Length = 436
Score = 30.7 bits (70), Expect = 0.022
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVDISEK 35
+ G G+ +G LA + S G V+GVDI++K
Sbjct: 10 ATIGVIGLGY-VGLPLAAAFASAGFKVIGVDINQK 43
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 30.7 bits (70), Expect = 0.023
Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVV--GVD 31
ITG GIG E A Q+ + GA V G D
Sbjct: 8 TALITGGTSGIGLETARQFLAEGARVAITGRD 39
>gnl|CDD|217692 pfam03721, UDPG_MGDP_dh_N, UDP-glucose/GDP-mannose dehydrogenase
family, NAD binding domain. The
UDP-glucose/GDP-mannose dehydrogenaseses are a small
group of enzymes which possesses the ability to
catalyze the NAD-dependent 2-fold oxidation of an
alcohol to an acid without the release of an aldehyde
intermediate.
Length = 188
Score = 30.7 bits (70), Expect = 0.024
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVDISEK 35
MR + G G+ +G A+ G VVGVDI++
Sbjct: 1 MRIAVIGLGY-VGLPTAVCLAEIGHDVVGVDINQS 34
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 30.7 bits (70), Expect = 0.025
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
ITG GIG ELA Q G ++ V E A+ ++++
Sbjct: 11 ITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELEDK 53
>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 = 30.8 bits (70), Expect = 0.025
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKG 36
ITG G G+GR L ++ + GA V +D S +
Sbjct: 9 ITGGGSGLGRALVERFVAEGAKVAVLDRSAEK 40
>gnl|CDD|223574 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 257
Score = 30.6 bits (66), Expect = 0.025
Identities = 14/48 (29%), Positives = 18/48 (37%), Gaps = 1/48 (2%)
Query: 9 GHGIGR-ELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNF 55
G G GR L + GA VVGVD+S + + G
Sbjct: 56 GCGTGRLALLARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFV 103
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 30.4 bits (69), Expect = 0.028
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQ 42
+TG GIGR +A + GA V D+SE TA
Sbjct: 16 VTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAA 53
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 30.5 bits (69), Expect = 0.028
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVVGV 30
R +TG GIG A Q+ GATVV V
Sbjct: 42 RILLTGASSGIGEAAAEQFARRGATVVAV 70
>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 = 30.4 bits (69), Expect = 0.029
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
+TG G+G A + GA VV DI ++ A + +
Sbjct: 10 VTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAELGDA 52
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 30.5 bits (69), Expect = 0.032
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG G GIG +A + G V VD +E+ A + + G
Sbjct: 7 VTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSKDG 50
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 29.5 bits (67), Expect = 0.033
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 7 GTGHGIGRELALQYCSHGATVVGVDISEK 35
G G G+ E + GA V GVD+S +
Sbjct: 4 GCGTGLLAEALARRG--GARVTGVDLSPE 30
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 30.3 bits (69), Expect = 0.036
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFT 56
ITG GIGR A++ GATV V + + +E ++ +G H +T
Sbjct: 376 ITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRAKGGT-AHAYT 426
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 30.1 bits (68), Expect = 0.039
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGN-NETAQHVKERGYK 50
+TG G+GR AL GATVV D++ + ++ ++ G K
Sbjct: 17 VTGAAAGLGRAEALGLARLGATVVVNDVASALDASDVLDEIRAAGAK 63
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 29.9 bits (68), Expect = 0.039
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGV 30
+TG GIG+ LA + GA ++ V
Sbjct: 10 LTGASGGIGQALAEALAAAGARLLLV 35
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 30.1 bits (68), Expect = 0.040
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKN 51
ITG G+GR +A+++ A VV I+ + + E A V E K
Sbjct: 12 ITGGSTGLGRAMAVRFGKEKAKVV---INYRSDEEEANDVAEEIKKA 55
>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 = 29.8 bits (67), Expect = 0.043
Identities = 13/40 (32%), Positives = 16/40 (40%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHV 44
+TG G GIG A + GA VV DI +
Sbjct: 8 VTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVAQI 47
>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 = 30.0 bits (68), Expect = 0.045
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIGR LA ++ G V
Sbjct: 3 ITGASSGIGRALAREFAKAGYNVA 26
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 29.7 bits (67), Expect = 0.047
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHV 44
R ITG G+GR +A++ + GA V+ +DI A V
Sbjct: 7 RRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAV 50
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 29.7 bits (67), Expect = 0.048
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI-SEKGNNETAQHVKERGYK 50
+TG+ GIG+ +AL+ G + S K ETA+ ++ G K
Sbjct: 9 VTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEALGRK 55
>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 = 29.6 bits (67), Expect = 0.054
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI--SEKGNNETAQHVKERG 48
+TG GIGR +A + GA+VV V+ S+ E ++ G
Sbjct: 8 VTGASRGIGRAIAKRLARDGASVV-VNYASSKAAAEEVVAEIEAAG 52
>gnl|CDD|235630 PRK05865, PRK05865, hypothetical protein; Provisional.
Length = 854
Score = 29.6 bits (66), Expect = 0.061
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGV 30
MR +TG +GR L + S G VVG+
Sbjct: 1 MRIAVTGASGVLGRGLTARLLSQGHEVVGI 30
>gnl|CDD|187622 cd05364, SDR_c11, classical (c) SDR, subgroup 11. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 253
Score = 29.3 bits (66), Expect = 0.063
Identities = 13/44 (29%), Positives = 19/44 (43%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG+ GIG A+ + GA + + ET Q + G
Sbjct: 8 ITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAG 51
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 29.4 bits (67), Expect = 0.070
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGN--NETAQHVK 45
+TG GIG +A GA VV +D+ G A V
Sbjct: 215 VTGAARGIGAAIAEVLARDGAHVVCLDVPAAGEALAAVANRVG 257
>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 = 29.3 bits (66), Expect = 0.076
Identities = 15/45 (33%), Positives = 21/45 (46%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGY 49
+TG G G G +A ++ GA VV DI+ G A + E
Sbjct: 10 VTGAGSGFGEGIARRFAQEGARVVIADINADGAERVAADIGEAAI 54
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 29.2 bits (66), Expect = 0.077
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
++G G G+GR LA++ GA VV
Sbjct: 10 VSGVGPGLGRTLAVRAARAGADVV 33
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 29.4 bits (66), Expect = 0.081
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVV 28
R +TG+ GIG LA GA V+
Sbjct: 12 RALVTGSSQGIGYALAEGLAQAGAEVI 38
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 29.2 bits (66), Expect = 0.084
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV-GVDIS 33
ITG G G GRE+AL+ G V+ GV I+
Sbjct: 7 ITGAGSGFGREVALRLARKGHNVIAGVQIA 36
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 29.2 bits (66), Expect = 0.086
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
ITG G GIGR L ++ + GA V ++ S + Q +
Sbjct: 11 ITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQRFGDH 53
>gnl|CDD|132368 TIGR03325, BphB_TodD, cis-2,3-dihydrobiphenyl-2,3-diol
dehydrogenase. Members of this family occur as the
BphD protein of biphenyl catabolism and as the TodD
protein of toluene catabolism. Members catalyze the
second step in each pathway and proved interchangeable
when tested; the first and fourth enzymes in each
pathway confer metabolic specificity. In the context of
biphenyl degradation, the enzyme acts as
cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC
1.3.1.56), while in toluene degradation it acts as
cis-toluene dihydrodiol dehydrogenase.
