RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9256
(265 letters)
>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 = 132 bits (335), Expect = 1e-37
Identities = 52/120 (43%), Positives = 74/120 (61%), Gaps = 2/120 (1%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
KVV ITGASSGIGE LA L++ GA+LVLSAR LE VK+ C++ GA S + +
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSECLELGA--PSPHVV 58
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIY 163
LD++ + + + ++ FG LDILINNAG S R+ + D ++VDR++ Y +
Sbjct: 59 PLDMSDLEDAEQVVEEALKLFGGLDILINNAGISMRSLFHDTSIDVDRKIMEVNYFGPVA 118
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 102 bits (256), Expect = 5e-26
Identities = 37/101 (36%), Positives = 60/101 (59%), Gaps = 3/101 (2%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KVV ITGAS GIG ALA++L++ GA+LVL+AR+ + L + G +
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADHGGEA---LVVPT 57
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE 146
DV+ + R +A + +FG +DIL+NNAG + + ++++
Sbjct: 58 DVSDAEACERLIEAAVARFGGIDILVNNAGITMWSRFDELT 98
Score = 73.5 bits (181), Expect = 2e-15
Identities = 28/95 (29%), Positives = 49/95 (51%), Gaps = 3/95 (3%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE-LEVDRELFELNVFSVLSL 226
DV+ + R +A + +FG +DIL+NNAG + + ++++ L V + +N +
Sbjct: 58 DVSDAEACERLIEAAVARFGGIDILVNNAGITMWSRFDELTDLSVFERVMRVNYLGAVYC 117
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ A + A G +VV SS+AG+ G P Y
Sbjct: 118 THAALPHLKASR--GQIVVVSSLAGLTGVPTRSGY 150
>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 = 100 bits (251), Expect = 2e-25
Identities = 42/123 (34%), Positives = 67/123 (54%), Gaps = 1/123 (0%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+ KV ITG+SSGIG A+ ++ GA+L L+ R + LE + C+QAG + I +
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAGVSEKKILLV 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIY 163
D+T+ + R + +FG LDIL+NNAG + ED ++E ++ R ++
Sbjct: 61 VADLTEEEGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDIEEYDKVMNLNLR-AVI 119
Query: 164 TLT 166
LT
Sbjct: 120 YLT 122
Score = 60.5 bits (147), Expect = 7e-11
Identities = 29/94 (30%), Positives = 51/94 (54%), Gaps = 2/94 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
D+T+ + R + +FG LDIL+NNAG + ED ++E ++ LN+ +V+ L+
Sbjct: 63 DLTEEEGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDIEEYDKVMNLNLRAVIYLT 122
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
++A + + + G +V SS+AG P Y
Sbjct: 123 KLAVPHLIKTK--GEIVNVSSVAGGRSFPGVLYY 154
>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 = 96.9 bits (242), Expect = 4e-24
Identities = 40/106 (37%), Positives = 59/106 (55%), Gaps = 3/106 (2%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 216
++ L LDVT + + VI++FG +D+L+NNAG E+ +E RELF
Sbjct: 43 LLNDNLEVLELDVTDEESIKAAVKEVIERFGRIDVLVNNAGYGLFGPLEETSIEEVRELF 102
Query: 217 ELNVFSVLSLSRIATSYFLAREQG-GHLVVTSSIAGIVGAPYSGSY 261
E+NVF L ++R R+QG G +V SS+AG+V P+ G Y
Sbjct: 103 EVNVFGPLRVTRAFLPLM--RKQGSGRIVNVSSVAGLVPTPFLGPY 146
Score = 93.4 bits (233), Expect = 7e-23
Identities = 42/108 (38%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KVV ITG SSGIG ALAL L+ G +++ +AR+ LE ++ L LD
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVIATARNPDKLES------LGELLNDNLEVLELD 54
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
VT + + VI++FG +D+L+NNAG E+ +E RELF
Sbjct: 55 VTDEESIKAAVKEVIERFGRIDVLVNNAGYGLFGPLEETSIEEVRELF 102
>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 = 84.3 bits (209), Expect = 2e-19
Identities = 47/214 (21%), Positives = 81/214 (37%), Gaps = 67/214 (31%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
+TGASSGIG A+A +L + GA
Sbjct: 1 ALVTGASSGIGRAIARRL------------------------AREGAK------------ 24
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLD 168
+++ A R++ A E +E A + + D
Sbjct: 25 --------------------VVL--ADRNEEALAELAAIE--------ALGGNAVAVQAD 54
Query: 169 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSR 228
V+ + + +++FG LDIL+NNAG ++ E++ E + ++N+ V L+R
Sbjct: 55 VSDEEDVEALVEEALEEFGRLDILVNNAGIARPGPLEELTDEDWDRVLDVNLTGVFLLTR 114
Query: 229 IATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
A + + GG +V SS+AG+ P +Y
Sbjct: 115 AALPHMKKQ-GGGRIVNISSVAGLRPLPGQAAYA 147
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 84.6 bits (210), Expect = 2e-19
Identities = 33/92 (35%), Positives = 48/92 (52%), Gaps = 4/92 (4%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERV-KNLCVQAGAHPQSIYTL 103
K ITGASSGIG LA QL++ G L+L AR LE + K L + +
Sbjct: 5 KGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKEL---EDKTGVEVEVI 61
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D++ + R D + ++ G +D+L+NNAG
Sbjct: 62 PADLSDPEALERLEDELKERGGPIDVLVNNAG 93
Score = 70.0 bits (172), Expect = 4e-14
Identities = 24/105 (22%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 216
+ + D++ + R D + ++ G +D+L+NNAG + ++ L+ + E+
Sbjct: 53 KTGVEVEVIPADLSDPEALERLEDELKERGGPIDVLVNNAGFGTFGPFLELSLDEEEEMI 112
Query: 217 ELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+LN+ ++ L++ + R GH++ S AG++ PY Y
Sbjct: 113 QLNILALTRLTKAVLPGMVERGA-GHIINIGSAAGLIPTPYMAVY 156
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 83.0 bits (206), Expect = 6e-19
Identities = 57/219 (26%), Positives = 83/219 (37%), Gaps = 68/219 (31%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQA-GAHPQSIYT 102
KV +TGASSGIGE +A + + GA++V++ R+ ERV A ++I
Sbjct: 3 LEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERV----AAEILAGGRAIA- 57
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSI 162
+ DV+ A +++FG +DIL+NNAG T+ P
Sbjct: 58 VAADVSDEADVEAAVAAALERFGSVDILVNNAG------------------TTHRNGP-- 97
Query: 163 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFS 222
LDV E E DR +F +NV S
Sbjct: 98 ---LLDVD-------------------------------------EAEFDR-IFAVNVKS 116
Query: 223 VLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
++ A E GG +V +S AG+ P G Y
Sbjct: 117 PYLWTQAAVPAMRG-EGGGAIVNVASTAGLRPRPGLGWY 154
>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 = 82.2 bits (203), Expect = 1e-18
Identities = 37/115 (32%), Positives = 59/115 (51%), Gaps = 6/115 (5%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSS--SNLERVKNLCVQAGAHPQSIY 101
+ KV +TGASSGIG A+A L++ GA++V++AR S E + +AG
Sbjct: 3 LSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGR--AA 60
Query: 102 TLTLDVTQTKY-HRRCFDAVIQQFGCLDILINNAGRSQRAA-WEDIELEVDRELF 154
+ DV+ + A ++FG +DIL+NNAG + A E++ E +
Sbjct: 61 AVAADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPDAPLEELTEEDWDRVI 115
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 84.2 bits (209), Expect = 2e-18
Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KVV ITGASSGIG A A+++++ GA + L AR N E + L + A + + T
Sbjct: 371 GKVVLITGASSGIGRATAIKVAEAGATVFLVAR---NGEALDELVAEIRAKGGTAHAYTC 427
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDR 151
D+T + ++ + G +D L+NNAGRS R + +E DR
Sbjct: 428 DLTDSAAVDHTVKDILAEHGHVDYLVNNAGRSIRRS---VENSTDR 470
Score = 46.9 bits (112), Expect = 6e-06
Identities = 30/104 (28%), Positives = 47/104 (45%), Gaps = 9/104 (8%)
Query: 163 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDR-ELFE---- 217
+ T D+T + ++ + G +D L+NNAGRS R + +E DR +E
Sbjct: 423 HAYTCDLTDSAAVDHTVKDILAEHGHVDYLVNNAGRSIRRS---VENSTDRFHDYERTMA 479
Query: 218 LNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+N F + L + R + GH+V SSI AP +Y
Sbjct: 480 VNYFGAVRLILGLLPHMRER-RFGHVVNVSSIGVQTNAPRFSAY 522
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 81.1 bits (201), Expect = 3e-18
Identities = 45/112 (40%), Positives = 62/112 (55%), Gaps = 10/112 (8%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
KV ITGASSGIGEA A L++ GAK+VL+AR ER++ L + GA + L
Sbjct: 5 KGKVALITGASSGIGEATARALAEAGAKVVLAAR---REERLEALADEIGA--GAALALA 59
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG-----RSQRAAWEDIELEVDR 151
LDVT +A+ ++FG +DIL+NNAG A +D + +D
Sbjct: 60 LDVTDRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLDEADLDDWDRMIDT 111
Score = 54.2 bits (131), Expect = 1e-08
Identities = 31/108 (28%), Positives = 50/108 (46%), Gaps = 13/108 (12%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG--RSQRAAWEDIELEVD--RELF 216
+ L LDVT +A+ ++FG +DIL+NNAG E ++D +
Sbjct: 54 AALALALDVTDRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLD----EADLDDWDRMI 109
Query: 217 ELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIV----GAPYSGS 260
+ NV +L+ +R + R + GH++ SIAG GA Y +
Sbjct: 110 DTNVKGLLNGTRAVLPGMVER-KSGHIINLGSIAGRYPYPGGAVYGAT 156
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 81.0 bits (201), Expect = 3e-18
Identities = 36/105 (34%), Positives = 52/105 (49%), Gaps = 3/105 (2%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
K +TGAS GIG A+AL+L+ GAK+V+ + E + AG L
Sbjct: 3 LQGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAGG---EARVL 59
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DV+ R +A ++ FG LDIL+NNAG ++ A + E
Sbjct: 60 VFDVSDEAAVRALIEAAVEAFGALDILVNNAGITRDALLPRMSEE 104
Score = 55.9 bits (136), Expect = 2e-09
Identities = 28/104 (26%), Positives = 48/104 (46%), Gaps = 5/104 (4%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
L DV+ R +A ++ FG LDIL+NNAG ++ A + E + ++N+
Sbjct: 55 EARVLVFDVSDEAAVRALIEAAVEAFGALDILVNNAGITRDALLPRMSEEDWDRVIDVNL 114
Query: 221 FSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVG----APYSGS 260
++ R A + G +V SS++G+ G YS +
Sbjct: 115 TGTFNVVRAALPPMIKARY-GRIVNISSVSGVTGNPGQTNYSAA 157
>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 = 80.8 bits (200), Expect = 3e-18
Identities = 41/110 (37%), Positives = 60/110 (54%), Gaps = 8/110 (7%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K V ITGASSGIGEA A + +K GAKL+L+ R + L+ + + P + L LD
Sbjct: 1 KTVLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGA--KFPVKVLPLQLD 58
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG------RSQRAAWEDIELEVD 150
V+ + + + ++F +DIL+NNAG +Q A ED E +D
Sbjct: 59 VSDRESIEAALENLPEEFRDIDILVNNAGLALGLDPAQEADLEDWETMID 108
Score = 57.7 bits (140), Expect = 7e-10
Identities = 33/110 (30%), Positives = 55/110 (50%), Gaps = 14/110 (12%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG------RSQRAAWEDIELE 210
+ + L LDV+ + + + ++F +DIL+NNAG +Q A ED E
Sbjct: 47 KFPVKVLPLQLDVSDRESIEAALENLPEEFRDIDILVNNAGLALGLDPAQEADLEDWE-- 104
Query: 211 VDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGS 260
+ + NV +L+++R+ +AR Q GH++ SIAG PY+G
Sbjct: 105 ---TMIDTNVKGLLNVTRLILPIMIARNQ-GHIINLGSIAGR--YPYAGG 148
>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 = 80.0 bits (198), Expect = 6e-18
Identities = 37/103 (35%), Positives = 59/103 (57%), Gaps = 1/103 (0%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKN-LCVQAGAHPQSIYTLTL 105
K V ITG SSGIG+ALA +L K GA +++ ARS S LE + +A A Q + ++
Sbjct: 2 KHVLITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAEANASGQKVSYISA 61
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
D++ + + F +++ G D+++N AG S +ED+ E
Sbjct: 62 DLSDYEEVEQAFAQAVEKGGPPDLVVNCAGISIPGLFEDLTAE 104
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 79.2 bits (196), Expect = 1e-17
Identities = 35/96 (36%), Positives = 48/96 (50%), Gaps = 7/96 (7%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
ITGASSGIG+A AL +K G L L ARS LE + G ++D
Sbjct: 7 PRALITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELRSTGV---KAAAYSID 63
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAW 142
++ + +++QFGC D+LINNAG A+
Sbjct: 64 LSNPEAIAPGIAELLEQFGCPDVLINNAG----MAY 95
Score = 49.2 bits (118), Expect = 5e-07
Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 5/103 (4%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
++D++ + +++QFGC D+LINNAG + ++ L + + +LN+
Sbjct: 56 KAAAYSIDLSNPEAIAPGIAELLEQFGCPDVLINNAGMAYTGPLLEMPLSDWQWVIQLNL 115
Query: 221 FSVLSLSR-IATSYFLAREQGGHLVVT-SSIAGIVGAPYSGSY 261
SV + R +GG L++ SSIA P G+Y
Sbjct: 116 TSVFQCCSAVLPG---MRARGGGLIINVSSIAARNAFPQWGAY 155
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 78.9 bits (195), Expect = 1e-17
Identities = 37/106 (34%), Positives = 48/106 (45%), Gaps = 6/106 (5%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERV-KNLCVQAGAHPQSIYT 102
KV ITG S GIG A+A L G K+ ++AR LE L +
Sbjct: 4 LKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAAELNNKGNVLG----- 58
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
L DV +R DA++ FG LD+LI NAG A E++ E
Sbjct: 59 LAADVRDEADVQRAVDAIVAAFGGLDVLIANAGVGHFAPVEELTPE 104
Score = 48.5 bits (116), Expect = 7e-07
Identities = 30/97 (30%), Positives = 46/97 (47%), Gaps = 6/97 (6%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV +R DA++ FG LD+LI NAG A E++ E R + + N+
Sbjct: 62 DVRDEADVQRAVDAIVAAFGGLDVLIANAGVGHFAPVEELTPEEWRLVIDTNLTGAFYTI 121
Query: 228 RIATSYFLAREQGGHLVVTSSIAGI----VGAPYSGS 260
+ A + GG+++ SS+AG GA Y+ S
Sbjct: 122 KAAVPAL--KRGGGYIINISSLAGTNFFAGGAAYNAS 156
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 79.2 bits (196), Expect = 2e-17
Identities = 35/91 (38%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
N KV ITGASSGIG A A ++ GAK+V+ AR + L+++ G + L
Sbjct: 5 NGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIRAEGGEAVA---LA 61
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV Y + +++FG LDI NNAG
Sbjct: 62 GDVRDEAYAKALVALAVERFGGLDIAFNNAG 92
Score = 42.6 bits (101), Expect = 9e-05
Identities = 32/105 (30%), Positives = 43/105 (40%), Gaps = 21/105 (20%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA-WEDIELEVDRELFELNVFSVLSL 226
DV Y + +++FG LDI NNAG ++ LE RE N+
Sbjct: 63 DVRDEAYAKALVALAVERFGGLDIAFNNAGTLGEMGPVAEMSLEGWRETLATNL------ 116
Query: 227 SRIATSYFL-AREQ--------GGHLVVTSSIAG-IVGAPYSGSY 261
TS FL A+ Q GG L+ TS+ G G P +Y
Sbjct: 117 ----TSAFLGAKHQIPAMLARGGGSLIFTSTFVGHTAGFPGMAAY 157
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 78.4 bits (194), Expect = 3e-17
Identities = 38/110 (34%), Positives = 59/110 (53%), Gaps = 6/110 (5%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+K V +TGAS GIG+ALA L+ GA+L+L R++ LE + +P +
Sbjct: 4 KDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALA----ARLPYPGRHRWVV 59
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE-VDREL 153
D+T R A ++ G +++LINNAG + A ED + E ++R L
Sbjct: 60 ADLTSEA-GREAVLARAREMGGINVLINNAGVNHFALLEDQDPEAIERLL 108
Score = 40.3 bits (95), Expect = 4e-04
Identities = 22/77 (28%), Positives = 36/77 (46%)
Query: 176 RRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFL 235
R A ++ G +++LINNAG + A ED + E L LN+ + + L+R
Sbjct: 68 REAVLARAREMGGINVLINNAGVNHFALLEDQDPEAIERLLALNLTAPMQLTRALLPLLR 127
Query: 236 AREQGGHLVVTSSIAGI 252
A+ + V S+ I
Sbjct: 128 AQPSAMVVNVGSTFGSI 144
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 78.0 bits (193), Expect = 4e-17
Identities = 28/105 (26%), Positives = 49/105 (46%), Gaps = 3/105 (2%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+V +TGA+ GIG A+A++L+ GA++++ + L AG
Sbjct: 4 LEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEAAGG---KARAR 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
+DV + A ++ FG LDIL+ NAG + +++ E
Sbjct: 61 QVDVRDRAALKAAVAAGVEDFGRLDILVANAGIFPLTPFAEMDDE 105
Score = 66.5 bits (163), Expect = 5e-13
Identities = 30/103 (29%), Positives = 48/103 (46%), Gaps = 2/103 (1%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELN 219
+DV + A ++ FG LDIL+ NAG + +++ E + ++N
Sbjct: 55 GKARARQVDVRDRAALKAAVAAGVEDFGRLDILVANAGIFPLTPFAEMDDEQWERVIDVN 114
Query: 220 VFSVLSLSRIATSYFLAREQGGHLVVTSSIAG-IVGAPYSGSY 261
+ L++ A L R GG +V+TSS+AG VG P Y
Sbjct: 115 LTGTFLLTQAALPA-LIRAGGGRIVLTSSVAGPRVGYPGLAHY 156
>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 = 77.4 bits (191), Expect = 6e-17
Identities = 33/102 (32%), Positives = 54/102 (52%), Gaps = 3/102 (2%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TGAS GIG +A L++ GA +V+++R+ E + L + G T D
Sbjct: 6 KVALVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIEKEG---VEATAFTCD 62
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
V+ + + +A+ + FG +DIL+NNAG +R E+
Sbjct: 63 VSDEEAIKAAVEAIEEDFGKIDILVNNAGIIRRHPAEEFPEA 104
Score = 59.7 bits (145), Expect = 1e-10
Identities = 24/99 (24%), Positives = 49/99 (49%), Gaps = 1/99 (1%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
T DV+ + + +A+ + FG +DIL+NNAG +R E+ R++ ++N+ V
Sbjct: 58 AFTCDVSDEEAIKAAVEAIEEDFGKIDILVNNAGIIRRHPAEEFPEAEWRDVIDVNLNGV 117
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+S+ + + + G ++ S+ +G P +Y
Sbjct: 118 FFVSQAVARHMIKQ-GHGKIINICSLLSELGGPPVPAYA 155
>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 = 76.0 bits (187), Expect = 2e-16
Identities = 37/118 (31%), Positives = 58/118 (49%), Gaps = 10/118 (8%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F KVV +TGA+ GIG +A +L+ GA+++L RS E + + A +
Sbjct: 2 FEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDRSELVHEVLAEILAAGDA----AHVH 57
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRS------QRAAWEDIELEVDRELFT 155
T D+ + A +++FG +D+LINN G + + E IE E+ R LF
Sbjct: 58 TADLETYAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYEHYEEEQIEAEIRRSLFP 115
Score = 56.8 bits (137), Expect = 1e-09
Identities = 34/107 (31%), Positives = 49/107 (45%), Gaps = 14/107 (13%)
Query: 162 IYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRS------QRAAWEDIELEVDREL 215
+ T D+ + A +++FG +D+LINN G + + E IE E+ R L
Sbjct: 54 AHVHTADLETYAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYEHYEEEQIEAEIRRSL 113
Query: 216 FELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIA--GIVGAPYSGS 260
F L R + L R+Q G +V SSIA GI PYS +
Sbjct: 114 -----FPTLWCCRAVLPHMLERQQ-GVIVNVSSIATRGIYRIPYSAA 154
>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 = 76.2 bits (188), Expect = 2e-16
Identities = 37/114 (32%), Positives = 57/114 (50%), Gaps = 7/114 (6%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KV +T ASSGIG A+A L++ GA++ + AR+ NLER + GA ++
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICARNRENLERAASELRAGGAGVLAV---VA 57
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYR 159
D+T + R + FG +DIL+NNAG + E+ E + A+
Sbjct: 58 DLTDPEDIDRLVEKAGDAFGRVDILVNNAGGPPPGPF----AELTDEDWLEAFD 107
Score = 48.8 bits (117), Expect = 6e-07
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 1/86 (1%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
D+T + R + FG +DIL+NNAG + ++ E E F+L + SV+ +
Sbjct: 58 DLTDPEDIDRLVEKAGDAFGRVDILVNNAGGPPPGPFAELTDEDWLEAFDLKLLSVIRIV 117
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIV 253
R R G +V SS+
Sbjct: 118 RAVLPGMKER-GWGRIVNISSLTVKE 142
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 74.7 bits (184), Expect = 5e-16
Identities = 53/218 (24%), Positives = 77/218 (35%), Gaps = 66/218 (30%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
K ITGA GIG A+A+ L+K G + L AR+ NL+ V G + T
Sbjct: 6 QGKNALITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAYGV---KVVIAT 62
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYT 164
DV+ + + + + G +DILINNAG
Sbjct: 63 ADVSDYEEVTAAIEQLKNELGSIDILINNAG----------------------------- 93
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
I +FG L A WE I ++N+ V
Sbjct: 94 ------------------ISKFGKFLEL-------DPAEWEKI--------IQVNLMGVY 120
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+R + R Q G ++ SS AG GA + +Y+
Sbjct: 121 YATRAVLPSMIER-QSGDIINISSTAGQKGAAVTSAYS 157
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 74.1 bits (183), Expect = 1e-15
Identities = 34/114 (29%), Positives = 55/114 (48%), Gaps = 8/114 (7%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVK---NLCVQAGAHPQSI 100
KV +TGAS GIG A+A L+K GAK+V++ N E + + G ++
Sbjct: 3 LMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYD--INEEAAQELLEEIKEEGGDAIAV 60
Query: 101 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
DV+ + + ++++FG +DIL+NNAG S D+ E +
Sbjct: 61 KA---DVSSEEDVENLVEQIVEKFGKIDILVNNAGISNFGLVTDMTDEEWDRVI 111
Score = 69.9 bits (172), Expect = 3e-14
Identities = 30/86 (34%), Positives = 49/86 (56%), Gaps = 5/86 (5%)
Query: 179 FDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLARE 238
+ ++++FG +DIL+NNAG S D+ E + ++N+ V+ L+R A Y + R
Sbjct: 74 VEQIVEKFGKIDILVNNAGISNFGLVTDMTDEEWDRVIDVNLTGVMLLTRYALPYMIKR- 132
Query: 239 QGGHLVVTSSIAGIVGAP----YSGS 260
+ G +V SSI G++GA YS S
Sbjct: 133 KSGVIVNISSIWGLIGASCEVLYSAS 158
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 73.7 bits (182), Expect = 1e-15
Identities = 31/106 (29%), Positives = 52/106 (49%), Gaps = 4/106 (3%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSS-SNLERVKNLCVQAGAHPQSIYT 102
+V +TGA+ G+G A+AL+L++ GA +V+ RS E + G +
Sbjct: 4 LMGRVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEALG---RRAQA 60
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
+ DVT A +++FG +DIL+NNAG + D+ +
Sbjct: 61 VQADVTDKAALEAAVAAAVERFGRIDILVNNAGIFEDKPLADMSDD 106
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 73.8 bits (182), Expect = 2e-15
Identities = 39/110 (35%), Positives = 61/110 (55%), Gaps = 9/110 (8%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
KV +TGASSGIG+A A +L+ G + +AR ++++++L G HP L+
Sbjct: 2 QKKVALVTGASSGIGKATARRLAAQGYTVYGAARR---VDKMEDL-ASLGVHP-----LS 52
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
LDVT + D +I + G +D+L+NNAG A ED+ ++ R F
Sbjct: 53 LDVTDEASIKAAVDTIIAEEGRIDVLVNNAGYGSYGAIEDVPIDEARRQF 102
Score = 58.4 bits (142), Expect = 4e-10
Identities = 32/104 (30%), Positives = 55/104 (52%), Gaps = 7/104 (6%)
Query: 162 IYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVF 221
++ L+LDVT + D +I + G +D+L+NNAG A ED+ ++ R FE+N+F
Sbjct: 48 VHPLSLDVTDEASIKAAVDTIIAEEGRIDVLVNNAGYGSYGAIEDVPIDEARRQFEVNLF 107
Query: 222 SVLSLSRIATSYFLAREQG-GHLVVTSSIAG----IVGAPYSGS 260
L+++ + R Q G ++ SS+ G +GA Y +
Sbjct: 108 GAARLTQLVLPHM--RAQRSGRIINISSMGGKIYTPLGAWYHAT 149
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 73.5 bits (181), Expect = 2e-15
Identities = 31/91 (34%), Positives = 45/91 (49%), Gaps = 3/91 (3%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+KV+ ITG + G+G A+A L++ GAKL L + LE C G +
Sbjct: 4 KDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGALGTEVRGY---A 60
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+VT + F + + FG L+ LINNAG
Sbjct: 61 ANVTDEEDVEATFAQIAEDFGQLNGLINNAG 91
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 73.8 bits (182), Expect = 2e-15
Identities = 37/110 (33%), Positives = 56/110 (50%), Gaps = 11/110 (10%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
N+KV +TGASSGIG A A +L++ G ++ ++R N R + + L
Sbjct: 3 NSKVALVTGASSGIGRATAEKLARAGYRVFGTSR---NPARAAPI--------PGVELLE 51
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
LDVT + D VI + G +D+L+NNAG A E+ + + LF
Sbjct: 52 LDVTDDASVQAAVDEVIARAGRIDVLVNNAGVGLAGAAEESSIAQAQALF 101
Score = 71.1 bits (175), Expect = 1e-14
Identities = 37/112 (33%), Positives = 55/112 (49%), Gaps = 3/112 (2%)
Query: 151 RELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 210
R A P + L LDVT + D VI + G +D+L+NNAG A E+ +
Sbjct: 36 RNPARAAPIPGVELLELDVTDDASVQAAVDEVIARAGRIDVLVNNAGVGLAGAAEESSIA 95
Query: 211 VDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVT-SSIAGIVGAPYSGSY 261
+ LF+ NVF +L ++R + R QG ++ SS+ G + APY Y
Sbjct: 96 QAQALFDTNVFGILRMTRAVLPHM--RAQGSGRIINISSVLGFLPAPYMALY 145
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 72.9 bits (180), Expect = 2e-15
Identities = 34/111 (30%), Positives = 51/111 (45%), Gaps = 12/111 (10%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNL-ERVKNLCVQAGAHPQSIYT 102
KV +TGAS GIG A+A +L+ GA +V++ SS E + G
Sbjct: 3 LEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGALG---GKALA 59
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDI 145
+ DV+ + R D +FG +DIL+NNAG R + W+ +
Sbjct: 60 VQGDVSDAESVERAVDEAKAEFGGVDILVNNAGITRDNLLMRMKEEDWDRV 110
Score = 42.5 bits (101), Expect = 8e-05
Identities = 25/102 (24%), Positives = 47/102 (46%), Gaps = 17/102 (16%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDIELEVDRELFELN 219
DV+ + R D +FG +DIL+NNAG R + W+ + + N
Sbjct: 63 DVSDAESVERAVDEAKAEFGGVDILVNNAGITRDNLLMRMKEEDWDRV--------IDTN 114
Query: 220 VFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ V +L++ + + + G ++ SS+ G++G P +Y
Sbjct: 115 LTGVFNLTKAVARPMMKQ-RSGRIINISSVVGLMGNPGQANY 155
>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 = 72.7 bits (179), Expect = 2e-15
Identities = 35/106 (33%), Positives = 54/106 (50%), Gaps = 3/106 (2%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V ITGASSGIG ALA + +K G + L+AR +R+ L + S+ LDVT
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAAR---RTDRLDELKAELLNPNPSVEVEILDVT 57
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
+ ++ + + G LD++I NAG + + D+ + RE
Sbjct: 58 DEERNQLVIAELEAELGGLDLVIINAGVGKGTSLGDLSFKAFRETI 103
Score = 58.9 bits (143), Expect = 2e-10
Identities = 30/102 (29%), Positives = 53/102 (51%), Gaps = 1/102 (0%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELN 219
PS+ LDVT + ++ + + G LD++I NAG + + D+ + RE + N
Sbjct: 47 PSVEVEILDVTDEERNQLVIAELEAELGGLDLVIINAGVGKGTSLGDLSFKAFRETIDTN 106
Query: 220 VFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ ++ A F A+ + GHLV+ SS+A + G P + +Y
Sbjct: 107 LLGAAAILEAALPQFRAKGR-GHLVLISSVAALRGLPGAAAY 147
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 73.1 bits (180), Expect = 3e-15
Identities = 35/109 (32%), Positives = 49/109 (44%), Gaps = 3/109 (2%)
Query: 154 FTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDR 213
Y + L LDVT + ++ FG LDI++NNAG E++ R
Sbjct: 43 LAEKYGDRLLPLALDVTDRAAVFAAVETAVEHFGRLDIVVNNAGYGLFGMIEEVTESEAR 102
Query: 214 ELFELNVFSVLSLSRIATSYFLAREQG-GHLVVTSSIAGIVGAPYSGSY 261
+ N F L +++ Y REQ GH++ SSI GI P SG Y
Sbjct: 103 AQIDTNFFGALWVTQAVLPYL--REQRSGHIIQISSIGGISAFPMSGIY 149
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 72.6 bits (179), Expect = 3e-15
Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 2/92 (2%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
++++ +TGA GIG AL ++ GA ++L R+ LE V + AG +I L
Sbjct: 11 KDRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGGPQPAIIPLD 70
Query: 105 LDVTQTKYHRRCFDAVI-QQFGCLDILINNAG 135
L T T + + I +QFG LD +++NAG
Sbjct: 71 LL-TATPQNYQQLADTIEEQFGRLDGVLHNAG 101
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 72.7 bits (179), Expect = 4e-15
Identities = 41/117 (35%), Positives = 58/117 (49%), Gaps = 10/117 (8%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F KVV +TGA+ GIG +AL+ + GA++VL RS E V + + A L
Sbjct: 6 FAGKVVVVTGAAQGIGRGVALRAAAEGARVVLVDRS----ELVHEVAAELRAAGGEALAL 61
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA------AWEDIELEVDRELF 154
T D+ + A ++ FG +D+LINN G + A E IE E+ R LF
Sbjct: 62 TADLETYAGAQAAMAAAVEAFGRIDVLINNVGGTIWAKPFEEYEEEQIEAEIRRSLF 118
Score = 51.1 bits (123), Expect = 1e-07
Identities = 36/105 (34%), Positives = 48/105 (45%), Gaps = 14/105 (13%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA------AWEDIELEVDRELFE 217
LT D+ + A ++ FG +D+LINN G + A E IE E+ R L
Sbjct: 60 ALTADLETYAGAQAAMAAAVEAFGRIDVLINNVGGTIWAKPFEEYEEEQIEAEIRRSL-- 117
Query: 218 LNVFSVLSLSRIATSYFLAREQGGHLVVTSSIA--GIVGAPYSGS 260
F L R + LA+ GG +V SSIA GI PYS +
Sbjct: 118 ---FPTLWCCRAVLPHMLAQ-GGGAIVNVSSIATRGINRVPYSAA 158
>gnl|CDD|187594 cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase (BKR),
involved in Type II FAS, classical (c) SDRs. This
subgroup includes the Escherichai coli K12 BKR, FabG.
