RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6114
(66 letters)
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 120 bits (302), Expect = 1e-35
Identities = 49/59 (83%), Positives = 56/59 (94%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
LSG T+FITGASRGIG AIAL+AA+DGANIVIAAKTAEPHPKLPGTI++AA+E+E AGG
Sbjct: 4 LSGKTLFITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEAAGG 62
>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 = 113 bits (285), Expect = 2e-33
Identities = 50/59 (84%), Positives = 57/59 (96%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L+G T+FITGASRGIGKAIALKAA+DGAN+VIAAKTAEPHPKLPGTIY+AA+E+E AGG
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTIYTAAEEIEAAGG 59
>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 = 84.8 bits (210), Expect = 4e-22
Identities = 37/64 (57%), Positives = 44/64 (68%), Gaps = 5/64 (7%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE-----PHPKLPGTIYSAAKEVE 61
LSG F+TGASRGIG+AIAL+ AK GA +V+AAKTA LPGTI A+E+E
Sbjct: 1 LSGKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIE 60
Query: 62 DAGG 65
AGG
Sbjct: 61 AAGG 64
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 51.7 bits (125), Expect = 9e-10
Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L G +TGASRGIG+AIA + A GAN+VI ++E + + E+ GG
Sbjct: 2 SLEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAE------ALVAEIGALGG 55
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 51.5 bits (124), Expect = 1e-09
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 7/61 (11%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
G L G + ITGAS GIG+A A+K A+ GA + + A+ E + E+ G
Sbjct: 367 GPLVGKVVLITGASSGIGRATAIKVAEAGATVFLVARNGE-------ALDELVAEIRAKG 419
Query: 65 G 65
G
Sbjct: 420 G 420
>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 = 48.3 bits (115), Expect = 2e-08
Identities = 20/42 (47%), Positives = 28/42 (66%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPH 46
LSG +TGAS GIG+AIA A++GA +V+AA+ +E
Sbjct: 1 MDLSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEE 42
>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 = 48.0 bits (115), Expect = 2e-08
Identities = 16/33 (48%), Positives = 24/33 (72%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+TGAS GIG+AIA + A++GA +V+A + E
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLADRNEE 33
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 47.5 bits (114), Expect = 2e-08
Identities = 22/39 (56%), Positives = 26/39 (66%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G T +TGASRGIG+AIAL+ A DGA +VI E
Sbjct: 2 SLQGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEE 40
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 47.6 bits (114), Expect = 3e-08
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 7/55 (12%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+ ITGAS G+G+A A A+ GA +V+ A+ E + + A E+ AGG
Sbjct: 10 VVVITGASAGVGRATARAFARRGAKVVLLARGEE-------GLEALAAEIRAAGG 57
>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 = 47.4 bits (113), Expect = 3e-08
Identities = 27/59 (45%), Positives = 36/59 (61%), Gaps = 6/59 (10%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
LSG +TGASRGIG+ IAL+ + GA + I +T P+LPGT +E+E GG
Sbjct: 1 LSGKIALVTGASRGIGRGIALQLGEAGATVYITGRT--ILPQLPGTA----EEIEARGG 53
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 47.1 bits (113), Expect = 3e-08
Identities = 16/39 (41%), Positives = 23/39 (58%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L G +TGAS GIG+ IA + A +GA +V+ + E
Sbjct: 3 LEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEA 41
>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 = 46.8 bits (112), Expect = 4e-08
Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 6/53 (11%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+TGASRGIG+AIALK AK+GA ++I +++E + +E++ G
Sbjct: 2 LVTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAE------EVVEELKAYGV 48
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 46.5 bits (111), Expect = 7e-08
Identities = 21/59 (35%), Positives = 37/59 (62%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L G + ++G G+G+ +A++AA+ GA++V+AA+TAE +L A E++D G
Sbjct: 3 LKGKVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAE---RLD----EVAAEIDDLGR 54
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 45.6 bits (109), Expect = 1e-07
Identities = 24/62 (38%), Positives = 32/62 (51%), Gaps = 6/62 (9%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
KL G +TGAS GIG+AIA AK+GA +VIA E +E+++ G
Sbjct: 1 MKLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYDINE------EAAQELLEEIKEEG 54
Query: 65 GY 66
G
Sbjct: 55 GD 56
>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 = 45.7 bits (109), Expect = 1e-07
Identities = 17/36 (47%), Positives = 24/36 (66%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
G + ITGA+ GIGK A + AK GA+++IA + E
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIACRNEE 36
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 45.7 bits (109), Expect = 1e-07
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 7/63 (11%)
Query: 3 NTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVED 62
L+G +TGA+RG+G A A A+ GA + A +L A +E
Sbjct: 1 MASNLAGKRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEAREL-------AAALEA 53
Query: 63 AGG 65
AGG
Sbjct: 54 AGG 56
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 45.4 bits (108), Expect = 1e-07
Identities = 19/38 (50%), Positives = 26/38 (68%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G ITGA RGIG+A+A+ AK+G N+ + A+T E
Sbjct: 5 LQGKNALITGAGRGIGRAVAIALAKEGVNVGLLARTEE 42
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase
(KDSR) and related proteins, classical (c) SDR. These
proteins include members identified as KDSR, ribitol
type dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 239
Score = 45.3 bits (108), Expect = 2e-07
Identities = 17/36 (47%), Positives = 25/36 (69%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
G + ITG S GIGKA+A + K+GAN++I A++
Sbjct: 1 GKHVLITGGSSGIGKALAKELVKEGANVIIVARSES 36
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 44.9 bits (107), Expect = 2e-07
Identities = 23/62 (37%), Positives = 34/62 (54%), Gaps = 7/62 (11%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDA 63
T L G +TGA+RGIG+AIA++ A DGA +++ + + A+ VE A
Sbjct: 1 TRDLEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAA-------ATAELVEAA 53
Query: 64 GG 65
GG
Sbjct: 54 GG 55
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 44.9 bits (107), Expect = 2e-07
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 6/62 (9%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDA 63
G L G +TGA+RG+G+AIAL+ A+ GA++V+ ++ E + + VE
Sbjct: 1 MGSLMGRVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAE------ELVEAVEAL 54
Query: 64 GG 65
G
Sbjct: 55 GR 56
>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 = 44.5 bits (106), Expect = 3e-07
Identities = 16/34 (47%), Positives = 24/34 (70%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+TGASRGIG+AIAL+ A +GA + + ++ E
Sbjct: 2 VALVTGASRGIGRAIALRLAAEGAKVAVTDRSEE 35
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 44.5 bits (106), Expect = 4e-07
Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 7/60 (11%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L G +TGA+ GIG IAL AK+GA +VIA E AA+ ++ AGG
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAA-------AAEALQKAGG 53
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 44.3 bits (105), Expect = 4e-07
Identities = 21/55 (38%), Positives = 31/55 (56%), Gaps = 7/55 (12%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+ ITG S G+GKA+A + A++GAN+VI +T E + A E+E G
Sbjct: 3 VVIITGGSSGMGKAMAKRFAEEGANVVITGRTKE-------KLEEAKLEIEQFPG 50
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 44.0 bits (104), Expect = 5e-07
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
+ G ITG +RGIG+AIA ++GA + + +AE + AKE+ + G
Sbjct: 3 MRFKGKVALITGGTRGIGRAIAEAFLREGAKVAVLYNSAE----------NEAKELREKG 52
Query: 65 G 65
Sbjct: 53 V 53
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 43.8 bits (104), Expect = 6e-07
Identities = 23/61 (37%), Positives = 33/61 (54%), Gaps = 7/61 (11%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
G + G T ITGAS GIG +A + A+ G N+++ A+ + L AKE+ED
Sbjct: 2 GPMKGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEAL-------AKELEDKT 54
Query: 65 G 65
G
Sbjct: 55 G 55
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 43.1 bits (102), Expect = 1e-06
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+GKL G ITG GIG+A+A+ AK+GA+I I
Sbjct: 41 SGKLKGKVALITGGDSGIGRAVAVLFAKEGADIAIV 76
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 43.0 bits (102), Expect = 1e-06
Identities = 22/55 (40%), Positives = 34/55 (61%), Gaps = 7/55 (12%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+ ITGAS GIG+A+A++ A+ GA +V+AA+ + S A+E+ D GG
Sbjct: 3 VVIITGASEGIGRALAVRLARAGAQLVLAARNET-------RLASLAQELADHGG 50
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 42.6 bits (101), Expect = 2e-06
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L I +TGA GIG+ AL A+ GA +++ +T E KL + E+E AGG
Sbjct: 10 LKDRIILVTGAGDGIGREAALTYARHGATVILLGRTEE---KLE----AVYDEIEAAGG 61
>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 = 42.3 bits (100), Expect = 2e-06
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
G +T AS GIG AIA A++GA + I A+ E + AA E+ G
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICARNRE-------NLERAASELRAGGA 50
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 42.2 bits (100), Expect = 2e-06
Identities = 19/39 (48%), Positives = 24/39 (61%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G ITGAS GIG+A A A+ GA +V+AA+ E
Sbjct: 3 TLKGKVALITGASSGIGEATARALAEAGAKVVLAARREE 41
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 42.4 bits (100), Expect = 2e-06
Identities = 15/25 (60%), Positives = 22/25 (88%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVI 38
+TG+SRGIGKAIAL+ A++G +I +
Sbjct: 9 VTGSSRGIGKAIALRLAEEGYDIAV 33
>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 = 42.3 bits (100), Expect = 2e-06
Identities = 16/36 (44%), Positives = 24/36 (66%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+GKL G ITG GIG+A+A+ A++GA++ I
Sbjct: 21 SGKLKGKKALITGGDSGIGRAVAIAFAREGADVAIN 56
>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 = 42.0 bits (99), Expect = 3e-06
Identities = 24/54 (44%), Positives = 35/54 (64%), Gaps = 7/54 (12%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+ ITGAS GIG+A AL A+ GA +V+AA++AE ++ A+EV + GG
Sbjct: 3 VVITGASSGIGRATALAFAERGAKVVLAARSAE-------ALHELAREVRELGG 49
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 42.0 bits (99), Expect = 3e-06
Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 6/59 (10%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L G + ITG S G+G+A+A++ K+ A +VI ++ E A+E++ AGG
Sbjct: 5 LEGKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEAN------DVAEEIKKAGG 57
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 42.1 bits (100), Expect = 3e-06
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
M L+G +TGA+ GIGKA A + A +GA +V+A
Sbjct: 414 MPKPKPLAGKVALVTGAAGGIGKATAKRLAAEGACVVLA 452
>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 = 41.8 bits (99), Expect = 3e-06
Identities = 17/38 (44%), Positives = 25/38 (65%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G + ITGAS GIG+ +A A+ GA +V++A+ E
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREE 38
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase
(Ga5DH)-like, classical (c) SDRs. Ga5DH catalyzes the
NADP-dependent conversion of carbon source D-gluconate
and 5-keto-D-gluconate. This SDR subgroup has a
classical Gly-rich NAD(P)-binding motif and a conserved
active site tetrad pattern. However, it has been
proposed that Arg104 (Streptococcus suis Ga5DH
numbering), as well as an active site Ca2+, play a
critical role in catalysis. In addition to Ga5DHs this
subgroup contains Erwinia chrysanthemi KduD which is
involved in pectin degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 42.0 bits (99), Expect = 3e-06
Identities = 20/38 (52%), Positives = 24/38 (63%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G +TGASRGIG IA A+ GANIVI ++ E
Sbjct: 3 LKGKVALVTGASRGIGFGIASGLAEAGANIVINSRNEE 40
>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 = 41.8 bits (99), Expect = 3e-06
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIA 39
+ ITG GIG+ +AL+ AK GA +VI
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVIL 29
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 41.6 bits (98), Expect = 3e-06
Identities = 16/35 (45%), Positives = 26/35 (74%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAK 41
L + +TG+ RGIG+AIA++ AK+G+ +V+ AK
Sbjct: 4 LKDKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAK 38
>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 = 41.6 bits (98), Expect = 3e-06
Identities = 22/55 (40%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
ITGA++GIG+AIA + A DG NIV+A E S +E+ +AG
Sbjct: 4 VAIITGAAQGIGRAIAERLAADGFNIVLADLNLEE------AAKSTIQEISEAGY 52
>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 = 41.5 bits (98), Expect = 3e-06
Identities = 17/34 (50%), Positives = 24/34 (70%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
T+ ITGAS GIG+A A + AK GA +++ + AE
Sbjct: 2 TVLITGASSGIGEATARRFAKAGAKLILTGRRAE 35
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 41.6 bits (98), Expect = 4e-06
Identities = 21/53 (39%), Positives = 30/53 (56%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTI 53
M SG ++ +TGAS GIG+A A+ A+ GA +V AA+ A +L G
Sbjct: 1 MNMAFDFSGKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGET 53
>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 = 41.5 bits (98), Expect = 4e-06
Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 14/63 (22%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVI----AAKTAEPHPKLPGTIYSAAKEVED 62
L+G +TGASRGIG+AIA + A+DGA++V+ + AE E+E
Sbjct: 1 LAGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAE----------EVVAEIEA 50
Query: 63 AGG 65
AGG
Sbjct: 51 AGG 53
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 41.1 bits (97), Expect = 5e-06
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L + +TGAS GIG+A+A A GA +++ + AE
Sbjct: 2 DLKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEK 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 = 41.2 bits (97), Expect = 5e-06
Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVI--------AAKTAEPHPKLPGTIYSAAKEVEDAG 64