Length = 262
Score = 29.0 bits (65), Expect = 0.089
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNE 39
+TG G+GR + ++ + GA V +D S G E
Sbjct: 10 VTGGASGLGRAIVDRFVAEGARVAVLDKSAAGLQE 44
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 29.0 bits (65), Expect = 0.098
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG GIGR +A + GA V + A+ ++E+G
Sbjct: 12 ITGGTRGIGRAIAEAFLREGAKVA---VLYNSAENEAKELREKG 52
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 29.0 bits (65), Expect = 0.098
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVK 45
+TG GIG+ + + G+ V+ DI E N+ + K
Sbjct: 11 VTGGSQGIGKAVVNRLKEEGSNVINFDIKEPSYNDV-DYFK 50
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 28.8 bits (65), Expect = 0.099
Identities = 14/43 (32%), Positives = 18/43 (41%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
+TG IG +A + GA V VDI A + ER
Sbjct: 11 VTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGER 53
>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 = 29.0 bits (65), Expect = 0.10
Identities = 14/30 (46%), Positives = 16/30 (53%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISE 34
ITG GIG A + HGA VV DI +
Sbjct: 9 ITGGASGIGEATARLFAKHGARVVIADIDD 38
>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 28.6 bits (65), Expect = 0.10
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 5/42 (11%)
Query: 7 GTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
G G L++ GA VV DIS + E + E G
Sbjct: 73 GVG-----SLSIPLARRGAKVVASDISPQMVEEARERAPEAG 109
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase;
Validated.
Length = 253
Score = 28.7 bits (64), Expect = 0.11
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG G+G+ +AL G +VG++I E ET + V G +
Sbjct: 15 VTGCDTGLGQGMALGLAEAGCDIVGINIVEP--TETIEQVTALGRR 58
>gnl|CDD|240662 cd12186, LDH, D-Lactate dehydrogenase and D-2-Hydroxyisocaproic
acid dehydrogenase (D-HicDH), NAD-binding and catalytic
domains. D-Lactate dehydrogenase (LDH) catalyzes the
interconversion of pyruvate and lactate, and is a member
of the 2-hydroxyacid dehydrogenases family. LDH is
homologous to D-2-hydroxyisocaproic acid
dehydrogenase(D-HicDH) and shares the 2 domain structure
of formate dehydrogenase. D-HicDH is a NAD-dependent
member of the hydroxycarboxylate dehydrogenase family,
and shares the Rossmann fold typical of many NAD binding
proteins. HicDH from Lactobacillus casei forms a monomer
and catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. Formate/glycerate and related dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-Adenosylhomocysteine Hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 329
Score = 28.7 bits (65), Expect = 0.11
Identities = 11/28 (39%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI 32
I GTG IG A + GA V+ D
Sbjct: 150 IIGTGR-IGSAAAKIFKGFGAKVIAYDP 176
>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 = 28.7 bits (64), Expect = 0.11
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG G GIG ++ GA V D++ + + A ++ +G
Sbjct: 8 VTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRAKG 51
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 28.8 bits (65), Expect = 0.12
Identities = 11/27 (40%), Positives = 11/27 (40%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVD 31
ITG GIG A GA VV
Sbjct: 11 ITGASSGIGEATARALAEAGAKVVLAA 37
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 28.4 bits (64), Expect = 0.13
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVVGVDISEKGNNET 40
R ITG +G+ L + + GA V+G+ S+ N+E+
Sbjct: 16 RIGITGASGALGKALTKAFRAKGAKVIGLTHSKINNSES 54
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 28.5 bits (64), Expect = 0.14
Identities = 10/43 (23%), Positives = 15/43 (34%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
+ G G +G L G V DI+ + AQ +
Sbjct: 7 VIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAE 49
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 28.6 bits (64), Expect = 0.14
Identities = 11/35 (31%), Positives = 16/35 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNE 39
+TG GIG + + HGA V VD+ +
Sbjct: 23 VTGGATGIGESIVRLFHKHGAKVCIVDLQDDLGQN 57
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase,
extended (e) SDRs. UDP-Glcnac inverting
4,6-dehydratase was identified in Helicobacter pylori
as the hexameric flaA1 gene product (FlaA1). FlaA1 is
hexameric, possesses UDP-GlcNAc-inverting
4,6-dehydratase activity, and catalyzes the first step
in the creation of a pseudaminic acid derivative in
protein glycosylation. Although this subgroup has the
NADP-binding motif characteristic of extended SDRs, its
members tend to have a Met substituted for the active
site Tyr found in most SDR families. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 287
Score = 28.4 bits (64), Expect = 0.15
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGA-TVVGVDISEKGNNETAQHVKER 47
+TG IG EL Q G ++ D E +E + ++ R
Sbjct: 7 VTGGAGSIGSELVRQILKFGPKKLIVFDRDENKLHELVRELRSR 50
>gnl|CDD|212495 cd09807, retinol-DH_like_SDR_c, retinol dehydrogenases
(retinol-DHs), classical (c) SDRs. Classical SDR-like
subgroup containing retinol-DHs and related proteins.
Retinol is processed by a medium chain alcohol
dehydrogenase followed by retinol-DHs. Proteins in this
subfamily share the glycine-rich NAD-binding motif of
the classical SDRs, have a partial match to the
canonical active site tetrad, but lack the typical
active site Ser. This subgroup includes the human
proteins: retinol dehydrogenase -12, -13 ,and -14. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 274
Score = 28.2 bits (63), Expect = 0.16
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG+E A + GA V+
Sbjct: 6 ITGANTGIGKETARELARRGARVI 29
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 28.1 bits (63), Expect = 0.17
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI--SEKGNNETAQHVKERG 48
+T + GIG+ AL G +G+ E+G ETA+ V+ G
Sbjct: 7 VTASDSGIGKACALLLAQQGFD-IGITWHSDEEGAKETAEEVRSHG 51
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 27.9 bits (63), Expect = 0.20
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATV-VGVDISEKGNNETAQHVKERG 48
+TG G+GR +AL+ GA V V E+ E + V+ G
Sbjct: 11 VTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEALG 55
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 28.3 bits (63), Expect = 0.20
Identities = 12/43 (27%), Positives = 18/43 (41%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
+TG GIGR ++ G VV D + + E A +
Sbjct: 10 VTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGPD 52
Score = 26.0 bits (57), Expect = 1.4
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 4/42 (9%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKE 46
ITG GIGR +A ++ + G ++ +D + E A+ + E
Sbjct: 274 ITGGARGIGRAVADRFAAAGDRLLIID----RDAEGAKKLAE 311
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 27.9 bits (63), Expect = 0.21
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
ITG G+G LA + GA + V +S +G A +
Sbjct: 5 ITGGTGGLGLALARWLAAEGARHL-VLVSRRGPAPGAAELVAE 46
>gnl|CDD|226476 COG3967, DltE, Short-chain dehydrogenase involved in D-alanine
esterification of lipoteichoic acid and wall teichoic
acid (D-alanine transfer protein) [Cell envelope
biogenesis, outer membrane].
