RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9143
(100 letters)
>gnl|CDD|187611 cd05353, hydroxyacyl-CoA-like_DH_SDR_c-like, (3R)-hydroxyacyl-CoA
dehydrogenase-like, classical(c)-like SDRs. Beta
oxidation of fatty acids in eukaryotes occurs by a
four-reaction cycle, that may take place in mitochondria
or in peroxisomes. (3R)-hydroxyacyl-CoA dehydrogenase is
part of rat peroxisomal multifunctional MFE-2, it is a
member of the NAD-dependent SDRs, but contains an
additional small C-terminal domain that completes the
active site pocket and participates in dimerization. The
atypical, additional C-terminal extension allows for
more extensive dimerization contact than other SDRs.
MFE-2 catalyzes the second and third reactions of the
peroxisomal beta oxidation cycle. Proteins in this
subgroup have a typical catalytic triad, but have a His
in place of the usual upstream Asn. This subgroup also
contains members identified as 17-beta-hydroxysteroid
dehydrogenases, including human peroxisomal
17-beta-hydroxysteroid dehydrogenase type 4 (17beta-HSD
type 4, aka MFE-2, encoded by HSD17B4 gene) which is
involved in fatty acid beta-oxidation and steroid
metabolism. This subgroup also includes two SDR domains
of the Neurospora crassa and Saccharomyces cerevisiae
multifunctional beta-oxidation protein (MFP, aka Fox2).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 250
Score = 159 bits (403), Expect = 2e-50
Identities = 67/96 (69%), Positives = 81/96 (84%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
+RFDGRV +VTGAG GLGR+YAL AERGA VVVNDLGG R G GKSS AAD VV EI++
Sbjct: 1 LRFDGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKA 60
Query: 65 KGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
GGKAV +Y+SV DG+KIV+TA++ FGR+DI++NNA
Sbjct: 61 AGGKAVANYDSVEDGEKIVKTAIDAFGRVDILVNNA 96
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 106 bits (266), Expect = 1e-29
Identities = 47/96 (48%), Positives = 62/96 (64%), Gaps = 3/96 (3%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
DGRV IVTGAG G+GR++AL A GA VVVND+G DG AA VV EI + GG
Sbjct: 5 DGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAAGG 64
Query: 68 KAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
+AV + + + D D +V A+E FG +D+++NNA
Sbjct: 65 EAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNA 100
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 81.4 bits (201), Expect = 3e-20
Identities = 40/102 (39%), Positives = 60/102 (58%), Gaps = 12/102 (11%)
Query: 2 PEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAE 61
+ +R DG+ AI+TGAGAG+G+ A+ A GASVVV+D+ ++ AA+ VV E
Sbjct: 4 SDNLRLDGKCAIITGAGAGIGKEIAITFATAGASVVVSDI---------NADAANHVVDE 54
Query: 62 IRSKGGKAVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
I+ GG+A D S + + AL G++DI++NNA
Sbjct: 55 IQQLGGQAFACRCDITSEQELSALADFALSKLGKVDILVNNA 96
>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 = 78.1 bits (193), Expect = 4e-19
Identities = 41/95 (43%), Positives = 55/95 (57%), Gaps = 11/95 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA G+GR+ A LA GASVVVN S AA+ VVAEI + GGK
Sbjct: 3 GKVALVTGASRGIGRAIAKRLARDGASVVVNYAS--------SKAAAEEVVAEIEAAGGK 54
Query: 69 AV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
A+ D + ++ A + FG +DI++NNA
Sbjct: 55 AIAVQADVSDPSQVARLFDAAEKAFGGVDILVNNA 89
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 78.3 bits (194), Expect = 4e-19
Identities = 39/98 (39%), Positives = 60/98 (61%), Gaps = 11/98 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+ G+VAIVTGA G+GR+ A LLA+ GA VV+ + +AA ++ EI+ +
Sbjct: 2 KLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIA--------YDINEEAAQELLEEIKEE 53
Query: 66 GGKAVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG A+ D +S D + +V+ +E FG+IDI++NNA
Sbjct: 54 GGDAIAVKADVSSEEDVENLVEQIVEKFGKIDILVNNA 91
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 77.9 bits (192), Expect = 1e-18
Identities = 44/96 (45%), Positives = 58/96 (60%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA AGLGR+ AL LA GA+VVVND+ S+ A V+ EIR+ G
Sbjct: 11 SGKVAVVTGAAAGLGRAEALGLARLGATVVVNDVA--------SALDASDVLDEIRAAGA 62
Query: 68 KAVPDYNSVVD---GDKIVQTALENFGRIDIVINNA 100
KAV + D++V TA+ G +DIV+NNA
Sbjct: 63 KAVAVAGDISQRATADELVATAVG-LGGLDIVVNNA 97
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 75.6 bits (187), Expect = 3e-18
Identities = 39/98 (39%), Positives = 56/98 (57%), Gaps = 11/98 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+G+VA+VTGA G+GR+ A LA +GA+VV+N S A+ +VAEI +
Sbjct: 2 SLEGKVALVTGASRGIGRAIAERLAAQGANVVINYAS--------SEAGAEALVAEIGAL 53
Query: 66 GGKAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
GGKA+ V D + + V A FG +DI++NNA
Sbjct: 54 GGKALAVQGDVSDAESVERAVDEAKAEFGGVDILVNNA 91
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 75.3 bits (186), Expect = 5e-18
Identities = 41/98 (41%), Positives = 55/98 (56%), Gaps = 13/98 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R +G+VAIVTGA +G+G A A GA VVV D +AA+ V AEI +
Sbjct: 2 RLEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNE---------EAAERVAAEILA- 51
Query: 66 GGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG+A+ D + D + V ALE FG +DI++NNA
Sbjct: 52 GGRAIAVAADVSDEADVEAAVAAALERFGSVDILVNNA 89
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 74.6 bits (184), Expect = 1e-17
Identities = 41/98 (41%), Positives = 55/98 (56%), Gaps = 12/98 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R +G+VAI+TGA +G+GR+ A L A GA VVV + D +VAEIR++
Sbjct: 3 RLNGKVAIITGASSGIGRAAAKLFAREGAKVVVG---------ARRQAELDQLVAEIRAE 53
Query: 66 GGKAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
GG+AV V D +V A+E FG +DI NNA
Sbjct: 54 GGEAVALAGDVRDEAYAKALVALAVERFGGLDIAFNNA 91
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 74.0 bits (182), Expect = 1e-17
Identities = 39/98 (39%), Positives = 53/98 (54%), Gaps = 12/98 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
RFD +VAIVTGA G+G++YA LA GASVVV D+ + A+ V +I +
Sbjct: 3 RFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAE---------GAERVAKQIVAD 53
Query: 66 GGKAVPDYNSVVDGDK---IVQTALENFGRIDIVINNA 100
GG A+ V D D + + FG ID ++NNA
Sbjct: 54 GGTAIAVQVDVSDPDSAKAMADATVSAFGGIDYLVNNA 91
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 71.3 bits (175), Expect = 2e-16
Identities = 38/98 (38%), Positives = 54/98 (55%), Gaps = 11/98 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
F G+VA+VTG+ G+G++ AL LAE G + VN +S KAA+ EI +
Sbjct: 1 VFSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYA--------RSRKAAEETAEEIEAL 52
Query: 66 GGKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
G KA+ +V D +KI E FGR+D+ +NNA
Sbjct: 53 GRKALAVKANVGDVEKIKEMFAQIDEEFGRLDVFVNNA 90
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 71.9 bits (177), Expect = 3e-16
Identities = 36/95 (37%), Positives = 54/95 (56%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V ++TGA +G+GR+ A+ +AE GA+V + R+G+ A D +VAEIR+KGG
Sbjct: 371 GKVVLITGASSGIGRATAIKVAEAGATVFL----VARNGE-----ALDELVAEIRAKGGT 421
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
A D D V+ L G +D ++NNA
Sbjct: 422 AHAYTCDLTDSAAVDHTVKDILAEHGHVDYLVNNA 456
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 70.3 bits (173), Expect = 4e-16
Identities = 35/98 (35%), Positives = 51/98 (52%), Gaps = 12/98 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VA+VTGA +G+G AL LA+ GA VV+ DL + AA ++
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDE---------AAAAAAEALQKA 51
Query: 66 GGKAVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
GGKA+ D + + A+E FG +DI++NNA
Sbjct: 52 GGKAIGVAMDVTDEEAINAGIDYAVETFGGVDILVNNA 89
>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 = 69.7 bits (171), Expect = 6e-16
Identities = 38/96 (39%), Positives = 59/96 (61%), Gaps = 11/96 (11%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA +G+G++ A+ LA GA+VVVN + AA+ VV EI++ GG
Sbjct: 2 KGKVALVTGASSGIGKAIAIRLATAGANVVVNYRSKE--------DAAEEVVEEIKAVGG 53
Query: 68 KAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
KA+ V + + Q+A++ FG +DI++NNA
Sbjct: 54 KAIAVQADVSKEEDVVALFQSAIKEFGTLDILVNNA 89
>gnl|CDD|187617 cd05359, ChcA_like_SDR_c, 1-cyclohexenylcarbonyl_coenzyme
A_reductase (ChcA)_like, classical (c) SDRs. This
subgroup contains classical SDR proteins, including
members identified as 1-cyclohexenylcarbonyl coenzyme A
reductase. ChcA of Streptomyces collinus is implicated
in the final reduction step of shikimic acid to
ansatrienin. ChcA shows sequence similarity to the SDR
family of NAD-binding proteins, but it lacks the
conserved Tyr of the characteristic catalytic site. This
subgroup also contains the NADH-dependent
enoyl-[acyl-carrier-protein(ACP)] reductase FabL from
Bacillus subtilis. This enzyme participates in bacterial
fatty acid synthesis, in type II fatty-acid synthases
and catalyzes the last step in each elongation cycle.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 69.3 bits (170), Expect = 7e-16
Identities = 38/92 (41%), Positives = 49/92 (53%), Gaps = 11/92 (11%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTG G+G++ AL LAERGA VV+N KS AA V AEI GGKAV
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYR--------KSKDAAAEVAAEIEELGGKAVV 52
Query: 72 DYNSVVDGDKI---VQTALENFGRIDIVINNA 100
V + E FGR+D++++NA
Sbjct: 53 VRADVSQPQDVEEMFAAVKERFGRLDVLVSNA 84
>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 = 69.1 bits (170), Expect = 9e-16
Identities = 38/97 (39%), Positives = 52/97 (53%), Gaps = 18/97 (18%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA G+GR+ AL LA GA V V D S +AA V EI++ GG A
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDR---------SEEAAAETVEEIKALGGNA 51
Query: 70 ------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D +V + +V+ FG +DI++NNA
Sbjct: 52 AALEADVSDREAV---EALVEKVEAEFGPVDILVNNA 85
>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 = 69.3 bits (170), Expect = 9e-16
Identities = 39/98 (39%), Positives = 58/98 (59%), Gaps = 6/98 (6%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTV---VAEIRSK 65
G+VA VTGA G+GR+ AL LA+ GA+VVV +G + T+ EI +
Sbjct: 3 GKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIEAA 62
Query: 66 GGKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
GG+A+P V D D++ V+ ++ FGR+DI++NNA
Sbjct: 63 GGQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNA 100
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 69.1 bits (170), Expect = 1e-15
Identities = 39/98 (39%), Positives = 52/98 (53%), Gaps = 11/98 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
GRVA+VTGA GLGR+ AL LA GA VVV+ +AA+ +V + +
Sbjct: 3 SLMGRVALVTGAARGLGRAIALRLARAGADVVVHYRS--------DEEAAEELVEAVEAL 54
Query: 66 GGKAVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
G +A D + V A+E FGRIDI++NNA
Sbjct: 55 GRRAQAVQADVTDKAALEAAVAAAVERFGRIDILVNNA 92
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 68.8 bits (169), Expect = 2e-15
Identities = 38/97 (39%), Positives = 52/97 (53%), Gaps = 13/97 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
RF G+V +VTGA G+GR AL A GA VV+ D S+ V AE+R+
Sbjct: 5 RFAGKVVVVTGAAQGIGRGVALRAAAEGARVVLVD----------RSELVHEVAAELRAA 54
Query: 66 GGKAVP---DYNSVVDGDKIVQTALENFGRIDIVINN 99
GG+A+ D + + A+E FGRID++INN
Sbjct: 55 GGEALALTADLETYAGAQAAMAAAVEAFGRIDVLINN 91
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 67.9 bits (167), Expect = 3e-15
Identities = 38/101 (37%), Positives = 58/101 (57%), Gaps = 18/101 (17%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+ A+VTGA G+GR+ AL LA GA VV+ D + +AA+ + AE+R+
Sbjct: 2 SLQGKTALVTGASRGIGRAIALRLAADGAKVVIYDS---------NEEAAEALAAELRAA 52
Query: 66 GGKA------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG+A V D +V +++ A+E FG +DI++NNA
Sbjct: 53 GGEARVLVFDVSDEAAV---RALIEAAVEAFGALDILVNNA 90
>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 = 67.2 bits (165), Expect = 5e-15
Identities = 34/92 (36%), Positives = 51/92 (55%), Gaps = 11/92 (11%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTGA G+GR+ AL LA+ GA V++ S + A+ VV E+++ G KA+
Sbjct: 1 ALVTGASRGIGRAIALKLAKEGAKVIIT--------YRSSEEGAEEVVEELKAYGVKALG 52
Query: 72 ---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D + D +V+ E G IDI++NNA
Sbjct: 53 VVCDVSDREDVKAVVEEIEEELGPIDILVNNA 84
>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 = 67.2 bits (164), Expect = 5e-15
Identities = 36/100 (36%), Positives = 50/100 (50%), Gaps = 12/100 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VA+VTGA +G+GR+ A LA GA VVV +AA+ + A I+
Sbjct: 2 DLSGKVALVTGASSGIGRAIARALAREGARVVVA-------ARRSEEEAAEALAAAIKEA 54
Query: 66 GGKAVPDY-----NSVVDGDKIVQTALENFGRIDIVINNA 100
GG + + +V A E FGRIDI++NNA
Sbjct: 55 GGGRAAAVAADVSDDEESVEALVAAAEEEFGRIDILVNNA 94
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 67.2 bits (165), Expect = 7e-15
Identities = 34/100 (34%), Positives = 50/100 (50%), Gaps = 5/100 (5%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+ G+ +TGA G+G + AL A GA++V+ + K T EI
Sbjct: 1 MMSLSGKTLFITGASRGIGLAIALRAARDGANIVI--AAKTAEPHPKLPGTIHTAAEEIE 58
Query: 64 SKGGKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+ GG+A+P V D D++ V A+E FG IDI +NNA
Sbjct: 59 AAGGQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNA 98
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 65.7 bits (161), Expect = 2e-14
Identities = 38/103 (36%), Positives = 55/103 (53%), Gaps = 12/103 (11%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
MP G+VA++TG G LG + A LA GA V + D + + A+ VVA
Sbjct: 2 MPNLFSLKGKVAVITGGGGVLGGAMAKELARAGAKVAILDR---------NQEKAEAVVA 52
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQTA---LENFGRIDIVINNA 100
EI++ GG+A+ V+D + + Q LE+FG DI+IN A
Sbjct: 53 EIKAAGGEALAVKADVLDKESLEQARQQILEDFGPCDILINGA 95
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 65.1 bits (159), Expect = 3e-14
Identities = 32/95 (33%), Positives = 52/95 (54%), Gaps = 11/95 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V ++TG GLGR+ A+ + A VV+N + + A+ V EI+ GG+
Sbjct: 7 GKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEE--------ANDVAEEIKKAGGE 58
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
A+ D D ++QTA++ FG +D++INNA
Sbjct: 59 AIAVKGDVTVESDVVNLIQTAVKEFGTLDVMINNA 93
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 65.0 bits (159), Expect = 3e-14
Identities = 30/96 (31%), Positives = 44/96 (45%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+ A+VTGA GLG ++A LAE GA+V ND + A + A + + GG
Sbjct: 6 AGKRALVTGAARGLGAAFAEALAEAGATVAFNDG---------LAAEARELAAALEAAGG 56
Query: 68 KAVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+A D + A G +D ++NNA
Sbjct: 57 RAHAIAADLADPASVQRFFDAAAAALGGLDGLVNNA 92
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 64.0 bits (156), Expect = 9e-14
Identities = 35/97 (36%), Positives = 51/97 (52%), Gaps = 12/97 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R D +VA+VTGAG GLG + AL AE GA V++ ++ D V +IR+
Sbjct: 7 RLDDQVAVVTGAGRGLGAAIALAFAEAGADVLIA---------ARTESQLDEVAEQIRAA 57
Query: 66 GGKAVPDYNSVVDGDK---IVQTALENFGRIDIVINN 99
G +A + + + A+E FGR+DIV+NN
Sbjct: 58 GRRAHVVAADLAHPEATAGLAGQAVEAFGRLDIVVNN 94
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 64.0 bits (156), Expect = 1e-13
Identities = 36/101 (35%), Positives = 51/101 (50%), Gaps = 13/101 (12%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEI 62
+ DG+VAIVTG GLG+ YA+ LA+ GA +++ G D I
Sbjct: 9 DFFSLDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTN----------WDETRRLI 58
Query: 63 RSKGGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+G K D +K+V+ ALE FG+IDI++NNA
Sbjct: 59 EKEGRKVTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNA 99
>gnl|CDD|212491 cd05233, SDR_c, classical (c) SDRs. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 234
Score = 63.5 bits (155), Expect = 1e-13
Identities = 37/92 (40%), Positives = 54/92 (58%), Gaps = 13/92 (14%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTGA +G+GR+ A LA GA VV+ D R+ + + +A I + GG AV
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLAD----RNEEALAE------LAAIEALGGNAVA 50
Query: 72 ---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D + D + +V+ ALE FGR+DI++NNA
Sbjct: 51 VQADVSDEEDVEALVEEALEEFGRLDILVNNA 82
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 63.8 bits (156), Expect = 2e-13
Identities = 34/98 (34%), Positives = 48/98 (48%), Gaps = 12/98 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+V ++TGA AG+GR+ A A RGA VV+ R +G + + AEIR+
Sbjct: 5 PIGRQVVVITGASAGVGRATARAFARRGAKVVL----LARGEEG-----LEALAAEIRAA 55
Query: 66 GGKAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
GG+A+ V D + A E G ID +NNA
Sbjct: 56 GGEALAVVADVADAEAVQAAADRAEEELGPIDTWVNNA 93
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 63.1 bits (154), Expect = 2e-13
Identities = 37/98 (37%), Positives = 55/98 (56%), Gaps = 11/98 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R DG+VA+VTG GLG + A AERGA+ +V G++++ + AE+ +
Sbjct: 3 RLDGKVALVTGGTQGLGAAIARAFAERGAAGLV--------ICGRNAEKGEAQAAELEAL 54
Query: 66 GGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G KAV D + V D ++V A E FGR+D ++N A
Sbjct: 55 GAKAVFVQADLSDVEDCRRVVAAADEAFGRLDALVNAA 92
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 63.5 bits (155), Expect = 3e-13
Identities = 34/98 (34%), Positives = 45/98 (45%), Gaps = 12/98 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
F G++ +VTGAG+G+GR AL A GA VV +D+ AA+ IR+
Sbjct: 312 PFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDI---------DEAAAERTAELIRAA 362
Query: 66 GGKAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
G A V D D + G DIV+NNA
Sbjct: 363 GAVAHAYRVDVSDADAMEAFAEWVRAEHGVPDIVVNNA 400
>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 = 62.2 bits (151), Expect = 3e-13
Identities = 36/93 (38%), Positives = 53/93 (56%), Gaps = 12/93 (12%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
VAIVTG AG+G++ A LA+ GASVV+ DL + A+ V A I+ GG+A+
Sbjct: 1 VAIVTGGAAGIGKAIAGTLAKAGASVVIADLKSE---------GAEAVAAAIQQAGGQAI 51
Query: 71 P---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ S D + +V+ + FG I I++NNA
Sbjct: 52 GLECNVTSEQDLEAVVKATVSQFGGITILVNNA 84
>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 = 62.0 bits (151), Expect = 4e-13
Identities = 36/94 (38%), Positives = 53/94 (56%), Gaps = 12/94 (12%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+V ++TGA +G+GR+ AL AERGA VV+ +S++A + E+R GG+A
Sbjct: 1 QVVVITGASSGIGRATALAFAERGAKVVLA---------ARSAEALHELAREVRELGGEA 51
Query: 70 VPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
+ V D + TA+E FGRID +NNA
Sbjct: 52 IAVVADVADAAQVERAADTAVERFGRIDTWVNNA 85
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 62.9 bits (154), Expect = 4e-13
Identities = 34/99 (34%), Positives = 48/99 (48%), Gaps = 17/99 (17%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+VA+VTGA G+G++ A LA GA VV+ DL D + AA+ AE+
Sbjct: 420 LAGKVALVTGAAGGIGKATAKRLAAEGACVVLADL----DEE-----AAEAAAAELGGPD 470
Query: 67 GKA-----VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D +V + A FG +DIV++NA
Sbjct: 471 RALGVACDVTDEAAVQAA---FEEAALAFGGVDIVVSNA 506
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 61.3 bits (149), Expect = 7e-13
Identities = 38/95 (40%), Positives = 52/95 (54%), Gaps = 11/95 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VAIVTGA G+G + A LA G +V VN G S+ AAD +VAEI + GG+
Sbjct: 5 NKVAIVTGASRGIGAAIARRLAADGFAVAVNYAG--------SAAAADELVAEIEAAGGR 56
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
A+ D ++ A FGRID+++NNA
Sbjct: 57 AIAVQADVADAAAVTRLFDAAETAFGRIDVLVNNA 91
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 60.4 bits (146), Expect = 8e-13
Identities = 40/100 (40%), Positives = 61/100 (61%), Gaps = 12/100 (12%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+++ G+VAIVTG G G+GR+ ALLLA++GA V+V D+ D +S +A V EI
Sbjct: 11 KMKLAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDI------DQESGQAT---VEEIT 61
Query: 64 SKGGKAV-PDYNSVVDGD--KIVQTALENFGRIDIVINNA 100
+ GG+A+ Y+ GD +++ L F RID++ NA
Sbjct: 62 NLGGEALFVSYDMEKQGDWQRVISITLNAFSRIDMLFQNA 101
>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 = 61.5 bits (150), Expect = 8e-13
Identities = 30/100 (30%), Positives = 50/100 (50%), Gaps = 20/100 (20%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V ++TGA +G+G+ A LA+RGA V++ ++ + + AEI+ + G
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIA---------CRNEEKGEEAAAEIKKETGN 51
Query: 69 A--------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
A + SV + + L F R+DI+INNA
Sbjct: 52 AKVEVIQLDLSSLASV---RQFAEEFLARFPRLDILINNA 88
>gnl|CDD|187642 cd08937, DHB_DH-like_SDR_c,
1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase (DHB DH)-like, classical (c) SDR. DHB DH
(aka 1,2-dihydroxycyclohexa-3,5-diene-1-carboxylate
dehydrogenase) catalyzes the NAD-dependent conversion of
1,2-dihydroxycyclohexa-3,4-diene carboxylate to a
catechol. This subgroup also contains Pseudomonas putida
F1 CmtB, 2,3-dihydroxy-2,3-dihydro-p-cumate
dehydrogenase, the second enzyme in the pathway for
catabolism of p-cumate catabolism. This subgroup shares
the glycine-rich NAD-binding motif of the classical SDRs
and shares the same catalytic triad; however, the
upstream Asn implicated in cofactor binding or catalysis
in other SDRs is generally substituted by a Ser. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 61.4 bits (149), Expect = 9e-13
Identities = 36/98 (36%), Positives = 52/98 (53%), Gaps = 13/98 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
RF+G+V +VTGA G+GR A LA GA V++ D S+ V+AEI +
Sbjct: 1 RFEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDR----------SELVHEVLAEILAA 50
Query: 66 GGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G A D + +V+ A+E FGR+D++INN
Sbjct: 51 GDAAHVHTADLETYAGAQGVVRAAVERFGRVDVLINNV 88
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 60.8 bits (148), Expect = 1e-12
Identities = 34/99 (34%), Positives = 51/99 (51%), Gaps = 18/99 (18%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD---TVVAEIRS 64
G++A+VTGA G+G + A LLA++GA V+V SS+ D V I +
Sbjct: 7 TGKIALVTGASRGIGEAIAKLLAQQGAHVIV------------SSRKLDGCQAVADAIVA 54
Query: 65 KGGKAVPDYNSVVDGDKIVQT---ALENFGRIDIVINNA 100
GGKA + + ++I E GR+DI++NNA
Sbjct: 55 AGGKAEALACHIGEMEQIDALFAHIRERHGRLDILVNNA 93
>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 = 60.5 bits (147), Expect = 2e-12
Identities = 36/95 (37%), Positives = 50/95 (52%), Gaps = 9/95 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R +G+VAIVTGAG+G G A A+ GA VV+ D+ A+ V A+I
Sbjct: 2 RLEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINA---------DGAERVAADIGEA 52
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D D + +V+ AL FGR+DI++NNA
Sbjct: 53 AIAIQADVTKRADVEAMVEAALSKFGRLDILVNNA 87
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 60.1 bits (146), Expect = 2e-12
Identities = 34/96 (35%), Positives = 48/96 (50%), Gaps = 11/96 (11%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+ A+VTG+ G+G A +LA GA VVVN + A+ VVAEI + GG
Sbjct: 5 PGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQK--------APRANKVVAEIEAAGG 56
Query: 68 KAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+A D ++ TA E FG +D ++ NA
Sbjct: 57 RASAVGADLTDEESVAALMDTAREEFGGLDALVLNA 92
>gnl|CDD|187607 cd05349, BKR_2_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP]reductase (BKR), subgroup 2, classical (c) SDR.
