RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5270
(352 letters)
>gnl|CDD|235797 PRK06411, PRK06411, NADH dehydrogenase subunit B; Validated.
Length = 183
Score = 153 bits (389), Expect = 1e-45
Identities = 49/73 (67%), Positives = 60/73 (82%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EP+WVISMGSCAN GG YHYSYSVV+G DRI+PVD+YVPGCPP EAL+YGIL+LQKK
Sbjct: 99 MPEPKWVISMGSCANSGGMYHYSYSVVQGVDRIVPVDVYVPGCPPRPEALLYGILKLQKK 158
Query: 340 VKRMKILQSWYRR 352
+++ + + R
Sbjct: 159 IRQSERERKRGER 171
>gnl|CDD|223454 COG0377, NuoB, NADH:ubiquinone oxidoreductase 20 kD subunit and
related Fe-S oxidoreductases [Energy production and
conversion].
Length = 194
Score = 145 bits (369), Expect = 2e-42
Identities = 44/73 (60%), Positives = 54/73 (73%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EP+WVISMGSCAN GG Y SYSVV+G DR++PVD+Y+PGCPP EAL+YGIL LQ+K
Sbjct: 100 MPEPKWVISMGSCANSGGMYWNSYSVVQGVDRVVPVDVYIPGCPPRPEALLYGILLLQEK 159
Query: 340 VKRMKILQSWYRR 352
++R
Sbjct: 160 IRREGRPLRDKPG 172
>gnl|CDD|233656 TIGR01957, nuoB_fam, NADH-quinone oxidoreductase, B subunit. This
model describes the B chain of complexes that resemble
NADH-quinone oxidoreductases. The electron acceptor is a
quinone, ubiquinone, in mitochondria and most bacteria,
including Escherichia coli, where the recommended gene
symbol is nuoB. The quinone is plastoquinone in
Synechocystis (where the chain is designated K) and in
chloroplast, where NADH may be replaced by NADPH. In the
methanogenic archaeal genus Methanosarcina, NADH is
replaced by F420H2 [Energy metabolism, Electron
transport].
Length = 145
Score = 139 bits (352), Expect = 1e-40
Identities = 44/63 (69%), Positives = 56/63 (88%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EP+WVISMG+CAN GG +H SYSVV+G DRI+PVD+Y+PGCPP EAL+YG+++LQKK
Sbjct: 82 MPEPKWVISMGACANSGGMFHTSYSVVQGVDRIVPVDVYIPGCPPRPEALIYGLIKLQKK 141
Query: 340 VKR 342
+KR
Sbjct: 142 IKR 144
>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 = 102 bits (256), Expect = 2e-25
Identities = 38/102 (37%), Positives = 55/102 (53%), Gaps = 10/102 (9%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNS 183
+ FLPDM+E+N GHIV I+S+AG++ L YCASK A G E+L EL+ +
Sbjct: 114 TTKAFLPDMLERNHGHIVTIASVAGLISPAGLADYCASKAAAVGFHESLRLELKAYGKPG 173
Query: 184 KIKFTSIFPFMVDTGLCKNPKIKMNRLSSLPRGFGAFPVLEA 225
IK T + P+ ++TG+ + K L P+LE
Sbjct: 174 -IKTTLVCPYFINTGMFQGVKTPRPLL---------APILEP 205
>gnl|CDD|173279 PRK14818, PRK14818, NADH dehydrogenase subunit B; Provisional.
Length = 173
Score = 99.6 bits (248), Expect = 3e-25
Identities = 37/62 (59%), Positives = 49/62 (79%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EP++VISMGSC+N GG + YSV +G D++IPVD+YVPGCPP EAL G+L+LQ+
Sbjct: 95 MPEPKYVISMGSCSNCGGLFQLGYSVCKGVDKVIPVDVYVPGCPPRPEALTEGLLRLQEI 154
Query: 340 VK 341
V+
Sbjct: 155 VR 156
>gnl|CDD|183955 PRK13292, PRK13292, trifunctional NADH dehydrogenase I subunit
B/C/D; Provisional.
Length = 788
Score = 105 bits (263), Expect = 9e-25
Identities = 38/63 (60%), Positives = 51/63 (80%), Gaps = 1/63 (1%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EP+WVISMGSCAN GG Y YSVV+G ++I+PVD+Y+PGCPP EA + G++ LQ+K
Sbjct: 87 MAEPKWVISMGSCANSGGMYDV-YSVVQGVNQILPVDVYIPGCPPRPEAFLQGLMLLQEK 145
Query: 340 VKR 342
++R
Sbjct: 146 IRR 148
>gnl|CDD|237822 PRK14819, PRK14819, NADH dehydrogenase subunit B; Provisional.
Length = 264
Score = 97.7 bits (243), Expect = 2e-23
Identities = 36/73 (49%), Positives = 52/73 (71%), Gaps = 1/73 (1%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EPR+VISMG+CA GG + Y+V+RG D +IPVD+Y+PGCPP EAL++ ++ LQK+
Sbjct: 96 MPEPRYVISMGACATSGGPFRDGYNVLRGIDLLIPVDVYIPGCPPRPEALLHALMTLQKQ 155
Query: 340 VKRMKILQS-WYR 351
+ + + WY
Sbjct: 156 IDAQSLGRVRWYG 168
>gnl|CDD|237821 PRK14815, PRK14815, NADH dehydrogenase subunit B; Provisional.
Length = 183
Score = 94.2 bits (234), Expect = 4e-23
Identities = 35/73 (47%), Positives = 56/73 (76%), Gaps = 1/73 (1%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EP+WVI+MG+CA+ GG Y SYSV++G DRI+PVD+Y+ GCPP EA++ +++LQKK
Sbjct: 98 MPEPKWVIAMGACASSGGMYR-SYSVLQGVDRILPVDVYISGCPPRPEAILDALIKLQKK 156
Query: 340 VKRMKILQSWYRR 352
+ + ++ +++
Sbjct: 157 IDTERAARTLFKK 169
>gnl|CDD|173274 PRK14813, PRK14813, NADH dehydrogenase subunit B; Provisional.
Length = 189
Score = 93.4 bits (232), Expect = 1e-22
Identities = 37/67 (55%), Positives = 54/67 (80%), Gaps = 1/67 (1%)
Query: 280 MLEPRWVISMGSCANGGG-YYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQK 338
M EPR+V+SMGSC+N GG Y+ + Y V++G DRIIPVD+YVPGCPP EAL+ G++++Q+
Sbjct: 92 MPEPRYVLSMGSCSNCGGPYWEHGYHVLKGVDRIIPVDVYVPGCPPRPEALIGGLMKVQE 151
Query: 339 KVKRMKI 345
++ +I
Sbjct: 152 LIRMEQI 158
>gnl|CDD|173277 PRK14816, PRK14816, NADH dehydrogenase subunit B; Provisional.
Length = 182
Score = 92.3 bits (229), Expect = 2e-22
Identities = 34/62 (54%), Positives = 48/62 (77%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M +P++VI++G CA GG + SY V+ G D+I+PVD+Y+PGCPP EA YG++QLQ+K
Sbjct: 106 MADPKYVIAVGGCAVSGGPFKKSYHVLNGVDKILPVDVYIPGCPPRPEAFYYGMMQLQRK 165
Query: 340 VK 341
VK
Sbjct: 166 VK 167
>gnl|CDD|184833 PRK14820, PRK14820, NADH dehydrogenase subunit B; Provisional.
Length = 180
Score = 90.3 bits (224), Expect = 1e-21
Identities = 34/62 (54%), Positives = 51/62 (82%), Gaps = 1/62 (1%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EPRWV+++G+CA+ GG + +YSV++G DRIIPVD+YVPGCPP E ++ G++++Q+
Sbjct: 98 MAEPRWVVAVGACASSGGIFD-TYSVLQGIDRIIPVDVYVPGCPPRPEQIIDGVMRVQEL 156
Query: 340 VK 341
VK
Sbjct: 157 VK 158
>gnl|CDD|225799 COG3260, COG3260, Ni,Fe-hydrogenase III small subunit [Energy
production and conversion].
Length = 148
Score = 87.8 bits (218), Expect = 4e-21
Identities = 29/71 (40%), Positives = 46/71 (64%)
Query: 274 LKNLQIMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGI 333
K + M EP+ VI++G+CA GG + SYSV D++IPVD+ +PGCPP EA++ G+
Sbjct: 68 KKAYEAMPEPKIVIAVGACALSGGIFKDSYSVWGPVDKVIPVDVEIPGCPPRPEAILAGL 127
Query: 334 LQLQKKVKRMK 344
+ K+++
Sbjct: 128 VAALGKLEKKI 138
>gnl|CDD|173278 PRK14817, PRK14817, NADH dehydrogenase subunit B; Provisional.
Length = 181
Score = 87.3 bits (216), Expect = 1e-20
Identities = 34/62 (54%), Positives = 49/62 (79%), Gaps = 1/62 (1%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M +P+WV++ G CA+ GG+Y +Y+ V+G DRIIPVD+YVPGCPP E ++ GI+ LQKK
Sbjct: 100 MADPKWVMAFGVCASSGGFYD-NYATVQGIDRIIPVDVYVPGCPPRPEQVLDGIMLLQKK 158
Query: 340 VK 341
++
Sbjct: 159 IQ 160
>gnl|CDD|173275 PRK14814, PRK14814, NADH dehydrogenase subunit B; Provisional.
Length = 186
Score = 87.0 bits (215), Expect = 2e-20
Identities = 34/62 (54%), Positives = 51/62 (82%), Gaps = 1/62 (1%)
Query: 280 MLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKK 339
M EP++VIS+G+CA+ GG +H +Y V++G DRI+PVD+YVPGCPP EA++ +++LQ K
Sbjct: 98 MAEPKFVISVGACASSGGMFH-TYGVLQGVDRILPVDVYVPGCPPRPEAILDALVKLQTK 156
Query: 340 VK 341
+K
Sbjct: 157 LK 158
>gnl|CDD|214337 CHL00023, ndhK, NADH dehydrogenase subunit K.
Length = 225
Score = 86.3 bits (214), Expect = 8e-20
Identities = 34/64 (53%), Positives = 48/64 (75%), Gaps = 1/64 (1%)
Query: 280 MLEPRWVISMGSCANGGGYYHY-SYSVVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQK 338
M EP++VI+MG+C GG + SYS VRG D++IPVD+Y+PGCPP EA++ I +L+K
Sbjct: 96 MPEPKYVIAMGACTITGGMFSTDSYSTVRGVDKLIPVDVYLPGCPPKPEAVIDAITKLRK 155
Query: 339 KVKR 342
K+ R
Sbjct: 156 KISR 159
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 83.5 bits (207), Expect = 2e-18
Identities = 26/71 (36%), Positives = 41/71 (57%), Gaps = 4/71 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
P M+ + RGH+V ++S+AG + +P + YCASK AV G +A EL R + + +
Sbjct: 121 APRMVPRGRGHVVNVASLAGKIPVPGMATYCASKHAVVGFTDAARLEL----RGTGVHVS 176
Query: 189 SIFPFMVDTGL 199
+ P V+T L
Sbjct: 177 VVLPSFVNTEL 187
>gnl|CDD|216271 pfam01058, Oxidored_q6, NADH ubiquinone oxidoreductase, 20 Kd
subunit.
Length = 122
Score = 79.1 bits (196), Expect = 3e-18
Identities = 24/64 (37%), Positives = 38/64 (59%), Gaps = 4/64 (6%)
Query: 277 LQIMLEPRWVISMGSCANGGG---YYHYSYSV-VRGCDRIIPVDIYVPGCPPTAEALMYG 332
++ + + VI++G+CA GG + SY V V ++PVDI +PGCPP EA++
Sbjct: 59 YELAPKAKAVIAVGTCAAYGGIPAAGNNSYGVGVGPVLEVVPVDINIPGCPPHPEAILGT 118
Query: 333 ILQL 336
+L L
Sbjct: 119 LLAL 122
>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 = 81.2 bits (201), Expect = 8e-18
Identities = 29/72 (40%), Positives = 40/72 (55%), Gaps = 4/72 (5%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
LP M ++ G IV ISS+AG+ LP Y ASK A+ GL +LA EL I+
Sbjct: 116 ALPHMKKQGGGRIVNISSVAGLRPLPGQAAYAASKAALEGLTRSLALELAPY----GIRV 171
Query: 188 TSIFPFMVDTGL 199
++ P +VDT +
Sbjct: 172 NAVAPGLVDTPM 183
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 81.2 bits (201), Expect = 1e-17
Identities = 34/84 (40%), Positives = 46/84 (54%), Gaps = 5/84 (5%)
Query: 124 ILETFLPDMMEKNRG-HIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARN 182
++ETF+P M+ RG H+V +SS AG+V LP Y ASKF +RG L+E LR D
Sbjct: 116 VIETFVPPMVAAGRGGHLVNVSSAAGLVALPWHAAYSASKFGLRG----LSEVLRFDLAR 171
Query: 183 SKIKFTSIFPFMVDTGLCKNPKIK 206
I + + P V T L +I
Sbjct: 172 HGIGVSVVVPGAVKTPLVNTVEIA 195
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 75.7 bits (187), Expect = 8e-16
Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 4/84 (4%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
LP M+E+ GHI+ I S AG++ P + Y A+K V EAL EEL + + +K
Sbjct: 126 VLPGMVERGAGHIINIGSAAGLIPTPYMAVYSATKAFVLSFSEALREEL----KGTGVKV 181
Query: 188 TSIFPFMVDTGLCKNPKIKMNRLS 211
T++ P T + LS
Sbjct: 182 TAVCPGPTRTEFFDAKGSDVYLLS 205
>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 = 74.3 bits (183), Expect = 2e-15
Identities = 35/79 (44%), Positives = 43/79 (54%), Gaps = 4/79 (5%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNS 183
ILE LP K RGH+V ISS+A + GLP Y ASK A+ L E+ LR D +
Sbjct: 113 ILEAALPQFRAKGRGHLVLISSVAALRGLPGAAAYSASKAALSSLAES----LRYDVKKR 168
Query: 184 KIKFTSIFPFMVDTGLCKN 202
I+ T I P +DT L N
Sbjct: 169 GIRVTVINPGFIDTPLTAN 187
>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 = 74.2 bits (183), Expect = 3e-15
Identities = 35/82 (42%), Positives = 42/82 (51%), Gaps = 4/82 (4%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
FLP M ++ G IV +SS+AG+V P L PYCASK A+ L E+L EL IK
Sbjct: 116 FLPLMRKQGSGRIVNVSSVAGLVPTPFLGPYCASKAALEALSESLRLELAP----FGIKV 171
Query: 188 TSIFPFMVDTGLCKNPKIKMNR 209
T I P V TG N
Sbjct: 172 TIIEPGPVRTGFADNAAGSALE 193
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 72.3 bits (178), Expect = 2e-14
Identities = 24/50 (48%), Positives = 35/50 (70%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELR 177
LP M + RGHIV I+SM G++ +P + YC SKFA+ G+ E+LA+E+
Sbjct: 120 VLPGMRARRRGHIVNITSMGGLITMPGIGYYCGSKFALEGISESLAKEVA 169
>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 = 69.6 bits (171), Expect = 9e-14
Identities = 30/69 (43%), Positives = 42/69 (60%), Gaps = 4/69 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M E+ GHIV +SS A +VG+ YC SKFA+RGL E+L +EL+ I+ +
Sbjct: 125 LPLMKEQRPGHIVFVSSQAALVGIYGYSAYCPSKFALRGLAESLRQELKP----YNIRVS 180
Query: 189 SIFPFMVDT 197
++P DT
Sbjct: 181 VVYPPDTDT 189
>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 = 69.9 bits (172), Expect = 9e-14
Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 4/74 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP ++E+++G IV +SS+AG +G+P Y ASK A++G ++L EL E I T
Sbjct: 124 LPHLIERSQGSIVVVSSIAGKIGVPFRTAYAASKHALQGFFDSLRAELSE----PNISVT 179
Query: 189 SIFPFMVDTGLCKN 202
+ P ++DT + N
Sbjct: 180 VVCPGLIDTNIAMN 193
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 69.3 bits (170), Expect = 1e-13
Identities = 29/78 (37%), Positives = 42/78 (53%), Gaps = 4/78 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M+E+ G I+ ISS AG G Y ASKF V GL E+L +E+R+ I+ T
Sbjct: 127 LPSMIERQSGDIINISSTAGQKGAAVTSAYSASKFGVLGLTESLMQEVRK----HNIRVT 182
Query: 189 SIFPFMVDTGLCKNPKIK 206
++ P V T + + +
Sbjct: 183 ALTPSTVATDMAVDLGLT 200
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 69.2 bits (170), Expect = 1e-13
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M+E+ GHI+ + S+AG P Y A+K AVR LR++ + I+ T
Sbjct: 124 LPGMVERKSGHIINLGSIAGRYPYPGGAVYGATKAAVRAFSLG----LRQELAGTGIRVT 179
Query: 189 SIFPFMVDT 197
I P +V+T
Sbjct: 180 VISPGLVET 188
>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 = 67.3 bits (165), Expect = 6e-13
Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N+K L + LP M+ +N+GHI+ + S+AG YCA+K AVR + L
Sbjct: 110 NVKGLLNVTRLILPIMIARNQGHIINLGSIAGRYPYAGGNVYCATKAAVR----QFSLNL 165
Query: 177 REDARNSKIKFTSIFPFMVDT 197
R+D + I+ T+I P +V+T
Sbjct: 166 RKDLIGTGIRVTNIEPGLVET 186
>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 = 66.0 bits (161), Expect = 2e-12
Identities = 35/107 (32%), Positives = 51/107 (47%), Gaps = 11/107 (10%)
Query: 117 NLKNLQIILETFLPDMMEKN--RGHIVGISSMAG--IVGLPNLVPYCASKFAVRGLMEAL 172
N+ L I M E+N GHI+ I+SM+G + + Y A+K AV L E L
Sbjct: 115 NVLALSICTREAYQSMKERNVDDGHIININSMSGHRVPPVSVFHFYAATKHAVTALTEGL 174
Query: 173 AEELREDARNSKIKFTSIFPFMVDTGLC-----KNPKIKMNRLSSLP 214
+ELRE + I+ TSI P +V+T +P+ S+P
Sbjct: 175 RQELRE--AKTHIRATSISPGLVETEFAFKLHDNDPEKAAATYESIP 219
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 66.0 bits (162), Expect = 2e-12
Identities = 30/73 (41%), Positives = 41/73 (56%), Gaps = 4/73 (5%)
Query: 127 TFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIK 186
+P M + G IV ++S AG+ P L Y ASK AV L +ALA EL D KI+
Sbjct: 123 AAVPAMRGEGGGAIVNVASTAGLRPRPGLGWYNASKGAVITLTKALAAELGPD----KIR 178
Query: 187 FTSIFPFMVDTGL 199
++ P +V+TGL
Sbjct: 179 VNAVAPVVVETGL 191
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 66.9 bits (164), Expect = 2e-12
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
L M ++RG I+ + S +P YCA+K A+RG ++L EL D S + T
Sbjct: 128 LRHMRPRDRGAIIQVGSALAYRSIPLQSAYCAAKHAIRGFTDSLRCELLHD--GSPVSVT 185
Query: 189 SIFPFMVDT 197
+ P V+T
Sbjct: 186 MVQPPAVNT 194
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 65.7 bits (161), Expect = 3e-12
Identities = 31/82 (37%), Positives = 39/82 (47%), Gaps = 5/82 (6%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAG-IVGLPNLVPYCASKFAVRGLMEALAEE 175
NL ++ + LP ++ G IV SS+AG VG P L Y ASK + G ALA E
Sbjct: 114 NLTGTFLLTQAALPALIRAGGGRIVLTSSVAGPRVGYPGLAHYAASKAGLVGFTRALALE 173
Query: 176 LREDARNSKIKFTSIFPFMVDT 197
L I S+ P VDT
Sbjct: 174 LAAR----NITVNSVHPGGVDT 191
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 65.2 bits (160), Expect = 3e-12
Identities = 26/70 (37%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M++ G IV ISS++G+ G P Y A+K V G +ALA EL I
Sbjct: 125 LPPMIKARYGRIVNISSVSGVTGNPGQTNYSAAKAGVIGFTKALALELASR----GITVN 180
Query: 189 SIFPFMVDTG 198
++ P +DT
Sbjct: 181 AVAPGFIDTD 190
>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 = 64.9 bits (158), Expect = 5e-12
Identities = 31/83 (37%), Positives = 41/83 (49%), Gaps = 4/83 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL L LP + +N+G IV ISS+AG V + N Y A+KF V E L +E+
Sbjct: 111 NLLGLMYTTHAALPHHLLRNKGTIVNISSVAGRVAVRNSAVYNATKFGVNAFSEGLRQEV 170
Query: 177 REDARNSKIKFTSIFPFMVDTGL 199
E ++ I P VDT L
Sbjct: 171 TER----GVRVVVIEPGTVDTEL 189
>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function
unknown].
