RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13141
(84 letters)
>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 = 89.4 bits (222), Expect = 2e-23
Identities = 38/78 (48%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
MACRD+ K I T NH+V+V+ LDLASL S+R FAA+ L EE + VLINNAG
Sbjct: 30 MACRDMAKCEEAAAEIRRDTLNHEVIVRHLDLASLKSIRAFAAEFLAEEDRLDVLINNAG 89
Query: 61 QGGILNRITKDG--LQLG 76
T+DG +Q G
Sbjct: 90 VMRCPYSKTEDGFEMQFG 107
>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 = 87.7 bits (218), Expect = 7e-23
Identities = 32/79 (40%), Positives = 45/79 (56%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ACR+ K I +T N +V V +LDL+SL SVR+FA + L + +LINNAG
Sbjct: 30 IACRNEEKGEEAAAEIKKETGNAKVEVIQLDLSSLASVRQFAEEFLARFPRLDILINNAG 89
Query: 61 QGGILNRITKDGLQLGMQI 79
R+TKDG +L +
Sbjct: 90 IMAPPRRLTKDGFELQFAV 108
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 65.8 bits (161), Expect = 2e-14
Identities = 29/78 (37%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+A R+L K I T V +++LDL SL SVR A + I +LINNAG
Sbjct: 45 LAVRNLDKGKAAAARITAATPGADVTLQELDLTSLASVRAAADALRAAYPRIDLLINNAG 104
Query: 61 QGGILNRITKDG--LQLG 76
+ T DG LQ G
Sbjct: 105 VMYTPKQTTADGFELQFG 122
>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 = 60.3 bits (146), Expect = 2e-12
Identities = 26/79 (32%), Positives = 44/79 (55%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ACR++ +A+ I+ + + +V LDLASL SV+ FA + +HVL+ NA
Sbjct: 30 LACRNMSRASAAVSRILEEWHKARVEAMTLDLASLRSVQRFAEAFKAKNSPLHVLVCNAA 89
Query: 61 QGGILNRITKDGLQLGMQI 79
+ +T+DGL+ Q+
Sbjct: 90 VFALPWTLTEDGLETTFQV 108
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 52.8 bits (127), Expect = 7e-10
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ R+ K +I T + ++ ++ LDL+SL SV Q+ E + IH+LINNAG
Sbjct: 43 LPVRNRAKGEAAVAAIRTAVPDAKLSLRALDLSSLASVAALGEQLRAEGRPIHLLINNAG 102
Query: 61 QGGILNR-ITKDG--LQLG 76
R T DG LQ G
Sbjct: 103 VMTPPERQTTADGFELQFG 121
>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 = 52.5 bits (126), Expect = 1e-09
Identities = 26/83 (31%), Positives = 40/83 (48%), Gaps = 5/83 (6%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
MACRD KA + + +++ V+ DLASLDSVR+F + + L+ NA
Sbjct: 31 MACRDFLKAEQAAQEVGMPKDSYSVL--HCDLASLDSVRQFVDNFRRTGRPLDALVCNAA 88
Query: 61 ---QGGILNRITKDGLQLGMQID 80
R T DG +L + ++
Sbjct: 89 VYLPTAKEPRFTADGFELTVGVN 111
>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 = 52.2 bits (125), Expect = 1e-09
Identities = 26/74 (35%), Positives = 42/74 (56%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
M CR+ +A R+ I T++ N + + +D++ V EF + +E K +HVLINNAG
Sbjct: 30 MVCRNQTRAEEARKEIETESGNQNIFLHIVDMSDPKQVWEFVEEFKEEGKKLHVLINNAG 89
Query: 61 QGGILNRITKDGLQ 74
+T+DGL+
Sbjct: 90 CMVNKRELTEDGLE 103
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 51.6 bits (124), Expect = 2e-09
Identities = 21/37 (56%), Positives = 25/37 (67%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
V V LDLA L+SVR FA + LD + I +LINNAG
Sbjct: 72 GVEVVMLDLADLESVRAFAERFLDSGRRIDILINNAG 108
>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 = 50.2 bits (120), Expect = 7e-09
Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNA 59
MACRD KA +S+ +++ ++ LDL SLDSVR+F Q + + + L+ NA
Sbjct: 33 MACRDFLKAEQAAKSLGMPKDSYTIM--HLDLGSLDSVRQFVQQFRESGRPLDALVCNA 89
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 47.8 bits (114), Expect = 5e-08
Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNA 59
MACRD KA +S +++ V+ LDLASLDSVR+F + + VL+ NA
Sbjct: 27 MACRDFLKAERAAKSAGMPKDSYTVM--HLDLASLDSVRQFVDNFRRSGRPLDVLVCNA 83
>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 = 46.1 bits (110), Expect = 2e-07
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 27 VKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
V +LD+ +S++ ++++ I VL+NNAG G
Sbjct: 50 VLELDVTDEESIKAAVKEVIERFGRIDVLVNNAGYG 85
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase;
Validated.
Length = 322
Score = 45.8 bits (109), Expect = 2e-07
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNA 59
MACR+L KA + + +++ ++ +DL LDSVR F K + L+ NA
Sbjct: 35 MACRNLKKAEAAAQELGIPPDSYTII--HIDLGDLDSVRRFVDDFRALGKPLDALVCNA 91
>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 = 44.1 bits (105), Expect = 9e-07
Identities = 13/58 (22%), Positives = 26/58 (44%), Gaps = 7/58 (12%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQLGMQIDQ 81
+ D++ ++V ++ E + +L+NNAG IT+D L + M +
Sbjct: 50 NAAALEADVSDREAVEALVEKVEAEFGPVDILVNNAG-------ITRDNLLMRMSEED 100
>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 = 42.2 bits (100), Expect = 3e-06
Identities = 13/60 (21%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ RD+ + E + + V +LD+ S+ A + ++ + +L+NNAG
Sbjct: 30 LTARDVERGQAAVEKL--RAEGLSVRFHQLDVTDDASIEAAADFVEEKYGGLDILVNNAG 87
>gnl|CDD|187645 cd08941, 3KS_SDR_c, 3-keto steroid reductase, classical (c) SDRs.