This subgroup includes Rhizobium sp. NGR234 FabG1. The
Escherichai coli K12 BKR, FabG, belongs to a different
subgroup. BKR catalyzes the NADPH-dependent reduction of
ACP in the first reductive step of de novo fatty acid
synthesis (FAS). FAS consists of four elongation steps,
which are repeated to extend the fatty acid chain
through the addition of two-carbo units from malonyl
acyl-carrier protein (ACP): condensation, reduction,
dehydration, and a final reduction. Type II FAS, typical
of plants and many bacteria, maintains these activities
on discrete polypeptides, while type I FAS utilizes one
or two multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 246
Score = 60.2 bits (146), Expect = 3e-12
Identities = 33/94 (35%), Positives = 51/94 (54%), Gaps = 14/94 (14%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+V +VTGA GLG + A A GA VVVN +S+++A+ V AE G +A
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYY--------RSTESAEAVAAEA---GERA 49
Query: 70 VPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+ V D D++ ++ A +FG +D ++NNA
Sbjct: 50 IAIQADVRDRDQVQAMIEEAKNHFGPVDTIVNNA 83
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 59.9 bits (145), Expect = 3e-12
Identities = 34/96 (35%), Positives = 51/96 (53%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+G+ A+VTGA +G+G+ AL LA GA+V + DL A+ V EI GG
Sbjct: 6 NGKTAVVTGAASGIGKEIALELARAGAAVAIADLN---------QDGANAVADEINKAGG 56
Query: 68 KAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
KA+ V + D + + E FG +DI+++NA
Sbjct: 57 KAIGVAMDVTNEDAVNAGIDKVAERFGSVDILVSNA 92
>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 = 59.3 bits (144), Expect = 5e-12
Identities = 33/95 (34%), Positives = 50/95 (52%), Gaps = 11/95 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VAI+TGA G+GR+ A LA G ++V+ DL + AA + + EI G
Sbjct: 2 SKVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEE--------AAKSTIQEISEAGYN 53
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
AV D D + ++ A+E FG D+++NNA
Sbjct: 54 AVAVGADVTDKDDVEALIDQAVEKFGSFDVMVNNA 88
>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 = 59.2 bits (144), Expect = 5e-12
Identities = 29/103 (28%), Positives = 52/103 (50%), Gaps = 20/103 (19%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+ G+ A++TG +G+GR+ A+ A GA V +N L + D A+ I +
Sbjct: 23 KLKGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEED-------DAEETKKLIEEE 75
Query: 66 GGKAVPDYNSVVDGD--------KIVQTALENFGRIDIVINNA 100
G K + ++ GD +V+ ++ FG++DI++NNA
Sbjct: 76 GRKCL-----LIPGDLGDESFCRDLVKEVVKEFGKLDILVNNA 113
>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 = 59.0 bits (143), Expect = 6e-12
Identities = 31/95 (32%), Positives = 48/95 (50%), Gaps = 5/95 (5%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGD-GKSSKAADTVVAEIRSK 65
G+VAI+TG+ +G+G A+L A GA + + +R + +S A +I
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAGVSEKKILL- 59
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D D+I+ T L FGR+DI++NNA
Sbjct: 60 ---VVADLTEEEGQDRIISTTLAKFGRLDILVNNA 91
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 58.8 bits (143), Expect = 8e-12
Identities = 36/98 (36%), Positives = 51/98 (52%), Gaps = 12/98 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+GRVA+VTGA G+GR+ A+ LA GA V+V D+ G A + +
Sbjct: 3 DLEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGD---------DAAATAELVEAA 53
Query: 66 GGKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
GGKA V D + V +E+FGR+DI++ NA
Sbjct: 54 GGKARARQVDVRDRAALKAAVAAGVEDFGRLDILVANA 91
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 58.8 bits (143), Expect = 9e-12
Identities = 33/103 (32%), Positives = 46/103 (44%), Gaps = 16/103 (15%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD--TVVA 60
E G+ A+VTG GLG A L E GA VV++ + KA + A
Sbjct: 6 ELFDLSGKTALVTGGSRGLGLQIAEALGEAGARVVLS-----------ARKAEELEEAAA 54
Query: 61 EIRSKGGKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+ + G A+ V D I + LE FG +DI++NNA
Sbjct: 55 HLEALGIDALWIAADVADEADIERLAEETLERFGHVDILVNNA 97
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 58.5 bits (142), Expect = 9e-12
Identities = 31/95 (32%), Positives = 45/95 (47%), Gaps = 10/95 (10%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEI-RSK 65
DG +VTG +G+GR+ A AE GA V V D S A A + +K
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCD---------VSEAALAATAARLPGAK 59
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D +++ TA+E FG +D+++NNA
Sbjct: 60 VTATVADVADPAQVERVFDTAVERFGGLDVLVNNA 94
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 58.5 bits (142), Expect = 1e-11
Identities = 30/95 (31%), Positives = 51/95 (53%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V I+TGA G+GR+ A+ LA GA +V+ + ++ E+ GG+
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAAR---------NETRLASLAQELADHGGE 51
Query: 69 AVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
A+ V D + ++++ A+ FG IDI++NNA
Sbjct: 52 ALVVPTDVSDAEACERLIEAAVARFGGIDILVNNA 86
>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 = 58.1 bits (141), Expect = 1e-11
Identities = 30/95 (31%), Positives = 51/95 (53%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VT A +G+G + A LA GA V + ++ + + +E+R+ G
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAIC---------ARNRENLERAASELRAGGAG 51
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D D D++V+ A + FGR+DI++NNA
Sbjct: 52 VLAVVADLTDPEDIDRLVEKAGDAFGRVDILVNNA 86
>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 = 58.0 bits (141), Expect = 2e-11
Identities = 32/98 (32%), Positives = 52/98 (53%), Gaps = 13/98 (13%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+V I+TGA +G+G A LA GA +V++ + + + V +E G
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLS---------ARREERLEEVKSECLELG 51
Query: 67 GK---AVP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
VP D + + D +++V+ AL+ FG +DI+INNA
Sbjct: 52 APSPHVVPLDMSDLEDAEQVVEEALKLFGGLDILINNA 89
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 57.6 bits (140), Expect = 2e-11
Identities = 32/94 (34%), Positives = 46/94 (48%), Gaps = 11/94 (11%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
R A+VTGA +GR+ AL LA G V V+ +S A+ + AEIR+ G +A
Sbjct: 10 RAALVTGAARRIGRAIALDLAAHGFDVAVH--------YNRSRDEAEALAAEIRALGRRA 61
Query: 70 VP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D + +V A G I +++NNA
Sbjct: 62 VALQADLADEAEVRALVARASAALGPITLLVNNA 95
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 57.7 bits (140), Expect = 2e-11
Identities = 29/95 (30%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VA+VTG +G+G + A L A +GA V + D R D A +
Sbjct: 12 DLSGKVAVVTGGASGIGHAIAELFAAKGARVALLD----RSEDVAEVAA-----QLLGGN 62
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D + + V + FGRIDI++N+A
Sbjct: 63 AKGLVCDVSDSQSVEAAVAAVISAFGRIDILVNSA 97
>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 = 57.6 bits (140), Expect = 2e-11
Identities = 34/101 (33%), Positives = 48/101 (47%), Gaps = 19/101 (18%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+VA +TG G G+G++ A AE GASV + G+ + + EI S
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIA---------GRKPEVLEAAAEEISSAT 51
Query: 67 GKA-------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G V D +V + V L+ FG+IDI+INNA
Sbjct: 52 GGRAHPIQCDVRDPEAV---EAAVDETLKEFGKIDILINNA 89
>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 = 57.3 bits (139), Expect = 3e-11
Identities = 32/101 (31%), Positives = 45/101 (44%), Gaps = 13/101 (12%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
G+VAIVTG G+G + A LAE GA V + S+ A+ E+
Sbjct: 3 LFSLKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYN---------SAPRAEEKAEELA 53
Query: 64 SKGGKAVPDYNSVVDGDKIVQTAL----ENFGRIDIVINNA 100
K G Y V + V+ ++FG+IDI+I NA
Sbjct: 54 KKYGVKTKAYKCDVSSQESVEKTFKQIQKDFGKIDILIANA 94
>gnl|CDD|187664 cd09763, DHRS1-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) -like, classical (c) SDRs.
This subgroup includes human DHRS1 and related proteins.
These are members of the classical SDR family, with a
canonical Gly-rich NAD-binding motif and the typical
YXXXK active site motif. However, the rest of the
catalytic tetrad is not strongly conserved. DHRS1 mRNA
has been detected in many tissues, liver, heart,
skeletal muscle, kidney and pancreas; a longer
transcript is predominantly expressed in the liver , a
shorter one in the heart. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 265
Score = 57.1 bits (138), Expect = 3e-11
Identities = 34/97 (35%), Positives = 51/97 (52%), Gaps = 14/97 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSK-AADTVVAEIRSKGG 67
G++A+VTGA G+GR AL L E GA+V + G++ EI ++GG
Sbjct: 3 GKIALVTGASRGIGRGIALQLGEAGATVYIT---------GRTILPQLPGTAEEIEARGG 53
Query: 68 KAVPDYNSVVDGDKI----VQTALENFGRIDIVINNA 100
K +P D D++ + A E GR+DI++NNA
Sbjct: 54 KCIPVRCDHSDDDEVEALFERVAREQQGRLDILVNNA 90
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 57.0 bits (138), Expect = 3e-11
Identities = 38/96 (39%), Positives = 52/96 (54%), Gaps = 13/96 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R GRVA++TG G+G+G + A LA GA+VVV D+ D ++ KAA E+
Sbjct: 4 RLAGRVAVITGGGSGIGLATARRLAAEGATVVVGDI------DPEAGKAA---ADEV--- 51
Query: 66 GGKAVP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG VP D + + TA E +G +DI NNA
Sbjct: 52 GGLFVPTDVTDEDAVNALFDTAAETYGSVDIAFNNA 87
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 57.0 bits (138), Expect = 4e-11
Identities = 32/97 (32%), Positives = 46/97 (47%), Gaps = 21/97 (21%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA-- 69
VTGA +G+GR+ AL LA +GA + + D RD DG VA+ R+ GG
Sbjct: 3 CFVTGAASGIGRATALRLAAQGAELFLTD----RDADG-----LAQTVADARALGGTVPE 53
Query: 70 -----VPDYNSVVD-GDKIVQTALENFGRIDIVINNA 100
+ DY++V I G +D+V+N A
Sbjct: 54 HRALDISDYDAVAAFAADIHAA----HGSMDVVMNIA 86
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 56.9 bits (138), Expect = 4e-11
Identities = 36/97 (37%), Positives = 50/97 (51%), Gaps = 12/97 (12%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+V +V+G G GLGR+ A+ A GA VV+ +R D V AEI G
Sbjct: 3 LKGKVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAER---------LDEVAAEIDDLG 53
Query: 67 GKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+A+ + D D+ V ALE FGR+D ++NNA
Sbjct: 54 RRALAVPTDITDEDQCANLVALALERFGRVDALVNNA 90
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 56.6 bits (137), Expect = 4e-11
Identities = 31/96 (32%), Positives = 46/96 (47%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTG+ GLG A LA GA V+VN G+++ + VA +R+ GG
Sbjct: 10 AGQVALVTGSARGLGFEIARALAGAGAHVLVN---------GRNAATLEAAVAALRAAGG 60
Query: 68 KAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
A + D + GR+DI++NN
Sbjct: 61 AAEALAFDIADEEAVAAAFARIDAEHGRLDILVNNV 96
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 56.7 bits (137), Expect = 5e-11
Identities = 25/95 (26%), Positives = 50/95 (52%), Gaps = 11/95 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+V +VTG+G G+GR+ A+ LA+ G+ VVVN + + + ++ GG+
Sbjct: 6 DKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEM--------NETLKMVKENGGE 57
Query: 69 AV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D ++ + + + ++ +G DI++NNA
Sbjct: 58 GIGVLADVSTREGCETLAKATIDRYGVADILVNNA 92
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 56.6 bits (137), Expect = 5e-11
Identities = 32/98 (32%), Positives = 54/98 (55%), Gaps = 12/98 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
F G+VA++TGA +G G ++A + A G +V+ D+ Q+D A D VAE+R++
Sbjct: 3 DFAGKVAVITGAASGFGLAFARIGAALGMKLVLADV--QQD-------ALDRAVAELRAQ 53
Query: 66 GGKAVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
G + + D + + + ALE FG + ++ NNA
Sbjct: 54 GAEVLGVRTDVSDAAQVEALADAALERFGAVHLLFNNA 91
>gnl|CDD|187663 cd09762, HSDL2_SDR_c, human hydroxysteroid dehydrogenase-like
protein 2 (HSDL2), classical (c) SDRs. This subgroup
includes human HSDL2 and related protens. These are
members of the classical SDR family, with a canonical
Gly-rich NAD-binding motif and the typical YXXXK active
site motif. However, the rest of the catalytic tetrad is
not strongly conserved. HSDL2 may play a part in fatty
acid metabolism, as it is found in peroxisomes. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 56.3 bits (136), Expect = 6e-11
Identities = 36/107 (33%), Positives = 55/107 (51%), Gaps = 25/107 (23%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD---------- 56
G+ +TGA G+G++ AL A GA+VV+ ++K A+
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVI------------AAKTAEPHPKLPGTIY 48
Query: 57 TVVAEIRSKGGKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
T EI + GGKA+P + D D++ V+ A+E FG IDI++NNA
Sbjct: 49 TAAEEIEAAGGKALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNA 95
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 56.2 bits (135), Expect = 7e-11
Identities = 35/99 (35%), Positives = 60/99 (60%), Gaps = 11/99 (11%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
V+ +G+VAIVTG G+G++ + LA+ GA VV+N S +AA+ +V E+
Sbjct: 2 VQLNGKVAIVTGGAKGIGKAITVALAQEGAKVVIN--------YNSSKEAAENLVNELGK 53
Query: 65 KGGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+G D + V D +++V+ A+ +FG++DI++NNA
Sbjct: 54 EGHDVYAVQADVSKVEDANRLVEEAVNHFGKVDILVNNA 92
>gnl|CDD|187639 cd08934, CAD_SDR_c, clavulanic acid dehydrogenase (CAD), classical
(c) SDR. CAD catalyzes the NADP-dependent reduction of
clavulanate-9-aldehyde to clavulanic acid, a
beta-lactamase inhibitor. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 56.0 bits (135), Expect = 8e-11
Identities = 32/96 (33%), Positives = 51/96 (53%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA +G+G + A LA GA+V + + + + E+ ++GG
Sbjct: 2 QGKVALVTGASSGIGEATARALAAEGAAVAIA---------ARRVDRLEALADELEAEGG 52
Query: 68 KAVPDYNSVVD---GDKIVQTALENFGRIDIVINNA 100
KA+ V D D V+ +E GR+DI++NNA
Sbjct: 53 KALVLELDVTDEQQVDAAVERTVEALGRLDILVNNA 88
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 56.4 bits (136), Expect = 8e-11
Identities = 38/105 (36%), Positives = 50/105 (47%), Gaps = 14/105 (13%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
MP++ RVA VTG G+GR A LA GA VV+ DL + AA+ V A
Sbjct: 406 MPKEKTLARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLE---------AAEAVAA 456
Query: 61 EIRSKGG--KAVPDYNSVVDGDKIVQT---ALENFGRIDIVINNA 100
EI + G +AV V D + +G +DIV+NNA
Sbjct: 457 EINGQFGAGRAVALKMDVTDEQAVKAAFADVALAYGGVDIVVNNA 501
>gnl|CDD|187648 cd08944, SDR_c12, classical (c) SDR, subgroup 12. These are
classical SDRs, with the canonical active site tetrad
and glycine-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 246
Score = 56.0 bits (135), Expect = 9e-11
Identities = 37/94 (39%), Positives = 50/94 (53%), Gaps = 9/94 (9%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+G+VAIVTGAGAG+G + A LA GA VVV D+ G AA VVA+I
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGG---------AAQAVVAQIAGGA 51
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D + + A+E FG +D+++NNA
Sbjct: 52 LALRVDVTDEQQVAALFERAVEEFGGLDLLVNNA 85
>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 = 55.7 bits (135), Expect = 9e-11
Identities = 30/94 (31%), Positives = 43/94 (45%), Gaps = 11/94 (11%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
VA+VTGA +GR+ A LA G VVV+ +S A + E+ + A
Sbjct: 1 AVALVTGAAKRIGRAIAEALAAEGYRVVVH--------YNRSEAEAQRLKDELNALRNSA 52
Query: 70 V---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D + +V A FGR D+++NNA
Sbjct: 53 VLVQADLSDFAACADLVAAAFRAFGRCDVLVNNA 86
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 55.9 bits (135), Expect = 1e-10
Identities = 33/98 (33%), Positives = 55/98 (56%), Gaps = 13/98 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R + +VA++TGA G+G++ A+ LA+ GA V+ D+ ++A V +I+S
Sbjct: 3 RLENKVAVITGASTGIGQASAIALAQEGAYVLAVDI----------AEAVSETVDKIKSN 52
Query: 66 GGKAVPDYNSVVDGDKIVQTA---LENFGRIDIVINNA 100
GGKA + + D ++ A E FGR+D++ NNA
Sbjct: 53 GGKAKAYHVDISDEQQVKDFASEIKEQFGRVDVLFNNA 90
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 55.8 bits (135), Expect = 1e-10
Identities = 33/95 (34%), Positives = 44/95 (46%), Gaps = 9/95 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VA++TGA +G+G + A GA VV+ D+ R A EI
Sbjct: 3 RLQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPAR---------ARLAALEIGPA 53
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D D+IV A+E FG IDI+ NNA
Sbjct: 54 AIAVSLDVTRQDSIDRIVAAAVERFGGIDILFNNA 88
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 55.2 bits (133), Expect = 1e-10
Identities = 41/98 (41%), Positives = 55/98 (56%), Gaps = 13/98 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R GRVAIVTGAG+G+GR+ A L A GA VVV D RD + A+ V A I +
Sbjct: 2 RLAGRVAIVTGAGSGIGRATAKLFAREGARVVVAD----RDAEA-----AERVAAAIAA- 51
Query: 66 GGKA---VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG+A D S + +V +GR+D+++NNA
Sbjct: 52 GGRAFARQGDVGSAEAVEALVDFVAARWGRLDVLVNNA 89
>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 = 55.1 bits (133), Expect = 2e-10
Identities = 33/98 (33%), Positives = 52/98 (53%), Gaps = 18/98 (18%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA G+G A LAE GA++V+N ++ + A+ I +G +
Sbjct: 5 GKVALVTGASRGIGFGIASGLAEAGANIVINS---------RNEEKAEEAQQLIEKEGVE 55
Query: 69 A------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
A V D ++ V+ E+FG+IDI++NNA
Sbjct: 56 ATAFTCDVSDEEAI---KAAVEAIEEDFGKIDILVNNA 90
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 54.7 bits (132), Expect = 2e-10
Identities = 36/96 (37%), Positives = 48/96 (50%), Gaps = 8/96 (8%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
D R ++TG GLGR+ A+ LA GA V+V D+ R AD V A I + GG
Sbjct: 5 DSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMR-----GRAEADAVAAGIEAAGG 59
Query: 68 KA---VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
KA D + +E FGR+DI++NNA
Sbjct: 60 KALGLAFDVRDFAATRAALDAGVEEFGRLDILVNNA 95
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 54.7 bits (132), Expect = 2e-10
Identities = 32/100 (32%), Positives = 46/100 (46%), Gaps = 14/100 (14%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VA+VTGA G+G + A A GA+V + DL A+ A I
Sbjct: 4 RLAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAAL---------AERAAAAIARD 54
Query: 66 --GGKAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
G + + V D + V A E FG +D+++NNA
Sbjct: 55 VAGARVLAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNA 94
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 54.8 bits (132), Expect = 2e-10
Identities = 33/102 (32%), Positives = 48/102 (47%), Gaps = 11/102 (10%)
Query: 2 PEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAE 61
P+ DG+VA VTGAG+G+G+ A+ LA+ GA V + DL R DG +
Sbjct: 1 PQLFDLDGQVAFVTGAGSGIGQRIAIGLAQAGADVALFDL---RTDDGLAE-----TAEH 52
Query: 62 IRSKGGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
I + G +A+ D S D V G + + +N A
Sbjct: 53 IEAAGRRAIQIAADVTSKADLRAAVARTEAELGALTLAVNAA 94
>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 = 54.3 bits (131), Expect = 3e-10
Identities = 33/95 (34%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A+VTGA +G+G + A LA GA+VVVND G + A+ GG
Sbjct: 1 GKTALVTGAASGIGLAIARALAAAGANVVVNDFGEE---------GAEAAAKVAGDAGGS 51
Query: 69 AVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+ V D+I + A FG +DI++NNA
Sbjct: 52 VIYLPADVTKEDEIADMIAAAAAEFGGLDILVNNA 86
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 54.7 bits (132), Expect = 3e-10
Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 19/97 (19%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
RV I TGA +GLGR+ AL A G + + D+ + + + + +R GG
Sbjct: 2 RVMI-TGAASGLGRAIALRWAREGWRLALADV---------NEEGGEETLKLLREAGGDG 51
Query: 70 ------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V DY+ + + Q E +G ID+++NNA
Sbjct: 52 FYQRCDVRDYSQL---TALAQACEEKWGGIDVIVNNA 85
>gnl|CDD|187600 cd05341, 3beta-17beta-HSD_like_SDR_c, 3beta17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs. This subgroup
includes members identified as 3beta17beta
hydroxysteroid dehydrogenase, 20beta hydroxysteroid
dehydrogenase, and R-alcohol dehydrogenase. These
proteins exhibit the canonical active site tetrad and
glycine rich NAD(P)-binding motif of the classical SDRs.