Length = 245
Score = 27.8 bits (62), Expect = 0.22
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG LA ++ G TV+
Sbjct: 10 ITGGASGIGLALAKRFLELGNTVI 33
>gnl|CDD|235350 PRK05134, PRK05134, bifunctional 3-demethylubiquinone-9
3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol
methylase; Provisional.
Length = 233
Score = 27.8 bits (63), Expect = 0.23
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 24 GATVVGVDISEKGNNETAQ-HVKERG 48
GA V G+D SE+ N E A+ H E G
Sbjct: 70 GADVTGIDASEE-NIEVARLHALESG 94
>gnl|CDD|211335 cd02568, PseudoU_synth_PUS1_PUS2, Pseudouridine synthase, PUS1/
PUS2 like. This group consists of eukaryotic
pseudouridine synthases similar to Saccharomyces
cerevisiae Pus1p, S. cerevisiae Pus2p, Caenorhabditis
elegans Pus1p and human PUS1. Pseudouridine synthases
catalyze the isomerization of specific uridines in an
RNA molecule to pseudouridines (5-ribosyluracil, psi).
No cofactors are required. S. cerevisiae Pus1p catalyzes
the formation of psi34 and psi36 in the
intron-containing tRNAIle, psi35 in the
intron-containing tRNATyr, psi27 and/or psi28 in several
yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear
RNA (U2 snRNA). The presence of the intron is required
for the formation of psi 34, 35 and 36. In addition S.
cerevisiae PUS1 makes are psi 26, 65 and 67. C. elegans
Pus1p does not modify psi44 in U2 snRNA. Mouse Pus1p
makes psi27/28 in pre- tRNASer , tRNAVal and tRNAIle,
psi 34/36 in tRNAIle and, psi 32 and potentially 67 in
tRNAVal. Psi44 in U2 snRNA and psi32 in tRNAs are
highly phylogenetically conserved. Psi
26,27,28,34,35,36,65 and 67 in tRNAs are less highly
conserved. Mouse Pus1p regulates nuclear receptor
activity through pseudouridylation of Steroid Receptor
RNA Activator. Missense mutation in human PUS1 causes
mitochondrial myopathy and sideroblastic anemia (MLASA).
Length = 245
Score = 27.6 bits (62), Expect = 0.28
Identities = 11/24 (45%), Positives = 12/24 (50%), Gaps = 5/24 (20%)
Query: 39 ETAQHVKE-----RGYKNFHNFTI 57
ET Q E G NFHNFT+
Sbjct: 130 ETLQRFNEILKEYVGTHNFHNFTV 153
>gnl|CDD|187663 cd09762, HSDL2_SDR_c, human hydroxysteroid dehydrogenase-like
protein 2 (HSDL2), classical (c) SDRs. This subgroup
includes human HSDL2 and related protens. These are
members of the classical SDR family, with a canonical
Gly-rich NAD-binding motif and the typical YXXXK active
site motif. However, the rest of the catalytic tetrad
is not strongly conserved. HSDL2 may play a part in
fatty acid metabolism, as it is found in peroxisomes.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 243
Score = 27.8 bits (62), Expect = 0.29
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG+ +AL+ GA VV
Sbjct: 8 ITGASRGIGKAIALKAARDGANVV 31
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 27.7 bits (62), Expect = 0.30
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV-GVDISEKGN 37
+TG G+G E A + GA VV V +KG
Sbjct: 21 VTGANTGLGYETAAALAAKGAHVVLAVRNLDKGK 54
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 27.6 bits (61), Expect = 0.30
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 5 ITG-TGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVK 45
+TG G IG L + + G V G+D G + V+
Sbjct: 5 VTGGAGF-IGSHLVERLLAAGHDVRGLDRLRDGLDPLLSGVE 45
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 27.5 bits (61), Expect = 0.31
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVV 28
+ ITG GIGR A+ + GA +
Sbjct: 57 KALITGADSGIGRATAIAFAREGADIA 83
>gnl|CDD|211378 cd09267, FCHo2_MHD, mu-homology domain (MHD) of F-BAR
domain-containing Fer/Cip4 homology domain-only protein
2 (FCH domain only 2 or FCHo2) and similar proteins.
This family corresponds to the MHD found in the
ubiquitously expressed mammalian membrane-sculpting
FCHo2 and similar proteins. FCHo2 represents a key
initial protein that ultimately controls cellular
nutrient uptake, receptor regulation, and synaptic
vesicle retrieval. It is required for plasma membrane
clathrin-coated vesicle (CCV) budding and marks sites of
CCV formation. It binds specifically to the plasma
membrane and recruits the scaffold proteins eps15 and
intersectin, which subsequently engages the adaptor
complex AP2 and clathrin, leading to coated vesicle
formation. FCHo2 contains an N-terminal EFC/F-BAR
domain, a proline-rich domain (PRD) in the middle
region, and a C-terminal MHD. The crescent-shaped
EFC/F-BAR domain can form an antiparallel dimer
structure that binds PtdIns(4,5)P2-enriched membranes
and can polymerize into rings to generate membrane
tubules. The MHD is structurally related to the
cargo-binding mu2 subunit of adaptor complex 2 (AP-2)
and is responsible for the binding of eps15 and
intersectin.