3-keto steroid reductase (in concert with other
enzymes) catalyzes NADP-dependent sterol C-4
demethylation, as part of steroid biosynthesis. 3-keto
reductase is a classical SDR, with a well conserved
canonical active site tetrad and fairly well conserved
characteristic NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 290
Score = 42.4 bits (100), Expect = 4e-06
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 2/65 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVK--KLDLASLDSVREFAAQILDEEKHIHVLINN 58
+ACR+L +A +++ + +VV +DL+++ SV A ++ + L N
Sbjct: 35 LACRNLQRAEAACRALLASHPDARVVFDYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLN 94
Query: 59 AGQGG 63
AG
Sbjct: 95 AGIMP 99
>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 = 41.9 bits (99), Expect = 4e-06
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 3/59 (5%)
Query: 2 ACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
A R+ E + V + D++ + V + L+E + +L+NNAG
Sbjct: 28 ADRNEEAL---AELAAIEALGGNAVAVQADVSDEEDVEALVEEALEEFGRLDILVNNAG 83
>gnl|CDD|233590 TIGR01830, 3oxo_ACP_reduc, 3-oxoacyl-(acyl-carrier-protein)
reductase. This model represents 3-oxoacyl-[ACP]
reductase, also called 3-ketoacyl-acyl carrier protein
reductase, an enzyme of fatty acid biosynthesis [Fatty
acid and phospholipid metabolism, Biosynthesis].
Length = 239
Score = 40.3 bits (95), Expect = 2e-05
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 9/74 (12%)
Query: 8 KANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNR 67
A V E + K + + D++ + V+ +I +E I +L+NNAG
Sbjct: 35 GAEEVVEEL--KAYGVKALGVVCDVSDREDVKAVVEEIEEELGPIDILVNNAG------- 85
Query: 68 ITKDGLQLGMQIDQ 81
IT+D L + M+ +
Sbjct: 86 ITRDNLLMRMKEED 99
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 38.8 bits (91), Expect = 6e-05
Identities = 12/46 (26%), Positives = 22/46 (47%)
Query: 17 ITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
+ +V V DL+ +++ ++ + I VL+NNAG G
Sbjct: 50 LEDKTGVEVEVIPADLSDPEALERLEDELKERGGPIDVLVNNAGFG 95
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 38.4 bits (90), Expect = 1e-04
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL +V IL E H+ L+NNAG
Sbjct: 428 DLTDSAAVDHTVKDILAEHGHVDYLVNNAG 457
>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 = 37.5 bits (87), Expect = 2e-04
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 16 IITKTNNHQVVVKKLDLAS-LDSVREFAAQILDEEKHIHVLINNAGQGGILNRI 68
I + + D++ +SV A +E I +L+NNAG G +
Sbjct: 50 AIKEAGGGRAAAVAADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPDAPL 103
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 37.3 bits (87), Expect = 2e-04
Identities = 11/38 (28%), Positives = 15/38 (39%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ DLA SV+ F + L+NNAG
Sbjct: 56 GRAHAIAADLADPASVQRFFDAAAAALGGLDGLVNNAG 93
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 37.5 bits (88), Expect = 2e-04
Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQLGMQID 80
+ + + D++ +SV + E + +L+NNAG IT+D L + M+ +
Sbjct: 56 KALAVQGDVSDAESVERAVDEAKAEFGGVDILVNNAG-------ITRDNLLMRMKEE 105
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 37.2 bits (87), Expect = 3e-04
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
LD+ SV+ +++ I VL+NNAG G
Sbjct: 52 LDVTDDASVQAAVDEVIARAGRIDVLVNNAGVG 84
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 36.5 bits (85), Expect = 4e-04
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 25 VVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
V LD+ S++ I+ EE I VL+NNAG G
Sbjct: 48 VHPLSLDVTDEASIKAAVDTIIAEEGRIDVLVNNAGYG 85
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 36.5 bits (85), Expect = 5e-04
Identities = 11/37 (29%), Positives = 22/37 (59%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ +DL++ +++ A++L++ VLINNAG
Sbjct: 56 KAAAYSIDLSNPEAIAPGIAELLEQFGCPDVLINNAG 92
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 36.3 bits (84), Expect = 5e-04
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 7/54 (12%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQLGM 77
QV +K+LD+ + E A+I +EE + +L+NNAG IT+D + M
Sbjct: 53 QVRLKELDVTDTEECAEALAEIEEEEGPVDILVNNAG-------ITRDSVFKRM 99
>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 = 35.5 bits (82), Expect = 0.001
Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 12/81 (14%)
Query: 2 ACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQ 61
A RD G A + K VV +LD+ +S++ AAQ D + V+INNAG
Sbjct: 34 AVRDPGSAAHLVAKYGDK-----VVPLRLDVTDPESIKAAAAQAKD----VDVVINNAGV 84
Query: 62 GGILNRITK---DGLQLGMQI 79
+ + + L+ M +
Sbjct: 85 LKPATLLEEGALEALKQEMDV 105
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 35.5 bits (82), Expect = 0.001
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL+ LD+V A + + +LINNAG
Sbjct: 97 DLSDLDAVDALVADVEKRIGGVDILINNAG 126
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 35.1 bits (82), Expect = 0.001
Identities = 15/78 (19%), Positives = 30/78 (38%), Gaps = 9/78 (11%)
Query: 4 RDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
+ A + + + + V D++ +VR ++ + +L+NNAG
Sbjct: 37 SNEEAAEALAAEL--RAAGGEARVLVFDVSDEAAVRALIEAAVEAFGALDILVNNAG--- 91
Query: 64 ILNRITKDGLQLGMQIDQ 81
IT+D L M +
Sbjct: 92 ----ITRDALLPRMSEED 105
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 34.8 bits (81), Expect = 0.002
Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 7/58 (12%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQLGMQIDQ 81
+ + D+ ++ A ++ I +L+NNAG I +D M D+
Sbjct: 57 RAQAVQADVTDKAALEAAVAAAVERFGRIDILVNNAG-------IFEDKPLADMSDDE 107
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 35.1 bits (81), Expect = 0.002
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+D++ V++FA++I ++ + VL NNAG
Sbjct: 60 HVDISDEQQVKDFASEIKEQFGRVDVLFNNAG 91
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 34.5 bits (80), Expect = 0.002
Identities = 11/47 (23%), Positives = 21/47 (44%)
Query: 14 ESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
E++ + + LD+ +V + +E I +L+NNAG
Sbjct: 44 EALADEIGAGAALALALDVTDRAAVEAAIEALPEEFGRIDILVNNAG 90
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 34.1 bits (79), Expect = 0.002