BKR catalyzes the NADPH-dependent reduction of ACP in
the first reductive step of de novo fatty acid synthesis
(FAS). FAS consists of four elongation steps, which are
repeated to extend the fatty acid chain through the
addition of two-carbo units from malonyl acyl-carrier
protein (ACP): condensation, reduction, dehydration, and
a final reduction. Type II FAS, typical of plants and
many bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 240
Score = 72.2 bits (178), Expect = 4e-15
Identities = 33/89 (37%), Positives = 48/89 (53%), Gaps = 3/89 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TGAS GIG A+AL+L+ GAK+ ++ RS E + A + L D
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDRSE---EAAAETVEEIKALGGNAAALEAD 57
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
V+ + + V +FG +DIL+NNAG
Sbjct: 58 VSDREAVEALVEKVEAEFGPVDILVNNAG 86
>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 = 71.9 bits (177), Expect = 6e-15
Identities = 40/109 (36%), Positives = 57/109 (52%), Gaps = 5/109 (4%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLS-ARSSSNLERVKNLCVQAGAHPQSIYTL 103
KV +TGAS GIG A+A +L++ GA +V++ A S + E V AG ++
Sbjct: 2 AGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIEAAGGKAIAVQA- 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI-ELEVDR 151
DV+ R FDA + FG +DIL+NNAG + + E E DR
Sbjct: 61 --DVSDPSQVARLFDAAEKAFGGVDILVNNAGVMLKKPIAETSEEEFDR 107
Score = 55.7 bits (135), Expect = 3e-09
Identities = 30/102 (29%), Positives = 45/102 (44%), Gaps = 17/102 (16%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI-ELEVDRELFELNVFSVLSL 226
DV+ R FDA + FG +DIL+NNAG + + E E DR +F +N
Sbjct: 61 DVSDPSQVARLFDAAEKAFGGVDILVNNAGVMLKKPIAETSEEEFDR-MFTVNT------ 113
Query: 227 SRIATSYFLARE------QGGHLVVTSSIAGIVGAPYSGSYT 262
++F+ +E GG ++ SS P G+Y
Sbjct: 114 ---KGAFFVLQEAAKRLRDGGRIINISSSLTAAYTPNYGAYA 152
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 71.8 bits (177), Expect = 6e-15
Identities = 33/91 (36%), Positives = 51/91 (56%), Gaps = 3/91 (3%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
KV +TGA+SGIG +AL L+K GAK+V++ + +AG ++I +
Sbjct: 3 KGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQKAGG--KAIG-VA 59
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+DVT + D ++ FG +DIL+NNAG
Sbjct: 60 MDVTDEEAINAGIDYAVETFGGVDILVNNAG 90
Score = 43.7 bits (104), Expect = 3e-05
Identities = 27/94 (28%), Positives = 45/94 (47%), Gaps = 5/94 (5%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DVT + D ++ FG +DIL+NNAG A ED E +++ + + +
Sbjct: 61 DVTDEEAINAGIDYAVETFGGVDILVNNAGIQHVAPIEDFPTEKWKKMIAIMLDGAFLTT 120
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIVG----APY 257
+ A A+ GG ++ +S+ G+VG A Y
Sbjct: 121 KAALPIMKAQ-GGGRIINMASVHGLVGSAGKAAY 153
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 73.7 bits (182), Expect = 7e-15
Identities = 44/215 (20%), Positives = 71/215 (33%), Gaps = 66/215 (30%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TGA+ GIG+A A +L GA
Sbjct: 423 KVALVTGAAGGIGKATAKRL------------------------AAEGAC---------- 448
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLT 166
V+ D+ + ++ AA E +
Sbjct: 449 -------------VV----LADL---DEEAAEAAAAE------------LGGPDRALGVA 476
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
DVT + F+ FG +DI+++NAG + E+ E R F++N +
Sbjct: 477 CDVTDEAAVQAAFEEAALAFGGVDIVVSNAGIAISGPIEETSDEDWRRSFDVNATGHFLV 536
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+R A A+ GG +V +S + P G+Y
Sbjct: 537 AREAVRIMKAQGLGGSIVFIASKNAVNPGPNFGAY 571
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 71.5 bits (176), Expect = 8e-15
Identities = 26/104 (25%), Positives = 48/104 (46%), Gaps = 3/104 (2%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
K +TGA+ G+G A A L++ GA + + ++ + AG + +
Sbjct: 6 AGKRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEAAGGR---AHAIA 62
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
D+ +R FDA G LD L+NNAG + + +++++
Sbjct: 63 ADLADPASVQRFFDAAAAALGGLDGLVNNAGITNSKSATELDID 106
Score = 51.1 bits (123), Expect = 1e-07
Identities = 26/99 (26%), Positives = 45/99 (45%), Gaps = 1/99 (1%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
+ D+ +R FDA G LD L+NNAG + + +++++ + +NV
Sbjct: 60 AIAADLADPASVQRFFDAAAAALGGLDGLVNNAGITNSKSATELDIDTWDAVMNVNVRGT 119
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+ R A + L G +V +S + GAP G+Y
Sbjct: 120 FLMLRAALPH-LRDSGRGRIVNLASDTALWGAPKLGAYV 157
>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 = 71.6 bits (176), Expect = 9e-15
Identities = 39/113 (34%), Positives = 60/113 (53%), Gaps = 22/113 (19%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLER----------VKNLCVQAGA 95
KV +TGASSGIG+A+A++L+ GA +V++ RS + K + VQA
Sbjct: 3 GKVALVTGASSGIGKAIAIRLATAGANVVVNYRSKEDAAEEVVEEIKAVGGKAIAVQA-- 60
Query: 96 HPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DV++ + F + I++FG LDIL+NNAG A+ ++ LE
Sbjct: 61 ----------DVSKEEDVVALFQSAIKEFGTLDILVNNAGLQGDASSHEMTLE 103
Score = 45.1 bits (107), Expect = 1e-05
Identities = 26/92 (28%), Positives = 48/92 (52%), Gaps = 2/92 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV++ + F + I++FG LDIL+NNAG A+ ++ LE ++ ++N+ +
Sbjct: 61 DVSKEEDVVALFQSAIKEFGTLDILVNNAGLQGDASSHEMTLEDWNKVIDVNLTGQFLCA 120
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIVGAPYSG 259
R A F + G ++ SS+ + P+ G
Sbjct: 121 REAIKRFRKSKIKGKIINMSSVHEKI--PWPG 150
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 71.3 bits (175), Expect = 2e-14
Identities = 42/117 (35%), Positives = 56/117 (47%), Gaps = 30/117 (25%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAG----AHP----- 97
K + +TGASSGIGEA A Q ++ GA +V AR L+ V + +AG A P
Sbjct: 41 KRILLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRITRAGGDAMAVPCDLSD 100
Query: 98 -QSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA-------WEDIE 146
++ L DV ++ G +DILINNAGRS R W D+E
Sbjct: 101 LDAVDALVADVE-------------KRIGGVDILINNAGRSIRRPLAESLDRWHDVE 144
Score = 39.7 bits (93), Expect = 9e-04
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 13/74 (17%)
Query: 182 VIQQFGCLDILINNAGRSQRAA-------WEDIELEVDRELFELNVFSVLSLSRIATSYF 234
V ++ G +DILINNAGRS R W D+E LN ++ L L R
Sbjct: 111 VEKRIGGVDILINNAGRSIRRPLAESLDRWHDVE-----RTMVLNYYAPLRLIRGLAPGM 165
Query: 235 LAREQGGHLVVTSS 248
L R GH++ ++
Sbjct: 166 LERGD-GHIINVAT 178
>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 = 70.5 bits (173), Expect = 2e-14
Identities = 42/124 (33%), Positives = 63/124 (50%), Gaps = 23/124 (18%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSN------------LERVKNLCVQ 92
+ KV ++TGAS GIG A+AL+L+K GA +V++A+++S +E
Sbjct: 2 SGKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIEA 61
Query: 93 AG--AHPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVD 150
AG A P + +DV R +A + QFG LDIL+NNAG A W + +
Sbjct: 62 AGGQALP-----IVVDVRDEDQVRALVEATVDQFGRLDILVNNAG----AIWLSLVEDTP 112
Query: 151 RELF 154
+ F
Sbjct: 113 AKRF 116
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 70.4 bits (173), Expect = 3e-14
Identities = 42/113 (37%), Positives = 62/113 (54%), Gaps = 8/113 (7%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAH--PQSIYT 102
N K+ +TGASSG G L+L+K G ++ + R N E+ +NL QA Q+I
Sbjct: 2 NKKIAIVTGASSGFGLLTTLELAKKGYLVIATMR---NPEKQENLLSQATQLNLQQNIKV 58
Query: 103 LTLDVT-QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
LDVT Q H F V+++ G +D+L+NNAG + E+I +E R+ F
Sbjct: 59 QQLDVTDQNSIHN--FQLVLKEIGRIDLLVNNAGYANGGFVEEIPVEEYRKQF 109
Score = 66.6 bits (163), Expect = 7e-13
Identities = 36/102 (35%), Positives = 58/102 (56%), Gaps = 4/102 (3%)
Query: 161 SIYTLTLDVT-QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELN 219
+I LDVT Q H F V+++ G +D+L+NNAG + E+I +E R+ FE N
Sbjct: 55 NIKVQQLDVTDQNSIHN--FQLVLKEIGRIDLLVNNAGYANGGFVEEIPVEEYRKQFETN 112
Query: 220 VFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
VF +S+++ Y + +++ G ++ SSI+G VG P Y
Sbjct: 113 VFGAISVTQAVLPY-MRKQKSGKIINISSISGRVGFPGLSPY 153
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 69.8 bits (171), Expect = 4e-14
Identities = 34/94 (36%), Positives = 47/94 (50%), Gaps = 3/94 (3%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQT 110
+TG+S GIG ALA L++ GA+++L+ R + L S + L DVT
Sbjct: 15 VTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAE---SLKGQGLSAHALAFDVTDH 71
Query: 111 KYHRRCFDAVIQQFGCLDILINNAGRSQRAAWED 144
R DA + G +DIL+NNAG R ED
Sbjct: 72 DAVRAAIDAFEAEIGPIDILVNNAGMQFRTPLED 105
Score = 52.1 bits (125), Expect = 5e-08
Identities = 34/105 (32%), Positives = 49/105 (46%), Gaps = 7/105 (6%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
S + L DVT R DA + G +DIL+NNAG R ED + L N+
Sbjct: 60 SAHALAFDVTDHDAVRAAIDAFEAEIGPIDILVNNAGMQFRTPLEDFPADAFERLLRTNI 119
Query: 221 FSVLSLSRIATSYFLAREQGGHL---VVTSSIA--GIVGAPYSGS 260
SV + + + +AR G + V S++A GI APY+ +
Sbjct: 120 SSVFYVGQAVARHMIARGAGKIINIASVQSALARPGI--APYTAT 162
>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 = 68.9 bits (169), Expect = 5e-14
Identities = 41/107 (38%), Positives = 60/107 (56%), Gaps = 3/107 (2%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDV 107
VV ITGASSGIG A AL ++ GAK+VL+ARS+ L + + G ++I + DV
Sbjct: 2 VVVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRELGG--EAIAVVA-DV 58
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
R D +++FG +D +NNAG + +ED+ E R +F
Sbjct: 59 ADAAQVERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPEEFRRVF 105
Score = 45.5 bits (108), Expect = 8e-06
Identities = 27/94 (28%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV R D +++FG +D +NNAG + +ED+ E R +F++N + +
Sbjct: 57 DVADAAQVERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPEEFRRVFDVNYLGHVYGT 116
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
A + R GG L+ S+ G AP +Y
Sbjct: 117 LAALPHLRRR-GGGALINVGSLLGYRSAPLQAAY 149
>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 = 69.3 bits (170), Expect = 5e-14
Identities = 55/225 (24%), Positives = 76/225 (33%), Gaps = 79/225 (35%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV ITG +SGIG A A L K GAK+ + R N +QA + D
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAILDR---NENPGAAAELQAINPKVKATFVQCD 57
Query: 107 VT----QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAW-EDIELEVDRELFTYAYRPS 161
VT F I++FG +DILINNAG ++ +L E
Sbjct: 58 VTSWEQLAAA----FKKAIEKFGRVDILINNAGILDEKSYLFAGKLPPPWE--------- 104
Query: 162 IYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVF 221
T+DV N+
Sbjct: 105 ---KTIDV-------------------------------------------------NLT 112
Query: 222 SVLSLSRIATSYFLAREQG--GHLVVTSSIAGIVGAP----YSGS 260
V++ + +A Y + G G +V S+AG+ AP YS S
Sbjct: 113 GVINTTYLALHYMDKNKGGKGGVIVNIGSVAGLYPAPQFPVYSAS 157
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 69.3 bits (170), Expect = 6e-14
Identities = 37/105 (35%), Positives = 53/105 (50%), Gaps = 6/105 (5%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+ KV +TG +SGIG A+A + GA++ L RS E V V A + L
Sbjct: 13 LSGKVAVVTGGASGIGHAIAELFAAKGARVALLDRS----EDVAE--VAAQLLGGNAKGL 66
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DV+ ++ AVI FG +DIL+N+AG + A ED+ E
Sbjct: 67 VCDVSDSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAEDVSEE 111
Score = 45.4 bits (108), Expect = 8e-06
Identities = 28/91 (30%), Positives = 49/91 (53%), Gaps = 3/91 (3%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEV-DRELFELNVFSV 223
L DV+ ++ AVI FG +DIL+N+AG + A ED+ E D+ + ++N+
Sbjct: 66 LVCDVSDSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAEDVSEEDWDKTI-DINLKGS 124
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVG 254
+++ + +A GG +V +S AG+V
Sbjct: 125 FLMAQAVGRHMIAA-GGGKIVNLASQAGVVA 154
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 69.0 bits (169), Expect = 7e-14
Identities = 48/218 (22%), Positives = 79/218 (36%), Gaps = 70/218 (32%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKN-LCVQAGAHPQSIYTL 103
+ + ITGAS GIG A+A + GA +++ AR + L + ++ L + ++ L
Sbjct: 8 DGQTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPERE--VHGL 65
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIY 163
DV+ + R D V + L IL+NNAG + R A
Sbjct: 66 AADVSDDEDRRAILDWVEDHWDGLHILVNNAGGNIRKA---------------------- 103
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
+D T+ ++ + + N+FS
Sbjct: 104 --AIDYTEDEW-----RGIFE---------------------------------TNLFSA 123
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIV----GAPY 257
LSR A L + +V S++G+ GAPY
Sbjct: 124 FELSRYAHP-LLKQHASSAIVNIGSVSGLTHVRSGAPY 160
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 68.9 bits (169), Expect = 8e-14
Identities = 32/105 (30%), Positives = 46/105 (43%), Gaps = 6/105 (5%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
K V ITGAS GIG A A + G L L AR + LE + AH +
Sbjct: 5 LAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADL--RAAHGVDVAVH 62
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
LD++ + + + G +DIL+NNAG +D++
Sbjct: 63 ALDLSSP----EAREQLAAEAGDIDILVNNAGAIPGGGLDDVDDA 103
Score = 40.4 bits (95), Expect = 4e-04
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 180 DAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQ 239
+ + + G +DIL+NNAG +D++ R +EL VF + L+R+A AR
Sbjct: 73 EQLAAEAGDIDILVNNAGAIPGGGLDDVDDAAWRAGWELKVFGYIDLTRLAYPRMKARGS 132
Query: 240 G 240
G
Sbjct: 133 G 133
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 69.6 bits (171), Expect = 1e-13
Identities = 36/114 (31%), Positives = 55/114 (48%), Gaps = 5/114 (4%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+VV ITGAS+G+G A A ++ GAK+VL AR LE + AG ++
Sbjct: 7 GRQVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRAAGGEALAVVA-- 64
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF--TY 156
DV + + D ++ G +D +NNA + +ED+ E R + TY
Sbjct: 65 -DVADAEAVQAAADRAEEELGPIDTWVNNAMVTVFGPFEDVTPEEFRRVTEVTY 117
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 68.4 bits (168), Expect = 1e-13
Identities = 38/108 (35%), Positives = 52/108 (48%), Gaps = 7/108 (6%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ-SIYTLTLDV 107
V+ITGASSGIG+ALA + ++ GA L L AR + L+ + + S+Y DV
Sbjct: 5 VFITGASSGIGQALAREYARQGATLGLVARRTDALQA---FAARLPKAARVSVY--AADV 59
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE-LEVDRELF 154
I G D++I NAG S E+ E L V RE+
Sbjct: 60 RDADALAAAAADFIAAHGLPDVVIANAGISVGTLTEEREDLAVFREVM 107
Score = 51.5 bits (124), Expect = 8e-08
Identities = 36/110 (32%), Positives = 51/110 (46%), Gaps = 12/110 (10%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE-LEVDREL 215
A R S+Y DV I G D++I NAG S E+ E L V RE+
Sbjct: 49 AARVSVYAA--DVRDADALAAAAADFIAAHGLPDVVIANAGISVGTLTEEREDLAVFREV 106
Query: 216 FELNVFSVLSLSRIAT-SYFLA---REQGGHLVVTSSIAGIVGAPYSGSY 261
+ N F ++ AT F+A + G LV +S+AG+ G P +G+Y
Sbjct: 107 MDTNYFGMV-----ATFQPFIAPMRAARRGTLVGIASVAGVRGLPGAGAY 151
>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 = 68.3 bits (167), Expect = 1e-13
Identities = 30/93 (32%), Positives = 47/93 (50%), Gaps = 2/93 (2%)
Query: 43 YFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYT 102
+ +V +TGAS GIG A+A L + G K+V AR +E + C AG +++
Sbjct: 3 RWRGRVALVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQSAGY--PTLFP 60
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D++ + F A+ Q +D+ INNAG
Sbjct: 61 YQCDLSNEEQILSMFSAIRTQHQGVDVCINNAG 93
Score = 48.3 bits (115), Expect = 9e-07
Identities = 24/105 (22%), Positives = 49/105 (46%), Gaps = 3/105 (2%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELN 219
P+++ D++ + F A+ Q +D+ INNAG ++ + E +E+F++N
Sbjct: 56 PTLFPYQCDLSNEEQILSMFSAIRTQHQGVDVCINNAGLARPEPLLSGKTEGWKEMFDVN 115
Query: 220 VFSVLSLSRIATSYFLARE-QGGHLVVTSSIAG--IVGAPYSGSY 261
V ++ +R A R GH++ +S++G + Y
Sbjct: 116 VLALSICTREAYQSMKERNVDDGHIININSMSGHRVPPVSVFHFY 160
>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 = 67.7 bits (166), Expect = 1e-13
Identities = 37/114 (32%), Positives = 57/114 (50%), Gaps = 11/114 (9%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
N V+ ITG +SGIG ALA + + G ++++ R L K P +I+T+
Sbjct: 5 GNTVL-ITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAK------KELP-NIHTIV 56
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG--RSQRAAWEDIELE-VDRELFT 155
LDV + +A++ ++ LDILINNAG R +L+ D E+ T
Sbjct: 57 LDVGDAESVEALAEALLSEYPNLDILINNAGIQRPIDLRDPASDLDKADTEIDT 110
Score = 41.9 bits (99), Expect = 1e-04
Identities = 25/106 (23%), Positives = 48/106 (45%), Gaps = 5/106 (4%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG--RSQRAAWEDIELEVDRELFE 217
P+I+T+ LDV + +A++ ++ LDILINNAG R +L+ +
Sbjct: 50 PNIHTIVLDVGDAESVEALAEALLSEYPNLDILINNAGIQRPIDLRDPASDLDKADTEID 109
Query: 218 LNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGI--VGAP-YSGS 260
N+ + L + + + + + V+S +A + P Y +
Sbjct: 110 TNLIGPIRLIKAFLPHLKKQPEATIVNVSSGLAFVPMAANPVYCAT 155
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 67.8 bits (166), Expect = 2e-13
Identities = 31/89 (34%), Positives = 52/89 (58%), Gaps = 3/89 (3%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KVV ITG SSG+G+A+A + ++ GA +V++ R+ LE K Q + T+ +
Sbjct: 1 EKVVIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQFPGQ---VLTVQM 57
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNA 134
DV + ++ + + ++FG +D LINNA
Sbjct: 58 DVRNPEDVQKMVEQIDEKFGRIDALINNA 86
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 67.3 bits (165), Expect = 2e-13
Identities = 58/225 (25%), Positives = 83/225 (36%), Gaps = 84/225 (37%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAH--PQSIYTLT 104
K + ITGA SG G +AL+L++ G V AG PQ + L
Sbjct: 3 KTILITGAGSGFGREVALRLARKGH------------------NVIAGVQIAPQ-VTALR 43
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYT 164
+ + G + R D+ +DR
Sbjct: 44 AEAAR------------------------RGLALRVEKLDLTDAIDRA----------QA 69
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
DV D+L+NNAG + A DI +E+ RELFE NVF L
Sbjct: 70 AEWDV--------------------DVLLNNAGIGEAGAVVDIPVELVRELFETNVFGPL 109
Query: 225 SLSRIATSYFLA---REQGGHLVVTSSIAGIVGAPYSGSY--TDH 264
L T F+ G +V TSS+AG++ P++G+Y + H
Sbjct: 110 EL----TQGFVRKMVARGKGKVVFTSSMAGLITGPFTGAYCASKH 150
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 67.5 bits (165), Expect = 3e-13
Identities = 28/102 (27%), Positives = 61/102 (59%), Gaps = 6/102 (5%)
Query: 41 LNYFN--NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ 98
+++F+ KV +TG ++G+G+ A+ L+K GA ++++ +N + + L + G +
Sbjct: 8 MDFFSLDGKVAIVTGGNTGLGQGYAVALAKAGADIIITT-HGTNWDETRRLIEKEG---R 63
Query: 99 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA 140
+ + +D+T+ + + +++FG +DIL+NNAG +RA
Sbjct: 64 KVTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNAGTIRRA 105
>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 = 66.1 bits (162), Expect = 6e-13
Identities = 30/88 (34%), Positives = 46/88 (52%), Gaps = 3/88 (3%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDV 107
+V ITG SGIG LAL+ +K GAK+V+ + E N +AG ++ DV
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAGG---KVHYYKCDV 57
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAG 135
++ + + ++ G + ILINNAG
Sbjct: 58 SKREEVYEAAKKIKKEVGDVTILINNAG 85
Score = 47.2 bits (113), Expect = 2e-06
Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 9/107 (8%)
Query: 159 RPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFEL 218
++ DV++ + + ++ G + ILINNAG ++ E + FE+
Sbjct: 47 GGKVHYYKCDVSKREEVYEAAKKIKKEVGDVTILINNAGVVSGKKLLELPDEEIEKTFEV 106
Query: 219 NVFSVLSLSRIATSYFL----AREQGGHLVVTSSIAGIVGAPYSGSY 261
N + T FL R GH+V +S+AG++ Y
Sbjct: 107 NTLAHFWT----TKAFLPDMLERNH-GHIVTIASVAGLISPAGLADY 148
>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 = 66.1 bits (162), Expect = 7e-13
Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 4/93 (4%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQ-AGAHPQSIYT 102
KV +ITG +GIG+A+A ++ GA + ++ R E ++ + + A +
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIAGR---KPEVLEAAAEEISSATGGRAHP 57
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ DV + D +++FG +DILINNA
Sbjct: 58 IQCDVRDPEAVEAAVDETLKEFGKIDILINNAA 90
Score = 30.6 bits (70), Expect = 0.62
Identities = 19/97 (19%), Positives = 44/97 (45%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
+ + DV + D +++FG +DILINNA + A E + + + ++++
Sbjct: 54 RAHPIQCDVRDPEAVEAAVDETLKEFGKIDILINNAAGNFLAPAESLSPNGFKTVIDIDL 113
Query: 221 FSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPY 257
+ ++ + + GG ++ S+ G+P+
Sbjct: 114 NGTFNTTKAVGKRLIEAKHGGSILNISATYAYTGSPF 150
>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 = 66.0 bits (161), Expect = 7e-13
Identities = 35/89 (39%), Positives = 47/89 (52%), Gaps = 3/89 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TGASSGIGEA A L+ GA + ++AR LE + + G L LD
Sbjct: 4 KVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEAEGGK---ALVLELD 60
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
VT + + ++ G LDIL+NNAG
Sbjct: 61 VTDEQQVDAAVERTVEALGRLDILVNNAG 89
Score = 50.2 bits (120), Expect = 2e-07
Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 1/97 (1%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
L LDVT + + ++ G LDIL+NNAG ED + + + N+ ++
Sbjct: 57 LELDVTDEQQVDAAVERTVEALGRLDILVNNAGIMLLGPVEDADTTDWTRMIDTNLLGLM 116
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ A + L R + G +V SS+AG V S Y
Sbjct: 117 YTTHAALPHHLLRNK-GTIVNISSVAGRVAVRNSAVY 152
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 66.2 bits (162), Expect = 8e-13
Identities = 34/112 (30%), Positives = 53/112 (47%), Gaps = 8/112 (7%)
Query: 39 KRLNYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ 98
L + V +TG +SGIG A+A ++ GA++ + S + L A P
Sbjct: 4 DLLKPLDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAAT------AARLPG 57
Query: 99 SIYTLTL-DVTQTKYHRRCFDAVIQQFGCLDILINNAG-RSQRAAWEDIELE 148
+ T T+ DV R FD +++FG LD+L+NNAG ++I E
Sbjct: 58 AKVTATVADVADPAQVERVFDTAVERFGGLDVLVNNAGIAGPTGGIDEITPE 109
Score = 57.4 bits (139), Expect = 8e-10
Identities = 28/90 (31%), Positives = 43/90 (47%), Gaps = 1/90 (1%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG-RSQRAAWEDIELEVDRELFELNVFSVLSL 226
DV R FD +++FG LD+L+NNAG ++I E + +N+
Sbjct: 66 DVADPAQVERVFDTAVERFGGLDVLVNNAGIAGPTGGIDEITPEQWEQTLAVNLNGQFYF 125
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAP 256
+R A A GG ++ SS+AG +G P
Sbjct: 126 ARAAVPLLKASGHGGVIIALSSVAGRLGYP 155
>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 = 65.7 bits (161), Expect = 8e-13
Identities = 30/87 (34%), Positives = 52/87 (59%), Gaps = 2/87 (2%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
+TGAS GIG A+AL+L+K GAK++++ RSS E + + + A+ + DV+
Sbjct: 1 ALVTGASRGIGRAIALKLAKEGAKVIITYRSSE--EGAEEVVEELKAYGVKALGVVCDVS 58
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAG 135
+ + + + ++ G +DIL+NNAG
Sbjct: 59 DREDVKAVVEEIEEELGPIDILVNNAG 85
>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 = 65.6 bits (160), Expect = 8e-13
Identities = 33/89 (37%), Positives = 41/89 (46%), Gaps = 6/89 (6%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K +TGAS GIGEA A L G ++ + AR + L G L D
Sbjct: 1 KAALVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQ-ELEGVLG-----LAGD 54
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
V RR DA+ + FG LD L+NNAG
Sbjct: 55 VRDEADVRRAVDAMEEAFGGLDALVNNAG 83
Score = 52.5 bits (126), Expect = 4e-08
Identities = 33/106 (31%), Positives = 45/106 (42%), Gaps = 5/106 (4%)
Query: 159 RPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFEL 218
+ L DV RR DA+ + FG LD L+NNAG E++ E R + +
Sbjct: 45 LEGVLGLAGDVRDEADVRRAVDAMEEAFGGLDALVNNAGVGVMKPVEELTPEEWRLVLDT 104
Query: 219 NVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIV----GAPYSGS 260
N+ A L R GG +V S+AG GA Y+ S
Sbjct: 105 NLTGAFYCIHKAAPALLRR-GGGTIVNVGSLAGKNAFKGGAAYNAS 149
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 66.2 bits (162), Expect = 8e-13
Identities = 38/116 (32%), Positives = 57/116 (49%), Gaps = 9/116 (7%)
Query: 39 KRLNYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ 98
RL KV +TGA+SGIGEA+A + GA++V++ R + ++ G
Sbjct: 2 MRLQ---GKVALLTGAASGIGEAVAERYLAEGARVVIADI---KPARARLAALEIGPA-- 53
Query: 99 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
++LDVT+ R A +++FG +DIL NNA A DI + LF
Sbjct: 54 -AIAVSLDVTRQDSIDRIVAAAVERFGGIDILFNNAALFDMAPILDISRDSYDRLF 108
Score = 58.1 bits (141), Expect = 4e-10
Identities = 34/123 (27%), Positives = 54/123 (43%), Gaps = 1/123 (0%)
Query: 139 RAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGR 198
R DI+ R P+ ++LDVT+ R A +++FG +DIL NNA
Sbjct: 32 RVVIADIKPARARLAAL-EIGPAAIAVSLDVTRQDSIDRIVAAAVERFGGIDILFNNAAL 90
Query: 199 SQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYS 258
A DI + LF +NV + L + + + + +GG ++ +S AG G
Sbjct: 91 FDMAPILDISRDSYDRLFAVNVKGLFFLMQAVARHMVEQGRGGKIINMASQAGRRGEALV 150
Query: 259 GSY 261
Y
Sbjct: 151 SHY 153
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 66.1 bits (162), Expect = 8e-13
Identities = 35/104 (33%), Positives = 51/104 (49%), Gaps = 7/104 (6%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAG--AHPQSIYTLT 104
K +TG S G+G +A L + GA++VLSAR + LE G A +
Sbjct: 13 KTALVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEALGIDALW-----IA 67
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DV R + +++FG +DIL+NNAG + A ED +E
Sbjct: 68 ADVADEADIERLAEETLERFGHVDILVNNAGATWGAPAEDHPVE 111
Score = 55.7 bits (135), Expect = 3e-09
Identities = 29/90 (32%), Positives = 48/90 (53%), Gaps = 2/90 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV R + +++FG +DIL+NNAG + A ED +E ++ LNV + LS
Sbjct: 69 DVADEADIERLAEETLERFGHVDILVNNAGATWGAPAEDHPVEAWDKVMNLNVRGLFLLS 128
Query: 228 R-IATSYFLAREQGGHLVVTSSIAGIVGAP 256
+ +A + R G ++ +S+AG+ G P
Sbjct: 129 QAVAKRSMIPR-GYGRIINVASVAGLGGNP 157
>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 = 65.7 bits (161), Expect = 1e-12
Identities = 31/100 (31%), Positives = 50/100 (50%), Gaps = 1/100 (1%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KVV ITGA+SGIG+ A +L+K GA ++++ R+ E + + + LD
Sbjct: 2 KVVVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKET-GNAKVEVIQLD 60
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE 146
++ R+ + + +F LDILINNAG +
Sbjct: 61 LSSLASVRQFAEEFLARFPRLDILINNAGIMAPPRRLTKD 100
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 65.7 bits (161), Expect = 1e-12
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 3/92 (3%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
KV ITG +G A+A +L++ GAK+ + R+ E V AG ++
Sbjct: 8 LKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKAAGGEALAVKAD 67
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
LD + R +++ FG DILIN AG
Sbjct: 68 VLDKESLEQAR---QQILEDFGPCDILINGAG 96
Score = 31.4 bits (72), Expect = 0.37
Identities = 27/114 (23%), Positives = 46/114 (40%), Gaps = 25/114 (21%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA----WEDIELEVDRELFELNV-- 220
LD + R +++ FG DILIN AG + A +E + F+L+
Sbjct: 69 LDKESLEQAR---QQILEDFGPCDILINGAGGNHPKATTDNEFHELIEPTKTFFDLDEEG 125
Query: 221 F-SVLSLSRIATSY----F---LAREQGGHLVVTSSIAG------IVGAPYSGS 260
F V L+ + T F + +GG+++ SS+ + YS +
Sbjct: 126 FEFVFDLNLLGTLLPTQVFAKDMVGRKGGNIINISSMNAFTPLTKVPA--YSAA 177
>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 = 65.7 bits (160), Expect = 1e-12
Identities = 35/122 (28%), Positives = 57/122 (46%), Gaps = 6/122 (4%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+ K ITG++ GIG A A + GA++ ++ NLE + + G +
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIA---DINLEAARATAAEIGPAA---CAI 54
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIY 163
+LDVT RC A++ ++G +DIL+NNA A DI E LF +++
Sbjct: 55 SLDVTDQASIDRCVAALVDRWGSIDILVNNAALFDLAPIVDITRESYDRLFAINVSGTLF 114
Query: 164 TL 165
+
Sbjct: 115 MM 116
Score = 59.6 bits (144), Expect = 1e-10
Identities = 40/123 (32%), Positives = 58/123 (47%), Gaps = 1/123 (0%)
Query: 139 RAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGR 198
R A DI LE R P+ ++LDVT RC A++ ++G +DIL+NNA
Sbjct: 29 RVAIADINLEAARAT-AAEIGPAACAISLDVTDQASIDRCVAALVDRWGSIDILVNNAAL 87
Query: 199 SQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYS 258
A DI E LF +NV L + + +A+ +GG ++ +S AG G
Sbjct: 88 FDLAPIVDITRESYDRLFAINVSGTLFMMQAVARAMIAQGRGGKIINMASQAGRRGEALV 147
Query: 259 GSY 261
G Y
Sbjct: 148 GVY 150
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 65.4 bits (160), Expect = 1e-12
Identities = 33/111 (29%), Positives = 45/111 (40%), Gaps = 12/111 (10%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ-SIYTLTL 105
+V +TG SSGIG A L + GA + + R L + P +
Sbjct: 9 RVAVVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARL--REKFPGARLLAARC 66
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRS--------QRAAWEDIELE 148
DV AV +FG +D+L+NNAG+ AW D ELE
Sbjct: 67 DVLDEADVAAFAAAVEARFGGVDMLVNNAGQGRVSTFADTTDDAWRD-ELE 116
Score = 52.7 bits (127), Expect = 4e-08
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 14/102 (13%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
+ DV AV +FG +D+L+NNAG+ + + + D + R+ EL
Sbjct: 60 RLLAARCDVLDEADVAAFAAAVEARFGGVDMLVNNAGQGRVSTFADTTDDAWRDELELKY 119
Query: 221 FSVLSLSR--------------IATSYFLAREQGGHLVVTSS 248
FSV++ +R + + LA + H+V TS+
Sbjct: 120 FSVINPTRAFLPLLRASAAASIVCVNSLLALQPEPHMVATSA 161
>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 = 65.1 bits (159), Expect = 2e-12
Identities = 36/98 (36%), Positives = 48/98 (48%), Gaps = 3/98 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K +TGA+SGIG A+A L+ GA +V++ E + AG IY L D
Sbjct: 2 KTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDAGGSV--IY-LPAD 58
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWED 144
VT+ A +FG LDIL+NNAG A E+
Sbjct: 59 VTKEDEIADMIAAAAAEFGGLDILVNNAGIQHVAPIEE 96
>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 = 64.3 bits (157), Expect = 2e-12
Identities = 28/108 (25%), Positives = 50/108 (46%), Gaps = 7/108 (6%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TGAS GIG +A L++ G ++ L R+ +L + +G +++ D
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSLGLRNPEDLAALS----ASGGDVEAVP---YD 53
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
+ R DA+ +FG +D+L++NAG + + F
Sbjct: 54 ARDPEDARALVDALRDRFGRIDVLVHNAGIGRPTTLREGSDAELEAHF 101
Score = 60.1 bits (146), Expect = 8e-11
Identities = 25/108 (23%), Positives = 44/108 (40%), Gaps = 3/108 (2%)
Query: 155 TYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRE 214
A + + D + R DA+ +FG +D+L++NAG + +
Sbjct: 40 LSASGGDVEAVPYDARDPEDARALVDALRDRFGRIDVLVHNAGIGRPTTLREGSDAELEA 99
Query: 215 LFELNVFSVLSLSRIATSYFLAREQG-GHLVVTSSIAGIVGAPYSGSY 261
F +NV + L+R RE G G +V +S++G + Y
Sbjct: 100 HFSINVIAPAELTRALLPAL--REAGSGRVVFLNSLSGKRVLAGNAGY 145
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 65.5 bits (160), Expect = 2e-12
Identities = 36/104 (34%), Positives = 51/104 (49%), Gaps = 3/104 (2%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+ VV ITGASSGIG+A A ++ GA+LVL+AR L+ V C GA + T
Sbjct: 6 HGAVVVITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRALGAEVLVVPT-- 63
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DVT + G +D+ +NN G +E+ +E
Sbjct: 64 -DVTDADQVKALATQAASFGGRIDVWVNNVGVGAVGRFEETPIE 106
Score = 33.5 bits (77), Expect = 0.093
Identities = 21/96 (21%), Positives = 39/96 (40%), Gaps = 3/96 (3%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DVT + G +D+ +NN G +E+ +E ++ + N+ + +
Sbjct: 64 DVTDADQVKALATQAASFGGRIDVWVNNVGVGAVGRFEETPIEAHEQVIQTNLIGYMRDA 123
Query: 228 RIATSYFLAREQG-GHLVVTSSIAGIVGAPYSGSYT 262
A F QG G + S+ G PY+ +Y+
Sbjct: 124 HAALPIFKK--QGHGIFINMISLGGFAAQPYAAAYS 157
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 64.4 bits (157), Expect = 3e-12
Identities = 35/102 (34%), Positives = 56/102 (54%), Gaps = 3/102 (2%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
KV +TGASSG+G A L++ GAK+VL++R +ER+K L + A + + +
Sbjct: 7 LEGKVALVTGASSGLGARFAQVLAQAGAKVVLASRR---VERLKELRAEIEAEGGAAHVV 63
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI 145
+LDVT + + + G +DIL+NN+G S D+
Sbjct: 64 SLDVTDYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKLVDV 105
Score = 29.0 bits (65), Expect = 2.5
Identities = 25/104 (24%), Positives = 46/104 (44%), Gaps = 7/104 (6%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
++LDVT + + + G +DIL+NN+G S D+ +F+ N
Sbjct: 63 VSLDVTDYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKLVDVTPADFDFVFDTNTRGAF 122
Query: 225 SLSRIATSYFLAREQG-------GHLVVTSSIAGIVGAPYSGSY 261
+++ +AR +G G ++ +S+AG+ P G Y
Sbjct: 123 FVAQEVAKRMIARAKGAGNTKPGGRIINIASVAGLRVLPQIGLY 166
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 64.0 bits (156), Expect = 4e-12
Identities = 36/92 (39%), Positives = 50/92 (54%), Gaps = 12/92 (13%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F+ K V +TGASSGIG A A+ L++ GA++V +AR+++ L+R L + G P L
Sbjct: 7 FSGKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDR---LAGETGCEP-----L 58
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
LDV R A G D L+N AG
Sbjct: 59 RLDVGDDAAIRAALAA----AGAFDGLVNCAG 86
Score = 35.5 bits (82), Expect = 0.016
Identities = 27/98 (27%), Positives = 40/98 (40%), Gaps = 4/98 (4%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
L LDV R A G D L+N AG + + D+ E + +N
Sbjct: 57 PLRLDVGDDAAIRAALAA----AGAFDGLVNCAGIASLESALDMTAEGFDRVMAVNARGA 112
