RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy346
(87 letters)
>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 = 72.6 bits (179), Expect = 2e-17
Identities = 22/61 (36%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 8 HLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+L DVS+ + + ++ +F P ++LVN AGITRDN ++++E+D+ V +VNL
Sbjct: 51 AAALEADVSDREAVEALVEKVEAEFG-PVDILVNNAGITRDNLLMRMSEEDWDAVINVNL 109
Query: 68 K 68
Sbjct: 110 T 110
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 66.0 bits (162), Expect = 8e-15
Identities = 23/60 (38%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
L++ DVS+ ++ A+ K +F ++LVN AGITRDN +++ E+D+ +V D NL
Sbjct: 58 LAVQGDVSDAESVERAVDEAKAEFGGV-DILVNNAGITRDNLLMRMKEEDWDRVIDTNLT 116
>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 = 61.5 bits (150), Expect = 4e-13
Identities = 23/60 (38%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
L + DVS+ + + I+E+ P ++LVN AGITRDN +++ E+D+ V D NL
Sbjct: 51 LGVVCDVSDREDVKAVVEEIEEELG-PIDILVNNAGITRDNLLMRMKEEDWDAVIDTNLT 109
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 59.0 bits (144), Expect = 3e-12
Identities = 22/55 (40%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
DVS+ + + + A E F ++LVN AGITRD +++E+D+ +V DVNL
Sbjct: 62 DVSDEAAVRALIEAAVEAFG-ALDILVNNAGITRDALLPRMSEEDWDRVIDVNLT 115
>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 = 55.8 bits (135), Expect = 6e-11
Identities = 21/61 (34%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 8 HLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+++ DVS+ + + E+F R ++LVN AGI R +LT++D+ +V DVNL
Sbjct: 48 AVAVQADVSDEEDVEALVEEALEEFGRL-DILVNNAGIARPGPLEELTDEDWDRVLDVNL 106
Query: 68 K 68
Sbjct: 107 T 107
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like,
classical (c) SDRs. Ga5DH catalyzes the NADP-dependent
conversion of carbon source D-gluconate and
5-keto-D-gluconate. This SDR subgroup has a classical
Gly-rich NAD(P)-binding motif and a conserved active
site tetrad pattern. However, it has been proposed that
Arg104 (Streptococcus suis Ga5DH numbering), as well as
an active site Ca2+, play a critical role in catalysis.
In addition to Ga5DHs this subgroup contains Erwinia
chrysanthemi KduD which is involved in pectin
degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 53.5 bits (129), Expect = 4e-10
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+ DVS+ I A+ AI+E F ++LVN AGI R + + E +++ V DVNL
Sbjct: 57 TAFTCDVSDEEAIKAAVEAIEEDF-GKIDILVNNAGIIRRHPAEEFPEAEWRDVIDVNLN 115
Query: 69 LVDRRGGTAGKVCLDFGH 86
V + + GH
Sbjct: 116 GVFFVSQAVARHMIKQGH 133
>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 = 52.0 bits (125), Expect = 1e-09
Identities = 23/57 (40%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
DVS+ + A++ ++ + P +VLVN AGITRD F K+T + + V D NL V
Sbjct: 58 DVSSFESCKAAVAKVEAELG-PIDVLVNNAGITRDATFKKMTYEQWSAVIDTNLNSV 113
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 50.9 bits (122), Expect = 4e-09
Identities = 20/57 (35%), Positives = 38/57 (66%), Gaps = 1/57 (1%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+DV++T + A++ I+E+ P ++LVN AGITRD+ F +++ +++ V + NL
Sbjct: 57 KELDVTDTEECAEALAEIEEE-EGPVDILVNNAGITRDSVFKRMSHQEWNDVINTNL 112
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 49.7 bits (119), Expect = 9e-09
Identities = 27/82 (32%), Positives = 48/82 (58%), Gaps = 19/82 (23%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWF---LKLTEKDFQQVFDV 65
L++P DV++ ++++ A++A +E F P +VLVN AGI N F L +T++D+++ F V
Sbjct: 61 LAVPADVTDAASVAAAVAAAEEAFG-PLDVLVNNAGI---NVFADPLAMTDEDWRRCFAV 116
Query: 66 NLK------------LVDRRGG 75
+L +V+R G
Sbjct: 117 DLDGAWNGCRAVLPGMVERGRG 138
>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 = 48.8 bits (117), Expect = 2e-08
Identities = 17/59 (28%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
L +DV++ +I A+ + E+F R +VLVN AG + + ++ +++F+VN+
Sbjct: 49 EVLELDVTDEESIKAAVKEVIERFGR-IDVLVNNAGYGLFGPLEETSIEEVRELFEVNV 106
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 48.0 bits (115), Expect = 4e-08
Identities = 22/65 (33%), Positives = 30/65 (46%), Gaps = 10/65 (15%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLK-----LTEK----DFQQV 62
+V++ + + I E F N L+N AGI RD +K +T K FQ V
Sbjct: 60 AANVTDEEDVEATFAQIAEDFG-QLNGLINNAGILRDGLLVKAKDGKVTSKMSLEQFQSV 118
Query: 63 FDVNL 67
DVNL
Sbjct: 119 IDVNL 123
>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 = 47.8 bits (114), Expect = 4e-08
Identities = 22/63 (34%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNW-FLKLTEKDFQQVFDVNL 67
+++ DV+ + + + A KF R ++LVN AGIT N L++ E++F +VF VN+
Sbjct: 54 IAIQADVTKRADVEAMVEAALSKFGR-LDILVNNAGITHRNKPMLEVDEEEFDRVFAVNV 112
Query: 68 KLV 70
K +
Sbjct: 113 KSI 115
>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 = 46.1 bits (110), Expect = 2e-07
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
D+S+ + A + EK PP+++VNCAGI+ F LT ++F++ DVN
Sbjct: 61 ADLSDYEEVEQAFAQAVEKGG-PPDLVVNCAGISIPGLFEDLTAEEFERGMDVNYF 115
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 46.1 bits (110), Expect = 2e-07
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 14/86 (16%)
Query: 3 TGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQV 62
TG +D+SN I+ ++ + E+F P+VL+N AG+ L++ D+Q V
Sbjct: 53 TGVKAAA-YSIDLSNPEAIAPGIAELLEQFG-CPDVLINNAGMAYTGPLLEMPLSDWQWV 110
Query: 63 FDVNLKLV------------DRRGGT 76
+NL V R GG
Sbjct: 111 IQLNLTSVFQCCSAVLPGMRARGGGL 136
>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 = 46.0 bits (109), Expect = 2e-07
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 4 GSSTHLSLPMDVSNT-STISTAMSAIKEKFSRPPNVLVNCAGITR-DNWFLKLTEKDFQQ 61
G ++ DVS+ ++ ++A +E+F R ++LVN AGI D +LTE+D+ +
Sbjct: 55 GGGRAAAVAADVSDDEESVEALVAAAEEEFGRI-DILVNNAGIAGPDAPLEELTEEDWDR 113
Query: 62 VFDVNLK 68
V DVNL
Sbjct: 114 VIDVNLL 120
>gnl|CDD|187611 cd05353, hydroxyacyl-CoA-like_DH_SDR_c-like, (3R)-hydroxyacyl-CoA
dehydrogenase-like, classical(c)-like SDRs. Beta
oxidation of fatty acids in eukaryotes occurs by a
four-reaction cycle, that may take place in mitochondria
or in peroxisomes. (3R)-hydroxyacyl-CoA dehydrogenase is
part of rat peroxisomal multifunctional MFE-2, it is a
member of the NAD-dependent SDRs, but contains an
additional small C-terminal domain that completes the
active site pocket and participates in dimerization. The
atypical, additional C-terminal extension allows for
more extensive dimerization contact than other SDRs.