Length = 394
Score = 66.1 bits (161), Expect = 5e-12
Identities = 46/121 (38%), Positives = 65/121 (53%), Gaps = 2/121 (1%)
Query: 4 ITRITLSHNKLKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSL 63
+ + LS NK++ +P L NL NL+ L L N + LP LS+L L L+L N++S L
Sbjct: 142 LKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDL 201
Query: 64 PRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLKNLQI 123
P LE LDL+ N++ L + L+ L L L +N E LP IGNL NL+
Sbjct: 202 PPEIELLSALEELDLSNNSI--IELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLET 259
Query: 124 I 124
+
Sbjct: 260 L 260
Score = 61.1 bits (148), Expect = 2e-10
Identities = 45/122 (36%), Positives = 66/122 (54%), Gaps = 3/122 (2%)
Query: 3 YITRITLSHNKLKEIPPGLANLV-NLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLS 61
+T + L +N + +IPP + L NL+ L L +N+IE+LP+ L +LP L+ L+L N LS
Sbjct: 117 NLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLS 176
Query: 62 SLPRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLKNL 121
LP+ L LDL+ N + LP +L L L L +N L + + NLKNL
Sbjct: 177 DLPKLLSNLSNLNNLDLSGNKI--SDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNL 234
Query: 122 QI 123
Sbjct: 235 SG 236
Score = 60.8 bits (147), Expect = 3e-10
Identities = 41/123 (33%), Positives = 60/123 (48%), Gaps = 3/123 (2%)
Query: 4 ITRITLSHNKLKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLP-KLRILNLGMNRLSS 62
+ + L+ N+L+ L L NL L L NN I +P + L L+ L+L N++ S
Sbjct: 95 LPSLDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIES 154
Query: 63 LPRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLKNLQ 122
LP P L+ LDL++N+L++ LP L L L L N LP EI L L+
Sbjct: 155 LPSPLRNLPNLKNLDLSFNDLSD--LPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALE 212
Query: 123 IIL 125
+
Sbjct: 213 ELD 215
Score = 53.0 bits (127), Expect = 8e-08
Identities = 46/128 (35%), Positives = 60/128 (46%), Gaps = 3/128 (2%)
Query: 4 ITRITLSHNKLKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSL 63
+ + LS NK+ ++PP + L LE L L NN I L +SLS+L L L L N+L L
Sbjct: 188 LNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDL 247
Query: 64 PRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLKNLQI 123
P G LE LDL+ N ++ S G+ L LR L L N I L L
Sbjct: 248 PESIGNLSNLETLDLSNNQISSISSLGS---LTNLRELDLSGNSLSNALPLIALLLLLLE 304
Query: 124 ILETFLPD 131
+L L
Sbjct: 305 LLLNLLLT 312
Score = 51.5 bits (123), Expect = 3e-07
Identities = 33/99 (33%), Positives = 45/99 (45%), Gaps = 1/99 (1%)
Query: 4 ITRITLSHNKLKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSL 63
+ + LS N L ++P L+NL NL L L N+I LP + L L L+L N + L
Sbjct: 165 LKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIEL 224
Query: 64 PRGFGAFPVLEVLDLTYNNL-NEQSLPGNFFMLETLRAL 101
L L+L+ N L + GN LETL
Sbjct: 225 LSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLS 263
Score = 49.6 bits (118), Expect = 1e-06
Identities = 37/120 (30%), Positives = 56/120 (46%), Gaps = 3/120 (2%)
Query: 5 TRITLSHNKLKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSLP 64
+ LS N L +P L+ L++L++L+ +L +L L L+L +NRL S
Sbjct: 50 LALNLSSNTLLLLPSSLSRLLSLDLLSPSGISSLDGSENLLNLLPLPSLDLNLNRLRSNI 109
Query: 65 RGFGAFPVLEVLDLTYNNLNEQSLPGN-FFMLETLRALYLGDNDFEVLPAEIGNLKNLQI 123
L LDL NN+ +P + L+ L L DN E LP+ + NL NL+
Sbjct: 110 SELLELTNLTSLDLDNNNIT--DIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKN 167
Score = 43.0 bits (101), Expect = 2e-04
Identities = 37/123 (30%), Positives = 57/123 (46%), Gaps = 3/123 (2%)
Query: 1 MLYITRITLSHNKLKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRL 60
+L + ++ S + L NL+ L L L N++ + + L L L L+L N +
Sbjct: 69 LLSLDLLSPSGISSLDGSENLLNLLPLPSLDLNLNRLRSNISELLELTNLTSLDLDNNNI 128
Query: 61 SSLPRGFGAFPV-LEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLK 119
+ +P G L+ LDL+ N + +SLP L L+ L L ND LP + NL
Sbjct: 129 TDIPPLIGLLKSNLKELDLSDNKI--ESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLS 186
Query: 120 NLQ 122
NL
Sbjct: 187 NLN 189
Score = 34.6 bits (79), Expect = 0.072
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 223 LEAFSFTTILDLTYNNLNEQSLPGN-FFMLETLRALYLGDNDFEVLPAEIGNLKNLQI 279
L + T LDL NN+ +P + L+ L L DN E LP+ + NL NL+
Sbjct: 112 LLELTNLTSLDLDNNNIT--DIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKN 167
Score = 33.0 bits (75), Expect = 0.23
Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 8/77 (10%)
Query: 205 IKMNRLSSLPRGFGAFPVLEAFSFTTILDLTYNNLNEQSLPGNFFMLETLRALYLGDNDF 264
+ N++ SLP P L+ LDL++N+L++ LP L L L L N
Sbjct: 147 LSDNKIESLPSPLRNLPNLK------NLDLSFNDLSD--LPKLLSNLSNLNNLDLSGNKI 198
Query: 265 EVLPAEIGNLKNLQIML 281
LP EI L L+ +
Sbjct: 199 SDLPPEIELLSALEELD 215
>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 = 63.6 bits (155), Expect = 1e-11
Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP + + G ++ + S+ G P Y ASK AVRG E+L EL D I T
Sbjct: 120 LPHLRRRGGGALINVGSLLGYRSAPLQAAYSASKHAVRGFTESLRAELAHDGAP--ISVT 177
Query: 189 SIFPFMVDT---GLCKNPKIKMNRLSSLP 214
+ P ++T G ++ M + P
Sbjct: 178 LVQPTAMNTPFFGHARS---YMGKKPKPP 203
>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 = 63.7 bits (155), Expect = 1e-11
Identities = 32/87 (36%), Positives = 45/87 (51%), Gaps = 5/87 (5%)
Query: 117 NLKNLQIILETFLPDMME-KNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
NL + + +P M+E N G I+ SS+AG+ LP L Y A+K + GL + LA E
Sbjct: 124 NLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALPGLAHYAAAKHGLVGLTKTLANE 183
Query: 176 LREDARNSKIKFTSIFPFMVDTGLCKN 202
L E I+ SI P+ VDT +
Sbjct: 184 LAE----YGIRVNSIHPYSVDTPMIAP 206
>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein
kinase; Provisional.
Length = 968
Score = 65.3 bits (159), Expect = 2e-11
Identities = 79/297 (26%), Positives = 128/297 (43%), Gaps = 42/297 (14%)
Query: 9 LSHNKLK-EIPPGLANLVNLEILTLFNNQIE-TLPTSLSSLPKLRILNLGMNRLS-SLPR 65
LS N L EIP + L NLEIL LF+N +P +L+SLP+L++L L N+ S +P+
Sbjct: 291 LSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPK 350
Query: 66 GFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNLKNLQII 124
G L VLDL+ NNL + +P L L L N E +P +G ++L+ +
Sbjct: 351 NLGKHNNLTVLDLSTNNLTGE-IPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRV 409
Query: 125 LETFLPDMMEKNRGHIVG-ISSMAGIVGLPNLVPYCASKFAVR---GLMEALAEELREDA 180
++ N G + S + L + + R + + ++ A
Sbjct: 410 -------RLQDN--SFSGELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLA 460
Query: 181 RNSKIKFTSIFPFMVDTGLCKNPKIKMNRLS-SLPRGFGAFPVLEAFSFT---------- 229
RN KF P + +N + N+ S ++PR G+ L +
Sbjct: 461 RN---KFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPD 517
Query: 230 --------TILDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNLKNL 277
LDL++N L+ Q +P +F + L L L N +P +GN+++L
Sbjct: 518 ELSSCKKLVSLDLSHNQLSGQ-IPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESL 573
Score = 58.7 bits (142), Expect = 2e-09
Identities = 40/109 (36%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Query: 16 EIPPGLANLVNLEILTLFNNQ-IETLPTSLSSLPKLRILNLGMNRLS-SLPRGFGAFPVL 73
+IP L NL +LE LTL +NQ + +P L + L+ + LG N LS +P G L
Sbjct: 179 KIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSL 238
Query: 74 EVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNLKNL 121
LDL YNNL +P + L+ L+ L+L N +P I +L+ L
Sbjct: 239 NHLDLVYNNLTGP-IPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKL 286
Score = 55.2 bits (133), Expect = 3e-08
Identities = 36/108 (33%), Positives = 55/108 (50%), Gaps = 4/108 (3%)
Query: 4 ITRITLSHNKLKE-IPPGLANLVNLEILTLFNNQIE-TLPTSLSSLPKLRILNLGMNRLS 61
+ + LS N+ +P L +L L L L N++ +P LSS KL L+L N+LS
Sbjct: 477 LENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLS 536
Query: 62 -SLPRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDF 108
+P F PVL LDL+ N L+ + +P N +E+L + + N
Sbjct: 537 GQIPASFSEMPVLSQLDLSQNQLSGE-IPKNLGNVESLVQVNISHNHL 583
Score = 54.5 bits (131), Expect = 5e-08
Identities = 78/289 (26%), Positives = 124/289 (42%), Gaps = 26/289 (8%)
Query: 9 LSHNKLK-EIPPGLANLVNLEILTLFNNQIE-TLPTSLSSLPKLRILNLGMNRLS-SLPR 65
L +N L IP L NL NL+ L L+ N++ +P S+ SL KL L+L N LS +P
Sbjct: 243 LVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPE 302
Query: 66 GFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNLKNLQII 124
LE+L L NN + +P L L+ L L N F +P +G NL ++
Sbjct: 303 LVIQLQNLEILHLFSNNFTGK-IPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVL 361
Query: 125 ------LETFLPDMMEKNRGH----IVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAE 174
L +P+ + + G+ I+ +S+ G + P + C S VR + +
Sbjct: 362 DLSTNNLTGEIPEGL-CSSGNLFKLILFSNSLEGEI--PKSLGACRSLRRVRLQDNSFSG 418
Query: 175 EL-REDARNSKIKFTSI----FPFMVDTGLCKNPKIKMNRLSSLPRGFGAFPVLEAFSFT 229
EL E + + F I +++ P ++M L+ + FG P
Sbjct: 419 ELPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLAR-NKFFGGLPDSFGSKRL 477
Query: 230 TILDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNLKNL 277
LDL+ N + ++P L L L L +N +P E+ + K L
Sbjct: 478 ENLDLSRNQFSG-AVPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKL 525
Score = 48.3 bits (115), Expect = 4e-06
Identities = 45/126 (35%), Positives = 63/126 (50%), Gaps = 6/126 (4%)
Query: 3 YITRITLSHNKLK-EIPPGLANLV-NLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRL 60
YI I LS+N+L IP + +L L L NN T S+P L L+L N L
Sbjct: 94 YIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNF-TGSIPRGSIPNLETLDLSNNML 152
Query: 61 S-SLPRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNL 118
S +P G+F L+VLDL N L + +P + L +L L L N +P E+G +
Sbjct: 153 SGEIPNDIGSFSSLKVLDLGGNVLVGK-IPNSLTNLTSLEFLTLASNQLVGQIPRELGQM 211
Query: 119 KNLQII 124
K+L+ I
Sbjct: 212 KSLKWI 217
Score = 34.1 bits (78), Expect = 0.12
Identities = 29/105 (27%), Positives = 45/105 (42%), Gaps = 30/105 (28%)
Query: 47 LPKLRILNLGMNRLS--------------------------SLPRGFGAFPVLEVLDLTY 80
LP ++ +NL N+LS S+PRG P LE LDL+
Sbjct: 92 LPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGS--IPNLETLDLS- 148
Query: 81 NNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNLKNLQII 124
NN+ +P + +L+ L LG N +P + NL +L+ +
Sbjct: 149 NNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFL 193
Score = 28.7 bits (64), Expect = 6.3
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 232 LDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEIGNLKNL 277
LDL YNNL +P + L+ L+ L+L N +P I +L+ L
Sbjct: 241 LDLVYNNLTGP-IPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKL 286
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 63.4 bits (155), Expect = 2e-11
Identities = 30/99 (30%), Positives = 47/99 (47%), Gaps = 15/99 (15%)
Query: 110 VLPAEIGNLKNLQIILET-----------FLPDMMEKNRGHIVGISSMAGIVGLPNLVPY 158
L E +L + +++T F+ M RG +VGI+S+AG+ GLP Y
Sbjct: 92 TLTEEREDLAVFREVMDTNYFGMVATFQPFIAPMRAARRGTLVGIASVAGVRGLPGAGAY 151
Query: 159 CASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
ASK A +E+L EL R + ++ +I P + T
Sbjct: 152 SASKAAAIKYLESLRVEL----RPAGVRVVTIAPGYIRT 186
>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 = 62.9 bits (153), Expect = 2e-11
Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 7/83 (8%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL ++ LP M + IV ISS+AG+ G P Y ASK A+ GL +ALA EL
Sbjct: 118 NLLGAFLLTRAALPLMKK---QRIVNISSVAGLGGPPGQAAYAASKAALIGLTKALALEL 174
Query: 177 REDARNSKIKFTSIFPFMVDTGL 199
I+ ++ P +DT +
Sbjct: 175 APR----GIRVNAVAPGYIDTPM 193
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 62.6 bits (153), Expect = 3e-11
Identities = 25/70 (35%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
++ SS + I G P L Y A+KFAVRGL EAL E R I+ + P VDT
Sbjct: 129 ARVINTSSASAIYGQPGLAVYSATKFAVRGLTEALDLEWRRH----GIRVADVMPLFVDT 184
Query: 198 GLCKNPKIKM 207
+ ++
Sbjct: 185 AMLDGTSNEV 194
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 62.0 bits (151), Expect = 6e-11
Identities = 23/47 (48%), Positives = 31/47 (65%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
LP + E+ GHI+ ISS+ GI P Y ASK+A+ G+ EALA+E
Sbjct: 120 LPYLREQRSGHIIQISSIGGISAFPMSGIYHASKWALEGMSEALAQE 166
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 61.5 bits (150), Expect = 7e-11
Identities = 28/80 (35%), Positives = 38/80 (47%), Gaps = 20/80 (25%)
Query: 134 EKNRGHIVGISSMAGIVGLP-NLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFP 192
E+ GH+V ISS++ + GLP Y ASK V +L E LR + + IK ++I P
Sbjct: 129 EQGSGHLVLISSVSAVRGLPGVKAAYAASKAGVA----SLGEGLRAELAKTPIKVSTIEP 184
Query: 193 ---------------FMVDT 197
FMVDT
Sbjct: 185 GYIRSEMNAKAKSTPFMVDT 204
>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 = 61.3 bits (149), Expect = 9e-11
Identities = 27/54 (50%), Positives = 36/54 (66%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELR 177
+L+ FLPDM + G I+ SS+ G+ GLP YCASKFA+ GL E+LA +L
Sbjct: 117 MLQAFLPDMKRRGSGRILVTSSVGGLQGLPFNDVYCASKFALEGLCESLAVQLL 170
>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 = 60.9 bits (148), Expect = 1e-10
Identities = 23/43 (53%), Positives = 29/43 (67%)
Query: 134 EKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
+ G I+ SS+AG+ G PNL Y ASKFAVRGL + A+EL
Sbjct: 129 LGHGGKIINASSIAGVQGFPNLGAYSASKFAVRGLTQTAAQEL 171
>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 = 60.5 bits (147), Expect = 1e-10
Identities = 29/81 (35%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL + + +P M E G I+ +SS+ G+VG P L Y ASK AVRGL ++ A E
Sbjct: 110 NLTGVFLGTRAVIPPMKEAGGGSIINMSSIEGLVGDPALAAYNASKGAVRGLTKSAALEC 169
Query: 177 REDARNSKIKFTSIFPFMVDT 197
+ I+ S+ P + T
Sbjct: 170 AT--QGYGIRVNSVHPGYIYT 188
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 59.2 bits (144), Expect = 3e-10
Identities = 26/64 (40%), Positives = 36/64 (56%), Gaps = 5/64 (7%)
Query: 136 NRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMV 195
GH+V I+S AG+ P Y ASKFA+R ALA+ LRE+ ++ TS+ P
Sbjct: 120 AHGHVVFINSGAGLRANPGWGSYAASKFALR----ALADALREEEPG-NVRVTSVHPGRT 174
Query: 196 DTGL 199
DT +
Sbjct: 175 DTDM 178
>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 = 59.4 bits (144), Expect = 4e-10