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG--QGGILNRITKDGLQ 74
+V V D+A D++ A + + +++NAG G L +T + +
Sbjct: 53 EVTVAACDVADRDALAALLAALPAALGPLDGVVHNAGVLDDGPLEELTPERFE 105
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 34.3 bits (79), Expect = 0.003
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 25 VVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
V ++DL +S + + L+E I +L+NNAG
Sbjct: 65 VTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNAG 100
>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 = 33.9 bits (78), Expect = 0.004
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 18 TKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
K N ++ + D+A DS RE + E +++VLINNAG
Sbjct: 45 AKAENPEIHTEVCDVADRDSRRELVEWLKKEYPNLNVLINNAG 87
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 33.8 bits (78), Expect = 0.004
Identities = 11/32 (34%), Positives = 15/32 (46%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
LD+ S F + + I VL+NNAG
Sbjct: 56 PLDVTDPASFAAFLDAVEADLGPIDVLVNNAG 87
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 33.7 bits (78), Expect = 0.004
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 4 RDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
+ A + E I K + K D++S + V QI+++ I +L+NNAG
Sbjct: 38 INEEAAQELLEEI--KEEGGDAIAVKADVSSEEDVENLVEQIVEKFGKIDILVNNAGISN 95
Query: 64 I 64
Sbjct: 96 F 96
>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 = 33.4 bits (77), Expect = 0.005
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+V+ +LD++ +S+ + +E + I +L+NNAG
Sbjct: 51 KVLPLQLDVSDRESIEAALENLPEEFRDIDILVNNAG 87
>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 = 33.4 bits (77), Expect = 0.006
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 25 VVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ LD+ +SV A +L E ++ +LINNAG
Sbjct: 52 IHTIVLDVGDAESVEALAEALLSEYPNLDILINNAG 87
>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 = 33.2 bits (76), Expect = 0.006
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 7/49 (14%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDG 72
V + D++S +S + A++ E I VL+NNAG IT+D
Sbjct: 51 DFRVVEGDVSSFESCKAAVAKVEAELGPIDVLVNNAG-------ITRDA 92
>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 = 33.1 bits (76), Expect = 0.007
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 17 ITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ K + K D++S +SV + QI + I +LI NAG
Sbjct: 52 LAKKYGVKTKAYKCDVSSQESVEKTFKQIQKDFGKIDILIANAG 95
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 33.0 bits (76), Expect = 0.007
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
D+A + A + L+ H+ +L+NNAG
Sbjct: 69 DVADEADIERLAEETLERFGHVDILVNNAG 98
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 32.9 bits (76), Expect = 0.008
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 11 GVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
R+ +VV +LD+ SV A D + +L+NNAG
Sbjct: 37 AARDPESVTDLGPRVVPLQLDVTDPASVAAAAEAASD----VTILVNNAG 82
>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 = 32.6 bits (75), Expect = 0.009
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 20 TNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ KLD+A +V E ++ E I VL+N AG
Sbjct: 44 RYGYPFATYKLDVADSAAVDEVVQRLEREYGPIDVLVNVAG 84
>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 = 32.6 bits (75), Expect = 0.011
Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQ 74
LD++ L+ + + L + +LINNAG + + +
Sbjct: 60 LDMSDLEDAEQVVEEALKLFGGLDILINNAG-ISMRSLFHDTSID 103
>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 = 32.4 bits (74), Expect = 0.013
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 28 KKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
LD+A +VRE +++L E I L+N AG
Sbjct: 45 TPLDVADAAAVREVCSRLLAEHGPIDALVNCAG 77
>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 = 32.2 bits (74), Expect = 0.016
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
D+ ++V + L E I +LINNA
Sbjct: 61 DVRDPEAVEAAVDETLKEFGKIDILINNAA 90
>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 = 32.2 bits (74), Expect = 0.016
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
K D++ + V E A +I E + +LINNAG
Sbjct: 54 KCDVSKREEVYEAAKKIKKEVGDVTILINNAG 85
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 32.1 bits (73), Expect = 0.017
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKD 71
+D++ +RE Q+ E I VL+NNAG T D
Sbjct: 58 MDVSDEAQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATLD 99
Score = 25.2 bits (55), Expect = 4.3
Identities = 11/49 (22%), Positives = 20/49 (40%)
Query: 26 VVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQ 74
+ + D+ +V AQI + VL+NNAG + + +
Sbjct: 318 LSVQADITDEAAVESAFAQIQARWGRLDVLVNNAGIAEVFKPSLEQSAE 366
>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 = 31.7 bits (72), Expect = 0.023
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 27 VKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG--GILNRITKDGLQ 74
+LD+ SV ++ E+H+ VL+ NAG G G L +++D +
Sbjct: 57 TLQLDVCDSKSVAAAVERV--TERHVDVLVCNAGVGLLGPLEALSEDAMA 104
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 31.5 bits (72), Expect = 0.027
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 7/45 (15%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGL 73
++ + V AQI ++ ++ LINNAG I +DGL
Sbjct: 60 AANVTDEEDVEATFAQIAEDFGQLNGLINNAG-------ILRDGL 97
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 31.2 bits (71), Expect = 0.032
Identities = 15/59 (25%), Positives = 26/59 (44%)
Query: 4 RDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
RD + + K +++ + D+ V FAA + + +L+NNAGQG
Sbjct: 40 RDEERLASAEARLREKFPGARLLAARCDVLDEADVAAFAAAVEARFGGVDMLVNNAGQG 98
>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 = 31.1 bits (71), Expect = 0.035
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 2 ACRDLGKANGVRESIITKTNNHQ-VVVKKLDLASL--DSVREFAAQILDEEKHIHVLINN 58
CRD A + +H + + +LD+ +S A ++ D + VLINN
Sbjct: 29 TCRDPSAA----TELAALGASHSRLHILELDVTDEIAESAEAVAERLGDA--GLDVLINN 82
Query: 59 AG 60
AG
Sbjct: 83 AG 84
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 31.0 bits (71), Expect = 0.036
Identities = 10/40 (25%), Positives = 20/40 (50%)