MFE-2 catalyzes the second and third reactions of the
peroxisomal beta oxidation cycle. Proteins in this
subgroup have a typical catalytic triad, but have a His
in place of the usual upstream Asn. This subgroup also
contains members identified as 17-beta-hydroxysteroid
dehydrogenases, including human peroxisomal
17-beta-hydroxysteroid dehydrogenase type 4 (17beta-HSD
type 4, aka MFE-2, encoded by HSD17B4 gene) which is
involved in fatty acid beta-oxidation and steroid
metabolism. This subgroup also includes two SDR domains
of the Neurospora crassa and Saccharomyces cerevisiae
multifunctional beta-oxidation protein (MFP, aka Fox2).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 250
Score = 45.8 bits (109), Expect = 2e-07
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 15 VSNTSTISTAMSAIK---EKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
V+N ++ +K + F R ++LVN AGI RD F K++E+D+ V V+LK
Sbjct: 66 VANYDSVEDGEKIVKTAIDAFGRV-DILVNNAGILRDRSFAKMSEEDWDLVMRVHLK 121
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 45.3 bits (108), Expect = 4e-07
Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
DV + + + A++A E F R ++LV AGI F ++ ++ +++V DVNL
Sbjct: 63 DVRDRAALKAAVAAGVEDFGRL-DILVANAGIFPLTPFAEMDDEQWERVIDVNLT 116
>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 = 44.8 bits (106), Expect = 6e-07
Identities = 24/62 (38%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
LSL D+S+ I + + E+F ++LVN AGI R + +EKD+ V +VNLK
Sbjct: 55 LSLTADLSDIEAIKALVDSAVEEFG-HIDILVNNAGIIRRADAEEFSEKDWDDVMNVNLK 113
Query: 69 LV 70
V
Sbjct: 114 SV 115
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 44.1 bits (105), Expect = 9e-07
Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 2 LTGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDN-WFLKLTEKDFQ 60
+ +++ DVS+ + + A++A E+F ++LVN AG T N L + E +F
Sbjct: 49 ILAGGRAIAVAADVSDEADVEAAVAAALERFGSV-DILVNNAGTTHRNGPLLDVDEAEFD 107
Query: 61 QVFDVNLK 68
++F VN+K
Sbjct: 108 RIFAVNVK 115
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 44.1 bits (105), Expect = 1e-06
Identities = 19/54 (35%), Positives = 34/54 (62%), Gaps = 1/54 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
DV++ + + A++A E+F R ++LVN AGI D +++ ++ +V DVNL
Sbjct: 64 DVTDKAALEAAVAAAVERFGRI-DILVNNAGIFEDKPLADMSDDEWDEVIDVNL 116
>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 = 44.2 bits (105), Expect = 1e-06
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
DVS + A IK++ +L+N AG+ L+L +++ ++ F+VN
Sbjct: 55 CDVSKREEVYEAAKKIKKEV-GDVTILINNAGVVSGKKLLELPDEEIEKTFEVNT 108
>gnl|CDD|187635 cd08930, SDR_c8, classical (c) SDR, subgroup 8. This subgroup has
a fairly well conserved active site tetrad and domain
size of the classical SDRs, but has an atypical
NAD-binding motif ([ST]G[GA]XGXXG). SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 43.9 bits (104), Expect = 1e-06
Identities = 16/69 (23%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 3 TGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTE---KDF 59
+ ++L +D+++ +I + + EKF R ++L+N A + W + E + +
Sbjct: 49 LYKNRVIALELDITSKESIKELIESYLEKFGRI-DILINNAYPSPKVWGSRFEEFPYEQW 107
Query: 60 QQVFDVNLK 68
+V +VNL
Sbjct: 108 NEVLNVNLG 116
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 43.7 bits (103), Expect = 1e-06
Identities = 22/64 (34%), Positives = 37/64 (57%), Gaps = 6/64 (9%)
Query: 8 HLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEK---DFQQVFD 64
HLS+ D+++ + + +A + I+ ++ +VLVN AGI F E+ DF +V+D
Sbjct: 317 HLSVQADITDEAAVESAFAQIQARWG-RLDVLVNNAGIAEV--FKPSLEQSAEDFTRVYD 373
Query: 65 VNLK 68
VNL
Sbjct: 374 VNLS 377
Score = 36.4 bits (84), Expect = 6e-04
Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 6 STHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGIT--RDNWFLKLTEKDFQQVF 63
H +L MDVS+ + I + +F R +VLVN AG+T L T ++F ++
Sbjct: 51 PDHHALAMDVSDEAQIREGFEQLHREFGR-IDVLVNNAGVTDPTMTATLDTTLEEFARLQ 109
Query: 64 DVNL 67
+NL
Sbjct: 110 AINL 113
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 43.5 bits (102), Expect = 2e-06
Identities = 19/34 (55%), Positives = 25/34 (73%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
++LVN AGITRD F KL +D+++V DVNL V
Sbjct: 86 DILVNNAGITRDRTFKKLNREDWERVIDVNLSSV 119
>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 = 43.5 bits (103), Expect = 2e-06
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLVDRR 73
DVS+ ++ I++ F ++L+ AGIT L T + + +V DVNL V
Sbjct: 66 DVSSQESVEKTFKQIQKDFG-KIDILIANAGITVHKPALDYTYEQWNKVIDVNLNGVFNC 124
Query: 74 GGTAGKVCLDFGH 86
A K+ G
Sbjct: 125 AQAAAKIFKKQGK 137
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 42.4 bits (100), Expect = 4e-06
Identities = 16/57 (28%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
DVS+ ++ A+ +K + ++L+N AGI++ FL+L +++++ VNL
Sbjct: 62 TADVSDYEEVTAAIEQLKNELGSI-DILINNAGISKFGKFLELDPAEWEKIIQVNLM 117
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 42.2 bits (100), Expect = 4e-06
Identities = 21/80 (26%), Positives = 42/80 (52%), Gaps = 13/80 (16%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
L+L +DV++ + + A+ A+ E+F R ++LVN AG+ + + D+ ++ D N+K
Sbjct: 56 LALALDVTDRAAVEAAIEALPEEFGRI-DILVNNAGLALGDPLDEADLDDWDRMIDTNVK 114
Query: 69 ------------LVDRRGGT 76
+V+R+ G
Sbjct: 115 GLLNGTRAVLPGMVERKSGH 134
>gnl|CDD|131468 TIGR02415, 23BDH, acetoin reductases. One member of this family,
as characterized in Klebsiella terrigena, is described
as able to interconvert acetoin + NADH with
meso-2,3-butanediol + NAD(+). It is also called capable
of irreversible reduction of diacetyl with NADH to
acetoin. Blomqvist, et al. decline to specify either EC
1.1.1.4 which is (R,R)-butanediol dehydrogenase, or EC
1.1.1.5, which is acetoin dehydrogenase without a
specified stereochemistry, for this enzyme. This enzyme
is a homotetramer in the family of short chain
dehydrogenases (pfam00106). Another member of this
family, from Corynebacterium glutamicum, is called
L-2,3-butanediol dehydrogenase (PMID:11577733) [Energy
metabolism, Fermentation].
Length = 254
Score = 41.3 bits (97), Expect = 9e-06
Identities = 20/59 (33%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
+DVS+ + +A+ EKF +V+VN AG+ L++TE++ ++V++VN+K V
Sbjct: 55 KLDVSDKDQVFSAIDQAAEKFGGF-DVMVNNAGVAPITPILEITEEELKKVYNVNVKGV 112
>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 = 41.5 bits (98), Expect = 9e-06
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 9/63 (14%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGIT-------RDNWFLKLTEKDFQQVFD 64
P+DV++ + A++ K KF +++VNCAGI + E FQ+V +
Sbjct: 53 PVDVTSEKDVKAALALAKAKFG-RLDIVVNCAGIAVAAKTYNKKGQQPHSLE-LFQRVIN 110
Query: 65 VNL 67
VNL
Sbjct: 111 VNL 113
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 41.3 bits (97), Expect = 1e-05
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
P +V++ + A+ I EK P +VL+N AGI R + F + E+++ V VN V
Sbjct: 64 PFNVTHKQEVEAAIEHI-EKDIGPIDVLINNAGIQRRHPFTEFPEQEWNDVIAVNQTAV 121
>gnl|CDD|187624 cd05366, meso-BDH-like_SDR_c, meso-2,3-butanediol
dehydrogenase-like, classical (c) SDRs. 2,3-butanediol
dehydrogenases (BDHs) catalyze the NAD+ dependent
conversion of 2,3-butanediol to acetonin; BDHs are
classified into types according to their
stereospecificity as to substrates and products.
Included in this subgroup are Klebsiella pneumonia
meso-BDH which catalyzes meso-2,3-butanediol to
D(-)-acetonin, and Corynebacterium glutamicum L-BDH
which catalyzes lX+)-2,3-butanediol to L(+)-acetonin.
