RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4251
(292 letters)
>gnl|CDD|187669 cd09809, human_WWOX_like_SDR_c-like, human WWOX (WW
domain-containing oxidoreductase)-like, classical
(c)-like SDRs. Classical-like SDR domain of human WWOX
and related proteins. Proteins in this subfamily share
the glycine-rich NAD-binding motif of the classical
SDRs, have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 284
Score = 166 bits (421), Expect = 6e-50
Identities = 79/182 (43%), Positives = 109/182 (59%), Gaps = 11/182 (6%)
Query: 69 KANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFS 128
+A+ A+S+IL E A+ AM LDL L+SV++FAE ++ K L++LV NA VF L ++
Sbjct: 37 RASAAVSRILEEWHKARVEAMTLDLASLRSVQRFAEAFKAKNSPLHVLVCNAAVFALPWT 96
Query: 129 HTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYITKDTISKSV 188
TEDG ETTFQVNHL HFYL LE+ L + A ARV+VVSSESHR++ + D+
Sbjct: 97 LTEDGLETTFQVNHLGHFYLVQLLEDVLRRSAP--ARVIVVSSESHRFTDL-PDSCGN-- 151
Query: 189 LSVENYS----DFWAMTAYNDTKLCNVLFGEKLATLWYKYKIALSSRHCCWKI--TVSKK 242
L S +W+M AYN KLCN+LF +L I +S H + ++ +
Sbjct: 152 LDFSLLSPPKKKYWSMLAYNRAKLCNILFSNELHRRLSPRGITSNSLHPGNMMYSSIHRN 211
Query: 243 WW 244
WW
Sbjct: 212 WW 213
>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 = 146 bits (370), Expect = 2e-42
Identities = 58/151 (38%), Positives = 85/151 (56%), Gaps = 7/151 (4%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
+K +A ++I E +A+ ++LDL L SV++FAEE+ +F L+IL+ NAG+
Sbjct: 36 EKGEEAAAEIKKETGNAKVEVIQLDLSSLASVRQFAEEFLARFPRLDILINNAGIMAPPR 95
Query: 128 SHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYITKDTISKS 187
T+DGFE F VN+L HF LT L L A +R+V VSS +HR I +
Sbjct: 96 RLTKDGFELQFAVNYLGHFLLTNLLLPVLKASAP--SRIVNVSSIAHRAG-----PIDFN 148
Query: 188 VLSVENYSDFWAMTAYNDTKLCNVLFGEKLA 218
L +EN ++ AY +KL N+LF +LA
Sbjct: 149 DLDLENNKEYSPYKAYGQSKLANILFTRELA 179
>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 = 107 bits (268), Expect = 2e-27
Identities = 61/158 (38%), Positives = 87/158 (55%), Gaps = 11/158 (6%)
Query: 63 YQNCWD--KANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNA 120
C D K +A ++I + + + I LDL LKS++ FA E+ + L++L+ NA
Sbjct: 29 IMACRDMAKCEEAAAEIRRDTLNHEVIVRHLDLASLKSIRAFAAEFLAEEDRLDVLINNA 88
Query: 121 GVFGLGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYIT 180
GV +S TEDGFE F VNHL HF LT L + L K A +R+V VSS +H+ I
Sbjct: 89 GVMRCPYSKTEDGFEMQFGVNHLGHFLLTNLLLDLLKKSAP--SRIVNVSSLAHKAGKIN 146
Query: 181 KDTISKSVLSVENYSDFWAMTAYNDTKLCNVLFGEKLA 218
D ++ S ++Y+ AY +KL NVLF +LA
Sbjct: 147 FDDLN----SEKSYN---TGFAYCQSKLANVLFTRELA 177
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 104 bits (261), Expect = 3e-26
Identities = 53/146 (36%), Positives = 70/146 (47%), Gaps = 8/146 (5%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
DK A ++I P A ELDL L SV+ A+ + + +++L+ NAGV
Sbjct: 51 DKGKAAAARITAATPGADVTLQELDLTSLASVRAAADALRAAYPRIDLLINNAGVMYTPK 110
Query: 128 SHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYITKDTISKS 187
T DGFE F NHL HF LT L + L+ +RVV VSS HR + I
Sbjct: 111 QTTADGFELQFGTNHLGHFALTGLLLDRLLPVPG--SRVVTVSSGGHRI----RAAIHFD 164
Query: 188 VLSVENYSDFWAMTAYNDTKLCNVLF 213
L E + A AY +KL N+LF
Sbjct: 165 DLQWERRYNRVA--AYGQSKLANLLF 188
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 99.0 bits (247), Expect = 4e-24
Identities = 50/127 (39%), Positives = 63/127 (49%), Gaps = 15/127 (11%)
Query: 90 ELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHTEDGFETTFQVNHLAHFYLT 149
LDL L+SV+ FAE + R ++IL+ NAGV + DG+E F NHL HF L
Sbjct: 77 MLDLADLESVRAFAERFLDSGRRIDILINNAGVMACPETRVGDGWEAQFATNHLGHFALV 136
Query: 150 LQLENALIKGAKLFARVVVVSSESHRYSYITKDTISKSVLSVENYS---DFWAMTAYNDT 206
L AL GA ARVV +SS HR S I D +++ D W AY +
Sbjct: 137 NLLWPALAAGAG--ARVVALSSAGHRRSPIRWDDP--------HFTRGYDKW--LAYGQS 184
Query: 207 KLCNVLF 213
K N LF
Sbjct: 185 KTANALF 191
>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 = 92.2 bits (229), Expect = 1e-21
Identities = 51/166 (30%), Positives = 77/166 (46%), Gaps = 19/166 (11%)
Query: 69 KANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF---GL 125
KA A ++ K S + DL L SV++F + +++ R L+ LV NA V+
Sbjct: 38 KAEQAAQEVGMPKDSYSV--LHCDLASLDSVRQFVDNFRRTGRPLDALVCNAAVYLPTAK 95
Query: 126 GFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYIT----- 180
T DGFE T VNHL HF LT L L + R+V+V S +H + +
Sbjct: 96 EPRFTADGFELTVGVNHLGHFLLTNLLLEDLQRSENASPRIVIVGSITHNPNTLAGNVPP 155
Query: 181 KDTIS---------KSVLSVENYSDFWAMTAYNDTKLCNVLFGEKL 217
+ T+ K S+ + +F AY D+K+CN+L +L
Sbjct: 156 RATLGDLEGLAGGLKGFNSMIDGGEFEGAKAYKDSKVCNMLTTYEL 201
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 83.6 bits (207), Expect = 2e-18
Identities = 57/173 (32%), Positives = 75/173 (43%), Gaps = 22/173 (12%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
K A++ I T P A+ LDL L SV E+ + + R +++L+ NAGV
Sbjct: 49 AKGEAAVAAIRTAVPDAKLSLRALDLSSLASVAALGEQLRAEGRPIHLLINNAGVMTPPE 108
Query: 128 SH-TEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYITKDTISK 186
T DGFE F NHL HF LT L L G ARV SS + R I D +
Sbjct: 109 RQTTADGFELQFGTNHLGHFALTAHLLPLLRAGR---ARVTSQSSIAARRGAINWDDL-- 163
Query: 187 SVLSVENYSDFWA-MTAYNDTKLCNVLFGEKLATLWYKYKIALSSRHCCWKIT 238
N+ +A M AY+ +K+ LF +L SR W IT
Sbjct: 164 ------NWERSYAGMRAYSQSKIAVGLFALELDRR---------SRAAGWGIT 201
>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 = 69.6 bits (171), Expect = 5e-14
Identities = 26/94 (27%), Positives = 43/94 (45%), Gaps = 4/94 (4%)
Query: 80 EKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH--TEDGFETT 137
E +A++ D+ + V+ EE ++F L+ILV NAG+ G T++ ++
Sbjct: 42 EALGGNAVAVQADVSDEEDVEALVEEALEEFGRLDILVNNAGIARPGPLEELTDEDWDRV 101
Query: 138 FQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
VN F LT + K R+V +SS
Sbjct: 102 LDVNLTGVFLLTRAALPHMKKQGG--GRIVNISS 133
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 67.4 bits (165), Expect = 6e-13
Identities = 48/157 (30%), Positives = 73/157 (46%), Gaps = 33/157 (21%)
Query: 82 PSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF---GLGFSHTEDGFETTF 138
P M LDL L SV++F + +++ R L++LV NA V+ + T DGFE +
Sbjct: 45 PKDSYTVMHLDLASLDSVRQFVDNFRRSGRPLDVLVCNAAVYLPTAKEPTFTADGFELSV 104
Query: 139 QVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYIT--KDTISKSV-------- 188
NHL HF L+ L + L K R+++V S IT +T++ +V
Sbjct: 105 GTNHLGHFLLSRLLLDDLKKSDYPSKRLIIVGS-------ITGNTNTLAGNVPPKANLGD 157
Query: 189 -------LSVENYS------DFWAMTAYNDTKLCNVL 212
L+ N S +F AY D+K+CN+L
Sbjct: 158 LRGLAGGLNGLNSSAMIDGGEFDGAKAYKDSKVCNML 194
>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 = 65.6 bits (160), Expect = 2e-12
Identities = 34/163 (20%), Positives = 61/163 (37%), Gaps = 28/163 (17%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDL-CRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG 126
++A +A++ + E + A+ D+ +SV+ +++F ++ILV NAG+ G
Sbjct: 41 EEAAEALAAAIKEAGGGRAAAVAADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPD 100
Query: 127 FSH---TEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYITKDT 183
TE+ ++ VN L F LT + K R+V +SS +
Sbjct: 101 APLEELTEEDWDRVIDVNLLGAFLLTRAALPLMKKQ-----RIVNISSVAGLGGP----- 150
Query: 184 ISKSVLSVENYSDFWAMTAYNDTKLCNVLFGEKLATLWYKYKI 226
AY +K + + LA I
Sbjct: 151 --------------PGQAAYAASKAALIGLTKALALELAPRGI 179
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 65.0 bits (159), Expect = 5e-12
Identities = 40/152 (26%), Positives = 69/152 (45%), Gaps = 23/152 (15%)