Query: 21 NNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
++ LD++ +V + ++L E + VL+N AG
Sbjct: 46 EDYPFATFVLDVSDAAAVAQVCQRLLAETGPLDVLVNAAG 85
>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 = 30.9 bits (70), Expect = 0.047
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
DL+S + + A++ + + VL+NNAG
Sbjct: 62 DLSSEEGIEALVARVAERSDRLDVLVNNAGAT 93
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 30.8 bits (70), Expect = 0.051
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 28 KKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ LD++ D+V FAA I + V++N AG
Sbjct: 55 RALDISDYDAVAAFAADIHAAHGSMDVVMNIAG 87
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 30.5 bits (69), Expect = 0.062
Identities = 11/39 (28%), Positives = 22/39 (56%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
+ + K ++ ++ ++E AQI +E + V +NNA G
Sbjct: 55 KALAVKANVGDVEKIKEMFAQIDEEFGRLDVFVNNAASG 93
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 30.4 bits (69), Expect = 0.065
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 5/56 (8%)
Query: 5 DLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+A I + LD+ DS+ A ++ I +L NNA
Sbjct: 39 KPARARLAALEI-----GPAAIAVSLDVTRQDSIDRIVAAAVERFGGIDILFNNAA 89
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 30.4 bits (69), Expect = 0.066
Identities = 11/39 (28%), Positives = 20/39 (51%)
Query: 25 VVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
+++LDL+ L + +++ I VL+NNAG
Sbjct: 54 AEIRQLDLSDLPEGAQALDKLIQRLGRIDVLVNNAGAMT 92
>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 = 30.3 bits (69), Expect = 0.067
Identities = 12/41 (29%), Positives = 17/41 (41%)
Query: 20 TNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+V K DL+ V + I + +LINNAG
Sbjct: 46 RPGLRVTTVKADLSDAAGVEQLLEAIRKLDGERDLLINNAG 86
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 30.4 bits (69), Expect = 0.069
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRI 68
D+ D V+ +QI E I +L+NNA GI+ RI
Sbjct: 65 VCDVTDEDGVQAMVSQIEKEVGVIDILVNNA---GIIKRI 101
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 30.4 bits (69), Expect = 0.069
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
+VV+ D++ + V Q+ +E I +LINNAG
Sbjct: 57 KVVIATADVSDYEEVTAAIEQLKNELGSIDILINNAGIS 95
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 30.3 bits (69), Expect = 0.077
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 27 VKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
++D++ D++ FA + E +++NNAG G
Sbjct: 368 AYRVDVSDADAMEAFAEWVRAEHGVPDIVVNNAGIG 403
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 30.1 bits (68), Expect = 0.081
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
LD+ +VR + I V+++NAG G
Sbjct: 55 LDVTDSAAVRAVVDRAFAALGRIDVVVSNAGYG 87
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 29.9 bits (68), Expect = 0.082
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
D+ D V I++ + VL+NNAG
Sbjct: 55 DVRDPDQVAALVDAIVERHGRLDVLVNNAG 84
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 30.0 bits (68), Expect = 0.091
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
D++S + V A+I+++ I L+NNAG
Sbjct: 55 PTDVSSAEEVNHTVAEIIEKFGRIDGLVNNAG 86
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 30.0 bits (68), Expect = 0.096
Identities = 9/31 (29%), Positives = 16/31 (51%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAG 60
D++ SV A ++ I +L+N+AG
Sbjct: 68 CDVSDSQSVEAAVAAVISAFGRIDILVNSAG 98
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 29.6 bits (67), Expect = 0.13
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
+V+ + D++ V A L+ +H+L NNAG G
Sbjct: 56 EVLGVRTDVSDAAQVEALADAALERFGAVHLLFNNAGVGA 95
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 29.2 bits (66), Expect = 0.15
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 7/45 (15%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG---QGGI 64
V V LDL+S ++ + AA+ D I +L+NNAG GG+
Sbjct: 57 VDVAVHALDLSSPEAREQLAAEAGD----IDILVNNAGAIPGGGL 97
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 29.3 bits (66), Expect = 0.16
Identities = 9/36 (25%), Positives = 17/36 (47%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNA 59
+ ++D++ DS + A + I L+NNA
Sbjct: 56 TAIAVQVDVSDPDSAKAMADATVSAFGGIDYLVNNA 91
>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 = 29.3 bits (66), Expect = 0.18
Identities = 11/62 (17%), Positives = 22/62 (35%), Gaps = 2/62 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+A R + + + + + + D+A V A ++ I +NNAG
Sbjct: 29 LAARSAEALHELAREV--RELGGEAIAVVADVADAAQVERAADTAVERFGRIDTWVNNAG 86
Query: 61 QG 62
Sbjct: 87 VA 88
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 29.2 bits (66), Expect = 0.19
Identities = 10/32 (31%), Positives = 13/32 (40%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
D+A L + I L+NNAG G
Sbjct: 60 DVADLSAHEAMLDAAQAAWGRIDCLVNNAGVG 91
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 28.5 bits (64), Expect = 0.28
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
D+ S V ++ + VL+NNAG GG
Sbjct: 77 DVTSEAQVDALIDAAVERLGRLDVLVNNAGLGG 109
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 28.7 bits (65), Expect = 0.28
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
LD+ D++ A I VL+NNAG G
Sbjct: 57 LDVTDFDAIDAVVADAEATFGPIDVLVNNAGYG 89
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 28.4 bits (64), Expect = 0.32
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 22 NHQVVVKKLDLASLD---SVREFAAQILDEEKHIHVLINNAGQ 61
H+ VV DL S +V A ++ I+VLINNAG
Sbjct: 54 RHRWVV--ADLTSEAGREAVLARAREMGG----INVLINNAGV 90
>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 = 28.6 bits (64), Expect = 0.33
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL+ +++++ ++E HI +L+NNAG
Sbjct: 58 TADLSDIEAIKALVDSAVEEFGHIDILVNNAG 89
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 28.4 bits (64), Expect = 0.33
Identities = 10/32 (31%), Positives = 14/32 (43%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
D+ V+ I+ + VLI NAG G
Sbjct: 62 DVRDEADVQRAVDAIVAAFGGLDVLIANAGVG 93
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 28.2 bits (63), Expect = 0.34