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
++R +A +GG +V SS A +VG P +Y
Sbjct: 113 ALVARHVARAMIAAGRGGSIVNVSSQAALVGLPDHLAY 150
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 64.0 bits (156), Expect = 4e-12
Identities = 30/93 (32%), Positives = 45/93 (48%), Gaps = 4/93 (4%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+V +TGA SGIG A A ++ GA++V++ R + ERV G +
Sbjct: 4 AGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAAGG----RAFARQ 59
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRS 137
DV + D V ++G LD+L+NNAG
Sbjct: 60 GDVGSAEAVEALVDFVAARWGRLDVLVNNAGFG 92
Score = 43.2 bits (102), Expect = 4e-05
Identities = 24/94 (25%), Positives = 40/94 (42%), Gaps = 1/94 (1%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV + D V ++G LD+L+NNAG + + +NV V +
Sbjct: 61 DVGSAEAVEALVDFVAARWGRLDVLVNNAGFGCGGTVVTTDEADWDAVMRVNVGGVFLWA 120
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ A + R+ GG +V T+S + G +Y
Sbjct: 121 KYAIPI-MQRQGGGSIVNTASQLALAGGRGRAAY 153
>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 = 63.9 bits (156), Expect = 4e-12
Identities = 34/119 (28%), Positives = 55/119 (46%), Gaps = 2/119 (1%)
Query: 143 EDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA 202
E+ +E+ Y + DVT D +++FG D+++NNAG +
Sbjct: 37 EEAAKSTIQEISEAGYN--AVAVGADVTDKDDVEALIDQAVEKFGSFDVMVNNAGIAPIT 94
Query: 203 AWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
I E ++++ +NVF VL + A F GG ++ SSIAG+ G P G+Y
Sbjct: 95 PLLTITEEDLKKVYAVNVFGVLFGIQAAARQFKKLGHGGKIINASSIAGVQGFPNLGAY 153
Score = 58.9 bits (143), Expect = 2e-10
Identities = 30/92 (32%), Positives = 47/92 (51%), Gaps = 4/92 (4%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLER-VKNLCVQAGAHPQSIYTL 103
+KV ITGA+ GIG A+A +L+ G +VL + NLE K+ + + +
Sbjct: 1 MSKVAIITGAAQGIGRAIAERLAADGFNIVL---ADLNLEEAAKSTIQEISEAGYNAVAV 57
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DVT D +++FG D+++NNAG
Sbjct: 58 GADVTDKDDVEALIDQAVEKFGSFDVMVNNAG 89
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 64.2 bits (157), Expect = 5e-12
Identities = 28/90 (31%), Positives = 44/90 (48%), Gaps = 4/90 (4%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KVV +TGA+ GIG LA +L GAKL L + L + + T+
Sbjct: 9 GKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAEL----GGDDRVLTVVA 64
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DVT + + +++FG +D+++ NAG
Sbjct: 65 DVTDLAAMQAAAEEAVERFGGIDVVVANAG 94
Score = 39.6 bits (93), Expect = 0.001
Identities = 22/99 (22%), Positives = 47/99 (47%), Gaps = 2/99 (2%)
Query: 163 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFS 222
T+ DVT + + +++FG +D+++ NAG + + ++ + R + ++N+
Sbjct: 60 LTVVADVTDLAAMQAAAEEAVERFGGIDVVVANAGIASGGSVAQVDPDAFRRVIDVNLLG 119
Query: 223 VLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
V R + R G+++ SS+A AP +Y
Sbjct: 120 VFHTVRATLPALIER--RGYVLQVSSLAAFAAAPGMAAY 156
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 63.4 bits (155), Expect = 7e-12
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 3/88 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KVV ++G G+G LA++ ++ GA +VL+AR++ L+ V G ++ T D
Sbjct: 6 KVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEIDDLGRRALAVPT---D 62
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNA 134
+T +++FG +D L+NNA
Sbjct: 63 ITDEDQCANLVALALERFGRVDALVNNA 90
Score = 41.5 bits (98), Expect = 2e-04
Identities = 23/84 (27%), Positives = 37/84 (44%), Gaps = 2/84 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGR-SQRAAWEDIELEVDRELFELNVFSVLSL 226
D+T +++FG +D L+NNA R D + R + ELNV L L
Sbjct: 62 DITDEDQCANLVALALERFGRVDALVNNAFRVPSMKPLADADFAHWRAVIELNVLGTLRL 121
Query: 227 SRIATSYFLAREQGGHLVVTSSIA 250
++ T LA G +++ S +
Sbjct: 122 TQAFTPA-LAESGGSIVMINSMVL 144
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 63.6 bits (155), Expect = 7e-12
Identities = 34/105 (32%), Positives = 52/105 (49%), Gaps = 4/105 (3%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSS-SNLERVKNLCVQAGAHPQSIYTL 103
KVV ITG S+G+G A+A++ K AK+V++ RS V +AG ++
Sbjct: 6 EGKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIKKAGGEAIAVKG- 64
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DVT +++FG LD++INNAG ++ LE
Sbjct: 65 --DVTVESDVVNLIQTAVKEFGTLDVMINNAGIENAVPSHEMSLE 107
Score = 42.8 bits (101), Expect = 8e-05
Identities = 22/83 (26%), Positives = 39/83 (46%)
Query: 180 DAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQ 239
+++FG LD++INNAG ++ LE ++ N+ SR A YF+ +
Sbjct: 77 QTAVKEFGTLDVMINNAGIENAVPSHEMSLEDWNKVINTNLTGAFLGSREAIKYFVEHDI 136
Query: 240 GGHLVVTSSIAGIVGAPYSGSYT 262
G+++ SS+ + P Y
Sbjct: 137 KGNIINMSSVHEQIPWPLFVHYA 159
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 63.1 bits (153), Expect = 7e-12
Identities = 33/92 (35%), Positives = 54/92 (58%), Gaps = 2/92 (2%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
N KV +TG + GIG+A+ + L++ GAK+V++ SS E +NL + G +Y +
Sbjct: 4 LNGKVAIVTGGAKGIGKAITVALAQEGAKVVINYNSSK--EAAENLVNELGKEGHDVYAV 61
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV++ + R + + FG +DIL+NNAG
Sbjct: 62 QADVSKVEDANRLVEEAVNHFGKVDILVNNAG 93
Score = 48.8 bits (116), Expect = 7e-07
Identities = 25/93 (26%), Positives = 47/93 (50%), Gaps = 1/93 (1%)
Query: 162 IYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVF 221
+Y + DV++ + R + + FG +DIL+NNAG ++ ++ + E + ++N+
Sbjct: 58 VYAVQADVSKVEDANRLVEEAVNHFGKVDILVNNAGITRDRTFKKLNREDWERVIDVNLS 117
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAGIVG 254
SV + + Y E G ++ SSI G G
Sbjct: 118 SVFNTTSAVLPYITEAE-EGRIISISSIIGQAG 149
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 63.0 bits (154), Expect = 1e-11
Identities = 35/110 (31%), Positives = 45/110 (40%), Gaps = 6/110 (5%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+ K ITG SSG G ALA G ++V + RS + + L HP
Sbjct: 3 SMKTWLITGVSSGFGRALAQAALAAGHRVVGTVRSEAARADFEAL------HPDRALARL 56
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
LDVT FG +D+L+NNAG A E+ L R F
Sbjct: 57 LDVTDFDAIDAVVADAEATFGPIDVLVNNAGYGHEGAIEESPLAEMRRQF 106
Score = 61.5 bits (150), Expect = 4e-11
Identities = 31/97 (31%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
LDVT FG +D+L+NNAG A E+ L R FE+NVF +
Sbjct: 55 RLLDVTDFDAIDAVVADAEATFGPIDVLVNNAGYGHEGAIEESPLAEMRRQFEVNVFGAV 114
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
++++ AR + GH+V +S+ G++ P G Y
Sbjct: 115 AMTKAVLPGMRARRR-GHIVNITSMGGLITMPGIGYY 150
>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 = 62.9 bits (153), Expect = 1e-11
Identities = 34/103 (33%), Positives = 48/103 (46%), Gaps = 3/103 (2%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
NKV ITG + +G A+A L++ GAK+ R N E+ + + A L
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGR---NQEKGDKVAKEITALGGRAIAL 59
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE 146
DV R + ++ QFG +DILIN AG + A D E
Sbjct: 60 AADVLDRASLERAREEIVAQFGTVDILINGAGGNHPDATTDPE 102
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 62.7 bits (153), Expect = 1e-11
Identities = 29/105 (27%), Positives = 45/105 (42%), Gaps = 13/105 (12%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
KV +TG ++ IG A+A L GA++ + + N V A + + +
Sbjct: 5 AGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAV------AASLGERARFIA 58
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG-------RSQRAAW 142
D+T R V+ +FG +DIL+N A S RA W
Sbjct: 59 TDITDDAAIERAVATVVARFGRVDILVNLACTYLDDGLASSRADW 103
Score = 41.5 bits (98), Expect = 2e-04
Identities = 27/95 (28%), Positives = 41/95 (43%), Gaps = 17/95 (17%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG-------RSQRAAWEDIELEVDRELFELNV 220
D+T R V+ +FG +DIL+N A S RA W ++N+
Sbjct: 60 DITDDAAIERAVATVVARFGRVDILVNLACTYLDDGLASSRADW--------LAALDVNL 111
Query: 221 FSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGA 255
S L++ A + LAR GG +V +SI+
Sbjct: 112 VSAAMLAQAAHPH-LAR-GGGAIVNFTSISAKFAQ 144
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 62.4 bits (152), Expect = 1e-11
Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 1/98 (1%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
L D+ + F + + G LDIL+NN G R +++ R L E ++ + +
Sbjct: 65 LAFDIADEEAVAAAFARIDAEHGRLDILVNNVGARDRRPLAELDDAAIRALLETDLVAPI 124
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
LSR+A + R+ G ++ +SIAG V Y
Sbjct: 125 LLSRLAAQR-MKRQGYGRIIAITSIAGQVARAGDAVYP 161
Score = 59.0 bits (143), Expect = 3e-10
Identities = 28/108 (25%), Positives = 52/108 (48%), Gaps = 3/108 (2%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+V +TG++ G+G +A L+ GA ++++ R+++ LE AG ++ L
Sbjct: 11 GQVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAAGGAAEA---LAF 67
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDREL 153
D+ + F + + G LDIL+NN G R +++ R L
Sbjct: 68 DIADEEAVAAAFARIDAEHGRLDILVNNVGARDRRPLAELDDAAIRAL 115
>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 = 62.1 bits (151), Expect = 2e-11
Identities = 31/104 (29%), Positives = 48/104 (46%), Gaps = 1/104 (0%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
KV +TG++SGIG +A L+ GA +VL+ + + A + +Y
Sbjct: 1 KGKVALVTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEAVRAGLAAKHGVKVLY-HG 59
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
D+++ +QFG +DIL+NNAG A ED E
Sbjct: 60 ADLSKPAAIEDMVAYAQRQFGGVDILVNNAGIQHVAPIEDFPTE 103
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 62.0 bits (151), Expect = 3e-11
Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KV +TGA+ GIG A+A ++ GA + L+ ++ ER + + +
Sbjct: 7 GKVALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAA-AIARDVAGARVLAVPA 65
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGR 136
DVT A + FG LD+L+NNAG
Sbjct: 66 DVTDAASVAAAVAAAEEAFGPLDVLVNNAGI 96
Score = 31.2 bits (71), Expect = 0.40
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGR 198
DVT A + FG LD+L+NNAG
Sbjct: 66 DVTDAASVAAAVAAAEEAFGPLDVLVNNAGI 96
>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 = 61.7 bits (150), Expect = 3e-11
Identities = 32/100 (32%), Positives = 59/100 (59%), Gaps = 5/100 (5%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
KV +TGA++G+G+ +A+ L++ GA +V + RS + + Q A + +LT
Sbjct: 4 EGKVALVTGANTGLGQGIAVGLAEAGADIVGAGRSEPSETQQ-----QVEALGRRFLSLT 58
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWED 144
D++ + + D+ +++FG +DIL+NNAG +RA E+
Sbjct: 59 ADLSDIEAIKALVDSAVEEFGHIDILVNNAGIIRRADAEE 98
Score = 52.8 bits (127), Expect = 3e-08
Identities = 30/100 (30%), Positives = 57/100 (57%)
Query: 163 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFS 222
+LT D++ + + D+ +++FG +DIL+NNAG +RA E+ + ++ +N+ S
Sbjct: 55 LSLTADLSDIEAIKALVDSAVEEFGHIDILVNNAGIIRRADAEEFSEKDWDDVMNVNLKS 114
Query: 223 VLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
V L++ A +FL + +GG ++ +S+ G SYT
Sbjct: 115 VFFLTQAAAKHFLKQGRGGKIINIASMLSFQGGIRVPSYT 154
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 61.4 bits (149), Expect = 3e-11
Identities = 32/107 (29%), Positives = 48/107 (44%), Gaps = 5/107 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K ITGA GIGE +A ++ GA L+L S + LC G ++ D
Sbjct: 7 KTALITGALQGIGEGIARVFARHGANLILLDISPEIEKLADELC-GRGHRCTAV---VAD 62
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDREL 153
V ++ G +DIL+NNAG + ++ D+ E DR+
Sbjct: 63 VRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDE-DRDF 108
Score = 45.6 bits (108), Expect = 9e-06
Identities = 32/123 (26%), Positives = 60/123 (48%), Gaps = 9/123 (7%)
Query: 144 DIELEVDR---ELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQ 200
DI E+++ EL +R + DV ++ G +DIL+NNAG +
Sbjct: 37 DISPEIEKLADELCGRGHR--CTAVVADVRDPASVAAAIKRAKEKEGRIDILVNNAGVCR 94
Query: 201 RAAWEDIELEVDREL-FELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAG-IVGAPYS 258
++ D+ E DR+ ++N+ V ++++ +AR + G +V+ SS+ G +V P
Sbjct: 95 LGSFLDMSDE-DRDFHIDINIKGVWNVTKAVLPEMIAR-KDGRIVMMSSVTGDMVADPGE 152
Query: 259 GSY 261
+Y
Sbjct: 153 TAY 155
>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 = 61.2 bits (149), Expect = 4e-11
Identities = 37/113 (32%), Positives = 48/113 (42%), Gaps = 6/113 (5%)
Query: 42 NYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIY 101
N KV +TG + G+G A A L GAK+VLS E + + G + +
Sbjct: 1 NRLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDI---LDEEGQAAAAELGD--AARF 55
Query: 102 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
LDVT D + FG LD+L+NNAG E LE R L
Sbjct: 56 -FHLDVTDEDGWTAVVDTAREAFGRLDVLVNNAGILTGGTVETTTLEEWRRLL 107
Score = 56.6 bits (137), Expect = 1e-09
Identities = 33/99 (33%), Positives = 46/99 (46%), Gaps = 7/99 (7%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
LDVT D + FG LD+L+NNAG E LE R L ++N+ V
Sbjct: 58 LDVTDEDGWTAVVDTAREAFGRLDVLVNNAGILTGGTVETTTLEEWRRLLDINLTGVF-- 115
Query: 227 SRIATSYFLA--REQG-GHLVVTSSIAGIVGAPYSGSYT 262
+ T + +E G G ++ SSI G+VG P +Y
Sbjct: 116 --LGTRAVIPPMKEAGGGSIINMSSIEGLVGDPALAAYN 152
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 60.9 bits (148), Expect = 5e-11
Identities = 31/92 (33%), Positives = 51/92 (55%), Gaps = 3/92 (3%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F+ KV +TG ++GIG A AL ++ GAK+V++ R ++ E L +AG ++++
Sbjct: 5 FSGKVALVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREAGG--EALFVA 62
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DVT+ + + I +G LD NNAG
Sbjct: 63 C-DVTRDAEVKALVEQTIAAYGRLDYAFNNAG 93
Score = 42.0 bits (99), Expect = 1e-04
Identities = 31/97 (31%), Positives = 43/97 (44%), Gaps = 4/97 (4%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG--RSQRAAWEDIELEVDRELFELNVFSVLS 225
DVT+ + + I +G LD NNAG Q E E E D + +NV V
Sbjct: 64 DVTRDAEVKALVEQTIAAYGRLDYAFNNAGIEIEQGRLAEGSEAEFDA-IMGVNVKGVWL 122
Query: 226 LSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+ LA + GG +V T+S+AG+ AP Y
Sbjct: 123 CMKYQIPLMLA-QGGGAIVNTASVAGLGAAPKMSIYA 158
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 60.9 bits (148), Expect = 5e-11
Identities = 36/110 (32%), Positives = 53/110 (48%), Gaps = 5/110 (4%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNL-ERVKNLCVQAGAHPQSIYTLT 104
NKV +TGAS GIG A+A +L+ G + ++ S+ + + AG ++
Sbjct: 5 NKVAIVTGASRGIGAAIARRLAADGFAVAVNYAGSAAAADELVAEIEAAGGRAIAVQA-- 62
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEV-DREL 153
DV R FDA FG +D+L+NNAG D +LE DR +
Sbjct: 63 -DVADAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADFDLEDFDRTI 111
Score = 39.3 bits (92), Expect = 0.001
Identities = 27/97 (27%), Positives = 42/97 (43%), Gaps = 7/97 (7%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV R FDA FG +D+L+NNAG D +LE N+ +
Sbjct: 63 DVADAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADFDLEDFDRTIATNLRGAFVVL 122
Query: 228 RIATSYFLAREQGGHLV-VTSSIAGIV---GAPYSGS 260
R A + QGG ++ +++S+ + PY+ S
Sbjct: 123 REAARHL---GQGGRIINLSTSVIALPLPGYGPYAAS 156
>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 = 60.9 bits (148), Expect = 5e-11
Identities = 41/127 (32%), Positives = 63/127 (49%), Gaps = 12/127 (9%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KV +TGA SG GE +A + ++ GA++V++ ++ ERV A ++ +
Sbjct: 5 GKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAERV------AADIGEAAIAIQA 58
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYR---PSI 162
DVT+ +A + +FG LDIL+NNAG + R LEVD E F + SI
Sbjct: 59 DVTKRADVEAMVEAALSKFGRLDILVNNAGITHRNK---PMLEVDEEEFDRVFAVNVKSI 115
Query: 163 YTLTLDV 169
Y +
Sbjct: 116 YLSAQAL 122
Score = 43.1 bits (102), Expect = 5e-05
Identities = 28/95 (29%), Positives = 49/95 (51%), Gaps = 4/95 (4%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQR-AAWEDI-ELEVDRELFE 217
+ + DVT+ +A + +FG LDIL+NNAG + R ++ E E DR +F
Sbjct: 51 EAAIAIQADVTKRADVEAMVEAALSKFGRLDILVNNAGITHRNKPMLEVDEEEFDR-VFA 109
Query: 218 LNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGI 252
+NV S+ ++ + + GG ++ +S AG+
Sbjct: 110 VNVKSIYLSAQALVPHMEEQ-GGGVIINIASTAGL 143
>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 = 60.9 bits (148), Expect = 6e-11
Identities = 32/102 (31%), Positives = 55/102 (53%), Gaps = 4/102 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TG +SGIG A+A +L+ GA +V++ E+V A P+++ + D
Sbjct: 2 KVALVTGGASGIGLAIAKRLAAEGAAVVVADIDPEIAEKVAE---AAQGGPRAL-GVQCD 57
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
VT + F+ + +FG LDI+++NAG + + + LE
Sbjct: 58 VTSEAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAETSLE 99
Score = 54.3 bits (131), Expect = 8e-09
Identities = 31/122 (25%), Positives = 56/122 (45%), Gaps = 5/122 (4%)
Query: 144 DIELEVDRELFTYAY-RPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA 202
DI+ E+ ++ A P + DVT + F+ + +FG LDI+++NAG + +
Sbjct: 32 DIDPEIAEKVAEAAQGGPRALGVQCDVTSEAQVQSAFEQAVLEFGGLDIVVSNAGIATSS 91
Query: 203 AWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSS----IAGIVGAPYS 258
+ LE ++N+ +SR A ++ GG++V +S G A YS
Sbjct: 92 PIAETSLEDWNRSMDINLTGHFLVSREAFRIMKSQGIGGNIVFNASKNAVAPGPNAAAYS 151
Query: 259 GS 260
+
Sbjct: 152 AA 153
>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 = 60.8 bits (148), Expect = 7e-11
Identities = 34/122 (27%), Positives = 58/122 (47%), Gaps = 8/122 (6%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARS--SSNLERVKNLCVQAGAHPQSIYTL 103
K ITG SGIG A+A+ ++ GA + ++ + E K L + G + +
Sbjct: 26 GKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLIEEEG---RKCLLI 82
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIY 163
D+ + R V+++FG LDIL+NNA E IE ++ E +R +I+
Sbjct: 83 PGDLGDESFCRDLVKEVVKEFGKLDILVNNAAYQHPQ--ESIE-DITTEQLEKTFRTNIF 139
Query: 164 TL 165
++
Sbjct: 140 SM 141
Score = 56.9 bits (138), Expect = 1e-09
Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 4/96 (4%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA-AWEDIELEVDRELFELNVFSVLSL 226
D+ + R V+++FG LDIL+NNA + EDI E + F N+FS+ L
Sbjct: 85 DLGDESFCRDLVKEVVKEFGKLDILVNNAAYQHPQESIEDITTEQLEKTFRTNIFSMFYL 144
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
++ A + ++G ++ T+S+ G+P+ Y
Sbjct: 145 TKAALPHL---KKGSSIINTTSVTAYKGSPHLLDYA 177
>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 = 60.2 bits (146), Expect = 8e-11
Identities = 32/108 (29%), Positives = 54/108 (50%), Gaps = 30/108 (27%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ---SI 100
K ++ITGAS GIG+A+AL+ ++ GA +V++A++ A HP+ +I
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIAAKT-------------AEPHPKLPGTI 47
Query: 101 YT--------------LTLDVTQTKYHRRCFDAVIQQFGCLDILINNA 134
YT +D+ R + +++FG +DIL+NNA
Sbjct: 48 YTAAEEIEAAGGKALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNA 95
Score = 28.6 bits (64), Expect = 2.8
Identities = 8/17 (47%), Positives = 14/17 (82%)
Query: 180 DAVIQQFGCLDILINNA 196
+ +++FG +DIL+NNA
Sbjct: 79 EKAVEKFGGIDILVNNA 95
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 60.4 bits (147), Expect = 8e-11
Identities = 30/90 (33%), Positives = 50/90 (55%), Gaps = 3/90 (3%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
K+ +TGAS GIGEA+A L++ GA +++S+R + V + V AG +++
Sbjct: 8 GKIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVAAGGKAEALACHIG 67
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
++ Q F + ++ G LDIL+NNA
Sbjct: 68 EMEQID---ALFAHIRERHGRLDILVNNAA 94
Score = 38.1 bits (89), Expect = 0.002
Identities = 24/86 (27%), Positives = 43/86 (50%), Gaps = 4/86 (4%)
Query: 179 FDAVIQQFGCLDILINNAGRS-QRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAR 237
F + ++ G LDIL+NNA + D +L ++ ++N+ +S A L +
Sbjct: 76 FAHIRERHGRLDILVNNAAANPYFGHILDTDLGAFQKTVDVNIRGYFFMSVEAGK--LMK 133
Query: 238 EQGGHLVV-TSSIAGIVGAPYSGSYT 262
EQGG +V +S+ G+ + G Y+
Sbjct: 134 EQGGGSIVNVASVNGVSPGDFQGIYS 159
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 60.0 bits (146), Expect = 1e-10
Identities = 29/92 (31%), Positives = 39/92 (42%), Gaps = 7/92 (7%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
KVV ITG + GIG A A L+ GA++ + + + P
Sbjct: 3 LRGKVVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAELGLVVGGP------ 56
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
LDVT DAV G +D+L+NNAG
Sbjct: 57 -LDVTDPASFAAFLDAVEADLGPIDVLVNNAG 87
Score = 58.4 bits (142), Expect = 4e-10
Identities = 32/100 (32%), Positives = 49/100 (49%), Gaps = 5/100 (5%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
LDVT DAV G +D+L+NNAG + D V R + ++NV+ V+
Sbjct: 55 GPLDVTDPASFAAFLDAVEADLGPIDVLVNNAGVMPVGPFLDEPDAVTRRILDVNVYGVI 114
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAP----YSGS 260
S++A + R + GH+V +S+AG + P Y S
Sbjct: 115 LGSKLAAPRMVPRGR-GHVVNVASLAGKIPVPGMATYCAS 153
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 60.8 bits (148), Expect = 1e-10
Identities = 32/93 (34%), Positives = 47/93 (50%), Gaps = 3/93 (3%)
Query: 43 YFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYT 102
F+ K+V +TGA SGIG AL ++ GA++V S + ER L AGA +
Sbjct: 312 PFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRAAGAVA---HA 368
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+DV+ + V + G DI++NNAG
Sbjct: 369 YRVDVSDADAMEAFAEWVRAEHGVPDIVVNNAG 401
Score = 39.2 bits (92), Expect = 0.001
Identities = 22/86 (25%), Positives = 39/86 (45%)
Query: 166 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLS 225
+DV+ + V + G DI++NNAG + D E + ++N++ V+
Sbjct: 370 RVDVSDADAMEAFAEWVRAEHGVPDIVVNNAGIGMAGGFLDTSAEDWDRVLDVNLWGVIH 429
Query: 226 LSRIATSYFLAREQGGHLVVTSSIAG 251
R+ + R GGH+V +S A
Sbjct: 430 GCRLFGRQMVERGTGGHIVNVASAAA 455
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 59.6 bits (145), Expect = 1e-10
Identities = 29/90 (32%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ-SIYTLTL 105
+ + ITGASSG+G +A + + G L L AR + LE +K + +P + L
Sbjct: 3 QKILITGASSGLGAGMAREFAAKGRDLALCARRTDRLEELKAELLA--RYPGIKVAVAAL 60
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV F + G LD +I NAG
Sbjct: 61 DVNDHDQVFEVFAEFRDELGGLDRVIVNAG 90
Score = 48.0 bits (115), Expect = 1e-06
Identities = 31/101 (30%), Positives = 44/101 (43%), Gaps = 8/101 (7%)
Query: 166 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLS 225
LDV F + G LD +I NAG + A + ++ E N + L+
Sbjct: 59 ALDVNDHDQVFEVFAEFRDELGGLDRVIVNAGIGKGARLGTGKFWANKATAETNFVAALA 118
Query: 226 LSRIATSYFLAREQG-GHLVVTSSIAGIVGAP-----YSGS 260
A F REQG GHLV+ SS++ + G P Y+ S
Sbjct: 119 QCEAAMEIF--REQGSGHLVLISSVSAVRGLPGVKAAYAAS 157
>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 = 58.8 bits (143), Expect = 2e-10
Identities = 34/90 (37%), Positives = 50/90 (55%), Gaps = 4/90 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGA-KLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KV +TGA+ GIG + QL+K G ++L+AR ++ER + + A S+ L
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVILTAR---DVERGQAAVEKLRAEGLSVRFHQL 57
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DVT D V +++G LDIL+NNAG
Sbjct: 58 DVTDDASIEAAADFVEEKYGGLDILVNNAG 87
Score = 51.5 bits (124), Expect = 6e-08
Identities = 31/109 (28%), Positives = 43/109 (39%), Gaps = 14/109 (12%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE-LEVDRELFELNVFSVLS 225
LDVT D V +++G LDIL+NNAG + + + E RE + N F
Sbjct: 57 LDVTDDASIEAAADFVEEKYGGLDILVNNAGIAFKGFDDSTPTREQARETMKTNFFGT-- 114
Query: 226 LSRIATSYF---LAREQGGHLVVTSSIAGIVGAPYSGS------YTDHL 265
T L + G +V SS G + + Y S T L
Sbjct: 115 --VDVTQALLPLLKKSPAGRIVNVSSGLGSLTSAYGVSKAALNALTRIL 161
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 59.5 bits (144), Expect = 2e-10
Identities = 31/95 (32%), Positives = 55/95 (57%), Gaps = 3/95 (3%)
Query: 41 LNYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSI 100
++ N K +TGA+SGIG+ +AL+L++ GA + ++ + V + +AG ++I
Sbjct: 2 MSNLNGKTAVVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEINKAGG--KAI 59
Query: 101 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ +DVT D V ++FG +DIL++NAG
Sbjct: 60 G-VAMDVTNEDAVNAGIDKVAERFGSVDILVSNAG 93
Score = 40.3 bits (94), Expect = 5e-04
Identities = 21/97 (21%), Positives = 44/97 (45%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
+ +DVT D V ++FG +DIL++NAG E+ +++ ++V
Sbjct: 61 VAMDVTNEDAVNAGIDKVAERFGSVDILVSNAGIQIVNPIENYSFADWKKMQAIHVDGAF 120
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
++ A + ++GG ++ S+ +P +Y
Sbjct: 121 LTTKAALKHMYKDDRGGVVIYMGSVHSHEASPLKSAY 157
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 59.3 bits (144), Expect = 2e-10
Identities = 32/110 (29%), Positives = 58/110 (52%), Gaps = 2/110 (1%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+V +T + SGIG+A AL L++ G + ++ S E K + +H L
Sbjct: 2 AQVAIVTASDSGIGKACALLLAQQGFDIGITWHSDE--EGAKETAEEVRSHGVRAEIRQL 59
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFT 155
D++ + D +IQ+ G +D+L+NNAG +A + D++ + R++FT
Sbjct: 60 DLSDLPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDMDFDEWRKIFT 109
Score = 47.0 bits (112), Expect = 3e-06
Identities = 27/96 (28%), Positives = 54/96 (56%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
LD++ + D +IQ+ G +D+L+NNAG +A + D++ + R++F ++V
Sbjct: 59 LDLSDLPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDMDFDEWRKIFTVDVDGAFLC 118
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
S+IA + + + QGG ++ +S+ P + +YT
Sbjct: 119 SQIAARHMVKQGQGGRIINITSVHEHTPLPGASAYT 154
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 59.2 bits (144), Expect = 2e-10
Identities = 30/108 (27%), Positives = 40/108 (37%), Gaps = 13/108 (12%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNL--ERVKNLCVQAGAHPQSIYTLT 104
KV ITG + IG A+A L G ++ + S+ L P S L
Sbjct: 7 KVALITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEADALAAELNAL---RPGSAAALQ 63
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNA--------GRSQRAAWED 144
D+ A + FG LD L+NNA G A W+D
Sbjct: 64 ADLLDPDALPELVAACVAAFGRLDALVNNASSFYPTPLGSITEAQWDD 111
Score = 36.4 bits (85), Expect = 0.007
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 17/69 (24%)
Query: 180 DAVIQQFGCLDILINNA--------GRSQRAAWEDIELEVDRELFELNVFSVLSLSRIAT 231
A + FG LD L+NNA G A W+D LF N+ + LS+ A
Sbjct: 77 AACVAAFGRLDALVNNASSFYPTPLGSITEAQWDD--------LFASNLKAPFFLSQAAA 128
Query: 232 SYFLAREQG 240
L +++G
Sbjct: 129 PQ-LRKQRG 136
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 60.3 bits (146), Expect = 2e-10
Identities = 32/106 (30%), Positives = 54/106 (50%), Gaps = 3/106 (2%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERV-KNLCVQAGAHPQSIYT 102
+V ++TG + GIG A +L+ GA +VL+ + E V + Q GA
Sbjct: 412 LARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQFGA--GRAVA 469
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
L +DVT + + F V +G +DI++NNAG + + +E+ L+
Sbjct: 470 LKMDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPFEETTLQ 515
Score = 50.2 bits (120), Expect = 5e-07
Identities = 22/97 (22%), Positives = 46/97 (47%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
L +DVT + + F V +G +DI++NNAG + + +E+ L+ + ++
Sbjct: 470 LKMDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPFEETTLQEWQLNLDILATGYF 529
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
++R A + GG++V +S + + +Y
Sbjct: 530 LVAREAFRQMREQGLGGNIVFIASKNAVYAGKNASAY 566
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 59.0 bits (143), Expect = 2e-10
Identities = 31/112 (27%), Positives = 54/112 (48%), Gaps = 7/112 (6%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAG--AHPQSIYTLT 104
+V +TGA G+G A+AL ++ GA ++++AR+ S L+ V AG AH +
Sbjct: 11 QVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAAGRRAHV-----VA 65
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTY 156
D+ + ++ FG LDI++NN G + + + FT+
Sbjct: 66 ADLAHPEATAGLAGQAVEAFGRLDIVVNNVGGTMPNPLLSTSTKDLADAFTF 117
Score = 46.7 bits (111), Expect = 3e-06
Identities = 20/82 (24%), Positives = 34/82 (41%)
Query: 180 DAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQ 239
++ FG LDI++NN G + + + F NV + +L+ A L
Sbjct: 79 GQAVEAFGRLDIVVNNVGGTMPNPLLSTSTKDLADAFTFNVATAHALTVAAVPLMLEHSG 138
Query: 240 GGHLVVTSSIAGIVGAPYSGSY 261
GG ++ SS G + +Y
Sbjct: 139 GGSVINISSTMGRLAGRGFAAY 160
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 57.6 bits (140), Expect = 3e-10
Identities = 29/105 (27%), Positives = 43/105 (40%), Gaps = 6/105 (5%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAK-LVLSARS--SSNLERVKNLCVQAGAHPQSIYTL 103
V ITG + G+G ALA L+ GA+ LVL +R + + GA +
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEALGAE---VTVA 57
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DV A+ G LD +++NAG E++ E
Sbjct: 58 ACDVADRDALAALLAALPAALGPLDGVVHNAGVLDDGPLEELTPE 102
Score = 55.6 bits (135), Expect = 1e-09
Identities = 22/102 (21%), Positives = 38/102 (37%), Gaps = 5/102 (4%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
+ DV A+ G LD +++NAG E++ E + V
Sbjct: 53 EVTVAACDVADRDALAALLAALPAALGPLDGVVHNAGVLDDGPLEELTPERFERVLAPKV 112
Query: 221 FSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+L + G V+ SS+AG++G+P +Y
Sbjct: 113 TGAWNLHEL-----TRDLDLGAFVLFSSVAGVLGSPGQANYA 149
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 58.8 bits (143), Expect = 3e-10
Identities = 36/113 (31%), Positives = 61/113 (53%), Gaps = 9/113 (7%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+KVV +TG +SGIG A++L+L++ GA V+ RS+ + E + L P++ + + +
Sbjct: 7 DKVVIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPDDEFAEEL---RALQPRAEF-VQV 62
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAY 158
D+T R + + +FG +D L+NNAG + LE RE F +
Sbjct: 63 DLTDDAQCRDAVEQTVAKFGRIDGLVNNAGVNDGVG-----LEAGREAFVASL 110
>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 = 58.6 bits (142), Expect = 3e-10
Identities = 26/92 (28%), Positives = 42/92 (45%), Gaps = 7/92 (7%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+ ITG +SGIG ALA + + G +++ R+ L K I+T
Sbjct: 3 TTGNTILITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKAEN-------PEIHTE 55
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV R + + +++ L++LINNAG
Sbjct: 56 VCDVADRDSRRELVEWLKKEYPNLNVLINNAG 87
Score = 37.4 bits (87), Expect = 0.004
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG--RSQRAAWEDIELEVDRE 214
A P I+T DV R + + +++ L++LINNAG R++ + L+ +
Sbjct: 47 AENPEIHTEVCDVADRDSRRELVEWLKKEYPNLNVLINNAGIQRNEDLTGAEDLLDDAEQ 106
Query: 215 LFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIA 250
N+ + + L+ + + L + + + V+S +A
Sbjct: 107 EIATNLLAPIRLTALLLPHLLRQPEATIINVSSGLA 142
>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 = 58.5 bits (142), Expect = 3e-10
Identities = 30/85 (35%), Positives = 49/85 (57%), Gaps = 4/85 (4%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNL-ERVKNLCVQAGAHPQSIYTLTLDVTQ 109
+TG S GIG+A+AL+L++ GA +V++ R S + V + G + DV+Q
Sbjct: 3 VTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEELGG---KAVVVRADVSQ 59
Query: 110 TKYHRRCFDAVIQQFGCLDILINNA 134
+ F AV ++FG LD+L++NA
Sbjct: 60 PQDVEEMFAAVKERFGRLDVLVSNA 84
Score = 45.4 bits (108), Expect = 1e-05
Identities = 21/91 (23%), Positives = 40/91 (43%), Gaps = 2/91 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV+Q + F AV ++FG LD+L++NA ++ N+ +++ +
Sbjct: 56 DVSQPQDVEEMFAAVKERFGRLDVLVSNAAAGAFRPLSELTPAHWDAKMNTNLKALVHCA 115
Query: 228 RIATSYFLAREQGGHLVVTSSI-AGIVGAPY 257
+ A + GG +V SS+ + Y
Sbjct: 116 QQAAKL-MRERGGGRIVAISSLGSIRALPNY 145
>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 = 58.7 bits (142), Expect = 3e-10
Identities = 35/92 (38%), Positives = 48/92 (52%), Gaps = 1/92 (1%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F +KVV ITG SG+G A A++L+K GAKL L + LE K + A + +
Sbjct: 1 FKDKVVLITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKA-ALLEIAPDAEVLLI 59
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV+ DA ++QFG +D NNAG
Sbjct: 60 KADVSDEAQVEAYVDATVEQFGRIDGFFNNAG 91
Score = 37.1 bits (86), Expect = 0.006
Identities = 27/88 (30%), Positives = 46/88 (52%), Gaps = 10/88 (11%)
Query: 180 DAVIQQFGCLDILINNAG-RSQRAAWEDIELEVDRELFELNVFSV-LSLSRIATSYFLAR 237
DA ++QFG +D NNAG ++ ED + ++ +N+ V L ++ + R
Sbjct: 74 DATVEQFGRIDGFFNNAGIEGKQNLTEDFGADEFDKVVSINLRGVFYGLEKVLK---VMR 130
Query: 238 EQG-GHLVVTSSIAGIVG----APYSGS 260
EQG G +V T+S+ GI G + Y+ +
Sbjct: 131 EQGSGMIVNTASVGGIRGVGNQSGYAAA 158
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 58.3 bits (141), Expect = 4e-10
Identities = 33/102 (32%), Positives = 54/102 (52%), Gaps = 7/102 (6%)
Query: 39 KRLNYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ 98
KRL NKV ITGAS+GIG+A A+ L++ GA VL+ + + + G +
Sbjct: 2 KRLE---NKVAVITGASTGIGQASAIALAQEGAY-VLAVDIAEAVSETVDKIKSNGGKAK 57
Query: 99 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA 140
+ + +D++ + + + +QFG +D+L NNAG A
Sbjct: 58 AYH---VDISDEQQVKDFASEIKEQFGRVDVLFNNAGVDNAA 96
Score = 35.5 bits (82), Expect = 0.016
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 7/98 (7%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
+D++ + + + +QFG +D+L NNAG A I E ++F+ + +V
Sbjct: 61 VDISDEQQVKDFASEIKEQFGRVDVLFNNAGVDNAAG--RIH-EYPVDVFD-KIMAVDMR 116
Query: 227 SRIATSYF---LAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ L EQGG ++ TSS +G Y Y
Sbjct: 117 GTFLMTKMLLPLMMEQGGSIINTSSFSGQAADLYRSGY 154
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 58.0 bits (141), Expect = 5e-10
Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 12/92 (13%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F+ K VW+TGA+ GIG A+AL + GAK++ ++ E T
Sbjct: 6 FSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGFDQAFLTQE------------DYPFATF 53