Identities = 26/85 (30%), Positives = 43/85 (50%), Gaps = 4/85 (4%)
Query: 134 EKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPF 193
+ + G I+ +S+AG G P L Y ++KFAVRGL + A+EL I + P
Sbjct: 126 QGHGGKIINAASIAGHEGNPILSAYSSTKFAVRGLTQTAAQELAPKG----ITVNAYCPG 181
Query: 194 MVDTGLCKNPKIKMNRLSSLPRGFG 218
+V T + + + + ++ P G G
Sbjct: 182 IVKTPMWEEIDEETSEIAGKPIGEG 206
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 59.1 bits (144), Expect = 4e-10
Identities = 28/69 (40%), Positives = 40/69 (57%), Gaps = 4/69 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M+++ G IV ISS+ G++G V Y ASK AV +ALA+EL S I+
Sbjct: 126 LPYMIKRKSGVIVNISSIWGLIGASCEVLYSASKGAVNAFTKALAKEL----APSGIRVN 181
Query: 189 SIFPFMVDT 197
++ P +DT
Sbjct: 182 AVAPGAIDT 190
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 59.3 bits (144), Expect = 4e-10
Identities = 29/91 (31%), Positives = 45/91 (49%), Gaps = 7/91 (7%)
Query: 129 LPDMMEKNRG-HIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
+P + G I+ +SS+AG +G P PY ASK+AV GL+++LA EL I+
Sbjct: 130 VPLLKASGHGGVIIALSSVAGRLGYPGRTPYAASKWAVVGLVKSLAIELGP----LGIRV 185
Query: 188 TSIFPFMVDTGLCKNPKIKMNRLSSLPRGFG 218
+I P +V + ++ R L G
Sbjct: 186 NAILPGIVRGP--RMRRVIEARAQQLGIGLD 214
>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 = 58.5 bits (142), Expect = 5e-10
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP + E G +V ++S++G L Y ASKFA+R L AL +E + ++ +
Sbjct: 116 LPALREAGSGRVVFLNSLSGKRVLAGNAGYSASKFALRALAHALRQEGWDHG----VRVS 171
Query: 189 SIFPFMVDT 197
++ P VDT
Sbjct: 172 AVCPGFVDT 180
>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 = 58.3 bits (141), Expect = 7e-10
Identities = 26/75 (34%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
P ++ + G IV + S+AG Y ASKF + GL EA +LRE I+
Sbjct: 117 APALLRRGGGTIVNVGSLAGKNAFKGGAAYNASKFGLLGLSEAAMLDLREA----NIRVV 172
Query: 189 SIFPFMVDTGLCKNP 203
++ P VDTG +P
Sbjct: 173 NVMPGSVDTGFAGSP 187
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 58.1 bits (141), Expect = 1e-09
Identities = 23/54 (42%), Positives = 35/54 (64%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELR 177
+ + LP M ++ G I+ ISS++G VG P L PY +SK+A+ G E+L EL+
Sbjct: 119 VTQAVLPYMRKQKSGKIINISSISGRVGFPGLSPYVSSKYALEGFSESLRLELK 172
>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 = 57.5 bits (139), Expect = 1e-09
Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 9/89 (10%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
++ +S + I G P+L Y A+KFAVRGL EAL E I+ ++P+ VDT
Sbjct: 128 ARVINTASSSAIYGQPDLAVYSATKFAVRGLTEALDVEWARHG----IRVADVWPWFVDT 183
Query: 198 GLCKNPKIKMNRLSSLPRGFG-AFPVLEA 225
+ K ++ +G G PV +
Sbjct: 184 PILT----KGETGAAPKKGLGRVLPVSDV 208
>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 = 57.4 bits (139), Expect = 1e-09
Identities = 28/99 (28%), Positives = 42/99 (42%), Gaps = 5/99 (5%)
Query: 100 ALYLGDNDFEVLPAEIG-NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPY 158
A L + E L E+ N+ L + + F P + G IV ++S+A + P + Y
Sbjct: 88 ATLLEEGALEALKQEMDVNVFGLLRLAQAFAPVLKANGGGAIVNLNSVASLKNFPAMGTY 147
Query: 159 CASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
ASK A L + L EL S+ P +DT
Sbjct: 148 SASKSAAYSLTQGLRAELAAQG----TLVLSVHPGPIDT 182
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 57.8 bits (140), Expect = 1e-09
Identities = 25/81 (30%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N+K + + ++ +P M+ + G IV +S+AG+ P + Y ASK AV GL ++ A E
Sbjct: 116 NVKGVWLCMKYQIPLMLAQGGGAIVNTASVAGLGAAPKMSIYAASKHAVIGLTKSAAIEY 175
Query: 177 REDARNSKIKFTSIFPFMVDT 197
+ I+ ++ P ++DT
Sbjct: 176 AK----KGIRVNAVCPAVIDT 192
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 57.4 bits (139), Expect = 2e-09
Identities = 32/91 (35%), Positives = 41/91 (45%), Gaps = 16/91 (17%)
Query: 117 NLKNLQIILETFL------PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLME 170
NLK +FL M+ G IV ++S AG+V L V YCASK V G+ +
Sbjct: 120 NLKG------SFLMAQAVGRHMIAAGGGKIVNLASQAGVVALERHVAYCASKAGVVGMTK 173
Query: 171 ALAEELREDARNSKIKFTSIFPFMVDTGLCK 201
LA E I +I P +V T L K
Sbjct: 174 VLALEWGPYG----ITVNAISPTVVLTELGK 200
>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 = 56.8 bits (138), Expect = 2e-09
Identities = 31/108 (28%), Positives = 52/108 (48%), Gaps = 9/108 (8%)
Query: 102 YLGDNDFEVLPAEIGNLKNLQI-----ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLV 156
+ + E E+ ++ N+ + + LP M+++ +G IV ISS AG++ P L
Sbjct: 91 SIPEYFLETPEDELQDIINVNVMATLKMTRLILPGMVKRKKGAIVNISSFAGLIPTPLLA 150
Query: 157 PYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDTGLCKNPK 204
Y ASK + AL EE ++ I S+ P++V T + K K
Sbjct: 151 TYSASKAFLDFFSRALYEEY----KSQGIDVQSLLPYLVATKMSKIRK 194
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 56.9 bits (138), Expect = 2e-09
Identities = 25/68 (36%), Positives = 37/68 (54%), Gaps = 4/68 (5%)
Query: 135 KNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFM 194
+RG IV +SS+AG+ G+P Y ASK A+ G ++L EL +D + T + P
Sbjct: 127 ASRGQIVVVSSLAGLTGVPTRSGYAASKHALHGFFDSLRIELADD----GVAVTVVCPGF 182
Query: 195 VDTGLCKN 202
V T + K
Sbjct: 183 VATDIRKR 190
>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 = 55.6 bits (134), Expect = 3e-09
Identities = 23/60 (38%), Positives = 31/60 (51%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N+ + +LE M K G + ISS+AG+ G P L Y ASK A+ GL + A E
Sbjct: 62 NVVGTRRLLEAARELMKAKRLGRFILISSVAGLFGAPGLGGYAASKAALDGLAQQWASEG 121
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 56.0 bits (136), Expect = 4e-09
Identities = 22/61 (36%), Positives = 33/61 (54%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL + + + MM++ G I+ ISS+ G++G P Y ASK V G ++LA EL
Sbjct: 114 NLTGVFNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQANYAASKAGVIGFTKSLAREL 173
Query: 177 R 177
Sbjct: 174 A 174
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 56.6 bits (137), Expect = 5e-09
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 8/78 (10%)
Query: 128 FLPDMMEKN------RGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDAR 181
F P M+ GHIV +SMAG++ P + Y SK AV L E L ++L
Sbjct: 125 FTPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMGIYNVSKHAVVSLTETLYQDLS--LV 182
Query: 182 NSKIKFTSIFPFMVDTGL 199
++ + + P+ V TG+
Sbjct: 183 TDQVGASVLCPYFVPTGI 200
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 55.6 bits (134), Expect = 6e-09
Identities = 25/81 (30%), Positives = 37/81 (45%), Gaps = 4/81 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N+K + LP + G IV I + A + P + Y A+K V L EALA EL
Sbjct: 113 NVKTTLNASKAALPALTASGGGRIVNIGAGAALKAGPGMGAYAAAKAGVARLTEALAAEL 172
Query: 177 REDARNSKIKFTSIFPFMVDT 197
+ I ++ P ++DT
Sbjct: 173 LD----RGITVNAVLPSIIDT 189
>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 = 55.5 bits (134), Expect = 8e-09
Identities = 29/106 (27%), Positives = 49/106 (46%), Gaps = 10/106 (9%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N+K++ + + +P M E+ G I+ I+S AG+ P L Y ASK V +A+A EL
Sbjct: 111 NVKSIYLSAQALVPHMEEQGGGVIINIASTAGLRPRPGLTWYNASKGWVVTATKAMAVEL 170
Query: 177 REDARNSKIKFTSIFPFMVDTGLCK------NPKIKMNRLSSLPRG 216
I+ + P +T L P+ + +++P G
Sbjct: 171 APR----NIRVNCLCPVAGETPLLSMFMGEDTPENRAKFRATIPLG 212
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 55.4 bits (134), Expect = 8e-09
Identities = 20/51 (39%), Positives = 31/51 (60%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRE 178
F+ M+ + +G +V SSMAG++ P YCASK A+ + EA+ EL+
Sbjct: 115 FVRKMVARGKGKVVFTSSMAGLITGPFTGAYCASKHALEAIAEAMHAELKP 165
>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 = 55.2 bits (133), Expect = 9e-09
Identities = 26/82 (31%), Positives = 48/82 (58%), Gaps = 5/82 (6%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAG-IVGLPNLVPYCASKFAVRGLMEALAEE 175
N++++ ++++ LP M+ + G I+ +SS+A I G+PN Y +K AV GL +++A +
Sbjct: 101 NVRSMYLMIKAVLPKMLARKDGSIINMSSVASSIKGVPNRFVYSTTKAAVIGLTKSVAAD 160
Query: 176 LREDARNSKIKFTSIFPFMVDT 197
+ I+ +I P VDT
Sbjct: 161 FAQ----QGIRCNAICPGTVDT 178
>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 = 55.4 bits (134), Expect = 9e-09
Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 127 TFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELR 177
FLP ++ + +G +V +SSM G V P YCASK AV ++L EL+
Sbjct: 120 AFLP-LLRRAKGRVVNVSSMGGRVPFPAGGAYCASKAAVEAFSDSLRRELQ 169
>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 = 54.3 bits (131), Expect = 2e-08
Identities = 37/118 (31%), Positives = 55/118 (46%), Gaps = 20/118 (16%)
Query: 132 MMEKNRGHIVGISSMAG-IVGLP-NLVPYCASKFAVRGLMEALAEELREDARNSKIKFTS 189
++ +G ++ +SM+G IV P Y ASK AV L ++LA E + I+ S
Sbjct: 132 FKKQGKGSLIITASMSGTIVNRPQPQAAYNASKAAVIHLAKSLAVEWAKYF----IRVNS 187
Query: 190 IFPFMVDTGLCKN----------PKIKMNRLSSLPRGF-GAFPVL--EAFSFTTILDL 234
I P +DT L I + R+ +LP GA+ L +A S+TT DL
Sbjct: 188 ISPGYIDTDLTDFVDKELRKKWESYIPLKRI-ALPEELVGAYLYLASDASSYTTGSDL 244
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 54.0 bits (130), Expect = 2e-08
Identities = 28/76 (36%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 129 LPDMMEKNR-GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
LP M+ R G IV I+S+AG+ G V Y ASK + GL + LA EL R I
Sbjct: 130 LPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASKAGLIGLTKTLANELA--PRG--ITV 185
Query: 188 TSIFPFMVDTGLCKNP 203
++ P ++T + N
Sbjct: 186 NAVAPGAINTPMADNA 201
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 53.9 bits (130), Expect = 2e-08
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 4/73 (5%)
Query: 131 DMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSI 190
+++ G+I+ ISS+AG Y ASKF + G EA +LR+ IK ++I
Sbjct: 126 PALKRGGGYIINISSLAGTNFFAGGAAYNASKFGLVGFSEAAMLDLRQYG----IKVSTI 181
Query: 191 FPFMVDTGLCKNP 203
P V T +
Sbjct: 182 MPGSVATHFNGHT 194
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 52.6 bits (127), Expect = 7e-08
Identities = 27/69 (39%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
+P M ++ G IV ISS+AG+ G P Y A+K + GL +ALA EL E I
Sbjct: 127 VPPMRKQRGGRIVNISSVAGLPGWPGRSNYAAAKAGLVGLTKALARELAE----YGITVN 182
Query: 189 SIFPFMVDT 197
+ P +DT
Sbjct: 183 MVAPGDIDT 191
>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 = 52.2 bits (126), Expect = 8e-08
Identities = 35/105 (33%), Positives = 56/105 (53%), Gaps = 7/105 (6%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL + + + L M+++ G I+ ISS+ G++G Y ASK V G ++LA+EL
Sbjct: 107 NLTGVFNLTQAVLRIMIKQRSGRIINISSVVGLMGNAGQANYAASKAGVIGFTKSLAKEL 166
Query: 177 REDARNSKIKFTSIFPFMVDTGLCK--NPKIKMNRLSSLPRG-FG 218
+RN I ++ P +DT + + K+K LS +P G FG
Sbjct: 167 --ASRN--ITVNAVAPGFIDTDMTDKLSEKVKKKILSQIPLGRFG 207
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 52.0 bits (125), Expect = 9e-08
Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 3/79 (3%)
Query: 99 RALYLGDNDFEVLPAEIGNLKNLQIILETFLPDMMEKNR-GHIVGISSMAGIVGLPNLVP 157
AL + F+ + A N + ++ M+ R G IV +SS A +VGLP+ +
Sbjct: 92 SALDMTAEGFDRVMAV--NARGAALVARHVARAMIAAGRGGSIVNVSSQAALVGLPDHLA 149
Query: 158 YCASKFAVRGLMEALAEEL 176
YCASK A+ + L EL
Sbjct: 150 YCASKAALDAITRVLCVEL 168
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 52.0 bits (125), Expect = 1e-07
Identities = 19/42 (45%), Positives = 27/42 (64%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
G I+ +S AG+VG P L Y ++KFAVRGL + A +L +
Sbjct: 132 GKIINATSQAGVVGNPELAVYSSTKFAVRGLTQTAARDLASE 173
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 51.5 bits (124), Expect = 1e-07
Identities = 24/80 (30%), Positives = 36/80 (45%), Gaps = 4/80 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M + G I+ +SS+A P YC SK A+ + LAEE R I+
Sbjct: 126 LPGMRARGGGLIINVSSIAARNAFPQWGAYCVSKAALAAFTKCLAEEERSHG----IRVC 181
Query: 189 SIFPFMVDTGLCKNPKIKMN 208
+I V+T L ++ +
Sbjct: 182 TITLGAVNTPLWDTETVQAD 201
>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 = 51.3 bits (123), Expect = 2e-07
Identities = 33/100 (33%), Positives = 49/100 (49%), Gaps = 5/100 (5%)
Query: 103 LGDNDFEVLPAEIG-NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCAS 161
+ D D V + NL+ + P M+ + G IV +SS+AG G P Y AS
Sbjct: 94 IIDTDLAVWDQTMAINLRGTFLCCRHAAPRMIARGGGSIVNLSSIAGQSGDPGYGAYGAS 153
Query: 162 KFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDTGLCK 201
K A+R L LA EL R++ I+ ++ P ++DT L
Sbjct: 154 KAAIRNLTRTLAAEL----RHAGIRCNALAPGLIDTPLLL 189
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 51.5 bits (124), Expect = 2e-07
Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 5/50 (10%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELR 177
LP ++E RG+++ +SS+A P + YCASK V EA A LR
Sbjct: 127 TLPALIE-RRGYVLQVSSLAAFAAAPGMAAYCASKAGV----EAFANALR 171
>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 = 51.0 bits (123), Expect = 2e-07
Identities = 21/60 (35%), Positives = 35/60 (58%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL + + + + M+++ G I+ ISS+ G++G P Y ASK V G ++LA+EL
Sbjct: 108 NLTGVFNVTQAVIRAMIKRRSGRIINISSVVGLIGNPGQANYAASKAGVIGFTKSLAKEL 167
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 51.1 bits (122), Expect = 2e-07
Identities = 34/101 (33%), Positives = 50/101 (49%), Gaps = 8/101 (7%)
Query: 125 LETFLPDMMEKNRG-HIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNS 183
+E FLP ++E+ G H+V +S AG+V L Y +K+ V GL E LA E+ D
Sbjct: 122 VEAFLPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKYGVVGLAETLAREVTADG--- 178
Query: 184 KIKFTSIFPFMVDTGLCKNP-KIKMNR--LSSLPRGFGAFP 221
I + + P +V+T L N +I+ SS G P
Sbjct: 179 -IGVSVLCPMVVETNLVANSERIRGAACAQSSTTGSPGPLP 218
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 50.7 bits (122), Expect = 3e-07
Identities = 24/71 (33%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 128 FLPDMMEKN-RGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIK 186
F P ++ N G IV + S+ V PNL Y ASK A L +AL EL +
Sbjct: 116 FAP-VLAANGGGAIVNVLSVLSWVNFPNLGTYSASKAAAWSLTQALRAELAP----QGTR 170
Query: 187 FTSIFPFMVDT 197
+ P +DT
Sbjct: 171 VLGVHPGPIDT 181
>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat.