Query: 82 PSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFS---HTEDGFETTF 138
P + +DL L SV++F ++++ + L+ LV NA V+ + G+E +
Sbjct: 53 PPDSYTIIHIDLGDLDSVRRFVDDFRALGKPLDALVCNAAVYMPLLKEPLRSPQGYELSM 112
Query: 139 QVNHLAHFYL-TLQLENALIKGAKLFA-RVVVVSSESHRYSYI-TKDTIS---------- 185
NHL HF L L LE+ +K + R+V++ + + + K I
Sbjct: 113 ATNHLGHFLLCNLLLED--LKKSPAPDPRLVILGTVTANPKELGGKIPIPAPADLGDLSG 170
Query: 186 -----KSVLSVENYSDFWAMTAYNDTKLCNVL 212
K+ +S+ + F AY D+KLCN+L
Sbjct: 171 FEAGFKAPISMADGKKFKPGKAYKDSKLCNML 202
>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 = 60.3 bits (146), Expect = 1e-10
Identities = 34/104 (32%), Positives = 51/104 (49%), Gaps = 2/104 (1%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
+A +A +I TE + +D+ K V +F EE++++ + L++L+ NAG
Sbjct: 36 TRAEEARKEIETESGNQNIFLHIVDMSDPKQVWEFVEEFKEEGKKLHVLINNAGCMVNKR 95
Query: 128 SHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
TEDG E F N L + LT L L K RV+ VSS
Sbjct: 96 ELTEDGLEKNFATNTLGTYILTTHLIPVLEKEED--PRVITVSS 137
>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 = 57.2 bits (138), Expect = 2e-09
Identities = 43/148 (29%), Positives = 68/148 (45%), Gaps = 31/148 (20%)
Query: 89 MELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH---TEDGFETTFQVNHLAH 145
M LDL L SV++F +++++ R L+ LV NA V+ T DGFE + NHL H
Sbjct: 58 MHLDLGSLDSVRQFVQQFRESGRPLDALVCNAAVYFPTAKEPRFTADGFELSVGTNHLGH 117
Query: 146 FYLTLQLENALIKGAKLFARVVVVSSESHRYSYITKDTIS-------------------- 185
F L L + L R+++V S IT +T +
Sbjct: 118 FLLCNLLLDDLKNSPNKDKRLIIVGS-------ITGNTNTLAGNVPPKANLGDLSGLAAG 170
Query: 186 -KSVLSVENYSDFWAMTAYNDTKLCNVL 212
K+ +++ + +F AY D+K+CN+L
Sbjct: 171 FKAPIAMIDGKEFKGAKAYKDSKVCNML 198
>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 = 54.9 bits (133), Expect = 6e-09
Identities = 30/109 (27%), Positives = 53/109 (48%), Gaps = 11/109 (10%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
++ A+ K+ E S + +LD+ S++ A+ ++K+ L+ILV NAG+ GF
Sbjct: 36 ERGQAAVEKLRAEGLSVRFH--QLDVTDDASIEAAADFVEEKYGGLDILVNNAGIAFKGF 93
Query: 128 ---SHTEDGFETTFQVNHLAHFYLTLQLENALIK--GAKLFARVVVVSS 171
+ T + T + N F+ T+ + AL+ R+V VSS
Sbjct: 94 DDSTPTREQARETMKTN----FFGTVDVTQALLPLLKKSPAGRIVNVSS 138
>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 = 54.9 bits (133), Expect = 8e-09
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 4/96 (4%)
Query: 78 LTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH--TEDGFE 135
E + + LD+ L+ ++ EE K F L+IL+ NAG+ H + D
Sbjct: 47 CLELGAPSPHVVPLDMSDLEDAEQVVEEALKLFGGLDILINNAGISMRSLFHDTSIDVDR 106
Query: 136 TTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
+VN+ LT LI+ ++ +VVVSS
Sbjct: 107 KIMEVNYFGPVALTKAALPHLIERSQ--GSIVVVSS 140
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 51.1 bits (123), Expect = 1e-07
Identities = 22/113 (19%), Positives = 45/113 (39%), Gaps = 8/113 (7%)
Query: 72 DAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH-- 129
+ + + E + +A+ LD+ +V+ E ++F ++ILV NAG+
Sbjct: 41 ERLEALADEIGAGAALALALDVTDRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLDEA 100
Query: 130 TEDGFETTFQVNHLAHFYLTLQLENALIKG--AKLFARVVVVSSESHRYSYIT 180
D ++ N T A++ G + ++ + S + RY Y
Sbjct: 101 DLDDWDRMIDTNVKGLLNGT----RAVLPGMVERKSGHIINLGSIAGRYPYPG 149
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 47.6 bits (114), Expect = 2e-06
Identities = 30/109 (27%), Positives = 47/109 (43%), Gaps = 8/109 (7%)
Query: 66 CWDKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGL 125
C D A + A+ A ++D+ ++K + F L+ILV NAG+F L
Sbjct: 39 CGDDAAATAELVEAAGGKAR--ARQVDVRDRAALKAAVAAGVEDFGRLDILVANAGIFPL 96
Query: 126 G--FSHTEDGFETTFQVNHLAHFYLTLQLE-NALIKGAKLFARVVVVSS 171
++ +E VN L +L Q ALI+ R+V+ SS
Sbjct: 97 TPFAEMDDEQWERVIDVN-LTGTFLLTQAALPALIRAG--GGRIVLTSS 142
>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 = 47.3 bits (113), Expect = 3e-06
Identities = 27/85 (31%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
D A + +K L E+ +C+ + DL + +E K+F L+ILV NA
Sbjct: 63 DDAEE--TKKLIEEEGRKCLLIPGDLGDESFCRDLVKEVVKEFGKLDILVNNAAYQHPQE 120
Query: 128 S---HTEDGFETTFQVNHLAHFYLT 149
S T + E TF+ N + FYLT
Sbjct: 121 SIEDITTEQLEKTFRTNIFSMFYLT 145
>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 = 46.6 bits (111), Expect = 5e-06
Identities = 36/153 (23%), Positives = 58/153 (37%), Gaps = 38/153 (24%)
Query: 69 KANDAISKILTEKPSA--QCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV---- 122
+A A +L P A + +DL + SV A+E +K++ L+ L LNAG+
Sbjct: 42 RAEAACRALLASHPDARVVFDYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPNP 101
Query: 123 -------------FGLGF------------------SHTEDGFETTFQVNHLAHFYLTLQ 151
L TEDG FQ N H+YL +
Sbjct: 102 GIDWIGAIKEVLTNPLFAVTNPTYKIQAEGLLSQGDKATEDGLGEVFQTNVFGHYYLIRE 161
Query: 152 LENALIKGAKLFARVVVVSSESHRYSYITKDTI 184
LE L+ + ++++ SS + Y + + I
Sbjct: 162 LEP-LLCRSDGGSQIIWTSSLNASPKYFSLEDI 193
>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 = 45.7 bits (109), Expect = 8e-06
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 80 EKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF--GLGFSHTEDGFETT 137
K + + D+ + + V + A++ +K+ + IL+ NAGV ++ E T
Sbjct: 44 RKAGGKVHYYKCDVSKREEVYEAAKKIKKEVGDVTILINNAGVVSGKKLLELPDEEIEKT 103
Query: 138 FQVNHLAHFYLT 149
F+VN LAHF+ T
Sbjct: 104 FEVNTLAHFWTT 115
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 44.9 bits (107), Expect = 9e-06
Identities = 20/106 (18%), Positives = 35/106 (33%), Gaps = 10/106 (9%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG- 126
A + ++++ E A+ D+ ++ L+ +V NAGV G
Sbjct: 38 PGAAELVAEL--EALGAEVTVAACDVADRDALAALLAALPAALGPLDGVVHNAGVLDDGP 95
Query: 127 FSH-TEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
T + FE + L L + L V+ SS
Sbjct: 96 LEELTPERFERVLAPKVTGAWNLH-----ELTRDLDL-GAFVLFSS 135
>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 = 45.4 bits (108), Expect = 1e-05
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 88 AMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV-----FGLGFSHTEDGFETTFQVNH 142
+ LD+ +SV+ AE ++ +L+IL+ NAG+ S + +T N
Sbjct: 54 TIVLDVGDAESVEALAEALLSEYPNLDILINNAGIQRPIDLRDPASDLDK-ADTEIDTNL 112
Query: 143 LAHFYLTLQLENALIKGAKLFARVVVVSS 171
+ L L K + A +V VSS
Sbjct: 113 IGPIRLIKAFLPHLKKQPE--ATIVNVSS 139
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 45.0 bits (107), Expect = 2e-05
Identities = 28/114 (24%), Positives = 50/114 (43%), Gaps = 4/114 (3%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
D + A++ P A+ A D+ V++ + ++F L++LV NAG+ G
Sbjct: 42 DVSEAALAATAARLPGAKVTATVADVADPAQVERVFDTAVERFGGLDVLVNNAGIAGPTG 101
Query: 128 ---SHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSY 178
T + +E T VN FY + L+K + ++ +SS + R Y
Sbjct: 102 GIDEITPEQWEQTLAVNLNGQFY-FARAAVPLLKASGHGGVIIALSSVAGRLGY 154
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 44.8 bits (106), Expect = 2e-05
Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 11/105 (10%)
Query: 85 QCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV-FGLGF-SHTEDGFETTFQVNH 142
+CIA+ DL + ++ ++ L++LV NAG +G + E G++ +N
Sbjct: 55 ECIAIPADLSSEEGIEALVARVAERSDRLDVLVNNAGATWGAPLEAFPESGWDKVMDINV 114
Query: 143 LAHFYLTLQLENALIKGAKL--FARVV-------VVSSESHRYSY 178
+ F+LT L L A ARV+ +V S YSY
Sbjct: 115 KSVFFLTQALLPLLRAAATAENPARVINIGSIAGIVVSGLENYSY 159
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 44.0 bits (105), Expect = 4e-05