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
LDV+ + ++ + G LD+L+N AG
Sbjct: 54 VLDVSDAAAVAQVCQRLLAETGPLDVLVNAAG 85
Score = 40.3 bits (95), Expect = 4e-04
Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 1/90 (1%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
T LDV+ + ++ + G LD+L+N AG + A + + E ++ F +N
Sbjct: 52 TFVLDVSDAAAVAQVCQRLLAETGPLDVLVNAAGILRMGATDSLSDEDWQQTFAVNAGGA 111
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIV 253
+L R F + + G +V S A V
Sbjct: 112 FNLFRAVMPQFRRQ-RSGAIVTVGSNAAHV 140
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 57.8 bits (140), Expect = 5e-10
Identities = 28/92 (30%), Positives = 48/92 (52%), Gaps = 4/92 (4%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLS-ARSSSNLERVKNLCVQAGAHPQSIYT 102
F+ KV +TG+S GIG+A+AL+L++ G + ++ ARS E G
Sbjct: 2 FSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEALGR---KALA 58
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNA 134
+ +V + + F + ++FG LD+ +NNA
Sbjct: 59 VKANVGDVEKIKEMFAQIDEEFGRLDVFVNNA 90
Score = 30.8 bits (70), Expect = 0.49
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 179 FDAVIQQFGCLDILINNAGR-SQRAAWEDIELEVD--RELFELNVFSVLSLSRIATSYFL 235
F + ++FG LD+ +NNA R A +ELE +N ++L ++ A +
Sbjct: 73 FAQIDEEFGRLDVFVNNAASGVLRPA---MELEESHWDWTMNINAKALLFCAQEAAK-LM 128
Query: 236 AREQGGHLVVTSSIAGI 252
+ GG ++ SS+ I
Sbjct: 129 EKVGGGKIISLSSLGSI 145
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 57.9 bits (140), Expect = 6e-10
Identities = 32/98 (32%), Positives = 51/98 (52%), Gaps = 2/98 (2%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
+ LDV R + + + G LD+LINNAG D +E R FE NVF+V
Sbjct: 48 AVQLDVNDGAALARLAEELEAEHGGLDVLINNAGYGAMGPLLDGGVEAMRRQFETNVFAV 107
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ ++R + L R G +V S++G++ P++G+Y
Sbjct: 108 VGVTR--ALFPLLRRSRGLVVNIGSVSGVLVTPFAGAY 143
Score = 57.1 bits (138), Expect = 1e-09
Identities = 32/89 (35%), Positives = 44/89 (49%), Gaps = 9/89 (10%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
VV ITG SSGIG ALA G ++ +AR + ++E + AG + LD
Sbjct: 2 PVVLITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALA----AAG-----FTAVQLD 52
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
V R + + + G LD+LINNAG
Sbjct: 53 VNDGAALARLAEELEAEHGGLDVLINNAG 81
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 58.3 bits (141), Expect = 6e-10
Identities = 33/117 (28%), Positives = 57/117 (48%), Gaps = 8/117 (6%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLS--ARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
ITGA SGIG A A+ ++ GA + L+ + V L G + L D+
Sbjct: 60 ITGADSGIGRATAIAFAREGADIALNYLPEEEQDAAEVVQLIQAEG---RKAVALPGDLK 116
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTL 165
+ R+ + +++ G LDIL+N AG+ A +DI ++ E F ++ ++Y +
Sbjct: 117 DEAFCRQLVERAVKELGGLDILVNIAGKQT--AVKDIA-DITTEQFDATFKTNVYAM 170
Score = 39.8 bits (93), Expect = 8e-04
Identities = 31/126 (24%), Positives = 58/126 (46%), Gaps = 17/126 (13%)
Query: 128 DILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFG 187
DI +N ++ A E ++L R ++ L D+ + R+ + +++ G
Sbjct: 81 DIALNYLPEEEQDAAEVVQLIQA------EGRKAV-ALPGDLKDEAFCRQLVERAVKELG 133
Query: 188 CLDILINNAGRSQRAAWEDIELEVDRELFE----LNVFSVLSLSRIATSYFLAREQGGHL 243
LDIL+N AG+ A +DI ++ E F+ NV+++ L + A + G +
Sbjct: 134 GLDILVNIAGKQT--AVKDIA-DITTEQFDATFKTNVYAMFWLCKAAIPHLPP---GASI 187
Query: 244 VVTSSI 249
+ T SI
Sbjct: 188 INTGSI 193
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 57.7 bits (140), Expect = 6e-10
Identities = 30/100 (30%), Positives = 52/100 (52%), Gaps = 3/100 (3%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V ITGA+SG+G A+AL+ ++ G +L L+ + E L +AG + DV
Sbjct: 3 VMITGAASGLGRAIALRWAREGWRLALADVNEEGGEETLKLLREAGGDG---FYQRCDVR 59
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
A +++G +D+++NNAG + +E++ LE
Sbjct: 60 DYSQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLE 99
Score = 52.0 bits (125), Expect = 6e-08
Identities = 24/95 (25%), Positives = 45/95 (47%), Gaps = 3/95 (3%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV A +++G +D+++NNAG + +E++ LE +N+ V+
Sbjct: 57 DVRDYSQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLEDWDWQIAINLMGVVKGC 116
Query: 228 RIATSYFLAREQG-GHLVVTSSIAGIVGAPYSGSY 261
+ F + Q G +V +S+AG++ P SY
Sbjct: 117 KAFLPLF--KRQKSGRIVNIASMAGLMQGPAMSSY 149
>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 = 57.7 bits (140), Expect = 7e-10
Identities = 30/108 (27%), Positives = 57/108 (52%), Gaps = 7/108 (6%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQS-IYTL 103
+K++ ITGA+ IG+A L GA+L+L+ N ++ L + ++ + L
Sbjct: 1 EDKIILITGAAGLIGKAFCKALLSAGARLILADI---NAPALEQLKEELTNLYKNRVIAL 57
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG---RSQRAAWEDIELE 148
LD+T + + ++ +++FG +DILINNA + + +E+ E
Sbjct: 58 ELDITSKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPYE 105
Score = 44.2 bits (105), Expect = 2e-05
Identities = 23/94 (24%), Positives = 47/94 (50%), Gaps = 4/94 (4%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG---RSQRAAWEDIELEVDRELFELNVF 221
L LD+T + + ++ +++FG +DILINNA + + +E+ E E+ +N+
Sbjct: 57 LELDITSKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPYEQWNEVLNVNLG 116
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGA 255
S+ A ++ G ++ +SI G++
Sbjct: 117 GAFLCSQ-AFIKLFKKQGKGSIINIASIYGVIAP 149
>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 = 57.5 bits (139), Expect = 7e-10
Identities = 24/81 (29%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 183 IQQFGCLDILINNAG-RSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGG 241
++QFG LD+++ NAG S +WE + E + ++N+ V + + + R GG
Sbjct: 88 VEQFGRLDVVVANAGVLSYGRSWE-LSEEQWDTVLDINLTGVWRTCKAVVPHMIERGNGG 146
Query: 242 HLVVTSSIAGIVGAPYSGSYT 262
+++TSS+AG+ P Y
Sbjct: 147 SIIITSSVAGLKALPGLAHYA 167
Score = 40.6 bits (95), Expect = 4e-04
Identities = 30/111 (27%), Positives = 49/111 (44%), Gaps = 17/111 (15%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLV-------------LSARSSSNLERVKNLCVQA 93
KV +ITGA+ G G A A++L+ GA ++ + +L+ L
Sbjct: 4 KVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLVEAL 63
Query: 94 GAHPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG-RSQRAAWE 143
G + + DV R + ++QFG LD+++ NAG S +WE
Sbjct: 64 G---RKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYGRSWE 111
>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 = 57.2 bits (138), Expect = 1e-09
Identities = 33/104 (31%), Positives = 52/104 (50%), Gaps = 3/104 (2%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
++V +TGA+SGIG A+A +L K G ++ + AR L +AG T
Sbjct: 3 SEVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELREAGVEADG---RTC 59
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEV 149
DV A + ++G +D+L+NNAGRS A ++ E+
Sbjct: 60 DVRSVPEIEALVAAAVARYGPIDVLVNNAGRSGGGATAELADEL 103
Score = 46.8 bits (111), Expect = 4e-06
Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 5/101 (4%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
T DV A + ++G +D+L+NNAGRS A ++ E+ ++ E N+ V
Sbjct: 57 RTCDVRSVPEIEALVAAAVARYGPIDVLVNNAGRSGGGATAELADELWLDVVETNLTGVF 116
Query: 225 SLSRIATSYFLAREQG-GHLVVTSSIAG----IVGAPYSGS 260
+++ E+G G ++ +S G + APYS S
Sbjct: 117 RVTKEVLKAGGMLERGTGRIINIASTGGKQGVVHAAPYSAS 157
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 57.4 bits (139), Expect = 1e-09
Identities = 29/100 (29%), Positives = 47/100 (47%), Gaps = 5/100 (5%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K ++TGA+SGIG A AL+L+ GA+L L+ R + L + G LD
Sbjct: 1 KRCFVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARALGG--TVPEHRALD 58
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE 146
++ + G +D+++N AG S AW ++
Sbjct: 59 ISDYDAVAAFAADIHAAHGSMDVVMNIAGIS---AWGTVD 95
Score = 44.3 bits (105), Expect = 2e-05
Identities = 24/97 (24%), Positives = 45/97 (46%)
Query: 166 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLS 225
LD++ + G +D+++N AG S + + E R + ++N+ +
Sbjct: 56 ALDISDYDAVAAFAADIHAAHGSMDVVMNIAGISAWGTVDRLTHEQWRRMVDVNLMGPIH 115
Query: 226 LSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+ +A +GGHLV SS AG+V P+ +Y+
Sbjct: 116 VIETFVPPMVAAGRGGHLVNVSSAAGLVALPWHAAYS 152
>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 = 56.7 bits (137), Expect = 1e-09
Identities = 26/107 (24%), Positives = 46/107 (42%), Gaps = 10/107 (9%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
++ +TG GIG A+ +L+K G ++ A N ER + + GA + D
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVA--ANCGPNEERAEAWLQEQGALGFDFRVVEGD 58
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDI 145
V+ + + V + G +D+L+NNAG + W +
Sbjct: 59 VSSFESCKAAVAKVEAELGPIDVLVNNAGITRDATFKKMTYEQWSAV 105
Score = 37.4 bits (87), Expect = 0.004
Identities = 23/94 (24%), Positives = 47/94 (50%), Gaps = 3/94 (3%)
Query: 162 IYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVF 221
+ DV+ + + V + G +D+L+NNAG ++ A ++ + E + + N+
Sbjct: 52 FRVVEGDVSSFESCKAAVAKVEAELGPIDVLVNNAGITRDATFKKMTYEQWSAVIDTNLN 111
Query: 222 SVLSLSRIATSYFLAREQG-GHLVVTSSIAGIVG 254
SV ++++ RE+G G ++ SS+ G G
Sbjct: 112 SVFNVTQPVIDGM--RERGWGRIINISSVNGQKG 143
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 57.0 bits (138), Expect = 1e-09
Identities = 31/91 (34%), Positives = 47/91 (51%), Gaps = 4/91 (4%)
Query: 47 KVVWITGAS-SGIGEALALQLSKCGAKLVLSARSSSNL-ERVKNLCVQAGAHPQSIYTLT 104
KVV +T A+ +GIG A A + + GA++V+S L E L + G + +
Sbjct: 18 KVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELAAELG--LGRVEAVV 75
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DVT DA +++ G LD+L+NNAG
Sbjct: 76 CDVTSEAQVDALIDAAVERLGRLDVLVNNAG 106
Score = 47.0 bits (112), Expect = 3e-06
Identities = 27/91 (29%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Query: 162 IYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI-ELEVDRELFELNV 220
+ + DVT DA +++ G LD+L+NNAG + D+ + E R L ++ +
Sbjct: 71 VEAVVCDVTSEAQVDALIDAAVERLGRLDVLVNNAGLGGQTPVVDMTDDEWSRVL-DVTL 129
Query: 221 FSVLSLSRIATSYFLAREQGGHLVVTSSIAG 251
+R A Y AR GG +V +S+ G
Sbjct: 130 TGTFRATRAALRYMRARGHGGVIVNNASVLG 160
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 56.9 bits (138), Expect = 1e-09
Identities = 31/116 (26%), Positives = 49/116 (42%), Gaps = 13/116 (11%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+ +V ITG SGIG AL + GA++ + RS+ L ++ + +
Sbjct: 5 HGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQ------RFGDHVLVVE 58
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG------RSQRAAWEDIELEVDRELF 154
DVT ++R D + FG LD + NAG E ++ D E+F
Sbjct: 59 GDVTSYADNQRAVDQTVDAFGKLDCFVGNAGIWDYNTSLVDIPAETLDTAFD-EIF 113
Score = 43.4 bits (103), Expect = 4e-05
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 9/90 (10%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG------RSQRAAWEDIELEVDRELFELNVF 221
DVT ++R D + FG LD + NAG E ++ D E+F +NV
Sbjct: 60 DVTSYADNQRAVDQTVDAFGKLDCFVGNAGIWDYNTSLVDIPAETLDTAFD-EIFNVNVK 118
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAG 251
L ++ A + GG ++ T S +
Sbjct: 119 GYLLGAKAALPAL--KASGGSMIFTLSNSS 146
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 56.7 bits (137), Expect = 1e-09
Identities = 27/94 (28%), Positives = 47/94 (50%), Gaps = 2/94 (2%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
K+ +TGA GIG A+A +L G +++ + S + K+ + G +
Sbjct: 1 MKKIALVTGAKRGIGSAIARELLNDGYRVIATYFS--GNDCAKDWFEEYGFTEDQVRLKE 58
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQ 138
LDVT T+ + ++ G +DIL+NNAG ++
Sbjct: 59 LDVTDTEECAEALAEIEEEEGPVDILVNNAGITR 92
Score = 44.0 bits (104), Expect = 3e-05
Identities = 28/109 (25%), Positives = 51/109 (46%), Gaps = 11/109 (10%)
Query: 159 RPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFEL 218
+ LDVT T+ + ++ G +DIL+NNAG ++ + ++ + + ++
Sbjct: 51 EDQVRLKELDVTDTEECAEALAEIEEEEGPVDILVNNAGITRDSVFKRMSHQEWNDVINT 110
Query: 219 NVFSVLSLSRIATSYFLA--REQG-GHLVVTSSIAG---IVGAP-YSGS 260
N+ SV ++ T A EQG G ++ SS+ G G YS +
Sbjct: 111 NLNSVFNV----TQPLFAAMCEQGYGRIINISSVNGLKGQFGQTNYSAA 155
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 56.7 bits (137), Expect = 1e-09
Identities = 35/106 (33%), Positives = 55/106 (51%), Gaps = 7/106 (6%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVL----SARSSSNLERVKNLCVQAGAHPQSIYT 102
+ V ITG S G+G A+A++L+ GA +++ R + + V AG
Sbjct: 7 RRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAAGGK---ALG 63
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
L DV R DA +++FG LDIL+NNAG + AA+ ++ +E
Sbjct: 64 LAFDVRDFAATRAALDAGVEEFGRLDILVNNAGIATDAAFAELSIE 109
Score = 52.8 bits (127), Expect = 3e-08
Identities = 30/100 (30%), Positives = 55/100 (55%), Gaps = 4/100 (4%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
L DV R DA +++FG LDIL+NNAG + AA+ ++ +E ++ ++N+
Sbjct: 64 LAFDVRDFAATRAALDAGVEEFGRLDILVNNAGIATDAAFAELSIEEWDDVIDVNLDGFF 123
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVG----APYSGS 260
++++ A + +GG +V +S+AG+ G Y+ S
Sbjct: 124 NVTQAALPPMIRARRGGRIVNIASVAGVRGNRGQVNYAAS 163
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 56.8 bits (138), Expect = 1e-09
Identities = 31/109 (28%), Positives = 51/109 (46%), Gaps = 30/109 (27%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ---SI 100
+ K ++ITGAS GIG A+AL+ ++ GA +V++A++ A HP+ +I
Sbjct: 4 LSGKTLFITGASRGIGLAIALRAARDGANIVIAAKT-------------AEPHPKLPGTI 50
Query: 101 YT--------------LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+T L DV +++FG +DI +NNA
Sbjct: 51 HTAAEEIEAAGGQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNAS 99
Score = 30.6 bits (70), Expect = 0.73
Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 180 DAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQ 239
+++FG +DI +NNA ED ++ + ++NV +S+ + L + +
Sbjct: 82 AKAVERFGGIDICVNNASAINLTGTEDTPMKRFDLMQQINVRGTFLVSQACLPH-LKKSE 140
Query: 240 GGHLVVTS 247
H++ S
Sbjct: 141 NPHILTLS 148
>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 = 56.7 bits (137), Expect = 1e-09
Identities = 29/109 (26%), Positives = 51/109 (46%), Gaps = 12/109 (11%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F K +TGA GIG A L+K GA++V +R+ ++L+ + C I +
Sbjct: 5 FAGKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVREC-------PGIEPV 57
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE-VDR 151
+D++ +V G +D+L+NNA + + ++ E DR
Sbjct: 58 CVDLSDWDATEEALGSV----GPVDLLVNNAAVAILQPFLEVTKEAFDR 102
Score = 42.8 bits (101), Expect = 6e-05
Identities = 26/95 (27%), Positives = 46/95 (48%), Gaps = 6/95 (6%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE-VDRELFEL 218
P I + +D++ +V G +D+L+NNA + + ++ E DR F++
Sbjct: 52 PGIEPVCVDLSDWDATEEALGSV----GPVDLLVNNAAVAILQPFLEVTKEAFDRS-FDV 106
Query: 219 NVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIV 253
NV +V+ +S+I +AR G +V SS A
Sbjct: 107 NVRAVIHVSQIVARGMIARGVPGSIVNVSSQASQR 141
>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 = 56.3 bits (136), Expect = 2e-09
Identities = 30/95 (31%), Positives = 44/95 (46%), Gaps = 2/95 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQF-GCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
DV+ + D V F G L+IL+NNAG + R +D E + N + L
Sbjct: 63 DVSSRSERQELMDTVASHFGGKLNILVNNAGTNIRKEAKDYTEEDYSLIMSTNFEAAYHL 122
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
SR+A L G++V SS+AG++ P Y
Sbjct: 123 SRLAHP-LLKASGNGNIVFISSVAGVIAVPSGAPY 156
Score = 50.9 bits (122), Expect = 1e-07
Identities = 30/103 (29%), Positives = 47/103 (45%), Gaps = 4/103 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K +TG + GIG A+ +L+ GA++ AR+ L+ + G + D
Sbjct: 7 KTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWREKGFKVEG---SVCD 63
Query: 107 VTQTKYHRRCFDAVIQQF-GCLDILINNAGRSQRAAWEDIELE 148
V+ + D V F G L+IL+NNAG + R +D E
Sbjct: 64 VSSRSERQELMDTVASHFGGKLNILVNNAGTNIRKEAKDYTEE 106
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 56.2 bits (136), Expect = 2e-09
Identities = 30/107 (28%), Positives = 51/107 (47%), Gaps = 3/107 (2%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
K+ ITGAS GIG A+A +K GA +V + + +++ + G +
Sbjct: 10 GKIALITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRELGI---EAHGYVC 66
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRE 152
DVT + + ++ G +DIL+NNAG +R ++ E R+
Sbjct: 67 DVTDEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPMLEMSAEDFRQ 113
Score = 30.8 bits (70), Expect = 0.58
Identities = 16/78 (20%), Positives = 37/78 (47%)
Query: 163 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFS 222
+ DVT + + ++ G +DIL+NNAG +R ++ E R++ ++++ +
Sbjct: 62 HGYVCDVTDEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPMLEMSAEDFRQVIDIDLNA 121
Query: 223 VLSLSRIATSYFLAREQG 240
+S+ + + G
Sbjct: 122 PFIVSKAVIPSMIKKGHG 139
>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 = 55.8 bits (135), Expect = 3e-09
Identities = 28/91 (30%), Positives = 41/91 (45%), Gaps = 7/91 (7%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
V +TG +SG+G A +L GAK+V+ +S E V A +
Sbjct: 1 KGLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGETV------AKLGDNCRFV-P 53
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+DVT K + +FG LDI++N AG
Sbjct: 54 VDVTSEKDVKAALALAKAKFGRLDIVVNCAG 84
Score = 36.1 bits (84), Expect = 0.009
Identities = 29/111 (26%), Positives = 51/111 (45%), Gaps = 17/111 (15%)
Query: 166 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRS--QRAAWEDIELEVDRELF----ELN 219
+DVT K + +FG LDI++N AG + + + + ELF +N
Sbjct: 53 PVDVTSEKDVKAALALAKAKFGRLDIVVNCAGIAVAAKTYNKKGQQPHSLELFQRVINVN 112
Query: 220 VFSVLSLSRIATSYFLAR---EQGGH---LVVTSSIAGIVG----APYSGS 260
+ ++ R+A + + + +QGG ++ T+S+A G A YS S
Sbjct: 113 LIGTFNVIRLA-AGAMGKNEPDQGGERGVIINTASVAAFEGQIGQAAYSAS 162
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 56.0 bits (135), Expect = 3e-09
Identities = 31/89 (34%), Positives = 46/89 (51%), Gaps = 4/89 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TG ++GIGE++ K GAK+ + +L +N+C G P + D
Sbjct: 19 KVALVTGGATGIGESIVRLFHKHGAKVCI-VDLQDDLG--QNVCDSLGGEPNVCF-FHCD 74
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
VT R D + +FG LDI++NNAG
Sbjct: 75 VTVEDDVSRAVDFTVDKFGTLDIMVNNAG 103
Score = 41.7 bits (98), Expect = 2e-04
Identities = 30/98 (30%), Positives = 46/98 (46%), Gaps = 5/98 (5%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI---ELEVDRELFELNVFSVL 224
DVT R D + +FG LDI++NNAG + DI EL ++F++NV V
Sbjct: 74 DVTVEDDVSRAVDFTVDKFGTLDIMVNNAGLTG-PPCPDIRNVELSEFEKVFDVNVKGVF 132
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
L + + + G +V S+A +G +YT
Sbjct: 133 -LGMKHAARIMIPLKKGSIVSLCSVASAIGGLGPHAYT 169
>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 = 55.6 bits (134), Expect = 3e-09
Identities = 32/95 (33%), Positives = 48/95 (50%), Gaps = 8/95 (8%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSS---NLERVKNLCVQAGAHPQSI 100
+ +KVV +TG S GIG + + GAK+V AR + LE N A P S
Sbjct: 7 YADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELN-----RAGPGSC 61
Query: 101 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ DVT+ + + +++FG +D L+NNAG
Sbjct: 62 KFVPCDVTKEEDIKTLISVTVERFGRIDCLVNNAG 96
Score = 55.2 bits (133), Expect = 6e-09
Identities = 31/114 (27%), Positives = 55/114 (48%), Gaps = 8/114 (7%)
Query: 149 VDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAW-EDI 207
++ EL A S + DVT+ + + +++FG +D L+NNAG ++
Sbjct: 49 LESELNR-AGPGSCKFVPCDVTKEEDIKTLISVTVERFGRIDCLVNNAGWHPPHQTTDET 107
Query: 208 ELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVG----APY 257
+ R+L LN+ S S+ A + R+ G+++ SS+ G +G APY
Sbjct: 108 SAQEFRDLLNLNLISYFLASKYALPHL--RKSQGNIINLSSLVGSIGQKQAAPY 159
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 55.6 bits (134), Expect = 3e-09
Identities = 28/95 (29%), Positives = 45/95 (47%), Gaps = 1/95 (1%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
+D+ + RR D V +QFG LD L+N AG D + + ++ +NV + L+
Sbjct: 61 IDLVDPQAARRAVDEVNRQFGRLDALVNIAGAFVWGTIADGDADTWDRMYGVNVKTTLNA 120
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
S+ A L GG +V + A + P G+Y
Sbjct: 121 SKAALPA-LTASGGGRIVNIGAGAALKAGPGMGAY 154
Score = 52.9 bits (127), Expect = 2e-08
Identities = 31/91 (34%), Positives = 45/91 (49%), Gaps = 5/91 (5%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
KVV ITG G+G A A L+ GA++ L R ++ L + G ++
Sbjct: 6 QGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQT-----LPGVPADALRIGG 60
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+D+ + RR D V +QFG LD L+N AG
Sbjct: 61 IDLVDPQAARRAVDEVNRQFGRLDALVNIAG 91
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 55.8 bits (135), Expect = 3e-09
Identities = 33/112 (29%), Positives = 54/112 (48%), Gaps = 8/112 (7%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAK-LVLSARSSSNLERVKNLCVQAGAHPQSIYT 102
+ KV +TG + G+G A+A ++ GA LV+ R++ E GA ++++
Sbjct: 4 LDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEALGA--KAVFV 61
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
D++ + RR A + FG LD L+N AG + R L+ ELF
Sbjct: 62 QA-DLSDVEDCRRVVAAADEAFGRLDALVNAAGLTDRGTI----LDTSPELF 108
Score = 41.9 bits (99), Expect = 2e-04
Identities = 27/94 (28%), Positives = 43/94 (45%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
D++ + RR A + FG LD L+N AG + R D E+ F +NV + L
Sbjct: 64 DLSDVEDCRRVVAAADEAFGRLDALVNAAGLTDRGTILDTSPELFDRHFAVNVRAPFFLM 123
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ A R+ G +V S++ G P+ +Y
Sbjct: 124 QEAIKLMRRRKAEGTIVNIGSMSAHGGQPFLAAY 157
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 55.6 bits (134), Expect = 4e-09
Identities = 28/91 (30%), Positives = 46/91 (50%), Gaps = 3/91 (3%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+ K ITGA +GIG+ +A+ + GA +V+S ++ V + Q G Q+
Sbjct: 10 DGKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLGG--QAF-ACR 66
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D+T + D + + G +DIL+NNAG
Sbjct: 67 CDITSEQELSALADFALSKLGKVDILVNNAG 97
Score = 47.9 bits (114), Expect = 1e-06
Identities = 25/84 (29%), Positives = 43/84 (51%), Gaps = 2/84 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
D+T + D + + G +DIL+NNAG + D+ + R +ELNVFS LS
Sbjct: 68 DITSEQELSALADFALSKLGKVDILVNNAGGGGPKPF-DMPMADFRRAYELNVFSFFHLS 126
Query: 228 RIATSYFLAREQGGHLVVTSSIAG 251
++ + + GG ++ +S+A
Sbjct: 127 QLVAPE-MEKNGGGVILTITSMAA 149
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 55.6 bits (134), Expect = 4e-09
Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 4/103 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVL-SARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+V ++TGA SGIG+ +A+ L++ GA + L R+ L AG ++I +
Sbjct: 9 QVAFVTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAEHIEAAGR--RAIQ-IAA 65
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
DVT R + G L + +N AG + E++E E
Sbjct: 66 DVTSKADLRAAVARTEAELGALTLAVNAAGIANANPAEEMEEE 108
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 55.2 bits (133), Expect = 5e-09
Identities = 33/123 (26%), Positives = 60/123 (48%), Gaps = 10/123 (8%)
Query: 43 YFNNKVVWITGASSGIGEALALQLSKCGAKL-VLSARSSSNLERVKNLCVQAGAHPQSIY 101
F KV ITG + GIG A+A + GAK+ VL + + + ++ + ++
Sbjct: 4 RFKGKVALITGGTRGIGRAIAEAFLREGAKVAVLYNSAENEAKELRE---------KGVF 54
Query: 102 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPS 161
T+ DV ++ + V ++FG +D+L+NNAG +E+ + E ++ +
Sbjct: 55 TIKCDVGNRDQVKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFDEEKYNKMIKINLNGA 114
Query: 162 IYT 164
IYT
Sbjct: 115 IYT 117
Score = 38.6 bits (90), Expect = 0.002
Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 9/95 (9%)
Query: 162 IYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVF 221
++T+ DV ++ + V ++FG +D+L+NNAG +E+ + E ++ ++N+
Sbjct: 53 VFTIKCDVGNRDQVKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFDEEKYNKMIKINLN 112
Query: 222 SVLSLSRIATSY----FLAREQGGHLVVTSSIAGI 252
I T+Y L + G +V +S AGI
Sbjct: 113 GA-----IYTTYEFLPLLKLSKNGAIVNIASNAGI 142
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 54.6 bits (132), Expect = 7e-09
Identities = 38/110 (34%), Positives = 54/110 (49%), Gaps = 14/110 (12%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQF-----GCLDILINNAGRSQRAAWEDIELEVDRE 214
+ +T LDVT R +DA + F G LD+L NNAG + +EDI LE
Sbjct: 48 GNAWTGALDVTD----RAAWDAALADFAAATGGRLDVLFNNAGILRGGPFEDIPLEAHDR 103
Query: 215 LFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAP----YSGS 260
+ ++NV VL+ + A Y L G ++ TSS + I G P YS +
Sbjct: 104 VIDINVKGVLNGAHAALPY-LKATPGARVINTSSASAIYGQPGLAVYSAT 152
Score = 46.9 bits (112), Expect = 3e-06
Identities = 39/114 (34%), Positives = 55/114 (48%), Gaps = 17/114 (14%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQS-IYTLTL 105
K ++ITGA+SGIG A AL + G ++ + + L + A +T L
Sbjct: 2 KSIFITGAASGIGRATALLFAAEGWRVGAYDINEAGLAAL------AAELGAGNAWTGAL 55
Query: 106 DVTQTKYHRRCFDAVIQQF-----GCLDILINNAGRSQRAAWEDIELE-VDREL 153
DVT R +DA + F G LD+L NNAG + +EDI LE DR +
Sbjct: 56 DVTD----RAAWDAALADFAAATGGRLDVLFNNAGILRGGPFEDIPLEAHDRVI 105
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 54.7 bits (132), Expect = 7e-09
Identities = 29/110 (26%), Positives = 48/110 (43%), Gaps = 3/110 (2%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+KV +TGA GIG A+A +L + G K+ A N E + + +
Sbjct: 1 MSKVALVTGAGQGIGFAIAKRLVEDGFKV---AIVDYNEETAQAAADKLSKDGGKAIAVK 57
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
DV+ V+ FG L++++NNAG + E I E +++
Sbjct: 58 ADVSDRDQVFAAVRQVVDTFGDLNVVVNNAGVAPTTPIETITEEQFDKVY 107
Score = 53.6 bits (129), Expect = 2e-08
Identities = 28/100 (28%), Positives = 47/100 (47%), Gaps = 4/100 (4%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
+ DV+ V+ FG L++++NNAG + E I E +++ +NV V+
Sbjct: 56 VKADVSDRDQVFAAVRQVVDTFGDLNVVVNNAGVAPTTPIETITEEQFDKVYNINVGGVI 115
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAP----YSGS 260
+ A F GG ++ +S AG+VG P YS +
Sbjct: 116 WGIQAAQEAFKKLGHGGKIINATSQAGVVGNPELAVYSST 155
>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 = 54.5 bits (131), Expect = 8e-09
Identities = 24/91 (26%), Positives = 47/91 (51%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
N++++ +TGAS GIG AL ++ GA ++L R+ L +V + + G + L
Sbjct: 3 NDRIILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEGGRQPQWFILD 62
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
L ++ ++ + + LD +++NAG
Sbjct: 63 LLTCTSENCQQLAQRIAVNYPRLDGVLHNAG 93
>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 = 54.3 bits (131), Expect = 9e-09
Identities = 34/101 (33%), Positives = 51/101 (50%), Gaps = 15/101 (14%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVL---------SARSSSNLERVKNLCVQAG 94
F+ +VV +TGA G+G A AL ++ GAK+V+ S +SSS ++V + AG
Sbjct: 3 FDGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKAAG 62
Query: 95 AHPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ Y V + + I FG +DIL+NNAG
Sbjct: 63 GKAVANYD---SVEDGE---KIVKTAIDAFGRVDILVNNAG 97
Score = 43.8 bits (104), Expect = 3e-05
Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 23/93 (24%)
Query: 179 FDAVIQQFGCLDILINNAG--------RSQRAAWEDIELEVDRELFELNVFSVLSLSRIA 230
I FG +DIL+NNAG + W+ + +++ ++R A
Sbjct: 79 VKTAIDAFGRVDILVNNAGILRDRSFAKMSEEDWDLV--------MRVHLKGSFKVTRAA 130
Query: 231 TSYFLAREQG-GHLVVTSSIAGIVG----APYS 258
Y R+Q G ++ TSS AG+ G A YS
Sbjct: 131 WPYM--RKQKFGRIINTSSAAGLYGNFGQANYS 161
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 54.7 bits (132), Expect = 1e-08
Identities = 37/120 (30%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KV ITG SGIG A+A+ +K GA + + V+ +
Sbjct: 46 GKVALITGGDSGIGRAVAVLFAKEGADIAIVYLDEHEDANETKQRVEK--EGVKCLLIPG 103
Query: 106 DVTQTKYHRRCFDAV---IQQFGCLDILINNAGRSQ-RAAWEDIELE-VDRELFT--YAY 158
DV+ + C DAV +++ G LDIL+NNA + + EDI E +D+ T Y+Y
Sbjct: 104 DVSDEAF---CKDAVEETVRELGRLDILVNNAAFQYPQQSLEDITAEQLDKTFKTNIYSY 160
Score = 51.6 bits (124), Expect = 8e-08
Identities = 27/83 (32%), Positives = 44/83 (53%), Gaps = 7/83 (8%)
Query: 178 CFDAV---IQQFGCLDILINNAGRSQ-RAAWEDIELEVDRELFELNVFSVLSLSRIATSY 233
C DAV +++ G LDIL+NNA + + EDI E + F+ N++S +++ A +
Sbjct: 111 CKDAVEETVRELGRLDILVNNAAFQYPQQSLEDITAEQLDKTFKTNIYSYFHMTKAALPH 170
Query: 234 FLAREQGGHLVVTSSIAGIVGAP 256
+QG ++ T SI G G
Sbjct: 171 L---KQGSAIINTGSITGYEGNE 190
>gnl|CDD|187648 cd08944, SDR_c12, classical (c) SDR, subgroup 12. These are
classical SDRs, with the canonical active site tetrad
and glycine-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 246
Score = 54.0 bits (130), Expect = 1e-08
Identities = 32/107 (29%), Positives = 55/107 (51%), Gaps = 7/107 (6%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
KV +TGA +GIG A A +L++ GA++V++ + + + Q ++
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADI---DGGAAQAVVAQIAGGALAL--- 54
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG-RSQRAAWEDIELEV 149
+DVT + F+ +++FG LD+L+NNAG A D +L V
Sbjct: 55 RVDVTDEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIIDTDLAV 101
Score = 52.9 bits (127), Expect = 2e-08
Identities = 35/98 (35%), Positives = 50/98 (51%), Gaps = 2/98 (2%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG-RSQRAAWEDIELEVDRELFELNVFSV 223
L +DVT + F+ +++FG LD+L+NNAG A D +L V + +N+
Sbjct: 54 LRVDVTDEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIIDTDLAVWDQTMAINLRGT 113
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
R A +AR GG +V SSIAG G P G+Y
Sbjct: 114 FLCCRHAAPRMIAR-GGGSIVNLSSIAGQSGDPGYGAY 150
>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 = 53.7 bits (129), Expect = 1e-08
Identities = 32/88 (36%), Positives = 46/88 (52%), Gaps = 3/88 (3%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDV 107
V +TG ++GIG+A+A L+K GA +V++ S E V QAG L +V
Sbjct: 1 VAIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAGGQA---IGLECNV 57
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAG 135
T + A + QFG + IL+NNAG
Sbjct: 58 TSEQDLEAVVKATVSQFGGITILVNNAG 85
Score = 49.9 bits (119), Expect = 3e-07
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 2/95 (2%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWE-DIELEVDRELFELNVFSVLSL 226
+VT + A + QFG + IL+NNAG ++ + E F+LN+FS L
Sbjct: 56 NVTSEQDLEAVVKATVSQFGGITILVNNAGGGGPKPFDMPMTEEDFEWAFKLNLFSAFRL 115
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
S++ + + + GG ++ SS++ +Y
Sbjct: 116 SQLCAPH-MQKAGGGAILNISSMSSENKNVRIAAY 149
>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 = 53.6 bits (129), Expect = 1e-08
Identities = 28/95 (29%), Positives = 47/95 (49%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
LDV+ D ++FG D+++NNAG + +I E ++++ +NV VL
Sbjct: 56 LDVSDKDQVFSAIDQAAEKFGGFDVMVNNAGVAPITPILEITEEELKKVYNVNVKGVLFG 115
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ A F + GG ++ +SIAG G P +Y
Sbjct: 116 IQAAARQFKKQGHGGKIINAASIAGHEGNPILSAY 150
Score = 50.1 bits (120), Expect = 3e-07
Identities = 28/106 (26%), Positives = 50/106 (47%), Gaps = 4/106 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV +TG + GIG+ +A +L+K G + ++ + + QAG + LD
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQAGGKAVAY---KLD 57
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI-ELEVDR 151
V+ D ++FG D+++NNAG + +I E E+ +
Sbjct: 58 VSDKDQVFSAIDQAAEKFGGFDVMVNNAGVAPITPILEITEEELKK 103
>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 = 53.6 bits (129), Expect = 2e-08
Identities = 27/90 (30%), Positives = 38/90 (42%), Gaps = 4/90 (4%)
Query: 51 ITGASSGIGEALALQLSKCG-AKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQ 109
+TGAS GIG A+A +L+ G + V + AG D+ +
Sbjct: 6 VTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVLAAGRRAIYF---QADIGE 62
Query: 110 TKYHRRCFDAVIQQFGCLDILINNAGRSQR 139
H D + FG LD L+NNAG + R
Sbjct: 63 LSDHEALLDQAWEDFGRLDCLVNNAGIAVR 92
Score = 40.9 bits (96), Expect = 3e-04
Identities = 32/142 (22%), Positives = 54/142 (38%), Gaps = 15/142 (10%)
Query: 128 DILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFG 187
DI IN+ ++ EV Y D+ + H D + FG
Sbjct: 27 DIAIND--LPDDDQATEVVAEVLAAGRRAIYFQ------ADIGELSDHEALLDQAWEDFG 78
Query: 188 CLDILINNAGRSQRAAWEDIELEVDR--ELFELNVFSVLSLSRIATSYFLAR---EQGGH 242
LD L+NNAG + R + ++L D L +N+ L++ + + G H
Sbjct: 79 RLDCLVNNAGIAVRPRGDLLDLTEDSFDRLIAINLRGPFFLTQAVARRMVEQPDRFDGPH 138
Query: 243 --LVVTSSIAGIVGAPYSGSYT 262
++ +SI + +P G Y
Sbjct: 139 RSIIFVTSINAYLVSPNRGEYC 160
>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 = 53.6 bits (129), Expect = 2e-08
Identities = 33/91 (36%), Positives = 46/91 (50%), Gaps = 5/91 (5%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV ITG +SGIGEA A +K GA++V+ ++++ V A I + D
Sbjct: 5 KVAIITGGASGIGEATARLFAKHGARVVI-----ADIDDDAGQAVAAELGDPDISFVHCD 59
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRS 137
VT R D + +FG LDI+ NNAG
Sbjct: 60 VTVEADVRAAVDTAVARFGRLDIMFNNAGVL 90
Score = 47.5 bits (113), Expect = 2e-06
Identities = 33/99 (33%), Positives = 43/99 (43%), Gaps = 7/99 (7%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DVT R D + +FG LDI+ NNAG A LE E FE V V
Sbjct: 59 DVTVEADVRAAVDTAVARFGRLDIMFNNAGVL--GAPCYSILETSLEEFE-RVLDVNVYG 115
Query: 228 RIATSYFLAR----EQGGHLVVTSSIAGIVGAPYSGSYT 262
+ AR + G +V +S+AG+VG +YT
Sbjct: 116 AFLGTKHAARVMIPAKKGSIVSVASVAGVVGGLGPHAYT 154
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 53.4 bits (129), Expect = 2e-08
Identities = 30/106 (28%), Positives = 46/106 (43%), Gaps = 6/106 (5%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA-WEDIELEVDREL 215