Length = 267
Score = 27.3 bits (60), Expect = 0.35
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 16 LALQYCSHGATVVGVDISEKGNNETAQHVKER 47
LA+Q+ S G+T+ GVD+ G K+R
Sbjct: 226 LAVQFFSEGSTLSGVDMELVGTGYRLSLNKKR 257
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 27.3 bits (60), Expect = 0.36
Identities = 13/26 (50%), Positives = 15/26 (57%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATV 27
R ITG GIG+ +AL Y GA V
Sbjct: 11 RALITGASTGIGKRVALAYVEAGAQV 36
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 27.2 bits (61), Expect = 0.36
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 5 ITGTGHGIGRELALQYCSH-GATVVGVDISEK 35
+ G G G+G +A+QY GA V+ + SE+
Sbjct: 172 VVGAG-GLGH-MAVQYAKAMGAEVIAITRSEE 201
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 27.1 bits (60), Expect = 0.39
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATV-VGVDISEKGNNETAQHVKERGYKNF 52
+TG GIGR AL G TV V + E + + G K F
Sbjct: 6 VTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQAGGKAF 54
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 27.2 bits (61), Expect = 0.43
Identities = 12/25 (48%), Positives = 13/25 (52%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVG 29
ITG G GR LA + G VVG
Sbjct: 9 ITGVSSGFGRALAQAALAAGHRVVG 33
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 27.0 bits (60), Expect = 0.45
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI 32
ITG G+GR +A + GA V DI
Sbjct: 4 ITGAAGGLGRAIARRMAEQGAKVFLTDI 31
>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 = 26.9 bits (60), Expect = 0.45
Identities = 12/42 (28%), Positives = 18/42 (42%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKE 46
+TG GIG +A GA V + S E A+ + +
Sbjct: 13 VTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAK 54
>gnl|CDD|239205 cd02811, IDI-2_FMN, Isopentenyl-diphosphate:dimethylallyl
diphosphate isomerase type 2 (IDI-2) FMN-binding domain.
Two types of IDIs have been characterized at present.
The long known IDI-1 is only dependent on divalent
metals for activity, whereas IDI-2 requires a metal, FMN
and NADPH. IDI-2 catalyzes the interconversion of
isopentenyl diphosphate (IPP) and dimethylallyl
diphosphate (DMAPP) in the mevalonate pathway.
Length = 326
Score = 27.1 bits (61), Expect = 0.46
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 9/58 (15%)
Query: 8 TGHGIGRELALQYCSHGATVVGVDISEKG-------NNETAQHVKERGYKNFHNFTIP 58
G GI RE A + G V +D++ G N A+ +R + F ++ IP
Sbjct: 186 VGFGISRETAKRLADAG--VKAIDVAGAGGTSWARVENYRAKDSDQRLAEYFADWGIP 241
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 27.3 bits (60), Expect = 0.47
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV--GVDISEKGNNETAQHVKERGYK 50
+TG GIGR A+ Y GA V + + E+ + + ++E G K
Sbjct: 54 VTGGDSGIGRAAAIAYAREGADVAISYLPVEEEDAQDVKKIIEECGRK 101
>gnl|CDD|211379 cd09268, FCHo1_MHD, mu-homology domain (MHD) of F-BAR
domain-containing Fer/Cip4 homology domain-only protein
1 (FCH domain only 1 or FCHo1, also known as KIAA0290)
and similar proteins. This family corresponds to the
MHD found in ubiquitously expressed mammalian
membrane-sculpting FCHo1 and similar proteins. FCHo1
represents a key initial protein that ultimately
controls cellular nutrient uptake, receptor regulation,
and synaptic vesicle retrieval. It is required for
plasma membrane clathrin-coated vesicle (CCV) budding
and marks sites of CCV formation. It binds specifically
to the plasma membrane and recruits the scaffold
proteins eps15 and intersectin, which subsequently
engage the adaptor complex AP2 and clathrin, leading to
coated vesicle formation. FCHo1 contains an N-terminal
EFC/F-BAR domain, a proline-rich domain (PRD) in the
middle region, and a C-terminal MHD. The crescent-shaped
EFC/F-BAR domain can form an antiparallel dimer
structure that binds PtdIns(4,5)P2-enriched membranes
and can polymerize into rings to generate membrane
tubules. The MHD is structurally related to the
cargo-binding mu2 subunit of adaptor complex 2 (AP-2)
and is responsible for the binding of eps15 and
intersectin. Unlike other F-BAR domain containing
proteins, FCHo1 has neither the Src homology 3 (SH3)
domain nor any other known domain for interaction with
dynamin and actin cytoskeleton. However, it can
periodically accumulate at the budding site of clathrin.
FCHo1 may utilize a unique action mode for vesicle
formation as compared with other F-BAR proteins.
Length = 259
Score = 26.9 bits (59), Expect = 0.48
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 16 LALQYCSHGATVVGVDISEKGNNETAQHVKER 47
A Q+ S G+T+ GVDI G+ VK+R
Sbjct: 225 AAAQFTSEGSTLSGVDIELVGSGYRMSLVKKR 256
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.).
Length = 107
Score = 26.6 bits (59), Expect = 0.48
Identities = 14/48 (29%), Positives = 16/48 (33%), Gaps = 4/48 (8%)
Query: 6 TGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFH 53
GTG + LA GA V GVDIS + N
Sbjct: 7 CGTG-ALALALA---SGPGARVTGVDISPVALELARKAAAALLADNVE 50
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 27.0 bits (60), Expect = 0.50
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETA 41
+TG GIG+ LA ++ + G V+ +DI A
Sbjct: 7 VTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFA 43
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 26.9 bits (59), Expect = 0.54
Identities = 15/49 (30%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATV-VGVDISEKGNNETAQHVKERGYKNF 52
+TG GIGR +A++ + GA V + +++ +ET + ++ G K F
Sbjct: 11 VTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREIESNGGKAF 59
>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 = 26.9 bits (60), Expect = 0.55
Identities = 10/44 (22%), Positives = 16/44 (36%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+T GIG +A GA V + + A ++ G
Sbjct: 6 VTAASSGIGLAIARALAREGARVAICARNRENLERAASELRAGG 49
>gnl|CDD|187669 cd09809, human_WWOX_like_SDR_c-like, human WWOX (WW
domain-containing oxidoreductase)-like, classical
(c)-like SDRs. Classical-like SDR domain of human WWOX
and related proteins. Proteins in this subfamily share
the glycine-rich NAD-binding motif of the classical
SDRs, have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 284
Score = 26.8 bits (59), Expect = 0.56
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG E A + HGA V+
Sbjct: 6 ITGANSGIGFETARSFALHGAHVI 29
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A;
Provisional.
Length = 256
Score = 26.9 bits (60), Expect = 0.58
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHV 44
ITG G IG L G V+ DI ++ NE + +
Sbjct: 9 ITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESL 48
>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 = 26.7 bits (59), Expect = 0.60
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISE 34
ITG G GR A++ + GA ++ +D+
Sbjct: 8 ITGAARGQGRAHAVRLAAEGADIIAIDLCA 37
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 26.5 bits (59), Expect = 0.61
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHV 44
+TG GIG + + ++GA VV DI G + ++
Sbjct: 14 VTGGSSGIGLAIVKELLANGANVVNADI--HGGDGQHENY 51
>gnl|CDD|225137 COG2227, UbiG,
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol
methylase [Coenzyme metabolism].