Identities = 20/92 (21%), Positives = 40/92 (43%), Gaps = 8/92 (8%)
Query: 84 AQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH--TEDGFETTFQVN 141
+ + D+ +V+ E + F +L+ILV NAG+ +E+ ++ VN
Sbjct: 54 GEARVLVFDVSDEAAVRALIEAAVEAFGALDILVNNAGITRDALLPRMSEEDWDRVIDVN 113
Query: 142 HLAHFYLTLQLENALIKG--AKLFARVVVVSS 171
L + ++ A + + R+V +SS
Sbjct: 114 -LTGTFNVVR---AALPPMIKARYGRIVNISS 141
>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 = 43.7 bits (104), Expect = 4e-05
Identities = 25/106 (23%), Positives = 52/106 (49%), Gaps = 6/106 (5%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
+ A + + +I + A+E D+ ++V+ E+ + +F ++ILV NAG+
Sbjct: 35 EAAAETVEEI--KALGGNAAALEADVSDREAVEALVEKVEAEFGPVDILVNNAGITRDNL 92
Query: 128 SH--TEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
+E+ ++ VN F +T + A+IK + R++ +SS
Sbjct: 93 LMRMSEEDWDAVINVNLTGVFNVTQAVIRAMIK--RRSGRIINISS 136
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 42.2 bits (100), Expect = 1e-04
Identities = 22/108 (20%), Positives = 49/108 (45%), Gaps = 10/108 (9%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF--GL 125
+ A + + + AQ + + D+ +++ ++F ++ILV NAG+F
Sbjct: 42 EAAEELVEAVEALGRRAQAV--QADVTDKAALEAAVAAAVERFGRIDILVNNAGIFEDKP 99
Query: 126 GFSHTEDGFETTFQVNHLAHFYLTLQLENALIKG--AKLFARVVVVSS 171
++D ++ VN L+ + L+ A++ + R+V +SS
Sbjct: 100 LADMSDDEWDEVIDVN-LSGVFHLLR---AVVPPMRKQRGGRIVNISS 143
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 42.3 bits (100), Expect = 1e-04
Identities = 24/91 (26%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 68 DKANDA-ISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG 126
D+ DA +K EK +C+ + D+ K EE ++ L+ILV NA
Sbjct: 79 DEHEDANETKQRVEKEGVKCLLIPGDVSDEAFCKDAVEETVRELGRLDILVNNA-----A 133
Query: 127 FSH--------TEDGFETTFQVNHLAHFYLT 149
F + T + + TF+ N ++F++T
Sbjct: 134 FQYPQQSLEDITAEQLDKTFKTNIYSYFHMT 164
>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 = 41.4 bits (97), Expect = 3e-04
Identities = 21/85 (24%), Positives = 39/85 (45%), Gaps = 5/85 (5%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG- 126
+ A + I ++ Q I +E ++ + ++ + +F + ILV NAG G
Sbjct: 34 EGAEAVAAAI--QQAGGQAIGLECNVTSEQDLEAVVKATVSQFGGITILVNNAGGGGPKP 91
Query: 127 --FSHTEDGFETTFQVNHLAHFYLT 149
TE+ FE F++N + F L+
Sbjct: 92 FDMPMTEEDFEWAFKLNLFSAFRLS 116
>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 = 41.1 bits (97), Expect = 3e-04
Identities = 24/112 (21%), Positives = 46/112 (41%), Gaps = 16/112 (14%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG------ 121
++ N + A +A+ DL + + + E+ F ++ILV NAG
Sbjct: 34 NRENLERAASELRAGGAGVLAVVADLTDPEDIDRLVEKAGDAFGRVDILVNNAGGPPPGP 93
Query: 122 VFGLGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKL--FARVVVVSS 171
L T++ + F + L+ + A++ G K + R+V +SS
Sbjct: 94 FAEL----TDEDWLEAFDLKLLSVIRIV----RAVLPGMKERGWGRIVNISS 137
>gnl|CDD|187586 cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase
sniffer-like, classical (c) SDRs. Sniffer is an
NADPH-dependent carbonyl reductase of the classical SDR
family. Studies in Drosophila melanogaster implicate
Sniffer in the prevention of neurodegeneration due to
aging and oxidative-stress. This subgroup also includes
Rhodococcus sp. AD45 IsoH, which is an NAD-dependent
1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase
involved in isoprene metabolism, Aspergillus nidulans
StcE encoded by a gene which is part of a proposed
sterigmatocystin biosynthesis gene cluster, Bacillus
circulans SANK 72073 BtrF encoded by a gene found in the
butirosin biosynthesis gene cluster, and Aspergillus
parasiticus nor-1 involved in the biosynthesis of
aflatoxins. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 233
Score = 41.1 bits (97), Expect = 3e-04
Identities = 26/91 (28%), Positives = 41/91 (45%), Gaps = 9/91 (9%)
Query: 87 IAMELDLCRL--KSVKKFAEEYQKKFRSLNILVLNAGVF---GLGFSHTEDGFETTFQVN 141
+ELD+ +S + AE L++L+ NAG+ G + FQVN
Sbjct: 50 HILELDVTDEIAESAEAVAERL--GDAGLDVLINNAGILHSYGPASEVDSEDLLEVFQVN 107
Query: 142 HLAHFYLTLQLENALIKGAKLFARVVVVSSE 172
L LT L+KGA+ A+++ +SS
Sbjct: 108 VLGPLLLTQAFLPLLLKGAR--AKIINISSR 136
>gnl|CDD|233590 TIGR01830, 3oxo_ACP_reduc, 3-oxoacyl-(acyl-carrier-protein)
reductase. This model represents 3-oxoacyl-[ACP]
reductase, also called 3-ketoacyl-acyl carrier protein
reductase, an enzyme of fatty acid biosynthesis [Fatty
acid and phospholipid metabolism, Biosynthesis].
Length = 239
Score = 40.3 bits (95), Expect = 5e-04
Identities = 23/106 (21%), Positives = 48/106 (45%), Gaps = 5/106 (4%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF--GL 125
++ + + + L + + + D+ + VK EE +++ ++ILV NAG+ L
Sbjct: 33 EEGAEEVVEELKAYG-VKALGVVCDVSDREDVKAVVEEIEEELGPIDILVNNAGITRDNL 91
Query: 126 GFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
E+ ++ N F LT + +IK + R++ +SS
Sbjct: 92 LMRMKEEDWDAVIDTNLTGVFNLTQAVLRIMIK--QRSGRIINISS 135
>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 = 40.0 bits (94), Expect = 7e-04
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 6/88 (6%)
Query: 69 KANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG--VFGLG 126
A + + + LT + IA+ELD+ +S+K+ E Y +KF ++IL+ NA G
Sbjct: 37 PALEQLKEELTNLYKNRVIALELDITSKESIKELIESYLEKFGRIDILINNAYPSPKVWG 96
Query: 127 ---FSHTEDGFETTFQVNHLAHFYLTLQ 151
+ + VN L +L Q
Sbjct: 97 SRFEEFPYEQWNEVLNVN-LGGAFLCSQ 123
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 39.5 bits (93), Expect = 0.001
Identities = 23/81 (28%), Positives = 43/81 (53%), Gaps = 4/81 (4%)
Query: 72 DAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGL--GFS- 128
+A++K L +K + + DL +++++ +E +++ +++LV NAG FG F
Sbjct: 44 EALAKELEDKTGVEVEVIPADLSDPEALERLEDELKERGGPIDVLVNNAG-FGTFGPFLE 102
Query: 129 HTEDGFETTFQVNHLAHFYLT 149
+ D E Q+N LA LT
Sbjct: 103 LSLDEEEEMIQLNILALTRLT 123
>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 = 39.1 bits (92), Expect = 0.001
Identities = 28/98 (28%), Positives = 45/98 (45%), Gaps = 8/98 (8%)
Query: 78 LTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG--VFG--LGFSHTEDG 133
L E + +ELD+ +S+K +E ++F +++LV NAG +FG S E+
Sbjct: 40 LGELLNDNLEVLELDVTDEESIKAAVKEVIERFGRIDVLVNNAGYGLFGPLEETS-IEE- 97
Query: 134 FETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
F+VN +T + K R+V VSS
Sbjct: 98 VRELFEVNVFGPLRVTRAFLPLMRKQGS--GRIVNVSS 133
>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 = 38.8 bits (91), Expect = 0.001
Identities = 26/110 (23%), Positives = 50/110 (45%), Gaps = 7/110 (6%)
Query: 73 AISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH--- 129
++ L K + + ++LD+ +S++ E ++FR ++ILV NAG LG
Sbjct: 39 ELADELGAKFPVKVLPLQLDVSDRESIEAALENLPEEFRDIDILVNNAG-LALGLDPAQE 97
Query: 130 -TEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSY 178
+ +ET N +T + +I A+ ++ + S + RY Y
Sbjct: 98 ADLEDWETMIDTNVKGLLNVTRLILPIMI--ARNQGHIINLGSIAGRYPY 145
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 38.5 bits (90), Expect = 0.002
Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 84 AQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG--FSHTEDGFETTFQVN 141
IA+ LD+ R S+ + ++F ++IL NA +F + + D ++ F VN
Sbjct: 52 PAAIAVSLDVTRQDSIDRIVAAAVERFGGIDILFNNAALFDMAPILDISRDSYDRLFAVN 111
Query: 142 HLAHFYLTLQLENALI---KGAKL 162
F+L + ++ +G K+
Sbjct: 112 VKGLFFLMQAVARHMVEQGRGGKI 135
>gnl|CDD|187596 cd05337, BKR_1_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 1, classical (c) SDR.
