RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16392
(181 letters)
>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 = 70.7 bits (174), Expect = 2e-15
Identities = 27/40 (67%), Positives = 33/40 (82%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
VTG+TDGIGKAYA ELAKR +++LISRT +KL+ A EI
Sbjct: 6 VTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEI 45
Score = 60.7 bits (148), Expect = 1e-11
Identities = 32/98 (32%), Positives = 41/98 (41%), Gaps = 9/98 (9%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHDWLRA 114
+P YS +KAF+ F L E I Q L+P +V T MSK RK +
Sbjct: 146 TPLLATYSASKAFLDFFSRALYEEYKSQGIDVQSLLPYLVATKMSKI----RK-----SS 196
Query: 115 FAYPTATTYASWAICTLGWCKFATGYWFFDCTVWVLWT 152
P+ + A+ TLG K TGYW WV
Sbjct: 197 LFVPSPEQFVRSALNTLGLSKRTTGYWSHALQGWVARL 234
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 61.5 bits (150), Expect = 7e-12
Identities = 17/46 (36%), Positives = 29/46 (63%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLT 47
++TG++ GIG A +LA+R +L+L++R KL A E++ T
Sbjct: 9 ALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELEDKT 54
Score = 44.5 bits (106), Expect = 8e-06
Identities = 14/48 (29%), Positives = 19/48 (39%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGD 102
+PY YS TKAFV F L E+ ++ + P T
Sbjct: 150 TPYMAVYSATKAFVLSFSEALREELKGTGVKVTAVCPGPTRTEFFDAK 197
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 52.4 bits (126), Expect = 1e-08
Identities = 17/44 (38%), Positives = 29/44 (65%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
++TG+ GIG+A AI LAK +++ L++RT + L A E++
Sbjct: 11 LITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAY 54
Score = 35.4 bits (82), Expect = 0.007
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG--------DHFMR--KMHD 110
YS +K V L +E+ HNI+ L PS V T+M+ D M+ + +
Sbjct: 156 YSASKFGVLGLTESLMQEVRKHNIRVTALTPSTVATDMAVDLGLTDGNPDKVMQPEDLAE 215
Query: 111 WLRA 114
++ A
Sbjct: 216 FIVA 219
>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 = 51.5 bits (124), Expect = 3e-08
Identities = 21/52 (40%), Positives = 31/52 (59%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
V++TG+ GIGK A ELAKR +++ R +K + A EIK T ++ V
Sbjct: 4 VVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGNAKVE 55
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 51.0 bits (122), Expect = 5e-08
Identities = 20/42 (47%), Positives = 32/42 (76%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+VTG TDGIGK +A +LA++ ++LVL++R KL D ++ I+
Sbjct: 57 LVTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQ 98
Score = 42.5 bits (100), Expect = 4e-05
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 9/86 (10%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHDWLRAF 115
P + Y+ TKA++ F CL E I Q +P V T M+ +R+ +F
Sbjct: 203 PLYAVYAATKAYIDQFSRCLYVEYKKSGIDVQCQVPLYVATKMAS----IRR-----SSF 253
Query: 116 AYPTATTYASWAICTLGWCKFATGYW 141
P++ YA A+ +G+ T YW
Sbjct: 254 LVPSSDGYARAALRWVGYEPRCTPYW 279
>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 = 49.2 bits (118), Expect = 1e-07
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTAN 41
+VTG++ GIG+A A LA+ +VL R + L + A
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAA 40
Score = 36.1 bits (84), Expect = 0.006
Identities = 13/62 (20%), Positives = 23/62 (37%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHDWLRA 114
P Y+ +KA + L E++ + I+ + P +VDT M + A
Sbjct: 140 LPGQAAYAASKAALEGLTRSLALELAPYGIRVNAVAPGLVDTPMLAKLGPEEAEKELAAA 199
Query: 115 FA 116
Sbjct: 200 IP 201
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 48.6 bits (116), Expect = 3e-07
Identities = 20/55 (36%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLI-SRTLQKLNDTANEIKGLTNDSHVFKS 55
+VTGS+ GIGKA A+ LA+ D+ + +R+ + +TA EI+ L + K+
Sbjct: 7 ALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEALGRKALAVKA 61
>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 = 48.4 bits (116), Expect = 3e-07
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDS 50
V++TG + GIGKA A EL K ++++++R+ KL + EI+ N S
Sbjct: 4 VLITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAEANAS 52
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 48.4 bits (116), Expect = 4e-07
Identities = 16/52 (30%), Positives = 33/52 (63%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
V++TG++ GIG+A AI++A+ + L++R + L++ EI+ +H +
Sbjct: 374 VLITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRAKGGTAHAY 425
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 46.8 bits (112), Expect = 1e-06
Identities = 16/45 (35%), Positives = 28/45 (62%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
V++TG++ G+G+A A A+R +VL++R + L A EI+
Sbjct: 11 VVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRAA 55
>gnl|CDD|212495 cd09807, retinol-DH_like_SDR_c, retinol dehydrogenases
(retinol-DHs), classical (c) SDRs. Classical SDR-like
subgroup containing retinol-DHs and related proteins.
Retinol is processed by a medium chain alcohol
dehydrogenase followed by retinol-DHs. Proteins in this
subfamily share the glycine-rich NAD-binding motif of
the classical SDRs, have a partial match to the
canonical active site tetrad, but lack the typical
active site Ser. This subgroup includes the human
proteins: retinol dehydrogenase -12, -13 ,and -14. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 274
Score = 45.9 bits (109), Expect = 2e-06
Identities = 19/52 (36%), Positives = 30/52 (57%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
V++TG+ GIGK A ELA+R +++ R + K + A EI+ T + V
Sbjct: 4 VIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLNHEVI 55
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 45.7 bits (109), Expect = 3e-06
Identities = 17/43 (39%), Positives = 27/43 (62%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
++TG++ GIGKA A+ AK DL L++R+ L A E++
Sbjct: 9 ALITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELR 51
>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 = 44.9 bits (107), Expect = 4e-06
Identities = 17/53 (32%), Positives = 29/53 (54%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
V++TG GIG+ A+E AKR +V++ + +TAN ++ H +K
Sbjct: 2 VLITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAGGKVHYYK 54
Score = 28.7 bits (65), Expect = 1.5
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHH---NIQTQILIPSVVDTNMSKGD 102
+Y +KA F L E+ + I+T ++ P ++T M +G
Sbjct: 143 AGLADYCASKAAAVGFHESLRLELKAYGKPGIKTTLVCPYFINTGMFQGV 192
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 44.6 bits (106), Expect = 1e-05
Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVN 60
+V+VTG+ GIG+ A+ A+ ++V TA I+ +H Y V+
Sbjct: 317 LVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRAAGAVAH----AYRVD 372
Query: 61 YSGTKAF 67
S A
Sbjct: 373 VSDADAM 379
Score = 33.4 bits (77), Expect = 0.047
Identities = 14/44 (31%), Positives = 20/44 (45%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHF 104
Y+ +KA V CL E++ I + P VDTN+ F
Sbjct: 465 YATSKAAVLMLSECLRAELAAAGIGVTAICPGFVDTNIVATTRF 508
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 43.3 bits (103), Expect = 2e-05
Identities = 16/42 (38%), Positives = 27/42 (64%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
++VTG+ DGIG+ A+ A+ ++L+ RT +KL +EI
Sbjct: 15 ILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEI 56
>gnl|CDD|187594 cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase
(BKR), involved in Type II FAS, classical (c) SDRs.
This subgroup includes the Escherichai coli K12 BKR,
FabG. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS,
typical of plants and many bacteria, maintains these
activities on discrete polypeptides, while type I FAS
utilizes one or two multifunctional polypeptides. BKR
resembles enoyl reductase, which catalyzes the second
reduction step in FAS. SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) NAD(P)(H)
binding region and a structurally diverse C-terminal
region. Classical SDRs are typically about 250 residues
long, while extended SDRS are approximately 350
residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H) binding pattern: TGxxxGxG in classical SDRs.
Extended SDRs have additional elements in the
C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P) binding motif and an altered
active site motif (YXXXN). Fungal type type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P) binding motif and missing or
unusual active site residues. Reactions catalyzed
within the SDR family include isomerization,
decarboxylation, epimerization, C=N bond reduction,
dehydratase activity, dehalogenation, Enoyl-CoA
reduction, and carbonyl-alcohol oxidoreduction. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK
pattern. In addition to the Tyr and Lys, there is often
an upstream Ser (Ser-138, 15-PGDH numbering) and/or an
Asn (Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is
a proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 240
Score = 43.3 bits (103), Expect = 2e-05
Identities = 16/53 (30%), Positives = 29/53 (54%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
+VTG++ GIG+A A+ LA + + R+ + +T EIK L ++ +
Sbjct: 3 ALVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIKALGGNAAALE 55
Score = 30.2 bits (69), Expect = 0.48
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 59 VNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
NY+ +KA V F L +E++ I + P +DT+M
Sbjct: 147 ANYAASKAGVIGFTKSLAKELASRGITVNAVAPGFIDTDM 186
>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 = 43.0 bits (102), Expect = 2e-05
Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT-LQKLNDTANEIKGLTNDSHVFK 54
+VTG++ GIG+A A++LAK +++ R+ + + E+K +
Sbjct: 1 ALVTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELKAYGVKALGVV 54
Score = 30.3 bits (69), Expect = 0.42
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 59 VNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSK 100
NY+ +KA V F L +E++ NI + P +DT+M+
Sbjct: 146 ANYAASKAGVIGFTKSLAKELASRNITVNAVAPGFIDTDMTD 187
>gnl|CDD|212496 cd11730, Tthb094_like_SDR_c, Tthb094 and related proteins,
classical (c) SDRs. Tthb094 from Thermus Thermophilus
is a classical SDR which binds NADP. Members of this
subgroup contain the YXXXK active site characteristic
of SDRs. Also, an upstream Asn residue of the canonical
catalytic tetrad is partially conserved in this
subgroup of proteins of undetermined function. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed
within the SDR family include isomerization,
decarboxylation, epimerization, C=N bond reduction,
dehydratase activity, dehalogenation, Enoyl-CoA
reduction, and carbonyl-alcohol oxidoreduction.