+TG SRGIGKAIAL+ A+ GA++VI AA+ A +L G +V
Sbjct: 2 LVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEELGGKAVVVRADVSQPQ 61
Query: 65 G 65
Sbjct: 62 D 62
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 40.9 bits (96), Expect = 7e-06
Identities = 19/39 (48%), Positives = 27/39 (69%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+L G T ITGAS+GIG AIA + GA+++I A+ A+
Sbjct: 6 RLDGQTALITGASKGIGLAIAREFLGLGADVLIVARDAD 44
>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 = 40.6 bits (96), Expect = 9e-06
Identities = 24/59 (40%), Positives = 32/59 (54%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L G FITG GIGKAIA A+ GA++ IA + E + +AA+E+ A G
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIAGRKPEV-------LEAAAEEISSATG 52
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 39.9 bits (93), Expect = 1e-05
Identities = 15/38 (39%), Positives = 25/38 (65%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
LS TI +TGAS+G+G+ +A A GA +++ A+ +
Sbjct: 4 LSDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQK 41
>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 = 39.8 bits (93), Expect = 1e-05
Identities = 23/59 (38%), Positives = 30/59 (50%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L G +TGAS GIG+A A A +GA + IAA+ + L A E+E GG
Sbjct: 1 LQGKVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEAL-------ADELEAEGG 52
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 39.9 bits (94), Expect = 2e-05
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L+G ITGAS GIG+A A A++GA +V+ A+ +L E+ GG
Sbjct: 4 LNGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQL-------VAEIRAEGG 55
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 39.8 bits (93), Expect = 2e-05
Identities = 19/42 (45%), Positives = 27/42 (64%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPH 46
GKL+G T ITGA +GIG+ IA A+ GAN+++ + E
Sbjct: 2 GKLTGKTALITGALQGIGEGIARVFARHGANLILLDISPEIE 43
>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 = 39.7 bits (93), Expect = 2e-05
Identities = 18/32 (56%), Positives = 23/32 (71%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
L G +TGAS GIGKAIA++ A GAN+V+
Sbjct: 1 LKGKVALVTGASSGIGKAIAIRLATAGANVVV 32
>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 = 39.5 bits (93), Expect = 2e-05
Identities = 22/52 (42%), Positives = 33/52 (63%), Gaps = 7/52 (13%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+TGA+ GIGKA A + AK G N+++ ++T E KL + AKE+E+ G
Sbjct: 6 VTGATDGIGKAYAEELAKRGFNVILISRTQE---KLD----AVAKEIEEKYG 50
>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 = 39.7 bits (93), Expect = 2e-05
Identities = 24/57 (42%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
G T +TGA+ GIG AIA A GAN+V+ E AAK DAGG
Sbjct: 1 GKTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEA-------AAKVAGDAGG 50
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 39.4 bits (92), Expect = 2e-05
Identities = 18/39 (46%), Positives = 26/39 (66%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+L +TGA RG+G AIAL A+ GA+++IAA+T
Sbjct: 7 RLDDQVAVVTGAGRGLGAAIALAFAEAGADVLIAARTES 45
>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 = 39.6 bits (93), Expect = 2e-05
Identities = 17/37 (45%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANI--VIAAKTAEP 45
I +TGASRGIG+A+A + K G+ V+ A++ EP
Sbjct: 1 VIILTGASRGIGRALAEELLKRGSPSVVVLLARSEEP 37
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 39.2 bits (92), Expect = 2e-05
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
ITGAS GIGKA AL AK G ++ + A++ +
Sbjct: 8 RALITGASSGIGKATALAFAKAGWDLALVARSQD 41
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 39.5 bits (92), Expect = 2e-05
Identities = 16/35 (45%), Positives = 23/35 (65%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
G+L G ITGA GIG+A A+ A++GA+I +
Sbjct: 50 FGRLQGRKALITGADSGIGRATAIAFAREGADIAL 84
>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 = 39.4 bits (92), Expect = 2e-05
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+G +TGA +GIG+A AK GA +V ++T
Sbjct: 5 FAGKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQA 42
>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 = 39.4 bits (92), Expect = 3e-05
Identities = 15/33 (45%), Positives = 23/33 (69%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAK 41
G T+ ITGA+ GIGK A + A+ GA +++A +
Sbjct: 1 GKTVIITGANTGIGKETARELARRGARVIMACR 33
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 39.4 bits (92), Expect = 3e-05
Identities = 15/33 (45%), Positives = 23/33 (69%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANI 36
+ ++ G T+ I+G +RGIGKAI + A+ G NI
Sbjct: 3 SNEMKGKTLVISGGTRGIGKAIVYEFAQSGVNI 35
>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 = 39.0 bits (91), Expect = 3e-05
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+TG ++GIGK IA + AKDG + +A E T AKE+ AGG
Sbjct: 2 VALVTGGAQGIGKGIAERLAKDGFAVAVADLNEE-------TAKETAKEINQAGG 49
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 38.9 bits (91), Expect = 3e-05
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDA 63
L + ITG S G+G+AIA++ A DGA++++ + A +E A
Sbjct: 1 MASLDSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAV---AAGIEAA 57
Query: 64 GG 65
GG
Sbjct: 58 GG 59
>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 = 38.6 bits (90), Expect = 4e-05
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G T +TG ++GIG AI + A GA + A+ +
Sbjct: 4 LEGKTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQK 41
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 38.5 bits (90), Expect = 4e-05
Identities = 13/28 (46%), Positives = 22/28 (78%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIA 39
+ ITGA+ G+G+AIAL+ A++G + +A
Sbjct: 3 VMITGAASGLGRAIALRWAREGWRLALA 30
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 38.5 bits (90), Expect = 4e-05
Identities = 20/41 (48%), Positives = 26/41 (63%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
G L G + ITGAS GIG+A A A+ GA +V+AA+ E
Sbjct: 2 MGPLHGAVVVITGASSGIGQATAEAFARRGARLVLAARDEE 42
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 38.5 bits (90), Expect = 5e-05
Identities = 16/39 (41%), Positives = 25/39 (64%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L+G + ITGAS+GIG A A A +G ++ + A+ A+
Sbjct: 4 HLAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDAD 42
>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 = 38.2 bits (89), Expect = 6e-05
Identities = 16/38 (42%), Positives = 22/38 (57%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
LSG ITG+S GIG A+ A+ GA + + + AE
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAE 38
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 38.1 bits (89), Expect = 6e-05
Identities = 16/41 (39%), Positives = 25/41 (60%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+L+G +TGA++GIG AIA A++GA + +A A
Sbjct: 2 MNRLAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAA 42
>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 = 38.1 bits (89), Expect = 7e-05
Identities = 16/39 (41%), Positives = 24/39 (61%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
KL+G T+ ITG + GIG A+A K + G ++I + E
Sbjct: 2 KLTGNTVLITGGTSGIGLALARKFLEAGNTVIITGRREE 40
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 37.8 bits (88), Expect = 8e-05
Identities = 17/38 (44%), Positives = 25/38 (65%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L+G I +TGAS GIG+A A + A+ GA +V A+ +
Sbjct: 38 LTGKRILLTGASSGIGEAAAEQFARRGATVVAVARRED 75
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 38.1 bits (89), Expect = 8e-05
Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L+G +TGASRGIG+AIA A+ GA+++++++ + + A + AGG
Sbjct: 6 LTGKIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDG-------CQAVADAIVAAGG 57
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 37.7 bits (87), Expect = 8e-05
Identities = 18/32 (56%), Positives = 23/32 (71%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
L G +TGASRGIG+AIA++ A DGA + I
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAI 35
>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 = 37.6 bits (88), Expect = 1e-04
Identities = 15/29 (51%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIA 39
+ ITG S GIG A+AL A G VIA
Sbjct: 2 VVLITGCSSGIGLALALALAAQGYR-VIA 29
>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 = 37.3 bits (87), Expect = 1e-04
Identities = 19/50 (38%), Positives = 30/50 (60%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVE 61
+ ITGAS GIG+A+A + AK G N+ +AA+ + +L + + VE
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLNPNPSVE 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 = 37.6 bits (87), Expect = 1e-04
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L+ I +TGAS GIG+ AL A+ GA +++ + E + A + + GG
Sbjct: 2 LNDRIILVTGASDGIGREAALTYARYGATVILLGRNEE-------KLRQVADHINEEGG 53
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 37.5 bits (87), Expect = 1e-04
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L+ F+TG + GIG+ A + A +GA++V+A E
Sbjct: 412 LARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLE 449
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 37.2 bits (87), Expect = 1e-04
Identities = 16/36 (44%), Positives = 25/36 (69%)
Query: 10 LTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L +FITGAS GIG+A+A + A+ GA + + A+ +
Sbjct: 3 LKVFITGASSGIGQALAREYARQGATLGLVARRTDA 38
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 37.0 bits (86), Expect = 1e-04
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+TGA +GIG AIA + +DG + I E T +AA ++ GG
Sbjct: 6 LVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEE-------TAQAAADKLSKDGG 51
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 37.1 bits (87), Expect = 2e-04
Identities = 17/31 (54%), Positives = 23/31 (74%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIV 37
L+G +TGA+RGIG AIA A+DGA++V
Sbjct: 208 LAGKVALVTGAARGIGAAIAEVLARDGAHVV 238
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 36.9 bits (86), Expect = 2e-04
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 7/48 (14%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVI-------AAKTAE 44
G SG + +TGA GIG+ AL A++GA +V A +TAE
Sbjct: 310 RGPFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAE 357
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 36.8 bits (85), Expect = 2e-04
Identities = 23/59 (38%), Positives = 32/59 (54%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L+G T +TGA+ GIGK IAL+ A+ GA + IA + + A E+ AGG
Sbjct: 5 LNGKTAVVTGAASGIGKEIALELARAGAAVAIADLNQD-------GANAVADEINKAGG 56
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 36.9 bits (86), Expect = 2e-04
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+TGAS GIGKA A + A G + AA+ +
Sbjct: 5 VALVTGASSGIGKATARRLAAQGYTVYGAARRVD 38
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 36.7 bits (85), Expect = 2e-04
Identities = 19/44 (43%), Positives = 27/44 (61%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
M + L+G I ITG+++GIG +A A+ GA I+I TAE
Sbjct: 1 MNDLFSLAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAE 44
>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 = 36.8 bits (85), Expect = 2e-04
Identities = 15/27 (55%), Positives = 20/27 (74%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVI 38
+ +TGASRGIG+AIA + A DG I +
Sbjct: 1 VLVTGASRGIGRAIANRLAADGFEICV 27
>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 = 36.7 bits (85), Expect = 2e-04
Identities = 16/53 (30%), Positives = 23/53 (43%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAK 58
+ G +TGAS GIG A+A + G +V A+ + L SA
Sbjct: 3 RWRGRVALVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQSAGY 55
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 36.5 bits (85), Expect = 2e-04
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
+TG RGIG IA A G ++ I + +
Sbjct: 6 LVTGGRRGIGLGIARALAAAGFDLAINDRPDDE 38
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 36.5 bits (85), Expect = 3e-04
Identities = 19/58 (32%), Positives = 27/58 (46%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVE 61
+L G +TGA+ GIG+A+A + +GA +VIA I AA V
Sbjct: 1 MMRLQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEIGPAAIAVS 58
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 36.5 bits (85), Expect = 3e-04
Identities = 18/39 (46%), Positives = 25/39 (64%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
LSG T +TG SRG+G IA + GA +V++A+ AE
Sbjct: 9 DLSGKTALVTGGSRGLGLQIAEALGEAGARVVLSARKAE 47
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 36.2 bits (84), Expect = 3e-04
Identities = 22/61 (36%), Positives = 29/61 (47%), Gaps = 6/61 (9%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
G L G T +TG+SRGIG A A GA++V+ + P E+E AG
Sbjct: 2 GDLPGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRAN------KVVAEIEAAG 55
Query: 65 G 65
G
Sbjct: 56 G 56
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 36.5 bits (85), Expect = 3e-04
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L+G + +TGA+RGIG +A + GA + +
Sbjct: 1 GPPMTSLAGKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAE 45
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 36.2 bits (84), Expect = 3e-04
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
G L G + +TGA GIG+A AL A +GA +V+
Sbjct: 2 GLLDGRVVIVTGAGGGIGRAHALAFAAEGARVVV 35
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 36.4 bits (85), Expect = 3e-04
Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 3/49 (6%)
Query: 2 INTGKLSGLTIFITGASRGIGKAIALKAAKDGANIV---IAAKTAEPHP 47
+N SG T+++TGA++GIG A+AL + GA ++ A T E +P
Sbjct: 1 MNAMDFSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGFDQAFLTQEDYP 49
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 36.1 bits (84), Expect = 3e-04
Identities = 14/38 (36%), Positives = 27/38 (71%)
Query: 2 INTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+ + +G + +TGA++GIG+ +AL+AA +GA +V+
Sbjct: 1 MMNQRFAGKVVVVTGAAQGIGRGVALRAAAEGARVVLV 38
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 36.2 bits (83), Expect = 3e-04
Identities = 18/44 (40%), Positives = 26/44 (59%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+++ L G ITGAS GIGK +AL + GA + IAA+ +
Sbjct: 1 VLDLFDLHGKRALITGASTGIGKRVALAYVEAGAQVAIAARHLD 44
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 35.8 bits (83), Expect = 4e-04
Identities = 15/33 (45%), Positives = 24/33 (72%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
++S T+ +TG SRG+G AIA A++GA +V+
Sbjct: 2 QISEQTVLVTGGSRGLGAAIARAFAREGARVVV 34
>gnl|CDD|187596 cd05337, BKR_1_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 1, classical (c) SDR.