This subgroup includes Escherichia coli CFT073 FabG. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 255
Score = 38.2 bits (89), Expect = 0.003
Identities = 28/125 (22%), Positives = 50/125 (40%), Gaps = 18/125 (14%)
Query: 80 EKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG----FSHTEDGFE 135
+ I + D+ L + ++ + F L+ LV NAG+ TED F+
Sbjct: 47 LAAGRRAIYFQADIGELSDHEALLDQAWEDFGRLDCLVNNAGIAVRPRGDLLDLTEDSFD 106
Query: 136 TTFQVNHLAHFYLTLQLENALIKGAKLFA----RVVVVSSES------HRYSYITKDTIS 185
+N F+LT + +++ F ++ V+S + +R Y IS
Sbjct: 107 RLIAINLRGPFFLTQAVARRMVEQPDRFDGPHRSIIFVTSINAYLVSPNRGEY----CIS 162
Query: 186 KSVLS 190
K+ LS
Sbjct: 163 KAGLS 167
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 38.1 bits (89), Expect = 0.003
Identities = 24/109 (22%), Positives = 43/109 (39%), Gaps = 25/109 (22%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV----- 122
+KA + +I E D +SV + + F +++LV NAG+
Sbjct: 37 EKAANVAQEINAEYGEGMAYGFGADATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAF 96
Query: 123 ---FGLGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVV 168
F LG F+ + QVN + +F A+ F+R+++
Sbjct: 97 ITDFQLG------DFDRSLQVNLVGYFLC-----------AREFSRLMI 128
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 37.6 bits (88), Expect = 0.004
Identities = 28/124 (22%), Positives = 47/124 (37%), Gaps = 24/124 (19%)
Query: 84 AQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH-------TEDGFET 136
+ I D+ L + + + Q + ++ LV NAGV G T + F+
Sbjct: 52 VEVIFFPADVADLSAHEAMLDAAQAAWGRIDCLVNNAGV---GVKVRGDLLDLTPESFDR 108
Query: 137 TFQVNHLAHFYLTLQLENALIKG----AKLFARVVVVSSES------HRYSYITKDTISK 186
+N F+LT + ++ +V VSS + +R Y ISK
Sbjct: 109 VLAINLRGPFFLTQAVAKRMLAQPEPEELPHRSIVFVSSVNAIMVSPNRGEY----CISK 164
Query: 187 SVLS 190
+ LS
Sbjct: 165 AGLS 168
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 37.5 bits (88), Expect = 0.005
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 85 QCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV--FGLGFSHTEDGFETTFQVNH 142
IA++ D+ + V+ E+ +KF ++ILV NAG+ FGL T++ ++ VN
Sbjct: 56 DAIAVKADVSSEEDVENLVEQIVEKFGKIDILVNNAGISNFGLVTDMTDEEWDRVIDVNL 115
Query: 143 LAHFYLTLQLENALIK 158
LT +IK
Sbjct: 116 TGVMLLTRYALPYMIK 131
>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 = 37.0 bits (86), Expect = 0.006
Identities = 25/103 (24%), Positives = 45/103 (43%), Gaps = 8/103 (7%)
Query: 73 AISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV-FGLGFSHTE 131
+++ E P D+ S ++ E +K++ +LN+L+ NAG+ + E
Sbjct: 41 RLAEAKAENPEIHTEVC--DVADRDSRRELVEWLKKEYPNLNVLINNAGIQRNEDLTGAE 98
Query: 132 DGFET---TFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
D + N LA LT L L++ + A ++ VSS
Sbjct: 99 DLLDDAEQEIATNLLAPIRLTALLLPHLLRQPE--ATIINVSS 139
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 36.7 bits (85), Expect = 0.008
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 82 PSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG--FSHTEDGFETTFQ 139
+C A+ D+ SV + ++K ++ILV NAGV LG +++ +
Sbjct: 52 RGHRCTAVVADVRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFHID 111
Query: 140 VN 141
+N
Sbjct: 112 IN 113
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 36.4 bits (84), Expect = 0.009
Identities = 19/75 (25%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 99 VKKFAEEYQKKFRSLNILVLNAGVF--GLGFSHTEDGFETTFQVNHLAHFYLTLQLENAL 156
VK ++ + ++ILV NAG+ GL +++ +++ +VN A F LT +L + +
Sbjct: 67 VKALGQKAEADLEGVDILVNNAGITKDGLFVRMSDEDWDSVLEVNLTATFRLTRELTHPM 126
Query: 157 IKGAKLFARVVVVSS 171
++ + + R++ ++S
Sbjct: 127 MR--RRYGRIINITS 139
>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 = 36.2 bits (84), Expect = 0.010
Identities = 26/94 (27%), Positives = 38/94 (40%), Gaps = 9/94 (9%)
Query: 82 PSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHTED--GFETTFQ 139
+ + + DL + + KF L+ILV NAG+ G +D ++
Sbjct: 53 SEKKILLVVADLTEEEGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDIEEYDKVMN 112
Query: 140 VNHLAHFYLTLQLENALI--KGAKLFARVVVVSS 171
+N A YLT LI KG +V VSS
Sbjct: 113 LNLRAVIYLTKLAVPHLIKTKGE-----IVNVSS 141
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 36.5 bits (85), Expect = 0.011
Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 4/76 (5%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
+A + + + E + A+ DL SV++F + L+ LV NAG+
Sbjct: 42 AEARELAAAL--EAAGGRAHAIAADLADPASVQRFFDAAAAALGGLDGLVNNAGITNSKS 99
Query: 128 --SHTEDGFETTFQVN 141
D ++ VN
Sbjct: 100 ATELDIDTWDAVMNVN 115
>gnl|CDD|187620 cd05362, THN_reductase-like_SDR_c,
tetrahydroxynaphthalene/trihydroxynaphthalene
reductase-like, classical (c) SDRs.
1,3,6,8-tetrahydroxynaphthalene reductase (4HNR) of
Magnaporthe grisea and the related
1,3,8-trihydroxynaphthalene reductase (3HNR) are typical
members of the SDR family containing the canonical
glycine rich NAD(P)-binding site and active site tetrad,
and function in fungal melanin biosynthesis. This
subgroup also includes an SDR from Norway spruce that
may function to protect against both biotic and abitoic
stress. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 36.1 bits (84), Expect = 0.012
Identities = 28/111 (25%), Positives = 50/111 (45%), Gaps = 8/111 (7%)
Query: 63 YQNCWDKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
Y + A + +++I A IA++ D+ V + + +K F ++ILV NAGV
Sbjct: 34 YASSKAAAEEVVAEIEAAGGKA--IAVQADVSDPSQVARLFDAAEKAFGGVDILVNNAGV 91
Query: 123 FGLGF--SHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
+E+ F+ F VN F++ + L G R++ +SS
Sbjct: 92 MLKKPIAETSEEEFDRMFTVNTKGAFFVLQEAAKRLRDG----GRIINISS 138
>gnl|CDD|187615 cd05357, PR_SDR_c, pteridine reductase (PR), classical (c) SDRs.
Pteridine reductases (PRs), members of the SDR family,
catalyzes the NAD-dependent reduction of folic acid,
dihydrofolate and related compounds. In Leishmania,
pteridine reductase (PTR1) acts to circumvent the
anti-protozoan drugs that attack dihydrofolate reductase
activity. Proteins in this subgroup have an N-terminal
NAD-binding motif and a YxxxK active site motif, but
have an Asp instead of the usual upstream catalytic Ser.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 234
Score = 36.1 bits (84), Expect = 0.012
Identities = 15/78 (19%), Positives = 26/78 (33%), Gaps = 2/78 (2%)
Query: 86 CIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG--FSHTEDGFETTFQVNHL 143
+ ++ DL + + F ++LV NA F +ED + F +N
Sbjct: 52 AVLVQADLSDFAACADLVAAAFRAFGRCDVLVNNASAFYPTPLGQGSEDAWAELFGINLK 111
Query: 144 AHFYLTLQLENALIKGAK 161
A + L L
Sbjct: 112 APYLLIQAFARRLAGSRN 129
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 35.9 bits (83), Expect = 0.016
Identities = 16/55 (29%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
+ ++ + KI + A+ A +D+ + VK FA E +++F +++L NAGV
Sbjct: 40 EAVSETVDKIKSNGGKAK--AYHVDISDEQQVKDFASEIKEQFGRVDVLFNNAGV 92
>gnl|CDD|187625 cd05367, SPR-like_SDR_c, sepiapterin reductase (SPR)-like,
classical (c) SDRs. Human SPR, a member of the SDR
family, catalyzes the NADP-dependent reduction of
sepiaptern to 7,8-dihydrobiopterin (BH2). In addition to
SPRs, this subgroup also contains Bacillus cereus yueD,
a benzil reductase, which catalyzes the stereospecific
reduction of benzil to (S)-benzoin. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 241
Score = 35.3 bits (82), Expect = 0.020
Identities = 20/87 (22%), Positives = 32/87 (36%), Gaps = 10/87 (11%)
Query: 91 LDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV---FGLGFSHTEDGFETTFQVNHLAHFY 147
DL V++ E +K ++L+ NAG D + F +N
Sbjct: 56 ADLSDAAGVEQLLEAIRKLDGERDLLINNAGSLGPVSKIEFIDLDELQKYFDLN----LT 111
Query: 148 LTLQLENALIKGAKLFA---RVVVVSS 171
+ L + L++ K VV VSS
Sbjct: 112 SPVCLTSTLLRAFKKRGLKKTVVNVSS 138
>gnl|CDD|234422 TIGR03971, SDR_subfam_1, oxidoreductase, SDR family. Members of
this protein subfamily are putative oxidoreductases
belonging to the larger SDR family. Members of the
present subfamily may occur several to a genome and are
largely restricted to genomes that contain members of
families TIGR03962, TIGR03967, and TIGR03969. Many
members have been annotated by homology as carveol
dehydrogenases.
Length = 265
Score = 35.2 bits (81), Expect = 0.028
Identities = 17/57 (29%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 87 IAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH--TEDGFETTFQVN 141
+A + D+ L V+ E+ ++F L+++V NAGV G S +E+ ++T +N
Sbjct: 68 LARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYGRSWELSEEQWDTVLDIN 124
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 35.2 bits (81), Expect = 0.029
Identities = 21/106 (19%), Positives = 41/106 (38%), Gaps = 4/106 (3%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG- 126
+ +S+ L P+ +DL ++ ++ +E ++F L+ LV AG F G
Sbjct: 38 GRGAAPLSQTLPGVPADALRIGGIDLVDPQAARRAVDEVNRQFGRLDALVNIAGAFVWGT 97
Query: 127 -FSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
D ++ + VN + AL R+V + +
Sbjct: 98 IADGDADTWDRMYGVNVKTTLNASKAALPALTASGG--GRIVNIGA 141
>gnl|CDD|187627 cd05369, TER_DECR_SDR_a, Trans-2-enoyl-CoA reductase (TER) and
2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR.