Length = 60
Score = 46.8 bits (112), Expect = 3e-07
Identities = 24/60 (40%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 26 NLEILTLFNNQIETLPT-SLSSLPKLRILNLGMNRLSSLPRG-FGAFPVLEVLDLTYNNL 83
NL+ L L NN++ +P + LP L++L+L N L+S+ F P L LDL+ NNL
Sbjct: 1 NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 45.2 bits (108), Expect = 8e-07
Identities = 23/59 (38%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 4 ITRITLSHNKLKEIPPG-LANLVNLEILTLFNNQIETL-PTSLSSLPKLRILNLGMNRL 60
+ + LS+N+L IP G L NL++L L N + ++ P + S LP LR L+L N L
Sbjct: 2 LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 39.4 bits (93), Expect = 9e-05
Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 2/61 (3%)
Query: 49 KLRILNLGMNRLSSLPRG-FGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDND 107
L+ L+L NRL+ +P G F P L+VLDL+ NNL S P F L +LR+L L N+
Sbjct: 1 NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSIS-PEAFSGLPSLRSLDLSGNN 59
Query: 108 F 108
Sbjct: 60 L 60
Score = 30.6 bits (70), Expect = 0.13
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 73 LEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAE-IGNLKNLQIIL 125
L+ LDL+ N L G F L L+ L L N+ + E L +L+ +
Sbjct: 2 LKSLDLSNNRLTVIP-DGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLD 54
Score = 28.7 bits (65), Expect = 0.69
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 230 TILDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAE-IGNLKNLQ 278
LDL+ N L G F L L+ L L N+ + E L +L+
Sbjct: 3 KSLDLSNNRLTVIP-DGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLR 51
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 49.5 bits (119), Expect = 3e-07
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELR 177
+ + G V SS+AG++G P Y A+ A+ L E E
Sbjct: 122 TRDLDLGAFVLFSSVAGVLGSPGQANYAAANAALDALAEHRRAEGL 167
>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional.
Length = 623
Score = 51.0 bits (122), Expect = 5e-07
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 3/79 (3%)
Query: 40 LPTSLSSLPKLRILNLGMNRL-SSLPRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETL 98
+P +S L L+ +NL N + ++P G+ LEVLDL+YN+ N S+P + L +L
Sbjct: 434 IPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFN-GSIPESLGQLTSL 492
Query: 99 RALYLGDNDFE-VLPAEIG 116
R L L N +PA +G
Sbjct: 493 RILNLNGNSLSGRVPAALG 511
Score = 49.4 bits (118), Expect = 2e-06
Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 7 ITLSHNKLK-EIPPGLANLVNLEILTLFNNQIE-TLPTSLSSLPKLRILNLGMNRLSS-L 63
I LS N ++ IPP L ++ +LE+L L N ++P SL L LRILNL N LS +
Sbjct: 447 INLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSLSGRV 506
Query: 64 PRGFGAFPV 72
P G +
Sbjct: 507 PAALGGRLL 515
Score = 32.1 bits (73), Expect = 0.43
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 213 LPRGFGAFPVLEAFSFTTILDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFE-VLPAEI 271
+P G+ LE +LDL+YN+ N S+P + L +LR L L N +PA +
Sbjct: 458 IPPSLGSITSLE------VLDLSYNSFN-GSIPESLGQLTSLRILNLNGNSLSGRVPAAL 510
Query: 272 G 272
G
Sbjct: 511 G 511
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 50.0 bits (120), Expect = 5e-07
Identities = 23/63 (36%), Positives = 34/63 (53%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N++ ++L LP + + RG IV ++S + G P L Y ASK AV G+ +LA EL
Sbjct: 115 NVRGTFLMLRAALPHLRDSGRGRIVNLASDTALWGAPKLGAYVASKGAVIGMTRSLAREL 174
Query: 177 RED 179
Sbjct: 175 GGR 177
>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 = 50.0 bits (120), Expect = 5e-07
Identities = 20/63 (31%), Positives = 31/63 (49%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL + + + M+++ G I+ I S+ +G P + Y ASK V GL +ALA E
Sbjct: 113 NLNGVFFVSQAVARHMIKQGHGKIINICSLLSELGGPPVPAYAASKGGVAGLTKALATEW 172
Query: 177 RED 179
Sbjct: 173 ARH 175
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 50.7 bits (122), Expect = 6e-07
Identities = 28/79 (35%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 128 FLPDMMEKNR-GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIK 186
F M+E+ GHIV ++S A +L Y SK AV L E L EL A I
Sbjct: 434 FGRQMVERGTGGHIVNVASAAAYAPSRSLPAYATSKAAVLMLSECLRAEL--AAAG--IG 489
Query: 187 FTSIFPFMVDTGLCKNPKI 205
T+I P VDT + +
Sbjct: 490 VTAICPGFVDTNIVATTRF 508
>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 = 49.4 bits (118), Expect = 8e-07
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M ++ G I+ I+S+ G+V N Y A+K V GL + +A E + +
Sbjct: 124 LPHMKKQGWGRIINIASVHGLVASANKSAYVAAKHGVVGLTKVVALETAG----TGVTCN 179
Query: 189 SIFPFMVDTGLCKN 202
+I P V T L +
Sbjct: 180 AICPGWVLTPLVEK 193
>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 = 49.2 bits (118), Expect = 9e-07
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 4/82 (4%)
Query: 121 LQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDA 180
+ L + K G IV I S+AG+ P Y ASK V G +LA+ L
Sbjct: 118 TYLALHYMDKNKGGKG-GVIVNIGSVAGLYPAPQFPVYSASKHGVVGFTRSLADLLE--- 173
Query: 181 RNSKIKFTSIFPFMVDTGLCKN 202
+ ++ +I P +T L +
Sbjct: 174 YKTGVRVNAICPGFTNTPLLPD 195
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 49.2 bits (118), Expect = 1e-06
Identities = 27/76 (35%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 102 YLGDNDFEVLPAEIG-NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCA 160
L D D E + + NL + LP + + +V + S G +G P YCA
Sbjct: 95 LLEDQDPEAIERLLALNLTAPMQLTRALLPLLRAQPSAMVVNVGSTFGSIGYPGYASYCA 154
Query: 161 SKFAVRGLMEALAEEL 176
SKFA+RG EAL EL
Sbjct: 155 SKFALRGFSEALRREL 170
>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 = 49.1 bits (117), Expect = 1e-06
Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 4/81 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N+K ++ + +P+M ++ G +V +SS+A P L PY SK A+ GL + LA EL
Sbjct: 119 NVKATALMTKAVVPEMEKRGGGSVVIVSSVAAFHPFPGLGPYNVSKTALLGLTKNLAPEL 178
Query: 177 REDARNSKIKFTSIFPFMVDT 197
RN I+ + P ++ T
Sbjct: 179 --APRN--IRVNCLAPGLIKT 195
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 48.9 bits (117), Expect = 1e-06
Identities = 21/52 (40%), Positives = 28/52 (53%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
FLP + G IV I+SMAG++ P + Y +K V L E L EL +D
Sbjct: 119 FLPLFKRQKSGRIVNIASMAGLMQGPAMSSYNVAKAGVVALSETLLVELADD 170
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 48.4 bits (116), Expect = 2e-06
Identities = 21/50 (42%), Positives = 29/50 (58%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRE 178
LP M + G I+ ISS+ G + P + Y ASK AV G E+L E+R+
Sbjct: 116 LPHMRAQGSGRIINISSVLGFLPAPYMALYAASKHAVEGYSESLDHEVRQ 165
>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 = 47.7 bits (114), Expect = 2e-06
Identities = 28/98 (28%), Positives = 46/98 (46%), Gaps = 7/98 (7%)
Query: 104 GDNDFEVLPAEIG-NLKN-LQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCAS 161
+D + EI NL +++I FLP + ++ IV +SS V + YCA+
Sbjct: 97 PASDLDKADTEIDTNLIGPIRLIKA-FLPHLKKQPEATIVNVSSGLAFVPMAANPVYCAT 155
Query: 162 KFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDTGL 199
K A+ AL +L +++ ++ I P VDT L
Sbjct: 156 KAALHSYTLALRHQL----KDTGVEVVEIVPPAVDTEL 189
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 47.0 bits (112), Expect = 4e-06
Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNS-KIKF 187
LP + IV ISS+A P+ Y ASK AV L +++A + AR ++
Sbjct: 122 LPYLRASQPASIVNISSVAAFKAEPDYTAYNASKAAVASLTKSIALDC---ARRGLDVRC 178
Query: 188 TSIFPFMVDTGL 199
SI P + TG+
Sbjct: 179 NSIHPTFIRTGI 190
>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 = 47.0 bits (112), Expect = 5e-06
Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M ++ G I+ I+S G+V P Y A+K + GL + LA E+ E I
Sbjct: 121 LPHMKKQGWGRIINIASAHGLVASPFKSAYVAAKHGLIGLTKVLALEVAE----HGITVN 176
Query: 189 SIFPFMVDTGL 199
+I P V T L
Sbjct: 177 AICPGYVRTPL 187
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 46.9 bits (112), Expect = 6e-06
Identities = 23/53 (43%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 129 LPDMMEKNRGHIVGISSMA--GIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
LP M+ + G IV +SS+A GI N VPY A+K V L +LA E E
Sbjct: 128 LPHMLAQGGGAIVNVSSIATRGI----NRVPYSAAKGGVNALTASLAFEYAEH 176
>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 = 45.9 bits (109), Expect = 1e-05
Identities = 27/94 (28%), Positives = 44/94 (46%), Gaps = 11/94 (11%)
Query: 105 DNDFEVLPAEIGNLKNLQIILETFLPDMMEKN-RGHIVGISSMAGIVGLPNLVPYCASKF 163
D F+V N++ + + + M+ + G IV +SS A L N YC++K
Sbjct: 101 DRSFDV------NVRAVIHVSQIVARGMIARGVPGSIVNVSSQASQRALTNHTVYCSTKA 154
Query: 164 AVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
A+ L + +A EL KI+ S+ P +V T
Sbjct: 155 ALDMLTKVMALELGP----HKIRVNSVNPTVVMT 184
>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies). Leucine rich
repeats are short sequence motifs present in a number
of proteins with diverse functions and cellular
locations. These repeats are usually involved in
protein-protein interactions. Each Leucine Rich Repeat
is composed of a beta-alpha unit. These units form
elongated non-globular structures. Leucine Rich Repeats
are often flanked by cysteine rich domains.
Length = 43
Score = 41.7 bits (99), Expect = 1e-05
Identities = 20/39 (51%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 26 NLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSLP 64
NLE L L NNQI LP LS+LP L L+L N+++ L
Sbjct: 2 NLETLDLSNNQITDLP-PLSNLPNLETLDLSGNKITDLS 39
Score = 37.5 bits (88), Expect = 4e-04
Identities = 16/38 (42%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 4 ITRITLSHNKLKEIPPGLANLVNLEILTLFNNQIETLP 41
+ + LS+N++ ++PP L+NL NLE L L N+I L
Sbjct: 3 LETLDLSNNQITDLPP-LSNLPNLETLDLSGNKITDLS 39
Score = 33.2 bits (77), Expect = 0.012
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 48 PKLRILNLGMNRLSSLPRGFGAFPVLEVLDLTYNNLNE 85
L L+L N+++ LP P LE LDL+ N + +
Sbjct: 1 TNLETLDLSNNQITDLP-PLSNLPNLETLDLSGNKITD 37
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 45.7 bits (109), Expect = 1e-05
Identities = 25/71 (35%), Positives = 34/71 (47%), Gaps = 6/71 (8%)
Query: 108 FEVLPAEIGNLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRG 167
FEV NL + + LP M + G I+ ISSM G + P Y A+KFA+ G
Sbjct: 102 FEV------NLFGAARLTQLVLPHMRAQRSGRIINISSMGGKIYTPLGAWYHATKFALEG 155
Query: 168 LMEALAEELRE 178
+AL E+
Sbjct: 156 FSDALRLEVAP 166
>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 = 45.3 bits (108), Expect = 1e-05
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 8/74 (10%)
Query: 126 ETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKI 185
+ LP + + G IV +SS G + Y SK A+ L LA+EL+E I
Sbjct: 119 QALLPLLKKSPAGRIVNVSSGLGSLT----SAYGVSKAALNALTRILAKELKET----GI 170
Query: 186 KFTSIFPFMVDTGL 199
K + P V T +
Sbjct: 171 KVNACCPGWVKTDM 184
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 45.3 bits (107), Expect = 2e-05
Identities = 25/85 (29%), Positives = 44/85 (51%), Gaps = 6/85 (7%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIF 191
MM + G I+ I+S+ G+ G P YCASK + G ++LA+E+ RN + +
Sbjct: 126 MMRRRYGRIINITSVVGVTGNPGQANYCASKAGMIGFSKSLAQEIA--TRN--VTVNCVA 181
Query: 192 PFMVDTGLCK--NPKIKMNRLSSLP 214
P +++ + N K K + ++P
Sbjct: 182 PGFIESAMTGKLNDKQKEAIMGAIP 206
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 45.5 bits (108), Expect = 2e-05
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP ++ G + + S+ G P Y ASKF +RG EAL EL + I
Sbjct: 127 LPIFKKQGHGIFINMISLGGFAAQPYAAAYSASKFGLRGFSEALRGELADHP---DIHVC 183
Query: 189 SIFPFMVDT 197
++P +DT
Sbjct: 184 DVYPAFMDT 192
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 45.1 bits (107), Expect = 3e-05
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
LP + + G IV +SS G + P Y A+K+ + G +EA+A+E
Sbjct: 119 LPHLRRQGGGRIVQVSSEGGQIAYPGFSLYHATKWGIEGFVEAVAQE 165
>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 = 44.5 bits (105), Expect = 3e-05
Identities = 25/91 (27%), Positives = 38/91 (41%), Gaps = 7/91 (7%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
P M + G I+ ISSM+ + Y +SK AV + LA +L I+
Sbjct: 120 APHMQKAGGGAILNISSMSSENKNVRIAAYGSSKAAVNHMTRNLAFDLGPK----GIRVN 175
Query: 189 SIFPFMVDTGLCKN---PKIKMNRLSSLPRG 216
++ P V T + P+I+ L P G
Sbjct: 176 AVAPGAVKTDALASVLTPEIERAMLKHTPLG 206
>gnl|CDD|224852 COG1941, FrhG, Coenzyme F420-reducing hydrogenase, gamma subunit
[Energy production and conversion].