This subgroup is comprised of classical SDRs with the
characteristic catalytic triad and NAD-binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 41.2 bits (97), Expect = 1e-05
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+++ DV++ + + EKF +V+VN AGI L +TE+D ++V+ VN+
Sbjct: 55 VAVGADVTDKDDVEALIDQAVEKFGSF-DVMVNNAGIAPITPLLTITEEDLKKVYAVNVF 113
Query: 69 LV 70
V
Sbjct: 114 GV 115
>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 = 40.7 bits (96), Expect = 2e-05
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVN 66
+DV++++ + + ++ ++ P +VLVN AGI R L+++D+Q F VN
Sbjct: 53 KLDVADSAAVDEVVQRLEREYG-PIDVLVNVAGILRLGAIDSLSDEDWQATFAVN 106
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 40.5 bits (95), Expect = 2e-05
Identities = 16/62 (25%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+ + DV++ + + A++ + + + VN AGI N ++ E+ +Q V D+NL
Sbjct: 61 IQIAADVTSKADLRAAVARTEAELG-ALTLAVNAAGIANANPAEEMEEEQWQTVMDINLT 119
Query: 69 LV 70
V
Sbjct: 120 GV 121
>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 = 40.3 bits (95), Expect = 2e-05
Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRD-NWFLKLTEKDFQQVFDVNL 67
L L +DVS+ +I A+ + E+F ++LVN AG+ + + +D++ + D N+
Sbjct: 53 LPLQLDVSDRESIEAALENLPEEFRD-IDILVNNAGLALGLDPAQEADLEDWETMIDTNV 111
Query: 68 K 68
K
Sbjct: 112 K 112
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 40.3 bits (95), Expect = 2e-05
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGIT---RDNWFLKLTEKDFQQVFDV 65
+ P DV++ S + A + + R + LVN AG+ R + L LT + F +V +
Sbjct: 55 IFFPADVADLSAHEAMLDAAQAAWGRI-DCLVNNAGVGVKVRGD-LLDLTPESFDRVLAI 112
Query: 66 NLK 68
NL+
Sbjct: 113 NLR 115
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 40.0 bits (94), Expect = 2e-05
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 7/60 (11%)
Query: 15 VSNTSTIST---AMSAIK---EKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
V+N I+ A + + E F +VLVN AGI RD ++E+++ V V+LK
Sbjct: 67 VANGDDIADWDGAANLVDAAVETFGGL-DVLVNNAGILRDRMIANMSEEEWDAVIAVHLK 125
>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 = 40.1 bits (94), Expect = 3e-05
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 13/89 (14%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL--- 67
P+DV++ + + S + + P + LVNCAG+ R L+ +D++Q F VN+
Sbjct: 45 TPLDVADAAAVREVCSRLLAE-HGPIDALVNCAGVLRPGATDPLSTEDWEQTFAVNVTGV 103
Query: 68 ---------KLVDRRGGTAGKVCLDFGHT 87
+ DRR G V + H
Sbjct: 104 FNLLQAVAPHMKDRRTGAIVTVASNAAHV 132
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 40.3 bits (95), Expect = 3e-05
Identities = 26/80 (32%), Positives = 37/80 (46%), Gaps = 21/80 (26%)
Query: 14 DVSNTSTISTAMSAIKEKFSRP---PNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL--- 67
DVS+ AM A E P+++VN AGI FL + +D+ +V DVNL
Sbjct: 372 DVSDA----DAMEAFAEWVRAEHGVPDIVVNNAGIGMAGGFLDTSAEDWDRVLDVNLWGV 427
Query: 68 ---------KLVDRRGGTAG 78
++V+R GT G
Sbjct: 428 IHGCRLFGRQMVER--GTGG 445
>gnl|CDD|187601 cd05343, Mgc4172-like_SDR_c, human Mgc4172-like, classical (c)
SDRs. Human Mgc4172-like proteins, putative SDRs. These
proteins are members of the SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 40.2 bits (94), Expect = 3e-05
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 4 GSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVF 63
G T D+SN I + SAI+ + +V +N AG+ R L + ++++F
Sbjct: 54 GYPTLFPYQCDLSNEEQILSMFSAIRTQHQ-GVDVCINNAGLARPEPLLSGKTEGWKEMF 112
Query: 64 DVNL 67
DVN+
Sbjct: 113 DVNV 116
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 40.1 bits (94), Expect = 3e-05
Identities = 23/59 (38%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
L L DV + + A+ A E+F R ++LVN AGI D F +L+ +++ V DVNL
Sbjct: 62 LGLAFDVRDFAATRAALDAGVEEFGRL-DILVNNAGIATDAAFAELSIEEWDDVIDVNL 119
>gnl|CDD|187616 cd05358, GlcDH_SDR_c, glucose 1 dehydrogenase (GlcDH), classical
(c) SDRs. GlcDH, is a tetrameric member of the SDR
family, it catalyzes the NAD(P)-dependent oxidation of
beta-D-glucose to D-glucono-delta-lactone. GlcDH has a
typical NAD-binding site glycine-rich pattern as well as
the canonical active site tetrad (YXXXK motif plus
upstream Ser and Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 40.1 bits (94), Expect = 3e-05
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
DVS + + ++F ++LVN AG+ D ++T +D+ +V DVNL
Sbjct: 61 DVSKEEDVVALFQSAIKEFG-TLDILVNNAGLQGDASSHEMTLEDWNKVIDVNL 113
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 39.5 bits (93), Expect = 3e-05
Identities = 12/56 (21%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
DV++ ++ ++A+ P + +V+ AG+ D +LT + F++V +
Sbjct: 58 ACDVADRDALAALLAALPAAL-GPLDGVVHNAGVLDDGPLEELTPERFERVLAPKV 112
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 39.9 bits (94), Expect = 3e-05
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVN 66
+DVS+ + ++ + + P +VLVN AGI R L+++D+QQ F VN
Sbjct: 54 VLDVSDAAAVAQVCQRLLAETG-PLDVLVNAAGILRMGATDSLSDEDWQQTFAVN 107
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 39.3 bits (92), Expect = 6e-05
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 4 GSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVF 63
L DVS++ ++ A++A+ F R ++LVN AG+ ++E+D+ +
Sbjct: 59 LGGNAKGLVCDVSDSQSVEAAVAAVISAFGRI-DILVNSAGVALLAPAEDVSEEDWDKTI 117
Query: 64 DVNLK 68
D+NLK
Sbjct: 118 DINLK 122
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 39.1 bits (92), Expect = 7e-05
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
DVS+ + + I EKF ++LVN AGI+ +T++++ +V DVNL
Sbjct: 63 DVSSEEDVENLVEQIVEKFG-KIDILVNNAGISNFGLVTDMTDEEWDRVIDVNLT 116
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 38.8 bits (91), Expect = 7e-05
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 8/63 (12%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPP----NVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+DV++ A A F+ +VL N AGI R F + + +V D+N+
Sbjct: 54 ALDVTD----RAAWDAALADFAAATGGRLDVLFNNAGILRGGPFEDIPLEAHDRVIDINV 109
Query: 68 KLV 70
K V
Sbjct: 110 KGV 112
>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 = 38.9 bits (91), Expect = 7e-05
Identities = 11/52 (21%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDV 65
DV++ + + + ++E++ + +++ AG+ RD + T +DF+ V
Sbjct: 268 DVTDAAAVRRLLEKVRERY-GAIDGVIHAAGVLRDALLAQKTAEDFEAVLAP 318
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 38.5 bits (90), Expect = 9e-05
Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+DV+ +I ++A E+F ++L N A + L ++ + ++F VN+K
Sbjct: 59 LDVTRQDSIDRIVAAAVERFG-GIDILFNNAALFDMAPILDISRDSYDRLFAVNVK 113
>gnl|CDD|187596 cd05337, BKR_1_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 1, classical (c) SDR.
This subgroup includes Escherichia coli CFT073 FabG. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 255
Score = 38.6 bits (90), Expect = 1e-04
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 7/63 (11%)
Query: 10 SLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGIT----RDNWFLKLTEKDFQQVFDV 65
D+ S + E F R + LVN AGI D L LTE F ++ +
Sbjct: 55 YFQADIGELSDHEALLDQAWEDFGRL-DCLVNNAGIAVRPRGD--LLDLTEDSFDRLIAI 111
Query: 66 NLK 68
NL+
Sbjct: 112 NLR 114
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 38.4 bits (89), Expect = 1e-04
Identities = 15/36 (41%), Positives = 26/36 (72%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLVDR 72
++LVN AGIT+D F++++++D+ V +VNL R
Sbjct: 82 DILVNNAGITKDGLFVRMSDEDWDSVLEVNLTATFR 117
>gnl|CDD|212493 cd08932, HetN_like_SDR_c, HetN oxidoreductase-like, classical (c)
SDR. This subgroup includes Anabaena sp. strain PCC
7120 HetN, a putative oxidoreductase involved in
heterocyst differentiation, and related proteins. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 223
Score = 38.1 bits (89), Expect = 1e-04
Identities = 13/58 (22%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+P D + + A++++F +VLV+ AGI R + ++ + + F +N+
Sbjct: 50 VPYDARDPEDARALVDALRDRFG-RIDVLVHNAGIGRPTTLREGSDAELEAHFSINVI 106
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 38.1 bits (89), Expect = 1e-04
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
D+S+ ++A E F R + LVN AG+T L + + F + F VN++
Sbjct: 64 DLSDVEDCRRVVAAADEAFGRL-DALVNAAGLTDRGTILDTSPELFDRHFAVNVR 117
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 38.1 bits (88), Expect = 1e-04
Identities = 18/31 (58%), Positives = 22/31 (70%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+VLVN AGITRD F K+T +D+ V D NL
Sbjct: 83 DVLVNNAGITRDVVFRKMTREDWTAVIDTNL 113
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 38.1 bits (89), Expect = 1e-04
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGIT-RDNWFLKLTEKDFQQVFDVNLK 68
DV++ + + E+F +VLVN AGI ++T + ++Q VNL
Sbjct: 66 DVADPAQVERVFDTAVERFGGL-DVLVNNAGIAGPTGGIDEITPEQWEQTLAVNLN 120
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 37.6 bits (88), Expect = 2e-04
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 13/78 (16%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL--- 67
+P D+S+ + +KE+ P +VLVN AG FL+L+ + +++ +N+
Sbjct: 61 IPADLSDPEALERLEDELKERG-GPIDVLVNNAGFGTFGPFLELSLDEEEEMIQLNILAL 119
Query: 68 ---------KLVDRRGGT 76
+V+R G
Sbjct: 120 TRLTKAVLPGMVERGAGH 137
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 37.4 bits (87), Expect = 2e-04
Identities = 17/62 (27%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+++ DVS+ + A+ + + F NV+VN AG+ +TE+ F +V+++N+
Sbjct: 54 IAVKADVSDRDQVFAAVRQVVDTFG-DLNVVVNNAGVAPTTPIETITEEQFDKVYNINVG 112
Query: 69 LV 70
V
Sbjct: 113 GV 114
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 37.3 bits (87), Expect = 2e-04
Identities = 17/54 (31%), Positives = 34/54 (62%), Gaps = 1/54 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
DV++ + +S I+++ ++LVN AGI + L+++ +DF+QV D++L
Sbjct: 67 DVTDEDGVQAMVSQIEKEVG-VIDILVNNAGIIKRIPMLEMSAEDFRQVIDIDL 119
>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 = 37.3 bits (87), Expect = 3e-04
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQ--QVFDVNLK 68
+ DV++ ++ A EKF R ++L+N AGI + +L + + DVNL
Sbjct: 54 VQCDVTSWEQLAAAFKKAIEKFGRV-DILINNAGILDEKSYLFAGKLPPPWEKTIDVNLT 112
>gnl|CDD|187620 cd05362, THN_reductase-like_SDR_c,
tetrahydroxynaphthalene/trihydroxynaphthalene
reductase-like, classical (c) SDRs.