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ + +LD+ + ++ E A + E ++I VL+NNAG
Sbjct: 47 NLYIAQLDVRNRAAIEEMLASLPAEWRNIDVLVNNAG 83
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 28.2 bits (63), Expect = 0.34
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 19 KTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
H+ D+ SV + ++E I +L+NNAG
Sbjct: 50 CGRGHRCTAVVADVRDPASVAAAIKRAKEKEGRIDILVNNAG 91
>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 = 28.2 bits (63), Expect = 0.37
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG---QGGILN 66
+ + LD+ + V A EE I VL N AG G IL+
Sbjct: 46 PGITTRVLDVTDKEQVAALAK----EEGRIDVLFNCAGFVHHGSILD 88
>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 = 28.1 bits (63), Expect = 0.40
Identities = 12/58 (20%), Positives = 19/58 (32%), Gaps = 6/58 (10%)
Query: 9 ANGVRESIITKTN------NHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
N E V+ D+ D + + A E + +L+NNAG
Sbjct: 30 VNDFGEEGAEAAAKVAGDAGGSVIYLPADVTKEDEIADMIAAAAAEFGGLDILVNNAG 87
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 28.3 bits (64), Expect = 0.42
Identities = 10/42 (23%), Positives = 21/42 (50%), Gaps = 7/42 (16%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKD 71
LD+ + D+ A + + + ++++NAG IT+D
Sbjct: 263 LDITAPDAPARIAEHLAERHGGLDIVVHNAG-------ITRD 297
>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 = 27.9 bits (62), Expect = 0.51
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 8 KANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
A V +I + Q + + ++ S + + + I +L+NNAG GG
Sbjct: 35 GAEAVAAAI--QQAGGQAIGLECNVTSEQDLEAVVKATVSQFGGITILVNNAGGGG 88
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 27.6 bits (62), Expect = 0.55
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 4 RDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
R+ KA V I K + + K D+ +S+ + QIL++ +LIN AG
Sbjct: 42 RNQEKAEAVVAEI--KAAGGEALAVKADVLDKESLEQARQQILEDFGPCDILINGAG 96
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 27.7 bits (62), Expect = 0.57
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 30 LDLASLDSVREFAAQILD-EEKHIHVLINNAGQG--GILNRITKDGLQ 74
LDL +SV A +++ + ++ L NNAG G G L+ I++ ++
Sbjct: 52 LDLDDPESVERAADEVIALTDNRLYGLFNNAGFGVYGPLSTISRQQME 99
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 27.7 bits (62), Expect = 0.58
Identities = 12/53 (22%), Positives = 20/53 (37%)
Query: 8 KANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
KA V + I + D S SV + + + + +L+ NAG
Sbjct: 38 KAANVAQEINAEYGEGMAYGFGADATSEQSVLALSRGVDEIFGRVDLLVYNAG 90
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 27.8 bits (62), Expect = 0.60
Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 15/62 (24%)
Query: 3 CRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
CR LG +V+V D+ D V+ A Q I V +NN G G
Sbjct: 51 CRALGA---------------EVLVVPTDVTDADQVKALATQAASFGGRIDVWVNNVGVG 95
Query: 63 GI 64
+
Sbjct: 96 AV 97
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 27.6 bits (61), Expect = 0.60
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQLGM 77
+L+ D V+ + + + + +L+NNAG ITKDGL + M
Sbjct: 60 NLSDRDEVKALGQKAEADLEGVDILVNNAG-------ITKDGLFVRM 99
>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 = 27.7 bits (62), Expect = 0.63
Identities = 11/40 (27%), Positives = 20/40 (50%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
+ VV + D++ V E A + + + VL++NA G
Sbjct: 49 KAVVVRADVSQPQDVEEMFAAVKERFGRLDVLVSNAAAGA 88
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 27.7 bits (62), Expect = 0.66
Identities = 15/60 (25%), Positives = 23/60 (38%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+A D A +I +V+ D+ SV A + + VL+NNAG
Sbjct: 36 LADLDAALAERAAAAIARDVAGARVLAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNAG 95
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A;
Provisional.
Length = 256
Score = 27.6 bits (62), Expect = 0.68
Identities = 12/55 (21%), Positives = 28/55 (50%)
Query: 5 DLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNA 59
D N + ES+ + + ++ + +LD+ +S+ EF ++ ++ I +N A
Sbjct: 37 DKEALNELLESLGKEFKSKKLSLVELDITDQESLEEFLSKSAEKYGKIDGAVNCA 91
>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 = 27.6 bits (62), Expect = 0.71
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
DL + + + D + +L+NNAG
Sbjct: 58 DLTDPEDIDRLVEKAGDAFGRVDILVNNAGGP 89
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 27.3 bits (61), Expect = 0.72
Identities = 16/77 (20%), Positives = 28/77 (36%), Gaps = 9/77 (11%)
Query: 5 DLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGI 64
A V + I+ + V D+A D ++ + VL+NNAG
Sbjct: 48 GGSAAQAVVDEIVA--AGGEAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNAG---- 101
Query: 65 LNRITKDGLQLGMQIDQ 81
I +D + M ++
Sbjct: 102 ---ILRDRMIANMSEEE 115
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 27.1 bits (60), Expect = 0.90
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 25 VVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
V K D+ + D V++ + E + VL+NNAG
Sbjct: 53 VFTIKCDVGNRDQVKKSKEVVEKEFGRVDVLVNNAG 88
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 27.1 bits (60), Expect = 0.94
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
+LD+ ++ A ++ E + VLINNAG G
Sbjct: 50 QLDVNDGAALARLAEELEAEHGGLDVLINNAGYG 83
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 27.2 bits (61), Expect = 1.00
Identities = 6/30 (20%), Positives = 14/30 (46%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL + + A +L+ + +L++ G
Sbjct: 57 DLTTAEGCAAVARAVLERLGGVDILVHVLG 86
>gnl|CDD|223988 COG1060, ThiH, Thiamine biosynthesis enzyme ThiH and related
uncharacterized enzymes [Coenzyme metabolism / General
function prediction only].
Length = 370
Score = 26.9 bits (60), Expect = 1.1
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 26 VVKKLDLASLDSVREFAAQILDEE 49
V+K+L A LDS+ A+IL EE
Sbjct: 163 VLKRLKEAGLDSMPGGGAEILSEE 186
>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 = 26.7 bits (59), Expect = 1.1
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQ--GGILNRITKD 71
D+ S+ + A + I VL+NNAG+ GG + +
Sbjct: 60 DVRSVPEIEALVAAAVARYGPIDVLVNNAGRSGGGATAELADE 102
>gnl|CDD|214359 CHL00085, ycf24, putative ABC transporter.