17beta-dehydrogenases are a group of isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 247
Score = 54.3 bits (131), Expect = 3e-10
Identities = 35/95 (36%), Positives = 50/95 (52%), Gaps = 9/95 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VAIVTG GLG ++A LL GA VV++D+ D +G++ AE+
Sbjct: 2 RLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDI---LDEEGQA------AAAELGDA 52
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D +V TA E FGR+D+++NNA
Sbjct: 53 ARFFHLDVTDEDGWTAVVDTAREAFGRLDVLVNNA 87
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 54.4 bits (131), Expect = 4e-10
Identities = 33/104 (31%), Positives = 55/104 (52%), Gaps = 14/104 (13%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M + G+ ++TG+ G+G A LAE GA +++ND+ +R A+ VA
Sbjct: 1 MNDLFSLAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAER---------AELAVA 51
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQTALE----NFGRIDIVINNA 100
++R +G KA +V + V+ A+E + G ID++INNA
Sbjct: 52 KLRQEGIKAHAAPFNVTHKQE-VEAAIEHIEKDIGPIDVLINNA 94
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 54.3 bits (131), Expect = 4e-10
Identities = 30/95 (31%), Positives = 48/95 (50%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+VTGAG G+G + A L E G V + D + A ++ GGK
Sbjct: 2 SKVALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEE---------TAQAAADKLSKDGGK 52
Query: 69 AVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
A+ V D D++ V+ ++ FG +++V+NNA
Sbjct: 53 AIAVKADVSDRDQVFAAVRQVVDTFGDLNVVVNNA 87
>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 = 54.0 bits (130), Expect = 4e-10
Identities = 38/94 (40%), Positives = 54/94 (57%), Gaps = 11/94 (11%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
VAIVTGA G+GR+ A LA RG + +NDL D D A VVAE+ + G +A
Sbjct: 2 PVAIVTGASRGIGRAIATELAARGFDIAINDL---PDDD-----QATEVVAEVLAAGRRA 53
Query: 70 V---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D + D + ++ A E+FGR+D ++NNA
Sbjct: 54 IYFQADIGELSDHEALLDQAWEDFGRLDCLVNNA 87
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 54.0 bits (130), Expect = 5e-10
Identities = 27/98 (27%), Positives = 47/98 (47%), Gaps = 13/98 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+ G+ A++TGA G+G A + A GA++++ D+ S + + E+ +
Sbjct: 3 KLTGKTALITGALQGIGEGIARVFARHGANLILLDI----------SPEIEKLADELCGR 52
Query: 66 GGKAVPDYNSVVDGD---KIVQTALENFGRIDIVINNA 100
G + V D ++ A E GRIDI++NNA
Sbjct: 53 GHRCTAVVADVRDPASVAAAIKRAKEKEGRIDILVNNA 90
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 53.8 bits (130), Expect = 5e-10
Identities = 29/94 (30%), Positives = 47/94 (50%), Gaps = 12/94 (12%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
A++TGA +G+G++ AL A+ G + + +S A + + AE+RS G KA
Sbjct: 7 PRALITGASSGIGKATALAFAKAGWDLALV---------ARSQDALEALAAELRSTGVKA 57
Query: 70 VP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D ++ + LE FG D++INNA
Sbjct: 58 AAYSIDLSNPEAIAPGIAELLEQFGCPDVLINNA 91
>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 = 53.4 bits (129), Expect = 7e-10
Identities = 26/95 (27%), Positives = 44/95 (46%), Gaps = 17/95 (17%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+V ++TG +G+G + AL LA +G V+ R+ D S + +
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVI----ATARNPDKLESLGEL------LNDNLEV 50
Query: 70 VP----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D S+ V+ +E FGRID+++NNA
Sbjct: 51 LELDVTDEESI---KAAVKEVIERFGRIDVLVNNA 82
>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 = 53.2 bits (128), Expect = 8e-10
Identities = 34/94 (36%), Positives = 48/94 (51%), Gaps = 12/94 (12%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTG G+G+ A LA+ G +V V DL + + A EI GGKA
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADL---------NEETAKETAKEINQAGGKA 51
Query: 70 VPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
V V D D++ + A E FG D+++NNA
Sbjct: 52 VAYKLDVSDKDQVFSAIDQAAEKFGGFDVMVNNA 85
>gnl|CDD|187629 cd05371, HSD10-like_SDR_c, 17hydroxysteroid dehydrogenase type 10
(HSD10)-like, classical (c) SDRs. HSD10, also known as
amyloid-peptide-binding alcohol dehydrogenase (ABAD),
was previously identified as a L-3-hydroxyacyl-CoA
dehydrogenase, HADH2. In fatty acid metabolism, HADH2
catalyzes the third step of beta-oxidation, the
conversion of a hydroxyl to a keto group in the
NAD-dependent oxidation of L-3-hydroxyacyl CoA. In
addition to alcohol dehydrogenase and HADH2 activites,
HSD10 has steroid dehydrogenase activity. Although the
mechanism is unclear, HSD10 is implicated in the
formation of amyloid beta-petide in the brain (which is
linked to the development of Alzheimer's disease).
Although HSD10 is normally concentrated in the
mitochondria, in the presence of amyloid beta-peptide it
translocates into the plasma membrane, where it's action
may generate cytotoxic aldehydes and may lower estrogen
levels through its use of 17-beta-estradiol as a
substrate. HSD10 is a member of the SRD family, but
differs from other SDRs by the presence of two
insertions of unknown function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 252
Score = 53.1 bits (128), Expect = 8e-10
Identities = 30/92 (32%), Positives = 41/92 (44%), Gaps = 10/92 (10%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G VA+VTG +GLG + L +GA VV+ DL + VA++
Sbjct: 2 GLVAVVTGGASGLGLATVERLLAQGAKVVILDL----------PNSPGETVAKLGDNCRF 51
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D S D + A FGR+DIV+N A
Sbjct: 52 VPVDVTSEKDVKAALALAKAKFGRLDIVVNCA 83
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 53.2 bits (128), Expect = 8e-10
Identities = 38/99 (38%), Positives = 52/99 (52%), Gaps = 12/99 (12%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
+ F G+VA+VTG AG+GR+ AL A GA VVV D RD G + VA IR
Sbjct: 3 MTFSGKVALVTGGAAGIGRATALAFAREGAKVVVAD----RDAAG-----GEETVALIRE 53
Query: 65 KGGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG+A+ D + +V+ + +GR+D NNA
Sbjct: 54 AGGEALFVACDVTRDAEVKALVEQTIAAYGRLDYAFNNA 92
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 53.1 bits (128), Expect = 8e-10
Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G++A++TGA G+G + A A+ GA++V ND+ + + D +A R G
Sbjct: 9 KGKIALITGASYGIGFAIAKAYAKAGATIVFNDI---------NQELVDKGLAAYRELGI 59
Query: 68 KA---VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+A V D +V + G IDI++NNA
Sbjct: 60 EAHGYVCDVTDEDGVQAMVSQIEKEVGVIDILVNNA 95
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 53.0 bits (128), Expect = 9e-10
Identities = 33/97 (34%), Positives = 51/97 (52%), Gaps = 16/97 (16%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA++TGA +G+G + A LAE GA VV L +R + + + EI +
Sbjct: 5 KGKVALITGASSGIGEATARALAEAGAKVV---LAARR------EERLEALADEIGAGAA 55
Query: 68 KAVP----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
A+ D +V + ++ E FGRIDI++NNA
Sbjct: 56 LALALDVTDRAAV---EAAIEALPEEFGRIDILVNNA 89
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 53.1 bits (128), Expect = 9e-10
Identities = 30/94 (31%), Positives = 53/94 (56%), Gaps = 11/94 (11%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VAIVT + +G+G++ ALLLA++G + + D +G A E+RS G +A
Sbjct: 3 QVAIVTASDSGIGKACALLLAQQGFDIGIT---WHSDEEG-----AKETAEEVRSHGVRA 54
Query: 70 VP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D + + +G + + ++ GRID+++NNA
Sbjct: 55 EIRQLDLSDLPEGAQALDKLIQRLGRIDVLVNNA 88
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 53.1 bits (128), Expect = 1e-09
Identities = 37/109 (33%), Positives = 52/109 (47%), Gaps = 25/109 (22%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVV--VNDLG-GQRDGDG--KSSKAA 55
+P+Q GRVA+VTGA GLG A LA +GA VV V +L G+ ++ A
Sbjct: 11 IPDQ---SGRVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGA 67
Query: 56 DTVVAEIRSKGGKAVPDYNSVVDGDKIVQTALENFG----RIDIVINNA 100
D + E+ D S+ V+ A + RID++INNA
Sbjct: 68 DVTLQEL---------DLTSLAS----VRAAADALRAAYPRIDLLINNA 103
>gnl|CDD|187584 cd05323, ADH_SDR_c_like, insect type alcohol dehydrogenase
(ADH)-like, classical (c) SDRs. This subgroup contains
insect type ADH, and 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) type I; these proteins are
classical SDRs. ADH catalyzes the NAD+-dependent
oxidation of alcohols to aldehydes/ketones. This
subgroup is distinct from the zinc-dependent alcohol
dehydrogenases of the medium chain
dehydrogenase/reductase family, and evolved in fruit
flies to allow the digestion of fermenting fruit.
15-PGDH catalyzes the NAD-dependent interconversion of
(5Z,13E)-(15S)-11alpha,15-dihydroxy-9-oxoprost-13-enoate
and (5Z,13E)-11alpha-hydroxy-9,15-dioxoprost-13-enoate,
and has a typical SDR glycine-rich NAD-binding motif,
which is not fully present in ADH. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 52.7 bits (127), Expect = 1e-09
Identities = 27/92 (29%), Positives = 51/92 (55%), Gaps = 8/92 (8%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VAI+TG +G+G + A LL ++GA V + D R+ + ++ + ++++ +
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAILD----RNENPGAAAELQAINPKVKATFVQC 56
Query: 70 -VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V + + + A+E FGR+DI+INNA
Sbjct: 57 DVTSWEQLA---AAFKKAIEKFGRVDILINNA 85
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 52.8 bits (127), Expect = 1e-09
Identities = 32/100 (32%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
++ + +VTG GLG + A A GA VVVN +S AA+ + E+
Sbjct: 1 MQISEQTVLVTGGSRGLGAAIARAFAREGARVVVNYH--------QSEDAAEALADEL-- 50
Query: 65 KGGKAVPDYNSVVDGDKI---VQTALENFGR-IDIVINNA 100
G +A+ V D +++ TA E+FG+ I V+NNA
Sbjct: 51 -GDRAIALQADVTDREQVQAMFATATEHFGKPITTVVNNA 89
>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 = 52.9 bits (127), Expect = 1e-09
Identities = 31/100 (31%), Positives = 49/100 (49%), Gaps = 7/100 (7%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAA----DTVVAEIR 63
+G+VA +TGA G GR++A+ LA GA ++ DL A D +
Sbjct: 2 EGKVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLVE 61
Query: 64 SKGGKAVPDYNSVVDGDK---IVQTALENFGRIDIVINNA 100
+ G K + V D + +V+ +E FGR+D+V+ NA
Sbjct: 62 ALGRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANA 101
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 53.1 bits (128), Expect = 1e-09
Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 21/100 (21%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA++TG +G+GR+ A+L A+ GA + + L D +K V E G K
Sbjct: 46 GKVALITGGDSGIGRAVAVLFAKEGADIAIVYL--DEHEDANETKQR--VEKE----GVK 97
Query: 69 AVPDYNSVVDGD--------KIVQTALENFGRIDIVINNA 100
+ ++ GD V+ + GR+DI++NNA
Sbjct: 98 CL-----LIPGDVSDEAFCKDAVEETVRELGRLDILVNNA 132
>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 = 52.8 bits (127), Expect = 1e-09
Identities = 36/96 (37%), Positives = 48/96 (50%), Gaps = 10/96 (10%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R DG+VAI+TG +G+G + A L A+ GA VV+ D+ A V AE+
Sbjct: 1 RLDGKVAIITGGASGIGEATARLFAKHGARVVIADI---------DDDAGQAVAAELGDP 51
Query: 66 GGKAV-PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D D V TA+ FGR+DI+ NNA
Sbjct: 52 DISFVHCDVTVEADVRAAVDTAVARFGRLDIMFNNA 87
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 52.9 bits (128), Expect = 1e-09
Identities = 31/94 (32%), Positives = 46/94 (48%), Gaps = 11/94 (11%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA G+G + A +LA GA VV D+ + A V + GG
Sbjct: 209 AGKVALVTGAARGIGAAIAEVLARDGAHVVCLDVPAAGE-------ALAAVANRV---GG 258
Query: 68 KAVP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
A+ D + +I + E G +DIV++NA
Sbjct: 259 TALALDITAPDAPARIAEHLAERHGGLDIVVHNA 292
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 52.5 bits (126), Expect = 1e-09
Identities = 34/94 (36%), Positives = 52/94 (55%), Gaps = 11/94 (11%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+V I+TGA G+G + ALL AERG +V +N L ++ AA+ VV IR +GG+A
Sbjct: 3 KVMIITGASRGIGAATALLAAERGYAVCLNYL--------RNRDAAEAVVQAIRRQGGEA 54
Query: 70 VPDYNSVVDGDKIV---QTALENFGRIDIVINNA 100
+ V D ++ + GR+D ++NNA
Sbjct: 55 LAVAADVADEADVLRLFEAVDRELGRLDALVNNA 88
>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 = 52.2 bits (125), Expect = 2e-09
Identities = 28/94 (29%), Positives = 45/94 (47%), Gaps = 9/94 (9%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
DG+ A++TG+ G+GR++A GA V + D+ + +AA AEI
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIADI---------NLEAARATAAEIGPAA 51
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D D+ V ++ +G IDI++NNA
Sbjct: 52 CAISLDVTDQASIDRCVAALVDRWGSIDILVNNA 85
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 52.0 bits (124), Expect = 3e-09
Identities = 42/104 (40%), Positives = 58/104 (55%), Gaps = 19/104 (18%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
DG+VA+VTGA G+GR+ A+ LA GA V ++ G++ +AAD + EI S G
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAIH--------YGRNKQAADETIREIESNG 55
Query: 67 GKAV---PDYNSVVDGDKIVQTALEN-------FGRIDIVINNA 100
GKA D NS +DG K + L+N IDI++NNA
Sbjct: 56 GKAFLIEADLNS-IDGVKKLVEQLKNELQIRVGTSEIDILVNNA 98
>gnl|CDD|188170 TIGR01832, kduD, 2-deoxy-D-gluconate 3-dehydrogenase. This model
describes 2-deoxy-D-gluconate 3-dehydrogenase (also
called 2-keto-3-deoxygluconate oxidoreductase), a member
of the family of short-chain-alcohol dehydrogenases
(pfam00106). This protein has been characterized in
Erwinia chrysanthemi as an enzyme of pectin degradation
[Energy metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 248
Score = 51.7 bits (124), Expect = 3e-09
Identities = 31/95 (32%), Positives = 48/95 (50%), Gaps = 14/95 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA GLG+ A+ LAE GA +V G ++ + G +
Sbjct: 5 GKVALVTGANTGLGQGIAVGLAEAGADIV-----------GAGRSEPSETQQQVEALGRR 53
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D + + +V +A+E FG IDI++NNA
Sbjct: 54 FLSLTADLSDIEAIKALVDSAVEEFGHIDILVNNA 88
>gnl|CDD|132250 TIGR03206, benzo_BadH, 2-hydroxycyclohexanecarboxyl-CoA
dehydrogenase. Members of this protein family are the
enzyme 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase.
The enzymatic properties were confirmed experimentally
in Rhodopseudomonas palustris; the enzyme is
homotetrameric, and not sensitive to oxygen. This enzyme
is part of proposed pathway for degradation of
benzoyl-CoA to 3-hydroxypimeloyl-CoA that differs from
the analogous in Thauera aromatica. It also may occur in
degradation of the non-aromatic compound
cyclohexane-1-carboxylate.
Length = 250
Score = 51.5 bits (123), Expect = 4e-09
Identities = 35/95 (36%), Positives = 48/95 (50%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+ AIVTG G G+G + AE GA V V DL + +AA+ V A+IR+KGG
Sbjct: 3 DKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDL---------NREAAEKVAADIRAKGGN 53
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
A D D V A + G +D+++NNA
Sbjct: 54 AQAFACDITDRDSVDTAVAAAEQALGPVDVLVNNA 88
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 51.2 bits (123), Expect = 4e-09
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 11/96 (11%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+VA++TG G+G + A L G V + + K + AE+ +KG
Sbjct: 4 LKGKVALITGGSKGIGFAIAEALLAEGYKVAIT---------ARDQKELEEAAAELNNKG 54
Query: 67 G--KAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D D + V + FG +D++I NA
Sbjct: 55 NVLGLAADVRDEADVQRAVDAIVAAFGGLDVLIANA 90
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 51.1 bits (123), Expect = 4e-09
Identities = 29/96 (30%), Positives = 45/96 (46%), Gaps = 18/96 (18%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA- 69
+ ++TG G+G+GR AL A+RGA VV+ D+ + K A+ +R GGK
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDI---------NEKGAEETANNVRKAGGKVH 51
Query: 70 -----VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V V + + + G + I+INNA
Sbjct: 52 YYKCDVSKREEV---YEAAKKIKKEVGDVTILINNA 84
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 51.3 bits (123), Expect = 5e-09
Identities = 39/106 (36%), Positives = 55/106 (51%), Gaps = 18/106 (16%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M + +G+VA+VTGA +GLG +A +LA+ GA VV L +R K + A
Sbjct: 1 MGRSINLEGKVALVTGASSGLGARFAQVLAQAGAKVV---LASRRVERLKELR------A 51
Query: 61 EIRSKGGKA------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
EI ++GG A V DY S+ V A G IDI++NN+
Sbjct: 52 EIEAEGGAAHVVSLDVTDYQSIKAA---VAHAETEAGTIDILVNNS 94
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 51.1 bits (123), Expect = 5e-09
Identities = 28/99 (28%), Positives = 46/99 (46%), Gaps = 18/99 (18%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+V ++TG GLGR+ A LA++GA + + DL + + + VAE + G
Sbjct: 4 KDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDL---------NQEKLEEAVAECGALGT 54
Query: 68 KA------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ V D V E+FG+++ +INNA
Sbjct: 55 EVRGYAANVTDEEDVEAT---FAQIAEDFGQLNGLINNA 90
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 50.8 bits (122), Expect = 5e-09
Identities = 31/95 (32%), Positives = 49/95 (51%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+V I+TG +G+G++ A AE GA+VV+ G++ + + EI G+
Sbjct: 1 EKVVIITGGSSGMGKAMAKRFAEEGANVVIT---------GRTKEKLEEAKLEIEQFPGQ 51
Query: 69 AVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D + D K+V+ E FGRID +INNA
Sbjct: 52 VLTVQMDVRNPEDVQKMVEQIDEKFGRIDALINNA 86
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 50.7 bits (122), Expect = 6e-09
Identities = 24/96 (25%), Positives = 44/96 (45%), Gaps = 13/96 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A++TGA +G+G A LA RG ++++ + + + E+ K G
Sbjct: 6 GKTALITGASSGIGAELAKQLARRGYNLILV---------ARREDKLEALAKELEDKTGV 56
Query: 69 AVP----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D + +++ E G ID+++NNA
Sbjct: 57 EVEVIPADLSDPEALERLEDELKERGGPIDVLVNNA 92
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 50.8 bits (122), Expect = 7e-09
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VAIVTG +G + A L GA V + D+ V A + +
Sbjct: 3 GLAGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDAD---------NGAAVAASLGER 53
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D ++ V T + FGR+DI++N A
Sbjct: 54 ARFIATDITDDAAIERAVATVVARFGRVDILVNLA 88
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 50.3 bits (121), Expect = 9e-09
Identities = 29/95 (30%), Positives = 44/95 (46%), Gaps = 13/95 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+V IVTG +G+G + +L LAE GA V+ S D E+R+ +
Sbjct: 7 DKVVIVTGGASGIGAAISLRLAEEGAIPVIFG----------RSAPDDEFAEELRALQPR 56
Query: 69 AVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
A + D + V+ + FGRID ++NNA
Sbjct: 57 AEFVQVDLTDDAQCRDAVEQTVAKFGRIDGLVNNA 91
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 50.2 bits (120), Expect = 1e-08
Identities = 34/104 (32%), Positives = 56/104 (53%), Gaps = 22/104 (21%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDL-GGQRDGDGKSSKAADTVVAEIRS 64
R GR A++TGA +G+GR+ A+ A GA + +N L ++D A VV I++
Sbjct: 52 RLQGRKALITGADSGIGRATAIAFAREGADIALNYLPEEEQD--------AAEVVQLIQA 103
Query: 65 KGGKAVPDYNSVVDGD--------KIVQTALENFGRIDIVINNA 100
+G KAV + GD ++V+ A++ G +DI++N A
Sbjct: 104 EGRKAV-----ALPGDLKDEAFCRQLVERAVKELGGLDILVNIA 142
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 49.7 bits (119), Expect = 1e-08
Identities = 30/98 (30%), Positives = 47/98 (47%), Gaps = 18/98 (18%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A++TGAG G+GR+ A+ LA+ G +V + ++ + V E+ + G K
Sbjct: 7 GKNALITGAGRGIGRAVAIALAKEGVNVGLL---------ARTEENLKAVAEEVEAYGVK 57
Query: 69 A------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V DY V ++ G IDI+INNA
Sbjct: 58 VVIATADVSDYEEV---TAAIEQLKNELGSIDILINNA 92
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 49.7 bits (119), Expect = 1e-08
Identities = 33/102 (32%), Positives = 47/102 (46%), Gaps = 18/102 (17%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
V G+ ++TGA +G+G + A A RGA+VV + D V I
Sbjct: 36 VDLTGKRILLTGASSGIGEAAAEQFARRGATVVAV---------ARREDLLDAVADRITR 86
Query: 65 KGG--KAVP----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG AVP D ++V D +V + G +DI+INNA
Sbjct: 87 AGGDAMAVPCDLSDLDAV---DALVADVEKRIGGVDILINNA 125
>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 = 49.8 bits (119), Expect = 2e-08
Identities = 28/97 (28%), Positives = 44/97 (45%), Gaps = 12/97 (12%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+VA++TG LG + A LA+ GA V ++ D V EI + G
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEK---------GDKVAKEITALG 53
Query: 67 GKAVPDYNSVVDGDKIVQTA---LENFGRIDIVINNA 100
G+A+ V+D + + + FG +DI+IN A
Sbjct: 54 GRAIALAADVLDRASLERAREEIVAQFGTVDILINGA 90
>gnl|CDD|187591 cd05330, cyclohexanol_reductase_SDR_c, cyclohexanol reductases,
including levodione reductase, classical (c) SDRs.