1,3,6,8-tetrahydroxynaphthalene reductase (4HNR) of
Magnaporthe grisea and the related
1,3,8-trihydroxynaphthalene reductase (3HNR) are typical
members of the SDR family containing the canonical
glycine rich NAD(P)-binding site and active site tetrad,
and function in fungal melanin biosynthesis. This
subgroup also includes an SDR from Norway spruce that
may function to protect against both biotic and abitoic
stress. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 36.9 bits (86), Expect = 4e-04
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
DVS+ S ++ A ++ F ++LVN AG+ + +E++F ++F VN K
Sbjct: 61 DVSDPSQVARLFDAAEKAFGGV-DILVNNAGVMLKKPIAETSEEEFDRMFTVNTK 114
>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 = 36.6 bits (85), Expect = 5e-04
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 14/79 (17%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL------ 67
DVS + +A+KE+F R +VLV+ A +LT + + NL
Sbjct: 56 DVSQPQDVEEMFAAVKERFGRL-DVLVSNAAAGAFRPLSELTPAHWDAKMNTNLKALVHC 114
Query: 68 -----KLVDRRGGTAGKVC 81
KL+ RGG G++
Sbjct: 115 AQQAAKLMRERGG--GRIV 131
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 36.5 bits (85), Expect = 5e-04
Identities = 13/60 (21%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
++ D+++ +++ A + LVN AGIT +L + V +VN++
Sbjct: 59 HAIAADLADPASVQRFFDAAAAALGGL-DGLVNNAGITNSKSATELDIDTWDAVMNVNVR 117
>gnl|CDD|187564 cd05254, dTDP_HR_like_SDR_e, dTDP-6-deoxy-L-lyxo-4-hexulose
reductase and related proteins, extended (e) SDRs.
dTDP-6-deoxy-L-lyxo-4-hexulose reductase, an extended
SDR, synthesizes dTDP-L-rhamnose from
alpha-D-glucose-1-phosphate, providing the precursor
of L-rhamnose, an essential cell wall component of many
pathogenic bacteria. This subgroup has the
characteristic active site tetrad and NADP-binding
motif. This subgroup also contains human MAT2B, the
regulatory subunit of methionine adenosyltransferase
(MAT); MAT catalyzes S-adenosylmethionine synthesis.
The human gene encoding MAT2B encodes two major
splicing variants which are induced in human cell liver
cancer and regulate HuR, an mRNA-binding protein which
stabilizes the mRNA of several cyclins, to affect cell
proliferation. Both MAT2B variants include this
extended SDR domain. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 280
Score = 36.1 bits (84), Expect = 6e-04
Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 12/69 (17%)
Query: 3 TGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITR-DNWFLKLTEKDFQQ 61
TG S +D+++ + A+ K P+V++NCA TR D E D +
Sbjct: 29 TGRSRASLFKLDLTDPDAVEEAIRDYK------PDVIINCAAYTRVDK-----CESDPEL 77
Query: 62 VFDVNLKLV 70
+ VN+
Sbjct: 78 AYRVNVLAP 86
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 36.1 bits (84), Expect = 6e-04
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 10/68 (14%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGI---------TRDNWFLKLTEKDFQQV 62
P DVS+ ++ ++ I EKF R + LVN AGI +L E F ++
Sbjct: 55 PTDVSSAEEVNHTVAEIIEKFGRI-DGLVNNAGINIPRLLVDEKDPAGKYELNEAAFDKM 113
Query: 63 FDVNLKLV 70
F++N K V
Sbjct: 114 FNINQKGV 121
>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 = 35.9 bits (83), Expect = 7e-04
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 1/69 (1%)
Query: 2 LTGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQ 61
L+ +++P D+S+ I ++ + E+ R +VLVN AG T E + +
Sbjct: 50 LSAYGECIAIPADLSSEEGIEALVARVAERSDRL-DVLVNNAGATWGAPLEAFPESGWDK 108
Query: 62 VFDVNLKLV 70
V D+N+K V
Sbjct: 109 VMDINVKSV 117
>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 = 36.1 bits (84), Expect = 7e-04
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPP-NVLVNCAGITRDNWFLK-LTEKDFQQVFDVN 66
L +DV T I+ + A+ E+ +VL+N AGI + +D +VF VN
Sbjct: 52 LELDV--TDEIAESAEAVAERLGDAGLDVLINNAGILHSYGPASEVDSEDLLEVFQVN 107
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 35.7 bits (83), Expect = 8e-04
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKD-FQQVFDVNL 67
L +P DVS+ + A +F ++LVN AGIT + F +LT+ F++V VN
Sbjct: 53 LVVPTDVSDAEACERLIEAAVARFGGI-DILVNNAGITMWSRFDELTDLSVFERVMRVNY 111
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 35.9 bits (83), Expect = 9e-04
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
D++ + + E+F + ++LVN AG R L+ ++D+ V D+NL V
Sbjct: 71 DLTKPESAEKVVKEALEEFGKI-DILVNNAGTIRRAPLLEYKDEDWNAVMDINLNSV 126
>gnl|CDD|187590 cd05329, TR_SDR_c, tropinone reductase-I and II (TR-1, and
TR-II)-like, classical (c) SDRs. This subgroup includes
TR-I and TR-II; these proteins are members of the SDR
family. TRs catalyze the NADPH-dependent reductions of
the 3-carbonyl group of tropinone, to a beta-hydroxyl
group. TR-I and TR-II produce different stereoisomers
from tropinone, TR-I produces tropine
(3alpha-hydroxytropane), and TR-II, produces
pseudotropine (sigma-tropine, 3beta-hydroxytropane).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 251
Score = 35.9 bits (83), Expect = 9e-04
Identities = 16/54 (29%), Positives = 22/54 (40%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
DVS+ S M + F N+LVN AG TE+D+ + N
Sbjct: 63 DVSSRSERQELMDTVASHFGGKLNILVNNAGTNIRKEAKDYTEEDYSLIMSTNF 116
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 35.7 bits (83), Expect = 0.001
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 2 LTGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQ 61
L G L++ DV++ + + A E+F V+ N AGI ++ F++
Sbjct: 53 LGGDDRVLTVVADVTDLAAMQAAAEEAVERFGGIDVVVAN-AGIASGGSVAQVDPDAFRR 111
Query: 62 VFDVNL------------KLVDRRG 74
V DVNL L++RRG
Sbjct: 112 VIDVNLLGVFHTVRATLPALIERRG 136
>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 = 35.6 bits (83), Expect = 0.001
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVF 63
DVS+ + ++ I+ P +++ AG+ RD +T +DF +V
Sbjct: 61 DVSDRDAVRALLAEIRADG-PPLRGVIHAAGVLRDALLANMTAEDFARVL 109
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 35.6 bits (83), Expect = 0.001
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 38 VLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
++V+ AGITRD + E + V VNL
Sbjct: 287 IVVHNAGITRDKTLANMDEARWDSVLAVNLL 317
>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 = 35.3 bits (82), Expect = 0.001
Identities = 12/58 (20%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVN 66
+P+D+S+ + + F ++L+N AGI+ + F + +++ +VN
Sbjct: 56 HVVPLDMSDLEDAEQVVEEALKLFGGL-DILINNAGISMRSLFHDTSIDVDRKIMEVN 112
>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 = 35.4 bits (82), Expect = 0.001
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 3/58 (5%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTE--KDFQQVFDVNLK 68
+DV + ++ A+ ++ ++L+N AGI R D NL
Sbjct: 57 LDVGDAESVEALAEALLSEYPNL-DILINNAGIQRPIDLRDPASDLDKADTEIDTNLI 113
>gnl|CDD|187609 cd05351, XR_like_SDR_c, xylulose reductase-like, classical (c)
SDRs. Members of this subgroup include proteins
identified as L-xylulose reductase (XR) and carbonyl
reductase; they are members of the SDR family. XR,
catalyzes the NADP-dependent reduction of L-xyulose and
other sugars. Tetrameric mouse carbonyl reductase is
involved in the metabolism of biogenic and xenobiotic
carbonyl compounds. This subgroup also includes
tetrameric chicken liver D-erythrulose reductase, which
catalyzes the reduction of D-erythrulose to D-threitol.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser).