This subgroup includes Escherichia coli CFT073 FabG.
The Escherichai coli K12 BKR, FabG, belongs to a
different subgroup. BKR catalyzes the NADPH-dependent
reduction of ACP in the first reductive step of de novo
fatty acid synthesis (FAS). FAS consists of four
elongation steps, which are repeated to extend the
fatty acid chain through the addition of two-carbo
units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and a final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) NAD(P)(H)
binding region and a structurally diverse C-terminal
region. Classical SDRs are typically about 250 residues
long, while extended SDRS are approximately 350
residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H) binding pattern: TGxxxGxG in classical SDRs.
Extended SDRs have additional elements in the
C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P) binding motif and an altered
active site motif (YXXXN). Fungal type type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P) binding motif and missing or
unusual active site residues. Reactions catalyzed
within the SDR family include isomerization,
decarboxylation, epimerization, C=N bond reduction,
dehydratase activity, dehalogenation, Enoyl-CoA
reduction, and carbonyl-alcohol oxidoreduction. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK
pattern. In addition to the Tyr and Lys, there is often
an upstream Ser (Ser-138, 15-PGDH numbering) and/or an
Asn (Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is
a proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 255
Score = 35.9 bits (83), Expect = 4e-04
Identities = 15/25 (60%), Positives = 19/25 (76%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVI 38
+TGASRGIG+AIA + A G +I I
Sbjct: 6 VTGASRGIGRAIATELAARGFDIAI 30
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 35.8 bits (83), Expect = 4e-04
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
F+TGA+ GIG+A AL+ A GA + + + A+ + + GG
Sbjct: 4 FVTGAASGIGRATALRLAAQGAELFLTDRDADG-------LAQTVADARALGG 49
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 35.7 bits (83), Expect = 5e-04
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTA 43
TI ITGA G G+ +AL+ A+ G N++ + A
Sbjct: 4 TILITGAGSGFGREVALRLARKGHNVIAGVQIA 36
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 35.5 bits (82), Expect = 5e-04
Identities = 23/61 (37%), Positives = 28/61 (45%), Gaps = 10/61 (16%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVI--AAKTAEPHPKLPGTIYSAAKEVEDAG 64
LS +TGASRGIG AIA + A DG + + A A E+E AG
Sbjct: 3 LSNKVAIVTGASRGIGAAIARRLAADGFAVAVNYAGSAAAAD--------ELVAEIEAAG 54
Query: 65 G 65
G
Sbjct: 55 G 55
>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 = 35.6 bits (82), Expect = 6e-04
Identities = 16/31 (51%), Positives = 23/31 (74%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIV 37
L G FITGA+RG G+A A++ A +GA+I+
Sbjct: 1 LEGKVAFITGAARGQGRAHAVRLAAEGADII 31
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 35.0 bits (81), Expect = 7e-04
Identities = 20/38 (52%), Positives = 20/38 (52%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
N L G ITGAS GIG AIA AK GA IV
Sbjct: 2 SENLFSLKGKIALITGASYGIGFAIAKAYAKAGATIVF 39
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 35.0 bits (81), Expect = 7e-04
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G ITG S+GIG AIA +G + I A+ +
Sbjct: 4 LKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQK 41
>gnl|CDD|187626 cd05368, DHRS6_like_SDR_c, human DHRS6-like, classical (c) SDRs.
Human DHRS6, and similar proteins. These proteins are
classical SDRs, with a canonical active site tetrad and
a close match to the typical Gly-rich NAD-binding
motif. Human DHRS6 is a cytosolic type 2
(R)-hydroxybutyrate dehydrogenase, which catalyses the
conversion of (R)-hydroxybutyrate to acetoacetate. Also
included in this subgroup is Escherichia coli UcpA
(upstream cys P). Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction. Note: removed :
needed to make this chiodl smaller when drew final
trees: rmeoved text form description: Other proteins in
this subgroup include Thermoplasma acidophilum
aldohexose dehydrogenase, which has high dehydrogenase
activity against D-mannose, Bacillus subtilis BacC
involved in the biosynthesis of the dipeptide bacilysin
and its antibiotic moiety anticapsin, Sphingomonas
paucimobilis strain B90 LinC, involved in the
degradation of hexachlorocyclohexane isomers...... P).
Length = 241
Score = 35.1 bits (81), Expect = 8e-04
Identities = 15/29 (51%), Positives = 22/29 (75%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIV 37
G IT A++GIG+AIAL A++GAN++
Sbjct: 2 GKVALITAAAQGIGRAIALAFAREGANVI 30
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A;
Provisional.
Length = 256
Score = 35.0 bits (81), Expect = 8e-04
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
L G TI ITGA IG A+ + G ++ A
Sbjct: 2 LKGKTILITGAGGLIGSALVKAILEAGGIVIAA 34
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 35.0 bits (80), Expect = 8e-04
Identities = 18/32 (56%), Positives = 22/32 (68%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
L G +TGASRGIG+AIA + A DGA + I
Sbjct: 2 LKGKVALVTGASRGIGRAIAKRLANDGALVAI 33
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 35.1 bits (81), Expect = 9e-04
Identities = 15/46 (32%), Positives = 29/46 (63%), Gaps = 2/46 (4%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSA 56
T+ +TGA++GIG A++L+ A G ++ A++A PG +++
Sbjct: 5 TVLVTGATKGIGLALSLRLANLGHQVIGIARSAI--DDFPGELFAC 48
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 34.7 bits (80), Expect = 0.001
Identities = 11/32 (34%), Positives = 22/32 (68%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTA 43
+ ITG S+G+G+AIA + + G +++ ++T
Sbjct: 4 VIITGTSQGLGEAIANQLLEKGTHVISISRTE 35
>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 = 34.6 bits (80), Expect = 0.001
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAA 40
+ ITGASRGIG + + G N VIA
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVIAT 29
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 34.6 bits (80), Expect = 0.001
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
L GL + +TG + GIG+AIA A+ GA + +
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVC 41
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 34.6 bits (80), Expect = 0.001
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
FITGASRG G+A A + G +V A+
Sbjct: 7 FITGASRGFGRAWTEAALERGDRVVATARDTAT 39
>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 = 34.7 bits (80), Expect = 0.001
Identities = 14/28 (50%), Positives = 21/28 (75%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVI 38
+ +TGASRG+G AIA A++GA +V+
Sbjct: 2 VVLVTGASRGLGAAIARSFAREGARVVV 29
>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 = 34.6 bits (80), Expect = 0.001
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+TGA++ IG+AIA A +G +V+ +E
Sbjct: 2 VALVTGAAKRIGRAIAEALAAEGYRVVVHYNRSE 35
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 34.5 bits (80), Expect = 0.001
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
L G + ITG +RGIG A A A GA + I
Sbjct: 2 DLRGKVVAITGGARGIGLATARALAALGARVAI 34
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 34.6 bits (80), Expect = 0.001
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
L I ITG ++G+G+A+A A+ GA + +
Sbjct: 2 DLKDKVIVITGGAQGLGRAMAEYLAQKGAKLAL 34
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 34.4 bits (79), Expect = 0.001
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTI 53
+L G + I G S G+G A+A A K+GA + I ++ ++ T+
Sbjct: 1 MRLKGKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTL 49
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 34.5 bits (80), Expect = 0.001
Identities = 13/43 (30%), Positives = 23/43 (53%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTA 43
M +L+G +TG ++GIG A + + GA +V A++
Sbjct: 1 MSFFLELAGKRALVTGGTKGIGAATVARLLEAGARVVTTARSR 43
>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 = 34.3 bits (79), Expect = 0.001
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIY------SAAKEVEDAG 64
+TGASRGIG IA A+DG + + + E L + A++ EDA
Sbjct: 2 VALVTGASRGIGIEIARALARDGYRVSLGLRNPEDLAALSASGGDVEAVPYDARDPEDAR 61
Query: 65 G 65
Sbjct: 62 A 62
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 34.4 bits (79), Expect = 0.001
Identities = 16/38 (42%), Positives = 26/38 (68%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
++G + +TG SRGIG+ IA + GA ++I+A+ AE
Sbjct: 4 VAGKIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAE 41
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 34.0 bits (78), Expect = 0.002
Identities = 17/40 (42%), Positives = 26/40 (65%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+L+G +TGA GIG+A A A++GA +V+A + AE
Sbjct: 1 MRLAGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAE 40
>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 = 34.2 bits (79), Expect = 0.002
Identities = 17/40 (42%), Positives = 22/40 (55%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L G +TG SRGIG AIA A+ GA++ I +A
Sbjct: 5 SLKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPR 44
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 34.2 bits (79), Expect = 0.002
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
L G I +TG S GIG AI + +GAN+V A
Sbjct: 7 LQGKIIIVTGGSSGIGLAIVKELLANGANVVNA 39
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 34.1 bits (79), Expect = 0.002
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAA 40
+ G + +TGA+RGIG+A + GA V AA
Sbjct: 3 DIKGKVVLVTGANRGIGRAFVEQLLARGAAKVYAA 37
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 33.9 bits (78), Expect = 0.002
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+ +L+G ITG GIG A A + A +GA +V+
Sbjct: 2 SQRLAGRVAVITGGGSGIGLATARRLAAEGATVVVG 37
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 33.8 bits (78), Expect = 0.002
Identities = 14/23 (60%), Positives = 18/23 (78%)
Query: 11 TIFITGASRGIGKAIALKAAKDG 33
+IFITGA+ GIG+A AL A +G
Sbjct: 3 SIFITGAASGIGRATALLFAAEG 25
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 33.8 bits (78), Expect = 0.002
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEV 60
M +G + + G + GI IA A+ GAN+ +A+++ E + +A ++
Sbjct: 1 MTTMFDFAGKNVVVVGGTSGINLGIAQAFARAGANVAVASRSQE-------KVDAAVAQL 53
Query: 61 EDAGG 65
+ AG
Sbjct: 54 QQAGP 58
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 34.0 bits (78), Expect = 0.002
Identities = 17/38 (44%), Positives = 24/38 (63%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
NT LSG +TGA+ G+G+A AL A+ GA +V+
Sbjct: 4 TTNTTDLSGKVAVVTGAAAGLGRAEALGLARLGATVVV 41
>gnl|CDD|188170 TIGR01832, kduD, 2-deoxy-D-gluconate 3-dehydrogenase. This model
describes 2-deoxy-D-gluconate 3-dehydrogenase (also
called 2-keto-3-deoxygluconate oxidoreductase), a
member of the family of short-chain-alcohol
dehydrogenases (pfam00106). This protein has been
characterized in Erwinia chrysanthemi as an enzyme of
pectin degradation [Energy metabolism, Biosynthesis and
degradation of polysaccharides].