Length = 243
Score = 26.5 bits (59), Expect = 0.63
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 7 GTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQ-HVKERG 48
G G GI L+ GA+V G+D SEK E A+ H E G
Sbjct: 67 GCGGGI---LSEPLARLGASVTGIDASEK-PIEVAKLHALESG 105
>gnl|CDD|187586 cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase
sniffer-like, classical (c) SDRs. Sniffer is an
NADPH-dependent carbonyl reductase of the classical SDR
family. Studies in Drosophila melanogaster implicate
Sniffer in the prevention of neurodegeneration due to
aging and oxidative-stress. This subgroup also includes
Rhodococcus sp. AD45 IsoH, which is an NAD-dependent
1-hydroxy-2-glutathionyl-2-methyl-3-butene
dehydrogenase involved in isoprene metabolism,
Aspergillus nidulans StcE encoded by a gene which is
part of a proposed sterigmatocystin biosynthesis gene
cluster, Bacillus circulans SANK 72073 BtrF encoded by
a gene found in the butirosin biosynthesis gene
cluster, and Aspergillus parasiticus nor-1 involved in
the biosynthesis of aflatoxins. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 233
Score = 26.5 bits (59), Expect = 0.64
Identities = 11/24 (45%), Positives = 12/24 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG GIG EL Q + G V
Sbjct: 3 ITGASRGIGLELVRQLLARGNNTV 26
>gnl|CDD|180586 PRK06483, PRK06483, dihydromonapterin reductase; Provisional.
Length = 236
Score = 26.4 bits (59), Expect = 0.67
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVG 29
ITG G IG LA + G V+
Sbjct: 7 ITGAGQRIGLALAWHLLAQGQPVIV 31
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 26.6 bits (59), Expect = 0.70
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGV 30
+TG GIG L+L+ + G V+G+
Sbjct: 8 VTGATKGIGLALSLRLANLGHQVIGI 33
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 26.6 bits (59), Expect = 0.72
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 1 MRTE-ITGTGHGIGRELALQYCSHGATVV 28
M+T I G GIGRE QY + G V+
Sbjct: 1 MKTVLIVGASRGIGREFVRQYRADGWRVI 29
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 26.0 bits (58), Expect = 0.75
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 9 GHG-IGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGY 49
G+G +GR LA + G VV +D E + ++E G
Sbjct: 5 GYGRVGRSLAEELREGGPDVVVIDKDP----ERVEELREEGV 42
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 26.3 bits (58), Expect = 0.76
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETA 41
+TG GIG +A + + G V+ S N+ A
Sbjct: 7 VTGAKRGIGSAIARELLNDGYRVIATYFS---GNDCA 40
>gnl|CDD|239264 cd02966, TlpA_like_family, TlpA-like family; composed of TlpA,
ResA, DsbE and similar proteins. TlpA, ResA and DsbE
are bacterial protein disulfide reductases with
important roles in cytochrome maturation. They are
membrane-anchored proteins with a soluble TRX domain
containing a CXXC motif located in the periplasm. The
TRX domains of this family contain an insert,
approximately 25 residues in length, which correspond
to an extra alpha helix and a beta strand when compared
with TRX. TlpA catalyzes an essential reaction in the
biogenesis of cytochrome aa3, while ResA and DsbE are
essential proteins in cytochrome c maturation. Also
included in this family are proteins containing a
TlpA-like TRX domain with domain architectures similar
to E. coli DipZ protein, and the N-terminal TRX domain
of PilB protein from Neisseria which acts as a
disulfide reductase that can recylce methionine
sulfoxide reductases.
Length = 116
Score = 26.0 bits (58), Expect = 0.77
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 15 ELALQYCSHGATVVGVDISEKGNNETAQHVKERGY 49
LA +Y G VVGV++ + +K+ G
Sbjct: 43 ALAKEYKDDGVEVVGVNVDDDDPAAVKAFLKKYGI 77
>gnl|CDD|187563 cd05253, UDP_GE_SDE_e, UDP glucuronic acid epimerase, extended
(e) SDRs. This subgroup contains UDP-D-glucuronic acid
4-epimerase, an extended SDR, which catalyzes the
conversion of UDP-alpha-D-glucuronic acid to
UDP-alpha-D-galacturonic acid. This group has the SDR's
canonical catalytic tetrad and the TGxxGxxG NAD-binding
motif of the extended SDRs. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 332
Score = 26.5 bits (59), Expect = 0.81
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVD 31
M+ +TG IG +A + G VVG+D
Sbjct: 1 MKILVTGAAGFIGFHVAKRLLERGDEVVGID 31
>gnl|CDD|233668 TIGR01983, UbiG, ubiquinone biosynthesis O-methyltransferase.
This model represents an O-methyltransferase believed
to act at two points in the ubiquinone biosynthetic
pathway in bacteria (UbiG) and fungi (COQ3). A separate
methylase (MenG/UbiE) catalyzes the single
C-methylation step. The most commonly used names for
genes in this family do not indicate whether this gene
is an O-methyl, or C-methyl transferase [Biosynthesis
of cofactors, prosthetic groups, and carriers,
Menaquinone and ubiquinone].
Length = 224
Score = 26.5 bits (59), Expect = 0.81
Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 7/44 (15%)
Query: 7 GTGHGIGRE-LALQYCSHGATVVGVDISEKGNNETAQ-HVKERG 48
G G G+ E LA GA V G+D SE+ N E A+ H K+
Sbjct: 53 GCGGGLLSEPLAR----LGANVTGIDASEE-NIEVAKLHAKKDP 91
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 26.1 bits (58), Expect = 0.88
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 5 ITGTGHG-IGRELALQYCSHGATVVGVDISE 34
+TG G G IG L + G VV +D +
Sbjct: 3 VTG-GAGFIGSHLVRRLLERGHEVVVIDRLD 32
>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 = 26.3 bits (58), Expect = 0.89
Identities = 10/44 (22%), Positives = 20/44 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG +G +A GA V + +++ ++ A+ + G
Sbjct: 10 ITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITALG 53
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 26.1 bits (58), Expect = 0.94
Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 1/33 (3%)
Query: 5 ITGTGHGIGRELALQYCSHG-ATVVGVDISEKG 36
+TG G IG EL Q ++ E
Sbjct: 255 VTGGGGSIGSELCRQILKFNPKEIILFSRDEYK 287
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 26.0 bits (58), Expect = 0.94
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 7 GT-GHGIGRELALQYCSHGATVVGVDISEK 35
GT G GI A + G VV VDISE+
Sbjct: 8 GTMGAGI----AQVFARAGLEVVLVDISEE 33
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 26.0 bits (58), Expect = 1.0
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATV-VGVDISEKGNNETAQHVKERGYK 50
+TG IGR +AL +HG V V + S A ++ G +
Sbjct: 14 VTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEAEALAAEIRALGRR 60
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 26.0 bits (58), Expect = 1.0
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVG 29
+TG GIGR A + G V G
Sbjct: 9 VTGASSGIGRATAEKLARAGYRVFG 33
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 25.9 bits (57), Expect = 1.1
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 5 ITGTGHGIGRELALQYCSHGATV 27
ITG GIGR LA + + G V
Sbjct: 6 ITGCSSGIGRALADAFKAAGYEV 28
>gnl|CDD|187601 cd05343, Mgc4172-like_SDR_c, human Mgc4172-like, classical (c)
SDRs. Human Mgc4172-like proteins, putative SDRs.