Length = 244
Score = 35.1 bits (81), Expect = 0.002
Identities = 14/36 (38%), Positives = 24/36 (66%)
Query: 35 PPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
P ++LVN A + FL++T++ F + FDVN++ V
Sbjct: 76 PVDLLVNNAAVAILQPFLEVTKEAFDRSFDVNVRAV 111
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 35.0 bits (81), Expect = 0.002
Identities = 14/56 (25%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+D+S+ + A+ + ++ R +VLVN AG FL + +++++F V++
Sbjct: 58 QLDLSDLPEGAQALDKLIQRLGRI-DVLVNNAGAMTKAPFLDMDFDEWRKIFTVDV 112
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 34.6 bits (80), Expect = 0.002
Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
DV + S ++ A +EK+ +V+VN AG+ +F +L+ +D+ +NL
Sbjct: 54 QRCDVRDYSQLTALAQACEEKWGGI-DVIVNNAGVASGGFFEELSLEDWDWQIAINL 109
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 34.7 bits (80), Expect = 0.002
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
L +DV + + I A++A + LVNCAGI L +T + F +V VN +
Sbjct: 58 LRLDVGDDAAIRAALAAAG-----AFDGLVNCAGIASLESALDMTAEGFDRVMAVNAR 110
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 34.4 bits (79), Expect = 0.003
Identities = 11/32 (34%), Positives = 22/32 (68%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+++VN AGITRD ++++++ V V+L+
Sbjct: 91 DIVVNNAGITRDRMLFNMSDEEWDAVIAVHLR 122
>gnl|CDD|130890 TIGR01831, fabG_rel, 3-oxoacyl-(acyl-carrier-protein) reductase,
putative. This model represents a small, very well
conserved family of proteins closely related to the FabG
family, TIGR01830, and possibly equal in function. In
all completed genomes with a member of this family, a
FabG in TIGR01830 is also found [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 239
Score = 34.1 bits (78), Expect = 0.003
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 39 LVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+V AGITRD F L+E+D+ V NL
Sbjct: 80 VVLNAGITRDAAFPALSEEDWDIVIHTNL 108
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 34.4 bits (79), Expect = 0.003
Identities = 20/57 (35%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
DV + ++++ A+ KEK R ++LVN AG+ R FL ++++D D+N+K V
Sbjct: 62 DVRDPASVAAAIKRAKEKEGRI-DILVNNAGVCRLGSFLDMSDEDRDFHIDINIKGV 117
>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 = 34.1 bits (79), Expect = 0.003
Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 7/62 (11%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNW---FLKLTEKDFQQVFDV 65
+ DV + + A+ ++F ++L+N A N+ L+ F+ V D+
Sbjct: 56 HPIQCDVRDPEAVEAAVDETLKEFG-KIDILINNAA---GNFLAPAESLSPNGFKTVIDI 111
Query: 66 NL 67
+L
Sbjct: 112 DL 113
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 34.1 bits (78), Expect = 0.003
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
LSL D+ I + +F ++LVN AG+ R ++ +EKD+ V ++N+K
Sbjct: 60 LSLTADLRKIDGIPALLERAVAEFGHI-DILVNNAGLIRREDAIEFSEKDWDDVMNLNIK 118
Query: 69 LV 70
V
Sbjct: 119 SV 120
>gnl|CDD|187647 cd08943, R1PA_ADH_SDR_c, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase, classical (c) SDRs. This family has
bifunctional proteins with an N-terminal aldolase and a
C-terminal classical SDR domain. One member is
identified as a rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase. The SDR domain has a canonical SDR
glycine-rich NAD(P) binding motif and a match to the
characteristic active site triad. However, it lacks an
upstream active site Asn typical of SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 33.9 bits (78), Expect = 0.004
Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
L + DV++ + + +A +F +++V+ AGI + + + +D+ + D+NL
Sbjct: 52 LGVQCDVTSEAQVQSAFEQAVLEFG-GLDIVVSNAGIATSSPIAETSLEDWNRSMDINL 109
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup has
the canonical active site tetrad and NAD-binding motif
of the classical SDRs. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 34.0 bits (78), Expect = 0.004
Identities = 13/59 (22%), Positives = 27/59 (45%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
+DV++ + + A++ + L N AG+ R F + ++ D+N+K V
Sbjct: 53 ALDVTDRAAWAAALADFAAATGGRLDALFNNAGVGRGGPFEDVPLAAHDRMVDINVKGV 111
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 33.7 bits (78), Expect = 0.004
Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
L++ DV++ + A +E+ P + VN A +T F +T ++F++V +V
Sbjct: 60 LAVVADVADAEAVQAAADRAEEELG-PIDTWVNNAMVTVFGPFEDVTPEEFRRVTEVTY 117
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 33.7 bits (78), Expect = 0.004
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 16/74 (21%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAG-----ITRDNW----------FLK 53
L++ DV + ++ A I E F ++L+N AG T DN F
Sbjct: 62 LAVKADVLDKESLEQARQQILEDFGPC-DILINGAGGNHPKATTDNEFHELIEPTKTFFD 120
Query: 54 LTEKDFQQVFDVNL 67
L E+ F+ VFD+NL
Sbjct: 121 LDEEGFEFVFDLNL 134
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 33.4 bits (77), Expect = 0.006
Identities = 8/35 (22%), Positives = 15/35 (42%)
Query: 34 RPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
NVL+N AG+ + +++ +NL
Sbjct: 79 GGINVLINNAGVNHFALLEDQDPEAIERLLALNLT 113
>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 = 33.4 bits (77), Expect = 0.007
Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNW-FLKLTEKDFQQVFDVNL 67
+DV++ ++I A ++EK+ ++LVN AGI + T + ++ N
Sbjct: 57 LDVTDDASIEAAADFVEEKYGG-LDILVNNAGIAFKGFDDSTPTREQARETMKTNF 111
>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 = 32.4 bits (74), Expect = 0.013
Identities = 9/32 (28%), Positives = 16/32 (50%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
+VL NCAG L + D+ ++N++
Sbjct: 72 DVLFNCAGFVHHGSILDCEDDDWDFAMNLNVR 103
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 32.4 bits (74), Expect = 0.014
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 1/67 (1%)
Query: 2 LTGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQ 61
+ + DV + + + + ++ R +VLVN AG + E D+
Sbjct: 49 IAAGGRAFARQGDVGSAEAVEALVDFVAARWGRL-DVLVNNAGFGCGGTVVTTDEADWDA 107
Query: 62 VFDVNLK 68
V VN+
Sbjct: 108 VMRVNVG 114
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 32.3 bits (74), Expect = 0.017
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
L + DVS+ + + A E+F ++L N AG+ + + D++ V VNL
Sbjct: 58 LGVRTDVSDAAQVEALADAALERFG-AVHLLFNNAGVGAGGLVWENSLADWEWVLGVNLW 116
Query: 69 LV 70
V
Sbjct: 117 GV 118
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 32.2 bits (74), Expect = 0.017
Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 21 ISTAMSAIKEKFSRPPNVLVNCAGITRDNW--FLKLTEKDFQQVFDVNLK 68
+S + + + ++L N AGI D++ L + +++Q +FD NL
Sbjct: 54 LSDDLEPLFDWVPSV-DILCNTAGIL-DDYKPLLDTSLEEWQHIFDTNLT 101
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 31.8 bits (73), Expect = 0.023
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKL-TEKDFQQVFDVNL 67
L +DV++ ++++ A A + +LVN AGI R L E + + N
Sbjct: 54 LQLDVTDPASVAAAAEA-----ASDVTILVNNAGIFRTGSLLLEGDEDALRAEMETNY 106
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 31.7 bits (72), Expect = 0.024
Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 4 GSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVF 63
G + H+ + +DV++ +I A+ A E + ++LVN +G++ + +T DF VF
Sbjct: 57 GGAAHV-VSLDVTDYQSIKAAV-AHAETEAGTIDILVNNSGVSTTQKLVDVTPADFDFVF 114
Query: 64 DVNLK 68
D N +
Sbjct: 115 DTNTR 119
>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 = 31.6 bits (72), Expect = 0.031
Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+++ DV++ + + A E+F R + VN AG+ F +T ++F++VFDVN
Sbjct: 52 IAVVADVADAAQVERAADTAVERFGRI-DTWVNNAGVAVFGRFEDVTPEEFRRVFDVNY 109
>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 = 31.3 bits (72), Expect = 0.031
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVF 63
DV++ ++ ++AI P +++ AG+ D LT + F V
Sbjct: 61 DVADRDALAAVLAAIPAVE-GPLTGVIHAAGVLDDGVLASLTPERFAAVL 109
>gnl|CDD|187608 cd05350, SDR_c6, classical (c) SDR, subgroup 6. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a fairly well conserved typical
Gly-rich NAD-binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 239
Score = 31.5 bits (72), Expect = 0.031
Identities = 10/56 (17%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+DV++ ++ ++ + ++++ AG+ + L+ K F++ D NL