P + L LDVT A + + IL+NNAG + + + + + R
Sbjct: 46 DLGPRVVPLQLDVT----DPASVAAAAEAASDVTILVNNAGIFRTGSLLLEGDEDALRAE 101
Query: 216 FELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
E N F L+++R A + LA GG +V S+ V P G+Y
Sbjct: 102 METNYFGPLAMAR-AFAPVLAANGGGAIVNVLSVLSWVNFPNLGTY 146
Score = 52.6 bits (127), Expect = 3e-08
Identities = 33/99 (33%), Positives = 44/99 (44%), Gaps = 15/99 (15%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGA-KLVLSARSSSNLERVKNLCVQAGAHPQSIYT 102
KVV +TGA+ GIG A QL GA K+ +AR + E V +L P
Sbjct: 4 IKGKVVLVTGANRGIGRAFVEQLLARGAAKVYAAAR---DPESVTDL--GPRVVP----- 53
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA 141
L LDVT A + + IL+NNAG + +
Sbjct: 54 LQLDVT----DPASVAAAAEAASDVTILVNNAGIFRTGS 88
>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 = 53.4 bits (129), Expect = 2e-08
Identities = 25/87 (28%), Positives = 43/87 (49%), Gaps = 3/87 (3%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V +TGA+ GIG A+A L++ GA++ R+ L + + G T LDV
Sbjct: 1 VLVTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRRYGYPFA---TYKLDVA 57
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAG 135
+ + +++G +D+L+N AG
Sbjct: 58 DSAAVDEVVQRLEREYGPIDVLVNVAG 84
Score = 46.9 bits (112), Expect = 3e-06
Identities = 27/106 (25%), Positives = 50/106 (47%), Gaps = 2/106 (1%)
Query: 147 LEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWED 206
LE+ +L Y Y + Y L DV + + +++G +D+L+N AG + A +
Sbjct: 36 LELVADLRRYGYPFATYKL--DVADSAAVDEVVQRLEREYGPIDVLVNVAGILRLGAIDS 93
Query: 207 IELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGI 252
+ E + F +N F V ++S+ + R G + V S+ A +
Sbjct: 94 LSDEDWQATFAVNTFGVFNVSQAVSPRMKRRRSGAIVTVGSNAANV 139
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 53.0 bits (128), Expect = 2e-08
Identities = 24/90 (26%), Positives = 34/90 (37%), Gaps = 4/90 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCG-AKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
V +TG GIG +A L+ G + L + G + I+
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAINDRPDDEELAATQQELRALGV--EVIF-FPA 59
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV H DA +G +D L+NNAG
Sbjct: 60 DVADLSAHEAMLDAAQAAWGRIDCLVNNAG 89
Score = 35.3 bits (82), Expect = 0.019
Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 8/70 (11%)
Query: 128 DILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFG 187
D+ IN+ + A +EL I+ DV H DA +G
Sbjct: 28 DLAINDRPDDEELA------ATQQELRALG-VEVIF-FPADVADLSAHEAMLDAAQAAWG 79
Query: 188 CLDILINNAG 197
+D L+NNAG
Sbjct: 80 RIDCLVNNAG 89
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 53.1 bits (127), Expect = 3e-08
Identities = 31/98 (31%), Positives = 51/98 (52%), Gaps = 3/98 (3%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQT 110
ITGAS+GIG+ +AL + GA++ ++AR LE++ + +G + + DV+Q
Sbjct: 14 ITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGTSGG---KVVPVCCDVSQH 70
Query: 111 KYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
+ D V + G +DI + NAG D+ LE
Sbjct: 71 QQVTSMLDQVTAELGGIDIAVCNAGIITVTPMLDMPLE 108
Score = 39.2 bits (91), Expect = 0.001
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV+Q + D V + G +DI + NAG D+ LE + L NV V +
Sbjct: 66 DVSQHQQVTSMLDQVTAELGGIDIAVCNAGIITVTPMLDMPLEEFQRLQNTNVTGVFLTA 125
Query: 228 RIATSYFLAREQGGHLVVTSSIAG-IVGAP 256
+ A + + QGG ++ T+S++G I+ P
Sbjct: 126 QAAAKAMVKQGQGGVIINTASMSGHIINVP 155
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 52.7 bits (127), Expect = 3e-08
Identities = 24/104 (23%), Positives = 45/104 (43%), Gaps = 3/104 (2%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERV-KNLCVQAGAHPQSIYTLT 104
N+V + G +G L L++ G ++ ++ +S V + + + G Y
Sbjct: 2 NQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAEYGEG--MAYGFG 59
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
D T + V + FG +D+L+ NAG ++ A D +L
Sbjct: 60 ADATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAFITDFQLG 103
Score = 31.2 bits (71), Expect = 0.43
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 20/112 (17%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
Y D T + V + FG +D+L+ NAG ++ A D +L ++N+
Sbjct: 54 MAYGFGADATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAFITDFQLGDFDRSLQVNL 113
Query: 221 FSVLSLSRIATSYFL-ARE---------QGGHLVVTSSIAGIVGAPYSGSYT 262
YFL ARE G ++ +S +G VG+ ++ Y+
Sbjct: 114 ----------VGYFLCAREFSRLMIRDGIQGRIIQINSKSGKVGSKHNSGYS 155
>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 = 52.8 bits (127), Expect = 3e-08
Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 11/108 (10%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
+VV +TGAS G+G A+A ++ GA++V++ S+ E + + +AG +I D
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYYRST--ESAEAVAAEAGERAIAI---QAD 55
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRS------QRAAWEDIELE 148
V + + FG +D ++NNA QR ++ I+ E
Sbjct: 56 VRDRDQVQAMIEEAKNHFGPVDTIVNNALIDFPFDPDQRKTFDTIDWE 103
Score = 34.0 bits (78), Expect = 0.050
Identities = 23/101 (22%), Positives = 40/101 (39%), Gaps = 7/101 (6%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRS------QRAAWEDIELEVDRELFELNVF 221
DV + + FG +D ++NNA QR ++ I+ E ++ E V
Sbjct: 55 DVRDRDQVQAMIEEAKNHFGPVDTIVNNALIDFPFDPDQRKTFDTIDWEDYQQQLEGAVK 114
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
L+L + F R G + + +++ PY YT
Sbjct: 115 GALNLLQAVLPDFKERGSGRVINIGTNLFQNPVVPY-HDYT 154
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 53.1 bits (128), Expect = 3e-08
Identities = 32/92 (34%), Positives = 44/92 (47%), Gaps = 3/92 (3%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F KV ITGA+SG G A A + G KLVL+ L+R GA + +
Sbjct: 4 FAGKVAVITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQGA---EVLGV 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV+ DA +++FG + +L NNAG
Sbjct: 61 RTDVSDAAQVEALADAALERFGAVHLLFNNAG 92
Score = 44.2 bits (105), Expect = 3e-05
Identities = 30/108 (27%), Positives = 47/108 (43%), Gaps = 21/108 (19%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDIELEVDRELFEL 218
DV+ DA +++FG + +L NNAG + A WE + +
Sbjct: 62 TDVSDAAQVEALADAALERFGAVHLLFNNAGVGAGGLVWENSLADWE--------WVLGV 113
Query: 219 NVFSVLSLSRIATSYFLAR-----EQGGHLVVTSSIAGIVGAPYSGSY 261
N++ V+ R T LA GH+V T+S+AG++ P G Y
Sbjct: 114 NLWGVIHGVRAFTPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMGIY 161
>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 = 52.3 bits (126), Expect = 4e-08
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 6/87 (6%)
Query: 51 ITGASSGIGEALALQLSKCG--AKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
+TGAS GIG ALA +L K G + +VL ARS L+ +K + T+ D++
Sbjct: 4 LTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKE----ELRPGLRVTTVKADLS 59
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAG 135
+ +A+ + G D+LINNAG
Sbjct: 60 DAAGVEQLLEAIRKLDGERDLLINNAG 86
Score = 34.2 bits (79), Expect = 0.048
Identities = 31/118 (26%), Positives = 54/118 (45%), Gaps = 6/118 (5%)
Query: 143 EDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGR-SQR 201
E+ E+ EL + T+ D++ + +A+ + G D+LINNAG
Sbjct: 35 EEPLQELKEELR---PGLRVTTVKADLSDAAGVEQLLEAIRKLDGERDLLINNAGSLGPV 91
Query: 202 AAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSG 259
+ E I+L+ ++ F+LN+ S + L+ F R +V SS A + P+ G
Sbjct: 92 SKIEFIDLDELQKYFDLNLTSPVCLTSTLLRAFKKRGLKKTVVNVSSGAAV--NPFKG 147
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 52.4 bits (126), Expect = 4e-08
Identities = 32/91 (35%), Positives = 52/91 (57%), Gaps = 3/91 (3%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F++KV +TGA+ GIG+A A L++ GA +V++ ++ ERV V G +I +
Sbjct: 4 FDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQIVADGG--TAIA-V 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNA 134
+DV+ + DA + FG +D L+NNA
Sbjct: 61 QVDVSDPDSAKAMADATVSAFGGIDYLVNNA 91
Score = 32.4 bits (74), Expect = 0.16
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 7/85 (8%)
Query: 180 DAVIQQFGCLDILINNA---GRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLA 236
DA + FG +D L+NNA G + + + ++ +N+ L +R +
Sbjct: 75 DATVSAFGGIDYLVNNAAIYGGMKLDLLITVPWDYYKKFMSVNLDGALVCTRAVYKHMAK 134
Query: 237 REQGGHLVVTSSIAGIVGAPYSGSY 261
R GG +V SS A YS Y
Sbjct: 135 R-GGGAIVNQSSTAAW---LYSNFY 155
>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 = 52.4 bits (126), Expect = 5e-08
Identities = 29/94 (30%), Positives = 40/94 (42%), Gaps = 12/94 (12%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAK---LVLSARSSSNLERVKNLCVQAGAHPQSIY 101
+V ITG SG+G AL + GAK L SA E+V L ++
Sbjct: 3 KGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSA------EKVAELRA---DFGDAVV 53
Query: 102 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ DV + R +++FG LD I NAG
Sbjct: 54 GVEGDVRSLADNERAVARCVERFGKLDCFIGNAG 87
Score = 38.9 bits (91), Expect = 0.002
Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 9/90 (10%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG------RSQRAAWEDIELEVDRELFELNVF 221
DV + R +++FG LD I NAG E ++ D ELF +NV
Sbjct: 58 DVRSLADNERAVARCVERFGKLDCFIGNAGIWDYSTSLVDIPEEKLDEAFD-ELFHINVK 116
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAG 251
+ ++ A A E G ++ T S AG
Sbjct: 117 GYILGAKAALPALYATE--GSVIFTVSNAG 144
>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 = 51.7 bits (124), Expect = 6e-08
Identities = 33/103 (32%), Positives = 48/103 (46%), Gaps = 14/103 (13%)
Query: 167 LDVTQTKYHRRCFDAVIQQF-----GCLDILINNAGRSQRAAWEDIELEVDRELFELNVF 221
LDVT R + A + F G LD L NNAG + +ED+ L + ++NV
Sbjct: 54 LDVTD----RAAWAAALADFAAATGGRLDALFNNAGVGRGGPFEDVPLAAHDRMVDINVK 109
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAP----YSGS 260
VL+ + A Y L G ++ T+S + I G P YS +
Sbjct: 110 GVLNGAYAALPY-LKATPGARVINTASSSAIYGQPDLAVYSAT 151
Score = 49.4 bits (118), Expect = 3e-07
Identities = 35/107 (32%), Positives = 50/107 (46%), Gaps = 14/107 (13%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K ++ITGA+SGIG AL ++ G + L L L + GA +++ LD
Sbjct: 1 KAIFITGAASGIGRETALLFARNGWFVGLYDIDEDGL---AALAAELGA--ENVVAGALD 55
Query: 107 VTQTKYHRRCFDAVIQQF-----GCLDILINNAGRSQRAAWEDIELE 148
VT R + A + F G LD L NNAG + +ED+ L
Sbjct: 56 VTD----RAAWAAALADFAAATGGRLDALFNNAGVGRGGPFEDVPLA 98
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 51.8 bits (125), Expect = 6e-08
Identities = 26/94 (27%), Positives = 42/94 (44%), Gaps = 12/94 (12%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
K +TG + GIG A +L + GA++V +ARS + V A
Sbjct: 7 LAGKRALVTGGTKGIGAATVARLLEAGARVVTTARSRPDDLPEGVEFVAA---------- 56
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRS 137
D+T + AV+++ G +DIL++ G S
Sbjct: 57 --DLTTAEGCAAVARAVLERLGGVDILVHVLGGS 88
Score = 31.8 bits (73), Expect = 0.25
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 8/73 (10%)
Query: 180 DAVIQQFGCLDILINNAGRSQR-----AAWEDIELEVDRELFELNVFSVLSLSRIATSYF 234
AV+++ G +DIL++ G S AA D E + EL LN+ + + L R
Sbjct: 69 RAVLERLGGVDILVHVLGGSSAPAGGFAALTDEEWQ--DEL-NLNLLAAVRLDRALLPGM 125
Query: 235 LAREQGGHLVVTS 247
+AR G + VTS
Sbjct: 126 IARGSGVIIHVTS 138
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 52.1 bits (125), Expect = 6e-08
Identities = 28/108 (25%), Positives = 50/108 (46%), Gaps = 11/108 (10%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
K + ITG++ GIG LA L++ GA+++++ ++ E Q G +
Sbjct: 9 GKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGI---KAHAAPF 65
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA--------WEDI 145
+VT + + + + G +D+LINNAG +R W D+
Sbjct: 66 NVTHKQEVEAAIEHIEKDIGPIDVLINNAGIQRRHPFTEFPEQEWNDV 113
Score = 37.4 bits (87), Expect = 0.004
Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 14/120 (11%)
Query: 123 QFGCLDILIN--NAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFD 180
++G +I+IN A R++ A +L + + +VT + +
Sbjct: 31 EYGA-EIIINDITAERAELAV---------AKLRQEGIKA--HAAPFNVTHKQEVEAAIE 78
Query: 181 AVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQG 240
+ + G +D+LINNAG +R + + + ++ +N +V +S+ Y + R+ G
Sbjct: 79 HIEKDIGPIDVLINNAGIQRRHPFTEFPEQEWNDVIAVNQTAVFLVSQAVARYMVKRQAG 138
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 51.6 bits (124), Expect = 8e-08
Identities = 30/91 (32%), Positives = 52/91 (57%), Gaps = 4/91 (4%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSA-RSSSNLERVKNLCVQAGAHPQSIYTLT 104
+KVV +TG+ GIG A+A++L+K G+ +V++A + + + + + G + I L
Sbjct: 6 DKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEMNETLKMVKENGG--EGIGVLA 63
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV+ + A I ++G DIL+NNAG
Sbjct: 64 -DVSTREGCETLAKATIDRYGVADILVNNAG 93
Score = 42.0 bits (99), Expect = 1e-04
Identities = 31/91 (34%), Positives = 45/91 (49%), Gaps = 7/91 (7%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV+ + A I ++G DIL+NNAG + + L VD +L + S S
Sbjct: 64 DVSTREGCETLAKATIDRYGVADILVNNAGLGLFSPF----LNVDDKLID-KHISTDFKS 118
Query: 228 RIATSYFLARE--QGGHLVVTSSIAGIVGAP 256
I S LA+E +GG +V +S+AGI A
Sbjct: 119 VIYCSQELAKEMREGGAIVNIASVAGIRPAY 149
>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 = 51.3 bits (123), Expect = 9e-08
Identities = 33/106 (31%), Positives = 54/106 (50%), Gaps = 6/106 (5%)
Query: 158 YRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA-AWEDIELEVDRELF 216
Y + L LDVT + A Q +D++INNAG + A E+ LE ++
Sbjct: 48 YGDKVVPLRLDVTDPE----SIKAAAAQAKDVDVVINNAGVLKPATLLEEGALEALKQEM 103
Query: 217 ELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
++NVF +L L++ A + L GG +V +S+A + P G+Y+
Sbjct: 104 DVNVFGLLRLAQ-AFAPVLKANGGGAIVNLNSVASLKNFPAMGTYS 148
Score = 48.9 bits (117), Expect = 6e-07
Identities = 30/93 (32%), Positives = 43/93 (46%), Gaps = 11/93 (11%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLV-LSARSSSNLERVKNLCVQAGAHPQSIYT 102
+K V +TGA+ GIG+A L GAK V + R + +L + G +
Sbjct: 1 IKDKTVLVTGANRGIGKAFVESLLAHGAKKVYAAVR---DPGSAAHLVAKYGD---KVVP 54
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
L LDVT + A Q +D++INNAG
Sbjct: 55 LRLDVTDPE----SIKAAAAQAKDVDVVINNAG 83
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 51.2 bits (123), Expect = 9e-08
Identities = 50/215 (23%), Positives = 77/215 (35%), Gaps = 71/215 (33%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQT 110
ITGA+ G+G A+A ++++ GAK+ L+ ++ AG
Sbjct: 4 ITGAAGGLGRAIARRMAEQGAKVFLT-----------DINDAAGL--------------- 37
Query: 111 KYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLDVT 170
DA + NA + A+ DVT
Sbjct: 38 -------DAFAAEI--------NAAHGEGVAF---------------------AAVQDVT 61
Query: 171 QTKYHRRCFDAVIQQ----FGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
+ A++ Q G L +L+NNAG A E IEL+ R + +NV S+
Sbjct: 62 DEAQ----WQALLAQAADAMGGLSVLVNNAGVGSFGAIEQIELDEWRRVMAINVESIFLG 117
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ A Y L Q +V SS+A P +Y
Sbjct: 118 CKHALPY-LRASQPASIVNISSVAAFKAEPDYTAY 151
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 51.6 bits (124), Expect = 1e-07
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 12/91 (13%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
K++ +TG SSGIG A+ +L GA +V + + + H + T
Sbjct: 8 QGKIIIVTGGSSGIGLAIVKELLANGANVVNADIHGGDGQ-----------HENYQFVPT 56
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV+ + +I++FG +D L+NNAG
Sbjct: 57 -DVSSAEEVNHTVAEIIEKFGRIDGLVNNAG 86
Score = 34.2 bits (79), Expect = 0.045
Identities = 26/107 (24%), Positives = 47/107 (43%), Gaps = 16/107 (14%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG----------RSQRAAWEDIELEVDRELFE 217
DV+ + +I++FG +D L+NNAG + +E E D+ +F
Sbjct: 57 DVSSAEEVNHTVAEIIEKFGRIDGLVNNAGINIPRLLVDEKDPAGKYELNEAAFDK-MFN 115
Query: 218 LNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVG----APYSGS 260
+N V +S+ + + G +V SS AG+ G + Y+ +
Sbjct: 116 INQKGVFLMSQAVARQMVK-QHDGVIVNMSSEAGLEGSEGQSCYAAT 161
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 51.1 bits (122), Expect = 1e-07
Identities = 22/53 (41%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ 98
+K + +TGAS G+GE +A + GA ++L AR LE+V + V+AG HP+
Sbjct: 6 DKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAG-HPE 57
>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 = 51.3 bits (123), Expect = 1e-07
Identities = 28/90 (31%), Positives = 46/90 (51%), Gaps = 3/90 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERV-KNLCVQAGAHPQSIYTLTL 105
K V ITGA++GIG+ A +L++ GA+++++ R + E + H + L
Sbjct: 2 KTVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLNH--EVIVRHL 59
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D+ K R + + LD+LINNAG
Sbjct: 60 DLASLKSIRAFAAEFLAEEDRLDVLINNAG 89
>gnl|CDD|187666 cd09806, type1_17beta-HSD-like_SDR_c, human estrogenic
17beta-hydroxysteroid dehydrogenase type 1 (type 1
17beta-HSD)-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. This classical SDR subgroup
includes human type 1 17beta-HSD, human retinol
dehydrogenase 8, zebrafish photoreceptor associated
retinol dehydrogenase type 2, and a chicken
ovary-specific 17beta-hydroxysteroid dehydrogenase. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 51.3 bits (123), Expect = 1e-07
Identities = 28/102 (27%), Positives = 50/102 (49%), Gaps = 3/102 (2%)
Query: 161 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV 220
++ TL LDV +K + V +D+L+ NAG E + + +F++NV
Sbjct: 54 TLETLQLDVCDSKSVAAAVERV--TERHVDVLVCNAGVGLLGPLEALSEDAMASVFDVNV 111
Query: 221 FSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
F + + + A + R G ++VTSS+ G+ G P++ Y
Sbjct: 112 FGTVRMLQ-AFLPDMKRRGSGRILVTSSVGGLQGLPFNDVYC 152
Score = 50.9 bits (122), Expect = 1e-07
Identities = 31/90 (34%), Positives = 46/90 (51%), Gaps = 3/90 (3%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAH-PQSIYTLTL 105
VV ITG SSGIG LA++L+ +K + +L++ L AGA ++ TL L
Sbjct: 1 TVVLITGCSSGIGLHLAVRLASDPSKRFKVYATMRDLKKKGRLWEAAGALAGGTLETLQL 60
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV +K + V +D+L+ NAG
Sbjct: 61 DVCDSKSVAAAVERV--TERHVDVLVCNAG 88
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 51.4 bits (123), Expect = 1e-07
Identities = 28/110 (25%), Positives = 48/110 (43%), Gaps = 14/110 (12%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+KV +TG S GIG+A+ +L + G+ ++ + V V
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINFDIKEPSYNDVDYFKV------------ 51
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDREL 153
DV+ + + D VI ++G +DIL+NNAG A +E + +
Sbjct: 52 --DVSNKEQVIKGIDYVISKYGRIDILVNNAGIESYGAIHAVEEDEWDRI 99
Score = 47.9 bits (114), Expect = 1e-06
Identities = 23/89 (25%), Positives = 44/89 (49%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
+DV+ + + D VI ++G +DIL+NNAG A +E + + +NV +
Sbjct: 49 FKVDVSNKEQVIKGIDYVISKYGRIDILVNNAGIESYGAIHAVEEDEWDRIINVNVNGIF 108
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIV 253
+S+ Y L +++G + + S + V
Sbjct: 109 LMSKYTIPYMLKQDKGVIINIASVQSFAV 137
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 51.8 bits (124), Expect = 1e-07
Identities = 29/100 (29%), Positives = 50/100 (50%), Gaps = 2/100 (2%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQR--AAWEDIELEVDRELFELNVFS 222
L +DV+ R F+ + ++FG +D+L+NNAG + A D LE L +N+
Sbjct: 56 LAMDVSDEAQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATLDTTLEEFARLQAINLTG 115
Query: 223 VLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
++R A + + G +V +S AG+V P +Y+
Sbjct: 116 AYLVAREALRLMIEQGHGAAIVNVASGAGLVALPKRTAYS 155
Score = 49.8 bits (119), Expect = 5e-07
Identities = 29/89 (32%), Positives = 51/89 (57%), Gaps = 6/89 (6%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
+VV +TGA+ GIG A + ++ G ++V++ R N+ER + G + L +D
Sbjct: 6 RVVLVTGAAGGIGRAACQRFARAGDQVVVADR---NVERARERADSLGPDHHA---LAMD 59
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
V+ R F+ + ++FG +D+L+NNAG
Sbjct: 60 VSDEAQIREGFEQLHREFGRIDVLVNNAG 88
Score = 45.2 bits (107), Expect = 2e-05
Identities = 25/89 (28%), Positives = 45/89 (50%), Gaps = 6/89 (6%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
+VV ITG + GIG A+A + + G +L++ R + +++ H ++ D
Sbjct: 270 RVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEAL--GDEHL----SVQAD 323
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+T F + ++G LD+L+NNAG
Sbjct: 324 ITDEAAVESAFAQIQARWGRLDVLVNNAG 352
Score = 39.1 bits (91), Expect = 0.002
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 179 FDAVIQQFGCLDILINNAG-RSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAR 237
F + ++G LD+L+NNAG + E ++++N+ + +R A
Sbjct: 334 FAQIQARWGRLDVLVNNAGIAEVFKPSLEQSAEDFTRVYDVNLSGAFACARAAAR---LM 390
Query: 238 EQGGHLVVTSSIAGIVGAPYSGSY 261
QGG +V SIA ++ P +Y
Sbjct: 391 SQGGVIVNLGSIASLLALPPRNAY 414
>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 = 50.9 bits (122), Expect = 2e-07
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 5/92 (5%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSN-LERVKNLCVQAGAHPQSIYTL 103
+ K+ +TGAS GIG +ALQL + GA + ++ R+ L G +
Sbjct: 2 SGKIALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEARGGKCIPVRC- 60
Query: 104 TLDVTQTKYHRRCFDAV-IQQFGCLDILINNA 134
D + F+ V +Q G LDIL+NNA
Sbjct: 61 --DHSDDDEVEALFERVAREQQGRLDILVNNA 90
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 50.8 bits (122), Expect = 2e-07
Identities = 33/100 (33%), Positives = 47/100 (47%), Gaps = 12/100 (12%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVL---------SARSSSNLERVKNLCVQAGA 95
+ +VV +TGA GIG A AL + GA++V+ SA S + V + V AG
Sbjct: 5 DGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAAGG 64
Query: 96 HPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D+ DA ++ FG LD+L+NNAG
Sbjct: 65 ---EAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNAG 101
Score = 35.0 bits (81), Expect = 0.028
Identities = 29/112 (25%), Positives = 46/112 (41%), Gaps = 31/112 (27%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDIELEVDRELFELN 219
D+ DA ++ FG LD+L+NNAG W+ + +
Sbjct: 72 DIADWDGAANLVDAAVETFGGLDVLVNNAGILRDRMIANMSEEEWDAV----------IA 121
Query: 220 V-----FSVLSLSRIATSYFLAREQGGH-----LVVTSSIAGIVGAPYSGSY 261
V F+ L R A +Y+ A + G ++ TSS AG+ G+ G+Y
Sbjct: 122 VHLKGHFATL---RHAAAYWRAESKAGRAVDARIINTSSGAGLQGSVGQGNY 170
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 49.9 bits (120), Expect = 3e-07
Identities = 32/109 (29%), Positives = 51/109 (46%), Gaps = 14/109 (12%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQ-AGAHPQSIYTLTL 105
ITGAS GIG A+A +L+ L+L R + ER+ L + GA P +
Sbjct: 4 PTALITGASRGIGAAIARELAP-THTLLLGGRPA---ERLDELAAELPGATP-----FPV 54
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
D+T + A ++Q G LD+L++NAG + + ++ R
Sbjct: 55 DLTDPE----AIAAAVEQLGRLDVLVHNAGVADLGPVAESTVDEWRATL 99
Score = 46.1 bits (110), Expect = 5e-06
Identities = 30/104 (28%), Positives = 49/104 (47%), Gaps = 10/104 (9%)
Query: 160 PSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELN 219
P +D+T + A ++Q G LD+L++NAG + + ++ R E+N
Sbjct: 47 PGATPFPVDLTDPE----AIAAAVEQLGRLDVLVHNAGVADLGPVAESTVDEWRATLEVN 102
Query: 220 VFSVLSLSRIATSYFLA--REQGGHLVVTSSIAGIVGAPYSGSY 261
V + L+R+ L R GH+V +S AG+ P GSY
Sbjct: 103 VVAPAELTRL----LLPALRAAHGHVVFINSGAGLRANPGWGSY 142
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 50.6 bits (122), Expect = 3e-07
Identities = 29/98 (29%), Positives = 46/98 (46%), Gaps = 24/98 (24%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCV---QAGAHPQSI--- 100
KV +TGA+ GIG A+A L++ GA +V C+ AG ++
Sbjct: 211 KVALVTGAARGIGAAIAEVLARDGAHVV---------------CLDVPAAGEALAAVANR 255
Query: 101 ---YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
L LD+T R + + ++ G LDI+++NAG
Sbjct: 256 VGGTALALDITAPDAPARIAEHLAERHGGLDIVVHNAG 293
>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 = 49.6 bits (119), Expect = 4e-07
Identities = 29/93 (31%), Positives = 45/93 (48%), Gaps = 4/93 (4%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSS-NLERVKNLCVQAGAHPQSIYT 102
KV +TG S GIG A+A L++ GA + + S+ E+ + L A +
Sbjct: 6 LKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEEL---AKKYGVKTKA 62
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV+ + + F + + FG +DILI NAG
Sbjct: 63 YKCDVSSQESVEKTFKQIQKDFGKIDILIANAG 95
Score = 48.5 bits (116), Expect = 8e-07
Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 9/123 (7%)
Query: 135 GRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILIN 194
+ RA + EL + T AY+ DV+ + + F + + FG +DILI
Sbjct: 40 NSAPRAEEKAEELAKKYGVKTKAYK-------CDVSSQESVEKTFKQIQKDFGKIDILIA 92
Query: 195 NAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAG-IV 253
NAG + D E ++ ++N+ V + ++ A F + G L++T+S++G IV
Sbjct: 93 NAGITVHKPALDYTYEQWNKVIDVNLNGVFNCAQAAAKIFKKQ-GKGSLIITASMSGTIV 151
Query: 254 GAP 256
P
Sbjct: 152 NRP 154
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 49.4 bits (118), Expect = 4e-07
Identities = 28/109 (25%), Positives = 55/109 (50%), Gaps = 12/109 (11%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDV 107
+V +TGA++G GE + + + G K++ + R L+ +K+ + G ++Y LDV
Sbjct: 2 IVLVTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKD---ELGD---NLYIAQLDV 55
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAG------RSQRAAWEDIELEVD 150
++ ++ +D+L+NNAG + +A+ ED E +D
Sbjct: 56 RNRAAIEEMLASLPAEWRNIDVLVNNAGLALGLEPAHKASVEDWETMID 104
>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 = 49.2 bits (118), Expect = 4e-07
Identities = 36/108 (33%), Positives = 48/108 (44%), Gaps = 10/108 (9%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVL-SARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQ 109
ITGAS GIG L QL G V+ + R S + L GA ++ L LDV
Sbjct: 3 ITGASRGIGLELVRQLLARGNNTVIATCRDPSAATELAAL----GASHSRLHILELDV-- 56
Query: 110 TKYHRRCFDAVIQ--QFGCLDILINNAGR-SQRAAWEDIELEVDRELF 154
T +AV + LD+LINNAG +++ E E+F
Sbjct: 57 TDEIAESAEAVAERLGDAGLDVLINNAGILHSYGPASEVDSEDLLEVF 104
Score = 38.0 bits (89), Expect = 0.003
Identities = 30/101 (29%), Positives = 46/101 (45%), Gaps = 6/101 (5%)
Query: 165 LTLDVTQTKYHRRCFDAVIQ--QFGCLDILINNAGR-SQRAAWEDIELEVDRELFELNVF 221
L LDVT +AV + LD+LINNAG +++ E E+F++NV
Sbjct: 52 LELDVT--DEIAESAEAVAERLGDAGLDVLINNAGILHSYGPASEVDSEDLLEVFQVNVL 109
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
L L++ A L + ++ SS G +G SG +
Sbjct: 110 GPLLLTQ-AFLPLLLKGARAKIINISSRVGSIGDNTSGGWY 149
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 49.6 bits (119), Expect = 4e-07
Identities = 32/111 (28%), Positives = 48/111 (43%), Gaps = 10/111 (9%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
K ITG +SGIG A Q GA++ ++ R ++LE + + G I
Sbjct: 4 LQGKTALITGGTSGIGLETARQFLAEGARVAITGRDPASLEAARA---ELGESALVIRAD 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
DV + A+ + FG LD + NAG ++ A ED D +F
Sbjct: 61 AGDVAA---QKALAQALAEAFGRLDAVFINAGVAKFAPLED----WDEAMF 104
Score = 31.5 bits (72), Expect = 0.35
Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 11/86 (12%)
Query: 180 DAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNV----FSVLSLSRIATSYFL 235
A+ + FG LD + NAG ++ A ED + + F NV F + +L + L
Sbjct: 72 QALAEAFGRLDAVFINAGVAKFAPLEDWDEAMFDRSFNTNVKGPYFLIQALLPL-----L 126
Query: 236 AREQGGHLVVTSSIAGIVGAPYSGSY 261
A +V+ SI +G P S Y
Sbjct: 127 AN--PASIVLNGSINAHIGMPNSSVY 150
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 49.3 bits (118), Expect = 4e-07
Identities = 30/110 (27%), Positives = 49/110 (44%), Gaps = 5/110 (4%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARS-SSNLERVKNLCVQAGAHPQSIYTL 103
K +TG+S GIG A L+ GA +V++ R + +V AG +
Sbjct: 5 PGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIEAAGGRAS---AV 61
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNA-GRSQRAAWEDIELEVDRE 152
D+T + D ++FG LD L+ NA G + ED + ++R+
Sbjct: 62 GADLTDEESVAALMDTAREEFGGLDALVLNASGGMESGMDEDYAMRLNRD 111
Score = 28.5 bits (64), Expect = 3.2
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNA-GRSQRAAWEDIELEVDRE 214
+ D+T + D ++FG LD L+ NA G + ED + ++R+
Sbjct: 60 AVGADLTDEESVAALMDTAREEFGGLDALVLNASGGMESGMDEDYAMRLNRD 111
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 49.2 bits (118), Expect = 4e-07
Identities = 49/221 (22%), Positives = 69/221 (31%), Gaps = 84/221 (38%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F K V ITGA+SGIG A A GA+ V + N + L
Sbjct: 3 FMTKTVLITGAASGIGLAQARAFLAQGAQ-VYGVDKQDKPDLSGNF-----------HFL 50
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIY 163
LD++ + + +DIL N AG +D Y+P
Sbjct: 51 QLDLSDD------LEPLFDWVPSVDILCNTAGI------------LD------DYKP--- 83
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
LD + W+ I F+ N+ S
Sbjct: 84 --LLDTSL------------------------------EEWQHI--------FDTNLTST 103
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIV----GAPYSGS 260
L+R L R + G ++ SIA V GA Y+ S
Sbjct: 104 FLLTRAYLPQMLER-KSGIIINMCSIASFVAGGGGAAYTAS 143
>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 = 49.4 bits (118), Expect = 4e-07
Identities = 38/159 (23%), Positives = 69/159 (43%), Gaps = 23/159 (14%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+VV +TG +SG+G A+ + GA++ + +S++ L+ ++ AH ++ +
Sbjct: 4 KGEVVLVTGGASGLGRAIVDRFVAEGARVAVLDKSAAGLQELEA------AHGDAVVGVE 57
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWE------DIELEVDRELFTYAY 158
DV H+ + FG +D LI NAG W+ DI + E F +
Sbjct: 58 GDVRSLDDHKEAVARCVAAFGKIDCLIPNAG-----IWDYSTALVDIPDDRIDEAFDEVF 112
Query: 159 RPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 197
++ L V + A++ G + I+NAG
Sbjct: 113 HINVKGYLLAV------KAALPALVASRGSVIFTISNAG 145
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 49.3 bits (118), Expect = 4e-07
Identities = 30/95 (31%), Positives = 40/95 (42%), Gaps = 16/95 (16%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLS----ARSSSNLERVKNLCVQAGAHPQSIYT 102
+V ITG SGIG A A +L+ GA +V+ + + V L V
Sbjct: 8 RVAVITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEVGGLFVPT--------- 58
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRS 137
DVT FD + +G +DI NNAG S
Sbjct: 59 ---DVTDEDAVNALFDTAAETYGSVDIAFNNAGIS 90
Score = 47.0 bits (112), Expect = 3e-06
Identities = 27/98 (27%), Positives = 49/98 (50%), Gaps = 4/98 (4%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRS--QRAAWEDIELEVDRELFELNVFSVLS 225
DVT FD + +G +DI NNAG S + + + L+ + + ++N+ SV
Sbjct: 59 DVTDEDAVNALFDTAAETYGSVDIAFNNAGISPPEDDSILNTGLDAWQRVQDVNLTSVYL 118
Query: 226 LSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSG-SYT 262
+ A + + R+ G ++ T+S ++G+ S SYT
Sbjct: 119 CCKAALPHMV-RQGKGSIINTASFVAVMGSATSQISYT 155
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 49.2 bits (118), Expect = 5e-07
Identities = 24/83 (28%), Positives = 46/83 (55%)
Query: 179 FDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLARE 238
DA++++ G LD+L+NNAG S A + ++ ELN+ + L +++ A + +
Sbjct: 66 VDAIVERHGRLDVLVNNAGGSPYALAAEASPRFHEKIVELNLLAPLLVAQAANAVMQQQP 125
Query: 239 QGGHLVVTSSIAGIVGAPYSGSY 261
GG +V S++G +P + +Y
Sbjct: 126 GGGSIVNIGSVSGRRPSPGTAAY 148
Score = 48.4 bits (116), Expect = 9e-07
Identities = 28/94 (29%), Positives = 41/94 (43%), Gaps = 11/94 (11%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+VV +TG + GIG +A GA +V+ R + E V A
Sbjct: 4 LTGRVVLVTGGTRGIGAGIARAFLAAGATVVVCGRRAP--ETVDG----RPAE-----FH 52
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRS 137
DV DA++++ G LD+L+NNAG S
Sbjct: 53 AADVRDPDQVAALVDAIVERHGRLDVLVNNAGGS 86
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 49.0 bits (117), Expect = 5e-07
Identities = 35/93 (37%), Positives = 48/93 (51%), Gaps = 14/93 (15%)
Query: 179 FDAVIQQFGCLDILINNAG---RSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFL 235
FDAV FG LD L+NNAG S A D++ R +F+ NV +R A L
Sbjct: 71 FDAVQSAFGRLDALVNNAGIVAPSMPLA--DMDAARLRRMFDTNVLGAYLCAREAARR-L 127
Query: 236 AREQGGH---LVVTSSIAGIVGAP-----YSGS 260
+ ++GG +V SSIA +G+P Y+GS
Sbjct: 128 STDRGGRGGAIVNVSSIASRLGSPNEYVDYAGS 160
Score = 48.6 bits (116), Expect = 8e-07
Identities = 34/90 (37%), Positives = 44/90 (48%), Gaps = 4/90 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLS-ARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KVV ITGAS GIG A A+ + G + ++ AR ++ E + AG +
Sbjct: 3 KVVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVRAAGGRACVVAG--- 59
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV FDAV FG LD L+NNAG
Sbjct: 60 DVANEADVIAMFDAVQSAFGRLDALVNNAG 89
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 48.9 bits (117), Expect = 8e-07
Identities = 33/91 (36%), Positives = 50/91 (54%), Gaps = 5/91 (5%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQ-AGAHPQSIYTL-T 104
+V +TGA++G+G A L+ GA +VL+ R NL++ K + A P + TL
Sbjct: 17 RVAVVTGANTGLGYETAAALAAKGAHVVLAVR---NLDKGKAAAARITAATPGADVTLQE 73
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
LD+T R DA+ + +D+LINNAG
Sbjct: 74 LDLTSLASVRAAADALRAAYPRIDLLINNAG 104
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 48.5 bits (116), Expect = 1e-06
Identities = 28/110 (25%), Positives = 44/110 (40%), Gaps = 10/110 (9%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+ + ITG SSGIG A L G ++ + R ++ ++ + + L
Sbjct: 4 KRSILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEA---------EGLEAFQL 54
Query: 106 DVTQTKYHRRCFDAVIQQF-GCLDILINNAGRSQRAAWEDIELEVDRELF 154
D + + V++ G LD L NN Q A ED+ E R F
Sbjct: 55 DYAEPESIAALVAQVLELSGGRLDALFNNGAYGQPGAVEDLPTEALRAQF 104
Score = 46.9 bits (112), Expect = 3e-06
Identities = 31/77 (40%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 187 GCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQG-GHLVV 245