TTER is a peroxisomal protein with a proposed role in
fatty acid elongation. Fatty acid synthesis is known to
occur in the both endoplasmic reticulum and
mitochondria; peroxisomal TER has been proposed as an
additional fatty acid elongation system, it reduces the
double bond at C-2 as the last step of elongation. This
system resembles the mitochondrial system in that
acetyl-CoA is used as a carbon donor. TER may also
function in phytol metabolism, reducting phytenoyl-CoA
to phytanoyl-CoA in peroxisomes. DECR processes double
bonds in fatty acids to increase their utility in fatty
acid metabolism; it reduces 2,4-dienoyl-CoA to an
enoyl-CoA. DECR is active in mitochondria and
peroxisomes. This subgroup has the Gly-rich NAD-binding
motif of the classical SDR family, but does not display
strong identity to the canonical active site tetrad, and
lacks the characteristic Tyr at the usual position. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 249
Score = 34.5 bits (80), Expect = 0.045
Identities = 20/94 (21%), Positives = 42/94 (44%), Gaps = 3/94 (3%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNA-GVFGLG 126
+ A +I + + ++ D+ ++V+ +E K+F ++IL+ NA G F
Sbjct: 38 EVLEAAAEEI-SSATGGRAHPIQCDVRDPEAVEAAVDETLKEFGKIDILINNAAGNFLAP 96
Query: 127 FSH-TEDGFETTFQVNHLAHFYLTLQLENALIKG 159
+ +GF+T ++ F T + LI+
Sbjct: 97 AESLSPNGFKTVIDIDLNGTFNTTKAVGKRLIEA 130
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 34.3 bits (79), Expect = 0.048
Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 8/83 (9%)
Query: 63 YQNCWDKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
Y A++ +++I E + IA++ D+ +V + + + F +++LV NAGV
Sbjct: 36 YAGSAAAADELVAEI--EAAGGRAIAVQADVADAAAVTRLFDAAETAFGRIDVLVNNAGV 93
Query: 123 FGLG----FSHTEDGFETTFQVN 141
LG F + F+ T N
Sbjct: 94 MPLGTIADFD--LEDFDRTIATN 114
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 33.9 bits (78), Expect = 0.058
Identities = 20/94 (21%), Positives = 46/94 (48%), Gaps = 7/94 (7%)
Query: 67 WDKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG 126
WD+ ++ L EK + +++DL + +S +K +E ++F ++ILV NAG
Sbjct: 51 WDE-----TRRLIEKEGRKVTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNAGTIRRA 105
Query: 127 --FSHTEDGFETTFQVNHLAHFYLTLQLENALIK 158
+ ++ + +N + ++L+ + + K
Sbjct: 106 PLLEYKDEDWNAVMDINLNSVYHLSQAVAKVMAK 139
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 33.6 bits (78), Expect = 0.070
Identities = 22/106 (20%), Positives = 49/106 (46%), Gaps = 5/106 (4%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF 127
+ +A+ + + +A++ D+ +SV++ +E + +F ++ILV NAG+
Sbjct: 40 EAGAEALVAEIGAL-GGKALAVQGDVSDAESVERAVDEAKAEFGGVDILVNNAGITRDNL 98
Query: 128 SH--TEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
E+ ++ N F LT + ++K R++ +SS
Sbjct: 99 LMRMKEEDWDRVIDTNLTGVFNLTKAVARPMMKQR--SGRIINISS 142
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 33.9 bits (78), Expect = 0.073
Identities = 15/81 (18%), Positives = 35/81 (43%), Gaps = 2/81 (2%)
Query: 71 NDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGL--GFS 128
++ ++++ + + D+ +SV+ F ++ILV +AGV L
Sbjct: 48 SEDVAEVAAQLLGGNAKGLVCDVSDSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAED 107
Query: 129 HTEDGFETTFQVNHLAHFYLT 149
+E+ ++ T +N F +
Sbjct: 108 VSEEDWDKTIDINLKGSFLMA 128
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 34.0 bits (78), Expect = 0.077
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 13/74 (17%)
Query: 110 FRSLNILVLNAGVF--GLGFSHTEDGFETTFQVNHLAHFYLTLQLENALI--------KG 159
L+I+V NAG+ + F+ +++ ++ V+ HF LT NA G
Sbjct: 87 LGGLDIVVNNAGITRDRMLFNMSDEEWDAVIAVHLRGHFLLT---RNAAAYWRAKAKAAG 143
Query: 160 AKLFARVVVVSSES 173
++ R+V SSE+
Sbjct: 144 GPVYGRIVNTSSEA 157
>gnl|CDD|187610 cd05352, MDH-like_SDR_c, mannitol dehydrogenase (MDH)-like,
classical (c) SDRs. NADP-mannitol dehydrogenase
catalyzes the conversion of fructose to mannitol, an
acyclic 6-carbon sugar. MDH is a tetrameric member of
the SDR family. This subgroup also includes various
other tetrameric SDRs, including Pichia stipitis
D-arabinitol dehydrogenase (aka polyol dehydrogenase),
Candida albicans Sou1p, a sorbose reductase, and Candida
parapsilosis (S)-specific carbonyl reductase (SCR, aka
S-specific alcohol dehydrogenase) which catalyzes the
enantioselective reduction of 2-hydroxyacetophenone into
(S)-1-phenyl-1,2-ethanediol. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser).
Length = 252
Score = 33.8 bits (78), Expect = 0.079
Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV-FGLG 126
+ ++ L +K + A + D+ +SV+K ++ QK F ++IL+ NAG+
Sbjct: 42 APRAEEKAEELAKKYGVKTKAYKCDVSSQESVEKTFKQIQKDFGKIDILIANAGITVHKP 101
Query: 127 F-SHTEDGFETTFQVNHLAHFY 147
+T + + VN F
Sbjct: 102 ALDYTYEQWNKVIDVNLNGVFN 123
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 248
Score = 33.5 bits (77), Expect = 0.10
Identities = 21/79 (26%), Positives = 32/79 (40%), Gaps = 13/79 (16%)
Query: 82 PSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH--------TEDG 133
IA++ D+ + V+ E KF L+ILV NA G +H E+
Sbjct: 49 IGEAAIAIQADVTKRADVEAMVEAALSKFGRLDILVNNA-----GITHRNKPMLEVDEEE 103
Query: 134 FETTFQVNHLAHFYLTLQL 152
F+ F VN + + L
Sbjct: 104 FDRVFAVNVKSIYLSAQAL 122
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like,
classical (c) SDRs. Ga5DH catalyzes the NADP-dependent
conversion of carbon source D-gluconate and
5-keto-D-gluconate. This SDR subgroup has a classical
Gly-rich NAD(P)-binding motif and a conserved active
site tetrad pattern. However, it has been proposed that
Arg104 (Streptococcus suis Ga5DH numbering), as well as
an active site Ca2+, play a critical role in catalysis.
In addition to Ga5DHs this subgroup contains Erwinia
chrysanthemi KduD which is involved in pectin
degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 33.1 bits (76), Expect = 0.12
Identities = 21/90 (23%), Positives = 39/90 (43%), Gaps = 8/90 (8%)
Query: 74 ISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH---- 129
++ L EK + A D+ +++K E ++ F ++ILV NA G+ H
Sbjct: 44 EAQQLIEKEGVEATAFTCDVSDEEAIKAAVEAIEEDFGKIDILVNNA---GIIRRHPAEE 100
Query: 130 -TEDGFETTFQVNHLAHFYLTLQLENALIK 158
E + VN F+++ + +IK
Sbjct: 101 FPEAEWRDVIDVNLNGVFFVSQAVARHMIK 130
>gnl|CDD|187624 cd05366, meso-BDH-like_SDR_c, meso-2,3-butanediol
dehydrogenase-like, classical (c) SDRs. 2,3-butanediol
dehydrogenases (BDHs) catalyze the NAD+ dependent
conversion of 2,3-butanediol to acetonin; BDHs are
classified into types according to their
stereospecificity as to substrates and products.
Included in this subgroup are Klebsiella pneumonia
meso-BDH which catalyzes meso-2,3-butanediol to
D(-)-acetonin, and Corynebacterium glutamicum L-BDH
which catalyzes lX+)-2,3-butanediol to L(+)-acetonin.
This subgroup is comprised of classical SDRs with the
characteristic catalytic triad and NAD-binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 33.1 bits (76), Expect = 0.13
Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 83 SAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG--FSHTEDGFETTFQV 140
+A+ D+ V+ ++ +KF S +++V NAG+ + + TE+ + + V
Sbjct: 51 GYNAVAVGADVTDKDDVEALIDQAVEKFGSFDVMVNNAGIAPITPLLTITEEDLKKVYAV 110
Query: 141 N 141
N
Sbjct: 111 N 111
>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 = 32.8 bits (75), Expect = 0.14
Identities = 27/130 (20%), Positives = 54/130 (41%), Gaps = 28/130 (21%)
Query: 72 DAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG---------- 121
D ++K +T + IA+ D+ S+++ EE +F +++IL+ AG
Sbjct: 43 DKVAKEITALG-GRAIALAADVLDRASLERAREEIVAQFGTVDILINGAGGNHPDATTDP 101
Query: 122 ----------VFGLGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
F L E+G+E F +N F + +++ ++ +SS
Sbjct: 102 EHYEPETEQNFFDL----DEEGWEFVFDLNLNGSFLPSQVFGKDMLEQKG--GSIINISS 155
Query: 172 ESHRYSYITK 181
+ +S +TK
Sbjct: 156 MN-AFSPLTK 164
>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 = 32.7 bits (75), Expect = 0.15
Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 4/80 (5%)
Query: 72 DAISKILTEKPSAQCIAM--ELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH 129
DA +++ E + A+ + D+ + + V + K+F +L+ILV NAG+ G SH
Sbjct: 39 DAAEEVVEEIKAVGGKAIAVQADVSKEEDVVALFQSAIKEFGTLDILVNNAGLQGDASSH 98
Query: 130 --TEDGFETTFQVNHLAHFY 147
T + + VN F
Sbjct: 99 EMTLEDWNKVIDVNLTGQFL 118
>gnl|CDD|213929 TIGR04316, dhbA_paeA, 2,3-dihydro-2,3-dihydroxybenzoate
dehydrogenase. Members of this family are
2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase (EC
1.3.1.28), the third enzyme in the biosynthesis of
2,3-dihydroxybenzoic acid (DHB) from chorismate. The
first two enzymes are isochorismate synthase (EC
5.4.4.2) and isochorismatase (EC 3.3.2.1). Synthesis is
often followed by adenylation by the enzyme DHBA-AMP
ligase (EC 2.7.7.58) to activate (DHB) for a
non-ribosomal peptide synthetase.