Sbjct: 53 ILDVTDEERNQLVIAELEAELG-GLDLVIINAGVGKGTSLGDLSFKAFRETIDTNL 107
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 31.2 bits (71), Expect = 0.033
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 17 NTSTISTAMSAIKEKFSRPPNVLVNC 42
+ +I AI+++F+R P+VLVN
Sbjct: 65 SQESIRHLFDAIEQQFNRAPDVLVNN 90
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 31.4 bits (71), Expect = 0.034
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVNLKLV 70
++L+N AGI R L+ KD+ V ++N K V
Sbjct: 85 DILINNAGIIRRQDLLEFGNKDWDDVININQKTV 118
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 31.4 bits (72), Expect = 0.038
Identities = 16/67 (23%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 2 LTGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQ 61
L G L + DV++ + + A F +++V+ AGI + +++D+++
Sbjct: 466 LGGPDRALGVACDVTDEAAVQAAFEEAALAFG-GVDIVVSNAGIAISGPIEETSDEDWRR 524
Query: 62 VFDVNLK 68
FDVN
Sbjct: 525 SFDVNAT 531
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 31.0 bits (70), Expect = 0.051
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
DVSN + + + K+ R ++LVN AGI + E ++ ++ +VN+
Sbjct: 52 DVSNKEQVIKGIDYVISKYGRI-DILVNNAGIESYGAIHAVEEDEWDRIINVNVN 105
>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 = 30.9 bits (70), Expect = 0.051
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTE--KDFQQVFDVNLK 68
DV++ + + +K+++ NVL+N AGI R+ + D +Q NL
Sbjct: 57 CDVADRDSRRELVEWLKKEYPNL-NVLINNAGIQRNEDLTGAEDLLDDAEQEIATNLL 113
>gnl|CDD|187665 cd09805, type2_17beta_HSD-like_SDR_c, human 17beta-hydroxysteroid
dehydrogenase type 2 (type 2 17beta-HSD)-like, classical
(c) SDRs. 17beta-hydroxysteroid dehydrogenases are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. This
classical-SDR subgroup includes the human proteins: type
2 17beta-HSD, type 6 17beta-HSD, type 2 11beta-HSD,
dehydrogenase/reductase SDR family member 9,
short-chain dehydrogenase/reductase family 9C member 7,
3-hydroxybutyrate dehydrogenase type 1, and retinol
dehydrogenase 5. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 281
Score = 30.3 bits (69), Expect = 0.082
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 11 LPMDVSNTSTISTAMSAIKEKF-SRPPNVLVNCAGIT---RDNWFLKLTEKDFQQVFDVN 66
L +DV+ I A +KE + LVN AGI D L + D+++ +VN
Sbjct: 53 LQLDVTKPEQIKRAAQWVKEHVGEKGLWGLVNNAGILGFGGDEELLPMD--DYRKCMEVN 110
Query: 67 L 67
L
Sbjct: 111 L 111
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 29.8 bits (67), Expect = 0.14
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 13/62 (20%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGIT-------RDNWFLKLTEKDFQQVFDVN 66
DV+ +S A+ +KF +++VN AG+T R+ +F++VFDVN
Sbjct: 74 DVTVEDDVSRAVDFTVDKFG-TLDIMVNNAGLTGPPCPDIRNVEL-----SEFEKVFDVN 127
Query: 67 LK 68
+K
Sbjct: 128 VK 129
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 29.5 bits (67), Expect = 0.14
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGI 45
+ + MDV++ I+ + E F ++LVN AGI
Sbjct: 56 IGVAMDVTDEEAINAGIDYAVETFGG-VDILVNNAGI 91
>gnl|CDD|225297 COG2453, CDC14, Predicted protein-tyrosine phosphatase [Signal
transduction mechanisms].
Length = 180
Score = 29.0 bits (65), Expect = 0.25
Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 21 ISTAMSAIKEKFSRPPNVLVNC-AGITR 47
+ + I+E S+ V+V+C GI R
Sbjct: 91 LDKIVDFIEEALSKGKKVVVHCQGGIGR 118
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 28.8 bits (65), Expect = 0.27
Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
+ P+DV++ ++ + + A+ E P +VLVN AG+ FL + +++ DVN+
Sbjct: 53 VGGPLDVTDPASFAAFLDAV-EADLGPIDVLVNNAGVMPVGPFLDEPDAVTRRILDVNV 110
>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 = 28.7 bits (65), Expect = 0.27
Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVN 66
+ +D+S+ +++ +F ++L+N AGI +LT+ F+ F VN
Sbjct: 57 IQLDLSSLASVRQFAEEFLARF-PRLDILINNAGIMA-PPR-RLTKDGFELQFAVN 109
>gnl|CDD|132250 TIGR03206, benzo_BadH, 2-hydroxycyclohexanecarboxyl-CoA
dehydrogenase. Members of this protein family are the
enzyme 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase.
The enzymatic properties were confirmed experimentally
in Rhodopseudomonas palustris; the enzyme is
homotetrameric, and not sensitive to oxygen. This enzyme
is part of proposed pathway for degradation of
benzoyl-CoA to 3-hydroxypimeloyl-CoA that differs from
the analogous in Thauera aromatica. It also may occur in
degradation of the non-aromatic compound
cyclohexane-1-carboxylate.
Length = 250
Score = 28.3 bits (63), Expect = 0.33
Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 7 THLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVN 66
+ D+++ ++ TA++A ++ P +VLVN AG + F K ++++ +N
Sbjct: 53 NAQAFACDITDRDSVDTAVAAAEQALG-PVDVLVNNAGWDKFGPFTKTEPPLWERLIAIN 111
Query: 67 L 67
L
Sbjct: 112 L 112
>gnl|CDD|187631 cd05373, SDR_c10, classical (c) SDR, subgroup 10. This subgroup
resembles the classical SDRs, but has an incomplete
match to the canonical glycine rich NAD-binding motif
and lacks the typical active site tetrad (instead of the
critical active site Tyr, it has Phe, but contains the
nearby Lys). SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 238
Score = 28.5 bits (64), Expect = 0.33
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVN 66
P D + + I+E+ P VLV AG L+ T + F++V+++
Sbjct: 55 PTDARDEDEVIALFDLIEEEIG-PLEVLVYNAGANVWFPILETTPRVFEKVWEMA 108
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 28.2 bits (63), Expect = 0.45
Identities = 12/55 (21%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
D++ + + K F RP ++ +N G ++++E ++ ++F VN K
Sbjct: 69 DLTTAAAVEKLFDDAKAAFGRP-DIAINTVGKVLKKPIVEISEAEYDEMFAVNSK 122
>gnl|CDD|187583 cd05322, SDH_SDR_c_like, Sorbitol 6-phosphate dehydrogenase (SDH),
classical (c) SDRs. Sorbitol 6-phosphate dehydrogenase
(SDH, aka glucitol 6-phosphate dehydrogenase) catalyzes
the NAD-dependent interconversion of D-fructose
6-phosphate to D-sorbitol 6-phosphate. SDH is a member
of the classical SDRs, with the characteristic catalytic
tetrad, but without a complete match to the typical
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 28.2 bits (63), Expect = 0.49
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 1/54 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
D +N ++ + E F R ++LV AGI + DF + VNL
Sbjct: 60 DATNEQSVIALSKGVDEIFKRV-DLLVYSAGIAKSAKITDFELGDFDRSLQVNL 112
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 28.1 bits (63), Expect = 0.51
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 3 TGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAG 44
L++ MDV N + + I EKF R ++ N AG
Sbjct: 47 QFPGQVLTVQMDVRNPEDVQKMVEQIDEKFGRIDALINNAAG 88
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 28.0 bits (63), Expect = 0.56
Identities = 12/57 (21%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
P+D+++ I+ A+ + +VLV+ AG+ + T +++ +VN+
Sbjct: 52 FPVDLTDPEAIAAAVEQLGRL-----DVLVHNAGVADLGPVAESTVDEWRATLEVNV 103
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 27.7 bits (62), Expect = 0.57
Identities = 16/58 (27%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 10 SLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
++ DV++ + + + A E+ R +VLVN AG+ + +T+ ++ +V DV L
Sbjct: 73 AVVCDVTSEAQVDALIDAAVERLGRL-DVLVNNAGLGGQTPVVDMTDDEWSRVLDVTL 129
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 27.9 bits (62), Expect = 0.57
Identities = 15/63 (23%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 4 GSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVF 63
G+ ++L MDV++ + A + + + +++VN AGI + F + T +++Q
Sbjct: 463 GAGRAVALKMDVTDEQAVKAAFADVALAYG-GVDIVVNNAGIATSSPFEETTLQEWQLNL 521
Query: 64 DVN 66
D+
Sbjct: 522 DIL 524
>gnl|CDD|241150 cd12706, RRM_LARP5, RNA recognition motif in vertebrate
La-related protein 5 (LARP5 or LARP4B). This subgroup
corresponds to the RRM of LARP5, a cytosolic protein
that co-sediments with polysomes and accumulates upon
stress induction in cellular stress granules. It can
interact with the cytosolic poly(A) binding protein 1
(PABPC1) and the receptor for activated C Kinase
(RACK1), a component of the 40S ribosomal subunit.