Length = 485
Score = 26.9 bits (60), Expect = 1.2
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 57 NNAGQGGILNRITKDGLQLG 76
+ G+GGI N +TK GL G
Sbjct: 280 DENGEGGIYNFVTKRGLCAG 299
>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 = 26.7 bits (60), Expect = 1.2
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG--QGGILNRITKDGLQ 74
+V V D+A D++ A I E + +I+ AG G+L +T +
Sbjct: 54 RVTVVACDVADRDALAAVLAAIPAVEGPLTGVIHAAGVLDDGVLASLTPERFA 106
>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 = 26.9 bits (60), Expect = 1.3
Identities = 8/38 (21%), Positives = 19/38 (50%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ + D+ S + + + +++ + +LINNAG
Sbjct: 49 VKATFVQCDVTSWEQLAAAFKKAIEKFGRVDILINNAG 86
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 26.5 bits (59), Expect = 1.3
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 3/72 (4%)
Query: 4 RDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQ-- 61
R+ K + + V++LD+ +S+ F +L E I +L+NNAG
Sbjct: 35 RNPEKQENLLSQATQLNLQQNIKVQQLDVTDQNSIHNFQL-VLKEIGRIDLLVNNAGYAN 93
Query: 62 GGILNRITKDGL 73
GG + I +
Sbjct: 94 GGFVEEIPVEEY 105
>gnl|CDD|187640 cd08935, mannonate_red_SDR_c, putative D-mannonate
oxidoreductase, classical (c) SDR. D-mannonate
oxidoreductase catalyzes the NAD-dependent
interconversion of D-mannonate and D-fructuronate. This
subgroup includes Bacillus subtitils UxuB/YjmF, a
putative D-mannonate oxidoreductase; the B. subtilis
UxuB gene is part of a putative ten-gene operon (the
Yjm operon) involved in hexuronate catabolism.
Escherichia coli UxuB does not belong to this subgroup.
This subgroup has a canonical active site tetrad and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 271
Score = 26.7 bits (59), Expect = 1.4
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAG 60
LD ASL+ RE +I+ + + +LIN AG
Sbjct: 64 LDRASLERARE---EIVAQFGTVDILINGAG 91
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 26.3 bits (59), Expect = 1.4
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 7/58 (12%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQLGMQIDQ 81
+V V D++ D+VR A+I + + +I+ AG + +D L M +
Sbjct: 54 EVTVVACDVSDRDAVRALLAEIRADGPPLRGVIHAAG-------VLRDALLANMTAED 104
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 26.7 bits (59), Expect = 1.5
Identities = 13/56 (23%), Positives = 25/56 (44%)
Query: 5 DLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+L A V I + + V K+D+ +V+ A + + +++NNAG
Sbjct: 447 NLEAAEAVAAEINGQFGAGRAVALKMDVTDEQAVKAAFADVALAYGGVDIVVNNAG 502
>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 = 26.4 bits (58), Expect = 1.5
Identities = 14/63 (22%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 13 RESIITKTNNHQVVVKKLDLASLDSVREFAAQILD----EEKHIHVLINNAGQGGILNRI 68
+ I + + +VV LDL + + + + + + +LINNAG G +++
Sbjct: 45 KAEIGAERSGLRVVRVSLDLGAEAGLEQLLKALRELPRPKGLQRLLLINNAGTLGDVSKG 104
Query: 69 TKD 71
D
Sbjct: 105 FVD 107
>gnl|CDD|237099 PRK12428, PRK12428, 3-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 241
Score = 26.5 bits (59), Expect = 1.6
Identities = 14/53 (26%), Positives = 17/53 (32%), Gaps = 8/53 (15%)
Query: 12 VRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGI 64
RE +T Q DL S+ A + I L N AG G
Sbjct: 17 RREPGMTLDGFIQA-----DLGDPASIDAAVAAL---PGRIDALFNIAGVPGT 61
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 26.4 bits (59), Expect = 1.6
Identities = 6/37 (16%), Positives = 20/37 (54%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ +++D+ +++ A +++ + +L+ NAG
Sbjct: 56 KARARQVDVRDRAALKAAVAAGVEDFGRLDILVANAG 92
>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 = 26.2 bits (58), Expect = 1.9
Identities = 10/34 (29%), Positives = 17/34 (50%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
+D+ D VR +D+ + +L+NNAG
Sbjct: 70 VVDVRDEDQVRALVEATVDQFGRLDILVNNAGAI 103
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 26.3 bits (59), Expect = 2.0
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
D++ V A L+ + +L+NNAG
Sbjct: 61 DVSDEADVEAAVAAALERFGSVDILVNNAG 90
>gnl|CDD|212119 cd10808, YdjC, Escherichia coli YdjC-like family of proteins.
Uncharacterized subfamily of YdjC-like family of
proteins. Included in this subfamily is the
uncharacterized Escherichia coli protein YdjC (also
known as ChbG), encoded by the chb
(N,N'-diacetylchitobiose, also called [GlcNAc]2) or cel
operon, which encodes enzymes involved in growth on an
N,N'-diacetylchitobiose carbon source. The molecular
function of this subfamily is unclear.
Length = 259
Score = 26.1 bits (58), Expect = 2.1
Identities = 11/29 (37%), Positives = 12/29 (41%), Gaps = 12/29 (41%)
Query: 39 REFAAQI------------LDEEKHIHVL 55
RE AQI LD +H HVL
Sbjct: 106 RELRAQIERVLDAGIRPTHLDSHQHTHVL 134
>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 = 26.0 bits (58), Expect = 2.1
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 7/50 (14%)
Query: 19 KTNNHQVVV---KKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGIL 65
+ VV K+LDL ++VR F ++EK +V+ A GGI+
Sbjct: 21 RRGYENVVFRTSKELDLTDQEAVRAF----FEKEKPDYVIHLAAKVGGIV 66
>gnl|CDD|235596 PRK05764, PRK05764, aspartate aminotransferase; Provisional.