Length = 250
Score = 32.6 bits (75), Expect = 0.16
Identities = 20/90 (22%), Positives = 42/90 (46%), Gaps = 12/90 (13%)
Query: 88 AMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH--TEDGFETTFQVNHLAH 145
+LD+ +V + + ++++ +++LV AG+ LG +++ ++ TF VN
Sbjct: 51 TYKLDVADSAAVDEVVQRLEREYGPIDVLVNVAGILRLGAIDSLSDEDWQATFAVNTFGV 110
Query: 146 FYLTLQLENALIKGAKLFAR----VVVVSS 171
F ++ A+ K R +V V S
Sbjct: 111 FNVS----QAVSPRMK--RRRSGAIVTVGS 134
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 32.9 bits (76), Expect = 0.18
Identities = 24/109 (22%), Positives = 46/109 (42%), Gaps = 4/109 (3%)
Query: 66 CWDKANDAISKILTE-KPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF- 123
D +A E + + + D+ +V+ EE F ++I+V NAG+
Sbjct: 451 LADLDEEAAEAAAAELGGPDRALGVACDVTDEAAVQAAFEEAALAFGGVDIVVSNAGIAI 510
Query: 124 -GLGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSS 171
G +++ + +F VN HF L + ++K L +V ++S
Sbjct: 511 SGPIEETSDEDWRRSFDVNATGHF-LVAREAVRIMKAQGLGGSIVFIAS 558
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 32.4 bits (74), Expect = 0.18
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 99 VKKFAEEYQKKFRSLNILVLNAGVFGL-GFSH-TEDGFETTFQVNHLAHFYLTLQ 151
VKK E +K+F +++LV NAG+ L F E+ + ++N Y T +
Sbjct: 66 VKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFDEEKYNKMIKINLNGAIYTTYE 120
>gnl|CDD|187621 cd05363, SDH_SDR_c, Sorbitol dehydrogenase (SDH), classical (c)
SDR. This bacterial subgroup includes Rhodobacter
sphaeroides SDH, and other SDHs. SDH preferentially
interconverts D-sorbitol (D-glucitol) and D-fructose,
but also interconverts L-iditol/L-sorbose and
galactitol/D-tagatose. SDH is NAD-dependent and is a
dimeric member of the SDR family. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 254
Score = 32.2 bits (73), Expect = 0.26
Identities = 19/90 (21%), Positives = 44/90 (48%), Gaps = 3/90 (3%)
Query: 88 AMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG--FSHTEDGFETTFQVNHLAH 145
A+ LD+ S+ + ++ S++ILV NA +F L T + ++ F +N
Sbjct: 53 AISLDVTDQASIDRCVAALVDRWGSIDILVNNAALFDLAPIVDITRESYDRLFAINVSGT 112
Query: 146 FYLTLQLENALIKGAKLFARVVVVSSESHR 175
++ + A+I + +++ ++S++ R
Sbjct: 113 LFMMQAVARAMIAQGR-GGKIINMASQAGR 141
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 32.0 bits (73), Expect = 0.26
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 5/78 (6%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG--VFGL 125
+K + + KI + A +A LD+ SVK F + ++ + +LV AG FG
Sbjct: 45 EKCEELVDKIRADGGEA--VAFPLDVTDPDSVKSFVAQAEEALGEIEVLVSGAGDTYFGK 102
Query: 126 GFSHTEDGFETTFQVNHL 143
+ + FE+ Q+ HL
Sbjct: 103 LHEISTEQFESQVQI-HL 119
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 32.0 bits (73), Expect = 0.34
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 88 AMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG 121
A+ DL L +V + +K+ ++IL+ NAG
Sbjct: 93 AVPCDLSDLDAVDALVADVEKRIGGVDILINNAG 126
>gnl|CDD|187583 cd05322, SDH_SDR_c_like, Sorbitol 6-phosphate dehydrogenase (SDH),
classical (c) SDRs. Sorbitol 6-phosphate dehydrogenase
(SDH, aka glucitol 6-phosphate dehydrogenase) catalyzes
the NAD-dependent interconversion of D-fructose
6-phosphate to D-sorbitol 6-phosphate. SDH is a member
of the classical SDRs, with the characteristic catalytic
tetrad, but without a complete match to the typical
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 31.3 bits (71), Expect = 0.42
Identities = 21/93 (22%), Positives = 45/93 (48%), Gaps = 17/93 (18%)
Query: 92 DLCRLKSVKKFAEEYQKKFRSLNILVLNAGV--------FGLGFSHTEDGFETTFQVNHL 143
D +SV ++ + F+ +++LV +AG+ F LG F+ + QVN +
Sbjct: 60 DATNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKITDFELG------DFDRSLQVNLV 113
Query: 144 AHFYLTLQLENALIK-GAKLFARVVVVSSESHR 175
+F + +I+ G + R++ ++S+S +
Sbjct: 114 GYFLCAREFSKLMIRDGIQ--GRIIQINSKSGK 144
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 31.7 bits (73), Expect = 0.43
Identities = 27/97 (27%), Positives = 43/97 (44%), Gaps = 22/97 (22%)
Query: 88 AMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHT---------EDGFETTF 138
A+ LD+ + + AE ++ L+I+V NAG+ T E +++
Sbjct: 260 ALALDITAPDAPARIAEHLAERHGGLDIVVHNAGI-------TRDKTLANMDEARWDSVL 312
Query: 139 QVNHLAHFYLTLQLENALIKGAKLF--ARVVVVSSES 173
VN LA L++ AL+ L R+V VSS S
Sbjct: 313 AVNLLA----PLRITEALLAAGALGDGGRIVGVSSIS 345
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 31.5 bits (72), Expect = 0.44
Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 84 AQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF--SHTEDGFETTFQVN 141
A+ + + D+ V+ A+ ++F ++++L NAGV G ++ +E VN
Sbjct: 55 AEVLGVRTDVSDAAQVEALADAALERFGAVHLLFNNAGVGAGGLVWENSLADWEWVLGVN 114
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 31.1 bits (70), Expect = 0.50
Identities = 14/58 (24%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 67 WDKANDAISKILTE--KPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
++ + +A ++ E K A++ D+ +++ + EE F ++ILV NAG+
Sbjct: 37 YNSSKEAAENLVNELGKEGHDVYAVQADVSKVEDANRLVEEAVNHFGKVDILVNNAGI 94
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 31.0 bits (71), Expect = 0.51
Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 14/88 (15%)
Query: 92 DLCRLKSVKKFAEEYQKKFRSLNILVLNAG---VFGLGFSH-TEDGFETTFQVNHLAHFY 147
DL + A ++ ++ILV G GF+ T++ ++ +N LA
Sbjct: 57 DLTTAEGCAAVARAVLERLGGVDILVHVLGGSSAPAGGFAALTDEEWQDELNLNLLA--- 113
Query: 148 LTLQLENALIKGAKLFAR----VVVVSS 171
++L+ AL+ G + AR ++ V+S
Sbjct: 114 -AVRLDRALLPG--MIARGSGVIIHVTS 138
>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 = 31.2 bits (71), Expect = 0.56
Identities = 19/88 (21%), Positives = 40/88 (45%), Gaps = 5/88 (5%)
Query: 87 IAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF---GLGFSHTEDGFETTFQVNHL 143
+ ++ D+ V+ E+ +F L+I+V NAG+ + + ED + + +N
Sbjct: 52 LGVQCDVTSEAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAETSLED-WNRSMDINLT 110
Query: 144 AHFYLTLQLENALIKGAKLFARVVVVSS 171
HF L + ++K + +V +S
Sbjct: 111 GHF-LVSREAFRIMKSQGIGGNIVFNAS 137
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 31.1 bits (71), Expect = 0.61
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 10/71 (14%)
Query: 82 PSAQCIAMEL---DLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF-GLGFSHTEDGFETT 137
P A+ + ++L CR +V++ ++ + ++ LV NAGV G+G + F +
Sbjct: 55 PRAEFVQVDLTDDAQCR-DAVEQTVAKFGR----IDGLVNNAGVNDGVGLEAGREAFVAS 109
Query: 138 FQVNHLAHFYL 148
+ N L H+Y+
Sbjct: 110 LERN-LIHYYV 119
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 30.8 bits (70), Expect = 0.62
Identities = 25/122 (20%), Positives = 51/122 (41%), Gaps = 17/122 (13%)
Query: 63 YQNCWDKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNA-- 120
Y A + +I E + +A++ ++ ++ +K+ + ++F L++ V NA
Sbjct: 35 YARSRKAAEETAEEI--EALGRKALAVKANVGDVEKIKEMFAQIDEEFGRLDVFVNNAAS 92
Query: 121 GVFGLGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLF-----ARVVVVSS-ESH 174
GV E ++ T +N A + + AKL +++ +SS S
Sbjct: 93 GVLRPAMELEESHWDWTMNINAKALLFCAQE-------AAKLMEKVGGGKIISLSSLGSI 145
Query: 175 RY 176
RY
Sbjct: 146 RY 147
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also an active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 235
Score = 30.8 bits (70), Expect = 0.62