Cyloclohexanol reductases,including
(6R)-2,2,6-trimethyl-1,4-cyclohexanedione (levodione)
reductase of Corynebacterium aquaticum, catalyze the
reversible oxidoreduction of hydroxycyclohexanone
derivatives. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 49.8 bits (119), Expect = 2e-08
Identities = 30/94 (31%), Positives = 46/94 (48%), Gaps = 4/94 (4%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F +V ++TG G+GLG + A+ LA+ GA + + DL +G + A + +
Sbjct: 1 FKDKVVLITGGGSGLGLATAVRLAKEGAKLSLVDL--NEEGLEAAKAALLEIAPDAEVLL 58
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
KA D + + V +E FGRID NNA
Sbjct: 59 IKA--DVSDEAQVEAYVDATVEQFGRIDGFFNNA 90
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 49.6 bits (119), Expect = 2e-08
Identities = 31/94 (32%), Positives = 51/94 (54%), Gaps = 5/94 (5%)
Query: 8 DGRVAIVTGA-GAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+V +VT A G G+G + A E GA VV++D+ +R G+ AA+ + + +
Sbjct: 16 AGKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELAAELGLGRVEAV- 74
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D S D ++ A+E GR+D+++NNA
Sbjct: 75 ---VCDVTSEAQVDALIDAAVERLGRLDVLVNNA 105
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 49.2 bits (118), Expect = 2e-08
Identities = 25/94 (26%), Positives = 41/94 (43%), Gaps = 11/94 (11%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
VA+VTG G+G A LA G + +ND + E+R+ G +
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAINDRPD--------DEELAATQQELRALGVEV 54
Query: 70 VP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D + + ++ A +GRID ++NNA
Sbjct: 55 IFFPADVADLSAHEAMLDAAQAAWGRIDCLVNNA 88
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 49.2 bits (118), Expect = 2e-08
Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 14/97 (14%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+ GRV +VTG G+G A GA+VVV G+R + + A+ A++R
Sbjct: 1 NLDLTGRVVLVTGGTRGIGAGIARAFLAAGATVVV---CGRRAPETVDGRPAEFHAADVR 57
Query: 64 SKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
PD +V +E GR+D+++NNA
Sbjct: 58 D------PD-----QVAALVDAIVERHGRLDVLVNNA 83
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 49.2 bits (118), Expect = 2e-08
Identities = 29/100 (29%), Positives = 45/100 (45%), Gaps = 7/100 (7%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
P G+V +VTGA G+G A L RGA + + DL + ++ AA+
Sbjct: 1 GPPMTSLAGKVVVVTGAARGIGAELARRLHARGAKLALVDL----EEAELAALAAELGGD 56
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ V D ++ + A+E FG ID+V+ NA
Sbjct: 57 DRVLTVVADVTDLAAM---QAAAEEAVERFGGIDVVVANA 93
>gnl|CDD|187644 cd08940, HBDH_SDR_c, d-3-hydroxybutyrate dehydrogenase (HBDH),
classical (c) SDRs. DHBDH, an NAD+ -dependent enzyme,
catalyzes the interconversion of D-3-hydroxybutyrate and
acetoacetate. It is a classical SDR, with the canonical
NAD-binding motif and active site tetrad. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 48.6 bits (116), Expect = 3e-08
Identities = 31/96 (32%), Positives = 48/96 (50%), Gaps = 12/96 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK-GG 67
G+VA+VTG+ +G+G A LA GA++V+N G + + V A + +K G
Sbjct: 2 GKVALVTGSTSGIGLGIARALAAAGANIVLNGFG--------DAAEIEAVRAGLAAKHGV 53
Query: 68 KAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
K + + I V A FG +DI++NNA
Sbjct: 54 KVLYHGADLSKPAAIEDMVAYAQRQFGGVDILVNNA 89
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 48.7 bits (117), Expect = 4e-08
Identities = 28/91 (30%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA +G+GR+ A LA G V G R+ + ++
Sbjct: 5 KVALVTGASSGIGRATAEKLARAGYRVF----GTSRNPARAAPIPGVELLE-------LD 53
Query: 70 VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D SV V + GRID+++NNA
Sbjct: 54 VTDDASV---QAAVDEVIARAGRIDVLVNNA 81
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 48.5 bits (116), Expect = 4e-08
Identities = 28/97 (28%), Positives = 42/97 (43%), Gaps = 14/97 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+V G G LG LAE G V V D+ ++ A V EI ++ G+
Sbjct: 2 NQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEK---------AANVAQEINAEYGE 52
Query: 69 -----AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D S + + E FGR+D+++ NA
Sbjct: 53 GMAYGFGADATSEQSVLALSRGVDEIFGRVDLLVYNA 89
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 48.3 bits (115), Expect = 4e-08
Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 11/96 (11%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+V ++TGA G+GR+ A+L A RG SV +N + AA+ +R+ GG
Sbjct: 1 MRKVVLITGASRGIGRATAVLAAARGWSVGINYAR--------DAAAAEETADAVRAAGG 52
Query: 68 KAVPDYNSVVDGDKIV---QTALENFGRIDIVINNA 100
+A V + ++ FGR+D ++NNA
Sbjct: 53 RACVVAGDVANEADVIAMFDAVQSAFGRLDALVNNA 88
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 48.0 bits (115), Expect = 6e-08
Identities = 26/97 (26%), Positives = 44/97 (45%), Gaps = 17/97 (17%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA++TG G+G+GR+ GA V V + ++ +A +R + G
Sbjct: 5 HGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEK-------------LASLRQRFG 51
Query: 68 KAVP----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D S D + V ++ FG++D + NA
Sbjct: 52 DHVLVVEGDVTSYADNQRAVDQTVDAFGKLDCFVGNA 88
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase (KDSR)
and related proteins, classical (c) SDR. These proteins
include members identified as KDSR, ribitol type
dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 239
Score = 47.6 bits (114), Expect = 7e-08
Identities = 24/102 (23%), Positives = 46/102 (45%), Gaps = 22/102 (21%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ ++TG +G+G++ A L + GA+V++ +S + V EI ++
Sbjct: 1 GKHVLITGGSSGIGKALAKELVKEGANVIIV---------ARSESKLEEAVEEIEAEANA 51
Query: 69 A----------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ + DY V ++ A+E G D+V+N A
Sbjct: 52 SGQKVSYISADLSDYEEV---EQAFAQAVEKGGPPDLVVNCA 90
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 47.9 bits (114), Expect = 7e-08
Identities = 30/93 (32%), Positives = 47/93 (50%), Gaps = 11/93 (11%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
+A+VTG G+GR+ ALLLA+ G +V VN ++ AA VV I GGKA
Sbjct: 3 IALVTGGSRGIGRATALLLAQEGYTVAVNYQ--------QNLHAAQEVVNLITQAGGKAF 54
Query: 71 PDYNSVVDGDKIV---QTALENFGRIDIVINNA 100
+ D +++V ++ + ++NNA
Sbjct: 55 VLQADISDENQVVAMFTAIDQHDEPLAALVNNA 87
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 47.4 bits (113), Expect = 8e-08
Identities = 26/100 (26%), Positives = 40/100 (40%), Gaps = 15/100 (15%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M F G+ +VTGA +G+GR+ A+ LA+RGA VV + +
Sbjct: 1 MNMAFDFSGKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGETGCEPLRL 60
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ V D ++ AL G D ++N A
Sbjct: 61 D---------------VGDDAAIRAALAAAGAFDGLVNCA 85
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 47.6 bits (114), Expect = 1e-07
Identities = 25/94 (26%), Positives = 40/94 (42%), Gaps = 15/94 (15%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F G+ VTGA G+G + AL E GA V+ D + + T V ++
Sbjct: 6 FSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGFD----QAFLTQEDYPFATFVLDVS--- 58
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D +V ++ Q L G +D+++N A
Sbjct: 59 -----DAAAV---AQVCQRLLAETGPLDVLVNAA 84
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 47.2 bits (112), Expect = 1e-07
Identities = 35/97 (36%), Positives = 47/97 (48%), Gaps = 14/97 (14%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+G+VAI+TG GLG+ A+ LA+ GA +V G A A++ + G
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIV-----------GVGVAEAPETQAQVEALG 54
Query: 67 GK---AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
K D D D IV A+E G IDI+INNA
Sbjct: 55 RKFHFITADLIQQKDIDSIVSQAVEVMGHIDILINNA 91
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 47.1 bits (112), Expect = 1e-07
Identities = 30/101 (29%), Positives = 49/101 (48%), Gaps = 19/101 (18%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+RF G+VA++TG G+GR+ A GA V V + +K E+R
Sbjct: 2 SMRFKGKVALITGGTRGIGRAIAEAFLREGAKVAVL-----YNSAENEAK-------ELR 49
Query: 64 SKGGKA----VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
KG V + + V ++V+ + FGR+D+++NNA
Sbjct: 50 EKGVFTIKCDVGNRDQVKKSKEVVE---KEFGRVDVLVNNA 87
>gnl|CDD|187649 cd08945, PKR_SDR_c, Polyketide ketoreductase, classical (c) SDR.
Polyketide ketoreductase (KR) is a classical SDR with a
characteristic NAD-binding pattern and active site
tetrad. Aromatic polyketides include various aromatic
compounds of pharmaceutical interest. Polyketide KR,
part of the type II polyketide synthase (PKS) complex,
is comprised of stand-alone domains that resemble the
domains found in fatty acid synthase and multidomain
type I PKS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 258
Score = 46.8 bits (111), Expect = 2e-07
Identities = 32/96 (33%), Positives = 48/96 (50%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
D VA+VTGA +G+G + A L + G V V G + T V E+R G
Sbjct: 2 DSEVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEG---------LATTVKELREAGV 52
Query: 68 KA---VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+A D SV + + +V A+ +G ID+++NNA
Sbjct: 53 EADGRTCDVRSVPEIEALVAAAVARYGPIDVLVNNA 88
>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 = 46.6 bits (111), Expect = 2e-07
Identities = 31/95 (32%), Positives = 47/95 (49%), Gaps = 13/95 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTG +G+G + A LA GA+VVV D+ VAE G +
Sbjct: 1 GKVALVTGGASGIGLAIAKRLAAEGAAVVVADI----------DPEIAEKVAEAAQGGPR 50
Query: 69 AVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
A+ V ++ + A+ FG +DIV++NA
Sbjct: 51 ALGVQCDVTSEAQVQSAFEQAVLEFGGLDIVVSNA 85
>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 = 46.3 bits (110), Expect = 2e-07
Identities = 29/99 (29%), Positives = 48/99 (48%), Gaps = 13/99 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+G+ A+VTG G+G + LA GA V ++ K D + E R K
Sbjct: 3 NLEGKTALVTGGTKGIGYAIVEELAGLGAEVYTC---------ARNQKELDECLTEWREK 53
Query: 66 GGKA---VPDYNSVVDGDKIVQTALENF-GRIDIVINNA 100
G K V D +S + +++ T +F G+++I++NNA
Sbjct: 54 GFKVEGSVCDVSSRSERQELMDTVASHFGGKLNILVNNA 92
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 46.1 bits (110), Expect = 3e-07
Identities = 28/97 (28%), Positives = 39/97 (40%), Gaps = 14/97 (14%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+V +TG G+G + A LA GA V + DL D A AE+
Sbjct: 2 DLRGKVVAITGGARGIGLATARALAALGARVAIGDL----DEA-----LAKETAAELGLV 52
Query: 66 GGKA--VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G V D S + + G ID+++NNA
Sbjct: 53 VGGPLDVTDPASF---AAFLDAVEADLGPIDVLVNNA 86
>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 = 46.2 bits (110), Expect = 3e-07
Identities = 25/96 (26%), Positives = 47/96 (48%), Gaps = 13/96 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
++ ++TGA +G+++ L GA +++ D+ A + + E+ +
Sbjct: 2 DKIILITGAAGLIGKAFCKALLSAGARLILADINA---------PALEQLKEELTNLYKN 52
Query: 69 AVP----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D S +++++ LE FGRIDI+INNA
Sbjct: 53 RVIALELDITSKESIKELIESYLEKFGRIDILINNA 88
>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 = 46.3 bits (110), Expect = 3e-07
Identities = 32/97 (32%), Positives = 43/97 (44%), Gaps = 14/97 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ I+TGA G+G+ A LA RGA V++ RD K +AA AEIR
Sbjct: 1 GKTVIITGANTGIGKETARELARRGARVIM----ACRD-MAKCEEAA----AEIRRDTLN 51
Query: 69 AVP-----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D S+ L R+D++INNA
Sbjct: 52 HEVIVRHLDLASLKSIRAFAAEFLAEEDRLDVLINNA 88
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 45.2 bits (108), Expect = 3e-07
Identities = 24/94 (25%), Positives = 39/94 (41%), Gaps = 9/94 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
++TG GLG + A LA GA +V G + AA+ +VAE+ + G +
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLV-----SRRGPAPGAAE-LVAELEALGAEV 54
Query: 70 VP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D ++ G +D V++NA
Sbjct: 55 TVAACDVADRDALAALLAALPAALGPLDGVVHNA 88
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 45.9 bits (109), Expect = 4e-07
Identities = 30/96 (31%), Positives = 42/96 (43%), Gaps = 14/96 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVV---NDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+V ++ G LG A LA +GA V N + D A+ VA +++
Sbjct: 8 GKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKAD--------AEETVAAVKAA 59
Query: 66 GGKAVP---DYNSVVDGDKIVQTALENFGRIDIVIN 98
G KAV D + +K+ A FGR DI IN
Sbjct: 60 GAKAVAFQADLTTAAAVEKLFDDAKAAFGRPDIAIN 95
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 45.4 bits (108), Expect = 5e-07
Identities = 33/96 (34%), Positives = 48/96 (50%), Gaps = 17/96 (17%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK-GG 67
+V +TGA G GR++ ERG VV RD +A++ K G
Sbjct: 3 EKVWFITGASRGFGRAWTEAALERGDRVV----ATARDTA---------TLADLAEKYGD 49
Query: 68 KAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+ +P V D + V+TA+E+FGR+DIV+NNA
Sbjct: 50 RLLPLALDVTDRAAVFAAVETAVEHFGRLDIVVNNA 85
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 45.7 bits (109), Expect = 5e-07
Identities = 23/100 (23%), Positives = 39/100 (39%), Gaps = 15/100 (15%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M + G+ A+VTG G+G + L E GA VV R + + V A
Sbjct: 1 MSFFLELAGKRALVTGGTKGIGAATVARLLEAGARVVTT----ARSRPDDLPEGVEFVAA 56
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
++ + G + + LE G +DI+++
Sbjct: 57 DLTTAEG-----------CAAVARAVLERLGGVDILVHVL 85
>gnl|CDD|187662 cd09761, A3DFK9-like_SDR_c, Clostridium thermocellum A3DFK9-like, a
putative carbohydrate or polyalcohol metabolizing SDR,
classical (c) SDRs. This subgroup includes a putative
carbohydrate or polyalcohol metabolizing SDR (A3DFK9)
from Clostridium thermocellum. Its members have a
TGXXXGXG classical-SDR glycine-rich NAD-binding motif,
and some have a canonical SDR active site tetrad (A3DFK9
lacks the upstream Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 45.6 bits (108), Expect = 5e-07
Identities = 31/92 (33%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VAIVTG G G+G+ L E G VV D+ +R D ++ +
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAEAEGPNLFFVHGD----- 55
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D V +V LE GRID+++NNA
Sbjct: 56 -VADETLVKF---VVYAMLEKLGRIDVLVNNA 83
>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 = 45.4 bits (108), Expect = 5e-07
Identities = 28/92 (30%), Positives = 42/92 (45%), Gaps = 12/92 (13%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
+VTGA G+G + A LAE GA V D ++ +VA++R G
Sbjct: 1 VLVTGAAQGIGYAVARALAEAGARVAAVDRNFEQ---------LLELVADLRRYGYPFAT 51
Query: 72 DYNSVVDG---DKIVQTALENFGRIDIVINNA 100
V D D++VQ +G ID+++N A
Sbjct: 52 YKLDVADSAAVDEVVQRLEREYGPIDVLVNVA 83
>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 = 44.6 bits (106), Expect = 9e-07
Identities = 20/94 (21%), Positives = 38/94 (40%), Gaps = 10/94 (10%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G ++TG +G+G + A E G +V++ G+ + E+ +
Sbjct: 3 LTGNTVLITGGTSGIGLALARKFLEAGNTVIIT---------GRREERLAEAKKELPNIH 53
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D + + + L + +DI+INNA
Sbjct: 54 TI-VLDVGDAESVEALAEALLSEYPNLDILINNA 86
>gnl|CDD|187638 cd08933, RDH_SDR_c, retinal dehydrogenase-like, classical (c) SDR.
These classical SDRs includes members identified as
retinol dehydrogenases, which convert retinol to
retinal, a property that overlaps with 17betaHSD
activity. 17beta-dehydrogenases are a group of isozymes
that catalyze activation and inactivation of estrogen
and androgens, and include members of the short-chain
dehydrogenases/reductase family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 261
Score = 44.8 bits (106), Expect = 9e-07
Identities = 30/96 (31%), Positives = 42/96 (43%), Gaps = 7/96 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R+ +V IVTG G+GR E GA VV G +A ++ +
Sbjct: 6 RYADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAA------GQALESELNRAGPG 59
Query: 66 GGKAVP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
K VP D D ++ +E FGRID ++NNA
Sbjct: 60 SCKFVPCDVTKEEDIKTLISVTVERFGRIDCLVNNA 95
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 44.8 bits (106), Expect = 9e-07
Identities = 31/97 (31%), Positives = 47/97 (48%), Gaps = 14/97 (14%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
GR A+VTG+ G+G + A LA+ GA V++N G+ ++ +G
Sbjct: 9 TGRRALVTGSSQGIGYALAEGLAQAGAEVILN---------GRDPAKLAAAAESLKGQGL 59
Query: 68 KAVPDYNSVVDGDKIVQTALENF----GRIDIVINNA 100
A V D D V+ A++ F G IDI++NNA
Sbjct: 60 SAHALAFDVTDHDA-VRAAIDAFEAEIGPIDILVNNA 95
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 44.4 bits (105), Expect = 1e-06
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 8/95 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+V +TG GLGR+ A LA RGA V + G AD +
Sbjct: 4 SLQGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQTLPGVPADALRI----- 58
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
GG + D + + V FGR+D ++N A
Sbjct: 59 GGIDLVDPQAAR---RAVDEVNRQFGRLDALVNIA 90
>gnl|CDD|187606 cd05348, BphB-like_SDR_c,
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase
(BphB)-like, classical (c) SDRs.
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB) is
a classical SDR, it is of particular importance for its
role in the degradation of biphenyl/polychlorinated
biphenyls(PCBs); PCBs are a significant source of
environmental contamination. This subgroup also includes
Pseudomonas putida F1
cis-biphenyl-1,2-dihydrodiol-1,2-dehydrogenase (aka
cis-benzene glycol dehydrogenase, encoded by the bnzE
gene), which participates in benzene metabolism. In
addition it includes Pseudomonas sp. C18 putative
1,2-dihydroxy-1,2-dihydronaphthalene dehydrogenase (aka
dibenzothiophene dihydrodiol dehydrogenase, encoded by
the doxE gene) which participates in an upper
naphthalene catabolic pathway. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 44.3 bits (105), Expect = 1e-06
Identities = 33/99 (33%), Positives = 47/99 (47%), Gaps = 17/99 (17%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G VA++TG G+GLGR+ GA V V D ++ VAE+R+
Sbjct: 1 WLKGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEK-------------VAELRAD 47
Query: 66 GGKAVP----DYNSVVDGDKIVQTALENFGRIDIVINNA 100
G AV D S+ D ++ V +E FG++D I NA
Sbjct: 48 FGDAVVGVEGDVRSLADNERAVARCVERFGKLDCFIGNA 86
>gnl|CDD|187626 cd05368, DHRS6_like_SDR_c, human DHRS6-like, classical (c) SDRs.
Human DHRS6, and similar proteins. These proteins are
classical SDRs, with a canonical active site tetrad and
a close match to the typical Gly-rich NAD-binding motif.
Human DHRS6 is a cytosolic type 2 (R)-hydroxybutyrate
dehydrogenase, which catalyses the conversion of
(R)-hydroxybutyrate to acetoacetate. Also included in
this subgroup is Escherichia coli UcpA (upstream cys P).
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction. Note: removed :
needed to make this chiodl smaller when drew final
trees: rmeoved text form description: Other proteins in
this subgroup include Thermoplasma acidophilum
aldohexose dehydrogenase, which has high dehydrogenase
activity against D-mannose, Bacillus subtilis BacC
involved in the biosynthesis of the dipeptide bacilysin
and its antibiotic moiety anticapsin, Sphingomonas
paucimobilis strain B90 LinC, involved in the
degradation of hexachlorocyclohexane isomers...... P).
Length = 241
Score = 44.0 bits (104), Expect = 2e-06
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 15/93 (16%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
DG+VA++T A G+GR+ AL A GA+V+ D+ ++ + + T V ++ K
Sbjct: 1 DGKVALITAAAQGIGRAIALAFAREGANVIATDINEEKLKELERGPGITTRVLDVTDK-- 58
Query: 68 KAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ V + GRID++ N A
Sbjct: 59 -------------EQVAALAKEEGRIDVLFNCA 78
>gnl|CDD|187641 cd08936, CR_SDR_c, Porcine peroxisomal carbonyl reductase like,
classical (c) SDR. This subgroup contains porcine
peroxisomal carbonyl reductase and similar proteins. The
porcine enzyme efficiently reduces retinals. This
subgroup also includes human dehydrogenase/reductase
(SDR family) member 4 (DHRS4), and human DHRS4L1. DHRS4
is a peroxisomal enzyme with 3beta-hydroxysteroid
dehydrogenase activity; it catalyzes the reduction of
3-keto-C19/C21-steroids into 3beta-hydroxysteroids more
efficiently than it does the retinal reduction. The
human DHRS4 gene cluster contains DHRS4, DHRS4L2 and
DHRS4L1. DHRS4L2 and DHRS4L1 are paralogs of DHRS4,
DHRS4L2 being the most recent member. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 43.3 bits (102), Expect = 3e-06
Identities = 28/95 (29%), Positives = 48/95 (50%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+VT + G+G + A LA+ GA VVV+ + + D VA ++ +G
Sbjct: 10 NKVALVTASTDGIGLAIARRLAQDGAHVVVSS---------RKQQNVDRAVATLQGEGLS 60
Query: 69 ---AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D +++V TA+ G +DI+++NA
Sbjct: 61 VTGTVCHVGKAEDRERLVATAVNLHGGVDILVSNA 95
>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 = 43.4 bits (103), Expect = 3e-06
Identities = 29/94 (30%), Positives = 43/94 (45%), Gaps = 11/94 (11%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA G+G LA+ G V+ L RD + V ++R++G
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVI--LTA-RD-----VERGQAAVEKLRAEGLSV 52
Query: 70 VPDYNSVVDGDKIVQTAL---ENFGRIDIVINNA 100
V D I A E +G +DI++NNA
Sbjct: 53 RFHQLDVTDDASIEAAADFVEEKYGGLDILVNNA 86
>gnl|CDD|187614 cd05356, 17beta-HSD1_like_SDR_c, 17-beta-hydroxysteroid
dehydrogenases (17beta-HSDs) types -1, -3, and -12,
-like, classical (c) SDRs. This subgroup includes
various 17-beta-hydroxysteroid dehydrogenases and
3-ketoacyl-CoA reductase, these are members of the SDR
family, and contain the canonical active site tetrad and
glycine-rich NAD-binding motif of the classical SDRs.
3-ketoacyl-CoA reductase (KAR, aka 17beta-HSD type 12,
encoded by HSD17B12) acts in fatty acid elongation;
17beta- hydroxysteroid dehydrogenases are isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family.
17beta-estradiol dehydrogenase (aka 17beta-HSD type 1,
encoded by HSD17B1) converts estrone to estradiol.
Estradiol is the predominant female sex hormone.