Length = 248
Score = 33.6 bits (77), Expect = 0.002
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L G +TGA+ G+G+ IA+ A+ GA+IV A ++
Sbjct: 3 LEGKVALVTGANTGLGQGIAVGLAEAGADIVGAGRSEPS 41
>gnl|CDD|187634 cd08929, SDR_c4, classical (c) SDR, subgroup 4. This subgroup
has a canonical active site tetrad and a typical
Gly-rich NAD-binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 226
Score = 33.6 bits (77), Expect = 0.003
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVI----AAKTAEPHPKLPGTIYSAAKEVEDAG 64
+TGASRGIG+A A +G + I A+ A + + A +V D
Sbjct: 4 LVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQELEGVLGLAGDVRDEA 59
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 33.4 bits (77), Expect = 0.003
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGA-NIVIAAKTAEPHPKLPGTIYSAAKEV 60
G+L G +TG ++G+G AIA A+ GA +VI + AE + + +
Sbjct: 2 GRLDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEALGAKA 58
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 33.6 bits (77), Expect = 0.003
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVI 38
+ ITGASRGIG A AL AA+ G + +
Sbjct: 5 MIITGASRGIGAATALLAAERGYAVCL 31
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 33.7 bits (77), Expect = 0.003
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+L G ITGA GIGK IA+ A GA++V++ A+ E++ GG
Sbjct: 8 RLDGKCAIITGAGAGIGKEIAITFATAGASVVVSDINAD-------AANHVVDEIQQLGG 60
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 33.3 bits (76), Expect = 0.004
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIV 37
+ ITGA+ GIGK +AL AK G ++
Sbjct: 3 AVLITGATSGIGKQLALDYAKQGWQVI 29
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 32.9 bits (76), Expect = 0.004
Identities = 13/43 (30%), Positives = 21/43 (48%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTI 53
T+ ITG + G+G A+A A +GA ++ P P +
Sbjct: 2 TVLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELV 44
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 32.8 bits (75), Expect = 0.004
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G +TGAS G+G A A+ GA +V+A++ E
Sbjct: 7 LEGKVALVTGASSGLGARFAQVLAQAGAKVVLASRRVE 44
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 32.8 bits (75), Expect = 0.005
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIV 37
L G F+TGA GIG+ IA+ A+ GA++
Sbjct: 5 DLDGQVAFVTGAGSGIGQRIAIGLAQAGADVA 36
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 32.9 bits (75), Expect = 0.005
Identities = 17/46 (36%), Positives = 26/46 (56%)
Query: 8 SGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTI 53
S + ITG +RGIG+A+A + A G ++I + AE KL +
Sbjct: 268 SPRVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEAL 313
Score = 25.6 bits (56), Expect = 1.8
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIA 39
+ +TGA+ GIG+A + A+ G +V+A
Sbjct: 8 VLVTGAAGGIGRAACQRFARAGDQVVVA 35
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 32.6 bits (75), Expect = 0.005
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L G ITG +G A+A + A+ GA + I + E + E++ AGG
Sbjct: 8 LKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAV-------VAEIKAAGG 59
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 32.8 bits (75), Expect = 0.005
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 4/53 (7%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP----HPKLPGT 52
L G + ITG G+G+A A A GA + + + A P P +P
Sbjct: 2 EHSLQGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQTLPGVPAD 54
>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 = 32.7 bits (75), Expect = 0.005
Identities = 19/53 (35%), Positives = 29/53 (54%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAA 57
+L G +TGA G G+ IA + A++GA +VIA A+ ++ I AA
Sbjct: 1 MRLEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAERVAADIGEAA 53
>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 = 32.7 bits (75), Expect = 0.006
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
+ G + +TGA G+G+A AL A+ GA +V+
Sbjct: 1 LRFDGRVVLVTGAGGGLGRAYALAFAERGAKVVV 34
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 32.3 bits (73), Expect = 0.006
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
KL+G +TG GIG+ AL AK GA +++ E + + +E+ + GG
Sbjct: 13 KLAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDIDQE-------SGQATVEEITNLGG 65
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 32.7 bits (74), Expect = 0.006
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+G+L +TG GIG+A A+ A++GA++ I+ E
Sbjct: 44 SGRLKDRKALVTGGDSGIGRAAAIAYAREGADVAISYLPVE 84
>gnl|CDD|187644 cd08940, HBDH_SDR_c, d-3-hydroxybutyrate dehydrogenase (HBDH),
classical (c) SDRs. DHBDH, an NAD+ -dependent enzyme,
catalyzes the interconversion of D-3-hydroxybutyrate
and acetoacetate. It is a classical SDR, with the
canonical NAD-binding motif and active site tetrad.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 32.4 bits (74), Expect = 0.006
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 8 SGLTIFITGASRGIGKAIALKAAKDGANIVI 38
G +TG++ GIG IA A GANIV+
Sbjct: 1 KGKVALVTGSTSGIGLGIARALAAAGANIVL 31
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 32.4 bits (74), Expect = 0.007
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 8/61 (13%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
+L ITGAS GIG+A A+ A++GA V+A AE + +++ G
Sbjct: 2 KRLENKVAVITGASTGIGQASAIALAQEGAY-VLAVDIAE-------AVSETVDKIKSNG 53
Query: 65 G 65
G
Sbjct: 54 G 54
>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 = 32.4 bits (74), Expect = 0.007
Identities = 15/39 (38%), Positives = 23/39 (58%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
K +G TI ITG + GIG A+A + + G ++I + E
Sbjct: 2 KTTGNTILITGGASGIGLALAKRFLELGNTVIICGRNEE 40
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 32.4 bits (74), Expect = 0.007
Identities = 15/33 (45%), Positives = 22/33 (66%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
SG +TG + GIG+A AL A++GA +V+A
Sbjct: 5 FSGKVALVTGGAAGIGRATALAFAREGAKVVVA 37
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 32.5 bits (74), Expect = 0.007
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 7/56 (12%)
Query: 10 LTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+ + +T +SRGIG +A + K GA +VI+++ E + A KE+++ G
Sbjct: 1 MNVLVTASSRGIGFNVARELLKKGARVVISSRNEE-------NLEKALKELKEYGE 49
>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 = 32.4 bits (74), Expect = 0.007
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+L G +TG +RG+G A A +GA +V++
Sbjct: 1 NRLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLS 35
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 32.5 bits (74), Expect = 0.007
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 6/55 (10%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+ ITGASRGIG+A A+ AA G ++ I + A V AGG
Sbjct: 4 VVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEE------TADAVRAAGG 52
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 32.4 bits (74), Expect = 0.007
Identities = 13/39 (33%), Positives = 23/39 (58%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L+G +TG++RG+G IA A GA++++ + A
Sbjct: 9 LAGQVALVTGSARGLGFEIARALAGAGAHVLVNGRNAAT 47
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 32.4 bits (74), Expect = 0.008
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
T+ I GASRGIG+ + DG ++ A+ A
Sbjct: 3 TVLIVGASRGIGREFVRQYRADGWRVIATARDAA 36
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 32.0 bits (73), Expect = 0.008
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIV 37
+G + + G SRGIG AI + DGAN+
Sbjct: 4 FTGKKVLVLGGSRGIGAAIVRRFVTDGANVR 34
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 32.0 bits (73), Expect = 0.008
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G +TG + G+G+ A+ AK GA+I+I
Sbjct: 12 SLDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTN 50
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 32.2 bits (74), Expect = 0.009
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L + +TG + GIG AI+L+ A++GA VI ++A
Sbjct: 4 NLKDKVVIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPD 43
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 31.8 bits (73), Expect = 0.009
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
I I GA+ I +A A + A GA + +AA+ E
Sbjct: 3 KILIIGATSDIARACARRYAAAGARLYLAARDVE 36
>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 = 32.0 bits (73), Expect = 0.010
Identities = 17/34 (50%), Positives = 21/34 (61%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+L G ITG + GIG+A A AK GA +VIA
Sbjct: 1 RLDGKVAIITGGASGIGEATARLFAKHGARVVIA 34
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 31.8 bits (73), Expect = 0.011
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
I ITGAS G+G +A + A G ++ + A+ +
Sbjct: 4 KILITGASSGLGAGMAREFAAKGRDLALCARRTD 37
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 31.9 bits (73), Expect = 0.011
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+G ITGA+ G G A A A G +V+A
Sbjct: 4 FAGKVAVITGAASGFGLAFARIGAALGMKLVLA 36
>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 = 31.8 bits (72), Expect = 0.012
Identities = 15/37 (40%), Positives = 20/37 (54%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
G + ITGA+ GIGKA AL AK G + + +
Sbjct: 1 GRSFLITGANSGIGKAAALAIAKRGGTVHMVCRNQTR 37
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 31.7 bits (72), Expect = 0.012
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
LSG F T +S+GIG +A A+ GA++++ ++ E
Sbjct: 6 LSGKLAFTTASSKGIGFGVARVLARAGADVILLSRNEE 43
>gnl|CDD|187535 cd02266, SDR, Short-chain dehydrogenases/reductases (SDR). SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase (KR) domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 186
Score = 31.7 bits (72), Expect = 0.012
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIA 39
+ +TG S GIG AIA A G+ V+
Sbjct: 1 VLVTGGSGGIGGAIARWLASRGSPKVLV 28
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 31.6 bits (72), Expect = 0.012
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 7/61 (11%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
G+ +TGA+ GIG+A A A++GA++V+A AE ++ AK++ G
Sbjct: 2 GRFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERV-------AKQIVADG 54
Query: 65 G 65
G
Sbjct: 55 G 55
>gnl|CDD|187585 cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl
reductase (PTCR)-like, classical (c) SDRs. PTCR is a
classical SDR which catalyzes the NADPH-dependent
reduction of ketones on steroids and prostaglandins.
Unlike most SDRs, PTCR functions as a monomer. This
subgroup also includes human carbonyl reductase 1
(CBR1) and CBR3. CBR1 is an NADPH-dependent SDR with
broad substrate specificity and may be responsible for
the in vivo reduction of quinones, prostaglandins, and
other carbonyl-containing compounds. In addition it
includes poppy NADPH-dependent salutaridine reductase
which catalyzes the stereospecific reduction of
salutaridine to 7(S)-salutaridinol in the biosynthesis
of morphine, and Arabidopsis SDR1,a menthone reductase,
which catalyzes the reduction of menthone to
neomenthol, a compound with antimicrobial activity;
SDR1 can also carry out neomenthol oxidation. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase
domains of fatty acid synthase have a GGXGXXG
NAD(P)-binding motif and an altered active site motif
(YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 225
Score = 31.8 bits (73), Expect = 0.012
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVI 38
+TGA+RGIG I + AK G VI
Sbjct: 2 VALVTGANRGIGFEIVRQLAKSGPGTVI 29
>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 = 31.7 bits (72), Expect = 0.013
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 7/59 (11%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L ITG + +G A+A A+ GA + + E AKE+ GG
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQE-------KGDKVAKEITALGG 54
>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 = 31.7 bits (72), Expect = 0.014
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
L G +TGA GIG A A + A++GA +V+A
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVA 33
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 31.6 bits (72), Expect = 0.014
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 6 KLSGLTIFITGASR--GIGKAIALKAAKDGANI 36
L +TGASR GIG A+ + A G +I
Sbjct: 2 PLMKKIALVTGASRLNGIGAAVCRRLAAKGIDI 34
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 31.7 bits (72), Expect = 0.014
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVI-------AAKTAEPHPKLPGTIYSAAKE 59
L+G +TG+S+GIG A+A A+ GA +++ A AE + ++ A +
Sbjct: 8 LTGRRALVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLKGQGLSAHALAFD 67
Query: 60 VEDAGG 65
V D
Sbjct: 68 VTDHDA 73
>gnl|CDD|187641 cd08936, CR_SDR_c, Porcine peroxisomal carbonyl reductase like,
classical (c) SDR. This subgroup contains porcine
peroxisomal carbonyl reductase and similar proteins.