Identities = 26/131 (19%), Positives = 50/131 (38%), Gaps = 24/131 (18%)
Query: 78 LTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHTEDGFETT 137
L K + + + LD+ +S+K A + + +++++ NAGV E E
Sbjct: 44 LVAKYGDKVVPLRLDVTDPESIKAAAA----QAKDVDVVINNAGVLKPATLLEEGALEAL 99
Query: 138 FQVNHL-AHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYITKDTISKSVLSVENYSD 196
Q + + + L+L A K +V ++ SV + +
Sbjct: 100 KQ--EMDVNVFGLLRLAQAFAPVLKANGGGAIV-----------------NLNSVASLKN 140
Query: 197 FWAMTAYNDTK 207
F AM Y+ +K
Sbjct: 141 FPAMGTYSASK 151
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 30.9 bits (70), Expect = 0.65
Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
Query: 85 QCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV-FGLGFSH-TEDGFETTFQVNH 142
+ +MELDL + + K+ + ++ +ILV NA FS+ T + + + VN
Sbjct: 69 KVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNNDFSNLTAEELDKHYMVNV 128
Query: 143 LAHFYLTLQLENALIKG 159
A L+ Q K
Sbjct: 129 RATTLLSSQFARGFDKK 145
>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 = 30.8 bits (70), Expect = 0.67
Identities = 10/56 (17%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 70 ANDAISKILTEKPSAQ---CIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
+ ++ + I + D+ + + +F L+ILV NAG+
Sbjct: 33 FGEEGAEAAAKVAGDAGGSVIYLPADVTKEDEIADMIAAAAAEFGGLDILVNNAGI 88
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 30.4 bits (69), Expect = 0.88
Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG 121
++ A +++ + P A+ +A D+ V FA + +F +++LV NAG
Sbjct: 43 ERLASAEARLREKFPGARLLAARCDVLDEADVAAFAAAVEARFGGVDMLVNNAG 96
>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 = 30.5 bits (69), Expect = 0.97
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 85 QCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH-----TEDGFETTFQ 139
+ +A +LD+ V ++ +KF +++V NAGV TE+ + +
Sbjct: 50 KAVAYKLDVSDKDQVFSAIDQAAEKFGGFDVMVNNAGV---APITPILEITEEELKKVYN 106
Query: 140 VN 141
VN
Sbjct: 107 VN 108
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 30.2 bits (68), Expect = 1.0
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLG- 126
D AN + +I Q A D+ + + A+ K ++ILV NAG G G
Sbjct: 46 DAANHVVDEIQQL--GGQAFACRCDITSEQELSALADFALSKLGKVDILVNNAG--GGGP 101
Query: 127 --FSHTEDGFETTFQVNHLAHFYLTLQL 152
F F +++N + F+L+ QL
Sbjct: 102 KPFDMPMADFRRAYELNVFSFFHLS-QL 128
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 30.3 bits (69), Expect = 1.0
Identities = 24/112 (21%), Positives = 45/112 (40%), Gaps = 15/112 (13%)
Query: 69 KANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGF- 127
N+ + + E S + +ELD+ +S+++F + +K+ ++ V A +
Sbjct: 40 ALNELLESLGKEFKSKKLSLVELDITDQESLEEFLSKSAEKYGKIDGAVNCAYPRNKDYG 99
Query: 128 SHTEDGFETTFQVN---HLAHFYLTLQLENALIKGAKLFAR-----VVVVSS 171
D F N HL +L Q + AK F + +V +SS
Sbjct: 100 KKFFDVSLDDFNENLSLHLGSSFLFSQ------QFAKYFKKQGGGNLVNISS 145
>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 = 30.0 bits (68), Expect = 1.0
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 4/66 (6%)
Query: 110 FRSLNILVLNAGVFGLG--FSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVV 167
F +++LV NAG+ ++ E F +N +A LT L AL + RVV
Sbjct: 71 FGRIDVLVHNAGIGRPTTLREGSDAELEAHFSINVIAPAELTRALLPALREAGS--GRVV 128
Query: 168 VVSSES 173
++S S
Sbjct: 129 FLNSLS 134
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 30.6 bits (69), Expect = 1.1
Identities = 12/45 (26%), Positives = 25/45 (55%)
Query: 88 AMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHTED 132
A+ +D+ +++ E+ ++F +++LV NAGV + T D
Sbjct: 55 ALAMDVSDEAQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATLD 99
>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 = 30.1 bits (68), Expect = 1.1
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 113 LNILVLNAG--VFGLGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVS 170
LNILV NAG + +TE+ + N A ++L+ +L + L+K + +V +S
Sbjct: 85 LNILVNNAGTNIRKEAKDYTEEDYSLIMSTNFEAAYHLS-RLAHPLLKASGN-GNIVFIS 142
Query: 171 S 171
S
Sbjct: 143 S 143
>gnl|CDD|237459 PRK13655, PRK13655, phosphoenolpyruvate carboxylase; Provisional.
Length = 494
Score = 30.3 bits (69), Expect = 1.2
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 56 VQSSKLFYQNCWDKANDAISKILTEKPSAQCIAMELDLCRLKSV-KKFAEEYQKKFRSL 113
VQS+ Y +++ AI +I + + I E D L + +K++E YQ + L
Sbjct: 272 VQSA-FRYDYPYEEVKKAIEEINEKLIAPPRILSEEDKEELLEIIEKYSERYQSQIEKL 329
>gnl|CDD|187587 cd05326, secoisolariciresinol-DH_like_SDR_c, secoisolariciresinol
dehydrogenase (secoisolariciresinol-DH)-like, classical
(c) SDRs. Podophyllum secoisolariciresinol-DH is a homo
tetrameric, classical SDR that catalyzes the
NAD-dependent conversion of (-)-secoisolariciresinol to
(-)-matairesinol via a (-)-lactol intermediate.
(-)-Matairesinol is an intermediate to various
8'-lignans, including the cancer-preventive mammalian
lignan, and those involved in vascular plant defense.
This subgroup also includes rice momilactone A synthase
which catalyzes the conversion of
3beta-hydroxy-9betaH-pimara-7,15-dien-19,6beta-olide
into momilactone A, Arabidopsis ABA2 which during
abscisic acid (ABA) biosynthesis, catalyzes the
conversion of xanthoxin to abscisic aldehyde and, maize
Tasselseed2 which participate in the maize sex
determination pathway. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 30.1 bits (68), Expect = 1.3
Identities = 21/67 (31%), Positives = 26/67 (38%), Gaps = 19/67 (28%)
Query: 108 KKFRSLNILVLNAGVFG------LGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAK 161
+F L+I+ NAGV G L S E FE VN F G K
Sbjct: 75 ARFGRLDIMFNNAGVLGAPCYSILETSLEE--FERVLDVNVYGAFL-----------GTK 121
Query: 162 LFARVVV 168
ARV++
Sbjct: 122 HAARVMI 128
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 30.1 bits (68), Expect = 1.3
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 10/77 (12%)
Query: 70 ANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSH 129
A A K+ K + IA++ D+ V + F LN++V NAGV +
Sbjct: 39 AQAAADKL--SKDGGKAIAVKADVSDRDQVFAAVRQVVDTFGDLNVVVNNAGV---APTT 93
Query: 130 -----TEDGFETTFQVN 141
TE+ F+ + +N
Sbjct: 94 PIETITEEQFDKVYNIN 110
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 29.7 bits (67), Expect = 1.3
Identities = 24/109 (22%), Positives = 46/109 (42%), Gaps = 8/109 (7%)
Query: 71 NDAISKILTE----KPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG--VFG 124
DA+++ E P + + D+ + + + + + L+ILV NAG +
Sbjct: 43 ADALAQARDELAEEFPEREVHGLAADVSDDEDRRAILDWVEDHWDGLHILVNNAGGNIRK 102
Query: 125 LGFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSES 173
+TED + F+ N + F L+ L + A + +V + S S
Sbjct: 103 AAIDYTEDEWRGIFETNLFSAFELSRYAHPLLKQHAS--SAIVNIGSVS 149
>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 = 29.7 bits (67), Expect = 1.4
Identities = 21/93 (22%), Positives = 39/93 (41%), Gaps = 8/93 (8%)
Query: 85 QCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHTEDG----FETTFQV 140
Q + + +D+ V+ E +F L+ILV NAG + S ED F+ +V
Sbjct: 65 QALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNAGA--IWLSLVEDTPAKRFDLMQRV 122
Query: 141 NHLAHFYLTLQLENALIKGAKLFARVVVVSSES 173
N + L+ ++K + ++ +S
Sbjct: 123 NLRGTYLLSQAALPHMVKAGQ--GHILNISPPL 153
>gnl|CDD|235724 PRK06178, PRK06178, acyl-CoA synthetase; Validated.