17beta-HSD type 3 (aka testosterone
17-beta-dehydrogenase 3, encoded by HSD17B3) catalyses
the reduction of androstenedione to testosterone, it
also accepts estrogens as substrates. This subgroup also
contains a putative steroid dehydrogenase let-767 from
Caenorhabditis elegans, mutation in which results in
hypersensitivity to cholesterol limitation. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 239
Score = 43.0 bits (102), Expect = 4e-06
Identities = 31/99 (31%), Positives = 47/99 (47%), Gaps = 20/99 (20%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G A+VTGA G+G++YA LA+RG +V++ + ++ D V EI K G
Sbjct: 1 GTWAVVTGATDGIGKAYAEELAKRGFNVIL--ISRTQE-------KLDAVAKEIEEKYGV 51
Query: 69 ----AVPDYNSVVDGDKIVQ---TALENFGRIDIVINNA 100
D++ GD I + LE I I++NN
Sbjct: 52 ETKTIAADFS---AGDDIYERIEKELEGL-DIGILVNNV 86
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 43.0 bits (102), Expect = 4e-06
Identities = 23/100 (23%), Positives = 40/100 (40%), Gaps = 18/100 (18%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVV-----NDLGGQRDGDGKSSKAADTVVA 60
+ ++TGA G+G++ A LA GA +++ L + VVA
Sbjct: 2 DLKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLPYPGR-HRWVVA 60
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
++ S+ G + V G I+++INNA
Sbjct: 61 DLTSE------------AGREAVLARAREMGGINVLINNA 88
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 42.9 bits (101), Expect = 5e-06
Identities = 28/95 (29%), Positives = 41/95 (43%), Gaps = 7/95 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VA+VTG G+G S L + GA V + DL + S + V
Sbjct: 15 RLLGKVALVTGGATGIGESIVRLFHKHGAKVCIVDLQDDLGQNVCDSLGGEPNVCFFHC- 73
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D D + V ++ FG +DI++NNA
Sbjct: 74 ------DVTVEDDVSRAVDFTVDKFGTLDIMVNNA 102
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 42.6 bits (101), Expect = 5e-06
Identities = 32/98 (32%), Positives = 51/98 (52%), Gaps = 15/98 (15%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
R+ +VTGAG G+GR AL A GA+V++ G++ + + V EI + GG
Sbjct: 12 DRIILVTGAGDGIGREAALTYARHGATVILL---------GRTEEKLEAVYDEIEAAGGP 62
Query: 69 A---VP-DYNSVVDGD--KIVQTALENFGRIDIVINNA 100
+P D + + ++ T E FGR+D V++NA
Sbjct: 63 QPAIIPLDLLTATPQNYQQLADTIEEQFGRLDGVLHNA 100
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 42.4 bits (100), Expect = 6e-06
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 13/94 (13%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK--- 68
A +TGA GLGR+ A +AE+GA V + D+ D AEI + G+
Sbjct: 2 AFITGAAGGLGRAIARRMAEQGAKVFLTDINDA--------AGLDAFAAEINAAHGEGVA 53
Query: 69 --AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
AV D ++ A + G + +++NNA
Sbjct: 54 FAAVQDVTDEAQWQALLAQAADAMGGLSVLVNNA 87
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 42.2 bits (99), Expect = 6e-06
Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 14/95 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTG GLG+ AL LAE G +V G + + ++ + G +
Sbjct: 10 GKVAVVTGCDTGLGQGMALGLAEAGCDIV-----------GINIVEPTETIEQVTALGRR 58
Query: 69 AV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D + +++ A+ FG IDI++NNA
Sbjct: 59 FLSLTADLRKIDGIPALLERAVAEFGHIDILVNNA 93
>gnl|CDD|187599 cd05340, Ycik_SDR_c, Escherichia coli K-12 YCIK-like, classical (c)
SDRs. Escherichia coli K-12 YCIK and related proteins
have a canonical classical SDR nucleotide-binding motif
and active site tetrad. They are predicted oxoacyl-(acyl
carrier protein/ACP) reductases. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 236
Score = 41.8 bits (98), Expect = 1e-05
Identities = 27/98 (27%), Positives = 47/98 (47%), Gaps = 15/98 (15%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
R+ +VTGA G+GR AL A GA+V++ G++ + V I +GG+
Sbjct: 4 DRIILVTGASDGIGREAALTYARYGATVILL---------GRNEEKLRQVADHINEEGGR 54
Query: 69 A----VPDYNSVV--DGDKIVQTALENFGRIDIVINNA 100
+ D + + ++ Q N+ R+D V++NA
Sbjct: 55 QPQWFILDLLTCTSENCQQLAQRIAVNYPRLDGVLHNA 92
>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 = 41.7 bits (98), Expect = 1e-05
Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 5/92 (5%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+V G G LG LAE G V V D+ + + K AD + AE K
Sbjct: 2 NQVAVVIGGGQTLGEFLCHGLAEAGYDVAVADINSE-----NAEKVADEINAEYGEKAYG 56
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D + + + E F R+D+++ +A
Sbjct: 57 FGADATNEQSVIALSKGVDEIFKRVDLLVYSA 88
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 41.9 bits (98), Expect = 1e-05
Identities = 28/95 (29%), Positives = 42/95 (44%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A++TGA G+G+ AL E GA V + + A + + EI + GGK
Sbjct: 9 GKRALITGASTGIGKRVALAYVEAGAQVAIA---------ARHLDALEKLADEIGTSGGK 59
Query: 69 AVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
VP V ++ + G IDI + NA
Sbjct: 60 VVPVCCDVSQHQQVTSMLDQVTAELGGIDIAVCNA 94
>gnl|CDD|187601 cd05343, Mgc4172-like_SDR_c, human Mgc4172-like, classical (c)
SDRs. Human Mgc4172-like proteins, putative SDRs. These
proteins are members of the SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 41.3 bits (97), Expect = 1e-05
Identities = 28/99 (28%), Positives = 45/99 (45%), Gaps = 13/99 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R+ GRVA+VTGA G+G + A L + G VV G + + + AE +S
Sbjct: 3 RWRGRVALVTGASVGIGAAVARALVQHGMKVV---------GCARRVDKIEALAAECQSA 53
Query: 66 GGKAVPDYN-SVVDGDKIV---QTALENFGRIDIVINNA 100
G + Y + + ++I+ +D+ INNA
Sbjct: 54 GYPTLFPYQCDLSNEEQILSMFSAIRTQHQGVDVCINNA 92
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 41.5 bits (98), Expect = 1e-05
Identities = 28/94 (29%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDL-GGQRDGDGKSSKAADTVVAEIRSKG 66
G++ IVTG +G+G + L GA+VV D+ GG + D
Sbjct: 8 QGKIIIVTGGSSGIGLAIVKELLANGANVVNADIHGGDGQHENYQFVPTD---------- 57
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V V + V +E FGRID ++NNA
Sbjct: 58 ---VSSAEEV---NHTVAEIIEKFGRIDGLVNNA 85
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 41.2 bits (97), Expect = 2e-05
Identities = 25/94 (26%), Positives = 49/94 (52%), Gaps = 9/94 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVV--VNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
++AIVTGA +G G L LA++G V+ + + Q + ++++ +++
Sbjct: 3 KKIAIVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQLNLQQNIKVQQLD 62
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D NS+ + +++ GRID+++NNA
Sbjct: 63 ---VTDQNSIHNFQLVLKE----IGRIDLLVNNA 89
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 41.2 bits (97), Expect = 2e-05
Identities = 32/95 (33%), Positives = 42/95 (44%), Gaps = 14/95 (14%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR--SK 65
G+ AIVTG +GLG LA+ GA V+V R D A +A I
Sbjct: 25 SGKTAIVTGGYSGLGLETTRALAQAGAHVIV----PARRPD-----VAREALAGIDGVEV 75
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D SV + L++ RIDI+INNA
Sbjct: 76 VMLDLADLESV---RAFAERFLDSGRRIDILINNA 107
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 40.7 bits (96), Expect = 2e-05
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 20/101 (19%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+VA++TG +G + A L G V ++ +S+ AD + AE+ +
Sbjct: 5 SAKVALITGGARRIGAAIARTLHAAGYRVAIHY--------HRSAAEADALAAELNA--- 53
Query: 68 KAVPDYNSVVDGD--------KIVQTALENFGRIDIVINNA 100
P + + D ++V + FGR+D ++NNA
Sbjct: 54 -LRPGSAAALQADLLDPDALPELVAACVAAFGRLDALVNNA 93
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 40.7 bits (96), Expect = 2e-05
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 18/106 (16%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M F G+ +V G +G+ A A GA+V V +S + D VA
Sbjct: 1 MTTMFDFAGKNVVVVGGTSGINLGIAQAFARAGANVAVA---------SRSQEKVDAAVA 51
Query: 61 EIRSKGGKA------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+++ G + V DY +V + FG ID++++ A
Sbjct: 52 QLQQAGPEGLGVSADVRDYAAVEAA---FAQIADEFGPIDVLVSGA 94
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 40.5 bits (95), Expect = 2e-05
Identities = 22/100 (22%), Positives = 42/100 (42%), Gaps = 14/100 (14%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R DG+ A++TGA G+G + A GA V++ + + A E+ +
Sbjct: 6 RLDGQTALITGASKGIGLAIAREFLGLGADVLIV---------ARDADALAQARDELAEE 56
Query: 66 --GGKA---VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D + D I+ +++ + I++NNA
Sbjct: 57 FPEREVHGLAADVSDDEDRRAILDWVEDHWDGLHILVNNA 96
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 40.4 bits (94), Expect = 3e-05
Identities = 28/94 (29%), Positives = 42/94 (44%), Gaps = 10/94 (10%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R R A+VTG +G+GR+ A+ A GA V ++ L + + A V I
Sbjct: 46 RLKDRKALVTGGDSGIGRAAAIAYAREGADVAISYLPVEEED-------AQDVKKIIEEC 98
Query: 66 GGKAV---PDYNSVVDGDKIVQTALENFGRIDIV 96
G KAV D + +V A + G +DI+
Sbjct: 99 GRKAVLLPGDLSDEKFARSLVHEAHKALGGLDIM 132
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 40.4 bits (95), Expect = 3e-05
Identities = 31/102 (30%), Positives = 51/102 (50%), Gaps = 14/102 (13%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
Q++ +GRVA+VTG +G+G + LL E GASV + G+ + + A +R
Sbjct: 3 QIQLEGRVAVVTGGSSGIGLATVELLLEAGASVAIC---------GRDEERLASAEARLR 53
Query: 64 SK--GGKAVPDYNSVVDGDKIVQTA---LENFGRIDIVINNA 100
K G + + V+D + A FG +D+++NNA
Sbjct: 54 EKFPGARLLAARCDVLDEADVAAFAAAVEARFGGVDMLVNNA 95
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 40.1 bits (94), Expect = 4e-05
Identities = 30/95 (31%), Positives = 46/95 (48%), Gaps = 12/95 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G V ++TGA +G+G++ A A RGA +V+ RD + A V E R+ G +
Sbjct: 7 GAVVVITGASSGIGQATAEAFARRGARLVL----AARDEE-----ALQAVAEECRALGAE 57
Query: 69 AVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+ V D D++ A GRID+ +NN
Sbjct: 58 VLVVPTDVTDADQVKALATQAASFGGRIDVWVNNV 92
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 40.1 bits (93), Expect = 4e-05
Identities = 36/104 (34%), Positives = 49/104 (47%), Gaps = 23/104 (22%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA G+GR+ A LA GA V ++ G + A+ V EI+S GG
Sbjct: 4 GKVALVTGASRGIGRAIAKRLANDGALVAIH--------YGNRKEEAEETVYEIQSNGGS 55
Query: 69 A------------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
A V S +D + +T F DI+INNA
Sbjct: 56 AFSIGANLESLHGVEALYSSLDNELQNRTGSTKF---DILINNA 96
>gnl|CDD|187625 cd05367, SPR-like_SDR_c, sepiapterin reductase (SPR)-like,
classical (c) SDRs. Human SPR, a member of the SDR
family, catalyzes the NADP-dependent reduction of
sepiaptern to 7,8-dihydrobiopterin (BH2). In addition to
SPRs, this subgroup also contains Bacillus cereus yueD,
a benzil reductase, which catalyzes the stereospecific
reduction of benzil to (S)-benzoin. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 241
Score = 40.0 bits (94), Expect = 5e-05
Identities = 26/97 (26%), Positives = 43/97 (44%), Gaps = 19/97 (19%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAA-------DTVVAEIR 63
V I+TGA G+GR+ A L +RG+ VV L + + + K TV A++
Sbjct: 1 VIILTGASRGIGRALAEELLKRGSPSVVVLL-ARSEEPLQELKEELRPGLRVTTVKADLS 59
Query: 64 SKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G ++++ + G D++INNA
Sbjct: 60 DAAGVE-----------QLLEAIRKLDGERDLLINNA 85
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 39.9 bits (94), Expect = 5e-05
Identities = 23/96 (23%), Positives = 36/96 (37%), Gaps = 15/96 (15%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+ ++TG +G GR+ A G VV + ++
Sbjct: 3 SMKTWLITGVSSGFGRALAQAALAAGHRVVG------------TVRSEAARADFEALHPD 50
Query: 68 KAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+A+ V D D I V A FG ID+++NNA
Sbjct: 51 RALARLLDVTDFDAIDAVVADAEATFGPIDVLVNNA 86
>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 = 39.7 bits (93), Expect = 5e-05
Identities = 29/92 (31%), Positives = 42/92 (45%), Gaps = 12/92 (13%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA G+G A LA G V + G R+ A + +A
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSL----GLRNP----EDLAALSASG---GDVEA 49
Query: 70 VP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
VP D D +V + FGRID++++NA
Sbjct: 50 VPYDARDPEDARALVDALRDRFGRIDVLVHNA 81
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 39.6 bits (92), Expect = 6e-05
Identities = 27/97 (27%), Positives = 43/97 (44%), Gaps = 12/97 (12%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F GR A++TG +G+G + A RGA VV+ D+ V +R++G
Sbjct: 4 FPGRGAVITGGASGIGLATGTEFARRGARVVLGDV---------DKPGLRQAVNHLRAEG 54
Query: 67 GKAVPDYNSVVDGDKIVQTALENF---GRIDIVINNA 100
V +++ A E F G +D+V +NA
Sbjct: 55 FDVHGVMCDVRHREEVTHLADEAFRLLGHVDVVFSNA 91
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 39.7 bits (93), Expect = 6e-05
Identities = 21/91 (23%), Positives = 35/91 (38%), Gaps = 5/91 (5%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
++A+VTGA G+G + A L G V+ G +K +
Sbjct: 3 KIALVTGAKRGIGSAIARELLNDGYRVIATYFSG-----NDCAKDWFEEYGFTEDQVRLK 57
Query: 70 VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D + + + E G +DI++NNA
Sbjct: 58 ELDVTDTEECAEALAEIEEEEGPVDILVNNA 88
>gnl|CDD|132368 TIGR03325, BphB_TodD, cis-2,3-dihydrobiphenyl-2,3-diol
dehydrogenase. Members of this family occur as the BphD
protein of biphenyl catabolism and as the TodD protein
of toluene catabolism. Members catalyze the second step
in each pathway and proved interchangeable when tested;
the first and fourth enzymes in each pathway confer
metabolic specificity. In the context of biphenyl
degradation, the enzyme acts as
cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC
1.3.1.56), while in toluene degradation it acts as
cis-toluene dihydrodiol dehydrogenase.
Length = 262
Score = 39.4 bits (92), Expect = 7e-05
Identities = 30/100 (30%), Positives = 42/100 (42%), Gaps = 17/100 (17%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
+R G V +VTG +GLGR+ GA V V D + E+ +
Sbjct: 1 MRLKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLDKSAAG-------------LQELEA 47
Query: 65 KGGKAV----PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G AV D S+ D + V + FG+ID +I NA
Sbjct: 48 AHGDAVVGVEGDVRSLDDHKEAVARCVAAFGKIDCLIPNA 87
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 39.2 bits (92), Expect = 7e-05
Identities = 29/92 (31%), Positives = 40/92 (43%), Gaps = 17/92 (18%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPDY 73
+TGA +G+GR+ ALL A G V D + G + AE+ G A
Sbjct: 6 ITGAASGIGRATALLFAAEGWRVGAYD----INEAG-----LAALAAEL--GAGNAWTGA 54
Query: 74 NSVVDGDKIVQTALENF-----GRIDIVINNA 100
V D AL +F GR+D++ NNA
Sbjct: 55 LDVTDRAA-WDAALADFAAATGGRLDVLFNNA 85
>gnl|CDD|187609 cd05351, XR_like_SDR_c, xylulose reductase-like, classical (c)
SDRs. Members of this subgroup include proteins
identified as L-xylulose reductase (XR) and carbonyl
reductase; they are members of the SDR family. XR,
catalyzes the NADP-dependent reduction of L-xyulose and
other sugars. Tetrameric mouse carbonyl reductase is
involved in the metabolism of biogenic and xenobiotic
carbonyl compounds. This subgroup also includes
tetrameric chicken liver D-erythrulose reductase, which
catalyzes the reduction of D-erythrulose to D-threitol.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser).
Length = 244
Score = 39.4 bits (92), Expect = 8e-05
Identities = 17/31 (54%), Positives = 22/31 (70%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVV 37
F G+ A+VTGAG G+GR+ LA+ GA VV
Sbjct: 5 FAGKRALVTGAGKGIGRATVKALAKAGARVV 35
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 38.6 bits (90), Expect = 2e-04
Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 12/96 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
D R A+V GA +G+G + A+ LA G V LG +R + + +V +IR+ GG
Sbjct: 9 DRRPALVAGASSGIGAATAIELAAAGFPVA---LGARR------VEKCEELVDKIRADGG 59
Query: 68 KAVPDYNSVVDGDKI---VQTALENFGRIDIVINNA 100
+AV V D D + V A E G I+++++ A
Sbjct: 60 EAVAFPLDVTDPDSVKSFVAQAEEALGEIEVLVSGA 95
>gnl|CDD|187656 cd08953, KR_2_SDR_x, ketoreductase (KR), subgroup 2, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
both KR domains of the Bacillus subtilis Pks J,-L, and
PksM, and all three KR domains of PksN, components of
the megacomplex bacillaene synthase, which synthesizes
the antibiotic bacillaene. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 436
Score = 38.5 bits (90), Expect = 2e-04
Identities = 29/99 (29%), Positives = 47/99 (47%), Gaps = 12/99 (12%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G V +VTG G+GR+ A LA R + +V L G+ + A T +A + + G
Sbjct: 204 PGGVYLVTGGAGGIGRALARALARRYGARLV--LLGRSPLPPEEEWKAQT-LAALEALGA 260
Query: 68 KA------VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ V D +V ++++ E +G ID VI+ A
Sbjct: 261 RVLYISADVTDAAAV---RRLLEKVRERYGAIDGVIHAA 296
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 38.4 bits (90), Expect = 2e-04
Identities = 27/98 (27%), Positives = 40/98 (40%), Gaps = 15/98 (15%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+ A++TG +G+G A GA V + G+ + + AE+
Sbjct: 3 RLQGKTALITGGTSGIGLETARQFLAEGARVAIT---------GRDPASLEAARAEL--- 50
Query: 66 GGKAV---PDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G A+ D V + Q E FGR+D V NA
Sbjct: 51 GESALVIRADAGDVAAQKALAQALAEAFGRLDAVFINA 88
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 38.3 bits (89), Expect = 2e-04
Identities = 34/100 (34%), Positives = 43/100 (43%), Gaps = 9/100 (9%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+GRVA+VTGA G+G A L G VV+ DL +R SK A +
Sbjct: 2 SEPNPGHNGRVALVTGAARGIGLGIAAWLIAEGWQVVLADLDRER-----GSKVAK-ALG 55
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
E V D V G V L FGR+D ++ NA
Sbjct: 56 ENAWFIAMDVADEAQVAAG---VAEVLGQFGRLDALVCNA 92
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 37.6 bits (88), Expect = 3e-04
Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 18/94 (19%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTV--VAEIRSKGG 67
+VA+VTGA +G+G++ A LA +G +V AA V + ++ S G
Sbjct: 4 KVALVTGASSGIGKATARRLAAQGYTVYG---------------AARRVDKMEDLASLGV 48
Query: 68 KAVP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D V T + GRID+++NNA
Sbjct: 49 HPLSLDVTDEASIKAAVDTIIAEEGRIDVLVNNA 82
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 37.9 bits (88), Expect = 3e-04
Identities = 27/92 (29%), Positives = 39/92 (42%), Gaps = 9/92 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
RV +VTGA G+GR+ A G VVV D +R + S D +
Sbjct: 5 SRVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGPDHHALAM------ 58
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D + + + FGRID+++NNA
Sbjct: 59 ---DVSDEAQIREGFEQLHREFGRIDVLVNNA 87
Score = 37.1 bits (86), Expect = 5e-04
Identities = 22/101 (21%), Positives = 37/101 (36%), Gaps = 25/101 (24%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQR--------DGDGKSSKAADTVV 59
RV +TG G+GR+ A A G +++ D + + S +A T
Sbjct: 268 SPRVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEALGDEHLSVQADITDE 327
Query: 60 AEIRSKGGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
A + S +GR+D+++NNA
Sbjct: 328 AAVES-----------------AFAQIQARWGRLDVLVNNA 351
>gnl|CDD|131732 TIGR02685, pter_reduc_Leis, pteridine reductase. Pteridine
reductase is an enzyme used by trypanosomatids
(including Trypanosoma cruzi and Leishmania major) to
obtain reduced pteridines by salvage rather than
biosynthetic pathways. Enzymes in T. cruzi described as
pteridine reductase 1 (PTR1) and pteridine reductase 2
(PTR2) have different activity profiles. PTR1 is more
active with with fully oxidized biopterin and folate
than with reduced forms, while PTR2 reduces
dihydrobiopterin and dihydrofolate but not oxidized
pteridines. T. cruzi PTR1 and PTR2 are more similar to
each other in sequence than either is to the pteridine
reductase of Leishmania major, and all are included in
this family.