These proteins are members of the SDR family, with a
canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 25.9 bits (57), Expect = 1.3
Identities = 15/56 (26%), Positives = 19/56 (33%), Gaps = 4/56 (7%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFTIPIR 60
+TG GIG +A HG VVG A + GY P +
Sbjct: 11 VTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQSAGYPTL----FPYQ 62
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 25.8 bits (57), Expect = 1.3
Identities = 10/29 (34%), Positives = 12/29 (41%), Gaps = 1/29 (3%)
Query: 7 GTGHGIGRELALQYCSHGATVVGVDISEK 35
GTG G + A V+ VDIS
Sbjct: 118 GTGSGAIAIALAKEGPD-AEVIAVDISPD 145
>gnl|CDD|234248 TIGR03534, RF_mod_PrmC, protein-(glutamine-N5) methyltransferase,
release factor-specific. Members of this protein family
are HemK (PrmC), a protein once thought to be involved
in heme biosynthesis but now recognized to be a
protein-glutamine methyltransferase that modifies the
peptide chain release factors. All members of the seed
alignment are encoded next to the release factor 1 gene
(prfA) and confirmed by phylogenetic analysis. SIMBAL
analysis (manuscript in prep.) shows the motif
[LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers
specificity for the release factors rather than for
ribosomal protein L3 [Protein fate, Protein modification
and repair].
Length = 251
Score = 25.9 bits (58), Expect = 1.3
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 5/31 (16%)
Query: 7 GTGHG-IGRELAL-QYCSHGATVVGVDISEK 35
GTG G I LAL + A V VDIS +
Sbjct: 95 GTGSGAIA--LALAKERPD-ARVTAVDISPE 122
>gnl|CDD|176187 cd05284, arabinose_DH_like, D-arabinose dehydrogenase. This group
contains arabinose dehydrogenase (AraDH) and related
alcohol dehydrogenases. AraDH is a member of the medium
chain dehydrogenase/reductase family and catalyzes the
NAD(P)-dependent oxidation of D-arabinose and other
pentoses, the initial step in the metabolism of
d-arabinose into 2-oxoglutarate. Like the alcohol
dehydrogenases, AraDH binds a zinc in the catalytic
cleft as well as a distal structural zinc. AraDH forms
homotetramers as a dimer of dimers. AraDH replaces a
conserved catalytic His with replace with Arg, compared
to the canonical ADH site. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 340
Score = 25.6 bits (57), Expect = 1.5
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 7/30 (23%)
Query: 7 GTGHGIGRELALQYCS--HGATVVGVDISE 34
G GH +A+Q ATV+ VD SE
Sbjct: 178 GLGH-----IAVQILRALTPATVIAVDRSE 202
>gnl|CDD|211376 cd09265, AP_Syp1_like_MHD, Mu-homology domain (MHD) of endocytic
adaptor protein (AP), Syp1. This family corresponds to
the MHD found in the metazoan counterparts of yeast
Syp1, which includes two ubiquitously expressed
membrane-sculpting F-BAR domain-containing Fer/Cip4
homology domain-only proteins 1 and 2 (FCH domain only 1
and 2, or FCHo1/FCHo2), neuronal-specific SH3-containing
GRB2-like protein 3-interacting protein 1 (SGIP1), and
related uncharacterized proteins. FCHo1/FCHo2 represent
key initial proteins ultimately controlling cellular
nutrient uptake, receptor regulation, and synaptic
vesicle retrieval. They are required for plasma membrane
clathrin-coated vesicle (CCV) budding and marked sites
of CCV formation. They bind specifically to the plasma
membrane and recruit the scaffold proteins eps15 and
intersectin, which subsequently engage the adaptor
complex AP2 and clathrin, leading to coated vesicle
formation. Both FCHo1/FCHo2 contain an N-terminal
EFC/F-BAR domain that induces membrane tabulation, a
proline-rich domain (PRD) in the middle region, and a
C-terminal MHD responsible for the binding of eps15 and
intersectin. Another mammalian neuronal-specific
protein, neuronal-specific transcript Scr homology 3
(SH3)-domain growth factor receptor-bound 2 (GRB2)-like
(endophilin) interacting protein 1 [SGIP1] does not
contain EFC/F-BAR domain, but does have a PRD and a
C-terminal MHD and has been classified into this family
as well. SGIP1 is an endophilin-interacting protein that
plays an obligatory role in the regulation of energy
homeostasis. It is also involved in clathrin-mediated
endocytosis by interacting with phospholipids and eps15.
Length = 258
Score = 25.5 bits (56), Expect = 1.5
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 16 LALQYCSHGATVVGVDISEKGNNETAQHVKER 47
LA+Q+ S G T+ GVD G+ VK R
Sbjct: 224 LAVQFQSEGTTLSGVDFELVGSGYRLSLVKRR 255
>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 = 25.8 bits (57), Expect = 1.5
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDI--SEKGNNETAQHVKERGYKN 51
+TG GIG+ +A++ + GA VV V+ E E + +K G K
Sbjct: 8 VTGASSGIGKAIAIRLATAGANVV-VNYRSKEDAAEEVVEEIKAVGGKA 55
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 25.5 bits (56), Expect = 1.5
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 3/42 (7%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKE 46
+TG GIG +A + + G V ++ G+ A +
Sbjct: 10 VTGASRGIGAAIARRLAADGFAVA---VNYAGSAAAADELVA 48
>gnl|CDD|225139 COG2230, Cfa, Cyclopropane fatty acid synthase and related
methyltransferases [Cell envelope biogenesis, outer
membrane].
Length = 283
Score = 25.7 bits (57), Expect = 1.6
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 8/42 (19%)
Query: 7 GTGHG-IGRELALQYCSHGATVVGVDISEKGNNETAQHVKER 47
G G G + A +Y G TVVGV +SE E + ++R
Sbjct: 80 GCGWGGLAIYAAEEY---GVTVVGVTLSE----EQLAYAEKR 114
>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 = 25.4 bits (56), Expect = 1.7
Identities = 9/24 (37%), Positives = 11/24 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG GIG E+A G V
Sbjct: 5 VTGASRGIGIEIARALARDGYRVS 28
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 25.6 bits (57), Expect = 1.7
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG GIGR Q + GA V
Sbjct: 11 VTGANRGIGRAFVEQLLARGAAKV 34
>gnl|CDD|236467 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 25.1 bits (56), Expect = 1.9
Identities = 14/32 (43%), Positives = 15/32 (46%), Gaps = 7/32 (21%)
Query: 7 GTGHG-IGRELALQYCSH--GATVVGVDISEK 35
GTG G I LAL A V VDIS +
Sbjct: 116 GTGSGAIA--LAL--AKERPDAEVTAVDISPE 143
>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 = 25.2 bits (55), Expect = 1.9
Identities = 9/24 (37%), Positives = 11/24 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG GIG A + GA V
Sbjct: 8 VTGASSGIGEATARALAAEGAAVA 31
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 25.3 bits (56), Expect = 1.9
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
+TG GIG ++L+ GA V S +E A+ ++
Sbjct: 12 VTGGASGIGAAISLRLAEEGAIPVIFGRSAPD-DEFAEELRALQ 54
>gnl|CDD|223971 COG1041, COG1041, Predicted DNA modification methylase [DNA
replication, recombination, and repair].