The porcine enzyme efficiently reduces retinals. This
subgroup also includes human dehydrogenase/reductase
(SDR family) member 4 (DHRS4), and human DHRS4L1. DHRS4
is a peroxisomal enzyme with 3beta-hydroxysteroid
dehydrogenase activity; it catalyzes the reduction of
3-keto-C19/C21-steroids into 3beta-hydroxysteroids more
efficiently than it does the retinal reduction. The
human DHRS4 gene cluster contains DHRS4, DHRS4L2 and
DHRS4L1. DHRS4L2 and DHRS4L1 are paralogs of DHRS4,
DHRS4L2 being the most recent member. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 31.4 bits (71), Expect = 0.016
Identities = 13/36 (36%), Positives = 25/36 (69%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAK 41
L+ +T ++ GIG AIA + A+DGA++V++++
Sbjct: 7 PLANKVALVTASTDGIGLAIARRLAQDGAHVVVSSR 42
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 31.2 bits (71), Expect = 0.016
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAK 41
I LSG +TGAS G+G +A + A GA +++ +
Sbjct: 6 DITVPDLSGKRAVVTGASDGLGLGLARRLAAAGAEVILPVR 46
>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 = 31.4 bits (71), Expect = 0.016
Identities = 16/33 (48%), Positives = 22/33 (66%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
L G T ITG++RGIG+A A ++GA + IA
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIA 33
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 31.4 bits (72), Expect = 0.017
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSA 56
ITGASRGIG AIA + +++ + AE +L + A
Sbjct: 8 ITGASRGIGAAIA-RELAPTHTLLLGGRPAERLDELAAELPGA 49
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 31.3 bits (71), Expect = 0.017
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
T +TG GIGK +A GA ++I + + KL AA+E+E G
Sbjct: 9 TYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPD---KLAA----AAEEIEALKG 56
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 31.1 bits (71), Expect = 0.017
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHP 47
L+G + +TG +RGIG IA GA +V+ + A
Sbjct: 4 LTGRVVLVTGGTRGIGAGIARAFLAAGATVVVCGRRAPETV 44
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 31.1 bits (71), Expect = 0.017
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
ITG +R IG AIA G + I +
Sbjct: 8 VALITGGARRIGAAIARTLHAAGYRVAIHYHRSA 41
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 31.0 bits (71), Expect = 0.018
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 14 ITGASRGIGKAIALKAAKDG 33
+TGAS GIG+A A K A+ G
Sbjct: 9 VTGASSGIGRATAEKLARAG 28
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins
are members of the classical SDR family, with a
canonical active site triad (and also an active site
Asn) and a typical Gly-rich NAD-binding motif. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 235
Score = 30.8 bits (70), Expect = 0.023
Identities = 15/30 (50%), Positives = 18/30 (60%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAA 40
T+ +TGA+RGIGKA GA V AA
Sbjct: 5 TVLVTGANRGIGKAFVESLLAHGAKKVYAA 34
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 30.7 bits (69), Expect = 0.024
Identities = 15/33 (45%), Positives = 24/33 (72%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVI 38
+L+G +TG ++GIGKAI + A++GA +VI
Sbjct: 3 QLNGKVAIVTGGAKGIGKAITVALAQEGAKVVI 35
>gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase.
Length = 529
Score = 30.9 bits (70), Expect = 0.027
Identities = 23/59 (38%), Positives = 30/59 (50%), Gaps = 12/59 (20%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
L+G + GA G GKA+A A + GA +VIA +T Y AKE+ DA G
Sbjct: 377 LAGKLFVVIGAG-GAGKALAYGAKEKGARVVIANRT-----------YERAKELADAVG 423
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 30.7 bits (70), Expect = 0.027
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 3 NTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPK---LPGTIYSAAKE 59
L G + GA+RG G+ IA++ GA + + ++ P TI A+
Sbjct: 2 MMKPLRGKVALVAGATRGAGRGIAVELGAAGATVYVTGRSTRARRSEYDRPETIEETAEL 61
Query: 60 VEDAGG 65
V AGG
Sbjct: 62 VTAAGG 67
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 30.6 bits (69), Expect = 0.032
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAK 41
+TG + GIGK A + A+ G N+V+ A+
Sbjct: 58 VTGPTDGIGKGFAFQLARKGLNLVLVAR 85
>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 = 30.4 bits (69), Expect = 0.033
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 8 SGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
I ITGA+ IGKA GA +++A
Sbjct: 1 EDKIILITGAAGLIGKAFCKALLSAGARLILA 32
>gnl|CDD|176235 cd08274, MDR9, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 350
Score = 30.3 bits (69), Expect = 0.038
Identities = 17/40 (42%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 1 MINTGKL-SGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
M+ + +G T+ +TGAS G+G A+ A + GA IVIA
Sbjct: 169 MLERAGVGAGETVLVTGASGGVGSALVQLAKRRGA-IVIA 207
>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 = 30.4 bits (69), Expect = 0.039
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIA 39
+TG + GIG AIA + A +GA +V+A
Sbjct: 6 VTGGASGIGLAIAKRLAAEGAAVVVA 31
>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 = 30.3 bits (69), Expect = 0.039
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
+TGA++GIG A+A A+ GA + + E +L
Sbjct: 3 VTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLEL 38
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 30.1 bits (68), Expect = 0.039
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 14 ITGASRGIGKAIALKAAKDGANIV 37
+TGA RGIG AIA + DG ++
Sbjct: 7 VTGAKRGIGSAIARELLNDGYRVI 30
>gnl|CDD|187666 cd09806, type1_17beta-HSD-like_SDR_c, human estrogenic
17beta-hydroxysteroid dehydrogenase type 1 (type 1
17beta-HSD)-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. This classical SDR subgroup
includes human type 1 17beta-HSD, human retinol
dehydrogenase 8, zebrafish photoreceptor associated
retinol dehydrogenase type 2, and a chicken
ovary-specific 17beta-hydroxysteroid dehydrogenase.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 30.1 bits (68), Expect = 0.040
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 11 TIFITGASRGIGKAIALKAAKD 32
+ ITG S GIG +A++ A D
Sbjct: 2 VVLITGCSSGIGLHLAVRLASD 23
>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 = 30.2 bits (68), Expect = 0.044
Identities = 16/26 (61%), Positives = 20/26 (76%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIA 39
+TG + GIGKAIA AK GA++VIA
Sbjct: 4 VTGGAAGIGKAIAGTLAKAGASVVIA 29
>gnl|CDD|180586 PRK06483, PRK06483, dihydromonapterin reductase; Provisional.
Length = 236
Score = 29.9 bits (68), Expect = 0.047
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
I ITGA + IG A+A G ++++ +T P
Sbjct: 4 PILITGAGQRIGLALAWHLLAQGQPVIVSYRTHYP 38
>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 = 29.9 bits (67), Expect = 0.049
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAK 41
G I ITGA+ GIG A A GA++++A +
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVILACR 33
>gnl|CDD|187629 cd05371, HSD10-like_SDR_c, 17hydroxysteroid dehydrogenase type 10
(HSD10)-like, classical (c) SDRs. HSD10, also known as
amyloid-peptide-binding alcohol dehydrogenase (ABAD),
was previously identified as a L-3-hydroxyacyl-CoA
dehydrogenase, HADH2. In fatty acid metabolism, HADH2
catalyzes the third step of beta-oxidation, the
conversion of a hydroxyl to a keto group in the
NAD-dependent oxidation of L-3-hydroxyacyl CoA. In
addition to alcohol dehydrogenase and HADH2 activites,
HSD10 has steroid dehydrogenase activity. Although the
mechanism is unclear, HSD10 is implicated in the
formation of amyloid beta-petide in the brain (which is
linked to the development of Alzheimer's disease).
Although HSD10 is normally concentrated in the
mitochondria, in the presence of amyloid beta-peptide
it translocates into the plasma membrane, where it's
action may generate cytotoxic aldehydes and may lower
estrogen levels through its use of 17-beta-estradiol as
a substrate. HSD10 is a member of the SRD family, but
differs from other SDRs by the presence of two
insertions of unknown function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 252
Score = 29.9 bits (68), Expect = 0.050
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
GL +TG + G+G A + GA +VI P
Sbjct: 2 GLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSP 38
>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 = 29.8 bits (67), Expect = 0.051
Identities = 11/34 (32%), Positives = 23/34 (67%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+ G + +TGA++GIG+ +A + A +GA +++
Sbjct: 1 RFEGKVVVVTGAAQGIGRGVAERLAGEGARVLLV 34
>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 = 30.0 bits (68), Expect = 0.055
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
ITG + GIG A A K GA + I + P
Sbjct: 5 ITGGASGIGLATAKLLLKKGAKVAILDRNENP 36
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 30.0 bits (68), Expect = 0.056
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 8 SGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
SG +TGA+ G+G A A GA++V+A + +
Sbjct: 15 SGRVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLD 51
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 29.8 bits (67), Expect = 0.062
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVI 38
+TG SRGIG+A AL A++G + +
Sbjct: 6 VTGGSRGIGRATALLLAQEGYTVAV 30
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 29.5 bits (67), Expect = 0.064
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVI 38
+TGA+R IG+AIAL A G ++ +
Sbjct: 11 AALVTGAARRIGRAIALDLAAHGFDVAV 38
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 29.5 bits (67), Expect = 0.069
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
T ITG S G G+A+A A G +V ++
Sbjct: 6 TWLITGVSSGFGRALAQAALAAGHRVVGTVRSEA 39
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 29.3 bits (66), Expect = 0.075
Identities = 13/27 (48%), Positives = 20/27 (74%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIA 39
FITGA+ G+G+AIA + A+ GA + +
Sbjct: 3 FITGAAGGLGRAIARRMAEQGAKVFLT 29
>gnl|CDD|233441 TIGR01500, sepiapter_red, sepiapterin reductase. This model
describes sepiapterin reductase, a member of the short
chain dehydrogenase/reductase family. The enzyme
catalyzes the last step in the biosynthesis of
tetrahydrobiopterin. A similar enzyme in Bacillus
cereus was isolated for its ability to convert benzil
to (S)-benzoin, a property sepiapterin reductase also
shares. Cutoff scores for this model are set such that
benzil reductase scores between trusted and noise
cutoffs.
Length = 256
Score = 29.5 bits (66), Expect = 0.076
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 4/35 (11%)
Query: 14 ITGASRGIGKAIALKAAK----DGANIVIAAKTAE 44
+TGASRG G+ IA + AK G+ +V++A+ E
Sbjct: 5 VTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDE 39
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 29.5 bits (66), Expect = 0.076
Identities = 14/31 (45%), Positives = 21/31 (67%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIV 37
L+G ITG + G+G+ +A+ AK GA+IV
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIV 36
>gnl|CDD|187638 cd08933, RDH_SDR_c, retinal dehydrogenase-like, classical (c)
SDR. These classical SDRs includes members identified
as retinol dehydrogenases, which convert retinol to
retinal, a property that overlaps with 17betaHSD
activity. 17beta-dehydrogenases are a group of isozymes
that catalyze activation and inactivation of estrogen
and androgens, and include members of the short-chain
dehydrogenases/reductase family. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 261
Score = 29.4 bits (66), Expect = 0.077
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAK 41
M + + + + +TG SRGIG+ I ++GA +V A+
Sbjct: 1 MASGLRYADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCAR 41
>gnl|CDD|187649 cd08945, PKR_SDR_c, Polyketide ketoreductase, classical (c) SDR.
Polyketide ketoreductase (KR) is a classical SDR with a
characteristic NAD-binding pattern and active site
tetrad. Aromatic polyketides include various aromatic
compounds of pharmaceutical interest. Polyketide KR,
part of the type II polyketide synthase (PKS) complex,
is comprised of stand-alone domains that resemble the
domains found in fatty acid synthase and multidomain
type I PKS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 258
Score = 29.4 bits (66), Expect = 0.077
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 7/54 (12%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAG 64
+TGA+ GIG AIA + K+G + + A+ E L T+ KE+ +AG
Sbjct: 5 VALVTGATSGIGLAIARRLGKEGLRVFVCARGEE---GLATTV----KELREAG 51
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 29.2 bits (66), Expect = 0.081
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
LSG +TG + GIG AIA A GA + + ++ +
Sbjct: 12 DLSGKVAVVTGGASGIGHAIAELFAAKGARVALLDRSED 50
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like
proteins, NMRa-like, atypical (a) SDRs. TMR is an
atypical NADP-binding protein of the SDR family. It
lacks the active site residues of the SDRs but has a
glycine rich NAD(P)-binding motif that matches the
extended SDRs. Proteins in this subgroup however, are
more similar in length to the classical SDRs. TMR was
identified as a reducer of triphenylmethane dyes,
important environmental pollutants. This subgroup also
includes Escherichia coli NADPH-dependent quinine
oxidoreductase (QOR2), which catalyzes two-electron
reduction of quinone; but is unlikely to play a major
role in protecting against quinone cytotoxicity.
Atypical SDRs are distinct from classical SDRs.
Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 29.2 bits (66), Expect = 0.092
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
I +TGA+ +G A+ A++V + E
Sbjct: 1 ILVTGATGKLGTAVVELLLAKVASVVALVRNPEKAKAF 38
>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 = 29.1 bits (65), Expect = 0.098
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIA 39
G +TG GIGK I L + G +V A
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFA 31
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 29.1 bits (65), Expect = 0.11
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVI 38
I +TG + IG + + G ++
Sbjct: 3 ILVTGGAGFIGSHLVERLLAAGHDVRG 29
>gnl|CDD|187656 cd08953, KR_2_SDR_x, ketoreductase (KR), subgroup 2, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
both KR domains of the Bacillus subtilis Pks J,-L, and
PksM, and all three KR domains of PksN, components of
the megacomplex bacillaene synthase, which synthesizes
the antibiotic bacillaene. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 436
Score = 28.9 bits (65), Expect = 0.12
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 14 ITGASRGIGKAIALKAAKD-GANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+TG + GIG+A+A A+ GA +V+ ++ P + +E G
Sbjct: 210 VTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEW--KAQTLAALEALGA 260
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 28.9 bits (65), Expect = 0.12
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
LSG T +TG G+G A+ GA++++ A+ +
Sbjct: 24 LSGKTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPD 61
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 28.8 bits (65), Expect = 0.12
Identities = 14/39 (35%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+ G I ITGAS +GKA+ GA VI
Sbjct: 6 PMAQSTWQGKRIGITGASGALGKALTKAFRAKGA-KVIG 43
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended
or atypical short-chain dehydrogenases/reductases
(SDRs, aka tyrosine-dependent oxidoreductases) are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
Atypical SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Atypical
SDRs include biliverdin IX beta reductase (BVR-B,aka
flavin reductase), NMRa (a negative transcriptional
regulator of various fungi), progesterone
5-beta-reductase like proteins, phenylcoumaran benzylic
ether and pinoresinol-lariciresinol reductases,
phenylpropene synthases, eugenol synthase,
triphenylmethane reductase, isoflavone reductases, and
others. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 176
Score = 28.9 bits (65), Expect = 0.13
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTI 53
I I GA+ IG+A+A + + G + + + + K
Sbjct: 1 ILILGATGFIGRALARELLEQGHEVTLLVRNTKRLSKEDQEP 42
>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 = 28.6 bits (64), Expect = 0.13
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVI 38
+ ITG G+G A A++ AK+GA + +
Sbjct: 6 VLITGGGSGLGLATAVRLAKEGAKLSL 32
>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 = 28.6 bits (64), Expect = 0.15
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 12 IFITGASRGIGKAIALKAAKDG 33
IFITGA+ GIG+ AL A++G
Sbjct: 3 IFITGAASGIGRETALLFARNG 24
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 28.5 bits (64), Expect = 0.17
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIAA 40
+TGAS G G L+ AK G VIA
Sbjct: 7 IVTGASSGFGLLTTLELAKKGYL-VIAT 33
>gnl|CDD|188169 TIGR01829, AcAcCoA_reduct, acetoacetyl-CoA reductase. This model
represent acetoacetyl-CoA reductase, a member of the
family short-chain-alcohol dehydrogenases. Note that,
despite the precision implied by the enzyme name, the
reaction of EC 1.1.1.36 is defined more generally as
(R)-3-hydroxyacyl-CoA + NADP+ = 3-oxoacyl-CoA + NADPH.
Members of this family may act in the biosynthesis of
poly-beta-hydroxybutyrate (e.g. Rhizobium meliloti) and
related poly-beta-hydroxyalkanoates. Note that the
member of this family from Azospirillum brasilense,
designated NodG, appears to lack acetoacetyl-CoA
reductase activity and to act instead in the production
of nodulation factor. This family is downgraded to
subfamily for this NodG. Other proteins designated
NodG, as from Rhizobium, belong to related but distinct
protein families.
Length = 242
Score = 28.5 bits (64), Expect = 0.17
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 13 FITGASRGIGKAIALKAAKDGANIV 37
+TG GIG AI + AKDG +
Sbjct: 4 LVTGGMGGIGTAICQRLAKDGYRVA 28
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 28.3 bits (63), Expect = 0.20
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIV 37
L +TG S+GIGKA+ + ++G+N++
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVI 34
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 28.2 bits (63), Expect = 0.23
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAK-EVEDA 63
+ ITG S GIG+A+A G + A+ AE L ++A + +V D
Sbjct: 3 VVLITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALAAAGFTAVQLDVNDG 56
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 28.1 bits (63), Expect = 0.26
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 5 GKLSGLTIFITGAS-RGIGKAIALKAAKDGANIVI 38
G L+G + +T A+ GIG A A +A ++GA +VI
Sbjct: 13 GLLAGKVVLVTAAAGTGIGSATARRALEEGARVVI 47
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 28.1 bits (63), Expect = 0.26
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIV 37
L G T+ +TGAS +G+A+ + + GA +V
Sbjct: 176 LKGKTVAVTGASGTLGQALLKELHQQGAKVV 206
>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 = 28.0 bits (62), Expect = 0.28
Identities = 14/55 (25%), Positives = 23/55 (41%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVE 61
L T +TG GIG A + A++GA + + E K+ I + +
Sbjct: 1 LKDKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRAKGGNAQ 55
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 27.7 bits (62), Expect = 0.29
Identities = 19/70 (27%), Positives = 26/70 (37%), Gaps = 15/70 (21%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL--------------PGTIYSA 56
+I ITG S GIG A DG + + E L P +I +
Sbjct: 6 SILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEAEGLEAFQLDYAEPESIAAL 65
Query: 57 AKEV-EDAGG 65
+V E +GG
Sbjct: 66 VAQVLELSGG 75
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 27.8 bits (62), Expect = 0.31
Identities = 8/33 (24%), Positives = 17/33 (51%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+ +TGA+ G G+ I + + G ++ + E
Sbjct: 3 VLVTGATAGFGECITRRFIQQGHKVIATGRRQE 35
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 27.6 bits (62), Expect = 0.33
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+L G T ITG + GIG A + +GA + I +
Sbjct: 3 RLQGKTALITGGTSGIGLETARQFLAEGARVAITGRDPA 41
>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 = 27.8 bits (62), Expect = 0.34
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+L G + +TG + G+G+AI + +GA + + K+A
Sbjct: 2 RLKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLDKSAA 40
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 27.7 bits (62), Expect = 0.37
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVI 38
+T + GIGKA AL A+ G +I I
Sbjct: 7 VTASDSGIGKACALLLAQQGFDIGI 31
>gnl|CDD|212497 cd11731, Lin1944_like_SDR_c, Lin1944 and related proteins,
classical (c) SDRs. Lin1944 protein from Listeria
Innocua is a classical SDR, it contains a glycine-rich
motif similar to the canonical motif of the SDR
NAD(P)-binding site. However, the typical SDR active
site residues are absent in this subgroup of proteins
of undetermined function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed
within the SDR family include isomerization,
decarboxylation, epimerization, C=N bond reduction,
dehydratase activity, dehalogenation, Enoyl-CoA
reduction, and carbonyl-alcohol oxidoreduction.
Length = 198
Score = 27.5 bits (62), Expect = 0.40
Identities = 9/36 (25%), Positives = 19/36 (52%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHP 47
I + GA+ IG A+A + G ++ A +++ +
Sbjct: 1 IIVIGATGTIGLAVAQLLSAHGHEVITAGRSSGDYQ 36
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 27.2 bits (61), Expect = 0.40
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 4 TGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
G L G ITG GIG+A+ + +GA + + ++AE
Sbjct: 1 MGWLHGQVALITGGGSGIGRALVERFLAEGARVAVLERSAE 41
>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 = 27.4 bits (61), Expect = 0.40
Identities = 10/26 (38%), Positives = 19/26 (73%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIV 37
+ +TGA++GIG+A+A + GA ++
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVI 26
>gnl|CDD|161904 TIGR00507, aroE, shikimate 5-dehydrogenase. This model finds
proteins from prokaryotes and functionally equivalent
domains from larger, multifunctional proteins of fungi
and plants. Below the trusted cutoff of 180, but above
the noise cutoff of 20, are the putative shikimate
dehydrogenases of Thermotoga maritima and Mycobacterium
tuberculosis, and uncharacterized paralogs of shikimate
dehydrogenase from E. coli and H. influenzae. The
related enzyme quinate 5-dehydrogenase scores below the
noise cutoff. A neighbor-joining tree, constructed with
quinate 5-dehydrogenases as the outgroup, shows the
Clamydial homolog as clustering among the shikimate
dehydrogenases, although the sequence is unusual in the
degree of sequence divergence and the presence of an
additional N-terminal domain [Amino acid biosynthesis,
Aromatic amino acid family].
Length = 270
Score = 27.4 bits (61), Expect = 0.42
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 8 SGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+ I GA G KA+AL+ K N++IA +T
Sbjct: 116 PNQNVLIIGAG-GAAKAVALELLKADCNVIIANRTVS 151
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 27.3 bits (61), Expect = 0.42
Identities = 5/26 (19%), Positives = 13/26 (50%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIA 39
+ G + +G + A++G + +A
Sbjct: 7 VIGGGQTLGAFLCHGLAEEGYRVAVA 32
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 27.2 bits (61), Expect = 0.45
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIV 37
+ T+ ITGA+ GIG A A GA +
Sbjct: 2 EFMTKTVLITGAASGIGLAQARAFLAQGAQVY 33
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 27.4 bits (61), Expect = 0.46
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 6 KLSGLTIFITGASR--GIGKAIALKAAKDGANI 36
+L +TG SR GIG AI + A+ GA+I
Sbjct: 3 QLKNKVAVVTGVSRLDGIGAAICKELAEAGADI 35
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 27.3 bits (61), Expect = 0.48
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+ G S GIG A+A A +GA + IA+++ +
Sbjct: 2 VVGGSSGIGLALARAFAAEGARVTIASRSRD 32
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 27.1 bits (60), Expect = 0.48
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+L G +TG + GIG++I K GA + I
Sbjct: 15 RLLGKVALVTGGATGIGESIVRLFHKHGAKVCIV 48
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 27.2 bits (60), Expect = 0.51
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPG 51
I +TGA+ +G A+ + G + A + E L G
Sbjct: 3 ILVTGATGFVGGAVVRELLARGHEVRAAVRNPEAAAALAG 42
>gnl|CDD|236173 PRK08177, PRK08177, short chain dehydrogenase; Provisional.
Length = 225
Score = 26.9 bits (60), Expect = 0.52
Identities = 10/39 (25%), Positives = 17/39 (43%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
T I GASRG+G + + + G + + + L
Sbjct: 3 TALIIGASRGLGLGLVDRLLERGWQVTATVRGPQQDTAL 41
>gnl|CDD|233006 TIGR00521, coaBC_dfp, phosphopantothenoylcysteine decarboxylase /
phosphopantothenate--cysteine ligase. This model
represents a bifunctional enzyme that catalyzes the
second and third steps (cysteine ligation, EC 6.3.2.5,
and decarboxylation, EC 4.1.1.36) in the biosynthesis of
coenzyme A (CoA) from pantothenate in bacteria. In early
descriptions of this flavoprotein, a ts mutation in one
region of the protein appeared to cause a defect in DNA
metaobolism rather than an increased need for the
pantothenate precursor beta-alanine. This protein was
then called dfp, for DNA/pantothenate metabolism
flavoprotein. The authors responsible for detecting
phosphopantothenate--cysteine ligase activity suggest
renaming this bifunctional protein coaBC for its role in
CoA biosynthesis. This enzyme contains the FMN cofactor,
but no FAD or pyruvoyl group. The amino-terminal region
contains the phosphopantothenoylcysteine decarboxylase
activity [Biosynthesis of cofactors, prosthetic groups,
and carriers, Pantothenate and coenzyme A].
Length = 390
Score = 26.9 bits (60), Expect = 0.62
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 13 FITGASRGI-GKAIALKAAKDGANI-VIAAKTAEPHPK 48
FI+ S G G A+A A K GA++ +I + P
Sbjct: 204 FISNLSSGKMGLALAEAAYKRGADVTLITGPVSLLTPP 241
>gnl|CDD|187670 cd09810, LPOR_like_SDR_c_like, light-dependent
protochlorophyllide reductase (LPOR)-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
LPOR and related proteins. Protochlorophyllide
(Pchlide) reductases act in chlorophyll biosynthesis.