Length = 247
Score = 44.7 bits (106), Expect = 3e-05
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 24/82 (29%)
Query: 271 IGNLKNLQIMLEPR----WVISMGSCANGGG--------------YYHYSYSVVRGCDR- 311
+ + + L+++ E R V+++GSCA GG + +
Sbjct: 61 VCDEEELELVKELREKAKIVVALGSCAVTGGVQGLRNKSGEELLRPVYGDAKSTFNEESV 120
Query: 312 -----IIPVDIYVPGCPPTAEA 328
+I VD +PGCPP+ E
Sbjct: 121 VPLGEVIDVDYAIPGCPPSPEE 142
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 44.2 bits (105), Expect = 3e-05
Identities = 19/57 (33%), Positives = 30/57 (52%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALA 173
NL + ++ +LP M+E+ G I+ + S+A V Y ASK A+ G + LA
Sbjct: 99 NLTSTFLLTRAYLPQMLERKSGIIINMCSIASFVAGGGGAAYTASKHALAGFTKQLA 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 = 44.4 bits (105), Expect = 3e-05
Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 128 FLPDMMEKNRGHIVGISSMA--GIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
LP M+E+ +G IV +SS+A GI +PY A+K V L +LA E D
Sbjct: 123 VLPHMLERQQGVIVNVSSIATRGI----YRIPYSAAKGGVNALTASLAFEHARD 172
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 44.8 bits (106), Expect = 4e-05
Identities = 27/78 (34%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 121 LQIILETFLPDMMEKNRGH-IVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
+ E L M+E+ G IV ++S AG+V LP Y ASK AV L +LA E
Sbjct: 117 YLVAREA-LRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASKAAVISLTRSLACEW--- 172
Query: 180 ARNSKIKFTSIFPFMVDT 197
I+ ++ P V T
Sbjct: 173 -AAKGIRVNAVLPGYVRT 189
Score = 33.3 bits (76), Expect = 0.17
Identities = 18/39 (46%), Positives = 23/39 (58%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
G IV + S+A ++ LP YCASK AV L +LA E
Sbjct: 394 GVIVNLGSIASLLALPPRNAYCASKAAVTMLSRSLACEW 432
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 44.0 bits (104), Expect = 6e-05
Identities = 19/45 (42%), Positives = 29/45 (64%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
++ ++RG +V I S++G++ P YCASK AV L +AL EL
Sbjct: 117 LLRRSRGLVVNIGSVSGVLVTPFAGAYCASKAAVHALSDALRLEL 161
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 43.6 bits (103), Expect = 6e-05
Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAG-IVGLPNLVPYCASKFAVRGLMEALAEE 175
N+K + + + LP+M+ + G IV +SS+ G +V P Y +K A+ GL ++LA E
Sbjct: 113 NIKGVWNVTKAVLPEMIARKDGRIVMMSSVTGDMVADPGETAYALTKAAIVGLTKSLAVE 172
>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 = 43.1 bits (102), Expect = 7e-05
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
M+ + RG I+ + A + G + +KFA+R L +++A EL
Sbjct: 120 AKRMLARGRGTIIFTGATASLRGRAGFAAFAGAKFALRALAQSMAREL 167
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 43.7 bits (104), Expect = 9e-05
Identities = 22/43 (51%), Positives = 27/43 (62%), Gaps = 4/43 (9%)
Query: 138 GHIVGISSMAGIVGLPNL--VPYCASKFAVRGLMEALAEELRE 178
G IVG+SS++GI G N Y ASK V GL++ALA L E
Sbjct: 336 GRIVGVSSISGIAG--NRGQTNYAASKAGVIGLVQALAPLLAE 376
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 43.2 bits (102), Expect = 9e-05
Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N K L + LP M+E+N GHI+ I S AG Y A+K VR + L
Sbjct: 106 NNKGLVYMTRAVLPGMVERNHGHIINIGSTAGSWPYAGGNVYGATKAFVR----QFSLNL 161
Query: 177 REDARNSKIKFTSIFPFMV 195
R D + ++ T I P +V
Sbjct: 162 RTDLHGTAVRVTDIEPGLV 180
>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 = 42.8 bits (101), Expect = 1e-04
Identities = 26/68 (38%), Positives = 36/68 (52%), Gaps = 4/68 (5%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIF 191
M+ +G IV ++S+AG+VG Y ASK AV GL + A EL E I+ +
Sbjct: 127 MIPAKKGSIVSVASVAGVVGGLGPHAYTASKHAVLGLTRSAATELGE----HGIRVNCVS 182
Query: 192 PFMVDTGL 199
P+ V T L
Sbjct: 183 PYGVATPL 190
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 43.1 bits (102), Expect = 1e-04
Identities = 19/50 (38%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 131 DMMEKN-RGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
M + G IV I SM+ G P L YCASK A+ L A L +
Sbjct: 129 LMRRRKAEGTIVNIGSMSAHGGQPFLAAYCASKGALATLTRNAAYALLRN 178
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 42.8 bits (101), Expect = 1e-04
Identities = 20/62 (32%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAG---IVGLPNLVPYCASKFAVRGLMEALA 173
NL ++ + + M E+ G I+ ISS+ G G N Y A+K + G +ALA
Sbjct: 111 NLNSVFNVTQPLFAAMCEQGYGRIINISSVNGLKGQFGQTN---YSAAKAGMIGFTKALA 167
Query: 174 EE 175
E
Sbjct: 168 SE 169
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 42.7 bits (101), Expect = 1e-04
Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M+E+ RG IV I+S +P PY +K + GL AL E ARN ++
Sbjct: 129 LPGMVERGRGSIVNIASTHAFKIIPGCFPYPVAKHGLLGLTRALGIEYA--ARN--VRVN 184
Query: 189 SIFPFMVDTGL 199
+I P ++T L
Sbjct: 185 AIAPGYIETQL 195
>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 = 42.5 bits (100), Expect = 2e-04
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIF 191
M+E+ G I+ I+S G G+ + PY ASK V G +AL EL AR + I ++
Sbjct: 128 MLERGTGRIINIASTGGKQGVVHAAPYSASKHGVVGFTKALGLEL---AR-TGITVNAVC 183
Query: 192 PFMVDT 197
P V+T
Sbjct: 184 PGFVET 189
>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 = 41.9 bits (99), Expect = 2e-04
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 10/72 (13%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
G +V + A + P ++ Y A+K AV L ++LA E S +I P +DT
Sbjct: 119 GLLVLTGAKAALEPTPGMIGYGAAKAAVHQLTQSLAAENSGLPAGSTA--NAILPVTLDT 176
Query: 198 GLCKNPKIKMNR 209
P NR
Sbjct: 177 -----P---ANR 180
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 42.2 bits (100), Expect = 2e-04
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 5/74 (6%)
Query: 120 NLQIIL-ETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRE 178
N +L + LP +++ +V SS G G N Y SKFA G+M+ LA+E
Sbjct: 126 NATFMLTQALLPLLLKSPAASLVFTSSSVGRQGRANWGAYAVSKFATEGMMQVLADEY-- 183
Query: 179 DARNSKIKFTSIFP 192
+ + ++ I P
Sbjct: 184 --QGTNLRVNCINP 195
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 42.0 bits (99), Expect = 2e-04
Identities = 27/74 (36%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M+ G IV SS+ G++ P Y ASK+A +EA ++ LR + R+S IK +
Sbjct: 117 LPAMLPHGEGRIVMTSSVMGLISTPGRGAYAASKYA----LEAWSDALRMELRHSGIKVS 172
Query: 189 SIFPFMVDTGLCKN 202
I P + T N
Sbjct: 173 LIEPGPIRTRFTDN 186
>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 = 41.7 bits (98), Expect = 2e-04
Identities = 23/59 (38%), Positives = 30/59 (50%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
NL+ + LE L M E+ G IV +S+ GI G+ N Y A+K V GL A E
Sbjct: 114 NLRGVFYGLEKVLKVMREQGSGMIVNTASVGGIRGVGNQSGYAAAKHGVVGLTRNSAVE 172
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 42.2 bits (100), Expect = 3e-04
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 121 LQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDA 180
+++IL LP M E+ GH+V +SS+ P Y ASK A+ + A E D
Sbjct: 486 VRLILG-LLPHMRERRFGHVVNVSSIGVQTNAPRFSAYVASKAALDAFSDVAASETLSDG 544
Query: 181 RNSKIKFTSI 190
I FT+I
Sbjct: 545 ----ITFTTI 550
>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 = 41.3 bits (97), Expect = 4e-04
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 127 TFLP------DMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
+FLP DM+E+ G I+ ISSM L + Y A+K AV + LA E
Sbjct: 131 SFLPSQVFGKDMLEQKGGSIINISSMNAFSPLTKVPAYSAAKAAVSNFTQWLAVE 185
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 41.3 bits (97), Expect = 4e-04
Identities = 33/104 (31%), Positives = 47/104 (45%), Gaps = 11/104 (10%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL+ ++L + G I+ +S+ + LP PY ASK AV GL+ LA EL
Sbjct: 114 NLRGAFVVLREAARHL--GQGGRIINLSTSVIALPLPGYGPYAASKAAVEGLVHVLANEL 171
Query: 177 REDARNSKIKFTSIFPFMVDTGLCKNPK-----IKMNRLSSLPR 215
R R I ++ P V T L N K ++ L+ L R
Sbjct: 172 R--GRG--ITVNAVAPGPVATELFFNGKSAEQIDQLAGLAPLER 211
>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 = 41.4 bits (97), Expect = 4e-04
Identities = 15/41 (36%), Positives = 27/41 (65%)
Query: 133 MEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALA 173
+ K++G+I+ +SS+ G +G PY A+K A+ + +ALA
Sbjct: 134 LRKSQGNIINLSSLVGSIGQKQAAPYVATKGAITAMTKALA 174
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 41.2 bits (97), Expect = 4e-04
Identities = 20/48 (41%), Positives = 28/48 (58%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
+P M ++ +G IV SS+ G+V + Y ASKFA+ GL L EL
Sbjct: 119 IPVMRKQGQGRIVQCSSILGLVPMKYRGAYNASKFAIEGLSLTLRMEL 166
>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 = 41.0 bits (96), Expect = 4e-04
Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 5/87 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
+P + + G I+ ++S++G++G V Y A+K + G +ALA EL + KI
Sbjct: 120 MPMIRARQGGRIITLASVSGVMGNRGQVNYSAAKAGLIGATKALAVELAK----RKITVN 175
Query: 189 SIFPFMVDTGLCKN-PKIKMNRLSSLP 214
I P ++DT + L ++P
Sbjct: 176 CIAPGLIDTEMLAEVEHDLDEALKTVP 202
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 40.9 bits (96), Expect = 5e-04
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 4/85 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N + ++ + M+++ G I+ I SM +G + PY ASK AV+ L + EL
Sbjct: 117 NQTAVFLVSQAVARYMVKRQAGKIINICSMQSELGRDTITPYAASKGAVKMLTRGMCVEL 176
Query: 177 REDARNSKIKFTSIFPFMVDTGLCK 201
AR++ I+ I P T + K
Sbjct: 177 ---ARHN-IQVNGIAPGYFKTEMTK 197
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 40.5 bits (95), Expect = 7e-04
Identities = 26/65 (40%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 135 KNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFM 194
+ G IV I+S+AGI L Y A K AV L + LA EL KI+ +I P
Sbjct: 131 REGGAIVNIASVAGIRPAYGLSIYGAMKAAVINLTKYLALELAP-----KIRVNAIAPGF 185
Query: 195 VDTGL 199
V T L
Sbjct: 186 VKTKL 190
>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 = 40.5 bits (95), Expect = 7e-04
Identities = 22/95 (23%), Positives = 43/95 (45%), Gaps = 5/95 (5%)
Query: 105 DNDFEVLPAEIG-NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKF 163
++ + EI NL + LP ++ + I+ +SS V + + YCA+K
Sbjct: 98 EDLLDDAEQEIATNLLAPIRLTALLLPHLLRQPEATIINVSSGLAFVPMASTPVYCATKA 157
Query: 164 AVRGLMEALAEELREDARNSKIKFTSIFPFMVDTG 198
A + + LRE +++ ++ + P +VDT
Sbjct: 158 A----IHSYTLALREQLKDTSVEVIELAPPLVDTT 188
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 40.3 bits (95), Expect = 9e-04
Identities = 24/91 (26%), Positives = 36/91 (39%), Gaps = 16/91 (17%)
Query: 105 DNDFEVLPAEIGNLKNLQI----------ILETFLP------DMMEKNRGHIVGISSMAG 148
DN+F L +L +L T LP DM+ + G+I+ ISSM
Sbjct: 105 DNEFHELIEPTKTFFDLDEEGFEFVFDLNLLGTLLPTQVFAKDMVGRKGGNIINISSMNA 164
Query: 149 IVGLPNLVPYCASKFAVRGLMEALAEELRED 179
L + Y A+K A+ + LA +
Sbjct: 165 FTPLTKVPAYSAAKAAISNFTQWLAVHFAKV 195
>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 = 40.0 bits (94), Expect = 9e-04
Identities = 26/75 (34%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNL---VPYCASKFAVRGLMEALAEELREDARNSK 184
FLP +++ R I+ ISS G +G Y ASK A+ L ++LA EL+ D
Sbjct: 118 FLPLLLKGARAKIINISSRVGSIGDNTSGGWYSYRASKAALNMLTKSLAVELKRD----G 173
Query: 185 IKFTSIFPFMVDTGL 199
I S+ P V T +
Sbjct: 174 ITVVSLHPGWVRTDM 188
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 39.7 bits (93), Expect = 0.001
Identities = 20/60 (33%), Positives = 30/60 (50%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL ++ + + M ++ G I+ I+SM G + Y ASK V GL +A A EL
Sbjct: 122 NLNSVYHLSQAVAKVMAKQGSGKIINIASMLSFQGGKFVPAYTASKHGVAGLTKAFANEL 181
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 39.9 bits (94), Expect = 0.001
Identities = 15/47 (31%), Positives = 21/47 (44%)
Query: 130 PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
P + G IV + S A V + Y ASK A+ L + + EL
Sbjct: 120 PQFRRQRSGAIVTVGSNAAHVPRIGMAAYGASKAALTSLAKCVGLEL 166
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 39.8 bits (93), Expect = 0.001
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIF 191
M+ +G IV + S+A +G Y SK AV GL ++A EL + I+ +
Sbjct: 142 MIPLKKGSIVSLCSVASAIGGLGPHAYTGSKHAVLGLTRSVAAELGKHG----IRVNCVS 197
Query: 192 PFMVDTGL 199
P+ V T L
Sbjct: 198 PYAVPTAL 205
>gnl|CDD|132337 TIGR03294, FrhG, coenzyme F420 hydrogenase, subunit gamma. This
model represents that clade of F420-dependent
hydrogenases (FRH) beta subunits found exclusively and
universally in methanogenic archaea. This protein
contains two 4Fe-4S cluster binding domains (pfam00037)
and scores above the trusted cutoff to model pfam01058
for the "NADH ubiquinone oxidoreductase, 20 Kd subunit"
family.
Length = 228
Score = 39.5 bits (92), Expect = 0.001
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 17/57 (29%)
Query: 286 VISMGSCANGGGYYHYSYSVVRGCDR-------------IIPVDIYVPGCPPTAEAL 329
V+++G+CA G + YS RG + +I VD+ +PGCPP+ EA+
Sbjct: 81 VVALGACAATGNFTRYS----RGGQQAQPQHESFVPITDVIDVDLAIPGCPPSPEAI 133
>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 = 39.4 bits (92), Expect = 0.001
Identities = 31/117 (26%), Positives = 55/117 (47%), Gaps = 18/117 (15%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
P + G+IV ISS+AG++ +P+ PY A+K A+ L +LA E +D I+
Sbjct: 126 AHPLLKASGNGNIVFISSVAGVIAVPSGAPYGATKGALNQLTRSLACEWAKDN----IRV 181
Query: 188 TSIFPFMVDT----GLCKNPKIKMNRLSSLP-RGFG---------AFPVLEAFSFTT 230
++ P+++ T + + + + P + FG AF + A S+ T
Sbjct: 182 NAVAPWVIATPLVEPVIQQKENLDKVIERTPLKRFGEPEEVAALVAFLCMPAASYIT 238
>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 = 39.0 bits (91), Expect = 0.001
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
+V + + +V LP L Y A+K A+ +E +E+R ++ T + P VDT
Sbjct: 116 ARLVFLGAYPELVMLPGLSAYAAAKAALEAYVEVARKEVR------GLRLTLVRPPAVDT 169
Query: 198 GL 199
GL
Sbjct: 170 GL 171
>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 = 39.1 bits (91), Expect = 0.002
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP +++ + G +V SS G G N Y SKFA GL + LA+E + ++
Sbjct: 128 LPLLLKSDAGSLVFTSSSVGRQGRANWGAYAVSKFATEGLXQVLADEY----QQRNLRVN 183
Query: 189 SIFPFMVDTG 198
I P T
Sbjct: 184 CINPGGTRTA 193
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 39.4 bits (92), Expect = 0.002
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
+P M + G IV +S + G Y ASK A+ L A+A + D I+
Sbjct: 124 IPIMQRQGGGSIVNTASQLALAGGRGRAAYVASKGAIASLTRAMALDHATD----GIRVN 179
Query: 189 SIFPFMVDT 197
++ P +DT
Sbjct: 180 AVAPGTIDT 188
>gnl|CDD|187602 cd05344, BKR_like_SDR_like, putative beta-ketoacyl acyl carrier
protein [ACP] reductase (BKR)-like, SDR. This subgroup
resembles the SDR family, but does not have a perfect
match to the NAD-binding motif or the catalytic tetrad
characteristic of the SDRs. It includes the SDRs, Q9HYA2
from Pseudomonas aeruginosa PAO1 and APE0912 from
Aeropyrum pernix K1. BKR catalyzes the NADPH-dependent
reduction of ACP in the first reductive step of de novo
fatty acid synthesis (FAS). FAS consists of four
elongation steps, which are repeated to extend the fatty
acid chain through the addition of two-carbo units from
malonyl acyl-carrier protein (ACP): condensation,
reduction, dehydration, and a final reduction. Type II
FAS, typical of plants and many bacteria, maintains
these activities on discrete polypeptides, while type I
FAS utilizes one or two multifunctional polypeptides.