Length = 206
Score = 42.9 bits (101), Expect = 2e-05
Identities = 18/52 (34%), Positives = 25/52 (48%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
++ G+T GIG+A A LA R L+L R L A E+ L + V
Sbjct: 1 ALILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLAAEVGALARPADVA 52
>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 = 42.6 bits (101), Expect = 3e-05
Identities = 15/46 (32%), Positives = 20/46 (43%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLT 47
+TG GIGKA A A+ + + R + L A EI T
Sbjct: 6 AFITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSAT 51
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 42.5 bits (101), Expect = 3e-05
Identities = 14/53 (26%), Positives = 26/53 (49%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
+VTG++ GIG+A A+ LA +V+ + A E++ ++ V
Sbjct: 8 ALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAGGEARVLV 60
Score = 30.9 bits (71), Expect = 0.25
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
+P NYS KA V F L E++ I + P +DT+M++G
Sbjct: 148 NPGQTNYSAAKAGVIGFTKALALELASRGITVNAVAPGFIDTDMTEG 194
>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 = 42.3 bits (100), Expect = 4e-05
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVN 60
V++TG++ GIG+A A E AK ++ L +R +L++ E+ V V
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLNPNP--SVEVEILDVT 57
Score = 27.3 bits (61), Expect = 4.1
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
YS +KA + L ++ I+ ++ P +DT +
Sbjct: 147 YSASKAALSSLAESLRYDVKKRGIRVTVINPGFIDTPL 184
>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 = 42.2 bits (100), Expect = 5e-05
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDS-HVF 53
V++TG++ GIG+ A LA+ LVL +R ++L + +E L S HV
Sbjct: 6 VIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSECLELGAPSPHVV 58
Score = 32.2 bits (74), Expect = 0.091
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMS 99
P+ Y+ +K + F + L E+S NI ++ P ++DTN++
Sbjct: 148 PFRTAYAASKHALQGFFDSLRAELSEPNISVTVVCPGLIDTNIA 191
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 41.7 bits (98), Expect = 6e-05
Identities = 16/50 (32%), Positives = 31/50 (62%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
+VTG+ G+G A A+ A+ D+++ +RT +L++ A +I+ +HV
Sbjct: 14 VVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAAGRRAHV 63
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 41.9 bits (99), Expect = 6e-05
Identities = 18/52 (34%), Positives = 31/52 (59%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
V++TG+++GIG+A A+ LA+ LVL +R +L A E+ ++ V
Sbjct: 4 VIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADHGGEALVV 55
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 41.5 bits (98), Expect = 7e-05
Identities = 16/43 (37%), Positives = 27/43 (62%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
++TG++ GIG+A A LA+ +VL +R ++L A+EI
Sbjct: 9 ALITGASSGIGEATARALAEAGAKVVLAARREERLEALADEIG 51
Score = 31.1 bits (71), Expect = 0.22
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDT 96
Y TKA V F L +E++ I+ ++ P +V+T
Sbjct: 153 YGATKAAVRAFSLGLRQELAGTGIRVTVISPGLVET 188
>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 = 41.7 bits (98), Expect = 7e-05
Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT--LQKLNDTANEIKGLTNDSHVF 53
+VTG++ GIG+A A LA+ +V+ +R + A IK
Sbjct: 8 ALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGRAAA 61
Score = 36.3 bits (84), Expect = 0.004
Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 2/67 (2%)
Query: 50 SHVFKSPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMH 109
+ + P Y+ +KA + L E++ I+ + P +DT M
Sbjct: 145 AGLGGPPGQAAYAASKAALIGLTKALALELAPRGIRVNAVAPGYIDTPM--TAALESAEL 202
Query: 110 DWLRAFA 116
+ L+ A
Sbjct: 203 EALKRLA 209
>gnl|CDD|187599 cd05340, Ycik_SDR_c, Escherichia coli K-12 YCIK-like, classical
(c) SDRs. Escherichia coli K-12 YCIK and related
proteins have a canonical classical SDR
nucleotide-binding motif and active site tetrad. They
are predicted oxoacyl-(acyl carrier protein/ACP)
reductases. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 236
Score = 41.4 bits (97), Expect = 9e-05
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLT 47
+++VTG++DGIG+ A+ A+ ++L+ R +KL A+ I
Sbjct: 6 IILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEG 52
>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 = 41.3 bits (97), Expect = 9e-05
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VTG++ GIG A A L + M +V +R + K+ A E +
Sbjct: 10 LVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQS 52
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 40.9 bits (96), Expect = 1e-04
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVNYS 62
+VTG++ G+G +A LA+ +VL SR +++L + EI+ +HV S +Y
Sbjct: 13 LVTGASSGLGARFAQVLAQAGAKVVLASRRVERLKELRAEIEAEGGAAHVV-SLDVTDYQ 71
Query: 63 GTKAFVGH 70
KA V H
Sbjct: 72 SIKAAVAH 79
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 40.3 bits (95), Expect = 2e-04
Identities = 15/53 (28%), Positives = 26/53 (49%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
+++TG G+G+A A LA++ L LI +KL + E L + +
Sbjct: 8 IVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGALGTEVRGYA 60
Score = 32.6 bits (75), Expect = 0.072
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 60 NYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
NYS +KA V +E++ + I+ + P V++T M+
Sbjct: 162 NYSASKAGVAAMTVTWAKELARYGIRVAAIAPGVIETEMTAA 203
>gnl|CDD|187625 cd05367, SPR-like_SDR_c, sepiapterin reductase (SPR)-like,
classical (c) SDRs. Human SPR, a member of the SDR
family, catalyzes the NADP-dependent reduction of
sepiaptern to 7,8-dihydrobiopterin (BH2). In addition
to SPRs, this subgroup also contains Bacillus cereus
yueD, a benzil reductase, which catalyzes the
stereospecific reduction of benzil to (S)-benzoin. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 241
Score = 40.0 bits (94), Expect = 2e-04
Identities = 16/42 (38%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 4 VTGSTDGIGKAYAIELAKR--KMDLVLISRTLQKLNDTANEI 43
+TG++ GIG+A A EL KR +VL++R+ + L + E+
Sbjct: 4 LTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEEL 45
>gnl|CDD|187639 cd08934, CAD_SDR_c, clavulanic acid dehydrogenase (CAD),
classical (c) SDR. CAD catalyzes the NADP-dependent
reduction of clavulanate-9-aldehyde to clavulanic acid,
a beta-lactamase inhibitor. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 39.8 bits (93), Expect = 2e-04
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
+VTG++ GIG+A A LA + + +R + +L A+E++ + V
Sbjct: 7 LVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEAEGGKALV 56
Score = 31.7 bits (72), Expect = 0.14
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDH 103
Y+ TK V F L +E++ ++ ++ P VDT + DH
Sbjct: 152 YNATKFGVNAFSEGLRQEVTERGVRVVVIEPGTVDTELR--DH 192
>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 = 40.1 bits (94), Expect = 2e-04
Identities = 17/45 (37%), Positives = 32/45 (71%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
V++TG++ GIG+A A+ A+R +VL +R+ + L++ A E++ L
Sbjct: 3 VVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVREL 47
>gnl|CDD|233441 TIGR01500, sepiapter_red, sepiapterin reductase. This model
describes sepiapterin reductase, a member of the short
chain dehydrogenase/reductase family. The enzyme
catalyzes the last step in the biosynthesis of
tetrahydrobiopterin. A similar enzyme in Bacillus
cereus was isolated for its ability to convert benzil
to (S)-benzoin, a property sepiapterin reductase also
shares. Cutoff scores for this model are set such that
benzil reductase scores between trusted and noise
cutoffs.
Length = 256
Score = 39.9 bits (93), Expect = 3e-04
Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 3 MVTGSTDGIGKAYAIELAKRKM----DLVLISRTLQKLNDTANEIKGLTNDSHV 52
+VTG++ G G+ A ELAK LVL +R + L EI + V
Sbjct: 4 LVTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLRV 57
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 39.7 bits (93), Expect = 3e-04
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
V++TG + G+GKA A A+ ++V+ RT +KL + EI+ V
Sbjct: 4 VIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIE--QFPGQV 52
>gnl|CDD|187622 cd05364, SDR_c11, classical (c) SDR, subgroup 11. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 253
Score = 39.7 bits (93), Expect = 3e-04
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
++TGS+ GIG AI A+ L L R ++L +T
Sbjct: 6 AIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQ 49
Score = 28.1 bits (63), Expect = 2.5
Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKM 108
P + Y +KA + F C E++ ++ + P V+ T F R+M
Sbjct: 149 PGVLYYCISKAALDQFTRCTALELAPKGVRVNSVSPGVIVTG------FHRRM 195
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 39.5 bits (92), Expect = 3e-04
Identities = 12/42 (28%), Positives = 24/42 (57%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
++VTG++ G+G+ A A ++L++R +KL + I
Sbjct: 9 ILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAI 50
>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 = 39.6 bits (93), Expect = 4e-04
Identities = 16/43 (37%), Positives = 27/43 (62%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
V++TG++ GIG+A A AK L+L R ++L + A+E+
Sbjct: 3 VLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELG 45
Score = 27.6 bits (62), Expect = 3.1
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMS----KGD 102
Y TKA V F L +++ I+ + P +V+T S GD
Sbjct: 151 YCATKAAVRQFSLNLRKDLIGTGIRVTNIEPGLVETEFSLVRFHGD 196
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 39.4 bits (92), Expect = 4e-04
Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSH 51
+VTGS+ GIG A A LA+ +++L R KL A +KG +H
Sbjct: 14 LVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLKGQGLSAH 62
>gnl|CDD|187602 cd05344, BKR_like_SDR_like, putative beta-ketoacyl acyl carrier
protein [ACP] reductase (BKR)-like, SDR. This subgroup
resembles the SDR family, but does not have a perfect
match to the NAD-binding motif or the catalytic tetrad
characteristic of the SDRs. It includes the SDRs,
Q9HYA2 from Pseudomonas aeruginosa PAO1 and APE0912
from Aeropyrum pernix K1. BKR catalyzes the
NADPH-dependent reduction of ACP in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of four elongation steps, which are repeated
to extend the fatty acid chain through the addition of
two-carbo units from malonyl acyl-carrier protein
(ACP): condensation, reduction, dehydration, and a
final reduction. Type II FAS, typical of plants and
many bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 253
Score = 39.2 bits (92), Expect = 4e-04
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+VT ++ GIG A A LA+ + + +R + L A+E++
Sbjct: 4 ALVTAASSGIGLAIARALAREGARVAICARNRENLERAASELR 46
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 39.3 bits (92), Expect = 4e-04
Identities = 18/45 (40%), Positives = 27/45 (60%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
V++TG++ GIG+A A A+R LVL +R + L A E + L
Sbjct: 10 VVITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRAL 54
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 38.3 bits (90), Expect = 5e-04
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKM-DLVLISRTLQK--LNDTANEIKGL 46
V++TG T G+G A A LA LVL+SR + E++ L
Sbjct: 3 VLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEAL 50
>gnl|CDD|187668 cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase
SDR family member (DHRS)-12/FLJ13639-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
human DHRS-12/FLJ13639, the 36K protein of zebrafish
CNS myelin, and related proteins. DHRS-12/FLJ13639 is
expressed in neurons and oligodendrocytes in the human
cerebral cortex. Proteins in this subgroup share the
glycine-rich NAD-binding motif of the classical SDRs,
have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 255
Score = 39.1 bits (91), Expect = 6e-04
Identities = 15/51 (29%), Positives = 30/51 (58%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
++TG+ GIGKA A+ +AKR + ++ R + + EI+ + + ++F
Sbjct: 5 LITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQNIF 55
>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 = 0.001
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKL 36
+VTG++ GIG A LA+ + L R + L
Sbjct: 3 ALVTGASRGIGIEIARALARDGYRVSLGLRNPEDL 37
>gnl|CDD|187597 cd05338, DHRS1_HSDL2-like_SDR_c, human dehydrogenase/reductase
(SDR family) member 1 (DHRS1) and human hydroxysteroid
dehydrogenase-like protein 2 (HSDL2), classical (c)
SDRs. This subgroup includes human DHRS1 and human
HSDL2 and related proteins. These are members of the
classical SDR family, with a canonical Gly-rich
NAD-binding motif and the typical YXXXK active site
motif. However, the rest of the catalytic tetrad is not
strongly conserved. DHRS1 mRNA has been detected in
many tissues, liver, heart, skeletal muscle, kidney and
pancreas; a longer transcript is predominantly
expressed in the liver , a shorter one in the heart.