LARP5 may function as a stimulatory factor of
translation through bridging mRNA factors of the 3' end
with initiating ribosomes. Like other La-related
proteins (LARPs) family members, LARP5 contains a La
motif (LAM) and an RNA recognition motif (RRM), also
termed RBD (RNA binding domain) or RNP
(ribonucleoprotein domain). .
Length = 77
Score = 26.9 bits (59), Expect = 0.61
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 39 LVNCAGITRDNWFLKL-TEKDFQQVF 63
+NC DNWF+ +E D QQ +
Sbjct: 29 FINCEFAYNDNWFITFESEADAQQAY 54
>gnl|CDD|233018 TIGR00551, nadB, L-aspartate oxidase. L-aspartate oxidase is the B
protein, NadB, of the quinolinate synthetase complex.
Quinolinate synthetase makes a precursor of the pyridine
nucleotide portion of NAD. This model identifies
proteins that cluster as L-aspartate oxidase (a
flavoprotein difficult to separate from the set of
closely related flavoprotein subunits of succinate
dehydrogenase and fumarate reductase) by both UPGMA and
neighbor-joining trees. The most distant protein
accepted as an L-aspartate oxidase (NadB), that from
Pyrococcus horikoshii, not only clusters with other NadB
but is just one gene away from NadA [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridine
nucleotides].
Length = 488
Score = 27.8 bits (62), Expect = 0.63
Identities = 10/50 (20%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 28 IKEKFSRPPNVLVNCAGITRDNWFL-----KLTE--KDFQQVFDVNLKLV 70
++ S + + + AGI R L +L ++ + NL V
Sbjct: 415 LQHNMSELRSFMWDYAGIVRLTKSLERALRRLVMLQQEIDEYELRNLVQV 464
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 27.8 bits (62), Expect = 0.67
Identities = 14/57 (24%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNL 67
L DVS+ + +++ + ++LVN AG + TE +++ +F+ NL
Sbjct: 65 LAADVSDDEDRRAILDWVEDHWDGL-HILVNNAGGNIRKAAIDYTEDEWRGIFETNL 120
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 27.6 bits (62), Expect = 0.71
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 27 AIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
A+ E F R V +N AG+ + E F + F+ N+K
Sbjct: 73 ALAEAFGRLDAVFIN-AGVAKFAPLEDWDEAMFDRSFNTNVK 113
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 27.4 bits (61), Expect = 0.86
Identities = 8/30 (26%), Positives = 17/30 (56%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVN 66
+VLVN AG+ ++ ++++V +N
Sbjct: 81 SVLVNNAGVGSFGAIEQIELDEWRRVMAIN 110
>gnl|CDD|187640 cd08935, mannonate_red_SDR_c, putative D-mannonate oxidoreductase,
classical (c) SDR. D-mannonate oxidoreductase catalyzes
the NAD-dependent interconversion of D-mannonate and
D-fructuronate. This subgroup includes Bacillus
subtitils UxuB/YjmF, a putative D-mannonate
oxidoreductase; the B. subtilis UxuB gene is part of a
putative ten-gene operon (the Yjm operon) involved in
hexuronate catabolism. Escherichia coli UxuB does not
belong to this subgroup. This subgroup has a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 271
Score = 27.0 bits (60), Expect = 1.2
Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 15/68 (22%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAG------ITRDNW--------FLKLTEKDF 59
DV + +++ A I +F ++L+N AG T F L E+ +
Sbjct: 62 DVLDRASLERAREEIVAQFGTV-DILINGAGGNHPDATTDPEHYEPETEQNFFDLDEEGW 120
Query: 60 QQVFDVNL 67
+ VFD+NL
Sbjct: 121 EFVFDLNL 128
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 26.8 bits (60), Expect = 1.2
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 11 LPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAG 44
L +DV++ ++I A+ I + R +VLVN AG
Sbjct: 51 LSLDVTDEASIKAAVDTIIAEEGR-IDVLVNNAG 83
>gnl|CDD|223696 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 26.8 bits (60), Expect = 1.3
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 8 HLSLPMDVSNTSTISTAMSAIKEKF 32
L LP DV+N +I + IK+K+
Sbjct: 58 DLVLPCDVTNDESIDALFATIKKKW 82
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 26.8 bits (60), Expect = 1.3
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 14/64 (21%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNW--FLKLTEKD-------FQQVFD 64
DV++ + A+ + F + + V AGI W L + F ++F+
Sbjct: 60 DVTSYADNQRAVDQTVDAFGKL-DCFVGNAGI----WDYNTSLVDIPAETLDTAFDEIFN 114
Query: 65 VNLK 68
VN+K
Sbjct: 115 VNVK 118
>gnl|CDD|236093 PRK07773, PRK07773, replicative DNA helicase; Validated.
Length = 886
Score = 26.6 bits (59), Expect = 1.5
Identities = 6/34 (17%), Positives = 12/34 (35%)
Query: 44 GITRDNWFLKLTEKDFQQVFDVNLKLVDRRGGTA 77
G RD + + ++ F ++ V A
Sbjct: 671 GKGRDQYHVHISGAKDLVRFLRHVGAVGAEKVAA 704
>gnl|CDD|218026 pfam04321, RmlD_sub_bind, RmlD substrate binding domain.
L-rhamnose is a saccharide required for the virulence
of some bacteria. Its precursor, dTDP-L-rhamnose, is
synthesised by four different enzymes the final one of
which is RmlD. The RmlD substrate binding domain is
responsible for binding a sugar nucleotide.
Length = 284
Score = 26.4 bits (59), Expect = 1.6
Identities = 7/36 (19%), Positives = 17/36 (47%), Gaps = 6/36 (16%)
Query: 12 PMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITR 47
+D+++ ++ + + P+V+VN A T
Sbjct: 32 ELDLTDPEAVAALVREAR------PDVVVNAAAYTA 61
>gnl|CDD|215852 pfam00311, PEPcase, Phosphoenolpyruvate carboxylase.
Length = 794
Score = 26.7 bits (60), Expect = 1.7
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 43 AGITRDNWFLKLTEKDFQQV---FDVNLKLVDRRGGTAG 78
G NW L ++ +V + V L+L RGG+ G
Sbjct: 452 GGFLTSNWELYKAQEALVKVAEKYGVKLRLFHGRGGSVG 490
>gnl|CDD|187589 cd05328, 3alpha_HSD_SDR_c, alpha hydroxysteroid dehydrogenase
(3alpha_HSD), classical (c) SDRs. Bacterial
3-alpha_HSD, which catalyzes the NAD-dependent
oxidoreduction of hydroxysteroids, is a dimeric member
of the classical SDR family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 26.3 bits (58), Expect = 1.8
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGI 45
D+S + A++ + + S + LVNCAG+
Sbjct: 39 DLSTPEGRAAAIADVLARCSGVLDGLVNCAGV 70
>gnl|CDD|234240 TIGR03514, GldB_lipo, gliding motility-associated lipoprotein
GldB. RN RM PMID:10648514 RT Cloning and
characterization of the Flavobacterium johnsoniae
gliding-motility genes gldB and gldC. RA Hunnicutt DW,
McBride MJ RL J Bacteriol. 2000 Feb;182(4):911-8.
Length = 319
Score = 26.5 bits (59), Expect = 1.9
Identities = 8/39 (20%), Positives = 14/39 (35%)
Query: 20 TISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKD 58
+ +K+K+ +N + W KL KD
Sbjct: 40 AKPEDLPKLKKKYPLFFPKYINIQRVPDSEWVSKLVYKD 78
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 25.5 bits (56), Expect = 3.4
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 41 NCAGITRDNWFL-KLTEKDFQQVFDVNLKLV 70
N AGI + L + +E +F + VN+K V
Sbjct: 90 NNAGIEIEQGRLAEGSEAEFDAIMGVNVKGV 120
>gnl|CDD|130046 TIGR00973, leuA_bact, 2-isopropylmalate synthase, bacterial type.
This is the first enzyme of leucine biosynthesis. A
larger family of homologous proteins includes
homocitrate synthase, distinct lineages of
2-isopropylmalate synthase, several distinct,
uncharacterized, orthologous sets in the Archaea, and
other related enzymes. This model describes a family of
2-isopropylmalate synthases found primarily in Bacteria.
The homologous families in the Archaea may represent
isozymes and/or related enzymes [Amino acid
biosynthesis, Pyruvate family].
Length = 494
Score = 25.9 bits (57), Expect = 3.4
Identities = 5/22 (22%), Positives = 14/22 (63%)
Query: 53 KLTEKDFQQVFDVNLKLVDRRG 74
KL +++ ++F+ +L D++
Sbjct: 344 KLDDEELDKLFEKFKELADKKK 365
>gnl|CDD|215557 PLN03069, PLN03069, magnesiumprotoporphyrin-IX chelatase subunit H;
Provisional.