G LD L NN Q A ED+ E R FE N F L+R R+QG G +V
Sbjct: 75 GRLDALFNNGAYGQPGAVEDLPTEALRAQFEANFFGWHDLTRRVIPVM--RKQGQGRIVQ 132
Query: 246 TSSIAGIVGAPYSGSYT 262
SSI G+V Y G+Y
Sbjct: 133 CSSILGLVPMKYRGAYN 149
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 48.2 bits (115), Expect = 1e-06
Identities = 26/87 (29%), Positives = 42/87 (48%), Gaps = 7/87 (8%)
Query: 50 W-ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
W ITGASSG G + +L G ++ + R L+ +K + ++ L LDVT
Sbjct: 5 WFITGASSGFGRGMTERLLARGDRVAATVRRPDALDDLKA------RYGDRLWVLQLDVT 58
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAG 135
+ R D G +D++++NAG
Sbjct: 59 DSAAVRAVVDRAFAALGRIDVVVSNAG 85
Score = 43.2 bits (102), Expect = 5e-05
Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 1/105 (0%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 216
Y ++ L LDVT + R D G +D++++NAG A E++ R
Sbjct: 45 RYGDRLWVLQLDVTDSAAVRAVVDRAFAALGRIDVVVSNAGYGLFGAAEELSDAQIRRQI 104
Query: 217 ELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ N+ + + R A + L R+ GG +V SS G + P Y
Sbjct: 105 DTNLIGSIQVIRAALPH-LRRQGGGRIVQVSSEGGQIAYPGFSLY 148
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 47.9 bits (114), Expect = 1e-06
Identities = 55/222 (24%), Positives = 79/222 (35%), Gaps = 69/222 (31%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KV+ ITGAS GIG A AL ++ G + L+
Sbjct: 2 RKVMIITGASRGIGAATALLAAERGYAVCLNYLR-------------------------- 35
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTL 165
+R +AV+Q I G A D+ E D
Sbjct: 36 -------NRDAAEAVVQA-------IRRQGGEALAVAADVADEADVL------------- 68
Query: 166 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG-RSQRAAWEDIELEVDRELFELNVFSVL 224
R F+AV ++ G LD L+NNAG + E ++ +F NV
Sbjct: 69 -----------RLFEAVDRELGRLDALVNNAGILEAQMRLEQMDAARLTRIFATNVVGSF 117
Query: 225 SLSRIATSYFLARE--QGGHLVVTSSIAGIVGAPYSGSYTDH 264
+R A R +GG +V SS+A +G+P G Y D+
Sbjct: 118 LCAREAVKRMSTRHGGRGGAIVNVSSMAARLGSP--GEYIDY 157
>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 = 47.9 bits (114), Expect = 2e-06
Identities = 30/91 (32%), Positives = 42/91 (46%), Gaps = 7/91 (7%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
K ++ITG+S G+G A A L G ++VL ARS K C P + L
Sbjct: 6 PMKRIFITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAKAAC------PGAAGVLI 59
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D++ R+ D V G D +I+NAG
Sbjct: 60 GDLSSLAETRKLADQV-NAIGRFDAVIHNAG 89
>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 = 47.8 bits (114), Expect = 2e-06
Identities = 31/89 (34%), Positives = 46/89 (51%), Gaps = 12/89 (13%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV IT A+ GIG A+AL ++ GA ++ + N E++K L G I T LD
Sbjct: 3 KVALITAAAQGIGRAIALAFAREGANVIA---TDINEEKLKELERGPG-----ITTRVLD 54
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
VT + A+ ++ G +D+L N AG
Sbjct: 55 VTD----KEQVAALAKEEGRIDVLFNCAG 79
Score = 40.5 bits (95), Expect = 3e-04
Identities = 36/115 (31%), Positives = 53/115 (46%), Gaps = 11/115 (9%)
Query: 144 DIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA 203
DI E +EL P I T LDVT + A+ ++ G +D+L N AG +
Sbjct: 33 DINEEKLKELERG---PGITTRVLDVTD----KEQVAALAKEEGRIDVLFNCAGFVHHGS 85
Query: 204 WEDIELEVDREL-FELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAG-IVGAP 256
D E + D + LNV S+ + + LAR + G ++ SS+A I G P
Sbjct: 86 ILDCE-DDDWDFAMNLNVRSMYLMIKAVLPKMLAR-KDGSIINMSSVASSIKGVP 138
>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 = 46.8 bits (111), Expect = 3e-06
Identities = 27/89 (30%), Positives = 46/89 (51%), Gaps = 3/89 (3%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
NKV +T ++ GIG A+A +L++ GA +V+S+R N++R G S+
Sbjct: 10 NKVALVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQGEGL---SVTGTVC 66
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNA 134
V + + R + G +DIL++NA
Sbjct: 67 HVGKAEDRERLVATAVNLHGGVDILVSNA 95
Score = 27.5 bits (61), Expect = 6.5
Identities = 27/104 (25%), Positives = 43/104 (41%), Gaps = 9/104 (8%)
Query: 167 LDVTQTKYH-------RRCFDAVIQQFGCLDILINNAGRSQRAA-WEDIELEVDRELFEL 218
L VT T H R + G +DIL++NA + D EV ++ ++
Sbjct: 59 LSVTGTVCHVGKAEDRERLVATAVNLHGGVDILVSNAAVNPFFGNILDSTEEVWDKILDV 118
Query: 219 NVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
NV + +++ R GG +V+ SS+A P G Y
Sbjct: 119 NVKATALMTKAVVPEMEKR-GGGSVVIVSSVAAFHPFPGLGPYN 161
>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 = 46.4 bits (111), Expect = 3e-06
Identities = 27/108 (25%), Positives = 48/108 (44%), Gaps = 7/108 (6%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+TGA+ GIG+A A +L+K G ++L +R+ L+ V + + T+
Sbjct: 1 GTWAVVTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEE--KYGVETKTIAA 58
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDI--LINNAGRSQRAAWEDIELEVDR 151
D + ++ + ++ LDI L+NN G S +E D
Sbjct: 59 DFSAGD---DIYERIEKELEGLDIGILVNNVGISHSIPEYFLETPEDE 103
Score = 43.4 bits (103), Expect = 4e-05
Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 11/85 (12%)
Query: 190 DILINNAGRSQRAAWEDIELEVD--RELFELNVFSVLSLSRIATSYFLAREQGGHLVVT- 246
IL+NN G S +E D +++ +NV + L ++R+ + R++G +V
Sbjct: 80 GILVNNVGISHSIPEYFLETPEDELQDIINVNVMATLKMTRLILPGMVKRKKG--AIVNI 137
Query: 247 SSIAGIV----GAPYSGS--YTDHL 265
SS AG++ A YS S + D
Sbjct: 138 SSFAGLIPTPLLATYSASKAFLDFF 162
>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 = 46.2 bits (110), Expect = 4e-06
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 2/88 (2%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDV 107
V + GA G+G A+A + + G + L+AR + LE + ++ S + D
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDAGG--SAKAVPTDA 58
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAG 135
FD + ++ G L++L+ NAG
Sbjct: 59 RDEDEVIALFDLIEEEIGPLEVLVYNAG 86
Score = 39.3 bits (92), Expect = 9e-04
Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 1/95 (1%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSL 226
D FD + ++ G L++L+ NAG + + V +++E+ F
Sbjct: 56 TDARDEDEVIALFDLIEEEIGPLEVLVYNAGANVWFPILETTPRVFEKVWEMAAFGGFLA 115
Query: 227 SRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+R A LAR G ++ T + A + G ++
Sbjct: 116 AREAAKRMLAR-GRGTIIFTGATASLRGRAGFAAF 149
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 45.8 bits (109), Expect = 6e-06
Identities = 27/112 (24%), Positives = 50/112 (44%), Gaps = 10/112 (8%)
Query: 47 KVVWITGAS--SGIGEALALQLSKCGAKLVLS------ARSSSNLERVKNLCVQA--GAH 96
K+ +TGAS +GIG A+ +L+ G + + + + + ++ ++
Sbjct: 6 KIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEIESY 65
Query: 97 PQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
+ +D++Q R F AV ++ G ILINNA S E++ E
Sbjct: 66 GVRCEHMEIDLSQPYAPNRVFYAVSERLGDPSILINNAAYSTHTRLEELTAE 117
Score = 44.3 bits (105), Expect = 3e-05
Identities = 23/83 (27%), Positives = 40/83 (48%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
+ +D++Q R F AV ++ G ILINNA S E++ E + + +NV + +
Sbjct: 72 MEIDLSQPYAPNRVFYAVSERLGDPSILINNAAYSTHTRLEELTAEQLDKHYAVNVRATM 131
Query: 225 SLSRIATSYFLAREQGGHLVVTS 247
LS + + G + +TS
Sbjct: 132 LLSSAFAKQYDGKAGGRIINLTS 154
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 46.1 bits (109), Expect = 6e-06
Identities = 31/102 (30%), Positives = 50/102 (49%), Gaps = 8/102 (7%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
N KV ITG ++G+G+ +A+ L+K GA +V + Q A + + +
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIV-----GVGVAEAPETQAQVEALGRKFHFI 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI 145
T D+ Q K ++ G +DILINNAG +R +D+
Sbjct: 61 TADLIQQKDIDSIVSQAVEVMGHIDILINNAGIIRR---QDL 99
Score = 38.0 bits (88), Expect = 0.002
Identities = 29/104 (27%), Positives = 49/104 (47%), Gaps = 8/104 (7%)
Query: 163 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRE----LFEL 218
+ +T D+ Q K ++ G +DILINNAG +R +D+ LE + + +
Sbjct: 58 HFITADLIQQKDIDSIVSQAVEVMGHIDILINNAGIIRR---QDL-LEFGNKDWDDVINI 113
Query: 219 NVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
N +V LS+ F+ + GG ++ +S+ G SYT
Sbjct: 114 NQKTVFFLSQAVAKQFVKQGNGGKIINIASMLSFQGGIRVPSYT 157
>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 = 45.7 bits (108), Expect = 8e-06
Identities = 27/108 (25%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+K +TG GIG A + ++ GAK+ + + E+V G + Q+
Sbjct: 3 DKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRAKGGNAQAF---AC 59
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDI 145
D+T A Q G +D+L+NNAG +++ WE +
Sbjct: 60 DITDRDSVDTAVAAAEQALGPVDVLVNNAGWDKFGPFTKTEPPLWERL 107
Score = 28.3 bits (63), Expect = 4.0
Identities = 22/90 (24%), Positives = 35/90 (38%), Gaps = 17/90 (18%)
Query: 181 AVIQQFGCLDILINNAG--------RSQRAAWEDIELEVDRELFELNVFSVLSLSRIATS 232
A Q G +D+L+NNAG +++ WE L +N+ L +
Sbjct: 73 AAEQALGPVDVLVNNAGWDKFGPFTKTEPPLWE--------RLIAINLTGALHMHHAVLP 124
Query: 233 YFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+ R G +V +S A VG+ Y
Sbjct: 125 GMVERGA-GRIVNIASDAARVGSSGEAVYA 153
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 45.2 bits (107), Expect = 9e-06
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 7/64 (10%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
V ITGA+SGIG+ LAL +K G +++ R+ S L+ + +I+TL
Sbjct: 1 MTAVLITGATSGIGKQLALDYAKQGWQVIACGRNQSVLDEL-------HTQSANIFTLAF 53
Query: 106 DVTQ 109
DVT
Sbjct: 54 DVTD 57
Score = 28.3 bits (63), Expect = 3.3
Identities = 22/106 (20%), Positives = 42/106 (39%), Gaps = 8/106 (7%)
Query: 157 AYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCL-DILINNAGRSQRAAWEDIELEVDREL 215
+I+TL DVT + + Q + ++ I NAG + ++ + +
Sbjct: 43 TQSANIFTLAFDVTDHPGTKA----ALSQLPFIPELWIFNAGDCEYMDDGKVDATLMARV 98
Query: 216 FELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
F +NV V + + G +V+ SIA + P + +Y
Sbjct: 99 FNVNVLGVANCIEGIQPHL---SCGHRVVIVGSIASELALPRAEAY 141
>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 = 45.3 bits (107), Expect = 9e-06
Identities = 26/85 (30%), Positives = 45/85 (52%), Gaps = 1/85 (1%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQT 110
ITGA+SGIG+A AL ++K G + + R+ + E + + Q+I+ +D++
Sbjct: 6 ITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGN-QNIFLHIVDMSDP 64
Query: 111 KYHRRCFDAVIQQFGCLDILINNAG 135
K + ++ L +LINNAG
Sbjct: 65 KQVWEFVEEFKEEGKKLHVLINNAG 89
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 45.2 bits (107), Expect = 1e-05
Identities = 29/94 (30%), Positives = 47/94 (50%), Gaps = 13/94 (13%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVL-----SARSSSNLERVKNLCVQAGAHPQSIY 101
KV +TGA++G+G A AL L++ GA +V+ + +S L+ ++ +A A
Sbjct: 13 KVAVVTGAAAGLGRAEALGLARLGATVVVNDVASALDASDVLDEIRAAGAKAVAV----- 67
Query: 102 TLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D++Q A G LDI++NNAG
Sbjct: 68 --AGDISQRATADELV-ATAVGLGGLDIVVNNAG 98
Score = 37.5 bits (87), Expect = 0.004
Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 28/89 (31%)
Query: 184 QQFGCLDILINNAGRSQRAAWEDIELEVDRELFELN------VFSV-----LSLSRIATS 232
G LDI++NNAG ++ DR LF ++ V +V L+R A +
Sbjct: 85 VGLGGLDIVVNNAGITR-----------DRMLFNMSDEEWDAVIAVHLRGHFLLTRNAAA 133
Query: 233 YFLAREQG------GHLVVTSSIAGIVGA 255
Y+ A+ + G +V TSS AG+VG
Sbjct: 134 YWRAKAKAAGGPVYGRIVNTSSEAGLVGP 162
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 44.8 bits (106), Expect = 1e-05
Identities = 28/90 (31%), Positives = 43/90 (47%), Gaps = 4/90 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLS-ARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+ +TG S GIG A AL L++ G + ++ ++ + V NL QAG + L
Sbjct: 2 AIALVTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQAGG---KAFVLQA 58
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D++ F A+ Q L L+NNAG
Sbjct: 59 DISDENQVVAMFTAIDQHDEPLAALVNNAG 88
Score = 37.1 bits (86), Expect = 0.005
Identities = 31/99 (31%), Positives = 40/99 (40%), Gaps = 25/99 (25%)
Query: 179 FDAVIQQFGCLDILINNAG-RSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFL-A 236
F A+ Q L L+NNAG + E++ E + NV T YFL
Sbjct: 70 FTAIDQHDEPLAALVNNAGILFTQCTVENLTAERINRVLSTNV----------TGYFLCC 119
Query: 237 RE-----------QGGHLVVTSSIAGIVGAPYSGSYTDH 264
RE GG +V SS A +GAP G Y D+
Sbjct: 120 REAVKRMALKHGGSGGAIVNVSSAASRLGAP--GEYVDY 156
>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 = 44.9 bits (106), Expect = 1e-05
Identities = 27/103 (26%), Positives = 48/103 (46%), Gaps = 6/103 (5%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
KV +TG GIG+ + L + G K+V + + ER + G + ++
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVF---ADIDEERGADFAEAEGPNLFFVHGDVA 57
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
D T K+ A++++ G +D+L+NNA R + + LE
Sbjct: 58 DETLVKFVVY---AMLEKLGRIDVLVNNAARGSKGILSSLLLE 97
Score = 38.3 bits (89), Expect = 0.002
Identities = 27/126 (21%), Positives = 53/126 (42%), Gaps = 5/126 (3%)
Query: 140 AAWEDIELEVDREL---FTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNA 196
A + + ++D E F A P+++ + DV + A++++ G +D+L+NNA
Sbjct: 24 AGDKVVFADIDEERGADFAEAEGPNLFFVHGDVADETLVKFVVYAMLEKLGRIDVLVNNA 83
Query: 197 GRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAP 256
R + + LE + +N+ LSR + G ++ +S P
Sbjct: 84 ARGSKGILSSLLLEEWDRILSVNLTGPYELSRYCRDEL--IKNKGRIINIASTRAFQSEP 141
Query: 257 YSGSYT 262
S +Y
Sbjct: 142 DSEAYA 147
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 44.9 bits (106), Expect = 2e-05
Identities = 29/101 (28%), Positives = 50/101 (49%), Gaps = 7/101 (6%)
Query: 41 LNYFN--NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQ 98
L+ F+ KV +TG +G+G+ +AL L++ G +V N+ Q A +
Sbjct: 3 LDAFSLEGKVAVVTGCDTGLGQGMALGLAEAGCDIV-----GINIVEPTETIEQVTALGR 57
Query: 99 SIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQR 139
+LT D+ + + + +FG +DIL+NNAG +R
Sbjct: 58 RFLSLTADLRKIDGIPALLERAVAEFGHIDILVNNAGLIRR 98
Score = 43.7 bits (103), Expect = 4e-05
Identities = 32/99 (32%), Positives = 53/99 (53%), Gaps = 2/99 (2%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA-AWEDIELEVDRELFELNVFSV 223
LT D+ + + + +FG +DIL+NNAG +R A E E + D ++ LN+ SV
Sbjct: 62 LTADLRKIDGIPALLERAVAEFGHIDILVNNAGLIRREDAIEFSEKDWD-DVMNLNIKSV 120
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
+S+ A +F+A+ GG ++ +S+ G SYT
Sbjct: 121 FFMSQAAAKHFIAQGNGGKIINIASMLSFQGGIRVPSYT 159
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 44.6 bits (106), Expect = 2e-05
Identities = 23/91 (25%), Positives = 41/91 (45%), Gaps = 3/91 (3%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F K V + G +SGI +A ++ GA + +++RS E+V Q +
Sbjct: 7 FAGKNVVVVGGTSGINLGIAQAFARAGANVAVASRS---QEKVDAAVAQLQQAGPEGLGV 63
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNA 134
+ DV F + +FG +D+L++ A
Sbjct: 64 SADVRDYAAVEAAFAQIADEFGPIDVLVSGA 94
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 44.6 bits (106), Expect = 2e-05
Identities = 36/145 (24%), Positives = 58/145 (40%), Gaps = 17/145 (11%)
Query: 126 CLDILINNAGRSQRAAWEDIELEVDRELF---TYAYRPSIYTLT-LDVTQTKYHRRCFDA 181
IL DI+ E EL ++ +L LD+T +
Sbjct: 21 VKAILEAGG----IVIAADIDKEALNELLESLGKEFKSKKLSLVELDITDQESLEEFLSK 76
Query: 182 VIQQFGCLDILINNA---GRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLARE 238
+++G +D +N A + + D+ L+ E L++ S S+ YF ++
Sbjct: 77 SAEKYGKIDGAVNCAYPRNKDYGKKFFDVSLDDFNENLSLHLGSSFLFSQQFAKYFK-KQ 135
Query: 239 QGGHLVVTSSIAGIVGAP----YSG 259
GG+LV SSI G+V AP Y G
Sbjct: 136 GGGNLVNISSIYGVV-APKFEIYEG 159
Score = 43.4 bits (103), Expect = 4e-05
Identities = 22/108 (20%), Positives = 47/108 (43%), Gaps = 6/108 (5%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNL-ERVKNLCVQAGAHPQSIYTL 103
K + ITGA IG AL + + G ++ + L E +++L + + + + +
Sbjct: 3 KGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKS--KKLSLV 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNA---GRSQRAAWEDIELE 148
LD+T + +++G +D +N A + + D+ L+
Sbjct: 61 ELDITDQESLEEFLSKSAEKYGKIDGAVNCAYPRNKDYGKKFFDVSLD 108
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 44.4 bits (105), Expect = 2e-05
Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 11/89 (12%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAG----AHPQSIYTLTLD 106
+ GASSGIG A A++L+ G + L AR E + + G A P LD
Sbjct: 15 VAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRADGGEAVAFP-------LD 67
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
VT + + G +++L++ AG
Sbjct: 68 VTDPDSVKSFVAQAEEALGEIEVLVSGAG 96
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 44.1 bits (105), Expect = 2e-05
Identities = 34/112 (30%), Positives = 51/112 (45%), Gaps = 10/112 (8%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERV-KNLCVQAGAHPQSIYTLTL 105
K + I GA+S I A A + + GA+L L+AR LER+ +L + ++ T L
Sbjct: 2 KKILIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLRARGA---VAVSTHEL 58
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGR--SQRAAWEDIELEVDRELFT 155
D+ T H D++ DI++ G Q A D L + RE T
Sbjct: 59 DILDTASHAAFLDSLPAL---PDIVLIAVGTLGDQAACEADPALAL-REFRT 106
Score = 31.8 bits (73), Expect = 0.23
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 8/87 (9%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGR--SQRAAWEDIELEVDRELFELNVFSVL 224
LD+ T H D++ DI++ G Q A D L + RE F N +
Sbjct: 58 LDILDTASHAAFLDSLPAL---PDIVLIAVGTLGDQAACEADPALAL-RE-FRTNFEGPI 112
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAG 251
+L + + F AR G +V SS+AG
Sbjct: 113 ALLTLLANRFEAR-GSGTIVGISSVAG 138
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 44.0 bits (104), Expect = 3e-05
Identities = 34/111 (30%), Positives = 46/111 (41%), Gaps = 8/111 (7%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVL----SARSSSNLERVKNLCVQAGAHPQSI 100
KVV I G + +G +A L+ GAK V SA S ++ E AGA +
Sbjct: 7 KGKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKADAEETVAAVKAAGAKAVAF 66
Query: 101 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI-ELEVD 150
D+T + FD FG DI IN G+ + +I E E D
Sbjct: 67 QA---DLTTAAAVEKLFDDAKAAFGRPDIAINTVGKVLKKPIVEISEAEYD 114
Score = 41.3 bits (97), Expect = 3e-04
Identities = 31/104 (29%), Positives = 45/104 (43%), Gaps = 21/104 (20%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI-ELEVDRELFELNVFSVLSL 226
D+T + FD FG DI IN G+ + +I E E D E+F +N
Sbjct: 69 DLTTAAAVEKLFDDAKAAFGRPDIAINTVGKVLKKPIVEISEAEYD-EMFAVN------- 120
Query: 227 SRIATSYFLAREQGGHL--------VVTSSIAGIVG--APYSGS 260
S+ A +F +E G HL +VTS + + Y+GS
Sbjct: 121 SKSA--FFFIKEAGRHLNDNGKIVTLVTSLLGAFTPFYSAYAGS 162
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 43.2 bits (102), Expect = 4e-05
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 4/89 (4%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+ ++ IT A S +G ++ ++ GA L+L + S L+ C ++Y+ L
Sbjct: 5 SSIILITSAGSVLGRTISCHFARLGATLILCDQDQSALKDTYEQCSALT---DNVYSFQL 61
Query: 106 DVTQTKYHRRCFDAVIQQFGC-LDILINN 133
+ R FDA+ QQF D+L+NN
Sbjct: 62 KDFSQESIRHLFDAIEQQFNRAPDVLVNN 90
>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 = 43.4 bits (103), Expect = 4e-05
Identities = 29/117 (24%), Positives = 45/117 (38%), Gaps = 30/117 (25%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSS----------NLERVKNLCVQAGAH 96
V +TGA+ IG A+A L+ G ++V+ S N R + VQA
Sbjct: 1 AVALVTGAAKRIGRAIAEALAAEGYRVVVHYNRSEAEAQRLKDELNALRNSAVLVQA--- 57
Query: 97 PQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNA--------GRSQRAAWEDI 145
D++ A + FG D+L+NNA G+ AW ++
Sbjct: 58 ---------DLSDFAACADLVAAAFRAFGRCDVLVNNASAFYPTPLGQGSEDAWAEL 105
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 43.4 bits (102), Expect = 5e-05
Identities = 30/117 (25%), Positives = 54/117 (46%), Gaps = 8/117 (6%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLS--ARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
+TG SGIG A A+ ++ GA + +S + + VK + + G + L D++
Sbjct: 54 VTGGDSGIGRAAAIAYAREGADVAISYLPVEEEDAQDVKKIIEECG---RKAVLLPGDLS 110
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTL 165
K+ R + G LDI+ AG+ + A DI ++ E F + +++ L
Sbjct: 111 DEKFARSLVHEAHKALGGLDIMALVAGK--QVAIPDIA-DLTSEQFQKTFAINVFAL 164
Score = 33.4 bits (76), Expect = 0.098
Identities = 25/93 (26%), Positives = 43/93 (46%), Gaps = 8/93 (8%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIE---LEVDRELFELNVFSVL 224
D++ K+ R + G LDI+ AG+ + A DI E ++ F +NVF++
Sbjct: 108 DLSDEKFARSLVHEAHKALGGLDIMALVAGK--QVAIPDIADLTSEQFQKTFAINVFALF 165
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGIVGAPY 257
L++ A G ++ TSSI +P+
Sbjct: 166 WLTQEAIPLLPK---GASIITTSSIQAYQPSPH 195
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 43.2 bits (102), Expect = 6e-05
Identities = 30/118 (25%), Positives = 59/118 (50%), Gaps = 17/118 (14%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+ + V +TG S G+G A+A ++ GA++V++ S + + L + G ++I L
Sbjct: 4 SEQTVLVTGGSRGLGAAIARAFAREGARVVVNYHQSE--DAAEALADELG--DRAI-ALQ 58
Query: 105 LDVTQTKYHRRCFDAVIQQFG-CLDILINNA-------GRSQRAA----WEDIELEVD 150
DVT + + F + FG + ++NNA G +++ A WED + +++
Sbjct: 59 ADVTDREQVQAMFATATEHFGKPITTVVNNALADFSFDGDARKKADDITWEDFQQQLE 116
>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 = 43.5 bits (103), Expect = 6e-05
Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 3/91 (3%)
Query: 48 VVWITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVKNLCVQA--GAHPQSIYTLT 104
V +TG + GIG ALA L++ GA+LVL RS E A A + ++
Sbjct: 207 VYLVTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKAQTLAALEALGARVLYIS 266
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DVT RR + V +++G +D +I+ AG
Sbjct: 267 ADVTDAAAVRRLLEKVRERYGAIDGVIHAAG 297
Score = 32.3 bits (74), Expect = 0.24
Identities = 33/143 (23%), Positives = 61/143 (42%), Gaps = 10/143 (6%)
Query: 114 RRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLDVTQTK 173
R A+ +++G +L+ GRS E+ + + L A + ++ DVT
Sbjct: 219 RALARALARRYGARLVLL---GRSPLPPEEEWKAQTLAAL--EALGARVLYISADVTDAA 273
Query: 174 YHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSY 233
RR + V +++G +D +I+ AG + A E + V +L+L++
Sbjct: 274 AVRRLLEKVRERYGAIDGVIHAAGVLRDALLAQKTAEDFEAVLAPKVDGLLNLAQA---- 329
Query: 234 FLAREQGGHLVVTSSIAGIVGAP 256
LA E V+ SS++ G
Sbjct: 330 -LADEPLDFFVLFSSVSAFFGGA 351
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 42.8 bits (101), Expect = 7e-05
Identities = 25/92 (27%), Positives = 45/92 (48%), Gaps = 4/92 (4%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
K V I G S G+G A+A K GA++ +++R+ + L+R+K + G I+ +
Sbjct: 3 LKGKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTLSKYGN----IHYV 58
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
DV+ T+ R + + +D L+ G
Sbjct: 59 VGDVSSTESARNVIEKAAKVLNAIDGLVVTVG 90
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 42.8 bits (101), Expect = 7e-05
Identities = 27/92 (29%), Positives = 42/92 (45%), Gaps = 11/92 (11%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
F K V + G S GIG A+ + GA + + S + + L + GA ++ T
Sbjct: 4 FTGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAGSK--DAAERLAQETGA--TAVQTD 59
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ D R V+++ G LDIL+ NAG
Sbjct: 60 SAD-------RDAVIDVVRKSGALDILVVNAG 84
Score = 28.2 bits (63), Expect = 4.3
Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 21/80 (26%)
Query: 181 AVIQQFGCLDILINNAGRSQRAAWEDIEL---EVDRELFELNVFSVLSLSRIATSYFLAR 237
V+++ G LDIL+ NAG + + +EL ++DR LF++N+ + Y +
Sbjct: 68 DVVRKSGALDILVVNAGIA--VFGDALELDADDIDR-LFKINIHA---------PYHASV 115
Query: 238 E------QGGHLVVTSSIAG 251
E +GG +++ S+ G
Sbjct: 116 EAARQMPEGGRIIIIGSVNG 135
>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 = 41.7 bits (99), Expect = 9e-05
Identities = 29/115 (25%), Positives = 42/115 (36%), Gaps = 5/115 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGA-KLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
ITG G+G ALA L++ GA +LVL +RS + L + A + +
Sbjct: 1 GTYLITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAELEAAGARVTVVAC 60
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRP 160
DV A+ G L +I+ AG + E F P
Sbjct: 61 DVADRDALAAVLAAIPAVEGPLTGVIHAAGVLDDGVLASL----TPERFAAVLAP 111
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 42.1 bits (99), Expect = 1e-04
Identities = 30/123 (24%), Positives = 52/123 (42%), Gaps = 13/123 (10%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLER-VKNLCVQAGAHPQSIYT 102
F ++ +TG SGIG+ +A L GA +++ R+ L + + GA ++
Sbjct: 5 FQDRTYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGA--GAVRY 62
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQR---------AAWED-IELEVDRE 152
DVT R DA G L +++ AG S+ AW ++L V+
Sbjct: 63 EPADVTDEDQVARAVDAATAWHGRLHGVVHCAGGSETIGPITQIDSDAWRRTVDLNVNGT 122
Query: 153 LFT 155
++
Sbjct: 123 MYV 125
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 41.7 bits (98), Expect = 2e-04
Identities = 21/90 (23%), Positives = 38/90 (42%), Gaps = 5/90 (5%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+ +TGA+ GIG+ALA + G +++ ++ L + A P +
Sbjct: 2 KRTALVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFADALGDARFVP-----VAC 56
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D+T + G +D+L+ NAG
Sbjct: 57 DLTDAASLAAALANAAAERGPVDVLVANAG 86
Score = 28.2 bits (63), Expect = 3.9
Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 4/97 (4%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVL 224
+ D+T + G +D+L+ NAG ++ A+ D R LN+ +
Sbjct: 54 VACDLTDAASLAAALANAAAERGPVDVLVANAGAARAASLHDTTPASWRADNALNLEAAY 113
Query: 225 SLSRIATSYFLAREQGGHLVVTSSIAGI--VGAP-YS 258
L R +G +V S+ G+ +G P YS
Sbjct: 114 LCVEAVLEGMLKRSRGA-VVNIGSVNGMAALGHPAYS 149
>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 = 41.7 bits (98), Expect = 2e-04
Identities = 25/105 (23%), Positives = 42/105 (40%), Gaps = 1/105 (0%)
Query: 149 VDRELFTYAYRPSIYTLT-LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI 207
+D LT LDV R ++ + G +D L+N AG + A + +
Sbjct: 28 LDLPFVLLLEYGDPLRLTPLDVADAAAVREVCSRLLAEHGPIDALVNCAGVLRPGATDPL 87
Query: 208 ELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGI 252
E + F +NV V +L + + R G + V S+ A +
Sbjct: 88 STEDWEQTFAVNVTGVFNLLQAVAPHMKDRRTGAIVTVASNAAHV 132
Score = 39.4 bits (92), Expect = 0.001
Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 10/87 (11%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V +TGA+ GIG A+A L + GA ++ V + + LDV
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIALDLPF----------VLLLEYGDPLRLTPLDVA 50
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAG 135
R ++ + G +D L+N AG
Sbjct: 51 DAAAVREVCSRLLAEHGPIDALVNCAG 77
>gnl|CDD|187630 cd05372, ENR_SDR, Enoyl acyl carrier protein (ACP) reductase (ENR),
divergent SDR. This bacterial subgroup of ENRs includes
Escherichia coli ENR. ENR catalyzes the
NAD(P)H-dependent reduction of enoyl-ACP in the last
step of fatty acid biosynthesis. De novo fatty acid
biosynthesis is catalyzed by the fatty acid synthetase
complex, through the serial addition of 2-carbon
subunits. In bacteria and plants,ENR catalyzes one of
six synthetic steps in this process. Oilseed rape ENR,
and also apparently the NADH-specific form of
Escherichia coli ENR, is tetrameric. Although similar
to the classical SDRs, this group does not have the
canonical catalytic tetrad, nor does it have the typical
Gly-rich NAD-binding pattern. Such so-called divergent
SDRs have a GXXXXXSXA NAD-binding motif and a YXXMXXXK
(or YXXXMXXXK) active site 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 = 41.4 bits (98), Expect = 2e-04
Identities = 31/122 (25%), Positives = 58/122 (47%), Gaps = 5/122 (4%)
Query: 47 KVVWITGASS--GIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
K + ITG ++ I +A L + GA+L + + + +RV+ L + G +S L
Sbjct: 2 KRILITGIANDRSIAWGIAKALHEAGAELAFTYQPEALRKRVEKLAERLG---ESALVLP 58
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYT 164
DV+ + + F V + +G LD L+++ + + + L+ R+ F A S Y+
Sbjct: 59 CDVSNDEEIKELFAEVKKDWGKLDGLVHSIAFAPKVQLKGPFLDTSRKGFLKALDISAYS 118
Query: 165 LT 166
L
Sbjct: 119 LV 120
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 41.0 bits (96), Expect = 2e-04
Identities = 29/91 (31%), Positives = 46/91 (50%), Gaps = 6/91 (6%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
N +V +TGA+ GIG +A L G ++VL ++L+R + V A A ++ + +
Sbjct: 9 NGRVALVTGAARGIGLGIAAWLIAEGWQVVL-----ADLDRERGSKV-AKALGENAWFIA 62
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+DV V+ QFG LD L+ NA
Sbjct: 63 MDVADEAQVAAGVAEVLGQFGRLDALVCNAA 93
>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 = 41.3 bits (97), Expect = 2e-04
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 10/101 (9%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAG---AHPQSIYTL 103
K+V +TG S GIG +A + GA++++SAR + G A P
Sbjct: 7 KIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSAYGECIAIP------ 60
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWED 144
D++ + V ++ LD+L+NNAG + A E
Sbjct: 61 -ADLSSEEGIEALVARVAERSDRLDVLVNNAGATWGAPLEA 100
Score = 34.8 bits (80), Expect = 0.032
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 189 LDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGH---LVV 245
LD+L+NNAG + A E ++ ++NV SV L++ A + ++
Sbjct: 83 LDVLVNNAGATWGAPLEAFPESGWDKVMDINVKSVFFLTQALLPLLRAAATAENPARVIN 142
Query: 246 TSSIAGIVG 254
SIAGIV
Sbjct: 143 IGSIAGIVV 151
>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 = 41.0 bits (96), Expect = 3e-04
Identities = 26/89 (29%), Positives = 45/89 (50%), Gaps = 1/89 (1%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
KV+ ITGA+SGIG A + GA ++L+ R+ S + ++ H + +TLD
Sbjct: 2 KVIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEE-WHKARVEAMTLD 60
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ + +R +A + L +L+ NA
Sbjct: 61 LASLRSVQRFAEAFKAKNSPLHVLVCNAA 89
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 41.2 bits (97), Expect = 3e-04
Identities = 24/90 (26%), Positives = 45/90 (50%), Gaps = 11/90 (12%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSN----LERVKNLCVQAGAHPQSIYTL-TL 105
+TGAS G+G LA +L+ GA+++L R+ + + ++ A P + +L L
Sbjct: 19 VTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRT------AVPDAKLSLRAL 72
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D++ + + + + +LINNAG
Sbjct: 73 DLSSLASVAALGEQLRAEGRPIHLLINNAG 102
>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 = 40.8 bits (96), Expect = 4e-04
Identities = 23/117 (19%), Positives = 38/117 (32%), Gaps = 7/117 (5%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAK-LVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
+ ITG G+G +A L+ GA+ LVL +R + + +
Sbjct: 149 LDGTYLITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAALLRAGGARVSV-V 207
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRP 160
DVT + G L +I+ AG + A ++ F
Sbjct: 208 RCDVTDPAALAALLAE-LAAGGPLAGVIHAAGVLRDALLAEL----TPAAFAAVLAA 259
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 40.6 bits (95), Expect = 4e-04
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V +T +S GIG +A +L K GA++V+S+R+ NLE+ + G +Y + D++
Sbjct: 3 VLVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEYG----EVYAVKADLS 58
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAG 135
+ + G +D L+ NAG
Sbjct: 59 DKDDLKNLVKEAWELLGGIDALVWNAG 85
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 40.5 bits (95), Expect = 4e-04
Identities = 29/90 (32%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K V ITG SSGIG AL+L + G +++ + R ++ R+ +L + LD
Sbjct: 3 KSVLITGCSSGIGLEAALELKRRGYRVLAACRKPDDVARMNSLGFTG---------ILLD 53
Query: 107 VTQTKYHRRCFDAVIQ-QFGCLDILINNAG 135
+ + R D VI L L NNAG
Sbjct: 54 LDDPESVERAADEVIALTDNRLYGLFNNAG 83
Score = 31.2 bits (71), Expect = 0.47
Identities = 27/98 (27%), Positives = 41/98 (41%), Gaps = 2/98 (2%)
Query: 165 LTLDVTQTKYHRRCFDAVIQ-QFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSV 223
+ LD+ + R D VI L L NNAG I + + F N F
Sbjct: 50 ILLDLDDPESVERAADEVIALTDNRLYGLFNNAGFGVYGPLSTISRQQMEQQFSTNFFGT 109
Query: 224 LSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
L+ + L +G +V+TSS+ G++ P G+Y
Sbjct: 110 HQLTMLLLPAMLPHGEG-RIVMTSSVMGLISTPGRGAY 146
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 40.1 bits (94), Expect = 5e-04
Identities = 29/93 (31%), Positives = 46/93 (49%), Gaps = 9/93 (9%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
+ V ITG S G+GEA+A QL + G ++ +R+ + K L A + ++ +LD
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVISISRTEN-----KELTKLAEQYNSNLTFHSLD 56
Query: 107 VTQTKYHRRCFDAV---IQQFGCLDI-LINNAG 135
+ F+ + IQ+ I LINNAG
Sbjct: 57 LQDVHELETNFNEILSSIQEDNVSSIHLINNAG 89
>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 = 39.9 bits (93), Expect = 6e-04
Identities = 20/93 (21%), Positives = 34/93 (36%), Gaps = 12/93 (12%)
Query: 176 RRCFDAVIQQFGCLDILINN------AGRSQRAAWEDIELEVDRELFELNVFSVLSLSRI 229
DAV+Q G +D+L++N + DI R+ FE +L +
Sbjct: 60 EELVDAVLQAGGAIDVLVSNDYIPRPMNPIDGTSEADI-----RQAFEALSIFPFALLQA 114
Query: 230 ATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
A + GG ++ +S Y+ Y
Sbjct: 115 AIAQMKKA-GGGSIIFITSAVPKKPLAYNSLYG 146
>gnl|CDD|233441 TIGR01500, sepiapter_red, sepiapterin reductase. This model
describes sepiapterin reductase, a member of the short
chain dehydrogenase/reductase family. The enzyme
catalyzes the last step in the biosynthesis of
tetrahydrobiopterin. A similar enzyme in Bacillus cereus
was isolated for its ability to convert benzil to
(S)-benzoin, a property sepiapterin reductase also
shares. Cutoff scores for this model are set such that
benzil reductase scores between trusted and noise
cutoffs.