Length = 267
Score = 37.6 bits (87), Expect = 3e-04
Identities = 28/102 (27%), Positives = 43/102 (42%), Gaps = 24/102 (23%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
A+VTGA +G S A+ L + G VV++ +S+ AA T+ AE+
Sbjct: 3 AAVVTGAAKRIGSSIAVALHQEGYRVVLH--------YHRSAAAASTLAAEL----NARR 50
Query: 71 PDYNSVVDGD------------KIVQTALENFGRIDIVINNA 100
P+ D I+ FGR D+++NNA
Sbjct: 51 PNSAVTCQADLSNSATLFSRCEAIIDACFRAFGRCDVLVNNA 92
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 37.0 bits (86), Expect = 5e-04
Identities = 24/104 (23%), Positives = 39/104 (37%), Gaps = 17/104 (16%)
Query: 9 GRVAIVTGA--GAGLGRSYALLLAERGASVVVN--DLGGQRDGDGKSSKAADTVVAEIRS 64
++A+VTGA G+G + LA +G + + G K + EI S
Sbjct: 5 KKIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEIES 64
Query: 65 KGGK--------AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
G + + P +++ E G I+INNA
Sbjct: 65 YGVRCEHMEIDLSQPY-----APNRVFYAVSERLGDPSILINNA 103
>gnl|CDD|187634 cd08929, SDR_c4, classical (c) SDR, subgroup 4. This subgroup has
a canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 226
Score = 36.7 bits (85), Expect = 5e-04
Identities = 25/89 (28%), Positives = 34/89 (38%), Gaps = 9/89 (10%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTGA G+G + A LL G V + RD A+
Sbjct: 3 ALVTGASRGIGEATARLLHAEGYRVGIC----ARDE-----ARLAAAAAQELEGVLGLAG 53
Query: 72 DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D D + V E FG +D ++NNA
Sbjct: 54 DVRDEADVRRAVDAMEEAFGGLDALVNNA 82
>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 = 36.9 bits (86), Expect = 6e-04
Identities = 26/96 (27%), Positives = 46/96 (47%), Gaps = 19/96 (19%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA---EIRSK-GG 67
++TGA +G+G + A A+ GA ++ L G+R A+ + E+ +K
Sbjct: 3 VLITGASSGIGEATARRFAKAGAKLI---LTGRR---------AERLQELADELGAKFPV 50
Query: 68 KAVP---DYNSVVDGDKIVQTALENFGRIDIVINNA 100
K +P D + + ++ E F IDI++NNA
Sbjct: 51 KVLPLQLDVSDRESIEAALENLPEEFRDIDILVNNA 86
>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 = 36.2 bits (84), Expect = 0.001
Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 14/93 (15%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
++TGA +G+GR+ A A+ G +V L +R D + AE+ +
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVA---LAARRT------DRLDELKAELLNPNPSVEV 51
Query: 72 DYNSVVDGDKIVQTALENF----GRIDIVINNA 100
+ V D + Q + G +D+VI NA
Sbjct: 52 EILDVTDEE-RNQLVIAELEAELGGLDLVIINA 83
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 35.9 bits (83), Expect = 0.001
Identities = 21/92 (22%), Positives = 32/92 (34%), Gaps = 10/92 (10%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
R A+VTGA G+G++ A G V+ D D A +
Sbjct: 3 RTALVTGAAGGIGQALARRFLAAGDRVLALD----IDAA-----ALAAFADALGDARFVP 53
Query: 70 VP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
V D + A G +D+++ NA
Sbjct: 54 VACDLTDAASLAAALANAAAERGPVDVLVANA 85
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 35.7 bits (83), Expect = 0.001
Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 32/109 (29%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVV--------- 59
G+VA+V GA G GR A+ L GA+V V G+S++A +
Sbjct: 8 GKVALVAGATRGAGRGIAVELGAAGATVYVT---------GRSTRARRSEYDRPETIEET 58
Query: 60 AE-IRSKGGKAVPDYNSVVDGDKIVQTALENF--------GRIDIVINN 99
AE + + GG+ + V D +V + GR+DI++N+
Sbjct: 59 AELVTAAGGRGIA-----VQVDHLVPEQVRALVERIDREQGRLDILVND 102
>gnl|CDD|187592 cd05331, DH-DHB-DH_SDR_c, 2,3 dihydro-2,3 dihydrozybenzoate
dehydrogenases, classical (c) SDRs. 2,3 dihydro-2,3
dihydrozybenzoate dehydrogenase shares the
characteristics of the classical SDRs. This subgroup
includes Escherichai coli EntA which catalyzes the
NAD+-dependent oxidation of
2,3-dihydro-2,3-dihydroxybenzoate to
2,3-dihydroxybenzoate during biosynthesis of the
siderophore Enterobactin. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 35.5 bits (82), Expect = 0.002
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 13/89 (14%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
IVTGA G+GR+ A L + GA+V+ DL + ++
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIALDLPFVL--LLEYGDPLRLTPLDVA-------- 50
Query: 72 DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D +V ++ L G ID ++N A
Sbjct: 51 DAAAV---REVCSRLLAEHGPIDALVNCA 76
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 35.3 bits (82), Expect = 0.002
Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 15/91 (16%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
A++TGA G+G + A LA ++ G+ ++ D + AE+ A
Sbjct: 4 PTALITGASRGIGAAIARELAPTHTLLLG----------GRPAERLDELAAELPG----A 49
Query: 70 VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
P + D + I A+E GR+D++++NA
Sbjct: 50 TPFPVDLTDPEAI-AAAVEQLGRLDVLVHNA 79
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 35.3 bits (81), Expect = 0.002
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVV 38
+ +VTGA GLG A A GA+V++
Sbjct: 6 DKTILVTGASQGLGEQVAKAYAAAGATVIL 35
>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 = 35.1 bits (81), Expect = 0.002
Identities = 20/98 (20%), Positives = 44/98 (44%), Gaps = 14/98 (14%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
++ G ++TG +G+G + A E G +V++ G++ + AE
Sbjct: 1 MKTTGNTILITGGASGIGLALAKRFLELGNTVIIC---------GRNEERLAEAKAENPE 51
Query: 65 KGGKA--VPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ V D +S ++V+ + + ++++INNA
Sbjct: 52 IHTEVCDVADRDSR---RELVEWLKKEYPNLNVLINNA 86
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 34.8 bits (80), Expect = 0.003
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 17/94 (18%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+VAIVTG G+G++ L E G++V+ D+ D K
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINFDIKEPSYNDVDYFKV------------ 51
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V + V+ G + + +GRIDI++NNA
Sbjct: 52 --DVSNKEQVIKG---IDYVISKYGRIDILVNNA 80
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 34.3 bits (79), Expect = 0.004
Identities = 23/89 (25%), Positives = 33/89 (37%), Gaps = 13/89 (14%)
Query: 14 VTGAGAGLGRSYALLLAERGASVV--VNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
+TGA +G GR L RG V V D + + ++ AV
Sbjct: 7 ITGASSGFGRGMTERLLARGDRVAATVRRPDALDDLKARYGDRLWVLQLDVTDSA--AVR 64
Query: 72 DYNSVVDGDKIVQTALENFGRIDIVINNA 100
+V A GRID+V++NA
Sbjct: 65 ---------AVVDRAFAALGRIDVVVSNA 84
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 34.4 bits (79), Expect = 0.005
Identities = 26/94 (27%), Positives = 46/94 (48%), Gaps = 11/94 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG- 67
G++ +VTG G+GR A E GA V+++ + ++A E+ + G
Sbjct: 6 GKIVLVTGGSRGIGRMIAQGFLEAGARVIIS---------ARKAEACADAAEELSAYGEC 56
Query: 68 KAVP-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
A+P D +S + +V E R+D+++NNA
Sbjct: 57 IAIPADLSSEEGIEALVARVAERSDRLDVLVNNA 90
>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 = 33.7 bits (77), Expect = 0.007
Identities = 13/28 (46%), Positives = 22/28 (78%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASV 36
GR ++TGA +G+G++ AL +A+RG +V
Sbjct: 1 GRSFLITGANSGIGKAAALAIAKRGGTV 28
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 260
Score = 33.6 bits (77), Expect = 0.007
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPDY 73
+TG+ GLG + A L +G VV++ +S K A A G + D
Sbjct: 12 ITGSSDGLGLAAARTLLHQGHEVVLH---------ARSQKRAADAKAACPGAAGVLIGDL 62
Query: 74 NSVVDGDKIVQTALENFGRIDIVINNA 100
+S+ + K+ GR D VI+NA
Sbjct: 63 SSLAETRKLADQV-NAIGRFDAVIHNA 88
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 33.5 bits (77), Expect = 0.008
Identities = 24/95 (25%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+ ++TGA G+G + A A G + + RD D A + A
Sbjct: 4 HLAGKRVLITGASKGIGAAAAEAFAAEGCHLHL----VARDAD-ALEALAADLRAAHGVD 58
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
D +S +++ A G IDI++NNA
Sbjct: 59 VAVHALDLSSPEAREQLAAEA----GDIDILVNNA 89
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 33.5 bits (77), Expect = 0.010
Identities = 37/108 (34%), Positives = 49/108 (45%), Gaps = 36/108 (33%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVV--VNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+ A+VTGA GLG A LA GA V+ V + + G+ AA VA IR+
Sbjct: 14 GKRAVVTGASDGLGLGLARRLAAAGAEVILPVRN---RAKGE-----AA---VAAIRT-- 60
Query: 67 GKAVPDYN------------SVVD-GDKIVQTALENFGR-IDIVINNA 100
AVPD SV G+++ GR I ++INNA
Sbjct: 61 --AVPDAKLSLRALDLSSLASVAALGEQLRAE-----GRPIHLLINNA 101
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 32.9 bits (76), Expect = 0.012
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 18/96 (18%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPD 72
+VTG GLG A LAERGA +V L + ++A +AE+ ++G +
Sbjct: 4 LVTGGLGGLGLELARWLAERGARHLV--LLSRSGAPDPEAEAL---LAELEARGAEVT-- 56
Query: 73 YNSVVDGD--------KIVQTALENFGRIDIVINNA 100
VV D ++ + + VI+ A
Sbjct: 57 ---VVACDVSDRDAVRALLAEIRADGPPLRGVIHAA 89
>gnl|CDD|188169 TIGR01829, AcAcCoA_reduct, acetoacetyl-CoA reductase. This model
represent acetoacetyl-CoA reductase, a member of the
family short-chain-alcohol dehydrogenases. Note that,
despite the precision implied by the enzyme name, the
reaction of EC 1.1.1.36 is defined more generally as
(R)-3-hydroxyacyl-CoA + NADP+ = 3-oxoacyl-CoA + NADPH.
Members of this family may act in the biosynthesis of
poly-beta-hydroxybutyrate (e.g. Rhizobium meliloti) and
related poly-beta-hydroxyalkanoates. Note that the
member of this family from Azospirillum brasilense,
designated NodG, appears to lack acetoacetyl-CoA
reductase activity and to act instead in the production
of nodulation factor. This family is downgraded to
subfamily for this NodG. Other proteins designated NodG,
as from Rhizobium, belong to related but distinct
protein families.
Length = 242
Score = 32.8 bits (75), Expect = 0.014
Identities = 26/95 (27%), Positives = 37/95 (38%), Gaps = 13/95 (13%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGG-QRDGDGKSSKAA---DTVVAEIRSK 65
R+A+VTG G+G + LA+ G V N +R + A D V E
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGFDFRVVEGD-- 58
Query: 66 GGKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
V + S V G ID+++NNA
Sbjct: 59 ----VSSFESCKAA---VAKVEAELGPIDVLVNNA 86
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 32.7 bits (75), Expect = 0.014
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVV 37
++TGAG+G GR AL LA +G +V+
Sbjct: 6 LITGAGSGFGREVALRLARKGHNVI 30
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 32.7 bits (75), Expect = 0.016
Identities = 23/101 (22%), Positives = 42/101 (41%), Gaps = 20/101 (19%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+ ++TGAG +G + + E G V+ D+ +A + ++ + +
Sbjct: 3 KGKTILITGAGGLIGSALVKAILEAGGIVIAADI---------DKEALNELLESLGKEFK 53
Query: 68 KAVPDYNSVVDGDKIVQTALENF--------GRIDIVINNA 100
S+V+ D Q +LE F G+ID +N A
Sbjct: 54 SKK---LSLVELDITDQESLEEFLSKSAEKYGKIDGAVNCA 91
>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 = 32.6 bits (74), Expect = 0.019
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVV 37
G+V I+TGA +G+G A A GA V+
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVI 29
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 32.3 bits (74), Expect = 0.021
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVV 37
R I+TG GLG + A L E+G V+
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVI 29
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 32.4 bits (74), Expect = 0.023
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVN 39
R G+ + G GLG + A + GA V +N
Sbjct: 2 RLKGKKVAIIGVSEGLGYAVAYFALKEGAQVCIN 35
>gnl|CDD|187586 cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase
sniffer-like, classical (c) SDRs. Sniffer is an
NADPH-dependent carbonyl reductase of the classical SDR
family. Studies in Drosophila melanogaster implicate
Sniffer in the prevention of neurodegeneration due to
aging and oxidative-stress. This subgroup also includes
Rhodococcus sp. AD45 IsoH, which is an NAD-dependent
1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase
involved in isoprene metabolism, Aspergillus nidulans
StcE encoded by a gene which is part of a proposed
sterigmatocystin biosynthesis gene cluster, Bacillus
circulans SANK 72073 BtrF encoded by a gene found in the
butirosin biosynthesis gene cluster, and Aspergillus
parasiticus nor-1 involved in the biosynthesis of
aflatoxins. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 233
Score = 32.3 bits (74), Expect = 0.023
Identities = 19/94 (20%), Positives = 34/94 (36%), Gaps = 16/94 (17%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
++TGA G+G L RG + V+ RD + AA + + +
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVI---ATCRDPSAATELAA------LGASHSRLHI 51
Query: 72 ---DYNSVVDGDKIVQ--TALENFGRIDIVINNA 100
D + + + +D++INNA
Sbjct: 52 LELDVTD--EIAESAEAVAERLGDAGLDVLINNA 83
>gnl|CDD|187631 cd05373, SDR_c10, classical (c) SDR, subgroup 10. This subgroup
resembles the classical SDRs, but has an incomplete
match to the canonical glycine rich NAD-binding motif
and lacks the typical active site tetrad (instead of the
critical active site Tyr, it has Phe, but contains the
nearby Lys). SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 238
Score = 32.4 bits (74), Expect = 0.024
Identities = 29/93 (31%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
VA V GAG GLG + A A G SV L +R+ K +V IR GG A
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVA---LAARREA-----KLEALLVDIIRDAGGSAK 52
Query: 71 PDYNSVVDGDKIVQT---ALENFGRIDIVINNA 100
D D+++ E G +++++ NA
Sbjct: 53 AVPTDARDEDEVIALFDLIEEEIGPLEVLVYNA 85
>gnl|CDD|133451 cd05212, NAD_bind_m-THF_DH_Cyclohyd_like, NAD(P) binding domain
of methylene-tetrahydrofolate dehydrogenase and
methylene-tetrahydrofolate
dehydrogenase/cyclohydrolase. NAD(P) binding domains
of methylene-tetrahydrofolate dehydrogenase (m-THF DH)
and m-THF DH/cyclohydrolase bifunctional enzymes
(m-THF DH/cyclohydrolase). M-THF is a versatile carrier
of activated one-carbon units. The major one-carbon
folate donors are N-5 methyltetrahydrofolate,
N5,N10-m-THF, and N10-formayltetrahydrofolate. The
oxidation of metabolic intermediate m-THF to m-THF
requires the enzyme m-THF DH. In addition, most DHs
also have an associated cyclohydrolase activity which
catalyzes its hydrolysis to N10-formyltetrahydrofolate.
m-THF DH is typically found as part of a
multifunctional protein in eukaryotes. NADP-dependent
m-THF DH in mammals, birds and yeast are components of
a trifunctional enzyme with DH, cyclohydrolase, and
synthetase activities. Certain eukaryotic cells also
contain homodimeric bifunctional DH/cyclodrolase form.
In bacteria, mono-functional DH, as well as
bifunctional DH/cyclodrolase are found. In addition,
yeast (S. cerevisiae) also express a monofunctional DH.
M-THF DH, like other amino acid DH-like NAD(P)-binding
domains, is a member of the Rossmann fold superfamily
which includes glutamate, leucine, and phenylalanine
DHs, m-THF DH, methylene-tetrahydromethanopterin DH,
m-THF DH/cyclohydrolase, Shikimate DH-like proteins,
malate oxidoreductases, and glutamyl tRNA reductase.
Amino acid DHs catalyze the deamination of amino acids
to keto acids with NAD(P)+ as a cofactor. The
NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha-beta-alpha configuration.
NAD binding involves numerous hydrogen and van der
Waals contacts.
Length = 140
Score = 31.3 bits (71), Expect = 0.032
Identities = 14/38 (36%), Positives = 18/38 (47%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVND 40
E VR DG+ +V G +G LL GA+V D
Sbjct: 22 EGVRLDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCD 59
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to reduce
the keto group to a hydroxy group.
Length = 180
Score = 31.7 bits (73), Expect = 0.034
Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 8/91 (8%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP- 71
++TG GLGR+ A LAERGA +V L + G + A ++AE+ + G +
Sbjct: 4 LITGGLGGLGRALARWLAERGARRLV--LLSRS---GPDAPGAAALLAELEAAGARVTVV 58
Query: 72 --DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D ++ G + VI+ A
Sbjct: 59 ACDVADRDALAAVLAAIPAVEGPLTGVIHAA 89
>gnl|CDD|232919 TIGR00322, diphth2_R, diphthamide biosynthesis enzyme Dph1/Dph2
domain. Archaea and Eukaryotes, but not Eubacteria,
share the property of having a covalently modified
residue,
2'-[3-carboxamido-3-(trimethylammonio)propyl]histidine,
as a part of a cytosolic protein. The modified His,
termed diphthamide, is part of translation elongation
factor EF-2 and is the site for ADP-ribosylation by
diphtheria toxin. This model includes both Dph1 and Dph2
from Saccharomyces cerevisiae, although only Dph2 is
found in the Archaea (see TIGR03682). Dph2 has been
shown to act analogously to the radical SAM (rSAM)
family (pfam04055), with 4Fe-4S-assisted cleavage of
S-adenosylmethionine to create a free radical, but a
different organic radical than in rSAM.
Length = 319
Score = 31.8 bits (73), Expect = 0.034
Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 10/65 (15%)
Query: 36 VVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPDYNSVVDGDKIVQTALENFGRIDI 95
++V LGGQ + A+ + ++ G KA ++ +I L NF ID
Sbjct: 239 IIVGTLGGQG-----RLELAERLKELLKKAGKKAY-----LISVGEINPAKLANFPEIDA 288
Query: 96 VINNA 100
+ A
Sbjct: 289 FVQTA 293
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 31.8 bits (73), Expect = 0.035
Identities = 27/92 (29%), Positives = 39/92 (42%), Gaps = 16/92 (17%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V +VTGA G+GR++ L RGA+ V RD + G +
Sbjct: 6 GKVVLVTGANRGIGRAFVEQLLARGAAKVY---AAARD------------PESVTDLGPR 50
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
VP V D + A E + I++NNA
Sbjct: 51 VVPLQLDVTDPASV-AAAAEAASDVTILVNNA 81
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 31.8 bits (72), Expect = 0.042
Identities = 26/98 (26%), Positives = 46/98 (46%), Gaps = 16/98 (16%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G A+VTG G+G+ +A LA +G ++V+ ++ V I+SK K
Sbjct: 53 GSWALVTGPTDGIGKGFAFQLARKGLNLVLV---------ARNPDKLKDVSDSIQSKYSK 103
Query: 69 A-----VPDYNSVVD-GDKIVQTALENFGRIDIVINNA 100
V D++ +D G K ++ +E + ++INN
Sbjct: 104 TQIKTVVVDFSGDIDEGVKRIKETIEGLD-VGVLINNV 140
>gnl|CDD|130890 TIGR01831, fabG_rel, 3-oxoacyl-(acyl-carrier-protein) reductase,
putative. This model represents a small, very well
conserved family of proteins closely related to the
FabG family, TIGR01830, and possibly equal in function.
In all completed genomes with a member of this family,
a FabG in TIGR01830 is also found [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 239
Score = 31.4 bits (71), Expect = 0.043
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 8/57 (14%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VTGA G+GR+ A LA G + V+ G+ D A++VV+ I+++GG A
Sbjct: 2 LVTGASRGIGRAIANRLAADGFEICVHYHSGRSD--------AESVVSAIQAQGGNA 50
>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 = 0.068
Identities = 29/94 (30%), Positives = 41/94 (43%), Gaps = 12/94 (12%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+ +VTGA G+G+++ L GA V RD A +VA+ G
Sbjct: 1 IKDKTVLVTGANRGIGKAFVESLLAHGAKKV---YAAVRDPGS-----AAHLVAK---YG 49
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
K VP V D + I + A +D+VINNA
Sbjct: 50 DKVVPLRLDVTDPESI-KAAAAQAKDVDVVINNA 82
>gnl|CDD|187653 cd08950, KR_fFAS_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS), classical
(c)-like SDRs. KR domain of fungal-type fatty acid
synthase (FAS), type I. Fungal-type FAS is a
heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member, is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the Classical SDR and has partial
identity of the active site tetrad, but the upstream
Asn is replaced in KR by Met. As in other SDRs, there
is a glycine rich NAD-binding motif, but the pattern
found in KR does not match the classical SDRs, and is
not strictly conserved within this group. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 259
Score = 30.6 bits (70), Expect = 0.074
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 5 VRFDGRVAIVTGAGAG-LGRSYALLLAERGASVVV 38
+ F G+VA+VTGAG G +G L GA+V+V
Sbjct: 3 LSFAGKVALVTGAGPGSIGAEVVAGLLAGGATVIV 37
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 30.3 bits (69), Expect = 0.11
Identities = 16/94 (17%), Positives = 32/94 (34%), Gaps = 21/94 (22%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F + ++TGA +G+G + A +GA V D + S + ++
Sbjct: 3 FMTKTVLITGAASGIGLAQARAFLAQGAQVYGVDKQDK----PDLSGNFHFLQLDLSDD- 57
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
++ + +DI+ N A
Sbjct: 58 ----------------LEPLFDWVPSVDILCNTA 75
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 30.2 bits (68), Expect = 0.13
Identities = 24/92 (26%), Positives = 44/92 (47%), Gaps = 15/92 (16%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG----K 68
+VT + G+G + A L ++GA VV++ ++ + + + E++ G K
Sbjct: 4 LVTASSRGIGFNVARELLKKGARVVISS---------RNEENLEKALKELKEYGEVYAVK 54
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
A D + D +V+ A E G ID ++ NA
Sbjct: 55 A--DLSDKDDLKNLVKEAWELLGGIDALVWNA 84
>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 = 30.2 bits (68), Expect = 0.15
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVV 38
++TGA +GLG + A LA RG VV
Sbjct: 4 VVITGASSGLGLAAAKALARRGEWHVV 30
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 305
Score = 30.0 bits (68), Expect = 0.15
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAE 61
GR +VTGA G+GR +A+ LA + VV +G +G A VV
Sbjct: 133 GRRVLVTGASGGVGR-FAVQLAALAGAHVVAVVGSPARAEGLRELGAAEVVVG 184
>gnl|CDD|235041 PRK02472, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 447
Score = 29.8 bits (68), Expect = 0.16
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 20 GLGRS---YALLLAERGASVVVNDLG 42
GL +S A LL + GA+V VND
Sbjct: 12 GLAKSGYAAAKLLHKLGANVTVNDGK 37
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup has
the canonical active site tetrad and NAD-binding motif
of the classical SDRs. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 29.7 bits (67), Expect = 0.17
Identities = 32/92 (34%), Positives = 43/92 (46%), Gaps = 17/92 (18%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPDY 73
+TGA +G+GR ALL A G V + D D DG ++ AA + AE G V D
Sbjct: 5 ITGAASGIGRETALLFARNGWFVGLYD----IDEDGLAALAA-ELGAENVVAGALDVTDR 59
Query: 74 NSVVDGDKIVQTALENF-----GRIDIVINNA 100
+ AL +F GR+D + NNA
Sbjct: 60 AA-------WAAALADFAAATGGRLDALFNNA 84
>gnl|CDD|225885 COG3349, COG3349, Uncharacterized conserved protein [Function
unknown].
Length = 485
Score = 29.7 bits (67), Expect = 0.17
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 10/50 (20%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVV---ND-LGGQ----RDGDGKS 51
RVAI AGL +Y LA+ G V + D LGG+ RD DG
Sbjct: 2 RVAIAGAGLAGLAAAYE--LADAGYDVTLYEARDRLGGKVASWRDSDGNH 49
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 29.8 bits (67), Expect = 0.17
Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 14/91 (15%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
V ++TG +G+GR+ A G V + KA D V + + G AV
Sbjct: 3 VVLITGCSSGIGRALADAFKAAGYEVWAT-----------ARKAED--VEALAAAGFTAV 49
Query: 71 P-DYNSVVDGDKIVQTALENFGRIDIVINNA 100
D N ++ + G +D++INNA
Sbjct: 50 QLDVNDGAALARLAEELEAEHGGLDVLINNA 80
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 29.8 bits (67), Expect = 0.19
Identities = 28/102 (27%), Positives = 44/102 (43%), Gaps = 14/102 (13%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
Q+ F R +VTG G+G+G+ A L GA+V++ G++ EI
Sbjct: 2 QLSFQDRTYLVTGGGSGIGKGVAAGLVAAGAAVMIV---------GRNPDKLAAAAEEIE 52
Query: 64 SKGGKAVPDYNS--VVDGDKI---VQTALENFGRIDIVINNA 100
+ G Y V D D++ V A GR+ V++ A
Sbjct: 53 ALKGAGAVRYEPADVTDEDQVARAVDAATAWHGRLHGVVHCA 94
>gnl|CDD|236073 PRK07659, PRK07659, enoyl-CoA hydratase; Provisional.
Length = 260
Score = 29.6 bits (67), Expect = 0.19
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 11 VAIVTGAGAGLGRSYAL----LLAERGASVVVNDLG 42
++ + G AGLG S AL ++A+ A + +N +G
Sbjct: 102 ISAIHGPAAGLGLSIALTADYVIADISAKLAMNFIG 137
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 29.7 bits (67), Expect = 0.19
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVV 38
R +VTGA G+G + +L LA G V+
Sbjct: 4 RTVLVTGATKGIGLALSLRLANLGHQVIG 32
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 29.5 bits (66), Expect = 0.25
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
GR A+VTGA G+G A LL +GA V ++ G + + + AE+ +
Sbjct: 6 GRKALVTGASGGIGEEIARLLHAQGAIVGLH---------GTRVEKLEALAAELGERVKI 56
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ + + + Q A + +DI++NNA
Sbjct: 57 FPANLSDRDEVKALGQKAEADLEGVDILVNNA 88
>gnl|CDD|224650 COG1736, DPH2, Diphthamide synthase subunit DPH2 [Translation,
ribosomal structure and biogenesis].
Length = 347
Score = 29.2 bits (66), Expect = 0.28
Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 10/76 (13%)
Query: 25 YALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPDYNSVVDGDKIVQ 84
+ L + ++V+ GGQR + A +V ++ G + + DK
Sbjct: 231 ISKALDAKSFGIIVSTKGGQR-----RLEVARELVKLLKEAGKEVYLIVVDEISPDK--- 282
Query: 85 TALENFGRIDIVINNA 100
L NF ID +N A
Sbjct: 283 --LANFDDIDAFVNTA 296
>gnl|CDD|233441 TIGR01500, sepiapter_red, sepiapterin reductase. This model
describes sepiapterin reductase, a member of the short
chain dehydrogenase/reductase family. The enzyme
catalyzes the last step in the biosynthesis of
tetrahydrobiopterin. A similar enzyme in Bacillus cereus
was isolated for its ability to convert benzil to
(S)-benzoin, a property sepiapterin reductase also
shares. Cutoff scores for this model are set such that
benzil reductase scores between trusted and noise
cutoffs.