Length = 347
Score = 25.4 bits (56), Expect = 1.9
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 5/29 (17%)
Query: 7 GTGHGIGRELALQYCSHGATVVGVDISEK 35
GTG GI E L GA V+G DI E+
Sbjct: 207 GTG-GILIEAGLM----GARVIGSDIDER 230
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 25.1 bits (55), Expect = 2.1
Identities = 13/44 (29%), Positives = 19/44 (43%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG GIG+ A + GA +V E+ A+ + G
Sbjct: 12 ITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRALG 55
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 25.2 bits (56), Expect = 2.1
Identities = 12/44 (27%), Positives = 20/44 (45%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
ITG G +G +A + GA V +D +++ +K G
Sbjct: 15 ITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKAAG 58
>gnl|CDD|187568 cd05258, CDP_TE_SDR_e, CDP-tyvelose 2-epimerase, extended (e)
SDRs. CDP-tyvelose 2-epimerase is a tetrameric SDR
that catalyzes the conversion of CDP-D-paratose to
CDP-D-tyvelose, the last step in tyvelose biosynthesis.
This subgroup is a member of the extended SDR
subfamily, with a characteristic active site tetrad and
NAD-binding motif. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 337
Score = 25.3 bits (56), Expect = 2.2
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 1 MRTEITGTGHGIGRELALQYCSHGATVVGVD 31
MR ITG IG LA + G V+G D
Sbjct: 1 MRVLITGGAGFIGSNLARFFLKQGWEVIGFD 31
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 260
Score = 25.1 bits (55), Expect = 2.2
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVV 28
R ITG+ G+G A G VV
Sbjct: 9 RIFITGSSDGLGLAAARTLLHQGHEVV 35
>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family.
Length = 233
Score = 25.1 bits (55), Expect = 2.2
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 26 TVVGVDISEKGNNETAQHVKERGYKN 51
VVG+DI+E E + KE G N
Sbjct: 74 KVVGLDINENMLKEGEKKAKEEGKYN 99
>gnl|CDD|215406 PLN02761, PLN02761, lipase class 3 family protein.
Length = 527
Score = 25.0 bits (54), Expect = 2.4
Identities = 22/58 (37%), Positives = 24/58 (41%), Gaps = 18/58 (31%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFTIPI 59
IT TGH +G LAL V DI+E N HV E YK IPI
Sbjct: 293 EISITVTGHSLGASLAL--------VSAYDIAELNLN----HVPENNYK------IPI 332
>gnl|CDD|233687 TIGR02021, BchM-ChlM, magnesium protoporphyrin O-methyltransferase.
This model represents the
S-adenosylmethionine-dependent O-methyltransferase
responsible for methylation of magnesium protoporphyrin
IX. This step is essentiasl for the biosynthesis of both
chlorophyll and bacteriochlorophyll. This model
encompasses two closely related clades, from
cyanobacteria (and plants) where it is called ChlM and
other photosynthetic bacteria where it is known as BchM
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 219
Score = 25.1 bits (55), Expect = 2.5
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 7 GTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERG 48
G G G+ L+++ GA V VDISE+ + R
Sbjct: 63 GCGTGL---LSIELAKRGAIVKAVDISEQMVQMARNRAQGRD 101
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 24.9 bits (55), Expect = 2.7
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG GIG +A + + GATVV
Sbjct: 11 VTGGTRGIGAGIARAFLAAGATVV 34
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 25.1 bits (55), Expect = 2.7
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVG 29
ITG G GR + + + G V
Sbjct: 7 ITGASSGFGRGMTERLLARGDRVAA 31
>gnl|CDD|107256 cd01543, PBP1_XylR, Ligand-binding domain of DNA transcription
repressor specific for xylose (XylR). Ligand-binding
domain of DNA transcription repressor specific for
xylose (XylR), a member of the LacI-GalR family of
bacterial transcription regulators. The ligand-binding
domain of XylR is structurally homologous to the
periplasmic sugar-binding domain of ABC-type
transporters and both domains contain the type I
periplasmic binding protein-like fold. The LacI-GalR
family repressors are composed of two functional
domains: an N-terminal HTH (helix-turn-helix) domain,
which is responsible for the DNA-binding specificity,
and a C-terminal ligand-binding domain, which is
homologous to the type I periplasmic binding proteins.
As also observed in the periplasmic binding proteins,
the C-terminal domain of the bacterial transcription
repressor undergoes a conformational change upon ligand
binding which in turn changes the DNA binding affinity
of the repressor.
Length = 265
Score = 24.8 bits (55), Expect = 3.2
Identities = 6/12 (50%), Positives = 10/12 (83%)
Query: 41 AQHVKERGYKNF 52
A+H ERG+++F
Sbjct: 101 AEHFLERGFRHF 112
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 24.7 bits (54), Expect = 3.6
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGV 30
ITG GIG +A ++ GA V+ V
Sbjct: 14 ITGASKGIGLAIAREFLGLGADVLIV 39
>gnl|CDD|143456 cd07138, ALDH_CddD_SSP0762, Rhodococcus ruber 6-oxolauric acid
dehydrogenase-like. The 6-oxolauric acid dehydrogenase
(CddD) from Rhodococcus ruber SC1 which converts
6-oxolauric acid to dodecanedioic acid, and the aldehyde
dehydrogenase (locus SSP0762) from Staphylococcus
saprophyticus subsp. saprophyticus ATCC 15305 and other
similar sequences, are included in this CD.
Length = 466
Score = 24.4 bits (54), Expect = 3.9
Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 17/50 (34%)
Query: 5 ITGTGHGIGRELALQYCSH---------GATVVGVDISEKGNNETAQHVK 45
+ G G +G L+ +H G+T G ++E A VK
Sbjct: 193 VNGDGPVVGEALS----AHPDVDMVSFTGSTRAGKRVAEAA----ADTVK 234
>gnl|CDD|187615 cd05357, PR_SDR_c, pteridine reductase (PR), classical (c) SDRs.