HSDL2 may play a part in fatty acid metabolism, as it
is found in peroxisomes. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 246
Score = 37.8 bits (88), Expect = 0.001
Identities = 13/41 (31%), Positives = 26/41 (63%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANE 42
VTG++ GIG+A A+ LAK +V+ ++T + ++ + +
Sbjct: 6 AFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAK 46
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 37.6 bits (88), Expect = 0.001
Identities = 16/42 (38%), Positives = 25/42 (59%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
V++TG++ GIG+A A LA L+L+ R +KL A +
Sbjct: 8 VLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARL 49
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 37.8 bits (88), Expect = 0.001
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+V G++ GIG A AIELA + L +R ++K + ++I+
Sbjct: 13 ALVAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIR 55
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 37.6 bits (88), Expect = 0.002
Identities = 13/43 (30%), Positives = 21/43 (48%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
++TG +G A A ELA+ + ++ R +K EIK
Sbjct: 13 AVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIK 55
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 37.6 bits (88), Expect = 0.002
Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLT 47
++TG++ GIG A A ELA L+L R ++L++ A E+ G T
Sbjct: 6 ALITGASRGIGAAIARELAPTH-TLLLGGRPAERLDELAAELPGAT 50
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 37.4 bits (87), Expect = 0.002
Identities = 17/42 (40%), Positives = 26/42 (61%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
V+VTG++ GIG+A A+ LA+R +V +R L+ A E
Sbjct: 12 VLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGET 53
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 37.6 bits (88), Expect = 0.002
Identities = 12/44 (27%), Positives = 20/44 (45%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VTG+ GIG A+ LAK +V+ + A ++
Sbjct: 7 ALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQK 50
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 37.3 bits (87), Expect = 0.002
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDL-VLISRTLQKLNDTANEIKGL 46
VT S GIGKA A+ LA++ D+ + + +TA E++
Sbjct: 7 VTASDSGIGKACALLLAQQGFDIGITWHSDEEGAKETAEEVRSH 50
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 37.1 bits (86), Expect = 0.002
Identities = 18/55 (32%), Positives = 24/55 (43%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSP 56
+VTG GIGK A L ++++ R KL A EI+ L V P
Sbjct: 10 YLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGAGAVRYEP 64
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 36.7 bits (86), Expect = 0.003
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT-LQKLNDTANEIK 44
+VTG++ GIG+A A LAK +V+ + + EIK
Sbjct: 8 AIVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIK 51
Score = 26.7 bits (60), Expect = 6.3
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
YS +K V F L +E++ I+ + P +DT M
Sbjct: 155 YSASKGAVNAFTKALAKELAPSGIRVNAVAPGAIDTEM 192
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 36.9 bits (86), Expect = 0.003
Identities = 15/41 (36%), Positives = 19/41 (46%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANE 42
V+VTG+ GIG A L R L L+ +L A E
Sbjct: 12 VVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAE 52
Score = 32.2 bits (74), Expect = 0.10
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
Y +KA V F N L E++HH + S +DT++ +
Sbjct: 156 YCASKAGVEAFANALRLEVAHHGVTVGSAYLSWIDTDLVRD 196
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 36.6 bits (85), Expect = 0.003
Identities = 15/50 (30%), Positives = 29/50 (58%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSH 51
+++TG++ GIG+A A + A+R +V ++R L+ A+ I D+
Sbjct: 43 ILLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRITRAGGDAM 92
>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 = 36.4 bits (85), Expect = 0.004
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANE 42
V++TG + GIG A A+ LA + ++ +R KL
Sbjct: 3 VLITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGEL 43
Score = 34.5 bits (80), Expect = 0.016
Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 2/62 (3%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHDWLRAF 115
P+ Y +KA + L E++ I+ I+ P V T + D+ +
Sbjct: 141 PFLGPYCASKAALEALSESLRLELAPFGIKVTIIEPGPVRTGFA--DNAAGSALEDPEIS 198
Query: 116 AY 117
Y
Sbjct: 199 PY 200
>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 = 36.2 bits (84), Expect = 0.005
Identities = 19/46 (41%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISR-TLQKLNDTANEIKGL 46
+VTG + GIGKA A+ LA+R D+V+ R + + A EI+ L
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEEL 46
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 35.8 bits (83), Expect = 0.006
Identities = 16/45 (35%), Positives = 23/45 (51%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
VTG+ GIG+A A+ LA + +L L R L T + + L
Sbjct: 3 CFVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARAL 47
>gnl|CDD|187611 cd05353, hydroxyacyl-CoA-like_DH_SDR_c-like, (3R)-hydroxyacyl-CoA
dehydrogenase-like, classical(c)-like SDRs. Beta
oxidation of fatty acids in eukaryotes occurs by a
four-reaction cycle, that may take place in
mitochondria or in peroxisomes. (3R)-hydroxyacyl-CoA
dehydrogenase is part of rat peroxisomal
multifunctional MFE-2, it is a member of the
NAD-dependent SDRs, but contains an additional small
C-terminal domain that completes the active site pocket
and participates in dimerization. The atypical,
additional C-terminal extension allows for more
extensive dimerization contact than other SDRs. MFE-2
catalyzes the second and third reactions of the
peroxisomal beta oxidation cycle. Proteins in this
subgroup have a typical catalytic triad, but have a His
in place of the usual upstream Asn. This subgroup also
contains members identified as 17-beta-hydroxysteroid
dehydrogenases, including human peroxisomal
17-beta-hydroxysteroid dehydrogenase type 4 (17beta-HSD
type 4, aka MFE-2, encoded by HSD17B4 gene) which is
involved in fatty acid beta-oxidation and steroid
metabolism. This subgroup also includes two SDR domains
of the Neurospora crassa and Saccharomyces cerevisiae
multifunctional beta-oxidation protein (MFP, aka Fox2).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 250
Score = 35.8 bits (83), Expect = 0.007
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 8/49 (16%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDS 50
V+VTG+ G+G+AYA+ A+R +V +ND + KG S
Sbjct: 8 VLVTGAGGGLGRAYALAFAERGAKVV--------VNDLGGDRKGSGKSS 48
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 35.5 bits (82), Expect = 0.008
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
++TG++ GIG A A E D+++++R L +E+
Sbjct: 13 LITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELA 54
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 35.3 bits (82), Expect = 0.008
Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
V+V+G G+G+ A+ A+ D+VL +RT ++L++ A EI L
Sbjct: 8 VVVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEIDDL 52
>gnl|CDD|211705 TIGR01963, PHB_DH, 3-hydroxybutyrate dehydrogenase. This model
represents a subfamily of the short chain
dehydrogenases. Characterized members so far as
3-hydroxybutyrate dehydrogenases and are found in
species that accumulate ester polmers called
polyhydroxyalkanoic acids (PHAs) under certain
conditions. Several members of the family are from
species not known to accumulate PHAs, including
Oceanobacillus iheyensis and Bacillus subtilis.
However, polymer formation is not required for there be
a role for 3-hydroxybutyrate dehydrogenase; it may be
members of this family have the same function in those
species.
Length = 255
Score = 35.4 bits (82), Expect = 0.008
Identities = 12/45 (26%), Positives = 18/45 (40%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
+VTG+ GIG A A LA ++V+ + A
Sbjct: 4 ALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDA 48
>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 = 35.5 bits (82), Expect = 0.009
Identities = 14/54 (25%), Positives = 24/54 (44%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKS 55
++TG T +G A A LA+ + + R +K + A EI L + +
Sbjct: 8 AVITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITALGGRAIALAA 61
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 35.5 bits (82), Expect = 0.009
Identities = 17/44 (38%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQK-LNDTANEIK 44
V++TG + G+G+A A+ K K +V+ R+ ++ ND A EIK
Sbjct: 10 VVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIK 53
>gnl|CDD|187591 cd05330, cyclohexanol_reductase_SDR_c, cyclohexanol reductases,
including levodione reductase, classical (c) SDRs.
Cyloclohexanol reductases,including
(6R)-2,2,6-trimethyl-1,4-cyclohexanedione (levodione)
reductase of Corynebacterium aquaticum, catalyze the
reversible oxidoreduction of hydroxycyclohexanone
derivatives. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 34.8 bits (80), Expect = 0.013
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
+V++TG G+G A A+ LAK L L+ + L + + D+ V
Sbjct: 5 VVLITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLEIAPDAEV 56
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 34.7 bits (80), Expect = 0.014
Identities = 17/44 (38%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVL-ISRTLQKLNDTANEIK 44
V+VTGS GIG+A A+ LAK +V+ + +++N+T +K
Sbjct: 9 VVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEMNETLKMVK 52
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 34.8 bits (80), Expect = 0.016
Identities = 17/46 (36%), Positives = 24/46 (52%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLT 47
V+VT S+ GIG A EL K+ +V+ SR + L E+K
Sbjct: 3 VLVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEYG 48
>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 = 34.7 bits (80), Expect = 0.016
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLV 27
+VTG++ GIGKA AI LA ++V
Sbjct: 6 ALVTGASSGIGKAIAIRLATAGANVV 31
Score = 26.6 bits (59), Expect = 8.0
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 41 NEIKG-LTNDSHVFKS---PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDT 96
++IKG + N S V + P VNY+ +K V L +E + I+ + P ++T
Sbjct: 130 SKIKGKIINMSSVHEKIPWPGHVNYAASKGGVKMMTKTLAQEYAPKGIRVNAIAPGAINT 189
>gnl|CDD|187641 cd08936, CR_SDR_c, Porcine peroxisomal carbonyl reductase like,
classical (c) SDR. This subgroup contains porcine
peroxisomal carbonyl reductase and similar proteins.
The porcine enzyme efficiently reduces retinals. This
subgroup also includes human dehydrogenase/reductase
(SDR family) member 4 (DHRS4), and human DHRS4L1. DHRS4
is a peroxisomal enzyme with 3beta-hydroxysteroid
dehydrogenase activity; it catalyzes the reduction of
3-keto-C19/C21-steroids into 3beta-hydroxysteroids more
efficiently than it does the retinal reduction. The
human DHRS4 gene cluster contains DHRS4, DHRS4L2 and
DHRS4L1. DHRS4L2 and DHRS4L1 are paralogs of DHRS4,
DHRS4L2 being the most recent member. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 34.4 bits (79), Expect = 0.017
Identities = 17/43 (39%), Positives = 25/43 (58%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VT STDGIG A A LA+ +V+ SR Q ++ ++G
Sbjct: 14 LVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQG 56
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 34.8 bits (81), Expect = 0.017
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VTG+ GIGKA A LA +VL + A E+ G
Sbjct: 425 ALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAELGG 468
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 34.5 bits (80), Expect = 0.018
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISR-TLQKLNDTANEIKGL 46
+VTG+ G+G+A A+ LA+ D+V+ R + + ++ L
Sbjct: 9 ALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEAL 54
Score = 30.6 bits (70), Expect = 0.34
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKM 108
P NY+ KA + L RE++ + I ++ P +DT+M K
Sbjct: 151 PGRSNYAAAKAGLVGLTKALARELAEYGITVNMVAPGDIDTDM-KEATIEEAR 202
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 34.6 bits (80), Expect = 0.019
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISRT-LQKLNDTANEIKGL 46
VTG GIG A LA DL + R ++L T E++ L
Sbjct: 7 VTGGRRGIGLGIARALAAAGFDLAINDRPDDEELAATQQELRAL 50
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 34.3 bits (79), Expect = 0.022
Identities = 28/134 (20%), Positives = 55/134 (41%), Gaps = 31/134 (23%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT-LQKLNDTANEIKG--------LTN---- 48
V++TG++ G+G+A A +L ++ ++ ISRT ++L A + L +
Sbjct: 4 VIITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAEQYNSNLTFHSLDLQDVHEL 63
Query: 49 -----------DSHVFKSPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTN 97
S + +N +G A + + E+ N+ +L P ++ T+
Sbjct: 64 ETNFNEILSSIQEDNVSSIHLINNAGMVAPIKPIEKAESEEL-ITNVHLNLLAP-MILTS 121
Query: 98 MSKGDHFMRKMHDW 111
FM+ DW
Sbjct: 122 T-----FMKHTKDW 130
Score = 27.7 bits (62), Expect = 2.8
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 54 KSPYF--VNYSGTKAFVGHFVNC--LTREISHHNIQTQILIPSVVDTNM 98
K+PYF Y +KA + F +E + ++ P V+DTNM
Sbjct: 145 KNPYFGWSAYCSSKAGLDMFTQTVATEQEEEEYPVKIVAFSPGVMDTNM 193
>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 = 34.2 bits (79), Expect = 0.025
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
P + Y+G+KA V F L +E+ I + P VDT+M
Sbjct: 146 PNYGAYAGSKAAVEAFTRVLAKELGGRGITVNAVAPGPVDTDM 188
Score = 30.7 bits (70), Expect = 0.30
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVL 28
VTG++ GIG+A A LA+ +V+
Sbjct: 8 VTGASRGIGRAIAKRLARDGASVVV 32
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 34.1 bits (78), Expect = 0.027
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 11/71 (15%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVN 60
++VTG+T +G A EL R ++ R + A + +
Sbjct: 2 KILVTGATGFVGGAVVRELLARGHEVRAAVRNPEAAAALAGGV-----------EVVLGD 50
Query: 61 YSGTKAFVGHF 71
K+ V
Sbjct: 51 LRDPKSLVAGA 61
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 260
Score = 33.6 bits (77), Expect = 0.033
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+ +TGS+DG+G A A L + ++VL +R+ ++ D G
Sbjct: 10 IFITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAKAACPG 53
>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 = 33.7 bits (77), Expect = 0.036
Identities = 15/66 (22%), Positives = 25/66 (37%), Gaps = 3/66 (4%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMR---KMHDWL 112
P +Y+ K + L E++ + I+ + P VDT M + K +
Sbjct: 161 PGLAHYAAAKHGLVGLTKTLANELAEYGIRVNSIHPYSVDTPMIAPEAMREAFLKYPEAA 220
Query: 113 RAFAYP 118
RAF
Sbjct: 221 RAFMPA 226
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase
(Ga5DH)-like, classical (c) SDRs. Ga5DH catalyzes the
NADP-dependent conversion of carbon source D-gluconate
and 5-keto-D-gluconate. This SDR subgroup has a
classical Gly-rich NAD(P)-binding motif and a conserved
active site tetrad pattern. However, it has been
proposed that Arg104 (Streptococcus suis Ga5DH
numbering), as well as an active site Ca2+, play a
critical role in catalysis. In addition to Ga5DHs this
subgroup contains Erwinia chrysanthemi KduD which is
involved in pectin degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 33.5 bits (77), Expect = 0.038
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK--GLTNDSHVF 53
+VTG++ GIG A LA+ ++V+ SR +K + I+ G+ +
Sbjct: 9 LVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIEKEGVEATAFTC 61
Score = 29.2 bits (66), Expect = 1.1
Identities = 12/54 (22%), Positives = 21/54 (38%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHDWLRA 114
Y+ +K V L E + H IQ + P T M++ + +D +
Sbjct: 154 YAASKGGVAGLTKALATEWARHGIQVNAIAPGYFATEMTEAVVADPEFNDDILK 207
>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 = 33.6 bits (77), Expect = 0.038
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISR 31
+VTG++ GIG+A A ELA R D+ +
Sbjct: 5 IVTGASRGIGRAIATELAARGFDIAINDL 33
>gnl|CDD|187664 cd09763, DHRS1-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) -like, classical (c) SDRs.
This subgroup includes human DHRS1 and related
proteins. These are members of the classical SDR
family, with a canonical Gly-rich NAD-binding motif
and the typical YXXXK active site motif. However, the
rest of the catalytic tetrad is not strongly conserved.