Length = 256
Score = 29.1 bits (65), Expect = 0.33
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 14/99 (14%)
Query: 11 VAIVTGAGAGLGRSYALLLAER---GASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
V +VTGA G GR+ A LA+ SV+V L + D + KA + AE
Sbjct: 2 VCLVTGASRGFGRTIAQELAKCLKSPGSVLV--LSARNDEALRQLKA--EIGAERSGLRV 57
Query: 68 KAVP-DYNSVVDGDKIVQTALE-----NFGRIDIVINNA 100
V D + +++++ E R+ ++INNA
Sbjct: 58 VRVSLDLGAEAGLEQLLKALRELPRPKGLQRL-LLINNA 95
>gnl|CDD|187595 cd05334, DHPR_SDR_c_like, dihydropteridine reductase (DHPR),
classical (c) SDRs. Dihydropteridine reductase is an
NAD-binding protein related to the SDRs. It converts
dihydrobiopterin into tetrahydrobiopterin, a cofactor
necessary in catecholamines synthesis. Dihydropteridine
reductase has the YXXXK of these tyrosine-dependent
oxidoreductases, but lacks the typical upstream Asn and
Ser catalytic residues. 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 = 221
Score = 28.8 bits (65), Expect = 0.33
Identities = 18/68 (26%), Positives = 24/68 (35%), Gaps = 8/68 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGD--------GKSSKAADTVVA 60
RV +V G LG + RG V DL + D ++ A VVA
Sbjct: 1 ARVVLVYGGRGALGSAVVQAFKSRGWWVASIDLAENEEADASIIVLDSDSFTEQAKQVVA 60
Query: 61 EIRSKGGK 68
+ GK
Sbjct: 61 SVARLSGK 68
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 28.8 bits (65), Expect = 0.33
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVV 37
Q + G+ +TGA LG++ +GA V+
Sbjct: 6 PMAQSTWQGKRIGITGASGALGKALTKAFRAKGAKVI 42
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 29.1 bits (65), Expect = 0.34
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 2 PEQVRFDGRVAIVTGAGAG-LGRSYALLLAERGASVVV 38
P + +VA+VTGA G + + L GA+V+
Sbjct: 389 PNGGTYGDKVALVTGASKGSIAAAVVARLLAGGATVIA 426
>gnl|CDD|100091 cd03089, PMM_PGM, The phosphomannomutase/phosphoglucomutase
(PMM/PGM) bifunctional enzyme catalyzes the reversible
conversion of 1-phospho to 6-phospho-sugars (e.g.
between mannose-1-phosphate and mannose-6-phosphate or
glucose-1-phosphate and glucose-6-phosphate) via a
bisphosphorylated sugar intermediate. The reaction
involves two phosphoryl transfers, with an intervening
180 degree reorientation of the reaction intermediate
during catalysis. Reorientation of the intermediate
occurs without dissociation from the active site of the
enzyme and is thus, a simple example of processivity, as
defined by multiple rounds of catalysis without release
of substrate. Glucose-6-phosphate and
glucose-1-phosphate are known to be utilized for energy
metabolism and cell surface construction, respectively.
PMM/PGM belongs to the alpha-D-phosphohexomutase
superfamily which includes several related enzymes that
catalyze a reversible intramolecular phosphoryl transfer
on their sugar substrates. Other members of this
superfamily include phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the
phosphoglucomutases (PGM1 and PGM2). Each of these
enzymes has four domains with a centrally located active
site formed by four loops, one from each domain. All
four domains are included in this alignment model.
Length = 443
Score = 29.0 bits (66), Expect = 0.34
Identities = 16/74 (21%), Positives = 25/74 (33%), Gaps = 22/74 (29%)
Query: 7 FDG---RVAIVTGAGAGLGRSY-ALLLAER------GASVVVNDLGGQRDGDGKSSKAAD 56
FDG R+ +V G + L A GA++V + K +
Sbjct: 232 FDGDGDRLGVVDEKGEIIWGDRLLALFARDILKRNPGATIVYD------------VKCSR 279
Query: 57 TVVAEIRSKGGKAV 70
+ I GGK +
Sbjct: 280 NLYDFIEEAGGKPI 293
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 28.7 bits (65), Expect = 0.40
Identities = 23/99 (23%), Positives = 37/99 (37%), Gaps = 31/99 (31%)
Query: 14 VTGAGAGLGRSYALLLAERGASV--------VVNDLGGQRDGDGKSS-KAADTVVAEIRS 64
+TGA +G+G++ A A +GA++ + + + S AAD
Sbjct: 7 ITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLPKAARVSVYAAD-------- 58
Query: 65 KGGKAVPDYNSVVDGDKIVQTA---LENFGRIDIVINNA 100
V D D + A + G D+VI NA
Sbjct: 59 -----------VRDADALAAAAADFIAAHGLPDVVIANA 86
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 375
Score = 28.9 bits (65), Expect = 0.40
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVV 38
++TG GLG A LA RGA +V
Sbjct: 154 LITGGLGGLGLLVARWLAARGARHLV 179
>gnl|CDD|223268 COG0190, FolD, 5,10-methylene-tetrahydrofolate
dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase
[Coenzyme metabolism].
Length = 283
Score = 28.7 bits (65), Expect = 0.44
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+ G+ +V G +G+ ALLL A+V V + +K AD VV
Sbjct: 152 IDLRGKNVVVVGRSNIVGKPLALLLLNANATVTVCHSRTK--DLASITKNADIVVV 205
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 28.3 bits (63), Expect = 0.58
Identities = 23/62 (37%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 10 RVAIVTGAGAGL-GRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
V I+ G G+ G S A LAERGA V V L G G + + A ++A S GG+
Sbjct: 6 DVVII---GGGIVGLSAAYYLAERGADVTV--LEAGEAGGGAAGRNAGGILAPWASPGGE 60
Query: 69 AV 70
Sbjct: 61 LE 62
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 28.1 bits (63), Expect = 0.58
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVN 39
I+TGA +GLG + A LAE G VV
Sbjct: 1 IITGASSGLGLATAKALAETGKWHVVM 27
>gnl|CDD|235706 PRK06129, PRK06129, 3-hydroxyacyl-CoA dehydrogenase; Validated.
Length = 308
Score = 28.1 bits (63), Expect = 0.60
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 4/33 (12%)
Query: 9 GRVAIVTGAGAGL-GRSYALLLAERGASVVVND 40
G VAI+ GAGL GR++A++ A G V + D
Sbjct: 3 GSVAII---GAGLIGRAWAIVFARAGHEVRLWD 32
>gnl|CDD|187619 cd05361, haloalcohol_DH_SDR_c-like, haloalcohol dehalogenase,
classical (c) SDRs. Dehalogenases cleave
carbon-halogen bonds. Haloalcohol dehalogenase show low
sequence similarity to short-chain
dehydrogenases/reductases (SDRs). Like the SDRs,
haloalcohol dehalogenases have a conserved catalytic
triad (Ser-Tyr-Lys/Arg), and form a Rossmann fold.
However, the normal classical SDR NAD(P)-binding motif
(TGXXGXG) and NAD-binding function is replaced with a
halide binding site, allowing the enzyme to catalyze a
dehalogenation reaction. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 28.3 bits (63), Expect = 0.61
Identities = 26/91 (28%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA-EIRSKGGK 68
+A+VT A G + A L E G +VV +D S A A E + G K
Sbjct: 2 SIALVTHARHFAGPASAEALTEDGYTVVCHD---------ASFADAAERQAFESENPGTK 52
Query: 69 AVPDYNSVVDGDKIVQTALENFGRIDIVINN 99
A+ S +++V L+ G ID++++N
Sbjct: 53 AL----SEQKPEELVDAVLQAGGAIDVLVSN 79
>gnl|CDD|236158 PRK08132, PRK08132, FAD-dependent oxidoreductase; Provisional.
Length = 547
Score = 28.3 bits (64), Expect = 0.66
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 2 PEQVRFDGRVAIVTGAGAG-LGRSYALLLAERGASVVVND 40
+Q D V GAG +G + A+ LA++G VV+ D
Sbjct: 14 ADQDADDPARHPVVVVGAGPVGLALAIDLAQQGVPVVLLD 53
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 28.1 bits (62), Expect = 0.76
Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 13/95 (13%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
R+A VTG G+G S L + G VV G G +S + + ++ G
Sbjct: 4 RIAYVTGGMGGIGTSICQRLHKDGFKVVA--------GCGPNSPRRVKWLEDQKALGFDF 55
Query: 70 VPDYNSVVDGDKIVQTALEN----FGRIDIVINNA 100
+ +V D D + A + G ID+++NNA
Sbjct: 56 IASEGNVGDWDS-TKAAFDKVKAEVGEIDVLVNNA 89
>gnl|CDD|145711 pfam02702, KdpD, Osmosensitive K+ channel His kinase sensor
domain. This is a family of KdpD sensor kinase
proteins that regulate the kdpFABC operon responsible
for potassium transport. The aligned region corresponds
to the N-terminal cytoplasmic part of the protein which
may be the sensor domain responsible for sensing turgor
pressure.
Length = 211
Score = 27.6 bits (62), Expect = 1.0
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 5/35 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALL-----LAERGASVVV 38
G++ I GA G+G++YA+L L ERG VV+
Sbjct: 4 GKLKIFLGAAPGVGKTYAMLSEAHELLERGVDVVI 38
>gnl|CDD|235630 PRK05865, PRK05865, hypothetical protein; Provisional.
Length = 854
Score = 27.7 bits (61), Expect = 1.0
Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
R+A VTGA LGR L +G VV G R +AD + A+IR
Sbjct: 2 RIA-VTGASGVLGRGLTARLLSQGHEVV----GIARHRPDSWPSSADFIAADIR 50
>gnl|CDD|176192 cd08230, glucose_DH, Glucose dehydrogenase. Glucose dehydrogenase
(GlcDH), a member of the medium chain
dehydrogenase/zinc-dependent alcohol dehydrogenase-like
family, catalyzes the NADP(+)-dependent oxidation of
glucose to gluconate, the first step in the
Entner-Doudoroff pathway, an alternative to or
substitute for glycolysis or the pentose phosphate
pathway. The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossman fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
Length = 355
Score = 27.6 bits (62), Expect = 1.1
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVV 38
++ R A+V GAG +G ALLL RG V V
Sbjct: 171 WNPRRALVLGAGP-IGLLAALLLRLRGFEVYV 201
>gnl|CDD|216400 pfam01266, DAO, FAD dependent oxidoreductase. This family
includes various FAD dependent oxidoreductases:
Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
Length = 234
Score = 27.3 bits (61), Expect = 1.1
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 10 RVAIVTGAG-AGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAA 55
V ++ G G GL S A LA RG SV + L G S + A
Sbjct: 1 DVVVI-GGGIVGL--STAYELARRGLSVTL--LERGDLASGASGRNA 42
>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 = 27.5 bits (61), Expect = 1.2
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTV 58
I+TGA +GLG A LA G V+ RD K+ +AA ++
Sbjct: 6 VIITGASSGLGLYAAKALAATGEWHVIM---ACRDFL-KAEQAAKSL 48
>gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase.
Length = 529
Score = 27.4 bits (61), Expect = 1.4
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVV 38
G++ +V GAG G G++ A E+GA VV+
Sbjct: 379 GKLFVVIGAG-GAGKALAYGAKEKGARVVI 407
>gnl|CDD|216530 pfam01494, FAD_binding_3, FAD binding domain. This domain is
involved in FAD binding in a number of enzymes.
Length = 349
Score = 27.3 bits (61), Expect = 1.4
Identities = 15/28 (53%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVV 38
V IV G AGL ALLLA G VV+
Sbjct: 4 VLIVGGGPAGL--MLALLLARAGVRVVL 29
>gnl|CDD|236737 PRK10696, PRK10696, tRNA 2-thiocytidine biosynthesis protein
TtcA; Provisional.
Length = 258
Score = 27.1 bits (61), Expect = 1.6
Identities = 7/21 (33%), Positives = 16/21 (76%)
Query: 62 IRSKGGKAVPDYNSVVDGDKI 82
+R + G+A+ D+N + +GD++
Sbjct: 12 LRRQVGQAIADFNMIEEGDRV 32
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 26.8 bits (60), Expect = 1.6
Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 9/80 (11%)
Query: 20 GLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP-DYNSVVD 78
+ + A AE GA VV+ G + A + A++ +P D S D
Sbjct: 7 SIAWAIAKAAAEEGAEVVLTTWPPAL-RMGAVDELAKELPADV-------IPLDVTSDED 58
Query: 79 GDKIVQTALENFGRIDIVIN 98
D++ + E+ G+ID +++
Sbjct: 59 IDELFEKVKEDGGKIDFLVH 78
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 26.8 bits (59), Expect = 1.9
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVV 37
++TGA +G+G+ AL A++G V+
Sbjct: 3 AVLITGATSGIGKQLALDYAKQGWQVI 29
>gnl|CDD|187658 cd08955, KR_2_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 2, complex (x).
Ketoreductase, a module of the multidomain polyketide
synthase, has 2 subdomains, each corresponding to a
short-chain dehydrogenases/reductase (SDR) family
monomer. The C-terminal subdomain catalyzes the
NADPH-dependent reduction of the beta-carbonyl of a
polyketide to a hydroxyl group, a step in the
biosynthesis of polyketides, such as erythromycin. The
N-terminal subdomain, an interdomain linker, is a
truncated Rossmann fold which acts to stabilizes the
catalytic subdomain. Unlike typical SDRs, the isolated
domain does not oligomerizes but is composed of 2
subdomains, each resembling an SDR monomer. In some
instances, as in porcine FAS, an enoyl reductase (a
Rossman fold NAD binding domain of the MDR family)
module is inserted between the sub-domains. The active
site resembles that of typical SDRs, except that the
usual positions of the catalytic asparagine and tyrosine
are swapped, so that the canonical YXXXK motif changes
to YXXXN. Modular polyketide synthases are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
fatty acid synthase. In some instances, such as
porcine FAS , an enoyl reductase module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER).
Polyketide syntheses also proceeds via the addition of
2-carbon units as in fatty acid synthesis. The complex
SDR NADP binding motif, GGXGXXG, is often present, but
is not strictly conserved in each instance of the
module. This subfamily includes the KR domain of the
Lyngbya majuscule Jam J, -K, and #L which are encoded
on the jam gene cluster and are involved in the
synthesis of the Jamaicamides (neurotoxins); Lyngbya
majuscule Jam P belongs to a different KR_FAS_SDR_x
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 376
Score = 26.9 bits (60), Expect = 1.9
Identities = 26/84 (30%), Positives = 35/84 (41%), Gaps = 7/84 (8%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+R D ++TG GLG A L ERGA +V L G+R S AA +A
Sbjct: 142 PARPLRPDATY-LITGGLGGLGLLVAEWLVERGARHLV--LTGRR----APSAAARQAIA 194
Query: 61 EIRSKGGKAVPDYNSVVDGDKIVQ 84
+ G + V V D D +
Sbjct: 195 ALEEAGAEVVVLAADVSDRDALAA 218
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 26.7 bits (60), Expect = 1.9
Identities = 18/93 (19%), Positives = 33/93 (35%), Gaps = 17/93 (18%)
Query: 10 RVAIVTGAGAGL-GRSYALLLAERGASVVVND------------LGGQRDGDGKSSKAAD 56
+VA++ GAG G A + A G VV+ D + + + +
Sbjct: 1 KVAVI---GAGTMGAGIAQVFARAGLEVVLVDISEEALEKARARIEKSLARLVEKGRITE 57
Query: 57 TVVAEIRSKGGKAVPDYNSVVDGDKIVQTALEN 89
+ ++ D VD D +++ EN
Sbjct: 58 EDADAVLAR-ISFTTDLADAVDADLVIEAVPEN 89
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 27.0 bits (60), Expect = 1.9
Identities = 16/36 (44%), Positives = 18/36 (50%), Gaps = 6/36 (16%)
Query: 12 AIVTGAG-AGLGRSYALLLAERGASVVV---NDLGG 43
+V GAG GL + A LLA G V V ND G
Sbjct: 6 VVVIGAGLNGL--AAAALLARAGLKVTVLEKNDRVG 39
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 26.9 bits (60), Expect = 1.9
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVV 37
AIVTG GLG + A L + G +V+
Sbjct: 4 AIVTGHSRGLGAALAEQLLQPGIAVL 29
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 27.0 bits (60), Expect = 2.0
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVV 37
VA VTGA LG++ L ++GA VV
Sbjct: 180 TVA-VTGASGTLGQALLKELHQQGAKVV 206
>gnl|CDD|234827 PRK00733, hppA, membrane-bound proton-translocating
pyrophosphatase; Validated.
Length = 666
Score = 26.6 bits (60), Expect = 2.3
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 8/35 (22%)
Query: 52 SKAADTVVAEIRS-----KG---GKAVPDYNSVVD 78
+AA +V E+R G G A PDY VD
Sbjct: 509 GRAAGAMVEEVRRQFREIPGIMEGTAKPDYARCVD 543
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 26.2 bits (58), Expect = 2.5
Identities = 16/94 (17%), Positives = 37/94 (39%), Gaps = 15/94 (15%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
+ ++T AG+ LGR+ + A GA++++ D + A + +
Sbjct: 7 IILITSAGSVLGRTISCHFARLGATLILCD---------QDQSALKDTYEQCSALTDNVY 57
Query: 71 PDYNSVVDGDKIVQTAL----ENFGR-IDIVINN 99
+ + ++ + F R D+++NN
Sbjct: 58 S-FQLKDFSQESIRHLFDAIEQQFNRAPDVLVNN 90
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase;
Validated.
Length = 322
Score = 26.5 bits (59), Expect = 2.5
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 5/47 (10%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTV 58
I+TGA +G+G A LA+RG V++ R+ K+ AA +
Sbjct: 9 VIITGASSGVGLYAAKALAKRGWHVIM----ACRNLK-KAEAAAQEL 50
>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 26.3 bits (59), Expect = 2.6
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 17 AGAGLGRSYALLLAERGASVVVNDL 41
AG G+G S ++ LA RGA VV +D+
Sbjct: 70 AGCGVG-SLSIPLARRGAKVVASDI 93
>gnl|CDD|235776 PRK06300, PRK06300, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 299
Score = 26.3 bits (58), Expect = 2.7
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 4 QVRFDGRVAIVTGAG--AGLGRSYALLLAERGASVVV 38
++ G++A + G G G G A LAE GA+++V
Sbjct: 3 KIDLTGKIAFIAGIGDDQGYGWGIAKALAEAGATILV 39
>gnl|CDD|225115 COG2205, KdpD, Osmosensitive K+ channel histidine kinase [Signal
transduction mechanisms].
Length = 890
Score = 26.5 bits (59), Expect = 2.8
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 5/35 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALL-----LAERGASVVV 38
G++ I GA G+G++YA+L L G VV+
Sbjct: 21 GKLKIFLGAAPGVGKTYAMLSEAQRLLAEGVDVVI 55
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 26.3 bits (58), Expect = 2.9
Identities = 21/94 (22%), Positives = 36/94 (38%), Gaps = 14/94 (14%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F G+ +V G G+G + GA+V G S AA+ + E +
Sbjct: 4 FTGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAG--------SKDAAERLAQETGATA 55
Query: 67 GKAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
+ D D ++ + G +DI++ NA
Sbjct: 56 VQT-----DSADRDAVIDV-VRKSGALDILVVNA 83
>gnl|CDD|235729 PRK06185, PRK06185, hypothetical protein; Provisional.
Length = 407
Score = 26.4 bits (59), Expect = 3.0
Identities = 14/31 (45%), Positives = 14/31 (45%), Gaps = 6/31 (19%)
Query: 10 RVAIVTG--AGAGLGRSYALLLAERGASVVV 38
IV G AG LG LLLA G V V
Sbjct: 8 DCCIVGGGPAGMMLG----LLLARAGVDVTV 34
>gnl|CDD|240644 cd12167, 2-Hacid_dh_8, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 330
Score = 26.0 bits (58), Expect = 3.1
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVND 40
+ V IV G G +GR+ LL G V+V D
Sbjct: 149 YGRTVGIV-GFGR-IGRAVVELLRPFGLRVLVYD 180
>gnl|CDD|236701 PRK10490, PRK10490, sensor protein KdpD; Provisional.
Length = 895
Score = 26.2 bits (58), Expect = 3.3
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 9 GRVAIVTGAGAGLGRSYALL 28
G++ I GA AG+G++YA+L
Sbjct: 23 GKLKIFFGACAGVGKTYAML 42
>gnl|CDD|133447 cd01079, NAD_bind_m-THF_DH, NAD binding domain of
methylene-tetrahydrofolate dehydrogenase. The
NAD-binding domain of methylene-tetrahydrofolate
dehydrogenase (m-THF DH). M-THF is a versatile carrier
of activated one-carbon units. The major one-carbon
folate donors are N-5 methyltetrahydrofolate,
N5,N10-m-THF, and N10-formayltetrahydrofolate. The
oxidation of metabolic intermediate m-THF to m-THF
requires the enzyme m-THF DH. M-THF DH is a component of
an unusual monofunctional enzyme; in eukaryotes, m-THF
DH is typically found as part of a multifunctional
protein. NADP-dependent m-THF DHs in mammals, birds and
yeast are components of a trifunctional enzyme with DH,
cyclohydrolase, and synthetase activities. Certain
eukaryotic cells also contain homodimeric bifunctional
DH/cyclodrolase form. In bacteria, monofunctional DH, as
well as bifunctional DH/cyclodrolase are found. In
addition, yeast (S. cerevisiae) also express an
monofunctional DH. This family contains only the
monofunctional DHs from S. cerevisiae and certain
bacteria. M-THF DH, like other amino acid DH-like
NAD(P)-binding domains, is a member of the Rossmann fold
superfamily which includes glutamate, leucine, and
phenylalanine DHs, m-THF DH,
methylene-tetrahydromethanopterin DH, m-THF
DH/cyclohydrolase, Shikimate DH-like proteins, malate
oxidoreductases, and glutamyl tRNA reductase. Amino acid
DHs catalyze the deamination of amino acids to keto
acids with NAD(P)+ as a cofactor. The NAD(P)-binding
Rossmann fold superfamily includes a wide variety of
protein families including NAD(P)- binding domains of
alcohol DHs, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 197
Score = 25.8 bits (57), Expect = 3.4
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 1/80 (1%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDL-GGQRDGDGKSSKAADTVV 59
+P R G+ + +GR A LLA GA V D+ G Q G+S + V
Sbjct: 54 LPYGNRLYGKTITIINRSEVVGRPLAALLANDGARVYSVDINGIQVFTRGESIRHEKHHV 113
Query: 60 AEIRSKGGKAVPDYNSVVDG 79
+ + + + V+ G
Sbjct: 114 TDEEAMTLDCLSQSDVVITG 133
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like
proteins, NMRa-like, atypical (a) SDRs. TMR is an
atypical NADP-binding protein of the SDR family. It
lacks the active site residues of the SDRs but has a
glycine rich NAD(P)-binding motif that matches the
extended SDRs. Proteins in this subgroup however, are
more similar in length to the classical SDRs. TMR was
identified as a reducer of triphenylmethane dyes,
important environmental pollutants. This subgroup also
includes Escherichia coli NADPH-dependent quinine
oxidoreductase (QOR2), which catalyzes two-electron
reduction of quinone; but is unlikely to play a major
role in protecting against quinone cytotoxicity.
Atypical SDRs are distinct from classical SDRs.
Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 26.1 bits (58), Expect = 3.4
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVV 38
VTGA LG + LL + ASVV
Sbjct: 3 VTGATGKLGTAVVELLLAKVASVVA 27
>gnl|CDD|217327 pfam03030, H_PPase, Inorganic H+ pyrophosphatase. The H+
pyrophosphatase is an transmembrane proton pump involved
in establishing the H+ electrochemical potential
difference between the vacuole lumen and the cell
cytosol. Vacuolar-type H(+)-translocating inorganic
pyrophosphatases have long been considered to be
restricted to plants and to a few species of
photo-trophic bacteria. However, in recent
investigations, these pyrophosphatases have been found
in organisms as disparate as thermophilic Archaea and
parasitic protists.