BKR resembles enoyl reductase, which catalyzes the
second reduction step in FAS. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 39.2 bits (92), Expect = 0.002
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
LP M E+ G IV ISS+ PNLV ++ + GL++ L+ EL D +
Sbjct: 120 VLPGMKERGWGRIVNISSLTVKEPEPNLVLSNVARAGLIGLVKTLSRELAPDG----VTV 175
Query: 188 TSIFPFMVDTG 198
S+ P +DT
Sbjct: 176 NSVLPGYIDTE 186
>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 = 38.4 bits (90), Expect = 0.003
Identities = 17/47 (36%), Positives = 22/47 (46%)
Query: 130 PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
P M + G IV + S A V + Y ASK A+ L + L EL
Sbjct: 119 PRMKRRRSGAIVTVGSNAANVPRMGMAAYAASKAALTMLTKCLGLEL 165
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 38.5 bits (90), Expect = 0.003
Identities = 18/45 (40%), Positives = 24/45 (53%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
M + G I+ I+S+AG V Y A+K + GLM ALA E
Sbjct: 134 MKRQGYGRIIAITSIAGQVARAGDAVYPAAKQGLTGLMRALAAEF 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 = 38.1 bits (89), Expect = 0.004
Identities = 18/52 (34%), Positives = 24/52 (46%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
LP M++ +GHI+ IS + V Y A K + L LA ELR
Sbjct: 134 ALPHMVKAGQGHILNISPPLSLRPARGDVAYAAGKAGMSRLTLGLAAELRRH 185
>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 = 38.2 bits (89), Expect = 0.004
Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 15/87 (17%)
Query: 117 NLKNLQIILETFLPDMMEK-NRGHIVGISSM----AGIVGLPNLVP-YCASKFAVRGLME 170
NLK++ + + +++ G I+ I+SM GI VP Y ASK AV GL +
Sbjct: 111 NLKSVFFLTQAAAKHFLKQGRGGKIINIASMLSFQGGI-----RVPSYTASKHAVAGLTK 165
Query: 171 ALAEELREDARNSKIKFTSIFPFMVDT 197
LA E I +I P + T
Sbjct: 166 LLANEWAA----KGINVNAIAPGYMAT 188
>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 = 37.9 bits (88), Expect = 0.004
Identities = 16/56 (28%), Positives = 26/56 (46%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
+L+ + M + G I+ I+S L Y ++ A L E+LA+EL D
Sbjct: 111 LLQAAIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAAAVALAESLAKELSRD 166
>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P. syringae 6; Provisional.
Length = 1153
Score = 38.7 bits (90), Expect = 0.004
Identities = 26/64 (40%), Positives = 37/64 (57%), Gaps = 4/64 (6%)
Query: 4 ITRITLSHN-KLKEIPPGLANLVNLEILTLFN-NQIETLPTSLSSLPKLRILNL-GMNRL 60
+TR+ LS L E+P + NL LE L + N +ETLPT + +L L L+L G +RL
Sbjct: 780 LTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRL 838
Query: 61 SSLP 64
+ P
Sbjct: 839 RTFP 842
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 37.8 bits (88), Expect = 0.004
Identities = 26/82 (31%), Positives = 34/82 (41%), Gaps = 14/82 (17%)
Query: 110 VLPAEIGN--LKNLQIIL-----------ETFLPDMMEKNRGHIVGISSMAGIVGLPNLV 156
LP +G L LQ + + FL M + +G IV I S A I G +
Sbjct: 79 ALPQPLGKIDLAALQDVYDLNVRAAVQVTQAFLEGMKLREQGRIVNICSRA-IFGALDRT 137
Query: 157 PYCASKFAVRGLMEALAEELRE 178
Y A+K A+ G A EL E
Sbjct: 138 SYSAAKSALVGCTRTWALELAE 159
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 37.9 bits (88), Expect = 0.005
Identities = 22/64 (34%), Positives = 30/64 (46%), Gaps = 5/64 (7%)
Query: 137 RGH-IVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMV 195
GH +V + S+A + LP Y ASK AV L +LR I+ ++FP V
Sbjct: 119 CGHRVVIVGSIASELALPRAEAYGASKAAVAYFARTLQLDLRPKG----IEVVTVFPGFV 174
Query: 196 DTGL 199
T L
Sbjct: 175 ATPL 178
>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 = 37.7 bits (88), Expect = 0.005
Identities = 23/61 (37%), Positives = 30/61 (49%)
Query: 116 GNLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
NLK L + M E+ G IV ISS+ I LPN + +K A+ L+ LA E
Sbjct: 106 TNLKALVHCAQQAAKLMRERGGGRIVAISSLGSIRALPNYLAVGTAKAALEALVRYLAVE 165
Query: 176 L 176
L
Sbjct: 166 L 166
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 37.8 bits (88), Expect = 0.005
Identities = 19/60 (31%), Positives = 25/60 (41%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N K L + M + G I+ +SS+ I L N SK A+ L LA EL
Sbjct: 113 NAKALLFCAQEAAKLMEKVGGGKIISLSSLGSIRYLENYTTVGVSKAALEALTRYLAVEL 172
>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 = 37.6 bits (88), Expect = 0.005
Identities = 22/60 (36%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
G I+ ISS PN Y SK AV LA+EL R I ++ P VDT
Sbjct: 131 GRIINISSSLTAAYTPNYGAYAGSKAAVEAFTRVLAKELG--GR--GITVNAVAPGPVDT 186
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 37.3 bits (86), Expect = 0.007
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 16/91 (17%)
Query: 132 MMEKNRG-HIVGISSMAG-IVGLPNLVP-YCASKFAVRGLMEALAEELREDARNSKIKFT 188
M+++ +G I+ +SM+G I+ +P V YCASK AV L +A+A EL KI+
Sbjct: 132 MVKQGQGGVIINTASMSGHIINVPQQVSHYCASKAAVIHLTKAMAVELAP----HKIRVN 187
Query: 189 SIFPFMVDTGLCK---------NPKIKMNRL 210
S+ P + T L + PKI + RL
Sbjct: 188 SVSPGYILTELVEPYTEYQPLWEPKIPLGRL 218
>gnl|CDD|185268 PRK15370, PRK15370, E3 ubiquitin-protein ligase SlrP; Provisional.
Length = 754
Score = 37.8 bits (87), Expect = 0.007
Identities = 31/107 (28%), Positives = 49/107 (45%), Gaps = 25/107 (23%)
Query: 4 ITRITLSHNKL----KEIPPGLANLV---------------NLEILTLFNNQIETLPTSL 44
IT + + N L + +PPGL L L++L + NQI LP +L
Sbjct: 306 ITHLNVQSNSLTALPETLPPGLKTLEAGENALTSLPASLPPELQVLDVSKNQITVLPETL 365
Query: 45 SSLPKLRILNLGMNRLSSLPRGFGAFPVLEVLDLTYNNLNE--QSLP 89
P + L++ N L++LP A L+++ + NNL +SLP
Sbjct: 366 P--PTITTLDVSRNALTNLPENLPA--ALQIMQASRNNLVRLPESLP 408
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 37.1 bits (86), Expect = 0.008
Identities = 37/119 (31%), Positives = 53/119 (44%), Gaps = 21/119 (17%)
Query: 132 MMEKNRGHIVGISSMAGIV---GLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
M+E G IV I+SM+GI+ GL Y ASK V L ++LA E I+
Sbjct: 132 MLENGGGSIVNIASMSGIIVNRGL-LQAHYNASKAGVIHLSKSLAMEWVGRG----IRVN 186
Query: 189 SIFPFMVDTGLCKNPKI-----------KMNRLSSLPR--GFGAFPVLEAFSFTTILDL 234
SI P T + P++ M R++ + G F + +A SF T +DL
Sbjct: 187 SISPGYTATPMNTRPEMVHQTKLFEEQTPMQRMAKVDEMVGPAVFLLSDAASFCTGVDL 245
>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 = 36.9 bits (86), Expect = 0.008
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 140 IVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
+V +SS A + YC+SK A LA E ++ S P +VDT
Sbjct: 133 VVNVSSGAAVNPFKGWGLYCSSKAARDMFFRVLAAEEP------DVRVLSYAPGVVDT 184
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 37.1 bits (86), Expect = 0.008
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 5/61 (8%)
Query: 138 GHIVGISSMAGIVGLPN-LVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVD 196
G IV +SS+A +G PN V Y SK AV L LA+EL ++ ++ P +++
Sbjct: 136 GAIVNVSSIASRLGSPNEYVDYAGSKGAVDTLTLGLAKELGPHG----VRVNAVRPGLIE 191
Query: 197 T 197
T
Sbjct: 192 T 192
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 36.9 bits (86), Expect = 0.009
Identities = 16/45 (35%), Positives = 20/45 (44%)
Query: 135 KNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
+RG IV ISS + G Y A+K A L A L +D
Sbjct: 130 ASRGAIVNISSKTALTGQGGTSGYAAAKGAQLALTREWAVALAKD 174
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 36.9 bits (86), Expect = 0.009
Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 117 NLKNLQIILETFLPDMMEKNRG-HIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
N+K L +++ M+E+ RG I+ ++S AG G + YCA+K AV ++ A
Sbjct: 111 NVKGLFFLMQAVARHMVEQGRGGKIINMASQAGRRGEALVSHYCATKAAVISYTQSAALA 170
Query: 176 LREDARNSKIKFTSIFPFMVDT 197
L R+ I +I P +VDT
Sbjct: 171 L---IRH-GINVNAIAPGVVDT 188
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 36.8 bits (86), Expect = 0.009
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M + G I+ ++S+ G+VG Y ++K + GL + +A E A +
Sbjct: 124 LPIMKAQGGGRIINMASVHGLVGSAGKAAYVSAKHGLIGLTKVVA---LEGAT-HGVTVN 179
Query: 189 SIFPFMVDTGLCKN 202
+I P VDT L +
Sbjct: 180 AICPGYVDTPLVRK 193
>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 = 37.0 bits (86), Expect = 0.009
Identities = 27/86 (31%), Positives = 43/86 (50%), Gaps = 8/86 (9%)
Query: 120 NLQ-IILETFL--PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL+ +I T L P ++ K +G IV +SS+AG P ++ YC SK A+ A EL
Sbjct: 114 NLRAVIYLTKLAVPHLI-KTKGEIVNVSSVAGGRSFPGVLYYCISKAALDQFTRCTALEL 172
Query: 177 REDARNSKIKFTSIFPFMVDTGLCKN 202
++ S+ P ++ TG +
Sbjct: 173 APKG----VRVNSVSPGVIVTGFHRR 194
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 36.7 bits (85), Expect = 0.012
Identities = 17/38 (44%), Positives = 24/38 (63%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
G I+ I+S+AG+ LP + YC SK AV + A+A E
Sbjct: 146 GRIINIASVAGLRVLPQIGLYCMSKAAVVHMTRAMALE 183
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 36.4 bits (84), Expect = 0.012
Identities = 23/59 (38%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 134 EKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFP 192
+ N G I+ I+SM G + Y ASK AV GL ALA EL + I +I P
Sbjct: 132 QGNGGKIINIASMLSFQGGIRVPSYTASKSAVMGLTRALATELSQ----YNINVNAIAP 186
>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 = 36.4 bits (84), Expect = 0.013
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 5/101 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRG-HIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
N+ +++ M+ + RG I+ ++S AG G + YCA+K AV L ++
Sbjct: 108 NVSGTLFMMQAVARAMIAQGRGGKIINMASQAGRRGEALVGVYCATKAAVISLTQSAGLN 167
Query: 176 LREDARNSKIKFTSIFPFMVDTGLCKNPKIKMNRLSSLPRG 216
L R+ I +I P +VD K R + PRG
Sbjct: 168 L---IRH-GINVNAIAPGVVDGEHWDGVDAKFARYENRPRG 204
>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 = 36.2 bits (84), Expect = 0.014
Identities = 19/59 (32%), Positives = 31/59 (52%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
NL ++ + + + M E+ G I+ ISS+ G G Y A+K + G +ALA+E
Sbjct: 109 NLNSVFNVTQPVIDGMRERGWGRIINISSVNGQKGQFGQTNYSAAKAGMIGFTKALAQE 167
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 36.3 bits (84), Expect = 0.015
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 5/61 (8%)
Query: 138 GHIVGISSMAGIVGLPN-LVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVD 196
G IV +SSMA +G P + Y ASK A+ + LA+E+ + I+ ++ P ++
Sbjct: 136 GAIVNVSSMAARLGSPGEYIDYAASKGAIDTMTIGLAKEVAAEG----IRVNAVRPGVIY 191
Query: 197 T 197
T
Sbjct: 192 T 192
>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 = 36.1 bits (84), Expect = 0.015
Identities = 17/48 (35%), Positives = 23/48 (47%)
Query: 130 PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELR 177
P M ++ G I+ SS AG+ G Y A+K + GL LA E
Sbjct: 132 PYMRKQKFGRIINTSSAAGLYGNFGQANYSAAKLGLLGLSNTLAIEGA 179
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 36.5 bits (85), Expect = 0.015
Identities = 13/26 (50%), Positives = 14/26 (53%)
Query: 156 VPYCASKFAVRGLMEALAEELREDAR 181
Y ASK AV GL+ LA EL R
Sbjct: 154 PLYTASKHAVVGLVRQLAYELAPKIR 179
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 36.2 bits (84), Expect = 0.015
Identities = 17/41 (41%), Positives = 24/41 (58%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRE 178
G I+ I+S+ LP Y A+K A+ GL +A+A EL E
Sbjct: 133 GRIINITSVHEHTPLPGASAYTAAKHALGGLTKAMALELVE 173
>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 = 36.3 bits (84), Expect = 0.018
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 130 PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTS 189
P M++ +G IV ISS G+ L N V Y K A+ + +A EL+ + S
Sbjct: 133 PLMVKAGKGLIVIISSTGGLEYLFN-VAYGVGKAAIDRMAADMAHELKPHG----VAVVS 187
Query: 190 IFPFMVDTGLCKN 202
++P V T L
Sbjct: 188 LWPGFVRTELVLE 200
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 36.1 bits (84), Expect = 0.018
Identities = 28/92 (30%), Positives = 39/92 (42%), Gaps = 8/92 (8%)
Query: 103 LGDNDFEVLPA--EIGNLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCA 160
L D DF A E+ L L++ F P + E G IV I+SM P Y
Sbjct: 99 LADADFAHWRAVIELNVLGTLRLTQA-FTPALAES-GGSIVMINSMVLRHSQPKYGAYKM 156
Query: 161 SKFAVRGLMEALAEELREDARNSKIKFTSIFP 192
+K A+ ++LA EL I+ S+ P
Sbjct: 157 AKGALLAASQSLATELGPQ----GIRVNSVAP 184
>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 = 35.8 bits (83), Expect = 0.018
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 9/90 (10%)
Query: 132 MMEKNR-GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSI 190
+ G I+ +SS+ + P V Y ASK V+ + + LA+E I+ +I
Sbjct: 127 FRKSKIKGKIINMSSVHEKIPWPGHVNYAASKGGVKMMTKTLAQEYAP----KGIRVNAI 182
Query: 191 FPFMVDTGLCK----NPKIKMNRLSSLPRG 216
P ++T + +P+ + + LS +P G
Sbjct: 183 APGAINTPINAEAWDDPEQRADLLSLIPMG 212
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 36.1 bits (84), Expect = 0.019
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 129 LPDMMEKNRGHIVGISSMAG-IVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKF 187
+P M+ + G ++ S+ G G P + Y ASK + GL + LA E A+ I+
Sbjct: 127 IPAMLARGGGSLIFTSTFVGHTAGFPGMAAYAASKAGLIGLTQVLAAEY--GAQG--IRV 182
Query: 188 TSIFPFMVDT 197
++ P DT
Sbjct: 183 NALLPGGTDT 192
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 35.8 bits (83), Expect = 0.020
Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 2/74 (2%)
Query: 103 LGDNDFEVLPAEIGNLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASK 162
L + F+ + N K + ++ + M++++ G IV +SS AG+ G Y A+K
Sbjct: 105 LNEAAFDKMFNI--NQKGVFLMSQAVARQMVKQHDGVIVNMSSEAGLEGSEGQSCYAATK 162
Query: 163 FAVRGLMEALAEEL 176
A+ + A+EL
Sbjct: 163 AALNSFTRSWAKEL 176
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 35.9 bits (83), Expect = 0.021
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 132 MMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALA 173
M+ + G I+ I+S+ + P + PY A+K AV L + +A
Sbjct: 133 MIARGAGKIINIASVQSALARPGIAPYTATKGAVGNLTKGMA 174
>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease
inhibitor (RI)-like subfamily. LRRs are 20-29 residue
sequence motifs present in many proteins that
participate in protein-protein interactions and have
different functions and cellular locations. LRRs
correspond to structural units consisting of a beta
strand (LxxLxLxxN/CxL conserved pattern) and an alpha
helix. This alignment contains 12 strands corresponding
to 11 full repeats, consistent with the extent observed
in the subfamily acting as Ran GTPase Activating
Proteins (RanGAP1).
Length = 319
Score = 35.8 bits (83), Expect = 0.023
Identities = 36/101 (35%), Positives = 48/101 (47%), Gaps = 9/101 (8%)
Query: 14 LKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLS-----SLPRGFG 68
LK++PP L LV L L E L +L + L+ LNL N + +L G
Sbjct: 132 LKDLPPALEKLV-LGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLK 190
Query: 69 AFPVLEVLDLTYNNLNEQ---SLPGNFFMLETLRALYLGDN 106
A LEVLDL N L ++ +L L++L L LGDN
Sbjct: 191 ANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDN 231
Score = 35.8 bits (83), Expect = 0.024
Identities = 33/124 (26%), Positives = 41/124 (33%), Gaps = 20/124 (16%)
Query: 5 TRITLSHNKLKEIPPGLA-------NLVNLEILTLFNNQI-ETLPTSLSSL---PKLRIL 53
+ LS N+ IP GL L+ L L +N + L SL L+ L
Sbjct: 54 KELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQEL 113
Query: 54 NLGMNRLSSLPRGFGA------FPVLEVLDLTYNNLNEQS---LPGNFFMLETLRALYLG 104
L N L A P LE L L N L S L L+ L L
Sbjct: 114 KLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLA 173
Query: 105 DNDF 108
+N
Sbjct: 174 NNGI 177
Score = 32.3 bits (74), Expect = 0.32
Identities = 26/78 (33%), Positives = 35/78 (44%), Gaps = 15/78 (19%)
Query: 19 PGLANLVNLEILTLFNNQIE-----TLPTSLSSLPKLRILNLGMNRLSSLPRGFGAF--- 70
GL NLE+L L NN + L +L+SL L +LNLG N L+ G A
Sbjct: 187 EGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTD--AGAAALASA 244
Query: 71 -----PVLEVLDLTYNNL 83
L L L+ N++
Sbjct: 245 LLSPNISLLTLSLSCNDI 262
>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 = 35.2 bits (81), Expect = 0.032
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNS 183
L + D + KN+G I+ I+S P+ Y ASK + L ALA L D
Sbjct: 112 ELSRYCRDELIKNKGRIINIASTRAFQSEPDSEAYAASKGGLVALTHALAMSLGPD---- 167
Query: 184 KIKFTSIFPFMVDT 197
I+ I P ++T
Sbjct: 168 -IRVNCISPGWINT 180
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 34.9 bits (81), Expect = 0.041
Identities = 18/47 (38%), Positives = 24/47 (51%)
Query: 135 KNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDAR 181
K RG IV I+ + L YCA+K A+ L +LA EL + R
Sbjct: 133 KQRGAIVNITDIHAERPLKGYPVYCAAKAALEMLTRSLALELAPEVR 179
>gnl|CDD|197688 smart00370, LRR, Leucine-rich repeats, outliers.