DHRS1 mRNA has been detected in many tissues, liver,
heart, skeletal muscle, kidney and pancreas; a longer
transcript is predominantly expressed in the liver , a
shorter one in the heart. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 265
Score = 33.6 bits (77), Expect = 0.040
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQ-KLNDTANEI 43
+ +VTG++ GIG+ A++L + + + RT+ +L TA EI
Sbjct: 5 IALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEI 48
>gnl|CDD|187644 cd08940, HBDH_SDR_c, d-3-hydroxybutyrate dehydrogenase (HBDH),
classical (c) SDRs. DHBDH, an NAD+ -dependent enzyme,
catalyzes the interconversion of D-3-hydroxybutyrate
and acetoacetate. It is a classical SDR, with the
canonical NAD-binding motif and active site tetrad.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 33.6 bits (77), Expect = 0.041
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVL 28
+VTGST GIG A LA ++VL
Sbjct: 6 LVTGSTSGIGLGIARALAAAGANIVL 31
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 33.0 bits (76), Expect = 0.048
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
+++TG++ G+G A E A + DL L +R +L + E+
Sbjct: 5 ILITGASSGLGAGMAREFAAKGRDLALCARRTDRLEELKAEL 46
>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 = 33.2 bits (76), Expect = 0.049
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANE 42
+VTG T GIG A ELA ++ +R ++L++ E
Sbjct: 9 ALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTE 49
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 33.1 bits (75), Expect = 0.053
Identities = 21/96 (21%), Positives = 42/96 (43%), Gaps = 4/96 (4%)
Query: 23 KMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVNYSGTKAFVGHFVNCLTREISHH 82
K +I + L +L D + I +++ + P F+ YS TK + L +++
Sbjct: 121 KAPFFIIQQALSRLRDNS-RIINISSAATRISLPDFIAYSMTKGAINTMTFTLAKQLGAR 179
Query: 83 NIQTQILIPSVVDTNMSK---GDHFMRKMHDWLRAF 115
I ++P + T+M+ D M++ + AF
Sbjct: 180 GITVNAILPGFIKTDMNAELLSDPMMKQYATTISAF 215
>gnl|CDD|212497 cd11731, Lin1944_like_SDR_c, Lin1944 and related proteins,
classical (c) SDRs. Lin1944 protein from Listeria
Innocua is a classical SDR, it contains a glycine-rich
motif similar to the canonical motif of the SDR
NAD(P)-binding site. However, the typical SDR active
site residues are absent in this subgroup of proteins
of undetermined function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed
within the SDR family include isomerization,
decarboxylation, epimerization, C=N bond reduction,
dehydratase activity, dehalogenation, Enoyl-CoA
reduction, and carbonyl-alcohol oxidoreduction.
Length = 198
Score = 32.9 bits (76), Expect = 0.055
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT 32
++V G+T IG A A L+ +++ R+
Sbjct: 1 IIVIGATGTIGLAVAQLLSAHGHEVITAGRS 31
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 33.0 bits (76), Expect = 0.056
Identities = 14/52 (26%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
V+VTG+ GIG+ A+ A +VL+ R+ + +++ A E++ ++
Sbjct: 11 VVVTGAAQGIGRGVALRAAAEGARVVLVDRS-ELVHEVAAELRAAGGEALAL 61
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 33.2 bits (76), Expect = 0.056
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
++TG++ GIG+A AI LA+ VL + +++T ++IK + +
Sbjct: 10 VITGASTGIGQASAIALAQEGA-YVLAVDIAEAVSETVDKIKSNGGKAKAYH 60
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 33.1 bits (76), Expect = 0.059
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLT 47
V++TG++ GIG A A A L L++R L A +++
Sbjct: 10 VLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAH 55
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 32.8 bits (75), Expect = 0.060
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+VTG GIG+A A+ A+ +V+ R +T I+
Sbjct: 11 LVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIR 52
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 33.0 bits (76), Expect = 0.063
Identities = 11/43 (25%), Positives = 23/43 (53%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
V+V G T GI A A+ ++ + SR+ +K++ +++
Sbjct: 12 VVVVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVAQLQ 54
>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 = 32.7 bits (75), Expect = 0.068
Identities = 12/45 (26%), Positives = 24/45 (53%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
V++TG T GIG A A + + +++ R ++L + E+ +
Sbjct: 8 VLITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKELPNI 52
Score = 30.0 bits (68), Expect = 0.60
Identities = 9/44 (20%), Positives = 19/44 (43%)
Query: 60 NYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDH 103
Y TKA + + L ++ ++ ++P VDT + +
Sbjct: 151 VYCATKAALHSYTLALRHQLKDTGVEVVEIVPPAVDTELHEERR 194
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 32.9 bits (76), Expect = 0.070
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDT-ANEIKGL 46
+VTG++ GIG+A A LA + ++V+ + + + EI L
Sbjct: 8 ALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGAL 53
>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 = 32.6 bits (74), Expect = 0.076
Identities = 12/54 (22%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLND-TANEIKGLTNDSHVFK 54
V+VTG++ GIG+A A LA ++ + + + + + I+ ++ + +
Sbjct: 1 VLVTGASRGIGRAIANRLAADGFEICVHYHSGRSDAESVVSAIQAQGGNARLLQ 54
Score = 27.6 bits (61), Expect = 3.7
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 59 VNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
VNYS KA + L E++ I + P ++DT M
Sbjct: 147 VNYSAAKAGLIGATKALAVELAKRKITVNCIAPGLIDTEM 186
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 32.7 bits (75), Expect = 0.077
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
VTG++DG+G A LA +++L R K I+ D+ +
Sbjct: 19 VTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAKL 67
>gnl|CDD|187623 cd05365, 7_alpha_HSDH_SDR_c, 7 alpha-hydroxysteroid dehydrogenase
(7 alpha-HSDH), classical (c) SDRs. This bacterial
subgroup contains 7 alpha-HSDHs, including Escherichia
coli 7 alpha-HSDH. 7 alpha-HSDH, a member of the SDR
family, catalyzes the NAD+ -dependent dehydrogenation
of a hydroxyl group at position 7 of the steroid
skeleton of bile acids. In humans the two primary bile
acids are cholic and chenodeoxycholic acids, these are
formed from cholesterol in the liver. Escherichia coli
7 alpha-HSDH dehydroxylates these bile acids in the
human intestine. Mammalian 7 alpha-HSDH activity has
been found in livers. SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 242
Score = 32.5 bits (74), Expect = 0.084
Identities = 15/53 (28%), Positives = 22/53 (41%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
+VTG GIGKA A LAK +V+ + A I+ + +
Sbjct: 2 AIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAGGQAIGLE 54
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 32.5 bits (74), Expect = 0.087
Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 11/68 (16%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT---LQKLNDTANEIKGLTNDSHVFKSPYF 58
V++TG+T GIGK A++ AK+ ++ R L +L+ + I L D
Sbjct: 4 VLITGATSGIGKQLALDYAKQGWQVIACGRNQSVLDELHTQSANIFTLAFD--------V 55
Query: 59 VNYSGTKA 66
++ GTKA
Sbjct: 56 TDHPGTKA 63
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 32.3 bits (74), Expect = 0.091
Identities = 17/51 (33%), Positives = 23/51 (45%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
+VTG+ G+G A LA + +VL R L K A I T + V
Sbjct: 19 AVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADV 69
>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 = 32.4 bits (74), Expect = 0.094
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
+VTG+ GIG+A LAK +V +SRT L+ E G+
Sbjct: 10 ALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVRECPGI 54
Score = 30.5 bits (69), Expect = 0.38
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 6/62 (9%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGD----HFMRKM--HDWLRA 114
Y TKA + + E+ H I+ + P+VV T+M + + +KM L
Sbjct: 149 YCSTKAALDMLTKVMALELGPHKIRVNSVNPTVVMTDMGRDNWSDPEKAKKMLNRIPLGK 208
Query: 115 FA 116
FA
Sbjct: 209 FA 210
>gnl|CDD|187624 cd05366, meso-BDH-like_SDR_c, meso-2,3-butanediol
dehydrogenase-like, classical (c) SDRs. 2,3-butanediol
dehydrogenases (BDHs) catalyze the NAD+ dependent
conversion of 2,3-butanediol to acetonin; BDHs are
classified into types according to their
stereospecificity as to substrates and products.
Included in this subgroup are Klebsiella pneumonia
meso-BDH which catalyzes meso-2,3-butanediol to
D(-)-acetonin, and Corynebacterium glutamicum L-BDH
which catalyzes lX+)-2,3-butanediol to L(+)-acetonin.
This subgroup is comprised of classical SDRs with the
characteristic catalytic triad and NAD-binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 32.0 bits (73), Expect = 0.11
Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQK-LNDTANEIKGLTNDSHVFKS 55
++TG+ GIG+A A LA ++VL L++ T EI ++ +
Sbjct: 5 AIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEISEAGYNAVAVGA 59
Score = 28.1 bits (63), Expect = 2.5
Identities = 11/43 (25%), Positives = 16/43 (37%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
P YS +K V +E++ I P +V T M
Sbjct: 148 PNLGAYSASKFAVRGLTQTAAQELAPKGITVNAYAPGIVKTEM 190
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 32.2 bits (74), Expect = 0.11
Identities = 13/41 (31%), Positives = 24/41 (58%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+TG++ GIG+A A A+ +V+ +R +L+ EI+
Sbjct: 11 ITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIR 51
>gnl|CDD|133446 cd01078, NAD_bind_H4MPT_DH, NADP binding domain of methylene
tetrahydromethanopterin dehydrogenase. Methylene
Tetrahydromethanopterin Dehydrogenase (H4MPT DH) NADP
binding domain. NADP-dependent H4MPT DH catalyzes the
dehydrogenation of methylene- H4MPT and
methylene-tetrahydrofolate (H4F) with NADP+ as
cofactor. H4F and H4MPT are both cofactors that carry
the one-carbon units between the formyl and methyl
oxidation level. H4F and H4MPT are structurally
analogous to each other with respect to the pterin
moiety, but each has distinct side chain. H4MPT is
present only in anaerobic methanogenic archaea and
aerobic methylotrophic proteobacteria. H4MPT seems to
have evolved independently from H4F and functions as a
distinct carrier in C1 metabolism. Amino acid DH-like
NAD(P)-binding domains are members of the Rossmann fold
superfamily and include glutamate, leucine, and
phenylalanine DHs, methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+
as a cofactor. The NAD(P)-binding Rossmann fold
superfamily includes a wide variety of protein families
including NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 194
Score = 32.0 bits (73), Expect = 0.12
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
+V G T +G+ A+ LA+ +VL+ R L++ A+ ++ F
Sbjct: 31 AVVLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLR------ARFG 77
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 32.2 bits (73), Expect = 0.12
Identities = 15/49 (30%), Positives = 21/49 (42%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSH 51
++TG GIG A E A+R +VL L N ++ D H
Sbjct: 10 VITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGFDVH 58
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 32.1 bits (73), Expect = 0.12
Identities = 14/46 (30%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVL--ISRTLQKLNDTANEIKGL 46
+VTG+ G+G+A A+ LA+ +V+ ++ L +D +EI+
Sbjct: 16 VVTGAAAGLGRAEALGLARLGATVVVNDVASALDA-SDVLDEIRAA 60
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 32.1 bits (73), Expect = 0.13
Identities = 13/54 (24%), Positives = 22/54 (40%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHDWLRA 114
Y+ KA V L E+ I ++PS++DT ++ D W+
Sbjct: 154 YAAAKAGVARLTEALAAELLDRGITVNAVLPSIIDTPPNRADMPDADFSRWVTP 207
Score = 29.8 bits (67), Expect = 0.58
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDT 39
V +TG G+G+A A LA R + LI R L+ T
Sbjct: 10 VAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQT 47
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 32.0 bits (73), Expect = 0.13
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSH 51
+VTG+ GIG A A EL ++ + ND A + +
Sbjct: 6 LVTGAKRGIGSAIARELLNDGYRVIATYFS---GNDCAKDWFEEYGFTE 51
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 31.5 bits (72), Expect = 0.15
Identities = 10/38 (26%), Positives = 15/38 (39%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDT 39
+ V G+T G+ EL R + +SR K
Sbjct: 1 IAVIGATGKTGRRLVKELLARGHQVTALSRNPSKAPAP 38
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 31.7 bits (72), Expect = 0.15
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTN 48
+ T S+ GIG A LA+ D++L+SR + L +IK +N
Sbjct: 10 LAFTTASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIKSESN 57
>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 = 32.0 bits (73), Expect = 0.15
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 4 VTGSTDGIGKAYAIELAKR-KMDLVLISRT 32
VTG GIG+A A LA+R LVL+ R+
Sbjct: 210 VTGGAGGIGRALARALARRYGARLVLLGRS 239
>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 = 31.7 bits (72), Expect = 0.16
Identities = 15/52 (28%), Positives = 21/52 (40%)
Query: 50 SHVFKSPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
S ++ P YS TK V L E + H I+ + P VDT +
Sbjct: 137 SAIYGQPDLAVYSATKFAVRGLTEALDVEWARHGIRVADVWPWFVDTPILTK 188