Length = 256
Score = 39.9 bits (93), Expect = 6e-04
Identities = 29/93 (31%), Positives = 46/93 (49%), Gaps = 9/93 (9%)
Query: 51 ITGASSGIGEALALQLSKC----GAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
+TGAS G G +A +L+KC G+ LVLSAR+ L ++K + A + ++LD
Sbjct: 5 VTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKA-EIGAERSGLRVVRVSLD 63
Query: 107 VTQTKYHRRCFDAVIQQFGCLD----ILINNAG 135
+ + A+ + +LINNAG
Sbjct: 64 LGAEAGLEQLLKALRELPRPKGLQRLLLINNAG 96
>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 = 40.2 bits (94), Expect = 7e-04
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 4/90 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGA-KLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
V ITGASSG+G A A L++ G +V++ R + + + + G S L
Sbjct: 2 GTVVITGASSGLGLAAAKALARRGEWHVVMACR---DFLKAEQAAQEVGMPKDSYSVLHC 58
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
D+ R+ D + LD L+ NA
Sbjct: 59 DLASLDSVRQFVDNFRRTGRPLDALVCNAA 88
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 39.3 bits (92), Expect = 8e-04
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 17/104 (16%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
+++ V +TGA+ GIG AL+L+L+ G +++ ARS+ P ++
Sbjct: 2 SSRTVLVTGATKGIGLALSLRLANLGHQVIGIARSA------------IDDFPGELFACD 49
Query: 105 L-DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIEL 147
L D+ QT + + D ++NN G + I+L
Sbjct: 50 LADIEQTA---ATLAQINEIHPV-DAIVNNVGIALPQPLGKIDL 89
Score = 29.7 bits (67), Expect = 1.3
Identities = 19/82 (23%), Positives = 37/82 (45%), Gaps = 3/82 (3%)
Query: 180 DAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQ 239
+ + D ++NN G + I+L +++++LNV + + +++ REQ
Sbjct: 61 AQINEIHPV-DAIVNNVGIALPQPLGKIDLAALQDVYDLNVRAAVQVTQAFLEGMKLREQ 119
Query: 240 GGHLVVTSSIAGIVGAPYSGSY 261
G + + S I GA SY
Sbjct: 120 GRIVNICSR--AIFGALDRTSY 139
>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 = 39.0 bits (92), Expect = 9e-04
Identities = 28/117 (23%), Positives = 45/117 (38%), Gaps = 11/117 (9%)
Query: 48 VVWITGASSGIGEALALQLSKCGAK-LVLSARSSSNLERVKNL---CVQAGAHPQSIYTL 103
+TG G+G LA L++ GA+ LVL +RS + + L GA + +
Sbjct: 2 TYLVTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELEARGAE---VTVV 58
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRP 160
DV+ R + L +I+ AG + A + + E F P
Sbjct: 59 ACDVSDRDAVRALLAEIRADGPPLRGVIHAAGVLRDALLAN----MTAEDFARVLAP 111
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 39.4 bits (92), Expect = 0.001
Identities = 25/107 (23%), Positives = 51/107 (47%), Gaps = 17/107 (15%)
Query: 42 NYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLC--------VQA 93
N K + I+G + GIG+A+ + ++ G + + +SN+E + ++A
Sbjct: 4 NEMKGKTLVISGGTRGIGKAIVYEFAQSGVNIAFT--YNSNVEEANKIAEDLEQKYGIKA 61
Query: 94 GAHPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA 140
A+P L++ + + ++ F + + F +D I+NA S RA
Sbjct: 62 KAYP-------LNILEPETYKELFKKIDEDFDRVDFFISNAIISGRA 101
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 38.9 bits (91), Expect = 0.001
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 9/63 (14%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K V I GAS GIG Q G +++ +AR ++ L ++ L GA L LD
Sbjct: 2 KTVLIVGASRGIGREFVRQYRADGWRVIATARDAAALAALQAL----GAE-----ALALD 52
Query: 107 VTQ 109
V
Sbjct: 53 VAD 55
>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 = 39.3 bits (92), Expect = 0.001
Identities = 28/98 (28%), Positives = 45/98 (45%), Gaps = 12/98 (12%)
Query: 47 KVVWITGASSGIGEALALQL-----SKCGAKLVLSARSSSNLERVKNLCVQAGA-HPQSI 100
KVV +TGA+SG+G A+ +L L+L+ R NL+R + C A HP +
Sbjct: 2 KVVLVTGANSGLGLAICERLLAEDDENPELTLILACR---NLQRAEAACRALLASHPDAR 58
Query: 101 YTLT---LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+D++ + +++ LD L NAG
Sbjct: 59 VVFDYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLNAG 96
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 39.2 bits (91), Expect = 0.001
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 3/95 (3%)
Query: 41 LNYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSI 100
++ F + ITG +SGIG A + ++ GA++VL L + N G +
Sbjct: 1 MDGFPGRGAVITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGF---DV 57
Query: 101 YTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ + DV + D + G +D++ +NAG
Sbjct: 58 HGVMCDVRHREEVTHLADEAFRLLGHVDVVFSNAG 92
Score = 27.6 bits (61), Expect = 6.2
Identities = 21/94 (22%), Positives = 42/94 (44%)
Query: 168 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLS 227
DV + D + G +D++ +NAG ++ + R + +++++ +
Sbjct: 63 DVRHREEVTHLADEAFRLLGHVDVVFSNAGIVVGGPIVEMTHDDWRWVIDVDLWGSIHTV 122
Query: 228 RIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
L + GGH+V T+S AG+V G+Y
Sbjct: 123 EAFLPRLLEQGTGGHVVFTASFAGLVPNAGLGAY 156
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 39.0 bits (91), Expect = 0.001
Identities = 26/107 (24%), Positives = 52/107 (48%), Gaps = 5/107 (4%)
Query: 143 EDIELEVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRA 202
+D ++++ EL + S ++ LD+TQ + + V +Q G IL+NNA S
Sbjct: 53 QDEQIQLQEELLKNGVKVS--SMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNN 110
Query: 203 AWEDIELE-VDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSS 248
+ ++ E +D+ +NV + LS + ++ GG ++ +S
Sbjct: 111 DFSNLTAEELDKHYM-VNVRATTLLS-SQFARGFDKKSGGRIINMTS 155
Score = 39.0 bits (91), Expect = 0.001
Identities = 31/128 (24%), Positives = 60/128 (46%), Gaps = 17/128 (13%)
Query: 41 LNYFNNKVVWITGAS--SGIGEALALQLSKCGAKLVLSARSSSNLE-----------RVK 87
+N NKV +TG S GIG A+ +L++ GA + + ++ + E +++
Sbjct: 1 MNQLKNKVAVVTGVSRLDGIGAAICKELAEAGADIFFTYWTAYDKEMPWGVDQDEQIQLQ 60
Query: 88 NLCVQAGAHPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIEL 147
++ G + ++ LD+TQ + + V +Q G IL+NNA S + ++
Sbjct: 61 EELLKNGV---KVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNNDFSNLTA 117
Query: 148 E-VDRELF 154
E +D+
Sbjct: 118 EELDKHYM 125
>gnl|CDD|212496 cd11730, Tthb094_like_SDR_c, Tthb094 and related proteins,
classical (c) SDRs. Tthb094 from Thermus Thermophilus
is a classical SDR which binds NADP. Members of this
subgroup contain the YXXXK active site characteristic of
SDRs. Also, an upstream Asn residue of the canonical
catalytic tetrad is partially conserved in this subgroup
of proteins of undetermined function. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 206
Score = 38.7 bits (90), Expect = 0.001
Identities = 37/116 (31%), Positives = 50/116 (43%), Gaps = 23/116 (19%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQT 110
I GA+ GIG ALA L+ G +L+LS R + L L + GA DV
Sbjct: 3 ILGATGGIGRALARALAGRGWRLLLSGRDAGALA---GLAAEVGA-----LARPADVA-- 52
Query: 111 KYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDIELEVDRELFTYAY 158
A+ Q+ G LD+L+ AG R++ AAW I +D L A
Sbjct: 53 --AELEVWALAQELGPLDLLVYAAGAILGKPLARTKPAAWRRI---LDANLTGAAL 103
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 38.9 bits (91), Expect = 0.001
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K +TG SG+G L++ GA +++ AR AG + + LD
Sbjct: 27 KTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPDVARE-----ALAGIDGVEV--VMLD 79
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
+ + R + + +DILINNAG
Sbjct: 80 LADLESVRAFAERFLDSGRRIDILINNAG 108
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 38.3 bits (90), Expect = 0.002
Identities = 28/114 (24%), Positives = 47/114 (41%), Gaps = 6/114 (5%)
Query: 53 GASSGIGEALALQLSKCGAKLVLSARS-SSNLERVKNLCVQAGAHPQSIYTLTLDVTQTK 111
+ I A+A ++ GA++VL+ + + V L A P + L DVT +
Sbjct: 3 ADDNSIAWAIAKAAAEEGAEVVLTTWPPALRMGAVDEL---AKELPADVIPL--DVTSDE 57
Query: 112 YHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTL 165
F+ V + G +D L+++ S L+ RE F A S Y+
Sbjct: 58 DIDELFEKVKEDGGKIDFLVHSIAMSPEIRKGKPYLDTSREGFLKALDISAYSF 111
Score = 33.7 bits (78), Expect = 0.060
Identities = 26/101 (25%), Positives = 43/101 (42%), Gaps = 7/101 (6%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF----ELNVFS 222
LDVT + F+ V + G +D L+++ S L+ RE F +++ +S
Sbjct: 51 LDVTSDEDIDELFEKVKEDGGKIDFLVHSIAMSPEIRKGKPYLDTSREGFLKALDISAYS 110
Query: 223 VLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYTD 263
+SL++ A +GG +V S IA P G
Sbjct: 111 FISLAKAAKPLM---NEGGSIVALSYIAAERVFPGYGGMGV 148
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 38.4 bits (89), Expect = 0.002
Identities = 41/136 (30%), Positives = 61/136 (44%), Gaps = 25/136 (18%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL-DVTQ 109
+TGAS GIGE +A L GA + L + +E+++ L + G + I+ L D +
Sbjct: 11 VTGASGGIGEEIARLLHAQGAIVGLHG---TRVEKLEALAAELGERVK-IFPANLSDRDE 66
Query: 110 TKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDIELEVDRELFTYAYRPS 161
K + +A +DIL+NNAG R W D LEV+ T +R
Sbjct: 67 VKALGQKAEA---DLEGVDILVNNAGITKDGLFVRMSDEDW-DSVLEVN---LTATFR-- 117
Query: 162 IYTLTLDVTQTKYHRR 177
LT ++T RR
Sbjct: 118 ---LTRELTHPMMRRR 130
Score = 36.8 bits (85), Expect = 0.007
Identities = 19/77 (24%), Positives = 40/77 (51%), Gaps = 1/77 (1%)
Query: 185 QFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLV 244
+DIL+NNAG ++ + + E + E+N+ + L+R ++ + R + G ++
Sbjct: 77 DLEGVDILVNNAGITKDGLFVRMSDEDWDSVLEVNLTATFRLTR-ELTHPMMRRRYGRII 135
Query: 245 VTSSIAGIVGAPYSGSY 261
+S+ G+ G P +Y
Sbjct: 136 NITSVVGVTGNPGQANY 152
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 38.3 bits (89), Expect = 0.002
Identities = 14/41 (34%), Positives = 27/41 (65%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVK 87
K+ + T +S GIG +A L++ GA ++L +R+ NL++ +
Sbjct: 9 KLAFTTASSKGIGFGVARVLARAGADVILLSRNEENLKKAR 49
>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 = 38.0 bits (88), Expect = 0.002
Identities = 29/95 (30%), Positives = 46/95 (48%), Gaps = 4/95 (4%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARS-SSNLERVKNLCVQAGAHPQSIYTLTLDV 107
V +TGAS GIG A+A +L+ G ++ + S S+ E V + G + L DV
Sbjct: 1 VLVTGASRGIGRAIANRLAADGFEICVHYHSGRSDAESVVSAIQAQGG---NARLLQFDV 57
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAW 142
R +A I + G ++ NAG ++ AA+
Sbjct: 58 ADRVACRTLLEADIAEHGAYYGVVLNAGITRDAAF 92
>gnl|CDD|223696 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 38.0 bits (89), Expect = 0.003
Identities = 30/124 (24%), Positives = 56/124 (45%), Gaps = 6/124 (4%)
Query: 45 NNKVVWITGASS--GIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYT 102
K + I G ++ I +A L++ GA+L + + +RV+ L + G+
Sbjct: 5 EGKRILIMGVANNRSIAWGIAKALAEQGAELAFTYQGERLEKRVEELAEELGSD----LV 60
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSI 162
L DVT + F + +++G LD L+++ + + + L+ RE F A S
Sbjct: 61 LPCDVTNDESIDALFATIKKKWGKLDGLVHSIAFAPKEELKGDYLDTSREGFLIAMDISA 120
Query: 163 YTLT 166
Y+ T
Sbjct: 121 YSFT 124
Score = 27.9 bits (63), Expect = 5.0
Identities = 16/70 (22%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 165 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF----ELNV 220
L DVT + F + +++G LD L+++ + + + L+ RE F +++
Sbjct: 61 LPCDVTNDESIDALFATIKKKWGKLDGLVHSIAFAPKEELKGDYLDTSREGFLIAMDISA 120
Query: 221 FSVLSLSRIA 230
+S +L++ A
Sbjct: 121 YSFTALAKAA 130
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 38.3 bits (89), Expect = 0.003
Identities = 41/150 (27%), Positives = 62/150 (41%), Gaps = 39/150 (26%)
Query: 21 FLLAVDCDLYLFFIEKINKRLNYFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSS 80
F + +Y++F+ + K L + + + +TG + GIG+ A QL++ G LVL AR+
Sbjct: 30 FFFTILNWVYVYFL-RPAKNLKKYGSWAL-VTGPTDGIGKGFAFQLARKGLNLVLVARNP 87
Query: 81 SNLERVKNLCVQAGAHPQSIYTLTLDVTQTKYHRRCFDAVIQQF-GCLD----------- 128
L+ V D Q+KY + V+ F G +D
Sbjct: 88 DKLKDVS------------------DSIQSKYSKTQIKTVVVDFSGDIDEGVKRIKETIE 129
Query: 129 -----ILINNAGRSQRAAWEDIELEVDREL 153
+LINN G S A EVD EL
Sbjct: 130 GLDVGVLINNVGVSYPYA--RFFHEVDEEL 157
>gnl|CDD|176228 cd08267, MDR1, 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 = 319
Score = 38.0 bits (89), Expect = 0.003
Identities = 24/96 (25%), Positives = 42/96 (43%), Gaps = 18/96 (18%)
Query: 49 VWITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDV 107
V I GAS G+G A+Q++K GA + S+ N E V++L GA +D
Sbjct: 147 VLINGASGGVG-TFAVQIAKALGAHVTGVC-STRNAELVRSL----GA------DEVIDY 194
Query: 108 TQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWE 143
T + +++ D++ + G S + +
Sbjct: 195 TTEDFVALTAGG--EKY---DVIFDAVGNSPFSLYR 225
>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 = 37.8 bits (88), Expect = 0.003
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 2/103 (1%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
N+V + G +GE L L++ G + ++ +S N E+V + + + Y
Sbjct: 2 NQVAVVIGGGQTLGEFLCHGLAEAGYDVAVADINSENAEKVAD--EINAEYGEKAYGFGA 59
Query: 106 DVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 148
D T + V + F +D+L+ +AG ++ A D EL
Sbjct: 60 DATNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKITDFELG 102
Score = 30.1 bits (68), Expect = 0.88
Identities = 25/106 (23%), Positives = 47/106 (44%), Gaps = 2/106 (1%)
Query: 158 YRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE-VDRELF 216
Y Y D T + V + F +D+L+ +AG ++ A D EL DR L
Sbjct: 50 YGEKAYGFGADATNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKITDFELGDFDRSL- 108
Query: 217 ELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSYT 262
++N+ +R + + G ++ +S +G VG+ ++ Y+
Sbjct: 109 QVNLVGYFLCAREFSKLMIRDGIQGRIIQINSKSGKVGSKHNSGYS 154
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 37.7 bits (87), Expect = 0.003
Identities = 27/107 (25%), Positives = 43/107 (40%), Gaps = 10/107 (9%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
++ ++TG GIG ++ +L K G K+V A N R A +
Sbjct: 4 RIAYVTGGMGGIGTSICQRLHKDGFKVV--AGCGPNSPRRVKWLEDQKALGFDFIASEGN 61
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG--------RSQRAAWEDI 145
V + FD V + G +D+L+NNAG + R W +
Sbjct: 62 VGDWDSTKAAFDKVKAEVGEIDVLVNNAGITRDVVFRKMTREDWTAV 108
Score = 29.2 bits (65), Expect = 2.2
Identities = 19/79 (24%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 176 RRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFL 235
+ FD V + G +D+L+NNAG ++ + + E + + N+ S+ ++++ +
Sbjct: 69 KAAFDKVKAEVGEIDVLVNNAGITRDVVFRKMTREDWTAVIDTNLTSLFNVTKQVIDGMV 128
Query: 236 AREQGGHLVVTSSIAGIVG 254
R G ++ SS+ G G
Sbjct: 129 ERGW-GRIINISSVNGQKG 146
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 37.7 bits (88), Expect = 0.003
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQT 110
+ G SSGIG ALA + GA++ +++RS L +A + T LD+T
Sbjct: 2 VVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAA----ARALGGGAPVRTAALDITDE 57
Query: 111 KYHRRCFDAV 120
F
Sbjct: 58 AAVDAFFAEA 67
>gnl|CDD|236173 PRK08177, PRK08177, short chain dehydrogenase; Provisional.
Length = 225
Score = 36.9 bits (86), Expect = 0.005
Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 14/92 (15%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+ I GAS G+G L +L + G ++ + R ++ L L
Sbjct: 1 KRTALIIGASRGLGLGLVDRLLERGWQVTATVRGPQQDTALQALPGVHI--------EKL 52
Query: 106 DVTQTKYHRRCFDAVIQQFG--CLDILINNAG 135
D+ D ++Q+ D+L NAG
Sbjct: 53 DMNDPA----SLDQLLQRLQGQRFDLLFVNAG 80
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 37.0 bits (86), Expect = 0.007
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 13/89 (14%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
K V +TGAS +G+AL +L + GAK+V A +S++ + ++ + TL
Sbjct: 179 KTVAVTGASGTLGQALLKELHQQGAKVV--ALTSNS----DKITLEINGEDLPVKTLHWQ 232
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAG 135
V Q A+ + +DILI N G
Sbjct: 233 VGQE-------AALAELLEKVDILIINHG 254
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 36.9 bits (85), Expect = 0.007
Identities = 32/120 (26%), Positives = 53/120 (44%), Gaps = 12/120 (10%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLVL--SARSSSNLERVKNLCVQAG------A 95
+ KV +TGAS GIG A+A++L+ GA + + + E ++ + G A
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREIESNGGKAFLIEA 63
Query: 96 HPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFT 155
SI + V Q K + + +DIL+NNAG + E+ E+ E+
Sbjct: 64 DLNSIDGVKKLVEQLKNELQIRVGTSE----IDILVNNAGIGTQGTIENTTEEIFDEIMA 119
>gnl|CDD|187665 cd09805, type2_17beta_HSD-like_SDR_c, human 17beta-hydroxysteroid
dehydrogenase type 2 (type 2 17beta-HSD)-like, classical
(c) SDRs. 17beta-hydroxysteroid dehydrogenases are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. This
classical-SDR subgroup includes the human proteins: type
2 17beta-HSD, type 6 17beta-HSD, type 2 11beta-HSD,
dehydrogenase/reductase SDR family member 9,
short-chain dehydrogenase/reductase family 9C member 7,
3-hydroxybutyrate dehydrogenase type 1, and retinol
dehydrogenase 5. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 281
Score = 36.9 bits (86), Expect = 0.007
Identities = 31/104 (29%), Positives = 51/104 (49%), Gaps = 9/104 (8%)
Query: 164 TLTLDVTQTKYHRRCFDAVIQQFGCLDI--LINNAGRSQRAAWED-IELEVDRELFELNV 220
TL LDVT+ + +R V + G + L+NNAG E+ + ++ R+ E+N+
Sbjct: 52 TLQLDVTKPEQIKRAAQWVKEHVGEKGLWGLVNNAGILGFGGDEELLPMDDYRKCMEVNL 111
Query: 221 FSVLSLSRIATSYFLA--REQGGHLVVTSSIAGIVGAPYSGSYT 262
F + +++ FL R G +V SS+ G V P G+Y
Sbjct: 112 FGTVEVTKA----FLPLLRRAKGRVVNVSSMGGRVPFPAGGAYC 151
Score = 35.3 bits (82), Expect = 0.019
Identities = 29/94 (30%), Positives = 44/94 (46%), Gaps = 12/94 (12%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSA---RSSSNLERVKNLCVQAGAHPQSIYTL 103
K V ITG SG G LA +L G VL+ ++ + ++ +C + TL
Sbjct: 1 KAVLITGCDSGFGNLLAKKLDSLGFT-VLAGCLTKNGPGAKELRRVC------SDRLRTL 53
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDI--LINNAG 135
LDVT+ + +R V + G + L+NNAG
Sbjct: 54 QLDVTKPEQIKRAAQWVKEHVGEKGLWGLVNNAG 87
>gnl|CDD|176215 cd08253, zeta_crystallin, Zeta-crystallin with NADP-dependent
quinone reductase activity (QOR). Zeta-crystallin is a
eye lens protein with NADP-dependent quinone reductase
activity (QOR). It has been cited as a structural
component in mammalian eyes, but also has homology to
quinone reductases in unrelated species. QOR catalyzes
the conversion of a quinone and NAD(P)H to a
hydroquinone and NAD(P+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR acts
in the respiratory chains of bacteria and mitochondria,
while soluble QOR acts to protect from toxic quinones
(e.g. DT-diaphorase) or as a soluble eye-lens protein in
some vertebrates (e.g. zeta-crystalin). QOR reduces
quinones through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
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.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 36.4 bits (85), Expect = 0.011
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 6/51 (11%)
Query: 47 KVVWITGASSGIGEALALQLSK-CGAKLVLSARSSSNLERVKNLCVQAGAH 96
+ V + G S +G A A+QL++ GA+++ +A S+ E V+ QAGA
Sbjct: 146 ETVLVHGGSGAVGHA-AVQLARWAGARVIATASSAEGAELVR----QAGAD 191
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 35.3 bits (81), Expect = 0.011
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 11/93 (11%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLS----ARSSSNLERVKNLCVQAGAHPQSIYT 102
KV +TG GIG AL L+K GAK++++ + +E + NL +A
Sbjct: 17 KVAIVTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEITNLGGEA-------LF 69
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
++ D+ + +R + F +D+L NAG
Sbjct: 70 VSYDMEKQGDWQRVISITLNAFSRIDMLFQNAG 102
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 35.7 bits (83), Expect = 0.020
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 42 NYFNNKVVWITGASSGIGEALALQLSKCGAK-LVLSARSSSNL 83
K V +TG IG L Q+ K K ++L +R L
Sbjct: 246 AMLTGKTVLVTGGGGSIGSELCRQILKFNPKEIILFSRDEYKL 288
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 35.4 bits (82), Expect = 0.021
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 44 FNNKVVWITGASSGIGEALALQLSKCGAKLV-LSARSSSNLE 84
+ K + ITGAS +G+AL GAK++ L+ +N E
Sbjct: 12 WQGKRIGITGASGALGKALTKAFRAKGAKVIGLTHSKINNSE 53
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
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. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. 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.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 309
Score = 34.8 bits (81), Expect = 0.029
Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 11/77 (14%)
Query: 47 KVVWITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVKNLCVQAGAHPQSI-YTLT 104
+ V I GA+ G+G + A+QL+K GA+++ +A S++N + +++L GA + I YT
Sbjct: 146 QTVLIHGAAGGVG-SFAVQLAKARGARVIATA-SAANADFLRSL----GAD-EVIDYT-K 197
Query: 105 LDVTQTKYHRRCFDAVI 121
D + DAV+
Sbjct: 198 GDFERAAAPGG-VDAVL 213
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. 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. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. 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.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 34.7 bits (81), Expect = 0.031
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 49 VWITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVKNL 89
V I G +SG+G A A+QL+K GA+++ +A S LE + L
Sbjct: 143 VLIHGGASGVGTA-AIQLAKALGARVIATAGSEEKLEACRAL 183
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 34.6 bits (80), Expect = 0.044
Identities = 17/40 (42%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 51 ITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVKNL 89
+ GA+ G+G + A+QL+K GA +V SS LE +K L
Sbjct: 148 VHGAAGGVG-SAAIQLAKALGATVVAVVSSSEKLELLKEL 186
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 34.2 bits (79), Expect = 0.048
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 13/98 (13%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAKLVLSARSSS----------NLERVKNLCVQAGA 95
KV + GA+ G G +A++L GA + ++ RS+ +E L AG
Sbjct: 8 GKVALVAGATRGAGRGIAVELGAAGATVYVTGRSTRARRSEYDRPETIEETAELVTAAGG 67
Query: 96 HPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINN 133
++ L Q R + + ++ G LDIL+N+
Sbjct: 68 RGIAVQVDHLVPEQV---RALVERIDREQGRLDILVND 102
>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 = 33.8 bits (78), Expect = 0.055
Identities = 23/100 (23%), Positives = 41/100 (41%), Gaps = 13/100 (13%)
Query: 166 TLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRE----LFELNVF 221
Q K + +V + G +D LI AG A + + + +++ N++
Sbjct: 49 DSFTEQAK---QVVASVARLSGKVDALICVAG---GWAGGSAKSKSFVKNWDLMWKQNLW 102
Query: 222 SVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAPYSGSY 261
+ S +AT + L GG LV+T + A + P Y
Sbjct: 103 TSFIASHLATKHLL---SGGLLVLTGAKAALEPTPGMIGY 139
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 33.7 bits (78), Expect = 0.058
Identities = 22/108 (20%), Positives = 40/108 (37%), Gaps = 6/108 (5%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
+ +TGA+ IG A+AL L+ G + + S + + L + A + L D
Sbjct: 10 RAALVTGAARRIGRAIALDLAAHGFDVAVHYNRS--RDEAEALAAEIRALGRRAVALQAD 67
Query: 107 VTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELF 154
+ R G + +L+NNA + + R +
Sbjct: 68 LADEAEVRALVARASAALGPITLLVNNASLFEYDSAAS----FTRASW 111
Score = 27.2 bits (61), Expect = 8.3
Identities = 10/66 (15%), Positives = 20/66 (30%), Gaps = 11/66 (16%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDREL----FELNVFS 222
D + R G + +L+NNA + + R N+ +
Sbjct: 69 ADEAEV---RALVARASAALGPITLLVNNASLFEYDSAAS----FTRASWDRHMATNLRA 121
Query: 223 VLSLSR 228
L++
Sbjct: 122 PFVLAQ 127
>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 = 34.1 bits (78), Expect = 0.062
Identities = 27/90 (30%), Positives = 38/90 (42%), Gaps = 10/90 (11%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V ITGASSG+G A L+ G V+ A + + + G S + LD+
Sbjct: 6 VIITGASSGLGLYAAKALAATGEWHVIMA--CRDFLKAEQAAKSLGMPKDSYTIMHLDLG 63
Query: 109 QTKYHRRCFDAVIQQFG----CLDILINNA 134
R+ +QQF LD L+ NA
Sbjct: 64 SLDSVRQ----FVQQFRESGRPLDALVCNA 89
>gnl|CDD|168626 PRK06603, PRK06603, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 260
Score = 33.4 bits (76), Expect = 0.085
Identities = 31/117 (26%), Positives = 54/117 (46%), Gaps = 6/117 (5%)
Query: 51 ITGASS--GIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
ITG ++ I A+A K GA+L + +S +RVK L + G + + LDVT
Sbjct: 13 ITGIANNMSISWAIAQLAKKHGAELWFTYQSEVLEKRVKPLAEEIGCN----FVSELDVT 68
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTL 165
K FD + +++G D L++ + + + ++ E F + S Y+L
Sbjct: 69 NPKSISNLFDDIKEKWGSFDFLLHGMAFADKNELKGRYVDTSLENFHNSLHISCYSL 125
Score = 28.8 bits (64), Expect = 3.1
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 7/85 (8%)
Query: 167 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAA----WEDIELEVDRELFELNVFS 222
LDVT K FD + +++G D L++ + + + D LE ++ +S
Sbjct: 65 LDVTNPKSISNLFDDIKEKWGSFDFLLHGMAFADKNELKGRYVDTSLENFHNSLHISCYS 124
Query: 223 VLSLSRIATSYFLAREQGGHLVVTS 247
+L LSR A + GG +V +
Sbjct: 125 LLELSRSAEALM---HDGGSIVTLT 146
>gnl|CDD|187538 cd05227, AR_SDR_e, aldehyde reductase, extended (e) SDRs. This
subgroup contains aldehyde reductase of the extended
SDR-type and related proteins. Aldehyde reductase I
(aka carbonyl reductase) is an NADP-binding SDR; it has
an NADP-binding motif consensus that is slightly
different from the canonical SDR form and lacks the Asn
of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. 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 = 301
Score = 33.0 bits (76), Expect = 0.13
Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGA 95
+V +TGA+ I + QL K G K+ + RS S ++K L AG
Sbjct: 1 LVLVTGATGFIASHIVEQLLKAGYKVRGTVRSLSKSAKLKALLKAAGY 48
>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 = 32.6 bits (74), Expect = 0.14
Identities = 28/92 (30%), Positives = 46/92 (50%), Gaps = 13/92 (14%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVL----SARSSSNLERVKNLCVQAGAHPQSIYTLTLD 106
+TGA+ IG ++A+ L + G ++VL SA ++S L N P S T D
Sbjct: 6 VTGAAKRIGSSIAVALHQEGYRVVLHYHRSAAAASTLAAELN-----ARRPNSAVTCQAD 60
Query: 107 VTQTKYHRRCFDAVI----QQFGCLDILINNA 134
++ + +A+I + FG D+L+NNA
Sbjct: 61 LSNSATLFSRCEAIIDACFRAFGRCDVLVNNA 92
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. 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. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. 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.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 342
Score = 33.0 bits (76), Expect = 0.14
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 49 VWITGASSGIGEALALQLSK-CGAKLVLSARSSSNLERVKNL 89
V + GA SG+G A A+Q++K GA ++ +A S LER K L
Sbjct: 170 VLVHGAGSGVGSA-AIQIAKLFGATVIATAGSEDKLERAKEL 210
>gnl|CDD|176235 cd08274, MDR9, 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 = 350
Score = 32.7 bits (75), Expect = 0.16
Identities = 24/88 (27%), Positives = 37/88 (42%), Gaps = 7/88 (7%)
Query: 35 EKINKRLNYFNNKVVWITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVKNLCVQA 93
E + +R + V +TGAS G+G A +QL+K GA ++ A ++ E V+ L
Sbjct: 167 ENMLERAGVGAGETVLVTGASGGVGSA-LVQLAKRRGAIVIAVA-GAAKEEAVRAL---- 220
Query: 94 GAHPQSIYTLTLDVTQTKYHRRCFDAVI 121
GA + L D V
Sbjct: 221 GADTVILRDAPLLADAKALGGEPVDVVA 248
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR family
domains have the characteristic active site tetrad and a
well-conserved NAD(P)-binding motif. This subgroup is
not well characterized, its members are annotated as
having a variety of putative functions. One
characterized member is Pseudomonas fluorescens MupV a
protein involved in the biosynthesis of Mupirocin, a
polyketide-derived antibiotic. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 32.3 bits (74), Expect = 0.18
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V++TG + +G L +L + G K+++ RS S E + + +AG + L D+T
Sbjct: 1 VFVTGGTGFLGRHLVKRLLENGFKVLVLVRSESLGEAHERIE-EAGLEADRVRVLEGDLT 59
Query: 109 Q 109
Q
Sbjct: 60 Q 60
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 32.3 bits (74), Expect = 0.18
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSS 80
+TG S G+G ALA QL + G ++ ARS
Sbjct: 6 VTGHSRGLGAALAEQLLQPGIAVLGVARSR 35
>gnl|CDD|180586 PRK06483, PRK06483, dihydromonapterin reductase; Provisional.