Length = 24
Score = 31.2 bits (72), Expect = 0.046
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 47 LPKLRILNLGMNRLSSLPRG 66
LP LR L+L N+LSSLP G
Sbjct: 1 LPNLRELDLSNNQLSSLPPG 20
Score = 27.3 bits (62), Expect = 0.80
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 24 LVNLEILTLFNNQIETLP 41
L NL L L NNQ+ +LP
Sbjct: 1 LPNLRELDLSNNQLSSLP 18
>gnl|CDD|197687 smart00369, LRR_TYP, Leucine-rich repeats, typical (most
populated) subfamily.
Length = 24
Score = 31.2 bits (72), Expect = 0.046
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 47 LPKLRILNLGMNRLSSLPRG 66
LP LR L+L N+LSSLP G
Sbjct: 1 LPNLRELDLSNNQLSSLPPG 20
Score = 27.3 bits (62), Expect = 0.80
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 24 LVNLEILTLFNNQIETLP 41
L NL L L NNQ+ +LP
Sbjct: 1 LPNLRELDLSNNQLSSLP 18
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 34.7 bits (80), Expect = 0.050
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 140 IVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT-- 197
IV I S++G+ + + PY +K A+ + LA E ED I+ ++ P+ + T
Sbjct: 142 IVNIGSVSGLTHVRSGAPYGMTKAALLQMTRNLAVEWAEDG----IRVNAVAPWYIRTPL 197
Query: 198 --GLCKNPK 204
G +P
Sbjct: 198 TSGPLSDPD 206
>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 = 34.5 bits (79), Expect = 0.062
Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 4/71 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP M+E+ G IV I+S A VG Y A K + + +A RE AR+ I
Sbjct: 123 LPGMVERGAGRIVNIASDAARVGSSGEAVYAACKGGLVAFSKTMA---REHARH-GITVN 178
Query: 189 SIFPFMVDTGL 199
+ P DT L
Sbjct: 179 VVCPGPTDTAL 189
>gnl|CDD|185285 PRK15387, PRK15387, E3 ubiquitin-protein ligase SspH2; Provisional.
Length = 788
Score = 34.8 bits (79), Expect = 0.073
Identities = 35/108 (32%), Positives = 49/108 (45%), Gaps = 17/108 (15%)
Query: 14 LKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSLPRGFGAFPVL 73
L +PPGL L ++ +NQ+ +LP S L KL N + L +LP G L
Sbjct: 297 LPVLPPGLQEL------SVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSG------L 344
Query: 74 EVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLKNL 121
+ L ++ N L SLP + L L+ +N LPA LK L
Sbjct: 345 QELSVSDNQL--ASLPT---LPSELYKLWAYNNRLTSLPALPSGLKEL 387
Score = 31.7 bits (71), Expect = 0.70
Identities = 37/110 (33%), Positives = 52/110 (47%), Gaps = 17/110 (15%)
Query: 14 LKEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSLPRGFGAFPVL 73
L +PPGL LE L++F+N + LP S L KL I N+L+SLP P L
Sbjct: 257 LPVLPPGL-----LE-LSIFSNPLTHLPALPSGLCKLWIFG---NQLTSLPV---LPPGL 304
Query: 74 EVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLKNLQI 123
+ L ++ N L SLP + L L+ +N LP L+ L +
Sbjct: 305 QELSVSDNQL--ASLPA---LPSELCKLWAYNNQLTSLPTLPSGLQELSV 349
Score = 31.7 bits (71), Expect = 0.76
Identities = 34/98 (34%), Positives = 49/98 (50%), Gaps = 13/98 (13%)
Query: 27 LEILTLFNNQIETLPTSLSSLPKLRILNLGMNRLSSLPRGFGAFPV-LEVLDLTYNNLNE 85
L+ L++ +NQ+ +LPT S L KL N NRL+SLP A P L+ L ++ N L
Sbjct: 344 LQELSVSDNQLASLPTLPSELYKLWAYN---NRLTSLP----ALPSGLKELIVSGNRLT- 395
Query: 86 QSLPGNFFMLETLRALYLGDNDFEVLPAEIGNLKNLQI 123
SLP + L+ L + N LP L +L +
Sbjct: 396 -SLP---VLPSELKELMVSGNRLTSLPMLPSGLLSLSV 429
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 34.1 bits (79), Expect = 0.080
Identities = 14/50 (28%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 128 FLPDMMEKNRGHIVGISSMAGIVGLPN-LVPYCASKFAVRGLMEALAEEL 176
LP M+ + G I+ ++S+ + LP Y A+K A+ ++L++E+
Sbjct: 121 LLPGMIARGSGVIIHVTSIQRRLPLPESTTAYAAAKAALSTYSKSLSKEV 170
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 34.2 bits (78), Expect = 0.080
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP + E G I+ ISS+ G G Y A+K + G ++LA EL + + +
Sbjct: 127 LPYITEAEEGRIISISSIIGQAGGFGQTNYSAAKAGMLGFTKSLALELAK----TNVTVN 182
Query: 189 SIFPFMVDT 197
+I P +DT
Sbjct: 183 AICPGFIDT 191
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 33.9 bits (77), Expect = 0.082
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 6/83 (7%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
N K I++ L + + +R I+ ISS A + LP+ + Y +K A+ + LA++L
Sbjct: 119 NAKAPFFIIQQALSRLRDNSR--IINISSAATRISLPDFIAYSMTKGAINTMTFTLAKQL 176
Query: 177 REDARNSKIKFTSIFPFMVDTGL 199
AR I +I P + T +
Sbjct: 177 --GARG--ITVNAILPGFIKTDM 195
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 34.0 bits (78), Expect = 0.087
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 5/74 (6%)
Query: 127 TFLPDMMEKNRGHIVGISSMAGI-VGLPNLVPYCASKFAVRGLMEALAEELREDARNSKI 185
FLP + G IV I+S AGI Y +K + L LA EL + I
Sbjct: 120 EFLPLLKLSKNGAIVNIASNAGIGTAAEGTTFYAITKAGIIILTRRLAFELGK----YGI 175
Query: 186 KFTSIFPFMVDTGL 199
+ ++ P V+T +
Sbjct: 176 RVNAVAPGWVETDM 189
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 34.0 bits (78), Expect = 0.090
Identities = 14/48 (29%), Positives = 26/48 (54%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
LP M+E+ RG ++ + S + P++ Y A+K + ++ L EL
Sbjct: 130 LPGMIERRRGDLIFVGSDVALRQRPHMGAYGAAKAGLEAMVTNLQMEL 177
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 33.9 bits (78), Expect = 0.096
Identities = 20/69 (28%), Positives = 28/69 (40%), Gaps = 7/69 (10%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
M ++ G IV SS A Y +K + GL + LA EL I+
Sbjct: 129 YKHMAKRGGGAIVNQSSTAA---WLYSNFYGLAKVGLNGLTQQLAREL----GGMNIRVN 181
Query: 189 SIFPFMVDT 197
+I P +DT
Sbjct: 182 AIAPGPIDT 190
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 33.9 bits (78), Expect = 0.10
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 132 MMEKN-RGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
M+ +G I+ I+S +G VG + Y A+KF GL ++LA +L E
Sbjct: 127 MIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLALDLAEY 175
>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 = 33.6 bits (77), Expect = 0.11
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 132 MMEKN-RGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRE 178
M+ +G I+ I+S +G VG + Y A+KF GL ++LA +L E
Sbjct: 126 MIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLALDLAE 173
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 33.4 bits (77), Expect = 0.12
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 4/74 (5%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNS 183
+L + G IVGISS+AG G + Y ++K A+ + L L + S
Sbjct: 114 LLTLLANRFEARGSGTIVGISSVAGDRGRASNYVYGSAKAALTAFLSGLRNRLFK----S 169
Query: 184 KIKFTSIFPFMVDT 197
+ ++ P V T
Sbjct: 170 GVHVLTVKPGFVRT 183
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 33.2 bits (76), Expect = 0.14
Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 97 TLRALYLGDNDFEVLPAEIG-NLKNLQIILETFLPDMMEKNRGHIVGISSMAGI--VGLP 153
RA L D A+ NL+ + +E L M++++RG +V I S+ G+ +G P
Sbjct: 87 AARAASLHDTTPASWRADNALNLEAAYLCVEAVLEGMLKRSRGAVVNIGSVNGMAALGHP 146
Query: 154 NLVPYCASKFAVRGLMEALAEEL 176
Y A+K + + LA E
Sbjct: 147 ---AYSAAKAGLIHYTKLLAVEY 166
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 33.0 bits (76), Expect = 0.16
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 132 MMEKNRGHIVGISSMAGIVGLP----NLVPYCASKFAVRGLMEALAEE 175
M+ + G I+ ++S+AG+ G P + + Y SK AV ALA E
Sbjct: 136 MIPRGYGRIINVASVAGLGGNPPEVMDTIAYNTSKGAVINFTRALAAE 183
>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 = 32.8 bits (75), Expect = 0.18
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVP---YCASKFAVRGLMEALAEEL 176
+L+ LPD E+ G ++ I + + P VP Y +K A+ G +A+EL
Sbjct: 119 LLQAVLPDFKERGSGRVINIGT--NLFQNPV-VPYHDYTTAKAALLGFTRNMAKEL 171
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 32.8 bits (75), Expect = 0.20
Identities = 30/111 (27%), Positives = 53/111 (47%), Gaps = 10/111 (9%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVG-LPNLVPYCASKFAVRGLMEALAEE 175
NL ++ + + LP M+ + +G I+ +S ++G + + Y ASK G + A++ E
Sbjct: 112 NLTSVYLCCKAALPHMVRQGKGSIINTASFVAVMGSATSQISYTASK----GGVLAMSRE 167
Query: 176 LREDARNSKIKFTSIFPFMVDTGL-----CKNPKIKMNRLSSLPRGFGAFP 221
L I+ ++ P V+T L K+P+ RL +P G A P
Sbjct: 168 LGVQFARQGIRVNALCPGPVNTPLLQELFAKDPERAARRLVHVPMGRFAEP 218
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 32.7 bits (75), Expect = 0.21
Identities = 16/53 (30%), Positives = 29/53 (54%)
Query: 123 IILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
I+ + +P M++K G I+ I SM +G + Y A+K ++ L + +A E
Sbjct: 124 IVSKAVIPSMIKKGHGKIINICSMMSELGRETVSAYAAAKGGLKMLTKNIASE 176
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 32.5 bits (74), Expect = 0.24
Identities = 33/123 (26%), Positives = 52/123 (42%), Gaps = 11/123 (8%)
Query: 100 ALYLGDNDFEVLPAEIGN---LKNLQ--IILETFLPDMMEKNRG-HIVGISSMAGIVGLP 153
A Y +NDF L AE + + N++ +L + +K G I+ ++S +
Sbjct: 104 AAYSTNNDFSNLTAEELDKHYMVNVRATTLLSSQFARGFDKKSGGRIINMTSGQFQGPMV 163
Query: 154 NLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDTGLCKNPKIKMNRLSSL 213
+ Y A+K A+ L +LA E+ I +I P DTG +IK L
Sbjct: 164 GELAYAATKGAIDALTSSLAAEVAH----LGITVNAINPGPTDTGW-MTEEIKQGLLPMF 218
Query: 214 PRG 216
P G
Sbjct: 219 PFG 221
>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 = 32.4 bits (74), Expect = 0.26
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 130 PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
P M ++ G IV ++S A V ++ Y ASK A+ L + L EL
Sbjct: 112 PHMKDRRTGAIVTVASNAAHVPRISMAAYGASKAALASLSKCLGLEL 158
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 32.3 bits (73), Expect = 0.28
Identities = 18/60 (30%), Positives = 31/60 (51%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
NL +L + + + M+E+ G I+ ISS+ G G Y +K + G +LA+E+
Sbjct: 112 NLTSLFNVTKQVIDGMVERGWGRIINISSVNGQKGQFGQTNYSTAKAGIHGFTMSLAQEV 171
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 32.5 bits (75), Expect = 0.32
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
G IV I+S + PN Y A+K A L+ LA EL D
Sbjct: 551 GSIVFIASKNAVNPGPNFGAYGAAKAAELHLVRQLALELGPD 592
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 31.8 bits (72), Expect = 0.38
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 129 LPDMMEKNR-GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
L M + +R G ++ + S+ P Y +K + GL LA+E
Sbjct: 127 LKHMYKDDRGGVVIYMGSVHSHEASPLKSAYVTAKHGLLGLARVLAKE 174
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 32.1 bits (73), Expect = 0.39
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFT 188
LP MME+ G I+ SS +G Y A+K AV +++A E R+ I+
Sbjct: 126 LPLMMEQG-GSIINTSSFSGQAADLYRSGYNAAKGAVINFTKSIAIEY---GRDG-IRAN 180
Query: 189 SIFPFMVDTGL 199
+I P ++T L
Sbjct: 181 AIAPGTIETPL 191
>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 = 32.0 bits (73), Expect = 0.40
Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 4/70 (5%)
Query: 130 PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTS 189
PD + I+ ++S+ + PN YC SK + LA L ++ I
Sbjct: 131 PDRFDGPHRSIIFVTSINAYLVSPNRGEYCISKAGLSMATRLLAYRLADEG----IAVHE 186
Query: 190 IFPFMVDTGL 199
I P ++ T +
Sbjct: 187 IRPGLIHTDM 196
>gnl|CDD|236508 PRK09426, PRK09426, methylmalonyl-CoA mutase; Reviewed.
Length = 714
Score = 32.5 bits (75), Expect = 0.40
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 11/45 (24%)
Query: 135 KNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
+N H+VG+SS+A G LVP L+EAL + RED
Sbjct: 631 ENDVHVVGVSSLAA--GHKTLVP---------ALIEALKKLGRED 664
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 31.7 bits (72), Expect = 0.41
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALA 173
+P M+++++G I+ I+S+ N Y SK AV GL ++A
Sbjct: 115 IPYMLKQDKGVIINIASVQSFAVTRNAAAYVTSKHAVLGLTRSIA 159
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 31.7 bits (72), Expect = 0.42
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 3/61 (4%)
Query: 117 NLKNLQIILETFLPDMMEKNRGHIVGISSMAGI-VGLPNLVPYCASKFAVRGLMEALAEE 175
++K + L + E + IV +SSM+GI P+ + Y +K + +E LA E
Sbjct: 110 HIKIPLYAVNASLRFLKEGSS--IVLVSSMSGIYKASPDQLSYAVAKAGLAKAVEILASE 167
Query: 176 L 176
L
Sbjct: 168 L 168
>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 = 31.5 bits (72), Expect = 0.55
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 134 EKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPF 193
RG I+ +S+A G Y ASK + G+ +A +L A I+ +I P
Sbjct: 135 GGERGVIINTASVAAFEGQIGQAAYSASKGGIVGMTLPIARDL---AP-QGIRVVTIAPG 190
Query: 194 MVDTGL 199
+ DT L
Sbjct: 191 LFDTPL 196
>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 = 31.1 bits (71), Expect = 0.61
Identities = 29/115 (25%), Positives = 41/115 (35%), Gaps = 16/115 (13%)
Query: 63 LPRGFGAFPVLEVLDLTYNNLNEQSLPGNFFMLETLRALYLGDNDFEVLPAEIG-NLKNL 121
+ F AF +VL +N S F L G + G NLK
Sbjct: 69 VAAAFRAFGRCDVL------VNNASA----FYPTPL-----GQGSEDAWAELFGINLKAP 113
Query: 122 QIILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
++++ F + G I+ I L YC SK A+ GL + A EL
Sbjct: 114 YLLIQAFARRLAGSRNGSIINIIDAMTDRPLTGYFAYCMSKAALEGLTRSAALEL 168
>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 = 31.2 bits (71), Expect = 0.74
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
LP + G ++ S AG Y ASK AV GL++ LA EL
Sbjct: 126 LPALY-ATEGSVIFTVSNAGFYPGGGGPLYTASKHAVVGLVKQLAYEL 172
>gnl|CDD|215209 PLN02369, PLN02369, ribose-phosphate pyrophosphokinase.
Length = 302
Score = 30.8 bits (70), Expect = 0.84
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 287 ISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALM 330
I++ A+G Y SV RGCD V + P CPP E LM
Sbjct: 18 ITIKRFADGEIYVQLQESV-RGCD----VFLVQPTCPPANENLM 56
>gnl|CDD|187561 cd05251, NmrA_like_SDR_a, NmrA (a transcriptional regulator) and
HSCARG (an NADPH sensor) like proteins, atypical (a)
SDRs. NmrA and HSCARG like proteins. NmrA is a negative
transcriptional regulator of various fungi, involved in
the post-translational modulation of the GATA-type
transcription factor AreA. NmrA lacks the canonical
GXXGXXG NAD-binding motif and has altered residues at
the catalytic triad, including a Met instead of the
critical Tyr residue. NmrA may bind nucleotides but
appears to lack any dehydrogenase activity. HSCARG has
been identified as a putative NADP-sensing molecule, and
redistributes and restructures in response to NADPH/NADP
ratios. Like NmrA, it lacks most of the active site
residues of the SDR family, but has an NAD(P)-binding
motif similar to the extended SDR family, GXXGXXG. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Atypical SDRs
are distinct from classical SDRs. Classical SDRs have an
TGXXX[AG]XG cofactor binding motif and a YXXXK active
site motif, with the Tyr residue of the active site
motif serving as a critical catalytic residue (Tyr-151,
human 15-hydroxyprostaglandin dehydrogenase numbering).