>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 = 31.7 bits (72), Expect = 0.16
Identities = 15/42 (35%), Positives = 20/42 (47%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+VTG GIGK A LAK + + + +TA EI
Sbjct: 4 LVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEIN 45
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 31.7 bits (72), Expect = 0.16
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLIS-RTLQKLNDTANEIKGL 46
VTG+ GIG+ AI LA+ D+ L RT L +TA I+
Sbjct: 12 FVTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAEHIEAA 56
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 31.7 bits (72), Expect = 0.17
Identities = 13/44 (29%), Positives = 20/44 (45%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VTG+ GIG+A A A+ +V+ R + A I
Sbjct: 8 AIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAA 51
>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 = 30.9 bits (71), Expect = 0.21
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKM-DLVLISRT 32
++TG G+G+A A LA+R LVL+SR+
Sbjct: 3 YLITGGLGGLGRALARWLAERGARRLVLLSRS 34
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 31.2 bits (71), Expect = 0.21
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLT 47
V+VTG GIG+A A A+ + + + L TA + G
Sbjct: 14 VLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAARLPGAK 59
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 31.3 bits (71), Expect = 0.21
Identities = 13/44 (29%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDL-VLISRTLQKLNDTANEIK 44
V++TG++ GIG+A A+ A R + + +R +TA+ ++
Sbjct: 5 VLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVR 48
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 31.3 bits (71), Expect = 0.22
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VTG+ GIG+AYA LA+ +V+ + A +I
Sbjct: 10 IVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQIVA 52
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 31.0 bits (71), Expect = 0.22
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
+VTG+ GIG+A A+ LA +++++ TA +
Sbjct: 9 ALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELV 50
Score = 26.8 bits (60), Expect = 5.9
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
P +Y+ +KA + F L E++ NI + P VDT M
Sbjct: 151 PGLAHYAASKAGLVGFTRALALELAARNITVNSVHPGGVDTPM 193
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 305
Score = 31.2 bits (71), Expect = 0.24
Identities = 9/21 (42%), Positives = 17/21 (80%), Gaps = 1/21 (4%)
Query: 2 VMVTGSTDGIGKAYAIELAKR 22
V+VTG++ G+G+ +A++LA
Sbjct: 136 VLVTGASGGVGR-FAVQLAAL 155
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 31.2 bits (70), Expect = 0.24
Identities = 13/43 (30%), Positives = 23/43 (53%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
++TG++ GIGK A+ + + + +R L L A+EI
Sbjct: 13 LITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGT 55
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 30.6 bits (70), Expect = 0.33
Identities = 10/31 (32%), Positives = 21/31 (67%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT 32
+ +TG++ GIG A A+ A+ ++V+ ++T
Sbjct: 9 LFITGASRGIGLAIALRAARDGANIVIAAKT 39
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 30.7 bits (70), Expect = 0.33
Identities = 11/43 (25%), Positives = 24/43 (55%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+++ G+T I +A A A L L +R +++L A++++
Sbjct: 4 ILIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLR 46
>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 = 30.8 bits (70), Expect = 0.34
Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHD 110
Y+ +KA V H L E + + I+ + P +DT+++ D +++
Sbjct: 160 YNASKAAVIHLAKSLAVEWAKYFIRVNSISPGYIDTDLT--DFVDKELRK 207
Score = 27.7 bits (62), Expect = 3.2
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VTG + GIG A A LA+ D+ +I + + + A E+
Sbjct: 11 AIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAK 54
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 30.5 bits (69), Expect = 0.35
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLIS 30
+VTG G+G+ YA+ LAK D+++ +
Sbjct: 19 IVTGGNTGLGQGYAVALAKAGADIIITT 46
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 30.8 bits (70), Expect = 0.35
Identities = 13/51 (25%), Positives = 18/51 (35%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
+VTG+ GIG A A A+ + L A I + V
Sbjct: 10 ALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGARV 60
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 30.6 bits (69), Expect = 0.37
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVL 28
++TG+ GIG+A AI A+ D+ L
Sbjct: 59 LITGADSGIGRATAIAFAREGADIAL 84
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 30.5 bits (69), Expect = 0.39
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQ 34
V+VTG+T GIG A ++ LA ++ I+R+
Sbjct: 6 VLVTGATKGIGLALSLRLANLGHQVIGIARSAI 38
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 30.5 bits (69), Expect = 0.39
Identities = 11/41 (26%), Positives = 18/41 (43%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
Y+ TKA + L E + I+ + P V T M++
Sbjct: 155 YALTKAAIVGLTKSLAVEYAQSGIRVNAICPGYVRTPMAES 195
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 30.4 bits (69), Expect = 0.40
Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 5/40 (12%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQI--LIPSVVDTNM 98
Y TKA + H + + N +I L P VVDT M
Sbjct: 150 YCATKAALDHHARAVALD---ANRALRIVSLAPGVVDTGM 186
Score = 28.8 bits (65), Expect = 1.5
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISR 31
VTG + G+G A A +L + + ++ ++R
Sbjct: 6 VTGHSRGLGAALAEQLLQPGIAVLGVAR 33
>gnl|CDD|187647 cd08943, R1PA_ADH_SDR_c, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase, classical (c) SDRs. This family has
bifunctional proteins with an N-terminal aldolase and a
C-terminal classical SDR domain. One member is
identified as a rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase. The SDR domain has a canonical SDR
glycine-rich NAD(P) binding motif and a match to the
characteristic active site triad. However, it lacks an
upstream active site Asn typical of SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 30.4 bits (69), Expect = 0.40
Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 1/46 (2%)
Query: 52 VFKSPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIP-SVVDT 96
V P YS KA H CL E I+ + P +V
Sbjct: 141 VAPGPNAAAYSAAKAAEAHLARCLALEGGEDGIRVNTVNPDAVFRG 186
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like
proteins, NMRa-like, atypical (a) SDRs. TMR is an
atypical NADP-binding protein of the SDR family. It
lacks the active site residues of the SDRs but has a
glycine rich NAD(P)-binding motif that matches the
extended SDRs. Proteins in this subgroup however, are
more similar in length to the classical SDRs. TMR was
identified as a reducer of triphenylmethane dyes,
important environmental pollutants. This subgroup also
includes Escherichia coli NADPH-dependent quinine
oxidoreductase (QOR2), which catalyzes two-electron
reduction of quinone; but is unlikely to play a major
role in protecting against quinone cytotoxicity.
Atypical SDRs are distinct from classical SDRs.
Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 30.3 bits (69), Expect = 0.42
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQK 35
+VTG+T +G A L + +V + R +K
Sbjct: 2 LVTGATGKLGTAVVELLLAKVASVVALVRNPEK 34
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 30.2 bits (69), Expect = 0.43
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
VTG++ GIG+ A A +V+ R + A EI
Sbjct: 10 VTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEILA 51
Score = 30.2 bits (69), Expect = 0.51
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFM 105
P Y+ +K V L E+ I+ + P VV+T + + FM
Sbjct: 148 RPGLGWYNASKGAVITLTKALAAELGPDKIRVNAVAPVVVETGLLE--AFM 196
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 30.2 bits (68), Expect = 0.44
Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
+VTG+ GIGK A+ELA+ + + N A+EI
Sbjct: 11 VVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEI 51
>gnl|CDD|220934 pfam11004, Kdo_hydroxy, 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo)
hydroxylase. This is a family of
3-deoxy-D-manno-oct-2-ulosonic acid 3-hydroxylases,
which catalyze the conversion of
3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) to
D-glycero-D-talo-oct-2-ulosonic acid (Ko). It contains a
potential iron-binding motif, HXDX(n)H (n>40).
Hydroxylation activity is iron-dependent.
Length = 281
Score = 30.4 bits (69), Expect = 0.49
Identities = 6/13 (46%), Positives = 10/13 (76%)
Query: 102 DHFMRKMHDWLRA 114
DH M ++HD ++A
Sbjct: 200 DHLMLQLHDLMKA 212
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 30.3 bits (69), Expect = 0.49
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 2 VMVTGSTDGIGKAYAIELAKR 22
+VTG++ GIG+A A +LA+
Sbjct: 7 ALVTGASSGIGRATAEKLARA 27
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 30.6 bits (69), Expect = 0.51
Identities = 16/45 (35%), Positives = 20/45 (44%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+ VTG GIG+ A LA +VL L+ A EI G
Sbjct: 416 VAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEING 460
Score = 30.2 bits (68), Expect = 0.55
Identities = 12/43 (27%), Positives = 16/43 (37%)
Query: 52 VFKSPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVV 94
V+ YS KA H CL E + I+ + P V
Sbjct: 557 VYAGKNASAYSAAKAAEAHLARCLAAEGGTYGIRVNTVNPDAV 599
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 30.0 bits (68), Expect = 0.52
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+VTG++ GIG+A A LA++ +++ SR L A+ I
Sbjct: 12 LVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIV 53
>gnl|CDD|187535 cd02266, SDR, Short-chain dehydrogenases/reductases (SDR). SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase (KR) domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 186
Score = 29.8 bits (67), Expect = 0.54
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLI 29
V+VTG + GIG A A LA R VL+
Sbjct: 1 VLVTGGSGGIGGAIARWLASRGSPKVLV 28
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 30.0 bits (68), Expect = 0.58
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVL 28
+TG+ G G A+A A M LVL
Sbjct: 11 ITGAASGFGLAFARIGAALGMKLVL 35
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 29.9 bits (68), Expect = 0.66
Identities = 10/43 (23%), Positives = 20/43 (46%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+VTG+ G+G A+A LA+ + + + A ++
Sbjct: 10 ALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALE 52
Score = 27.2 bits (61), Expect = 4.3
Identities = 10/53 (18%), Positives = 15/53 (28%), Gaps = 3/53 (5%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMS---KGDHFMRKMHD 110
Y +K V L RE+ I + P + T + D
Sbjct: 156 YVASKGAVIGMTRSLARELGGRGITVNAIAPGLTATEATAYVPADERHAYYLK 208
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 30.0 bits (67), Expect = 0.68
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
+VTG GIG+A AI A+ D+ + L + A ++K +
Sbjct: 53 LVTGGDSGIGRAAAIAYAREGADVAI--SYLPVEEEDAQDVKKI 94
Score = 28.8 bits (64), Expect = 1.4
Identities = 11/42 (26%), Positives = 25/42 (59%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDT 96
SP+ ++Y+ TKA + ++ L ++++ I+ I+ P + T
Sbjct: 193 SPHLLDYAATKAAILNYSRGLAKQVAEKGIRVNIVAPGPIWT 234
>gnl|CDD|133430 cd05294, LDH-like_MDH_nadp, A lactate dehydrogenases-like
structure with malate dehydrogenase enzymatic activity.
The LDH-like MDH proteins have a lactate
dehyhydrogenase-like (LDH-like) structure and malate
dehydrogenase (MDH) enzymatic activity. This subgroup
is composed of some archaeal LDH-like MDHs that prefer
NADP(H) rather than NAD(H) as a cofactor. One member,
MJ0490 from Methanococcus jannaschii, has been observed
to form dimers and tetramers during crystalization,
although it is believed to exist primarilly as a
tetramer in solution. In addition to its MDH activity,
MJ0490 also possesses
fructose-1,6-bisphosphate-activated LDH activity.
Members of this subgroup have a higher sequence
similarity to LDHs than to other MDHs. LDH catalyzes
the last step of glycolysis in which pyruvate is
converted to L-lactate. MDH is one of the key enzymes
in the citric acid cycle, facilitating both the
conversion of malate to oxaloacetate and replenishing
levels of oxalacetate by reductive carboxylation of
pyruvate. The LDH-like MDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which
includes a wide variety of protein families including
the NAD(P)- binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenase, aminoacid
dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 309
Score = 29.7 bits (67), Expect = 0.70
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKM--DLVLISRTLQKLNDTANEIKGLTND 49
V + G++ +G A A+ LAK + ++ LISR + ++KGL D
Sbjct: 3 VSIIGASGRVGSATALLLAKEDVVKEINLISRP-----KSLEKLKGLRLD 47
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 29.6 bits (67), Expect = 0.71
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKR-KMDLVLISRTLQKLNDTANEIKGLTNDSHVFKS 55
+VTG T G+G A A A+R LV+ R +K A E++ L + ++
Sbjct: 9 ALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEALGAKAVFVQA 63
>gnl|CDD|187645 cd08941, 3KS_SDR_c, 3-keto steroid reductase, classical (c) SDRs.