There are distinct enzymes that catalyze Pchlide
reduction in light or dark conditions. Light-dependent
reduction is via an NADP-dependent SDR, LPOR. Proteins
in this subfamily share the glycine-rich NAD-binding
motif of the classical SDRs, have a partial match to
the canonical active site tetrad, but lack the typical
active site Ser. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 311
Score = 26.7 bits (59), Expect = 0.65
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAA 40
T+ ITGAS G+G A A A+ G V+ A
Sbjct: 3 TVVITGASSGLGLAAAKALARRGEWHVVMA 32
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 26.5 bits (59), Expect = 0.74
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G +TG S GIG A + GA++ I + E
Sbjct: 6 LEGRVAVVTGGSSGIGLATVELLLEAGASVAICGRDEE 43
>gnl|CDD|176234 cd08273, MDR8, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 331
Score = 26.5 bits (59), Expect = 0.80
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
L+G + I GAS G+G+A+ A GA V + H L
Sbjct: 138 LTGQRVLIHGASGGVGQALLELALLAGAE-VYGTASERNHAAL 179
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 26.5 bits (59), Expect = 0.86
Identities = 12/39 (30%), Positives = 19/39 (48%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
T+ + GA+ G+G A A GA +V ++E L
Sbjct: 145 TVLVHGAAGGVGSAAIQLAKALGATVVAVVSSSEKLELL 183
>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 = 26.4 bits (59), Expect = 0.92
Identities = 11/37 (29%), Positives = 16/37 (43%)
Query: 8 SGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
G TI +TG + IG + + K G +I E
Sbjct: 1 KGKTILVTGGAGSIGSELVRQILKFGPKKLIVFDRDE 37
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 26.5 bits (59), Expect = 0.96
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
L+G +TG + IG A+A GA + I
Sbjct: 4 LAGKVAIVTGGATLIGAAVARALVAAGARVAIV 36
>gnl|CDD|223156 COG0078, ArgF, Ornithine carbamoyltransferase [Amino acid transport
and metabolism].
Length = 310
Score = 26.4 bits (59), Expect = 1.00
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAA-KTAEPHPKLPGTIYSAAKEVEDA 63
G L GL + G + ++ L AAK G ++ IA K EP P+ + AKE
Sbjct: 149 GSLKGLKLAYVGDGNNVANSLLLAAAKLGMDVRIATPKGYEPDPE----VVEKAKENAKE 204
Query: 64 GG 65
G
Sbjct: 205 SG 206
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase;
Validated.
Length = 253
Score = 26.4 bits (58), Expect = 1.0
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 1 MINTGKLSGLTIFITGASRGIGKAIALKAAKDGANIV 37
+++ L G +TG G+G+ +AL A+ G +IV
Sbjct: 2 ILDAFSLEGKVAVVTGCDTGLGQGMALGLAEAGCDIV 38
>gnl|CDD|129743 TIGR00658, orni_carb_tr, ornithine carbamoyltransferase. This
family of ornithine carbamoyltransferases (OTCase) is in
a superfamily with the related enzyme aspartate
carbamoyltransferase. Most known examples are anabolic,
playing a role in arginine biosynthesis, but some are
catabolic. Most OTCases are homotrimers, but the
homotrimers are organized into dodecamers built from
four trimers in at least two species; the catabolic
OTCase of Pseudomonas aeruginosa is allosterically
regulated, while OTCase of the extreme thermophile
Pyrococcus furiosus shows both allostery and thermophily
[Amino acid biosynthesis, Glutamate family].
Length = 304
Score = 26.2 bits (58), Expect = 1.0
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 5/64 (7%)
Query: 3 NTGKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAA-KTAEPHPKLPGTIYSAAKEVE 61
+ GKL G+ + G + ++ L AK G ++V+A + EP I A+E+
Sbjct: 142 HFGKLKGVKVVYVGDGNNVCNSLMLAGAKLGMDVVVATPEGYEPDAD----IVKKAQEIA 197
Query: 62 DAGG 65
G
Sbjct: 198 KENG 201
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 305
Score = 26.2 bits (58), Expect = 1.1
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 5 GKLSGLTIFITGASRGIGK-AIALKAAKDGANIVIAAKTAE 44
G L G + +TGAS G+G+ A+ L AA GA++V +
Sbjct: 129 GPLLGRRVLVTGASGGVGRFAVQL-AALAGAHVVAVVGSPA 168
>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 = 26.3 bits (58), Expect = 1.1
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTA 43
IFITG+S G+G A A G +V+ A++
Sbjct: 10 IFITGSSDGLGLAAARTLLHQGHEVVLHARSQ 41
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 25.8 bits (57), Expect = 1.3
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
I IT A +G+ I+ A+ GA +++ +
Sbjct: 7 IILITSAGSVLGRTISCHFARLGATLILCDQDQS 40
>gnl|CDD|187630 cd05372, ENR_SDR, Enoyl acyl carrier protein (ACP) reductase
(ENR), divergent SDR. This bacterial subgroup of ENRs
includes Escherichia coli ENR. ENR catalyzes the
NAD(P)H-dependent reduction of enoyl-ACP in the last
step of fatty acid biosynthesis. De novo fatty acid
biosynthesis is catalyzed by the fatty acid synthetase
complex, through the serial addition of 2-carbon
subunits. In bacteria and plants,ENR catalyzes one of
six synthetic steps in this process. Oilseed rape ENR,
and also apparently the NADH-specific form of
Escherichia coli ENR, is tetrameric. Although similar
to the classical SDRs, this group does not have the
canonical catalytic tetrad, nor does it have the
typical Gly-rich NAD-binding pattern. Such so-called
divergent SDRs have a GXXXXXSXA NAD-binding motif and a
YXXMXXXK (or YXXXMXXXK) active site motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 26.0 bits (58), Expect = 1.4
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 9 GLTIFITGAS--RGIGKAIALKAAKDGANIVIA 39
G I ITG + R I IA + GA +
Sbjct: 1 GKRILITGIANDRSIAWGIAKALHEAGAELAFT 33
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 26.0 bits (57), Expect = 1.5
Identities = 14/28 (50%), Positives = 16/28 (57%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGA 34
LSG +TGAS GIG+ IA GA
Sbjct: 4 LSGRKALVTGASGGIGEEIARLLHAQGA 31
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 25.9 bits (57), Expect = 1.5
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKE 59
+ GAS GIG A A++ A G + + A+ E +L I + E
Sbjct: 15 VAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRADGGE 60
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 25.7 bits (57), Expect = 1.6
Identities = 7/43 (16%), Positives = 15/43 (34%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIY 54
I + GA+ G+ + + G + ++ P T
Sbjct: 1 IAVIGATGKTGRRLVKELLARGHQVTALSRNPSKAPAPGVTPV 43
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 25.7 bits (56), Expect = 1.7
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIA 39
ITG + GIG A + A+ GA +V+
Sbjct: 11 ITGGASGIGLATGTEFARRGARVVLG 36
>gnl|CDD|235513 PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine
decarboxylase/phosphopantothenate synthase; Validated.
Length = 399
Score = 25.5 bits (57), Expect = 1.8
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 13 FITGASRGI-GKAIALKAAKDGAN-IVIAAKTAEPHPK 48
+IT S G G A+A AA+ GA+ +++ P P
Sbjct: 207 YITNRSSGKMGYALARAAARRGADVTLVSGPVNLPTPA 244
>gnl|CDD|217325 pfam03028, Dynein_heavy, Dynein heavy chain and region D6 of dynein
motor. This family represents the C-terminal region of
dynein heavy chain. The chain also contains ATPase
activity and microtubule binding ability and acts as a
motor for the movement of organelles and vesicles along
microtubules. Dynein is also involved in cilia and
flagella movement. The dynein subunit consists of at
least two heavy chains and a number of intermediate and
light chains. The 380 kDa motor unit of dynein belongs
to the AAA class of chaperone-like ATPases. The core of
the 380 kDa motor unit contains a concatenated chain of
six AAA modules, of which four correspond to the ATP
binding sites with P-loop signatures described
previously, and two are modules in which the P loop has
been lost in evolution. This C-terminal domain carries
the D6 region of the dynein motor where the P-loop has
been lost in evolution but the general structure of a
potential ATP binding site appears to be retained.
Length = 706
Score = 25.7 bits (57), Expect = 2.0
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 42 TAEPHPKLPGTI 53
TAEP P +P +
Sbjct: 209 TAEPAPSIPIGL 220
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 25.4 bits (56), Expect = 2.0
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
++ ITG S GIG AL+ + G ++ A + +
Sbjct: 4 SVLITGCSSGIGLEAALELKRRGYRVLAACRKPD 37
>gnl|CDD|133452 cd05213, NAD_bind_Glutamyl_tRNA_reduct, NADP-binding domain of
glutamyl-tRNA reductase. Glutamyl-tRNA reductase
catalyzes the conversion of glutamyl-tRNA to
glutamate-1-semialdehyde, initiating the synthesis of
tetrapyrrole. Whereas tRNAs are generally associated
with peptide bond formation in protein translation, here
the tRNA activates glutamate in the initiation of
tetrapyrrole biosynthesis in archaea, plants and many
bacteria. In the first step, activated glutamate is
reduced to glutamate-1-semi-aldehyde via the NADPH
dependent glutamyl-tRNA reductase. Glutamyl-tRNA
reductase forms a V-shaped dimer. Each monomer has 3
domains: an N-terminal catalytic domain, a classic
nucleotide binding domain, and a C-terminal dimerization
domain. Although the representative structure 1GPJ lacks
a bound NADPH, a theoretical binding pocket has been
described. (PMID 11172694). Amino acid dehydrogenase
(DH)-like NAD(P)-binding domains are members of the
Rossmann fold superfamily and include glutamate,
leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 311
Score = 25.3 bits (56), Expect = 2.1
Identities = 15/40 (37%), Positives = 18/40 (45%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
G L G + + GA A AAK A I IA +T E
Sbjct: 174 GNLKGKKVLVIGAGEMGELAAKHLAAKGVAEITIANRTYE 213
>gnl|CDD|200089 TIGR01289, LPOR, light-dependent protochlorophyllide reductase.
This model represents the light-dependent,
NADPH-dependent form of protochlorophyllide reductase.
It belongs to the short chain alcohol dehydrogenase
family, in contrast to the nitrogenase-related
light-independent form [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 314
Score = 25.6 bits (56), Expect = 2.2
Identities = 14/30 (46%), Positives = 16/30 (53%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAA 40
T+ ITGAS G+G A A G VI A
Sbjct: 5 TVIITGASSGLGLYAAKALAATGEWHVIMA 34
>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 = 25.4 bits (56), Expect = 2.5
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 6 KLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
L G ITG G+G+A+ + +GA + + ++AE
Sbjct: 1 WLKGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAE 39
>gnl|CDD|131732 TIGR02685, pter_reduc_Leis, pteridine reductase. Pteridine
reductase is an enzyme used by trypanosomatids
(including Trypanosoma cruzi and Leishmania major) to
obtain reduced pteridines by salvage rather than
biosynthetic pathways. Enzymes in T. cruzi described as
pteridine reductase 1 (PTR1) and pteridine reductase 2
(PTR2) have different activity profiles. PTR1 is more
active with with fully oxidized biopterin and folate
than with reduced forms, while PTR2 reduces
dihydrobiopterin and dihydrofolate but not oxidized
pteridines. T. cruzi PTR1 and PTR2 are more similar to
each other in sequence than either is to the pteridine
reductase of Leishmania major, and all are included in
this family.
Length = 267
Score = 25.3 bits (55), Expect = 2.5
Identities = 9/25 (36%), Positives = 18/25 (72%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVI 38
+TGA++ IG +IA+ ++G +V+
Sbjct: 6 VTGAAKRIGSSIAVALHQEGYRVVL 30
>gnl|CDD|240622 cd05198, formate_dh_like, Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxy acid
dehydrogenase family. Formate dehydrogenase, D-specific
2-hydroxy acid dehydrogenase, Phosphoglycerate
Dehydrogenase, Lactate dehydrogenase, Thermostable
Phosphite Dehydrogenase, and Hydroxy(phenyl)pyruvate
reductase, among others, share a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. 2-hydroxyacid
dehydrogenases are enzymes that catalyze the conversion
of a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
The NAD+ binding domain is inserted within the linear
sequence of the mostly N-terminal catalytic domain,
which has a similar domain structure to the internal NAD
binding domain. Structurally, these domains are
connected by extended alpha helices and create a cleft
in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. Formate dehydrogenase
(FDH) catalyzes the NAD+-dependent oxidation of formate
ion to carbon dioxide with the concomitant reduction of
NAD+ to NADH. FDHs of this family contain no metal ions
or prosthetic groups. Catalysis occurs though direct
transfer of hydride ion to NAD+ without the stages of
acid-base catalysis typically found in related
dehydrogenases. FDHs are found in all methylotrophic
microorganisms in energy production and in the stress
responses of plants. Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase,
among others. While many members of this family are
dimeric, alanine DH is hexameric and phosphoglycerate DH
is tetrameric.
Length = 302
Score = 25.3 bits (56), Expect = 2.5
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
L G T+ I G R IG+ +A + G ++ +T +P
Sbjct: 138 LEGKTVGIVGLGR-IGQRVAKRLQAFGMKVLYYDRTRKP 175
>gnl|CDD|183473 PRK12361, PRK12361, hypothetical protein; Provisional.