In addition to the Tyr and Lys, there is often an
upstream Ser and/or an Asn, contributing to the active
site; while substrate binding is in the C-terminal
region, which determines specificity. The standard
reaction mechanism is a 4-pro-S hydride transfer and
proton relay involving the conserved Tyr and Lys, a
water molecule stabilized by Asn, and nicotinamide. In
addition to the Rossmann fold core region typical of all
SDRs, extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P)-binding
motif and an altered active site motif (YXXXN). Fungal
type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif.
Length = 242
Score = 30.7 bits (70), Expect = 0.84
Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 16/59 (27%)
Query: 139 HIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDA-RNSKIKFTSIFP--FM 194
H V SS+ + L VP+ SK V E+ R S + T + P FM
Sbjct: 101 HFV-FSSVPDVEKLTLAVPHFDSKAEV------------EEYIRASGLPATILRPAFFM 146
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 30.8 bits (70), Expect = 0.87
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 4/61 (6%)
Query: 137 RGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVD 196
+G+I+ +SS+ + P V Y ASK V+ + E LA E I+ +I P ++
Sbjct: 137 KGNIINMSSVHEQIPWPLFVHYAASKGGVKLMTETLAMEY----APKGIRVNNIGPGAIN 192
Query: 197 T 197
T
Sbjct: 193 T 193
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 30.7 bits (70), Expect = 0.89
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 137 RGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVD 196
G IV I S++G P Y A+K + L +LA E K++ ++ +V
Sbjct: 127 GGSIVNIGSVSGRRPSPGTAAYGAAKAGLLNLTRSLAVEW-----APKVRVNAVVVGLVR 181
Query: 197 T 197
T
Sbjct: 182 T 182
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 30.7 bits (70), Expect = 0.99
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 140 IVGISSMAGIVGLPNLVPYCASK----FAVRGLMEALAEE 175
IV +SS+ I+ PN YC SK A + LAEE
Sbjct: 142 IVFVSSVNAIMVSPNRGEYCISKAGLSMAAQLFAARLAEE 181
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 30.6 bits (69), Expect = 1.0
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 138 GHIVGISSMAGIVGLP-NLVPYCASKFAVRGLMEALAEEL 176
G IV +SS A +G P V Y ASK A+ L L+ E+
Sbjct: 135 GAIVNVSSAASRLGAPGEYVDYAASKGAIDTLTTGLSLEV 174
>gnl|CDD|187647 cd08943, R1PA_ADH_SDR_c, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase, classical (c) SDRs. This family has
bifunctional proteins with an N-terminal aldolase and a
C-terminal classical SDR domain. One member is
identified as a rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase. The SDR domain has a canonical SDR
glycine-rich NAD(P) binding motif and a match to the
characteristic active site triad. However, it lacks an
upstream active site Asn typical of SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 30.4 bits (69), Expect = 1.0
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRED 179
G+IV +S + PN Y A+K A L LA E ED
Sbjct: 130 GNIVFNASKNAVAPGPNAAAYSAAKAAEAHLARCLALEGGED 171
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 30.4 bits (69), Expect = 1.1
Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 16/72 (22%)
Query: 116 GNLKNLQIILETFLPDMMEKNRGHIVGISSMAGIVGLPNL-----VP---YCASKFAVRG 167
G++K ++ LP M E+ G I+ I + NL VP Y +K A+ G
Sbjct: 117 GSVKGALNTIQAALPGMREQGFGRIINIGT--------NLFQNPVVPYHDYTTAKAALLG 168
Query: 168 LMEALAEELRED 179
L LA EL
Sbjct: 169 LTRNLAAELGPY 180
>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 = 30.3 bits (68), Expect = 1.2
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 140 IVGISSMAGIVGLPNLVPYCASKFAVRGLMEALA-EELREDAR 181
+V ISS+ I YCA K A L + LA EE + R
Sbjct: 146 VVNISSLCAIQPFKGWALYCAGKAARDMLFQVLALEEKNPNVR 188
>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in
mRNA processing and transport [Signal transduction
mechanisms / RNA processing and modification].
Length = 388
Score = 30.3 bits (68), Expect = 1.6
Identities = 36/162 (22%), Positives = 59/162 (36%), Gaps = 30/162 (18%)
Query: 7 ITLSHNKLK-EIPPGLANL----VNLEILTLFNNQI-----ETLPTSLSSL--------- 47
+ LS N E P L +L +L L L NN + + +L L
Sbjct: 97 VDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADK 156
Query: 48 PKLRILNLGMNRLSSLPR-----GFGAFPVLEVLDLTYNNLNEQSLPG----NFFMLETL 98
PKL ++ G NRL + + + L+ + + N + + + F +L
Sbjct: 157 PKLEVVICGRNRLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSL 216
Query: 99 RALYLGDNDFEVLPAEI--GNLKNLQIILETFLPDMMEKNRG 138
L L DN F + + L ++ E L D + N G
Sbjct: 217 EVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLSNEG 258
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 29.8 bits (67), Expect = 1.7
Identities = 15/53 (28%), Positives = 27/53 (50%)
Query: 124 ILETFLPDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEEL 176
+ +P M K G I+ +S+A +PN+ + ++ GL+ LA+EL
Sbjct: 123 LTRALVPAMERKGFGRIIYSTSVAIKEPIPNIALSNVVRISMAGLVRTLAKEL 175
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 30.1 bits (68), Expect = 1.7
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 128 FLPDMMEKNRGHIVGISS---MAGIVGLPNLVPYCASKFAVRGLMEALAEELRE 178
P M+E+ GHI+ +++ ++ P Y ASK A+ + + E +
Sbjct: 161 LAPGMLERGDGHIINVATWGVLSEAS--PLFSVYNASKAALSAVSRVIETEWGD 212
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 29.8 bits (67), Expect = 1.9
Identities = 15/40 (37%), Positives = 20/40 (50%)
Query: 136 NRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEE 175
N G I+ I+SM G + Y ASK V G+ +A E
Sbjct: 136 NGGKIINIASMLSFQGGIRVPSYTASKSGVMGVTRLMANE 175
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 29.8 bits (67), Expect = 2.2
Identities = 14/41 (34%), Positives = 18/41 (43%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELRE 178
G+IV I+S + N Y A+K A L LA E
Sbjct: 546 GNIVFIASKNAVYAGKNASAYSAAKAAEAHLARCLAAEGGT 586
>gnl|CDD|181162 PRK07904, PRK07904, short chain dehydrogenase; Provisional.
Length = 253
Score = 29.3 bits (66), Expect = 2.4
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 132 MMEKNRGHIVGISSMAG-IVGLPNLVPYCASKFAVRGLMEALAEELRE 178
M + G I+ +SS+AG V N V Y ++K + G L E LRE
Sbjct: 133 MRAQGFGQIIAMSSVAGERVRRSNFV-YGSTKAGLDGFYLGLGEALRE 179
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 29.4 bits (66), Expect = 2.5
Identities = 26/88 (29%), Positives = 40/88 (45%), Gaps = 7/88 (7%)
Query: 130 PDMMEKNRGHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTS 189
P+M + G I+ I+SMA N+ Y +SK A L+ +A +L E I+
Sbjct: 131 PEMEKNGGGVILTITSMAAENKNINMTSYASSKAAASHLVRNMAFDLGE----KNIRVNG 186
Query: 190 IFPFMVDTGLCKN---PKIKMNRLSSLP 214
I P + T K+ P+I+ L P
Sbjct: 187 IAPGAILTDALKSVITPEIEQKMLQHTP 214
>gnl|CDD|216259 pfam01039, Carboxyl_trans, Carboxyl transferase domain. All of the
members in this family are biotin dependent
carboxylases. The carboxyl transferase domain carries
out the following reaction; transcarboxylation from
biotin to an acceptor molecule. There are two recognised
types of carboxyl transferase. One of them uses acyl-CoA
and the other uses 2-oxoacid as the acceptor molecule of
carbon dioxide. All of the members in this family
utilise acyl-CoA as the acceptor molecule.
Length = 487
Score = 29.5 bits (67), Expect = 2.6
Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 11/46 (23%)
Query: 289 MGSCANGGGYYHYSYSVVRGCDRIIPVD----IYVPGCPPTAEALM 330
G CA GG Y D II V +++ G P + +
Sbjct: 137 TGPCAGGGAY------SPALGDFIIMVKGTSPMFLTG-PDVVKKVT 175
>gnl|CDD|201305 pfam00560, LRR_1, Leucine Rich Repeat. CAUTION: This Pfam may
not find all Leucine Rich Repeats in a protein. Leucine
Rich Repeats are short sequence motifs present in a
number of proteins with diverse functions and cellular
locations. These repeats are usually involved in
protein-protein interactions. Each Leucine Rich Repeat
is composed of a beta-alpha unit. These units form
elongated non-globular structures. Leucine Rich Repeats
are often flanked by cysteine rich domains.
Length = 22
Score = 26.0 bits (58), Expect = 2.7
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 26 NLEILTLFNNQIETLPTSLSSL 47
NLE L L NN + +LP SL +L
Sbjct: 1 NLEELDLSNNNLSSLPPSLGNL 22
Score = 24.8 bits (55), Expect = 6.6
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 4 ITRITLSHNKLKEIPPGLANL 24
+ + LS+N L +PP L NL
Sbjct: 2 LEELDLSNNNLSSLPPSLGNL 22
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 29.4 bits (66), Expect = 2.8
Identities = 22/62 (35%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 138 GHIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPFMVDT 197
G VGISS+A Y +K AV LM+ A+EL S ++ SI P ++ T
Sbjct: 139 GSFVGISSIAASNTHRWFGAYGVTKSAVDHLMKLAADELGP----SWVRVNSIRPGLIRT 194
Query: 198 GL 199
L
Sbjct: 195 DL 196
>gnl|CDD|153281 cd07597, BAR_SNX8, The Bin/Amphiphysin/Rvs (BAR) domain of
Sorting Nexin 8. BAR domains are dimerization, lipid
binding and curvature sensing modules found in many
different proteins with diverse functions. Sorting
nexins (SNXs) are Phox homology (PX) domain containing
proteins that are involved in regulating membrane
traffic and protein sorting in the endosomal system.
SNXs differ from each other in their lipid-binding
specificity, subcellular localization and specific
function in the endocytic pathway. A subset of SNXs
also contain BAR domains. The PX-BAR structural unit
determines the specific membrane targeting of SNXs.
SNX8 and the yeast counterpart Mvp1p are involved in
sorting and delivery of late-Golgi proteins, such as
carboxypeptidase Y, to vacuoles. BAR domains form
dimers that bind to membranes, induce membrane bending
and curvature, and may also be involved in
protein-protein interactions.
Length = 246
Score = 29.2 bits (66), Expect = 3.3
Identities = 10/39 (25%), Positives = 17/39 (43%)
Query: 15 KEIPPGLANLVNLEILTLFNNQIETLPTSLSSLPKLRIL 53
K++ L+ + + N E + L S KLR+L
Sbjct: 6 KKLSEAAKVLLPPDFQEQWANSRERIRRLLESWTKLRVL 44
>gnl|CDD|227136 COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase
component (subunits alpha and beta) [Lipid metabolism].
Length = 526
Score = 29.5 bits (67), Expect = 3.4
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 11/44 (25%)
Query: 289 MGSCANGGGYYHYSYSVVRGCDRIIPVD----IYVPGCPPTAEA 328
MG CA GG Y D +I V +++ G PP +A
Sbjct: 171 MGPCAGGGAY------SPALTDFVIMVRDQSYMFLTG-PPVIKA 207
>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 = 29.1 bits (66), Expect = 3.4
Identities = 20/85 (23%), Positives = 29/85 (34%), Gaps = 18/85 (21%)
Query: 129 LPDMMEKNRGHIVGISSMAGIVG-----LPNLVP---------YCASKFAVRGLMEALAE 174
LP + IV +SS+A G +L Y SK A L
Sbjct: 121 LPVLKASAPSRIVNVSSIAHRAGPIDFNDLDLENNKEYSPYKAYGQSKLAN-ILF---TR 176
Query: 175 ELREDARNSKIKFTSIFPFMVDTGL 199
EL + + ++ P +V T L
Sbjct: 177 ELARRLEGTGVTVNALHPGVVRTEL 201
>gnl|CDD|236306 PRK08583, PRK08583, RNA polymerase sigma factor SigB; Validated.
Length = 257
Score = 28.9 bits (65), Expect = 3.4
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 122 QIILETFLPDMMEKNRGHIVGISSM 146
II TF+ ++ +K G +GIS M
Sbjct: 212 SIIQCTFIENLSQKETGERLGISQM 236
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 28.6 bits (64), Expect = 4.4
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 7/70 (10%)
Query: 135 KNRGHIVGISSMAG-IVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSIFPF 193
G I+ I S+ G + + + Y ASK A++G+ LA + I + P
Sbjct: 122 PEGGRIIIIGSVNGDRMPVAGMAAYAASKSALQGMARGLARDFGP----RGITINVVQPG 177
Query: 194 MVDTGLCKNP 203
+DT NP
Sbjct: 178 PIDTDA--NP 185
>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in two-component
regulatory system with EvgA; Provisional.
Length = 1197
Score = 28.5 bits (63), Expect = 6.9
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 20 GLANLVNLEILTLFNNQIETLPTSLSSLPK-LRILNLGMNRLSSLPRGFGAF 70
G AN++NL+ L ++Q+E P S S P+ L++LN ++ L + F
Sbjct: 1141 GAANILNLQKLINISHQLEITPVSDDSKPEILQLLNSVKEHIAELDQEIAVF 1192
>gnl|CDD|187657 cd08954, KR_1_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 1, complex (x) SDRs.
NADP-dependent KR domain of the multidomain type I FAS,
a complex SDR family. This subfamily also includes
proteins identified as polyketide synthase (PKS), a
protein with related modular protein architecture and
similar function. It includes the KR domains of
mammalian and chicken FAS, and Dictyostelium discoideum
putative polyketide synthases (PKSs). These KR domains
contain two subdomains, each of which is related to SDR
Rossmann fold domains. However, while the C-terminal
subdomain has an active site similar to the other SDRs
and a NADP-binding capability, the N-terminal SDR-like
subdomain is truncated and lacks these functions,
serving a supportive structural role. In some instances,
such as porcine FAS, an enoyl reductase (a Rossman fold
NAD-binding domain of the medium-chain
dehydrogenase/reductase, MDR family) module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses 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-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER);
this KR and ER are members of the SDR family. This KR
subfamily has an active site tetrad with a similar 3D
orientation compared to archetypical SDRs, but the
active site Lys and Asn residue positions are swapped.
The characteristic NADP-binding is typical of the
multidomain complex SDRs, with a GGXGXXG NADP 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
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 = 452
Score = 28.2 bits (63), Expect = 8.3
Identities = 20/111 (18%), Positives = 37/111 (33%), Gaps = 14/111 (12%)
Query: 139 HIVGISSMAGIVGLPNLVPYCASKFAVRGLMEALAEELREDARNSKIKFTSI-FPFMVDT 197
+ V SS++ I G Y + +++L+ + S +I + + D
Sbjct: 352 YFVLFSSVSSIRGSAGQCNYVCANSV----LDSLSRYRKSIGLPS----IAINWGAIGDV 403
Query: 198 GLCKNPKIKMNRLSSLPRGFGAFPVLEAFSFTTILDLTYNNLNEQSLPGNF 248
G + +L G G S LDL N + + +F
Sbjct: 404 GFVSR----NESVDTLLGGQG-LLPQSINSCLGTLDLFLQNPSPNLVLSSF 449
>gnl|CDD|146805 pfam04358, DsrC, DsrC like protein. Family member dsvC has been
observed to co-purify with Desulfovibrio vulgaris
dissimilatory sulfite reductase, and many members of
this family are annotated as the third (gamma) subunit
of dissimilatory sulphite reductase. However, this
protein appears to be only loosely associated to the
sulfite reductase, which suggests that DsrC may not be
an integral part of the dissimilatory sulphite
reductase. Members of this family are found in organisms
such as E. coli and H. influenzae which do not contain
dissimilatory sulphite reductases but can synthesise
assimilatory sirohaem sulphite and nitrite reductases.
It is speculated that DsrC may be involved in the
assembly, folding or stabilisation of sirohaem proteins.
The strictly conserved cysteine in the C terminus
suggests that DsrC may have a catalytic function in the
metabolism of sulphur compounds.
Length = 109
Score = 26.8 bits (60), Expect = 8.9
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 9/52 (17%)
Query: 164 AVRGLMEALAEELREDARNSKIKFTSIFPFMVDTGLCKNPKIKMNRLSSLPR 215
A+R L++AL ++L ED NSK +FP P + +++ LP+
Sbjct: 62 AIRMLVKALGKKLGEDKGNSK-YLYQLFP--------GGPAKQACKIAGLPK 104
>gnl|CDD|226537 COG4051, COG4051, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 202
Score = 27.5 bits (61), Expect = 9.6
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 97 TLRALYLGD-NDFEVLPAEIGNLKNLQIILETFLPDMMEK 135
T R + L D + E E G +K L I ET+LP+++ K
Sbjct: 60 TGRPVTLIDIAEVEADKVE-GEVK-LSIKDETYLPELLVK 97
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.141 0.417
Gapped
Lambda K H
0.267 0.0925 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,489,815
Number of extensions: 1820988
Number of successful extensions: 1922
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1812
Number of HSP's successfully gapped: 285
Length of query: 352
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 254
Effective length of database: 6,590,910
Effective search space: 1674091140
Effective search space used: 1674091140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.2 bits)