3-keto steroid reductase (in concert with other
enzymes) catalyzes NADP-dependent sterol C-4
demethylation, as part of steroid biosynthesis. 3-keto
reductase is a classical SDR, with a well conserved
canonical active site tetrad and fairly well conserved
characteristic NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 290
Score = 29.7 bits (67), Expect = 0.74
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 2 VMVTGSTDGIGKAYAIEL-----AKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSP 56
V+VTG+ G+G A L ++ L+L R LQ+ + D+ V
Sbjct: 4 VLVTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAACRALLASHPDARVVFDY 63
Query: 57 YFVNYS 62
V+ S
Sbjct: 64 VLVDLS 69
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 29.5 bits (67), Expect = 0.74
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 2 VMVTGSTDGIGKAYAIELAKR 22
V+VTG+ GIG+A+ +L R
Sbjct: 9 VLVTGANRGIGRAFVEQLLAR 29
Score = 26.4 bits (59), Expect = 7.9
Identities = 11/41 (26%), Positives = 19/41 (46%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
YS +KA L E++ + + P +DT+M+ G
Sbjct: 146 YSASKAAAWSLTQALRAELAPQGTRVLGVHPGPIDTDMAAG 186
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 29.6 bits (67), Expect = 0.79
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+V G + GIG A A A + + SR+ +L A + G
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARALGG 43
>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 = 29.6 bits (67), Expect = 0.84
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 1/48 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTA-NEIKGLTN 48
++TG GIG A A L K+ + ++ R I
Sbjct: 3 AIITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAAELQAINPKVK 50
>gnl|CDD|187663 cd09762, HSDL2_SDR_c, human hydroxysteroid dehydrogenase-like
protein 2 (HSDL2), classical (c) SDRs. This subgroup
includes human HSDL2 and related protens. These are
members of the classical SDR family, with a canonical
Gly-rich NAD-binding motif and the typical YXXXK active
site motif. However, the rest of the catalytic tetrad
is not strongly conserved. HSDL2 may play a part in
fatty acid metabolism, as it is found in peroxisomes.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 243
Score = 29.3 bits (66), Expect = 0.88
Identities = 11/31 (35%), Positives = 23/31 (74%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRT 32
+ +TG++ GIGKA A++ A+ ++V+ ++T
Sbjct: 6 LFITGASRGIGKAIALKAARDGANVVIAAKT 36
>gnl|CDD|233635 TIGR01915, npdG, NADPH-dependent F420 reductase. This model
represents a subset of a parent family described by
pfam03807. Unlike the parent family, members of this
family are found only in species with evidence of
coenzyme F420. All members of this family are believed
to act as NADPH-dependent F420 reductase [Energy
metabolism, Electron transport].
Length = 219
Score = 29.4 bits (66), Expect = 0.89
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTA 40
+ V G T GK A+ LAK +++ SR L+K + A
Sbjct: 3 IAVLGGTGDQGKGLALRLAKAGNKIIIGSRDLEKAEEAA 41
>gnl|CDD|178263 PLN02657, PLN02657, 3,8-divinyl protochlorophyllide a 8-vinyl
reductase.
Length = 390
Score = 29.7 bits (67), Expect = 0.92
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKL--NDTANEIKGLTNDSHV 52
V+V G+T IGK EL +R ++V ++R + + + K + V
Sbjct: 63 VLVVGATGYIGKFVVRELVRRGYNVVAVAREKSGIRGKNGKEDTKKELPGAEV 115
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 29.2 bits (66), Expect = 0.94
Identities = 26/108 (24%), Positives = 38/108 (35%), Gaps = 27/108 (25%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK------GLTNDSHVFKS 55
++TG + GIG A A L + + +R ++L + A E+ GL D
Sbjct: 9 ALITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAAELNNKGNVLGLAADVRDEAD 68
Query: 56 ---------------PYFVNYSGTKAFVGHF--VNCLTREISHHNIQT 86
+ +G VGHF V LT E I T
Sbjct: 69 VQRAVDAIVAAFGGLDVLIANAG----VGHFAPVEELTPEEWRLVIDT 112
>gnl|CDD|187634 cd08929, SDR_c4, classical (c) SDR, subgroup 4. This subgroup
has a canonical active site tetrad and a typical
Gly-rich NAD-binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 226
Score = 29.4 bits (66), Expect = 0.97
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKG 45
+VTG++ GIG+A A L + + +R +L A +
Sbjct: 3 ALVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQELE 46
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 29.3 bits (66), Expect = 0.99
Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRK-MH 109
Y+ +K+ + L R+ I ++ P +DT+ + + M+ MH
Sbjct: 146 YAASKSALQGMARGLARDFGPRGITINVVQPGPIDTDANPANGPMKDMMH 195
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 29.3 bits (66), Expect = 1.00
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 2 VMVTGSTDGIGKAYAIELAK 21
V+VTG+ GIG+A+A+ A
Sbjct: 9 VIVTGAGGGIGRAHALAFAA 28
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 29.1 bits (66), Expect = 1.0
Identities = 10/43 (23%), Positives = 19/43 (44%)
Query: 59 VNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
Y +K V F + E+ + +++PS V+T + G
Sbjct: 148 ATYCASKHAVVGFTDAARLELRGTGVHVSVVLPSFVNTELIAG 190
>gnl|CDD|187540 cd05229, SDR_a3, atypical (a) SDRs, subgroup 3. These atypical
SDR family members of unknown function have a
glycine-rich NAD(P)-binding motif consensus that is
very similar to the extended SDRs, GXXGXXG. Generally,
this group has poor conservation of the active site
tetrad, However, individual sequences do contain
matches to the YXXXK active site motif, and generally
Tyr or Asn in place of the upstream Ser found in most
SDRs. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 302
Score = 29.2 bits (66), Expect = 1.0
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKL 36
V G++ IG+ A EL +R D+ L+SR+ KL
Sbjct: 1 TAHVLGASGPIGREVARELRRRGWDVRLVSRSGSKL 36
>gnl|CDD|187642 cd08937, DHB_DH-like_SDR_c,
1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase (DHB DH)-like, classical (c) SDR. DHB DH
(aka 1,2-dihydroxycyclohexa-3,5-diene-1-carboxylate
dehydrogenase) catalyzes the NAD-dependent conversion
of 1,2-dihydroxycyclohexa-3,4-diene carboxylate to a
catechol. This subgroup also contains Pseudomonas
putida F1 CmtB, 2,3-dihydroxy-2,3-dihydro-p-cumate
dehydrogenase, the second enzyme in the pathway for
catabolism of p-cumate catabolism. This subgroup shares
the glycine-rich NAD-binding motif of the classical
SDRs and shares the same catalytic triad; however, the
upstream Asn implicated in cofactor binding or
catalysis in other SDRs is generally substituted by a
Ser. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 29.0 bits (65), Expect = 1.1
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
V+VTG+ GIG+ A LA ++L+ R+ + +++ EI + +HV
Sbjct: 7 VVVTGAAQGIGRGVAERLAGEGARVLLVDRS-ELVHEVLAEILAAGDAAHV 56
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR
family domains have the characteristic active site
tetrad and a well-conserved NAD(P)-binding motif. This
subgroup is not well characterized, its members are
annotated as having a variety of putative functions.
One characterized member is Pseudomonas fluorescens
MupV a protein involved in the biosynthesis of
Mupirocin, a polyketide-derived antibiotic. Extended
SDRs are distinct from classical SDRs. In addition to
the Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 293
Score = 29.3 bits (66), Expect = 1.1
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISR 31
V VTG T +G+ L + ++++ R
Sbjct: 1 VFVTGGTGFLGRHLVKRLLENGFKVLVLVR 30
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 29.1 bits (66), Expect = 1.1
Identities = 17/53 (32%), Positives = 22/53 (41%)
Query: 50 SHVFKSPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGD 102
S ++ P YS TK V L E H I+ ++P VDT M G
Sbjct: 138 SAIYGQPGLAVYSATKFAVRGLTEALDLEWRRHGIRVADVMPLFVDTAMLDGT 190
>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 = 28.9 bits (65), Expect = 1.2
Identities = 13/42 (30%), Positives = 18/42 (42%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
V G+ DG+G A A A + L +R KL +I
Sbjct: 2 AAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDI 43
>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 29.2 bits (66), Expect = 1.2
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 6 GSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
G T G+GK +A L ++ ++++ R +K + A E+
Sbjct: 7 GGTGGLGKWFARFLKEKGFEVIVTGRDPKKGKEVAKEL 44
>gnl|CDD|197821 smart00658, RPOL8c, RNA polymerase subunit 8. subunit of RNA
polymerase I, II and III.
Length = 143
Score = 28.5 bits (64), Expect = 1.2
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 11 IGKAYAIELAKRKMDLVLISRT----LQKLNDTANEIKGLTNDSHVF 53
GK Y IE K + + + L +L AN +KG DS+++
Sbjct: 92 YGKVYRIEEDKTETSKLSAYVSFGGLLMRLKGDANNLKGFELDSNLY 138
>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 = 28.6 bits (65), Expect = 1.3
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 4 VTGSTDGIGKAYAIELAKR-KMDLVLISRTLQKLNDTANEIKGLT 47
VTG G+G A LA+R LVL+SR+ + + L
Sbjct: 5 VTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELE 49
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 28.8 bits (64), Expect = 1.3
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLI--SRTLQKLNDTANEIKGLTNDSHVF 53
+ +VTG++ GIG+A A+ LA LV I R Q ++T EI+ +N F
Sbjct: 8 VALVTGASRGIGRAIAMRLANDGA-LVAIHYGRNKQAADETIREIE--SNGGKAF 59
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 28.9 bits (65), Expect = 1.4
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDT 96
+P++ Y+G+KA V HF ++E I + P +DT
Sbjct: 153 TPFYSAYAGSKAPVEHFTRAASKEFGARGISVTAVGPGPMDT 194
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 28.8 bits (64), Expect = 1.5
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 60 NYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
NYS KA + F L E++ N+ + P +DT M
Sbjct: 155 NYSAAKAGMLGFTKSLALELAKTNVTVNAICPGFIDTEM 193
Score = 27.7 bits (61), Expect = 3.2
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVL 28
+ +VTG GIGKA + LA+ +V+
Sbjct: 8 VAIVTGGAKGIGKAITVALAQEGAKVVI 35
>gnl|CDD|132063 TIGR03018, pepcterm_TyrKin, exopolysaccharide/PEP-CTERM locus
tyrosine autokinase. Members of this protein family
are related to a known protein-tyrosine autokinase and
to numerous homologs from exopolysaccharide
biosynthesis region proteins, many of which are
designated as chain length determinants. Most members
of this family contain a short region, immediately
C-terminal to the region modeled here, with an
abundance of Tyr residues. These C-terminal tyrosine
residues are likely to be autophosphorylation sites.
Some members of this family are fusion proteins.
Length = 207
Score = 28.4 bits (64), Expect = 1.6
Identities = 11/21 (52%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 1 MVMVTGSTDGIGKAY-AIELA 20
++MVT S G GK++ AI LA
Sbjct: 37 LIMVTSSLPGEGKSFTAINLA 57
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 28.8 bits (65), Expect = 1.6
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQK 35
+VTG++ G G +ELAK+ ++ R +K
Sbjct: 7 IVTGASSGFGLLTTLELAKKGYLVIATMRNPEK 39
>gnl|CDD|236738 PRK10701, PRK10701, DNA-binding transcriptional regulator RstA;
Provisional.
Length = 240
Score = 28.4 bits (64), Expect = 1.6
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 22 RKMDLVLISRTLQKLNDTANE---IKGLTNDSHVF 53
R +D V ISR +KL D A E IK + N ++F
Sbjct: 200 RSVD-VAISRLRKKLLDNAAEPYRIKTVRNKGYLF 233
>gnl|CDD|187613 cd05355, SDR_c1, classical (c) SDR, subgroup 1. These proteins
are members of the classical SDR family, with a
canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain
with a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 270
Score = 28.8 bits (65), Expect = 1.6
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGL 46
++TG GIG+A AI A+ D+ + L + D A E K L
Sbjct: 30 LITGGDSGIGRAVAIAFAREGADVAIN--YLPEEEDDAEETKKL 71
>gnl|CDD|216480 pfam01403, Sema, Sema domain. The Sema domain occurs in
semaphorins, which are a large family of secreted and
transmembrane proteins, some of which function as
repellent signals during axon guidance. Sema domains
also occur in the hepatocyte growth factor receptor and
human plexin A-3.