Length = 236
Score = 32.2 bits (74), Expect = 0.19
Identities = 22/76 (28%), Positives = 32/76 (42%), Gaps = 8/76 (10%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSS----SNLERVKNLCVQAG-AHPQSIYTLTL 105
ITGA IG ALA L G +++S R+ L + C+QA + I
Sbjct: 7 ITGAGQRIGLALAWHLLAQGQPVIVSYRTHYPAIDGLRQAGAQCIQADFSTNAGIMAF-- 64
Query: 106 DVTQTKYHRRCFDAVI 121
+ + K H A+I
Sbjct: 65 -IDELKQHTDGLRAII 79
>gnl|CDD|236308 PRK08594, PRK08594, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 257
Score = 32.0 bits (73), Expect = 0.23
Identities = 27/113 (23%), Positives = 45/113 (39%), Gaps = 8/113 (7%)
Query: 58 IGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQTKYHRRCF 117
I +A L GAKLV + + V+ L + DVT + CF
Sbjct: 21 IAWGIARSLHNAGAKLVFTYAGERLEKEVRELADTLEGQESLLLPC--DVTSDEEITACF 78
Query: 118 DAVIQQFGCLDILINNAGRSQRAAWEDIE---LEVDRELFTYAYRPSIYTLTL 167
+ + ++ G + + + + + ED+ LE R+ F A S Y+LT
Sbjct: 79 ETIKEEVGVIHGVAHCIAFANK---EDLRGEFLETSRDGFLLAQNISAYSLTA 128
>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 = 31.7 bits (72), Expect = 0.23
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 49 VWITGASSGIGEALALQLSKCGA-KLVLSARSS 80
V +TG S GIG A+A L+ G+ K+++ +R
Sbjct: 1 VLVTGGSGGIGGAIARWLASRGSPKVLVVSRRD 33
Score = 31.3 bits (71), Expect = 0.34
Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 1/73 (1%)
Query: 189 LDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVTSS 248
D++++NA D+ NV L A A+ G ++ SS
Sbjct: 32 RDVVVHNAAILDDGRLIDLTGSRIERAIRANVVGTRRLLEAARELMKAKRLG-RFILISS 90
Query: 249 IAGIVGAPYSGSY 261
+AG+ GAP G Y
Sbjct: 91 VAGLFGAPGLGGY 103
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase,
extended (e) SDRs. UDP-Glcnac inverting
4,6-dehydratase was identified in Helicobacter pylori
as the hexameric flaA1 gene product (FlaA1). FlaA1 is
hexameric, possesses UDP-GlcNAc-inverting
4,6-dehydratase activity, and catalyzes the first step
in the creation of a pseudaminic acid derivative in
protein glycosylation. Although this subgroup has the
NADP-binding motif characteristic of extended SDRs, its
members tend to have a Met substituted for the active
site Tyr found in most SDR families. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 287
Score = 32.2 bits (74), Expect = 0.25
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 46 NKVVWITGASSGIGEALALQLSKCGAK-LVLSARSSSNLERVKN 88
K + +TG + IG L Q+ K G K L++ R + L +
Sbjct: 2 GKTILVTGGAGSIGSELVRQILKFGPKKLIVFDRDENKLHELVR 45
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 32.0 bits (72), Expect = 0.29
Identities = 30/99 (30%), Positives = 44/99 (44%), Gaps = 16/99 (16%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVL--SARSSSNLERVKNL------CVQAGAHPQ 98
KV +TGAS GIG A+A +L+ GA + + R E V + GA+ +
Sbjct: 5 KVALVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQSNGGSAFSIGANLE 64
Query: 99 SIYTLT--LDVTQTKYHRRCFDAVIQQFGCLDILINNAG 135
S++ + + R +F DILINNAG
Sbjct: 65 SLHGVEALYSSLDNELQNRTGST---KF---DILINNAG 97
>gnl|CDD|176232 cd08271, MDR5, 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 = 325
Score = 31.9 bits (73), Expect = 0.31
Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNL 89
+ ITG + G+G + A+QL+K V++ S N E VK+L
Sbjct: 145 ILITGGAGGVG-SFAVQLAKRAGLRVITTCSKRNFEYVKSL 184
>gnl|CDD|187589 cd05328, 3alpha_HSD_SDR_c, alpha hydroxysteroid dehydrogenase
(3alpha_HSD), classical (c) SDRs. Bacterial
3-alpha_HSD, which catalyzes the NAD-dependent
oxidoreduction of hydroxysteroids, is a dimeric member
of the classical SDR family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 31.7 bits (72), Expect = 0.33
Identities = 20/66 (30%), Positives = 27/66 (40%), Gaps = 9/66 (13%)
Query: 187 GCLDILINNAGRSQRAAWEDIELEVDRELFELNVFSVLSLSRIATSYFLAREQGGHLVVT 246
G LD L+N AG + ++N F + +L A L + G VV
Sbjct: 59 GVLDGLVNCAGVGGTTVAGLV--------LKVNYFGLRALME-ALLPRLRKGHGPAAVVV 109
Query: 247 SSIAGI 252
SSIAG
Sbjct: 110 SSIAGA 115
Score = 29.8 bits (67), Expect = 1.1
Identities = 25/103 (24%), Positives = 34/103 (33%), Gaps = 29/103 (28%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAH-----PQSIYT 102
+ ITGA+SGIG A A L G ++ + +A P+
Sbjct: 1 TIVITGAASGIGAATAELLEDAGHTVI----------GID--LREADVIADLSTPEGRAA 48
Query: 103 LTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDI 145
DV RC G LD L+N AG +
Sbjct: 49 AIADVLA-----RC-------SGVLDGLVNCAGVGGTTVAGLV 79
>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 = 31.5 bits (72), Expect = 0.33
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSN 82
+TGA+ +G A+ L A +V R+
Sbjct: 3 VTGATGKLGTAVVELLLAKVASVVALVRNPEK 34
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 31.5 bits (72), Expect = 0.37
Identities = 29/87 (33%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVT 108
V ITGASSG+G A L+K G ++++ R NL++ + + G P S + +D+
Sbjct: 9 VIITGASSGVGLYAAKALAKRGWHVIMACR---NLKKAEAAAQELGIPPDSYTIIHIDLG 65
Query: 109 QTKYHRRCFDAVIQQFG-CLDILINNA 134
RR F + G LD L+ NA
Sbjct: 66 DLDSVRR-FVDDFRALGKPLDALVCNA 91
>gnl|CDD|180596 PRK06505, PRK06505, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 271
Score = 31.3 bits (71), Expect = 0.44
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 8/110 (7%)
Query: 57 GIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTLDVTQTKYHRRC 116
GI + LA Q GA+L + + + +RVK L G+ + L DV
Sbjct: 24 GIAKQLAAQ----GAELAFTYQGEALGKRVKPLAESLGSD----FVLPCDVEDIASVDAV 75
Query: 117 FDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLT 166
F+A+ +++G LD +++ G S + + + RE F+ S ++ T
Sbjct: 76 FEALEKKWGKLDFVVHAIGFSDKNELKGRYADTTRENFSRTMVISCFSFT 125
>gnl|CDD|200085 TIGR01214, rmlD, dTDP-4-dehydrorhamnose reductase. This enzyme
catalyzes the last of 4 steps in making dTDP-rhamnose,
a precursor of LPS core antigen, O-antigen, etc [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides].
Length = 287
Score = 31.2 bits (71), Expect = 0.52
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLC 90
+ ITGA+ +G L QLS G +V RS +L + L
Sbjct: 2 ILITGANGQLGRELVQQLSPEGRVVVALTRSQLDLTDPEALE 43
>gnl|CDD|176229 cd08268, MDR2, 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 = 328
Score = 31.0 bits (71), Expect = 0.53
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 48 VVWITGASSGIGEALALQLSK-CGAKLVLSARSSSNLERVKNLCVQAGAH 96
V IT ASS +G A A+Q++ GA ++ + R+S + + GA
Sbjct: 147 SVLITAASSSVGLA-AIQIANAAGATVIATTRTSEKRDALL----ALGAA 191
>gnl|CDD|234027 TIGR02824, quinone_pig3, putative NAD(P)H quinone oxidoreductase,
PIG3 family. Members of this family are putative
quinone oxidoreductases that belong to the broader
superfamily (modeled by Pfam pfam00107) of
zinc-dependent alcohol (of medium chain length)
dehydrogenases and quinone oxiooreductases. The
alignment shows no motif of conserved Cys residues as
are found in zinc-binding members of the superfamily,
and members are likely to be quinone oxidoreductases
instead. A member of this family in Homo sapiens, PIG3,
is induced by p53 but is otherwise uncharacterized
[Unknown function, Enzymes of unknown specificity].
Length = 325
Score = 31.1 bits (71), Expect = 0.62
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 45 NNKVVWITGASSGIGEALALQLSK-CGAKLVLSARSSSNLERVKNL 89
+ V I G +SGIG A+QL+K GA++ +A S + L
Sbjct: 139 AGETVLIHGGASGIGTT-AIQLAKAFGARVFTTAGSDEKCAACEAL 183
>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 = 30.2 bits (69), Expect = 0.78
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 7/50 (14%)
Query: 53 GASSGIGEALALQLSKCGAKLVLSARSS-------SNLERVKNLCVQAGA 95
GA+ IG A+A LS G +++ + RSS ++ +K L + G
Sbjct: 5 GATGTIGLAVAQLLSAHGHEVITAGRSSGDYQVDITDEASIKALFEKVGH 54
>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 = 30.4 bits (69), Expect = 0.87
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 49 VWITGASSGIGEALALQLSK-CGAKLVLSARSSSNLERVKNLCVQAGAH 96
V +TGAS G+G A+QL+ GA +V S R + L A
Sbjct: 136 VLVTGASGGVGR-FAVQLAALAGAHVVAVVGSP---ARAEGLRELGAAE 180
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 30.3 bits (68), Expect = 0.89
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLER 85
+ +TG + IG L +L G + R L+
Sbjct: 1 MRILVTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGLDP 39
>gnl|CDD|181416 PRK08415, PRK08415, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 274
Score = 30.1 bits (68), Expect = 1.1
Identities = 31/128 (24%), Positives = 65/128 (50%), Gaps = 14/128 (10%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLT 104
NNK + + GI +A Q GA+L + + + +RV+ + + G S Y
Sbjct: 15 NNKSI-----AYGIAKACFEQ----GAELAFTYLNEALKKRVEPIAQELG----SDYVYE 61
Query: 105 LDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYT 164
LDV++ ++ + +++ + G +D ++++ + + A E LE +E F A S+Y+
Sbjct: 62 LDVSKPEHFKSLAESLKKDLGKIDFIVHSVAFAPKEALEGSFLETSKEAFNIAMEISVYS 121
Query: 165 LTLDVTQT 172
L +++T+
Sbjct: 122 L-IELTRA 128
>gnl|CDD|187562 cd05252, CDP_GD_SDR_e, CDP-D-glucose 4,6-dehydratase, extended
(e) SDRs. This subgroup contains CDP-D-glucose
4,6-dehydratase, an extended SDR, which catalyzes the
conversion of CDP-D-glucose to
CDP-4-keto-6-deoxy-D-glucose. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 336
Score = 30.4 bits (69), Expect = 1.1
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 43 YFNNKVVWITGASSGIGEALALQLSKCGAK---LVLSARSSSNLERVKNL 89
++ K V +TG + G L+L L + GAK L ++ NL + NL
Sbjct: 1 FWQGKRVLVTGHTGFKGSWLSLWLQELGAKVIGYSLDPPTNPNLFELANL 50
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 30.1 bits (68), Expect = 1.1
Identities = 31/86 (36%), Positives = 42/86 (48%), Gaps = 6/86 (6%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSA-RSSSNLERVKNLCVQAGAHPQSIYT-LTLDVT 108
ITGASSG+G A A L++ G V+ A R ER AG P+ YT + LD+
Sbjct: 2 ITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAK---SAGM-PKDSYTVMHLDLA 57
Query: 109 QTKYHRRCFDAVIQQFGCLDILINNA 134
R+ D + LD+L+ NA
Sbjct: 58 SLDSVRQFVDNFRRSGRPLDVLVCNA 83
>gnl|CDD|180949 PRK07370, PRK07370, enoyl-(acyl carrier protein) reductase;
Validated.
Length = 258
Score = 30.1 bits (68), Expect = 1.1
Identities = 28/110 (25%), Positives = 48/110 (43%), Gaps = 9/110 (8%)
Query: 151 RELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELE 210
REL T PS++ L DV F+ + Q++G LDIL++ + +
Sbjct: 52 REL-TEPLNPSLF-LPCDVQDDAQIEETFETIKQKWGKLDILVHCLAFAGKEELIGDFSA 109
Query: 211 VDRELF----ELNVFSVLSLSRIATSYFLAREQGGHLVVTSSIAGIVGAP 256
RE F E++ +S+ L + A +GG +V + + G+ P
Sbjct: 110 TSREGFARALEISAYSLAPLCKAAKPLM---SEGGSIVTLTYLGGVRAIP 156
>gnl|CDD|137204 PRK09310, aroDE, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase protein; Reviewed.
Length = 477
Score = 30.2 bits (68), Expect = 1.2
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 45 NNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQAGAHP 97
NN+ V I GA G +A+A L++ GA+L++ R+ ++ E + + C Q A P
Sbjct: 331 NNQHVAIVGAG-GAAKAIATTLARAGAELLIFNRTKAHAEALASRC-QGKAFP 381
>gnl|CDD|133430 cd05294, LDH-like_MDH_nadp, A lactate dehydrogenases-like
structure with malate dehydrogenase enzymatic activity.
The LDH-like MDH proteins have a lactate
dehyhydrogenase-like (LDH-like) structure and malate
dehydrogenase (MDH) enzymatic activity. This subgroup
is composed of some archaeal LDH-like MDHs that prefer
NADP(H) rather than NAD(H) as a cofactor. One member,
MJ0490 from Methanococcus jannaschii, has been observed
to form dimers and tetramers during crystalization,
although it is believed to exist primarilly as a
tetramer in solution. In addition to its MDH activity,
MJ0490 also possesses
fructose-1,6-bisphosphate-activated LDH activity.
Members of this subgroup have a higher sequence
similarity to LDHs than to other MDHs. LDH catalyzes
the last step of glycolysis in which pyruvate is
converted to L-lactate. MDH is one of the key enzymes
in the citric acid cycle, facilitating both the
conversion of malate to oxaloacetate and replenishing
levels of oxalacetate by reductive carboxylation of
pyruvate. The LDH-like MDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which
includes a wide variety of protein families including
the NAD(P)- binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenase, aminoacid
dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 309
Score = 30.1 bits (68), Expect = 1.3
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 49 VWITGASSGIGEALALQLSK--CGAKLVLSARSSSNLERVKNL 89
V I GAS +G A AL L+K ++ L +R S LE++K L
Sbjct: 3 VSIIGASGRVGSATALLLAKEDVVKEINLISRPKS-LEKLKGL 44
>gnl|CDD|176210 cd08248, RTN4I1, Human Reticulon 4 Interacting Protein 1. Human
Reticulon 4 Interacting Protein 1 is a member of the
medium chain dehydrogenase/ reductase (MDR) family.
Riticulons are endoplasmic reticulum associated proteins
involved in membrane trafficking and neuroendocrine
secretion. The 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.
Length = 350
Score = 29.9 bits (68), Expect = 1.5
Identities = 24/86 (27%), Positives = 34/86 (39%), Gaps = 8/86 (9%)
Query: 45 NNKVVWITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTL 103
K V I G S G+G A+QL K GA V + S+ + VK+L GA Y
Sbjct: 162 AGKRVLILGGSGGVG-TFAIQLLKAWGAH-VTTTCSTDAIPLVKSL----GADDVIDYNN 215
Query: 104 TLDVTQTKYHRRCFDAVIQQFGCLDI 129
+ + FD ++ G
Sbjct: 216 EDFEEELTERGK-FDVILDTVGGDTE 240
>gnl|CDD|185277 PRK15379, PRK15379, pathogenicity island 1 effector protein SopD;
Provisional.
Length = 317
Score = 29.2 bits (65), Expect = 2.0
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 8/72 (11%)
Query: 83 LERVKNLCVQAGAHPQSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDILINNAGRSQRAAW 142
+R+++L A Q ++T+ +D +QT++ D VI Q DIL S A
Sbjct: 84 FKRLQHLACPAH---QDLFTIKMDASQTQFLLMVGDTVISQSNIKDIL----NISDDAVI 136
Query: 143 EDIELEVDRELF 154
E + E +R+LF
Sbjct: 137 ESMSRE-ERQLF 147
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are encoded
near genes for homologs of PfaB, PfaC, and/or PfaD.
Length = 2582
Score = 29.6 bits (66), Expect = 2.1
Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 45 NNKVVWITGASSGIGEALALQLSK-CGAKLVLSARSS 80
++ V +TG + G+ AL+L+K C A +L+ RSS
Sbjct: 1996 SDDVFLVTGGAKGVTFECALELAKQCQAHFILAGRSS 2032
>gnl|CDD|173859 cd08494, PBP2_NikA_DppA_OppA_like_6, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 448
Score = 29.5 bits (67), Expect = 2.1
Identities = 11/35 (31%), Positives = 15/35 (42%)
Query: 151 RELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQ 185
R+L A TLTL + Y RR + + Q
Sbjct: 304 RQLLAEAGAAYGLTLTLTLPPLPYARRIGEIIASQ 338
>gnl|CDD|221484 pfam12242, Eno-Rase_NADH_b, NAD(P)H binding domain of
trans-2-enoyl-CoA reductase. This family carries the
region of the enzyme trans-2-enoyl-CoA reductase,
EC:1.3.1.44, which binds NAD(P)H. The activity of the
enzyme was characterized in Euglena where an unusual
fatty acid synthesis path-way in the mitochondria
performs a malonyl-CoA independent synthesis of fatty
acids leading to accumulation of wax esters, which
serve as the sink for electrons stemming from
glycolytic ATP synthesis and pyruvate oxidation. The
full enzyme catalyzes the reduction of enoyl-CoA to
acyl-CoA. The binding site is conserved as GA/CSpGYG,
where p is any polar residue.
Length = 78
Score = 27.4 bits (61), Expect = 2.2
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 47 KVVWITGASSGIGEALALQLSKCGA 71
K V + GASSG G A + L+ GA
Sbjct: 40 KKVLVIGASSGYGLASRIALA-FGA 63
>gnl|CDD|163279 TIGR03466, HpnA, hopanoid-associated sugar epimerase. The
sequences in this family are members of the pfam01370
superfamily of NAD-dependent epimerases and
dehydratases typically acting on nucleotide-sugar
substrates. The genes of the family modeled here are
generally in the same locus with genes involved in the
biosynthesis and elaboration of hopene, the cyclization
product of the polyisoprenoid squalene. This gene and
its association with hopene biosynthesis in Zymomonas
mobilis has been noted in the literature where the gene
symbol hpnA was assigned. Hopanoids are known to be
components of the plasma membrane and to have polar
sugar head groups in Z. mobilis and other species.
Length = 328
Score = 29.2 bits (66), Expect = 2.5
Identities = 12/46 (26%), Positives = 25/46 (54%)
Query: 47 KVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNLCVQ 92
V +TGA+ +G A+ L + G ++ + R +S+ ++ L V+
Sbjct: 1 MKVLVTGATGFVGSAVVRLLLEQGEEVRVLVRPTSDRRNLEGLDVE 46
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(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. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally 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. 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. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 28.8 bits (65), Expect = 2.6
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 11/78 (14%)
Query: 47 KVVWITGASSGIGEALALQLSK-CGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
V+ + GA G+G LA QL+K GA+++++ RS LE K L GA I
Sbjct: 137 TVL-VLGAG-GVG-LLAAQLAKAAGARVIVTDRSDEKLELAKEL----GAD-HVIDYKEE 188
Query: 106 DVTQTKY--HRRCFDAVI 121
D+ + D VI
Sbjct: 189 DLEEELRLTGGGGADVVI 206
>gnl|CDD|178256 PLN02650, PLN02650, dihydroflavonol-4-reductase.
Length = 351
Score = 29.0 bits (65), Expect = 2.7
Identities = 15/41 (36%), Positives = 26/41 (63%)
Query: 49 VWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVKNL 89
V +TGAS IG L ++L + G + + R +N+++VK+L
Sbjct: 8 VCVTGASGFIGSWLVMRLLERGYTVRATVRDPANVKKVKHL 48
>gnl|CDD|188533 TIGR04018, Bthiol_YpdA, putative bacillithiol system
oxidoreductase, YpdA family. Members of this protein
family, including YpdA from Bacillus subtilis, are
apparent oxidoreductases present only in species with an
active bacillithiol system. They have been suggested
actually to be thiol disulfide oxidoreductases (TDOR),
although the evidence is incomplete [Unknown function,
Enzymes of unknown specificity].
Length = 316
Score = 28.7 bits (65), Expect = 3.0
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 43 YFNNKVVWITGASSGIGEALALQLSKCGAKLVLSARSSSNLERVK 87
YF KVV + G++S + +A AL+L + GA++ + R VK
Sbjct: 150 YFGQKVVVVGGSNSAV-DA-ALELYRKGAEVTMVHRGDEVSSSVK 192
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 28.9 bits (65), Expect = 3.4
Identities = 30/104 (28%), Positives = 44/104 (42%), Gaps = 16/104 (15%)
Query: 94 GAHPQ-SIYT----LTLDVTQTKYHRRCFDAVIQQFGCLD-ILINNAGRSQRAAWEDIEL 147
GA Q Y + L+V + + I+ D IL++ AGRSQ + EL
Sbjct: 247 GAVEQLKTYADIMGVPLEVVYSP---KELAEAIEALRDCDVILVDTAGRSQYDKEKIEEL 303
Query: 148 EVDRELFTYAYRPSIYTLTLDVTQTKYHRRCFDAVIQQFGCLDI 191
+ EL ++ +Y L L T TKY +I+QF I
Sbjct: 304 K---ELIDVSHSIEVY-LVLSAT-TKY--EDLKEIIKQFSLFPI 340
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 28.5 bits (64), Expect = 3.7
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 39 KRLNYFNNKVVWITGASSGIGEALALQLSKC-GAKLVLSARSSSNLERVK 87
+R + V +TGA G+G A+Q++K GAK++ S S + V
Sbjct: 156 RRAGVKKGETVLVTGAGGGVG-IHAIQVAKALGAKVIAVTSSESKAKIVS 204
>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 = 27.9 bits (63), Expect = 4.9
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 44 FNNKVVWITGASSG-IGEALALQLSKCGAKLVLSARSSS 81
F KV +TGA G IG + L GA ++++ S
Sbjct: 5 FAGKVALVTGAGPGSIGAEVVAGLLAGGATVIVTTSRFS 43
>gnl|CDD|183549 PRK12479, PRK12479, branched-chain amino acid aminotransferase;
Provisional.
Length = 299
Score = 28.0 bits (62), Expect = 5.0
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 39 KRLNYFNNKVVWITGASSGIGEALAL 64
K +NY NN +V I A +G+ EAL L
Sbjct: 152 KSMNYLNNVLVKIEAAQAGVLEALML 177
>gnl|CDD|237819 PRK14805, PRK14805, ornithine carbamoyltransferase; Provisional.
Length = 302
Score = 27.7 bits (62), Expect = 6.4
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 235 LAREQGGHLVVTSSIAGIVGAPYSGSYTD 263
LA + GG LV+TS I I G YTD
Sbjct: 195 LAAKSGGKLVLTSDIEAIEGH--DAIYTD 221
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended
or atypical short-chain dehydrogenases/reductases
(SDRs, aka tyrosine-dependent oxidoreductases) 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.
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. 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 = 176
Score = 27.4 bits (61), Expect = 6.8
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSS 80
I GA+ IG ALA +L + G ++ L R++
Sbjct: 3 ILGATGFIGRALARELLEQGHEVTLLVRNT 32
>gnl|CDD|187551 cd05240, UDP_G4E_3_SDR_e, UDP-glucose 4 epimerase (G4E), subgroup
3, extended (e) SDRs. Members of this bacterial
subgroup are identified as possible sugar epimerases,
such as UDP-glucose 4 epimerase. However, while the
NAD(P)-binding motif is fairly well conserved, not all
members retain the canonical active site tetrad of the
extended SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. 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 = 306
Score = 27.7 bits (62), Expect = 7.2
Identities = 21/118 (17%), Positives = 37/118 (31%), Gaps = 30/118 (25%)
Query: 49 VWITGASSGIGEALALQLSK---CGAKLVLSARSSSNLERVKNLCVQAGAHPQSIYTLTL 105
+ +TGA+ G+G LA +L+ L R + P + + L
Sbjct: 1 ILVTGAAGGLGRLLARRLAASPRVIGVDGLDRR-------------RPPGSPPKVEYVRL 47
Query: 106 DVTQ----TKYHRRCFDAVIQQFGCLDILINNAGRSQRAAWEDIELEVD--RELFTYA 157
D+ + R DAV+ I + R + VD + +
Sbjct: 48 DIRDPAAADVFREREADAVVHL-----AFILDPPRDGAERH---RINVDGTQNVLDAC 97
>gnl|CDD|217311 pfam02995, DUF229, Protein of unknown function (DUF229). Members
of this family are uncharacterized. They are 500-1200
amino acids in length and share a long region
conservation that probably corresponds to several
domains. The Go annotation for the protein indicates
that it is involved in nematode larval development and
has a positive regulation on growth rate.
Length = 492
Score = 27.7 bits (62), Expect = 7.2
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 7/60 (11%)
Query: 113 HRRCFDAVIQQFGCL----DILINNAGRSQRAAWEDIELEVDRELFTYAYRPSIYTLTLD 168
+R C DA I + C + N +R A +E ++ L T + P L L+
Sbjct: 433 NRTCSDAGIPEHWCTCEPDKEVPTNDTLIRRIAESVVE-RINEYLKT--HSPQCAPLELN 489
>gnl|CDD|176237 cd08276, MDR7, 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 = 336
Score = 27.5 bits (62), Expect = 7.3
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 5/35 (14%)
Query: 63 ALQLSKC-GAKLVLSARSSSNLERVKNLCVQAGAH 96
ALQ +K GA+++ ++ S LER K L GA
Sbjct: 176 ALQFAKAAGARVIATSSSDEKLERAKAL----GAD 206
>gnl|CDD|150844 pfam10233, Cg6151-P, Uncharacterized conserved protein CG6151-P.
This is a family of small, less than 200 residue long,
proteins which are named as CG6151-P proteins that are
conserved from fungi to humans. The function is unknown.
The fungal members have a characteristic ICP sequence
motif. Some members are annotated as putative
clathrin-coated vesicle protein but this could not be
defined.
Length = 113
Score = 26.4 bits (59), Expect = 7.4
Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 18/84 (21%)
Query: 4 FSLVGLIYLIYIIVQGLFLLAVD-------CDLYLFFIEKINKR-------LNYFNNKVV 49
S V +++ I IVQG ++ ++ C F E I K Y VV
Sbjct: 20 ISAVCIVFGILCIVQGFVVIFIEVPFLLRICPTSDKFAEFIRKFTTNWMRAAFYCIMAVV 79
Query: 50 -WIT---GASSGIGEALALQLSKC 69
WI+ GA+S IG A+ L ++
Sbjct: 80 PWISLCFGATSLIGVAIFLAITGI 103
>gnl|CDD|173547 PTZ00354, PTZ00354, alcohol dehydrogenase; Provisional.
Length = 334
Score = 27.3 bits (61), Expect = 8.5
Identities = 15/53 (28%), Positives = 22/53 (41%), Gaps = 2/53 (3%)
Query: 49 VWITGASSGIGEALALQL-SKCGAKLVLSARSSSNLERVKNLCVQAGAHPQSI 100
V I +SG+G A A QL K GA +++ S ++ K L
Sbjct: 144 VLIHAGASGVGTA-AAQLAEKYGAATIITTSSEEKVDFCKKLAAIILIRYPDE 195
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 26.9 bits (60), Expect = 9.0
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSS 81
+ GA+ G L +L G ++ +R+ S
Sbjct: 3 VIGATGKTGRRLVKELLARGHQVTALSRNPS 33
>gnl|CDD|225807 COG3268, COG3268, Uncharacterized conserved protein [Function
unknown].
Length = 382
Score = 27.0 bits (60), Expect = 9.9
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 51 ITGASSGIGEALALQLSKCGAKLVLSARSSSNLERV 86
I GA+ G +A L++ G L+ RSS+ L+ +
Sbjct: 11 IYGATGYAGGLVAEYLAREGLTAALAGRSSAKLDAL 46
>gnl|CDD|129902 TIGR00822, EII-Sor, PTS system, mannose/fructose/sorbose family,
IIC component. Bacterial PTS transporters transport and
concomitantly phosphorylate their sugar substrates, and
typically consist of multiple subunits or protein
domains. The Man (PTS splinter group) family is unique
in several respects among PTS permease families. It is
the only PTS family in which members possess a IID
protein. It is the only PTS family in which the IIB
constituent is phosphorylated on a histidyl rather than
a cysteyl residue. Its permease members exhibit broad
specificity for a range of sugars, rather than being
specific for just one or a few sugars. The mannose
permease of E. coli, for example, can transport and
phosphorylate glucose, mannose, fructose,
glucosamine,N-acetylglucosamine, and other sugars. Other
members of this family can transport sorbose, fructose
and N-acetylglucosamine. This family is specific for the
sorbose-specific IIC subunits of this family of PTS
transporters [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids, Signal
transduction, PTS].
Length = 265
Score = 27.1 bits (60), Expect = 9.9
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 48 VVWITGASSGIGEALALQLSKCGAKLVLSARS 79
+V S G G ALAL L+ G L + R+
Sbjct: 84 LVISGHQSIGTGIALALPLAAAGQVLTIFVRT 115
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
0.325 0.139 0.413
Gapped
Lambda K H
0.267 0.0755 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,510,947
Number of extensions: 1287794
Number of successful extensions: 2631
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2298
Number of HSP's successfully gapped: 554
Length of query: 265
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 170
Effective length of database: 6,723,972
Effective search space: 1143075240
Effective search space used: 1143075240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.1 bits)