Length = 393
Score = 26.2 bits (59), Expect = 2.2
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 27 VKKLDLASLDSVREFAAQILDEEK 50
V KL S+ EFA +L+E
Sbjct: 329 VSKLLGKSITDSLEFAEALLEEAG 352
>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 = 26.1 bits (58), Expect = 2.2
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 4/81 (4%)
Query: 4 RDLGKANGVRESIITKTNNHQVVV--KKLDLASLDSVREFAAQILDEEKHIHVLINNAGQ 61
R K E I + N V DL+ + V + AQ +++ +++N AG
Sbjct: 33 RSESKLEEAVEEIEAEANASGQKVSYISADLSDYEEVEQAFAQAVEKGGPPDLVVNCAGI 92
Query: 62 G--GILNRITKDGLQLGMQID 80
G+ +T + + GM ++
Sbjct: 93 SIPGLFEDLTAEEFERGMDVN 113
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 25.9 bits (57), Expect = 2.3
Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 2/57 (3%)
Query: 4 RDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
RD K ES+ K D+ D+VR E I +L+NNAG
Sbjct: 42 RDPAKLAAAAESL--KGQGLSAHALAFDVTDHDAVRAAIDAFEAEIGPIDILVNNAG 96
>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 = 26.1 bits (58), Expect = 2.3
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 17 ITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+T ++V+ +LD+ S +S++E L++ I +LINNA
Sbjct: 46 LTNLYKNRVIALELDITSKESIKELIESYLEKFGRIDILINNAY 89
>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 = 26.2 bits (58), Expect = 2.4
Identities = 8/37 (21%), Positives = 17/37 (45%)
Query: 24 QVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+V+ D+ +VR ++ + I +I+ AG
Sbjct: 261 RVLYISADVTDAAAVRRLLEKVRERYGAIDGVIHAAG 297
>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 = 26.1 bits (58), Expect = 2.4
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL+ + + A VL+NNA
Sbjct: 58 DLSDFAACADLVAAAFRAFGRCDVLVNNAS 87
>gnl|CDD|233036 TIGR00587, nfo, apurinic endonuclease (APN1). All proteins in this
family for which functions are known are 5' AP
endonculeases that are used in base excision repair and
the repair of abasic sites in DNA.This family is based
on the phylogenomic analysis of JA Eisen (1999, Ph.D.
Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 274
Score = 25.4 bits (56), Expect = 3.5
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 14 ESIITKTNNHQ--VVVKKLDLASLDSVREFAAQILDEEKHIHVLINN-AGQGGILNR 67
E + N +K + LD++ E ++ E K + +L+ N AGQG L R
Sbjct: 98 ELLGIMLYNFHPGSALKCSEEEGLDNLIESLNVVIKETKIVTILLENMAGQGSELGR 154
>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 = 25.4 bits (56), Expect = 3.6
Identities = 17/67 (25%), Positives = 22/67 (32%), Gaps = 4/67 (5%)
Query: 2 ACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG- 60
A R K + II + D D V I +E + VL+ NAG
Sbjct: 29 AARREAKLEALLVDII-RDAGGSAKAVPTDARDEDEVIALFDLIEEEIGPLEVLVYNAGA 87
Query: 61 --QGGIL 65
IL
Sbjct: 88 NVWFPIL 94
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 25.5 bits (56), Expect = 3.7
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 1 MACRDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+A R + + +R I + VV LD+ S++ A E I +L+NN+G
Sbjct: 38 LASRRVERLKELRAEIEAEGGAAHVV--SLDVTDYQSIKAAVAHAETEAGTIDILVNNSG 95
>gnl|CDD|216334 pfam01153, Glypican, Glypican.
Length = 559
Score = 25.4 bits (56), Expect = 3.8
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 6/43 (13%)
Query: 21 NNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
NN +V ++D+ D V Q + + K + + A G
Sbjct: 439 NNPEV---EVDITKPDPVIR---QQIMKLKIMTSRLRAAYSGN 475
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 25.3 bits (56), Expect = 3.8
Identities = 8/37 (21%), Positives = 14/37 (37%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNA 59
+ + D+ D A L+ + L+NNA
Sbjct: 54 RRALAVPTDITDEDQCANLVALALERFGRVDALVNNA 90
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 25.4 bits (57), Expect = 3.9
Identities = 7/42 (16%), Positives = 18/42 (42%)
Query: 21 NNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
N +V+ +++ ++R A + D+ V++ G
Sbjct: 758 NGVKVLAAQVEGVDAKALRTLADDLKDKLGSGVVVLATVEDG 799
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 25.1 bits (55), Expect = 4.2
Identities = 11/36 (30%), Positives = 14/36 (38%)
Query: 25 VVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
V DL S+ A E + VL+ NAG
Sbjct: 51 FVPVACDLTDAASLAAALANAAAERGPVDVLVANAG 86
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase;
Validated.
Length = 253
Score = 25.2 bits (55), Expect = 4.7
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL +D + + + E HI +L+NNAG
Sbjct: 65 DLRKIDGIPALLERAVAEFGHIDILVNNAG 94
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 25.1 bits (55), Expect = 4.8
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAGQGGI--LNRITKDGLQLGMQID 80
D+ + AQ D + VL+NNAG G + +I D + M I+
Sbjct: 58 QDVTDEAQWQALLAQAADAMGGLSVLVNNAGVGSFGAIEQIELDEWRRVMAIN 110
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 25.1 bits (55), Expect = 4.8
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAG 60
D+A ++V A+I E + +L+NN G
Sbjct: 67 FDIADEEAVAAAFARIDAEHGRLDILVNNVG 97
>gnl|CDD|187616 cd05358, GlcDH_SDR_c, glucose 1 dehydrogenase (GlcDH), classical
(c) SDRs. GlcDH, is a tetrameric member of the SDR
family, it catalyzes the NAD(P)-dependent oxidation of
beta-D-glucose to D-glucono-delta-lactone. GlcDH has a
typical NAD-binding site glycine-rich pattern as well
as the canonical active site tetrad (YXXXK motif plus
upstream Ser and Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 253
Score = 25.0 bits (55), Expect = 5.2
Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 8 KANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
A V E I K + + + D++ + V + E + +L+NNAG
Sbjct: 40 AAEEVVEEI--KAVGGKAIAVQADVSKEEDVVALFQSAIKEFGTLDILVNNAG 90
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 25.1 bits (55), Expect = 5.2
Identities = 11/46 (23%), Positives = 21/46 (45%)
Query: 17 ITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
+ K N + + D+++ + A +D +L+NNAG G
Sbjct: 50 MVKENGGEGIGVLADVSTREGCETLAKATIDRYGVADILVNNAGLG 95
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 25.1 bits (55), Expect = 5.4
Identities = 7/38 (18%), Positives = 16/38 (42%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ + +DL + R ++ + + L+N AG
Sbjct: 54 DALRIGGIDLVDPQAARRAVDEVNRQFGRLDALVNIAG 91
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 25.0 bits (55), Expect = 5.6
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAGQGG 63
++DL+ + + + +LINNA
Sbjct: 73 EIDLSQPYAPNRVFYAVSERLGDPSILINNAAYST 107
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 25.0 bits (55), Expect = 6.1
Identities = 11/52 (21%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG--QGGILNRITKDGLQLGMQID 80
D+ + A ++ I V++NNAG GG ++ + + I+
Sbjct: 57 DVRDYSQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLEDWDWQIAIN 108
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 24.9 bits (55), Expect = 6.5
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 4 RDLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQG 62
R + ++ ++ + +V V LD+ D V E A+ DE + +I NAG G
Sbjct: 34 RRTDRLEELKAELLARYPGIKVAVAALDVNDHDQVFEVFAEFRDELGGLDRVIVNAGIG 92
>gnl|CDD|236990 PRK11814, PRK11814, cysteine desulfurase activator complex subunit
SufB; Provisional.