Length = 669
Score = 25.9 bits (58), Expect = 3.6
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 8/35 (22%)
Query: 52 SKAADTVVAEIRS-----KG---GKAVPDYNSVVD 78
+AA +V E+R G G A PDY VD
Sbjct: 521 GRAAGAMVEEVRRQFREIPGIMEGTAKPDYARCVD 555
>gnl|CDD|239227 cd02897, A2M_2, Proteins similar to alpha2-macroglobulin (alpha
(2)-M). This group also contains the pregnancy zone
protein (PZP). Alpha(2)-M and PZP are broadly specific
proteinase inhibitors. Alpha (2)-M is a major carrier
protein in serum. The structural thioester of alpha
(2)-M, is involved in the immobilization and entrapment
of proteases. PZP is a trace protein in the plasma of
non-pregnant females and males which is elevated in
pregnancy. Alpha (2)-M and PZ bind to placental
protein-14 and may modulate its activity in T-cell
growth and cytokine production contributing to fetal
survival. It has been suggested that thioester bond
cleavage promotes the binding of PZ and alpha (2)-M to
the CD91 receptor clearing them from circulation.
Length = 292
Score = 26.0 bits (58), Expect = 3.6
Identities = 18/44 (40%), Positives = 21/44 (47%), Gaps = 7/44 (15%)
Query: 24 SYALL-LAERG------ASVVVNDLGGQRDGDGKSSKAADTVVA 60
+YALL L G A +V L QR+ G S DTVVA
Sbjct: 242 AYALLALLSAGGEDLAEALPIVKWLAKQRNSLGGFSSTQDTVVA 285
>gnl|CDD|236550 PRK09529, PRK09529, bifunctional acetyl-CoA decarbonylase/synthase
complex subunit alpha/beta; Reviewed.
Length = 711
Score = 26.1 bits (58), Expect = 3.7
Identities = 15/35 (42%), Positives = 16/35 (45%), Gaps = 6/35 (17%)
Query: 55 ADTVVAEIRSKGGKAVPD-YNSVVDGDKIVQTALE 88
D V E VP+ S D DKIVQ ALE
Sbjct: 261 TDQDVPEG-----ICVPEWVLSEPDYDKIVQKALE 290
>gnl|CDD|176252 cd08292, ETR_like_2, 2-enoyl thioester reductase (ETR) like
proteins, child 2. 2-enoyl thioester reductase (ETR)
like proteins. ETR catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity has
been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the 2-enoyl
thioester reductase (ETR) like proteins. ETR catalyzes
the NADPH-dependent dependent conversion of
trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA)
to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and have 2 tightly bound
zinc atoms per subunit, a catalytic zinc at the active
site, and a structural zinc in a lobe of the catalytic
domain. NAD(H) binding occurs in the cleft between the
catalytic and coenzyme-binding domains, at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding. Candida
tropicalis enoyl thioester reductase (Etr1p) catalyzes
the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 324
Score = 26.1 bits (58), Expect = 3.8
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVV 37
G+ I AG +G+ A+L A RG +V+
Sbjct: 139 PGQWLIQNAAGGAVGKLVAMLAAARGINVI 168
>gnl|CDD|223842 COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase
[Cell envelope biogenesis, outer membrane].
Length = 448
Score = 26.1 bits (58), Expect = 3.8
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 14 VTGAGAGL-GRSYALLLAERGASVVVND 40
V G G G + A L + GA V V+D
Sbjct: 10 VLVLGLGKSGLAAARFLLKLGAEVTVSD 37
>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 = 25.8 bits (57), Expect = 3.8
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 11 VAIVTGAGAGLGRSYAL-LLAE 31
V +VTGA +GLG + LLAE
Sbjct: 3 VVLVTGANSGLGLAICERLLAE 24
>gnl|CDD|187581 cd05273, GME-like_SDR_e, Arabidopsis thaliana
GDP-mannose-3',5'-epimerase (GME)-like, extended (e)
SDRs. This subgroup of NDP-sugar
epimerase/dehydratases are extended SDRs; they have the
characteristic active site tetrad, and an NAD-binding
motif: TGXXGXX[AG], which is a close match to the
canonical NAD-binding motif. Members include
Arabidopsis thaliana GDP-mannose-3',5'-epimerase (GME)
which catalyzes the epimerization of two positions of
GDP-alpha-D-mannose to form GDP-beta-L-galactose.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 328
Score = 25.9 bits (57), Expect = 3.9
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDL 41
A+VTGAG +G A L G V D
Sbjct: 3 ALVTGAGGFIGSHLAERLKAEGHYVRGADW 32
>gnl|CDD|223364 COG0287, TyrA, Prephenate dehydrogenase [Amino acid transport and
metabolism].
Length = 279
Score = 25.8 bits (57), Expect = 3.9
Identities = 18/48 (37%), Positives = 21/48 (43%), Gaps = 8/48 (16%)
Query: 10 RVAIVTGAGAGL-GRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD 56
+V IV G GL G S A L E G V + RD + KAA
Sbjct: 5 KVGIV---GLGLMGGSLARALKEAGLVVRIIG----RDRSAATLKAAL 45
>gnl|CDD|140333 PTZ00312, PTZ00312, inositol-1,4,5-triphosphate 5-phosphatase;
Provisional.
Length = 356
Score = 26.0 bits (57), Expect = 4.2
Identities = 16/41 (39%), Positives = 21/41 (51%)
Query: 17 AGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADT 57
+GAG R LLL+ R +VVVN L D + AA +
Sbjct: 61 SGAGRSRKGFLLLSLRLGTVVVNVLNVHLYNDDDNRVAAAS 101
>gnl|CDD|238728 cd01451, vWA_Magnesium_chelatase, Magnesium chelatase: Mg-chelatase
catalyses the insertion of Mg into protoporphyrin IX
(Proto). In chlorophyll biosynthesis, insertion of Mg2+
into protoporphyrin IX is catalysed by magnesium
chelatase in an ATP-dependent reaction. Magnesium
chelatase is a three sub-unit (BchI, BchD and BchH)
enzyme with a novel arrangement of domains: the
C-terminal helical domain is located behind the
nucleotide binding site. The BchD domain contains a AAA
domain at its N-terminus and a VWA domain at its
C-terminus. The VWA domain has been speculated to be
involved in mediating protein-protein interactions.
Length = 178
Score = 25.7 bits (57), Expect = 4.2
Identities = 14/49 (28%), Positives = 19/49 (38%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD 56
DGR + A + A L RG S +V D G+ G + A
Sbjct: 107 DGRANVGPDPTADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLAR 155
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 25.9 bits (57), Expect = 4.7
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 10 RVAIVTGAG-AGLGRSYALLLAERGASVVV 38
V IV GAG AG S A LA+ G V+V
Sbjct: 5 DVVIV-GAGPAGS--SAARRLAKAGLDVLV 31
>gnl|CDD|130385 TIGR01318, gltD_gamma_fam, glutamate synthase small subunit family
protein, proteobacterial. This model represents one of
three built for the NADPH-dependent or NADH-dependent
glutamate synthase (EC 1.4.1.13 and 1.4.1.14,
respectively) small subunit and homologs. TIGR01317
describes the small subunit (or equivalent region from
longer forms) in eukaryotes, Gram-positive bacteria, and
some other lineages, both NADH and NADPH-dependent.
TIGR01316 describes a protein of similar length, from
Archaea and a number of bacterial lineages, that forms
glutamate synthase homotetramers without a large
subunit. This model describes both glutatate synthase
small subunit and closely related paralogs of unknown
function from a number of gamma and alpha subdivision
Proteobacteria, including E. coli.
Length = 467
Score = 25.5 bits (56), Expect = 5.1
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVND 40
+ V RVA++ AGL A +LA G VVV D
Sbjct: 134 LSHVVPTGKRVAVIGAGPAGLA--CADILARAGVQVVVFD 171
>gnl|CDD|184559 PRK14189, PRK14189, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 285
Score = 25.4 bits (56), Expect = 5.2
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 12/59 (20%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVV-----NDLGGQRDGDGKSSKAADTVVAEI 62
G A+V G +G+ A+LL + GA+V + DL ++ AD VVA +
Sbjct: 158 GAHAVVIGRSNIVGKPMAMLLLQAGATVTICHSKTRDLAAH-------TRQADIVVAAV 209
>gnl|CDD|172654 PRK14166, PRK14166, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 282
Score = 25.8 bits (56), Expect = 5.2
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVV 38
++ +G+ A++ GA +GR A +L GA+V V
Sbjct: 152 EIDLEGKDAVIIGASNIVGRPMATMLLNAGATVSV 186
>gnl|CDD|235886 PRK06923, PRK06923, isochorismate synthase DhbC; Validated.
Length = 399
Score = 25.5 bits (56), Expect = 5.4
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 21 LGRSYALLLAERGASVVVNDLGGQR 45
+G S LL++ G V+ N L G R
Sbjct: 192 IGASPELLVSRHGMQVISNPLAGSR 216
>gnl|CDD|179297 PRK01438, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 480
Score = 25.4 bits (56), Expect = 5.5
Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 19 AGLGRS---YALLLAERGASVVVNDLGGQRDGDGKSSKAAD--TVVAEIRSKGGKAVP 71
AGLG S A L E GA V V D D + + AA + A +R G +P
Sbjct: 22 AGLGVSGFAAADALLELGARVTVVD---DGDDERHRALAAILEALGATVRLGPGPTLP 76
>gnl|CDD|235981 PRK07239, PRK07239, bifunctional uroporphyrinogen-III
synthetase/response regulator domain protein; Validated.
Length = 381
Score = 25.3 bits (56), Expect = 5.5
Identities = 27/82 (32%), Positives = 35/82 (42%), Gaps = 16/82 (19%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVV-NDLGGQRDGDGKSSKAADTVVAEIR 63
V DG V ++ A L R+ LA R VV DL G G A +T VA +R
Sbjct: 298 VVVDGEVKPLSPAPMALLRA----LAARPGRVVSREDLLAALPGGGTDEHAVETAVARLR 353
Query: 64 SKGGKAVPDYNSVVDGDKIVQT 85
+ A+ D K+VQT
Sbjct: 354 T----ALGD-------PKLVQT 364
>gnl|CDD|218026 pfam04321, RmlD_sub_bind, RmlD substrate binding domain.
L-rhamnose is a saccharide required for the virulence
of some bacteria. Its precursor, dTDP-L-rhamnose, is
synthesised by four different enzymes the final one of
which is RmlD. The RmlD substrate binding domain is
responsible for binding a sugar nucleotide.
Length = 284
Score = 25.3 bits (56), Expect = 5.8
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
VTGA LGR LLAERG VV + + D +A +V E R
Sbjct: 3 VTGANGQLGRELTRLLAERGVEVVA---LDRPELDLTDPEAVAALVREAR 49
>gnl|CDD|187535 cd02266, SDR, Short-chain dehydrogenases/reductases (SDR). SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase (KR) domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 186
Score = 25.2 bits (55), Expect = 6.1
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 12 AIVTGAGAGLGRSYALLLAERGA-SVVVND 40
+VTG G+G + A LA RG+ V+V
Sbjct: 1 VLVTGGSGGIGGAIARWLASRGSPKVLVVS 30
>gnl|CDD|238505 cd01033, ClC_like, Putative ClC chloride channel. Clc proteins are
putative halogen ion (Cl-, Br- and I-) transporters
found in eubacteria. They belong to the ClC superfamily
of halogen ion channels, which share a unique
double-barreled architecture and voltage-dependent
gating mechanism. This superfamily lacks any structural
or sequence similarity to other known ion channels and
exhibit unique properties of ion permeation and gating.
The voltage-dependent gating is conferred by the
permeating anion itself, acting as the gating charge.
Length = 388
Score = 25.3 bits (56), Expect = 6.3
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLA 30
D R+ + AGAGL Y + LA
Sbjct: 129 DRRLLVACAAGAGLAAVYNVPLA 151
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 25.3 bits (56), Expect = 6.6
Identities = 20/96 (20%), Positives = 36/96 (37%), Gaps = 12/96 (12%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+ +VTG G +G + + ++ + + E+R K
Sbjct: 248 LTGKTVLVTGGGGSIGSELCRQILKFNPKEIIL--------FSRDEYKLYLIDMELREKF 299
Query: 67 G--KAVPDYNSVVDGDKIVQTALENFGRIDIVINNA 100
K V D D+ V+ A+E ++DIV + A
Sbjct: 300 PELKLRFYIGDVRDRDR-VERAMEGH-KVDIVFHAA 333
>gnl|CDD|132407 TIGR03364, HpnW_proposed, FAD dependent oxidoreductase TIGR03364.
This clade of FAD dependent oxidoreductases (members
of the pfam01266 family) is syntenically associated
with a family of proposed phosphonatase-like enzymes
(TIGR03351) and is also found (less frequently) in
association with phosphonate transporter components. A
likely role for this enzyme involves the oxidative
deamination of an aminophosphonate differring slightly
from 2-aminoethylphosphonate, possibly
1-hydroxy-2-aminoethylphosphonate (see the comments for
TIGR03351). Many members of the larger FAD dependent
oxidoreductase family act as amino acid oxidative
deaminases.
Length = 365
Score = 25.3 bits (56), Expect = 6.7
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 10 RVAIVTGAGAG-LGRSYALLLAERGASVVV 38
+ IV GAG LG ++A A RG SV V
Sbjct: 2 DLIIV---GAGILGLAHAYAAARRGLSVTV 28
>gnl|CDD|239786 cd04253, AAK_UMPK-PyrH-Pf, AAK_UMPK-PyrH-Pf: UMP kinase
(UMPK)-Pf, the mostly archaeal uridine monophosphate
kinase (uridylate kinase) enzymes that catalyze UMP
phosphorylation and play a key role in pyrimidine
nucleotide biosynthesis; regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinase of
Pyrococcus furiosus (Pf) is known to function as a
homohexamer, with GTP and UTP being allosteric
effectors. Like other related enzymes (carbamate
kinase, aspartokinase, and N-acetylglutamate kinase)
the E. coli and most bacterial UMPKs have a conserved,
N-terminal, lysine residue proposed to function in the
catalysis of the phosphoryl group transfer, whereas
most archaeal UMPKs (this CD) appear to lack this
residue and the Pyrococcus furiosus structure has an
additional Mg ion bound to the ATP molecule which is
proposed to function as the catalysis instead. Members
of this CD belong to the Amino Acid Kinase Superfamily
(AAK).
Length = 221
Score = 25.3 bits (56), Expect = 6.7
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGG 43
++ +VA+V G G L R Y + + GAS D G
Sbjct: 28 RKISDGHKVAVVVG-GGRLAREYISVARKLGASEAFLDEIG 67
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 25.1 bits (55), Expect = 6.9
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 6 RFDGRVAIVTGAG--AGLGRSYALLLAERGASV 36
+ +VA+VTG G+G + LAE GA +
Sbjct: 3 QLKNKVAVVTGVSRLDGIGAAICKELAEAGADI 35
>gnl|CDD|233711 TIGR02076, pyrH_arch, uridylate kinase, putative. This family
consists of the archaeal and spirochete proteins most
closely related to bacterial uridylate kinases
(TIGR02075), an enzyme involved in pyrimidine
biosynthesis. Members are likely, but not known, to be
functionally equivalent to their bacterial
counterparts. However, substantial sequence differences
suggest that regulatory mechanisms may be different;
the bacterial form is allosterically regulated by GTP
[Purines, pyrimidines, nucleosides, and nucleotides,
Nucleotide and nucleoside interconversions].
Length = 221
Score = 25.0 bits (55), Expect = 7.2
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGG 43
++ + +V +V G G R Y + E GAS D G
Sbjct: 27 RKLSDEHKVGVVVG-GGKTARRYIGVARELGASETFLDEIG 66
>gnl|CDD|187579 cd05271, NDUFA9_like_SDR_a, NADH dehydrogenase (ubiquinone) 1
alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like,
atypical (a) SDRs. This subgroup of extended SDR-like
proteins are atypical SDRs. They have a glycine-rich
NAD(P)-binding motif similar to the typical SDRs,
GXXGXXG, and have the YXXXK active site motif (though
not the other residues of the SDR tetrad). Members
identified include NDUFA9 (mitochondrial) and putative
nucleoside-diphosphate-sugar epimerase. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif
is often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 273
Score = 25.3 bits (56), Expect = 7.3
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVV 38
V V GA +GR LA+RG+ V+V
Sbjct: 2 VVTVFGATGFIGRYVVNRLAKRGSQVIV 29
>gnl|CDD|223727 COG0654, UbiH, 2-polyprenyl-6-methoxyphenol hydroxylase and
related FAD-dependent oxidoreductases [Coenzyme
metabolism / Energy production and conversion].
Length = 387
Score = 25.1 bits (55), Expect = 7.5
Identities = 16/30 (53%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 10 RVAIVTGAG-AGLGRSYALLLAERGASVVV 38
VAIV GAG AGL + AL LA G V +
Sbjct: 4 DVAIV-GAGPAGL--ALALALARAGLDVTL 30
>gnl|CDD|200963 pfam00056, Ldh_1_N, lactate/malate dehydrogenase, NAD binding
domain. L-lactate dehydrogenases are metabolic enzymes
which catalyze the conversion of L-lactate to pyruvate,
the last step in anaerobic glycolysis.
L-2-hydroxyisocaproate dehydrogenases are also members
of the family. Malate dehydrogenases catalyze the
interconversion of malate to oxaloacetate. The enzyme
participates in the citric acid cycle. L-lactate
dehydrogenase is also found as a lens crystallin in
bird and crocodile eyes. N-terminus (this family) is a
Rossmann NAD-binding fold. C-terminus is an unusual
alpha+beta fold.
Length = 142
Score = 24.8 bits (55), Expect = 8.0
Identities = 13/24 (54%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERG 33
+VA+V GAG G+G S A LA +G
Sbjct: 2 KVAVV-GAGGGVGSSLAFALALQG 24
>gnl|CDD|212497 cd11731, Lin1944_like_SDR_c, Lin1944 and related proteins,
classical (c) SDRs. Lin1944 protein from Listeria
Innocua is a classical SDR, it contains a glycine-rich
motif similar to the canonical motif of the SDR
NAD(P)-binding site. However, the typical SDR active
site residues are absent in this subgroup of proteins
of undetermined function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed
within the SDR family include isomerization,
decarboxylation, epimerization, C=N bond reduction,
dehydratase activity, dehalogenation, Enoyl-CoA
reduction, and carbonyl-alcohol oxidoreduction.
Length = 198
Score = 24.8 bits (55), Expect = 8.6
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVV 38
IV GA +G + A LL+ G V+
Sbjct: 1 IIVIGATGTIGLAVAQLLSAHGHEVIT 27
>gnl|CDD|187540 cd05229, SDR_a3, atypical (a) SDRs, subgroup 3. These atypical
SDR family members of unknown function have a
glycine-rich NAD(P)-binding motif consensus that is
very similar to the extended SDRs, GXXGXXG. Generally,
this group has poor conservation of the active site
tetrad, However, individual sequences do contain
matches to the YXXXK active site motif, and generally
Tyr or Asn in place of the upstream Ser found in most
SDRs. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 302
Score = 25.0 bits (55), Expect = 8.6
Identities = 12/35 (34%), Positives = 15/35 (42%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRD 46
A V GA +GR A L RG V + G +
Sbjct: 2 AHVLGASGPIGREVARELRRRGWDVRLVSRSGSKL 36
>gnl|CDD|183740 PRK12779, PRK12779, putative bifunctional glutamate synthase
subunit beta/2-polyprenylphenol hydroxylase;
Provisional.
Length = 944
Score = 25.2 bits (55), Expect = 8.8
Identities = 24/71 (33%), Positives = 37/71 (52%), Gaps = 10/71 (14%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVV----NDLGG-QRDGDGK---SSKAADTVVAEI 62
+A+V +GL +Y LLA G V V +DLGG R G + ++ D VV +I
Sbjct: 309 IAVVGSGPSGLINAY--LLAVEGFPVTVFEAFHDLGGVLRYGIPEFRLPNQLIDDVVEKI 366
Query: 63 RSKGGKAVPDY 73
+ GG+ V ++
Sbjct: 367 KLLGGRFVKNF 377
>gnl|CDD|187655 cd08952, KR_1_SDR_x, ketoreductase (KR), subgroup 1, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
KR domains found in many multidomain PKSs, including six
of seven Sorangium cellulosum PKSs (encoded by
spiDEFGHIJ) which participate in the synthesis of the
polyketide scaffold of the cytotoxic spiroketal
polyketide spirangien. These seven PKSs have either a
single PKS module (SpiF), two PKR modules
(SpiD,-E,-I,-J), or three PKS modules (SpiG,-H). This
subfamily includes the single KR domain of SpiF, the
first KR domains of SpiE,-G,H,-I,and #J, the third KR
domain of SpiG, and the second KR domain of SpiH. The
second KR domains of SpiE,-G, I, and #J, and the KR
domains of SpiD, belong to a different KR_FAS_SDR
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 480
Score = 24.8 bits (55), Expect = 8.9
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
VTG LG A LA RGA +V L +R D + A +VAE+ + G +
Sbjct: 235 VTGGTGALGAHVARWLARRGAEHLV--LTSRRGPD---APGAAELVAELTALGARVT 286
>gnl|CDD|238297 cd00532, MGS-like, MGS-like domain. This domain composes the
whole protein of methylglyoxal synthetase, which
catalyzes the enolization of dihydroxyacetone phosphate
(DHAP) to produce methylglyoxal. The family also
includes the C-terminal domain in carbamoyl phosphate
synthetase (CPS) where it catalyzes the last
phosphorylation of a coaboxyphosphate intermediate to
form the product carbamoyl phosphate and may also play
a regulatory role. This family also includes inosine
monophosphate cyclohydrolase. The known structures in
this family show a common phosphate binding site.
Length = 112
Score = 24.4 bits (53), Expect = 9.0
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 78 DGDKIVQTALENFGRIDIVINN 99
DG+ V A+ G+ D+VIN
Sbjct: 54 DGEPTVDAAIAEKGKFDVVINL 75
>gnl|CDD|223567 COG0493, GltD, NADPH-dependent glutamate synthase beta chain and
related oxidoreductases [Amino acid transport and
metabolism / General function prediction only].
Length = 457
Score = 24.9 bits (55), Expect = 9.3
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVND 40
R +VA++ AGL + L+ G V V +
Sbjct: 116 ELPGSRTGKKVAVIGAGPAGLAAAD--DLSRAGHDVTVFE 153
>gnl|CDD|224938 COG2027, DacB, D-alanyl-D-alanine carboxypeptidase
(penicillin-binding protein 4) [Cell envelope
biogenesis, outer membrane].
Length = 470
Score = 24.7 bits (54), Expect = 9.8
Identities = 12/46 (26%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 34 ASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPDYNSVVDG 79
A + +GG G S AAD V + + G + + DG
Sbjct: 311 AEALFRAIGGAIKRPGSVSAAADAVRQILLQRAGIDLAGL-VLADG 355
>gnl|CDD|238898 cd01917, ACS_2, Acetyl-CoA synthase (ACS), also known as acetyl-CoA
decarbonylase, is found in acetogenic and methanogenic
organisms and is responsible for the synthesis and
breakdown of acetyl-CoA. ACS forms a heterotetramer
with carbon monoxide dehydrogenase (CODH) consisting of
two ACS and two CODH subunits. CODH reduces carbon
dioxide to carbon monoxide and ACS then synthesizes
acetyl-CoA from carbon monoxide, CoA, and a methyl group
donated by another protein (CoFeSP). ACS has three
structural domains, an N-terminal rossman fold domain
with a helical region at its N-terminus which interacts
with CODH, and two alpha + beta fold domains. A Ni-Fe-S
center referred to as the A-cluster is located in the
C-terminal domain. A large cavity exists between the
three domains which may bind CoA.
Length = 287
Score = 24.8 bits (54), Expect = 9.9
Identities = 14/25 (56%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 68 KAVPD-YNSVVDGDKIVQTALENFG 91
K +PD + S D DKIVQ ALE G
Sbjct: 260 KQIPDWFFSSSDYDKIVQNALEMRG 284
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
0.314 0.135 0.370
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,213,802
Number of extensions: 456165
Number of successful extensions: 1108
Number of sequences better than 10.0: 1
Number of HSP's gapped: 867
Number of HSP's successfully gapped: 399
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)