Length = 435
Score = 28.9 bits (65), Expect = 1.7
Identities = 15/94 (15%), Positives = 36/94 (38%), Gaps = 8/94 (8%)
Query: 24 MDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVN---YSGTKAFVGHFVNCLTREIS 80
+D ++++L + + ++ +DS + P FV+ +F V RE +
Sbjct: 135 IDFSGRDPSIRRLLGSYDGLRTEFHDSKLLNLPNFVDSYPIHYVHSFSDDKVYFFFRETA 194
Query: 81 HHNIQTQILIPSVVDTNMSKGD---HFMRKMHDW 111
+ + + V + K D +++ W
Sbjct: 195 VEDSNCKAIHSRVA--RVCKNDPGGRSYLELNKW 226
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase,
extended (e) SDRs. UDP-Glcnac inverting
4,6-dehydratase was identified in Helicobacter pylori
as the hexameric flaA1 gene product (FlaA1). FlaA1 is
hexameric, possesses UDP-GlcNAc-inverting
4,6-dehydratase activity, and catalyzes the first step
in the creation of a pseudaminic acid derivative in
protein glycosylation. Although this subgroup has the
NADP-binding motif characteristic of extended SDRs, its
members tend to have a Met substituted for the active
site Tyr found in most SDR families. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 287
Score = 28.4 bits (64), Expect = 1.9
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKR-KMDLVLISRTLQKLNDTANEIKGL 46
++VTG IG ++ K L++ R KL++ E++
Sbjct: 5 ILVTGGAGSIGSELVRQILKFGPKKLIVFDRDENKLHELVRELRSR 50
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 28.4 bits (64), Expect = 1.9
Identities = 14/52 (26%), Positives = 26/52 (50%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
+VTG + G+G A L + +VL +R ++L + A ++ L D+
Sbjct: 16 LVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEALGIDALWIA 67
>gnl|CDD|226396 COG3879, COG3879, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 247
Score = 28.5 bits (64), Expect = 2.0
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 22 RKMDLVLISRTLQ-KLNDTANEIKGLTN 48
R +DLV R+LQ K+N A E++ L N
Sbjct: 51 RDLDLVKELRSLQKKVNTLAAEVEDLEN 78
>gnl|CDD|187649 cd08945, PKR_SDR_c, Polyketide ketoreductase, classical (c) SDR.
Polyketide ketoreductase (KR) is a classical SDR with a
characteristic NAD-binding pattern and active site
tetrad. Aromatic polyketides include various aromatic
compounds of pharmaceutical interest. Polyketide KR,
part of the type II polyketide synthase (PKS) complex,
is comprised of stand-alone domains that resemble the
domains found in fatty acid synthase and multidomain
type I PKS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 258
Score = 28.3 bits (63), Expect = 2.0
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISR-------TLQKLNDTANEIKGLTND 49
+VTG+T GIG A A L K + + + +R T+++L + E G T D
Sbjct: 7 LVTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELREAGVEADGRTCD 60
>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 = 28.4 bits (64), Expect = 2.0
Identities = 11/35 (31%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKR-KMDLVLISRTLQK 35
+VTG+ GIG +LAK ++L +R +++
Sbjct: 3 ALVTGANRGIGFEIVRQLAKSGPGTVILTARDVER 37
>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 = 28.2 bits (63), Expect = 2.1
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 8/50 (16%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDL---VLIS-RTLQKLNDTANEIKGLT 47
+++TG GIG + LAKR ++L V+I R ++L + E +
Sbjct: 8 ILITGGASGIG----LALAKRFLELGNTVIICGRNEERLAEAKAENPEIH 53
>gnl|CDD|187542 cd05231, NmrA_TMR_like_1_SDR_a, NmrA (a transcriptional
regulator) and triphenylmethane reductase (TMR) like
proteins, subgroup 1, atypical (a) SDRs. Atypical SDRs
related to NMRa, TMR, and HSCARG (an NADPH sensor).
This subgroup resembles the SDRs and has a partially
conserved characteristic [ST]GXXGXXG NAD-binding motif,
but lacks the conserved active site residues. NmrA is a
negative transcriptional regulator of various fungi,
involved in the post-translational modulation of the
GATA-type transcription factor AreA. NmrA lacks the
canonical GXXGXXG NAD-binding motif and has altered
residues at the catalytic triad, including a Met
instead of the critical Tyr residue. NmrA may bind
nucleotides but appears to lack any dehydrogenase
activity. HSCARG has been identified as a putative
NADP-sensing molecule, and redistributes and
restructures in response to NADPH/NADP ratios. Like
NmrA, it lacks most of the active site residues of the
SDR family, but has an NAD(P)-binding motif similar to
the extended SDR family, GXXGXXG. 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. Atypical
SDRs are distinct from classical SDRs. Classical SDRs
have an TGXXX[AG]XG cofactor binding motif and a YXXXK
active site motif, with the Tyr residue of the active
site motif serving as a critical catalytic residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser and/or an Asn, contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. In addition to the Rossmann fold core
region typical of all SDRs, extended SDRs have a less
conserved C-terminal extension of approximately 100
amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 259
Score = 28.1 bits (63), Expect = 2.3
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTA 40
VTG+T IG A L + + + R+ ++ A
Sbjct: 3 VTGATGRIGSKVATTLLEAGRPVRALVRSDERAAALA 39
>gnl|CDD|168683 PRK06813, PRK06813, homoserine dehydrogenase; Validated.
Length = 346
Score = 28.3 bits (63), Expect = 2.3
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 7/59 (11%)
Query: 8 TDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVNYSGTKA 66
GK Y + ++KMD+V IS+ L EI ++V + YSG A
Sbjct: 100 DGNPGKQYIKQAIEKKMDIVAISKG--ALVTNWREINEAAKIANV-----RIRYSGATA 151
>gnl|CDD|224061 COG1138, CcmF, Cytochrome c biogenesis factor [Posttranslational
modification, protein turnover, chaperones].
Length = 648
Score = 28.5 bits (64), Expect = 2.3
Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 4/19 (21%)
Query: 126 WAICTLGWCKFATGYWFFD 144
WA LGW G+WF+D
Sbjct: 228 WAYYELGW----GGWWFWD 242
>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 = 28.0 bits (63), Expect = 2.4
Identities = 14/53 (26%), Positives = 26/53 (49%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
V+VTG+ GIG A A LA+ + + R ++L + +++ +K
Sbjct: 1 VLVTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRRYGYPFATYK 53
Score = 26.9 bits (60), Expect = 6.6
Identities = 11/41 (26%), Positives = 21/41 (51%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
Y+ +KA + CL E++ + I+ ++ P DT M +
Sbjct: 147 YAASKAALTMLTKCLGLELAPYGIRCNVVSPGSTDTEMQRQ 187
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 28.0 bits (63), Expect = 2.5
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFK 54
V+VTG GIG A ++ LA+ V+ R+ ++ A E++ L + +
Sbjct: 10 VIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPD-DEFAEELRALQPRAEFVQ 61
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 27.8 bits (62), Expect = 2.6
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
++++G T GIGKA E A+ ++ I+ T + AN+I
Sbjct: 11 LVISGGTRGIGKAIVYEFAQSGVN---IAFTYNSNVEEANKI 49
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 375
Score = 28.1 bits (63), Expect = 2.8
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKM-DLVLISRT 32
++TG G+G A LA R LVL+SR
Sbjct: 153 YLITGGLGGLGLLVARWLAARGARHLVLLSRR 184
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 27.9 bits (62), Expect = 2.8
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 3 MVTGSTDGIGKAYAIELAKR 22
+VTG + GIG+A A+ LA+
Sbjct: 5 LVTGGSRGIGRATALLLAQE 24
>gnl|CDD|233570 TIGR01777, yfcH, TIGR01777 family protein. This model represents
a clade of proteins of unknown function including the
E. coli yfcH protein [Hypothetical proteins,
Conserved].
Length = 291
Score = 28.0 bits (63), Expect = 2.9
Identities = 12/41 (29%), Positives = 23/41 (56%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANE 42
+++TG T IG+A L KR ++ +++R+ +T E
Sbjct: 1 ILITGGTGFIGRALTQRLTKRGHEVTILTRSPPPGANTKWE 41
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 28.0 bits (63), Expect = 2.9
Identities = 13/30 (43%), Positives = 21/30 (70%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISR 31
V +TG++ GIG+A A E A++ L L++R
Sbjct: 5 VFITGASSGIGQALAREYARQGATLGLVAR 34
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins
are members of the classical SDR family, with a
canonical active site triad (and also an active site
Asn) and a typical Gly-rich NAD-binding motif. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is
not generally found among SDRs.
Length = 235
Score = 27.8 bits (62), Expect = 3.0
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 2 VMVTGSTDGIGKAYAIELAKRK 23
V+VTG+ GIGKA+ L
Sbjct: 6 VLVTGANRGIGKAFVESLLAHG 27
Score = 27.4 bits (61), Expect = 3.9
Identities = 11/46 (23%), Positives = 18/46 (39%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKG 101
P YS +K+ L E++ + P +DT M+ G
Sbjct: 142 PAMGTYSASKSAAYSLTQGLRAELAAQGTLVLSVHPGPIDTRMAAG 187
>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 = 27.7 bits (62), Expect = 3.0
Identities = 11/43 (25%), Positives = 18/43 (41%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIK 44
+++TG+ IGKA+ L L+L L E+
Sbjct: 5 ILITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELT 47
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 28.0 bits (62), Expect = 3.1
Identities = 15/57 (26%), Positives = 28/57 (49%)
Query: 43 IKGLTNDSHVFKSPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMS 99
I +T+ V +P NY +KA + F L +EI+ N+ + P +++ M+
Sbjct: 134 IINITSVVGVTGNPGQANYCASKAGMIGFSKSLAQEIATRNVTVNCVAPGFIESAMT 190
>gnl|CDD|187648 cd08944, SDR_c12, classical (c) SDR, subgroup 12. These are
classical SDRs, with the canonical active site tetrad
and glycine-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 246
Score = 27.8 bits (62), Expect = 3.1
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 5/60 (8%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSKGDHFMRKMHDWLRA 114
P + Y +KA + + L E+ H I+ L P ++DT + K+ + A
Sbjct: 144 DPGYGAYGASKAAIRNLTRTLAAELRHAGIRCNALAPGLIDTPLLLA-----KLAGFEGA 198
Score = 26.3 bits (58), Expect = 8.5
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 1 MVMVTGSTDGIGKAYAIELAK 21
+ +VTG+ GIG A A LA+
Sbjct: 5 VAIVTGAGAGIGAACAARLAR 25
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 28.0 bits (62), Expect = 3.1
Identities = 9/36 (25%), Positives = 13/36 (36%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKL 36
++VTG IG L D+ + R L
Sbjct: 2 RILVTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGL 37
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase;
Validated.
Length = 322
Score = 28.0 bits (63), Expect = 3.1
Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVF 53
V++TG++ G+G A LAKR +++ R L+K A E+ G+ DS+
Sbjct: 9 VIITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQEL-GIPPDSYTI 59
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 27.7 bits (62), Expect = 3.2
Identities = 7/21 (33%), Positives = 15/21 (71%)
Query: 2 VMVTGSTDGIGKAYAIELAKR 22
+++TG+ G G+ A+ LA++
Sbjct: 5 ILITGAGSGFGREVALRLARK 25
>gnl|CDD|217681 pfam03706, UPF0104, Uncharacterized protein family (UPF0104). This
family of proteins are integral membrane proteins. These
proteins are uncharacterized but contain a conserved PG
motif. Some members of this family are annotated as
dolichol-P-glucose synthetase and contain a pfam00535
domain.
Length = 292
Score = 27.7 bits (62), Expect = 3.2
Identities = 6/44 (13%), Positives = 13/44 (29%)
Query: 100 KGDHFMRKMHDWLRAFAYPTATTYASWAICTLGWCKFATGYWFF 143
+ + + + LR P + + L W A +
Sbjct: 175 RLRRLLESLRESLRLLRSPKRLLLLLFLLSLLIWLLEALALYLL 218
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 27.8 bits (62), Expect = 3.4
Identities = 11/40 (27%), Positives = 19/40 (47%)
Query: 59 VNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
VNY+ +KA + L E++ I + P ++T M
Sbjct: 158 VNYAASKAGLIGLTKTLANELAPRGITVNAVAPGAINTPM 197
>gnl|CDD|236058 PRK07579, PRK07579, hypothetical protein; Provisional.
Length = 245
Score = 27.6 bits (61), Expect = 3.5
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 41 NEIKGLTNDSHVFKSPYFVNYSGTKAFV 68
N ++ LT+D +K+ YFV+ SG K FV
Sbjct: 208 NRLRALTHDD--YKNAYFVDESGRKVFV 233
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 27.6 bits (62), Expect = 3.7
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 2 VMVTGSTDGIGKAYAIELAK 21
+VTG++ GIGKA A LA
Sbjct: 6 ALVTGASSGIGKATARRLAA 25
>gnl|CDD|236675 PRK10369, PRK10369, heme lyase subunit NrfE; Provisional.
Length = 571
Score = 27.8 bits (62), Expect = 3.7
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 4/19 (21%)
Query: 126 WAICTLGWCKFATGYWFFD 144
WA C LGW G+WF+D
Sbjct: 230 WAYCELGW----GGWWFWD 244
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 27.2 bits (61), Expect = 3.8
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLND 38
V+V G+T +G+ EL R + + R +
Sbjct: 1 KVLVVGATGKVGRHVVRELLDRGYQVRALVRDPSQAEK 38
>gnl|CDD|234582 PRK00028, infC, translation initiation factor IF-3; Reviewed.