Pteridine reductases (PRs), members of the SDR family,
catalyzes the NAD-dependent reduction of folic acid,
dihydrofolate and related compounds. In Leishmania,
pteridine reductase (PTR1) acts to circumvent the
anti-protozoan drugs that attack dihydrofolate
reductase activity. Proteins in this subgroup have an
N-terminal NAD-binding motif and a YxxxK active site
motif, but have an Asp instead of the usual upstream
catalytic Ser. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 234
Score = 24.5 bits (54), Expect = 4.0
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG IGR +A + G VV
Sbjct: 5 VTGAAKRIGRAIAEALAAEGYRVV 28
>gnl|CDD|187668 cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase
SDR family member (DHRS)-12/FLJ13639-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
human DHRS-12/FLJ13639, the 36K protein of zebrafish
CNS myelin, and related proteins. DHRS-12/FLJ13639 is
expressed in neurons and oligodendrocytes in the human
cerebral cortex. Proteins in this subgroup share the
glycine-rich NAD-binding motif of the classical SDRs,
have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 255
Score = 24.5 bits (53), Expect = 4.1
Identities = 15/48 (31%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGV-DISEKGNNETAQHVKERGYKN 51
ITG GIG+ AL G TV V + + E G +N
Sbjct: 6 ITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQN 53
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 24.3 bits (53), Expect = 4.2
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
+TG+ G+G E+A GA V+
Sbjct: 16 VTGSARGLGFEIARALAGAGAHVL 39
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 24.2 bits (53), Expect = 4.6
Identities = 13/46 (28%), Positives = 17/46 (36%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYK 50
+TG GIG +A GA V+ G A + G K
Sbjct: 13 VTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVAAGGK 58
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 24.2 bits (53), Expect = 4.6
Identities = 15/38 (39%), Positives = 18/38 (47%)
Query: 9 GHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKE 46
G GIG A + GA VV DI E+ ETA +
Sbjct: 27 GTGIGSATARRALEEGARVVISDIHERRLGETADELAA 64
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 24.3 bits (53), Expect = 5.1
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVGVDISEKGNNET 40
IT G +GR ++ + GAT++ D + +T
Sbjct: 10 ITSAGSVLGRTISCHFARLGATLILCDQDQSALKDT 45
>gnl|CDD|187572 cd05262, SDR_a7, atypical (a) SDRs, subgroup 7. This subgroup
contains atypical SDRs of unknown function. Members of
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that matches the extended SDRs, TGXXGXXG, but
lacks the characteristic active site residues of the
SDRs. This subgroup has basic residues (HXXXR) in place
of the active site motif YXXXK, these may have a
catalytic role. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 291
Score = 24.2 bits (53), Expect = 5.2
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 1 MRTEITG-TGHGIGRELALQYCSHGATVVGVDISEKG 36
M+ +TG TG IG + + + G VVG+ S+ G
Sbjct: 1 MKVFVTGATGF-IGSAVVRELVAAGHEVVGLARSDAG 36
>gnl|CDD|187581 cd05273, GME-like_SDR_e, Arabidopsis thaliana
GDP-mannose-3',5'-epimerase (GME)-like, extended (e)
SDRs. This subgroup of NDP-sugar
epimerase/dehydratases are extended SDRs; they have the
characteristic active site tetrad, and an NAD-binding
motif: TGXXGXX[AG], which is a close match to the
canonical NAD-binding motif. Members include
Arabidopsis thaliana GDP-mannose-3',5'-epimerase (GME)
which catalyzes the epimerization of two positions of
GDP-alpha-D-mannose to form GDP-beta-L-galactose.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 328
Score = 24.0 bits (52), Expect = 5.3
Identities = 12/38 (31%), Positives = 16/38 (42%)
Query: 2 RTEITGTGHGIGRELALQYCSHGATVVGVDISEKGNNE 39
R +TG G IG LA + + G V G D +
Sbjct: 2 RALVTGAGGFIGSHLAERLKAEGHYVRGADWKSPEHMT 39
>gnl|CDD|227842 COG5555, COG5555, Cytolysin, a secreted calcineurin-like
phosphatase [Cell motility and secretion].
Length = 392
Score = 24.1 bits (52), Expect = 5.5
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 8/44 (18%)
Query: 9 GHGIGRELALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNF 52
G I L L V G DI++ G ++ Q + K F
Sbjct: 121 GTRINCPLGL--------VEGGDITDDGGGQSFQPREGNQLKQF 156
>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 = 24.1 bits (52), Expect = 6.1
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 5 ITGTGHGIGRELALQYCSHG 24
+TG GIGR +A + + G
Sbjct: 3 VTGASRGIGRAIANRLAADG 22
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 23.9 bits (52), Expect = 6.1
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 5 ITGTGHGIGRELALQYCSHGATVV 28
ITG G+G+ +A ++ GA VV
Sbjct: 6 ITGGSSGMGKAMAKRFAEEGANVV 29
>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 = 23.8 bits (52), Expect = 6.1
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 5 ITGTGHGIGRELALQYCSHGATVVG 29
ITG GIG A ++ GA ++
Sbjct: 5 ITGASSGIGEATARRFAKAGAKLIL 29
>gnl|CDD|233264 TIGR01082, murC, UDP-N-acetylmuramate--alanine ligase. This
model describes the MurC protein in bacterial
peptidoglycan (murein) biosynthesis. In a few species
(Mycobacterium leprae, the Chlamydia), the amino acid
may be L-serine or glycine instead of L-alanine. A
related protein,
UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-
diaminopimelate ligase (murein tripeptide ligase) is
described by model TIGR01081 [Cell envelope,
Biosynthesis and degradation of murein sacculus and
peptidoglycan].
Length = 448
Score = 23.8 bits (52), Expect = 6.2
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 11 GIGRE-LALQYCSHGATVVGVDISEKGNNETAQHVKERGYKNFHNFT 56
GIG +A + G V G DI+E N T + ++ G + +
Sbjct: 9 GIGMSGIAEILLNRGYQVSGSDIAE---NATTKRLEALGIPIYIGHS 52
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 23.6 bits (52), Expect = 8.7
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 4/35 (11%)
Query: 20 YCSHGA----TVVGVDISEKGNNETAQHVKERGYK 50
Y +HGA + G + + E + E GY
Sbjct: 455 YRNHGADYGRVLAGFQVPDADEPEFEAFLDELGYP 489
>gnl|CDD|237252 PRK12896, PRK12896, methionine aminopeptidase; Reviewed.
Length = 255
Score = 23.3 bits (51), Expect = 9.8
Identities = 7/9 (77%), Positives = 8/9 (88%)
Query: 8 TGHGIGREL 16
TGHG+GR L
Sbjct: 172 TGHGVGRSL 180
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
0.317 0.135 0.400
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,031,878
Number of extensions: 206392
Number of successful extensions: 539
Number of sequences better than 10.0: 1
Number of HSP's gapped: 536
Number of HSP's successfully gapped: 231
Length of query: 61
Length of database: 10,937,602
Length adjustment: 32
Effective length of query: 29
Effective length of database: 9,518,274
Effective search space: 276029946
Effective search space used: 276029946
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.3 bits)