Length = 547
Score = 25.4 bits (56), Expect = 2.6
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 22 GKAIALKAAKDGANIVIAA 40
+A+A +A K GA+IVIA
Sbjct: 286 AEALAKQARKAGADIVIAC 304
>gnl|CDD|187547 cd05236, FAR-N_SDR_e, fatty acyl CoA reductases (FARs), extended
(e) SDRs. SDRs are Rossmann-fold NAD(P)H-binding
proteins, many of which may function as fatty acyl CoA
reductases (FAR), acting on medium and long chain fatty
acids, and have been reported to be involved in diverse
processes such as biosynthesis of insect pheromones,
plant cuticular wax production, and mammalian wax
biosynthesis. In Arabidopsis thaliana, proteins with
this particular architecture have also been identified
as the MALE STERILITY 2 (MS2) gene product, which is
implicated in male gametogenesis. Mutations in MS2
inhibit the synthesis of exine (sporopollenin),
rendering plants unable to reduce pollen wall fatty
acids to corresponding alcohols. This N-terminal domain
shares the catalytic triad (but not the upstream Asn)
and characteristic NADP-binding motif of the extended
SDR family. 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 = 320
Score = 25.0 bits (55), Expect = 2.8
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANI 36
++ ITGA+ +GK + K + +I
Sbjct: 2 SVLITGATGFLGKVLLEKLLRSCPDI 27
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49
(TIP49) was originally identified as a TBP-binding
protein, and two related proteins are encoded by
individual genes, tip49a and b. Although the function
of this gene family has not been elucidated, they are
supposed to play a critical role in nuclear events
because they interact with various kinds of nuclear
factors and have DNA helicase activities.TIP49a has
been suggested to act as an autoantigen in some
patients with autoimmune diseases.
Length = 395
Score = 25.0 bits (55), Expect = 2.8
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 1 MINTGKLSGLTIFITGASRGIGK-AIALKAAK 31
MI GK++G + I G G GK A+A+ +K
Sbjct: 42 MIKEGKIAGRAVLIAGPP-GTGKTALAIAISK 72
>gnl|CDD|187543 cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
bacterial proteins, and includes the Staphylococcus
aureus capsular polysaccharide Cap5N, which may have a
role in the synthesis of UDP-N-acetyl-d-fucosamine.
This subgroup has the characteristic active site tetrad
and 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 = 303
Score = 25.0 bits (55), Expect = 2.9
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHP 47
+ +TGA+ IG+A+ K G + IA + AE
Sbjct: 1 KVLVTGANGFIGRALVDKLLSRGEEVRIAVRNAENAE 37
>gnl|CDD|187631 cd05373, SDR_c10, classical (c) SDR, subgroup 10. This subgroup
resembles the classical SDRs, but has an incomplete
match to the canonical glycine rich NAD-binding motif
and lacks the typical active site tetrad (instead of
the critical active site Tyr, it has Phe, but contains
the nearby Lys). SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 238
Score = 25.0 bits (55), Expect = 2.9
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 6/55 (10%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKLPGTIYSAAKEVEDAGG 65
+ GA G+G AIA + A +G ++ +AA+ L I + DAGG
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDI------IRDAGG 49
>gnl|CDD|233635 TIGR01915, npdG, NADPH-dependent F420 reductase. This model
represents a subset of a parent family described by
pfam03807. Unlike the parent family, members of this
family are found only in species with evidence of
coenzyme F420. All members of this family are believed
to act as NADPH-dependent F420 reductase [Energy
metabolism, Electron transport].
Length = 219
Score = 24.8 bits (54), Expect = 3.2
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 10 LTIFITGASRGIGKAIALKAAKDGANIVIAAKTAE 44
+ I + G + GK +AL+ AK G I+I ++ E
Sbjct: 1 MKIAVLGGTGDQGKGLALRLAKAGNKIIIGSRDLE 35
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 25.1 bits (55), Expect = 3.3
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAA 40
ITGAS G+G A A A+ G V+ A
Sbjct: 2 ITGASSGLGLATAKALAETGKWHVVMA 28
>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 = 24.8 bits (54), Expect = 3.3
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIV 37
TI ITGA+ GIG A A G ++
Sbjct: 1 TIVITGAASGIGAATAELLEDAGHTVI 27
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 25.0 bits (55), Expect = 3.4
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 14 ITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
+TG SRG+G A+A + + G ++ A++ P
Sbjct: 6 VTGHSRGLGAALAEQLLQPGIAVLGVARSRHP 37
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to
reduce the keto group to a hydroxy group.
Length = 180
Score = 24.8 bits (55), Expect = 3.4
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 11 TIFITGASRGIGKAIALKAAKDGA-NIVIAAKTAEPHPK 48
T ITG G+G+A+A A+ GA +V+ +++ P
Sbjct: 2 TYLITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPG 40
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 24.7 bits (54), Expect = 3.6
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIA 39
T +TGA+ GIG+A+A + G ++
Sbjct: 4 TALVTGAAGGIGQALARRFLAAGDRVLAL 32
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR
family domains have the characteristic active site
tetrad and a well-conserved NAD(P)-binding motif. This
subgroup is not well characterized, its members are
annotated as having a variety of putative functions.
One characterized member is Pseudomonas fluorescens
MupV a protein involved in the biosynthesis of
Mupirocin, a polyketide-derived antibiotic. 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 = 293
Score = 24.6 bits (54), Expect = 3.8
Identities = 5/27 (18%), Positives = 17/27 (62%)
Query: 12 IFITGASRGIGKAIALKAAKDGANIVI 38
+F+TG + +G+ + + ++G +++
Sbjct: 1 VFVTGGTGFLGRHLVKRLLENGFKVLV 27
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 24.6 bits (53), Expect = 3.9
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 13 FITGASRGIGKAIALKAAKDGANIVIAAKTAEP 45
++TG GIG +I + KDG +V P
Sbjct: 7 YVTGGMGGIGTSICQRLHKDGFKVVAGCGPNSP 39
>gnl|CDD|187550 cd05239, GDP_FS_SDR_e, GDP-fucose synthetase, extended (e) SDRs.
GDP-fucose synthetase (aka 3, 5-epimerase-4-reductase)
acts in the NADP-dependent synthesis of GDP-fucose from
GDP-mannose. Two activities have been proposed for the
same active site: epimerization and reduction. Proteins
in this subgroup are extended SDRs, which have a
characteristic active site tetrad and an NADP-binding
motif, [AT]GXXGXXG, that is a close match to the
archetypical form. 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 = 300
Score = 24.5 bits (54), Expect = 4.1
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 11 TIFITGASRGIGKAIALK-AAKDGANIV 37
I +TG +G AI A + N+V
Sbjct: 1 KILVTGHRGLVGSAIVRVLARRGYENVV 28
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 309
Score = 24.4 bits (54), Expect = 4.5
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 8 SGLTIFITGASRGIGKAIALKAAKDGANIVIA 39
+G T+ I GA+ G+G + A++ AK VIA
Sbjct: 144 AGQTVLIHGAAGGVG-SFAVQLAKARGARVIA 174
>gnl|CDD|223450 COG0373, HemA, Glutamyl-tRNA reductase [Coenzyme metabolism].
Length = 414
Score = 24.5 bits (54), Expect = 4.8
Identities = 12/45 (26%), Positives = 16/45 (35%)
Query: 5 GKLSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
G L + + GA A K I IA +T E +L
Sbjct: 174 GSLKDKKVLVIGAGEMGELVAKHLAEKGVKKITIANRTLERAEEL 218
>gnl|CDD|237588 PRK14022, PRK14022,
UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase;
Provisional.
Length = 481
Score = 24.6 bits (54), Expect = 4.9
Identities = 9/32 (28%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 20 GIGKAIALKAAKDGANIVIAAKTAEPHPKLPG 51
I A+++ A ++IA K A+ + +PG
Sbjct: 434 AIKHAMSITEGPGDA-VIIAGKGADAYQIVPG 464
>gnl|CDD|240624 cd05299, CtBP_dh, C-terminal binding protein (CtBP),
D-isomer-specific 2-hydroxyacid dehydrogenases related
repressor. The transcriptional corepressor CtBP is a
dehydrogenase with sequence and structural similarity to
the d2-hydroxyacid dehydrogenase family. CtBP was
initially identified as a protein that bound the PXDLS
sequence at the adenovirus E1A C terminus, causing the
loss of CR-1-mediated transactivation. CtBP binds NAD(H)
within a deep cleft, undergoes a conformational change
upon NAD binding, and has NAD-dependent dehydrogenase
activity.
Length = 312
Score = 24.4 bits (54), Expect = 5.0
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIV 37
L GLT+ + G R IG+A+A +A G ++
Sbjct: 140 LRGLTLGLVGFGR-IGRAVAKRAKAFGFRVI 169
>gnl|CDD|107334 cd06339, PBP1_YraM_LppC_lipoprotein_like, Periplasmic binding
component of lipoprotein LppC, an immunodominant
antigen. This subgroup includes periplasmic binding
component of lipoprotein LppC, an immunodominant
antigen, whose molecular function is not characterized.
Members of this subgroup are predicted to be involved
in transport of lipid compounds, and they are sequence
similar to the family of ABC-type hydrophobic amino
acid transporters (HAAT).
Length = 336
Score = 24.2 bits (53), Expect = 5.0
Identities = 9/29 (31%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 10 LTIFITGASRGIGKAIALKAAKDGANIVI 38
L ++ T + G A A +A +GA+I++
Sbjct: 37 LRVYDTAGAAGAA-AAARQAVAEGADIIV 64
>gnl|CDD|137204 PRK09310, aroDE, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase protein; Reviewed.
Length = 477
Score = 24.4 bits (53), Expect = 5.7
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 7 LSGLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
L+ + I GA G KAIA A+ GA ++I +T L
Sbjct: 330 LNNQHVAIVGAG-GAAKAIATTLARAGAELLIFNRTKAHAEAL 371
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 24.1 bits (52), Expect = 6.1
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIA 39
G +TGA+RGIG IA +G +V+A
Sbjct: 10 GRVALVTGAARGIGLGIAAWLIAEGWQVVLA 40
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 24.1 bits (53), Expect = 6.4
Identities = 6/39 (15%), Positives = 15/39 (38%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPHPKL 49
+ + GA+ +G+ + + G + + KL
Sbjct: 1 KVLVVGATGKVGRHVVRELLDRGYQVRALVRDPSQAEKL 39
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 23.8 bits (52), Expect = 7.0
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 1 MINTGKLSGLTIFITGASRGIGK-AIALKAAK 31
MI GK++G I I G G GK A+A+ A+
Sbjct: 57 MIKQGKMAGRGILIVG-PPGTGKTALAMGIAR 87
>gnl|CDD|187549 cd05238, Gne_like_SDR_e, Escherichia coli Gne (a
nucleoside-diphosphate-sugar 4-epimerase)-like,
extended (e) SDRs. Nucleoside-diphosphate-sugar
4-epimerase has the characteristic active site tetrad
and NAD-binding motif of the extended SDR, and is
related to more specifically defined epimerases such as
UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), which catalyzes the
NAD-dependent conversion of UDP-galactose to
UDP-glucose, the final step in Leloir galactose
synthesis. This subgroup includes Escherichia coli
055:H7 Gne, a UDP-GlcNAc 4-epimerase, essential for O55
antigen synthesis. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 23.9 bits (52), Expect = 7.5
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 11 TIFITGASRGIGKAIALKAAKDGANIVIA 39
+ ITGAS +G+ +A + D N +
Sbjct: 2 KVLITGASGFVGQRLAERLLSDVPNERLI 30
>gnl|CDD|176232 cd08271, MDR5, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 325
Score = 23.8 bits (52), Expect = 7.7
Identities = 12/38 (31%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 9 GLTIFITGASRGIGKAIALKAAKDGANIVIAAKTAEPH 46
G TI ITG + G+G + A++ AK A + + ++ +
Sbjct: 142 GRTILITGGAGGVG-SFAVQLAKR-AGLRVITTCSKRN 177
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase;
Validated.
Length = 322
Score = 23.8 bits (52), Expect = 8.3
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 4/21 (19%)
Query: 11 TIFITGASRGIGKAIALKAAK 31
T+ ITGAS G+G L AAK
Sbjct: 8 TVIITGASSGVG----LYAAK 24
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
0.313 0.132 0.364
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,317,528
Number of extensions: 248619
Number of successful extensions: 650
Number of sequences better than 10.0: 1
Number of HSP's gapped: 649
Number of HSP's successfully gapped: 317
Length of query: 66
Length of database: 10,937,602
Length adjustment: 37
Effective length of query: 29
Effective length of database: 9,296,504
Effective search space: 269598616
Effective search space used: 269598616
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.0 bits)