Length = 486
Score = 24.8 bits (55), Expect = 6.5
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 60 GQGGILNRITKDGL 73
G+GGI N +TK GL
Sbjct: 284 GKGGIYNFVTKRGL 297
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 24.9 bits (55), Expect = 6.7
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 19 KTNNHQVVVKKLDLASLDSVREFAAQILDEEKH-IHVLINNAG 60
+ +V+ K++D A + +RE A + + + VL + A
Sbjct: 771 EIGGVKVLAKEVDGADMKELREIADDLKKKLGSAVIVLASVAD 813
>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 = 24.6 bits (54), Expect = 6.9
Identities = 10/56 (17%), Positives = 20/56 (35%), Gaps = 4/56 (7%)
Query: 5 DLGKANGVRESIITKTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL + G + +D+ S V+ A + + +++N AG
Sbjct: 33 DLPNSPGETVA----KLGDNCRFVPVDVTSEKDVKAALALAKAKFGRLDIVVNCAG 84
>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 = 24.8 bits (54), Expect = 6.9
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAG 60
DL+SL R+ A Q+ + +I+NAG
Sbjct: 61 DLSSLAETRKLADQV-NAIGRFDAVIHNAG 89
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 24.6 bits (54), Expect = 7.2
Identities = 8/38 (21%), Positives = 17/38 (44%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ +V D++ ++ + I +L+NNAG
Sbjct: 50 GEALVVPTDVSDAEACERLIEAAVARFGGIDILVNNAG 87
>gnl|CDD|220816 pfam10592, AIPR, AIPR protein. This family of proteins was
identified in as an abortive infection phage resistance
protein often found in restriction modification system
operons.
Length = 300
Score = 24.7 bits (54), Expect = 7.2
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 17 ITKTNNHQVVVKKLDLASLD 36
I++ N Q V DLASLD
Sbjct: 102 ISRATNSQNPVDDRDLASLD 121
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 24.6 bits (53), Expect = 7.3
Identities = 8/42 (19%), Positives = 19/42 (45%)
Query: 19 KTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
H V + D++ ++ + ++ + +L+NNAG
Sbjct: 52 GKEGHDVYAVQADVSKVEDANRLVEEAVNHFGKVDILVNNAG 93
>gnl|CDD|215980 pfam00535, Glycos_transf_2, Glycosyl transferase family 2.
Diverse family, transferring sugar from UDP-glucose,
UDP-N-acetyl- galactosamine, GDP-mannose or
CDP-abequose, to a range of substrates including
cellulose, dolichol phosphate and teichoic acids.
Length = 168
Score = 24.3 bits (53), Expect = 7.7
Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 14 ESIITKT-NNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNR 67
ES++ +T N +++V +D S D E A + + + V+ G R
Sbjct: 18 ESLLNQTYKNFEIIV--VDDGSTDGTVEIAEEYAKNDPRVRVIRLEENLGKAAAR 70
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 24.3 bits (53), Expect = 7.9
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 30 LDLASLDSVREFAAQILDEEKHIHVLINNAG 60
LD+ DSV+ F AQ + I VL++ AG
Sbjct: 66 LDVTDPDSVKSFVAQAEEALGEIEVLVSGAG 96
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 24.6 bits (54), Expect = 8.0
Identities = 12/41 (29%), Positives = 23/41 (56%)
Query: 19 KTNNHQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNA 59
+ QV+ ++D+ + + V++ QI ++ I LINNA
Sbjct: 46 EQFPGQVLTVQMDVRNPEDVQKMVEQIDEKFGRIDALINNA 86
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 24.5 bits (54), Expect = 8.1
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 23 HQVVVKKLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ + D+A ++V+ A + +E I +NNA
Sbjct: 57 GEALAVVADVADAEAVQAAADRAEEELGPIDTWVNNAM 94
>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 = 24.3 bits (53), Expect = 8.2
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
+ D+ V L + + +L+NNAG
Sbjct: 57 QADVTKRADVEAMVEAALSKFGRLDILVNNAG 88
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 24.5 bits (54), Expect = 8.4
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
++DL R+ Q + + I L+NNAG
Sbjct: 61 QVDLTDDAQCRDAVEQTVAKFGRIDGLVNNAG 92
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 24.5 bits (53), Expect = 8.4
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 31 DLASLDSVREFAAQILDEEKHIHVLINNAGQGGILNRITKDGLQLGMQ 78
DL + +Q ++ HI +LINNA GI+ R +D L+ G +
Sbjct: 63 DLIQQKDIDSIVSQAVEVMGHIDILINNA---GIIRR--QDLLEFGNK 105
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 24.4 bits (53), Expect = 8.9
Identities = 9/32 (28%), Positives = 20/32 (62%)
Query: 29 KLDLASLDSVREFAAQILDEEKHIHVLINNAG 60
K+D+++ + V + ++ + I +L+NNAG
Sbjct: 50 KVDVSNKEQVIKGIDYVISKYGRIDILVNNAG 81
>gnl|CDD|168719 PRK06893, PRK06893, DNA replication initiation factor; Validated.
Length = 229
Score = 24.4 bits (53), Expect = 9.2
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 23 HQVVVKKLDLASLDSVRE-FAAQILDEEKHIHVLINNAGQGGI 64
H + +K DLAS + E + L +E+ I VL NA Q GI
Sbjct: 137 HALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGI 179
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.134 0.363
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: 4,048,284
Number of extensions: 327669
Number of successful extensions: 577
Number of sequences better than 10.0: 1
Number of HSP's gapped: 569
Number of HSP's successfully gapped: 167
Length of query: 84
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 32
Effective length of database: 8,631,194
Effective search space: 276198208
Effective search space used: 276198208
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.0 bits)