Length = 1220
Score = 25.9 bits (57), Expect = 3.6
Identities = 10/20 (50%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 30 EKFSRPP-NVLVNCAGITRD 48
E+ RP +V+VNC+G+ RD
Sbjct: 1018 EELGRPRIDVVVNCSGVFRD 1037
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 25.5 bits (56), Expect = 3.8
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 8/58 (13%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDF---QQVFDVNLK 68
D+++ + ++ I E P + +VN GI L + D Q V+D+N++
Sbjct: 49 DLADIEQTAATLAQINEIH--PVDAIVNNVGIAL---PQPLGKIDLAALQDVYDLNVR 101
>gnl|CDD|233690 TIGR02025, BchH, magnesium chelatase, H subunit. This model
represents the H subunit of the magnesium chelatase
complex responsible for magnesium insertion into the
protoporphyrin IX ring in the biosynthesis of both
chlorophyll and bacteriochlorophyll. In
chlorophyll-utilizing species, this gene is known as
ChlH, while in bacteriochlorophyll-utilizing spoecies it
is called BchH. Subunit H is the largest (~140kDa) of
the three subunits (the others being BchD/ChlD and
BchI/ChlI), and is known to bind protoporphyrin IX.
Subunit H is homologous to the CobN subunit of
cobaltochelatase and by anology with that enzyme,
subunit H is believed to also bind the magnesium ion
which is inserted into the ring. In conjunction with the
hydrolysis of ATP by subunits I and D, a conformation
change is believed to happen in subunit H causing the
magnesium ion insertion into the distorted
protoporphyrin ring [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 1224
Score = 25.5 bits (56), Expect = 4.5
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 30 EKFSRPP-NVLVNCAGITRD 48
EK RP +V+V +GI RD
Sbjct: 919 EKLGRPRIDVVVTLSGIFRD 938
>gnl|CDD|180054 PRK05396, tdh, L-threonine 3-dehydrogenase; Validated.
Length = 341
Score = 25.2 bits (56), Expect = 4.9
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 6/27 (22%)
Query: 57 KDFQQVFDVNLKLVDRRGGTAGKVCLD 83
DFQ+ F+ R G +GKV LD
Sbjct: 319 DDFQKGFEA------MRSGQSGKVILD 339
>gnl|CDD|234422 TIGR03971, SDR_subfam_1, oxidoreductase, SDR family. Members of
this protein subfamily are putative oxidoreductases
belonging to the larger SDR family. Members of the
present subfamily may occur several to a genome and are
largely restricted to genomes that contain members of
families TIGR03962, TIGR03967, and TIGR03969. Many
members have been annotated by homology as carveol
dehydrogenases.
Length = 265
Score = 25.2 bits (55), Expect = 4.9
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 30 EKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
E+F R +V+V AG+ +L+E+ + V D+NL
Sbjct: 89 EQFGRL-DVVVANAGVLSYGRSWELSEEQWDTVLDINLT 126
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 25.0 bits (55), Expect = 4.9
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 8/67 (11%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCA-------GITRDNWFLKLTEKDFQQ 61
++L DV++ + + E F +P +VN A G R +T +DFQQ
Sbjct: 55 IALQADVTDREQVQAMFATATEHFGKPITTVVNNALADFSFDGDARKK-ADDITWEDFQQ 113
Query: 62 VFDVNLK 68
+ ++K
Sbjct: 114 QLEGSVK 120
>gnl|CDD|180949 PRK07370, PRK07370, enoyl-(acyl carrier protein) reductase;
Validated.
Length = 258
Score = 25.1 bits (55), Expect = 5.4
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 9 LSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNC 42
L LP DV + + I IK+K+ + ++LV+C
Sbjct: 62 LFLPCDVQDDAQIEETFETIKQKWGK-LDILVHC 94
>gnl|CDD|187614 cd05356, 17beta-HSD1_like_SDR_c, 17-beta-hydroxysteroid
dehydrogenases (17beta-HSDs) types -1, -3, and -12,
-like, classical (c) SDRs. This subgroup includes
various 17-beta-hydroxysteroid dehydrogenases and
3-ketoacyl-CoA reductase, these are members of the SDR
family, and contain the canonical active site tetrad and
glycine-rich NAD-binding motif of the classical SDRs.
3-ketoacyl-CoA reductase (KAR, aka 17beta-HSD type 12,
encoded by HSD17B12) acts in fatty acid elongation;
17beta- hydroxysteroid dehydrogenases are isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family.
17beta-estradiol dehydrogenase (aka 17beta-HSD type 1,
encoded by HSD17B1) converts estrone to estradiol.
Estradiol is the predominant female sex hormone.
17beta-HSD type 3 (aka testosterone
17-beta-dehydrogenase 3, encoded by HSD17B3) catalyses
the reduction of androstenedione to testosterone, it
also accepts estrogens as substrates. This subgroup also
contains a putative steroid dehydrogenase let-767 from
Caenorhabditis elegans, mutation in which results in
hypersensitivity to cholesterol limitation. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 239
Score = 24.9 bits (55), Expect = 5.4
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPP-NVLVNCAGITRD--NWFLKLTEKDFQQVFDVN 66
D S I I+++ +LVN GI+ +FL+ E + Q + +VN
Sbjct: 58 ADFSAGDDI---YERIEKELEGLDIGILVNNVGISHSIPEYFLETPEDELQDIINVN 111
>gnl|CDD|226715 COG4264, RhbC, Siderophore synthetase component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 602
Score = 25.0 bits (55), Expect = 5.5
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 8 HLSLPMDVSNTSTIST 23
L LP+ ++NT + T
Sbjct: 295 KLKLPVSITNTGAVRT 310
>gnl|CDD|224016 COG1091, RfbD, dTDP-4-dehydrorhamnose reductase [Cell envelope
biogenesis, outer membrane].
Length = 281
Score = 24.9 bits (55), Expect = 5.9
Identities = 6/34 (17%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 13 MDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGIT 46
+D+++ + + + P+V++N A T
Sbjct: 34 LDITDPDAVLEVIRETR------PDVVINAAAYT 61
>gnl|CDD|236308 PRK08594, PRK08594, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 257
Score = 24.7 bits (54), Expect = 6.7
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 6 STHLSLPMDVSNTSTISTAMSAIKEK 31
L LP DV++ I+ IKE+
Sbjct: 59 QESLLLPCDVTSDEEITACFETIKEE 84
>gnl|CDD|236416 PRK09222, PRK09222, isocitrate dehydrogenase; Validated.
Length = 482
Score = 24.9 bits (55), Expect = 6.9
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 40 VNCAGITRDNWFLKLTEKDFQQVFD 64
V C T+DN +KLT+ F +VFD
Sbjct: 170 VTCL--TKDN-IMKLTDGLFHKVFD 191
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 24.8 bits (55), Expect = 7.0
Identities = 7/25 (28%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 16 SNTSTISTAMSAIKEKFSRPPNVLV 40
SNTS++S ++ + RP +
Sbjct: 112 SNTSSLS--ITELAAATKRPERFIG 134
>gnl|CDD|187615 cd05357, PR_SDR_c, pteridine reductase (PR), classical (c) SDRs.
Pteridine reductases (PRs), members of the SDR family,
catalyzes the NAD-dependent reduction of folic acid,
dihydrofolate and related compounds. In Leishmania,
pteridine reductase (PTR1) acts to circumvent the
anti-protozoan drugs that attack dihydrofolate reductase
activity. Proteins in this subgroup have an N-terminal
NAD-binding motif and a YxxxK active site motif, but
have an Asp instead of the usual upstream catalytic Ser.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 234
Score = 24.5 bits (54), Expect = 7.1
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 14 DVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
D+S+ + + ++A F R +VLVN A + +E + ++F +NLK
Sbjct: 58 DLSDFAACADLVAAAFRAFGRC-DVLVNNASAFYPTPLGQGSEDAWAELFGINLK 111
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 24.6 bits (53), Expect = 7.9
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 37 NVLVNCAGITRDNWFLKLTEKDFQQVFDVNLK 68
++LVN AGI TE+ F ++ VN+K
Sbjct: 92 DILVNNAGIGTQGTIENTTEEIFDEIMAVNIK 123
>gnl|CDD|171852 PRK13036, PRK13036, superantigen-like protein; Reviewed.
Length = 227
Score = 24.5 bits (53), Expect = 8.6
Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 3/67 (4%)
Query: 1 MLTGSSTHLSLPMDVSNTSTISTAMSAIKEKFSRPPNVLVNCAGITRDNWFLKLTEKDFQ 60
+ TG T + P+ S S A + E + L N +G N K+T D
Sbjct: 16 LTTGMITTTAQPVKASTLEVRSQATQDLSEYYKGRGFELTNVSGYKEGN---KVTFIDNS 72
Query: 61 QVFDVNL 67
Q+ DV L
Sbjct: 73 QLIDVTL 79
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.133 0.394
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: 4,134,247
Number of extensions: 311272
Number of successful extensions: 474
Number of sequences better than 10.0: 1
Number of HSP's gapped: 443
Number of HSP's successfully gapped: 150
Length of query: 87
Length of database: 10,937,602
Length adjustment: 55
Effective length of query: 32
Effective length of database: 8,498,132
Effective search space: 271940224
Effective search space used: 271940224
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.0 bits)