Length = 567
Score = 30.4 bits (69), Expect = 1.4
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 99 VKKFAEEYQKKFRSLNILVLNAGVFGLGFSHTEDGFETTFQVN 141
VKK +Y++++R+L VL +G+ +HT D F FQ +
Sbjct: 336 VKKLNPDYRQRWRALTGSVLAEAAWGMTETHTCDTFTAGFQDD 378
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 29.7 bits (67), Expect = 1.7
Identities = 16/60 (26%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 63 YQNCWDKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
Y++ ++AND +I +K + IA++ D+ V + K+F +L++++ NAG+
Sbjct: 38 YRSDEEEANDVAEEI--KKAGGEAIAVKGDVTVESDVVNLIQTAVKEFGTLDVMINNAGI 95
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 29.6 bits (67), Expect = 1.7
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 104 EEYQKKFRSLNILVLNAGVFGLGFSHTEDGFETTFQVNHLAHFYLTLQLEN 154
E K+ SL++L+LN G+ G E+ ++N L+ + L E+
Sbjct: 71 ESLDKQLASLDVLILNHGINPGGRQDPEN-INKALEINALSSWRLLELFED 120
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 29.5 bits (67), Expect = 1.8
Identities = 15/61 (24%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 90 ELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHT--EDGFETTFQVNHLAHFY 147
LD+ +V + + + L++LV AG+ +G + + ++ ++ TF VN F
Sbjct: 54 VLDVSDAAAVAQVCQRLLAETGPLDVLVNAAGILRMGATDSLSDEDWQQTFAVNAGGAFN 113
Query: 148 L 148
L
Sbjct: 114 L 114
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 29.1 bits (66), Expect = 2.2
Identities = 20/72 (27%), Positives = 29/72 (40%), Gaps = 13/72 (18%)
Query: 91 LDLCR---LKSVKKFAEEYQKKFRSLNILVLNAGV--FGLGFSHTEDGFETTFQVNHLAH 145
DL ++V A E +N+L+ NAGV F L + E +N A
Sbjct: 60 ADLTSEAGREAVLARAREMGG----INVLINNAGVNHFALLEDQDPEAIERLLALNLTA- 114
Query: 146 FYLTLQLENALI 157
+QL AL+
Sbjct: 115 ---PMQLTRALL 123
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 29.2 bits (65), Expect = 2.2
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 11/94 (11%)
Query: 76 KILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG-------VFGLGFS 128
K + E+ + + + DL K + E K L+I+ L AG + L
Sbjct: 92 KKIIEECGRKAVLLPGDLSDEKFARSLVHEAHKALGGLDIMALVAGKQVAIPDIADL--- 148
Query: 129 HTEDGFETTFQVNHLAHFYLTLQLENALIKGAKL 162
T + F+ TF +N A F+LT + L KGA +
Sbjct: 149 -TSEQFQKTFAINVFALFWLTQEAIPLLPKGASI 181
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 29.0 bits (66), Expect = 2.5
Identities = 21/88 (23%), Positives = 33/88 (37%), Gaps = 18/88 (20%)
Query: 84 AQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG---VFGLGFSHTEDGFETTFQV 140
+ IA+ D+ V+ ++F S++ILV NAG G E F+ F V
Sbjct: 53 GRAIAVAADVSDEADVEAAVAAALERFGSVDILVNNAGTTHRNGPLLDVDEAEFDRIFAV 112
Query: 141 NHLAHFYLTLQLENALIKGAKLFARVVV 168
N +K L+ + V
Sbjct: 113 N---------------VKSPYLWTQAAV 125
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 28.9 bits (65), Expect = 2.6
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 2/76 (2%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG--VFGL 125
A A + I + A+ +A+ D+ SV ++ F L++LV NAG VF
Sbjct: 42 ALAERAAAAIARDVAGARVLAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNAGINVFAD 101
Query: 126 GFSHTEDGFETTFQVN 141
+ T++ + F V+
Sbjct: 102 PLAMTDEDWRRCFAVD 117
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 29.1 bits (66), Expect = 2.7
Identities = 22/116 (18%), Positives = 46/116 (39%), Gaps = 28/116 (24%)
Query: 87 IAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAG---------------------VFGL 125
+A++ D+ +S+++ ++ + F +IL+ AG F L
Sbjct: 62 LAVKADVLDKESLEQARQQILEDFGPCDILINGAGGNHPKATTDNEFHELIEPTKTFFDL 121
Query: 126 GFSHTEDGFETTFQVNHLAHFYLTLQLENALIKGAKLFARVVVVSSESHRYSYITK 181
E+GFE F +N L T ++ ++ +SS + ++ +TK
Sbjct: 122 ----DEEGFEFVFDLNLLGTLLPTQVFAKDMVGRKG--GNIINISSMN-AFTPLTK 170
>gnl|CDD|213621 TIGR01434, glu_cys_ligase, glutamate--cysteine ligase. Alternate
name: gamma-glutamylcysteine synthetase. This model
represents glutamate--cysteine ligase, and enzyme in the
biosynthesis of glutathione (GSH). GSH is one of several
low molecular weight cysteine derivatives that can serve
to protect against oxidative damage and participate in a
biosynthetic or detoxification reactions [Biosynthesis
of cofactors, prosthetic groups, and carriers,
Glutathione and analogs].
Length = 512
Score = 29.1 bits (65), Expect = 2.8
Identities = 12/42 (28%), Positives = 19/42 (45%)
Query: 82 PSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVF 123
SAQ + +D + FAE Y++ FR + +L F
Sbjct: 442 FSAQILRSMIDTGIGGTGLAFAEAYRELFREEPLEILEQERF 483
>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 = 28.5 bits (64), Expect = 3.1
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 84 AQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV--FGLGFSHTEDGFETTFQVN 141
+ IA+ D+ V++ A+ ++F ++ V NAGV FG T + F F VN
Sbjct: 49 GEAIAVVADVADAAQVERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPEEFRRVFDVN 108
Query: 142 HLAHFYLTL 150
+L H Y TL
Sbjct: 109 YLGHVYGTL 117
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 28.8 bits (65), Expect = 3.2
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 85 QCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
+ + D+ V++ + F L++L+ NAGV
Sbjct: 55 NVLGLAADVRDEADVQRAVDAIVAAFGGLDVLIANAGV 92
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 28.5 bits (64), Expect = 4.1
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 92 DLCRLKSVKKFAEEYQKKFRSLNILVLNAGV--FGLGFSHTEDGFETTFQVNHLAHFYLT 149
D+ + V E+ + + S++IL+ NAG+ FG +E QVN + +Y T
Sbjct: 64 DVSDYEEVTAAIEQLKNELGSIDILINNAGISKFGKFLELDPAEWEKIIQVNLMGVYYAT 123
>gnl|CDD|214373 CHL00139, rpl18, ribosomal protein L18; Validated.
Length = 109
Score = 27.3 bits (61), Expect = 4.5
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 157 IKGAKLFARVVVVSSESHRYSYITKDTISKSVLSVENYS-DFWAMTAYNDTKLCNVLFGE 215
IKG R+ V S H Y+ I DT K++++ D + + T + L G+
Sbjct: 9 IKGTAERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQ 68
Query: 216 KLATLWYKYKI 226
KLA K I
Sbjct: 69 KLAKKSLKKGI 79
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 27.9 bits (63), Expect = 5.9
Identities = 12/55 (21%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 68 DKANDAISKILTEKPSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGV 122
+ A A + +K + I + +D+ +++ + + F ++ILV NAG+
Sbjct: 39 EAAAAAAEAL--QKAGGKAIGVAMDVTDEEAINAGIDYAVETFGGVDILVNNAGI 91
>gnl|CDD|223058 PHA03366, PHA03366, FGAM-synthase; Provisional.
Length = 1304
Score = 28.1 bits (63), Expect = 6.6
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 4/42 (9%)
Query: 110 FRSLNILVLNAGVFG--LGFSHTEDGFETTFQVNHL--AHFY 147
R L VL G LGF + DG E + + A F+
Sbjct: 1183 LRPLRGSVLPCWAQGTHLGFRYPNDGMEYILRNSGQIAATFH 1224
>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 = 27.7 bits (62), Expect = 6.6
Identities = 23/96 (23%), Positives = 38/96 (39%), Gaps = 12/96 (12%)
Query: 82 PSAQCIAMELDLCRLKSVKKFAEEYQKKFRSLNILVLNAGVFGLGFSHT-EDG----FET 136
P+ LD+ + + E + + L+++++NAGV G + D F
Sbjct: 45 PNPSVEVEILDVTDEERNQLVIAELEAELGGLDLVIINAGV---GKGTSLGDLSFKAFRE 101
Query: 137 TFQVNHL-AHFYLTLQLENALIKGAKLFARVVVVSS 171
T N L A L L KG +V++SS
Sbjct: 102 TIDTNLLGAAAILEAALPQFRAKGR---GHLVLISS 134
>gnl|CDD|176897 cd08888, SRPBCC_PITPNA-B_like, Lipid-binding SRPBCC domain of
mammalian PITPNA, -B, and related proteins (Class I
PITPs). This subgroup includes the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of
mammalian Class 1 phosphatidylinositol transfer proteins
(PITPs), PITPNA/PITPalpha and PITPNB/PITPbeta,
Drosophila vibrator, and related proteins. These are
single domain proteins belonging to the PITP family of
lipid transfer proteins, and to the SRPBCC domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. In vitro, PITPs bind phosphatidylinositol
(PtdIns), as well as phosphatidylcholine (PtdCho) but
with a lower affinity. They transfer these lipids from
one membrane compartment to another. The cellular roles
of PITPs include inositol lipid signaling, PtdIns
metabolism, and membrane trafficking. In addition,
PITPNB transfers sphingomyelin in vitro, with a low
affinity. PITPNA is found chiefly in the nucleus and
cytoplasm; it is enriched in the brain and predominantly
localized in the axons. A reduced expression of PITPNA
contributes to the neurodegenerative phenotype of the
mouse vibrator mutation. The role of PITPNA in vivo may
be to provide PtdIns for localized PI3K-dependent
signaling, thereby controlling the polarized extension
of axonal processes. PITPNA homozygous null mice die
soon after birth from complicated organ failure,
including intestinal and hepatic steatosis,
hypoglycemia, and spinocerebellar disease. PITPNB is
associated with the Golgi and ER, and is highly
expressed in the liver. Deletion of the PITPNB gene
results in embryonic lethality. The PtdIns and PtdCho
exchange activity of PITPNB is required for
COPI-mediated retrograde transport from the Golgi to the
ER. Drosophila vibrator localizes to the ER, and has an
essential role in cytokinesis during mitosis and
meiosis.
Length = 258
Score = 27.4 bits (61), Expect = 7.7
Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 233 CCWK-ITVSKKWWRFGTPVRTFSWISRVRPVTNF 265
C +K +TV KWW V F R TNF
Sbjct: 190 CAYKLVTVEFKWWGLQNKVENFIQKQERRLFTNF 223
>gnl|CDD|215306 PLN02566, PLN02566, amine oxidase (copper-containing).
Length = 646
Score = 27.9 bits (62), Expect = 8.3
Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 135 ETTFQVNHLAHF---YLTLQLE---NALIKGAKLFARVVVVSSESHRYSYIT 180
E T VNH HF YL L ++ N+ +K ARV V++ S R SY T
Sbjct: 444 ENTIAVNH-DHFLTYYLDLDVDGNGNSFVKAKLQTARVTAVNASSPRKSYWT 494
>gnl|CDD|220265 pfam09491, RE_AlwI, AlwI restriction endonuclease. This family
includes the AlwI (recognises GGATC), Bsp6I (recognises
GC^NGC), BstNBI (recognises GASTC), PleI(recognises
GAGTC) and MlyI (recognises GAGTC) restriction
endonucleases.
Length = 429
Score = 27.4 bits (61), Expect = 9.3
Identities = 14/55 (25%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 148 LTLQLENALIKGAKLF----ARVVV-VSSESHRYSYITKDTISKSVLSVENYSDF 197
L Q+ + K +LF R ++ + +E SY++K+ I+ VL++ + +D
Sbjct: 41 LKYQIPSPYSKSCELFDIRPFRFLLKLLNELELESYLSKEEIALFVLTITDDNDI 95
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
0.323 0.135 0.431
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,304,410
Number of extensions: 1296216
Number of successful extensions: 1213
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1182
Number of HSP's successfully gapped: 116
Length of query: 292
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 196
Effective length of database: 6,679,618
Effective search space: 1309205128
Effective search space used: 1309205128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (26.6 bits)