Length = 177
Score = 27.1 bits (61), Expect = 3.9
Identities = 9/16 (56%), Positives = 12/16 (75%), Gaps = 1/16 (6%)
Query: 16 AIELAKRK-MDLVLIS 30
A+ELA+ +DLV IS
Sbjct: 40 ALELAEEAGLDLVEIS 55
>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional.
Length = 374
Score = 27.7 bits (61), Expect = 4.1
Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 3/72 (4%)
Query: 36 LNDTANEIKGLTNDSHVFKSPY---FVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPS 92
LN+ N I L + +KS + F + T+ ++ +NC T E + + I I
Sbjct: 170 LNENINSIDELEDPLDSYKSIFLIFFTEFDTTETYLNKIINCATDEEKNELLDDHIGILK 229
Query: 93 VVDTNMSKGDHF 104
+ N K D+F
Sbjct: 230 EMYENCKKHDNF 241
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 27.4 bits (61), Expect = 4.3
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 3 MVTGSTDGIGKAYAIELAK 21
+VTG+ GIG A A L +
Sbjct: 6 LVTGAGQGIGFAIAKRLVE 24
>gnl|CDD|235781 PRK06333, PRK06333, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 424
Score = 27.7 bits (62), Expect = 4.4
Identities = 21/79 (26%), Positives = 28/79 (35%), Gaps = 19/79 (24%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTA-----------NEIKGLTNDSH 51
M G DG G A+ +A R+ + +Q LN A IK
Sbjct: 280 MTAGPEDGEGARRAMLIALRQAGIP--PEEVQHLNAHATSTPVGDLGEVAAIK------K 331
Query: 52 VFKSPYFVNYSGTKAFVGH 70
VF + S TK+ GH
Sbjct: 332 VFGHVSGLAVSSTKSATGH 350
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 27.4 bits (61), Expect = 4.4
Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMS---KGDHFMRKMHDWLR 113
Y+ TKA + L E+ + I+ + P V+T+M+ K K+ + R
Sbjct: 152 YAITKAGIIILTRRLAFELGKYGIRVNAVAPGWVETDMTLSGKSQEEAEKLRELFR 207
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 27.2 bits (60), Expect = 4.5
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSH 51
++TG G+G+ AI LAK D+V + + + +T +++ L H
Sbjct: 12 IITGCNTGLGQGMAIGLAKAGADIVGVG--VAEAPETQAQVEALGRKFH 58
>gnl|CDD|130050 TIGR00977, LeuA_rel, 2-isopropylmalate synthase/homocitrate
synthase family protein. This model represents
uncharacterized proteins related to 2-isopropylmalate
synthases and homocitrate synthases but phylogenetically
distint. Each species represented in the seed alignment
also has a member of a known family of 2-isopropylmalate
synthases [Unknown function, General].
Length = 526
Score = 27.6 bits (61), Expect = 4.6
Identities = 19/74 (25%), Positives = 28/74 (37%), Gaps = 12/74 (16%)
Query: 2 VMVTGSTDGIGK-------AYAIELAKRKMDLVLISR-TLQKLNDTANEIKGLTNDSHVF 53
MV G+ +G G+ I + K+ +I L+KL TA + + N
Sbjct: 225 TMVQGTINGYGERCGNANLCSLIPNLQLKLGYDVIPPENLKKLTSTARLVAEIVNLPPDD 284
Query: 54 KSPYFVNYSGTKAF 67
PY G AF
Sbjct: 285 NMPYV----GRSAF 294
>gnl|CDD|187592 cd05331, DH-DHB-DH_SDR_c, 2,3 dihydro-2,3 dihydrozybenzoate
dehydrogenases, classical (c) SDRs. 2,3 dihydro-2,3
dihydrozybenzoate dehydrogenase shares the
characteristics of the classical SDRs. This subgroup
includes Escherichai coli EntA which catalyzes the
NAD+-dependent oxidation of
2,3-dihydro-2,3-dihydroxybenzoate to
2,3-dihydroxybenzoate during biosynthesis of the
siderophore Enterobactin. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 27.0 bits (60), Expect = 4.6
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 61 YSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
Y +KA + CL E++ + ++ ++ P DT M
Sbjct: 140 YGASKAALASLSKCLGLELAPYGVRCNVVSPGSTDTAM 177
>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 = 27.0 bits (60), Expect = 4.9
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 3 MVTGSTDGIGKAYAIELAKRKMDLVLISR 31
+VTG+ G+G+ A+ LA+ D+V R
Sbjct: 9 LVTGANTGLGQGIAVGLAEAGADIVGAGR 37
>gnl|CDD|233794 TIGR02239, recomb_RAD51, DNA repair protein RAD51. This eukaryotic
sequence family consists of RAD51, a protein involved in
DNA homologous recombination and repair. It is similar
in sequence the exclusively meiotic recombinase DMC1
(TIGR02238), to archaeal families RadA (TIGR02236) and
RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Length = 316
Score = 27.4 bits (61), Expect = 5.0
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 8 TDGIGKAYAIELAKRKMDLVLISRTLQKLNDT 39
TD G+ EL+ R+M L R+LQ+L D
Sbjct: 206 TDFSGRG---ELSARQMHLARFLRSLQRLADE 234
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 27.2 bits (61), Expect = 5.0
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDL-VLISRTLQKLNDTANEIKGL 46
+VTG+ IG+A A++LA D+ V +R+ + A EI+ L
Sbjct: 12 ALVTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEAEALAAEIRAL 57
>gnl|CDD|130386 TIGR01319, glmL_fam, conserved hypothetical protein. This small
family includes, so far, an uncharacterized protein from
E. coli O157:H7 and GlmL from Clostridium tetanomorphum
and Clostridium cochlearium. GlmL is located between the
genes for the two subunits, epsilon (GlmE) and sigma
(GlmS), of the coenzyme-B12-dependent glutamate mutase
(methylaspartate mutase), the first enzyme in a pathway
of glutamate fermentation. Members shows significant
sequence similarity to the hydantoinase branch of the
hydantoinase/oxoprolinase family (pfam01968).
Length = 463
Score = 27.3 bits (60), Expect = 5.3
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 1 MVMVTGSTDGIGKAYAIE----LAKRKMDLVLISRTLQKLNDTANEI---KGLT 47
+++ G TDG + I LA+ +D +I + + D EI +
Sbjct: 123 IILFAGGTDGGEEECGIHNAKMLAEHGLDCAIIVAGNKDIQDEVQEIFDHADIF 176
>gnl|CDD|187543 cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
bacterial proteins, and includes the Staphylococcus
aureus capsular polysaccharide Cap5N, which may have a
role in the synthesis of UDP-N-acetyl-d-fucosamine.
This subgroup has the characteristic active site tetrad
and NAD-binding motif of the extended SDRs. Extended
SDRs are distinct from classical SDRs. In addition to
the Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 303
Score = 26.9 bits (60), Expect = 5.4
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 1 MVMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQ 34
V+VTG+ IG+A +L R ++ + R +
Sbjct: 1 KVLVTGANGFIGRALVDKLLSRGEEVRIAVRNAE 34
>gnl|CDD|185407 PTZ00035, PTZ00035, Rad51 protein; Provisional.
Length = 337
Score = 27.3 bits (61), Expect = 5.6
Identities = 18/53 (33%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 18 ELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHVFKSPYFVNYSGTKAFVGH 70
ELA+R+ L R LQKL D N +TN V G FV
Sbjct: 235 ELAERQQHLGKFLRALQKLADEFNVAVVITN--QVMADV-----DGASMFVAD 280
>gnl|CDD|200089 TIGR01289, LPOR, light-dependent protochlorophyllide reductase.
This model represents the light-dependent,
NADPH-dependent form of protochlorophyllide reductase.
It belongs to the short chain alcohol dehydrogenase
family, in contrast to the nitrogenase-related
light-independent form [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 314
Score = 26.8 bits (59), Expect = 6.6
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKR-KMDLVLISRTLQKLNDTANEIKGLTNDSH 51
V++TG++ G+G A LA + +++ R K A + G+ DS+
Sbjct: 6 VIITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSL-GMPKDSY 55
>gnl|CDD|215489 PLN02902, PLN02902, pantothenate kinase.
Length = 876
Score = 27.2 bits (60), Expect = 6.8
Identities = 13/29 (44%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 16 AIELAKRKMDLVLISRTLQKLND-TANEI 43
A EL +R ++VL++ +L LND TA E+
Sbjct: 720 ARELLRRGTEVVLVANSLPALNDVTAMEL 748
>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 = 26.6 bits (59), Expect = 7.4
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 59 VNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMSK 100
NYS KA + F L +E + + + P + T+M
Sbjct: 148 TNYSAAKAGMIGFTKALAQEGATKGVTVNTISPGYIATDMVM 189
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 26.5 bits (59), Expect = 7.5
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 4 VTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLND 38
+TG++ G G+A+ +R +V +R L D
Sbjct: 8 ITGASRGFGRAWTEAALERGDRVVATARDTATLAD 42
>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 = 26.7 bits (59), Expect = 7.6
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVL--ISRTLQKLNDTANEIK 44
++T + GIG+A A+ A+ +++ I+ K + I
Sbjct: 5 ALITAAAQGIGRAIALAFAREGANVIATDINEEKLKELERGPGIT 49
>gnl|CDD|187670 cd09810, LPOR_like_SDR_c_like, light-dependent
protochlorophyllide reductase (LPOR)-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
LPOR and related proteins. Protochlorophyllide
(Pchlide) reductases act in chlorophyll biosynthesis.
There are distinct enzymes that catalyze Pchlide
reduction in light or dark conditions. Light-dependent
reduction is via an NADP-dependent SDR, LPOR. Proteins
in this subfamily share the glycine-rich NAD-binding
motif of the classical SDRs, have a partial match to
the canonical active site tetrad, but lack the typical
active site Ser. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 311
Score = 26.7 bits (59), Expect = 7.6
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 2 VMVTGSTDGIGKAYAIELAKR-KMDLVLISRTLQKLNDTANEI 43
V++TG++ G+G A A LA+R + +V+ R K A E+
Sbjct: 4 VVITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEV 46
>gnl|CDD|205290 pfam13109, AsmA_1, AsmA-like C-terminal region. This family is
similar to the C-terminal of the AsmA protein of E.
coli.
Length = 214
Score = 26.4 bits (59), Expect = 7.9
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 7 STDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI 43
S D GK I+L K+D+ L +TL+ L+ ++I
Sbjct: 130 SADIYGKGI-IDLKTNKIDIKLELKTLKSLSSIISKI 165
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 26.5 bits (59), Expect = 7.9
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 56 PYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNM 98
P +Y+ KA V L E++ I ++ PS TN+
Sbjct: 144 PAMSSYNVAKAGVVALSETLLVELADDEIGVHVVCPSFFQTNL 186
Score = 26.5 bits (59), Expect = 8.7
Identities = 13/51 (25%), Positives = 23/51 (45%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEIKGLTNDSHV 52
VM+TG+ G+G+A A+ A+ L L + +T ++ D
Sbjct: 3 VMITGAASGLGRAIALRWAREGWRLALADVNEEGGEETLKLLREAGGDGFY 53
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 26.5 bits (59), Expect = 8.2
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISR 31
+VTG GIG A A A + + L+ R
Sbjct: 18 AVVTGGASGIGHAIAELFAAKGARVALLDR 47
>gnl|CDD|129451 TIGR00353, nrfE, c-type cytochrome biogenesis protein CcmF. The
product of this gene is required for the biogenesis of
C-type cytochromes. This gene is thought to have eleven
transmembrane helices. Disruption of this gene in
Paracoccus denitrificans, encoding a putative
transporter, results in formation of an unstable
apocytochrome c and deficiency in siderophore production
[Energy metabolism, Electron transport].
Length = 576
Score = 26.8 bits (59), Expect = 8.5
Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 4/21 (19%)
Query: 124 ASWAICTLGWCKFATGYWFFD 144
+ WA LGW G+WF+D
Sbjct: 174 SWWAYYELGW----GGWWFWD 190
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 26.3 bits (58), Expect = 9.0
Identities = 12/54 (22%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 2 VMVTGSTDGIGKAYAIELAKRKMDLVLISRTLQKLNDTANEI--KGLTNDSHVF 53
+++TGS GIG A LA+ ++++ T ++ ++ +G+ + F
Sbjct: 12 ILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGIKAHAAPF 65
>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 = 26.1 bits (58), Expect = 10.0
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 55 SPYFVNYSGTKAFVGHFVNCLTREISHHNIQTQILIPSVVDTNMS 99
P Y +KA V F + L RE+ ++ I+ P T ++
Sbjct: 144 FPAGGAYCASKAAVEAFSDSLRRELQPWGVKVSIIEPGNFKTGIT 188
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
0.326 0.135 0.454
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: 8,817,206
Number of extensions: 759089
Number of successful extensions: 1338
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1330
Number of HSP's successfully gapped: 283
Length of query: 181
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 90
Effective length of database: 6,901,388
Effective search space: 621124920
Effective search space used: 621124920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.1 bits)